Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold194
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: 3945165
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1023 characters in sequence are not A, C, G, or T
File 13 of 24
Found at i:2127225 original size:28 final size:28
Alignment explanation
Indices: 2127192--2127255 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
2127182 ACTGAGTTTA
*
2127192 GAGTATCCTCAT-GAAAATAATAGGGTTG
1 GAGTATCCTC-TCAAAAATAATAGGGTTG
*
2127220 GAGTATCCTCTCAAAAATAATAGGTTTG
1 GAGTATCCTCTCAAAAATAATAGGGTTG
*
2127248 CAGTATCC
1 GAGTATCC
2127256 CCGAGATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (28 bp):
GAGTATCCTCTCAAAAATAATAGGGTTG
Found at i:2129689 original size:20 final size:20
Alignment explanation
Indices: 2129664--2129715 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2129654 ATCGATACAT
2129664 TATCGATACAATGAGAAATG
1 TATCGATACAATGAGAAATG
2129684 TATCGATACAATGAGAAATG
1 TATCGATACAATGAGAAATG
*
2129704 TATTGATACAAT
1 TATCGATACAAT
2129716 TATAAGCATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (20 bp):
TATCGATACAATGAGAAATG
Found at i:2129828 original size:20 final size:21
Alignment explanation
Indices: 2129803--2129856 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
2129793 CATTTTAGGC
*
2129803 ATGTATCGATACATTCACT-T
1 ATGTATAGATACATTCACTAT
* * *
2129823 ATGTATTGATAAATTTACTAT
1 ATGTATAGATACATTCACTAT
*
2129844 TTGTATAGATACA
1 ATGTATAGATACA
2129857 AATGTAGAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (21 bp):
ATGTATAGATACATTCACTAT
Found at i:2133100 original size:19 final size:19
Alignment explanation
Indices: 2133076--2133116 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2133066 CTCTTCTTTC
*
2133076 AAAAGAAAGA-AAAAATGGA
1 AAAAGAAA-ACAAAAATAGA
2133095 AAAAGAAAACAAAAATAGA
1 AAAAGAAAACAAAAATAGA
2133114 AAA
1 AAA
2133117 CAAGAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.78, C:0.02, G:0.15, T:0.05
Consensus pattern (19 bp):
AAAAGAAAACAAAAATAGA
Found at i:2135114 original size:20 final size:19
Alignment explanation
Indices: 2135091--2135148 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
2135081 ATCATTAATC
*
2135091 TTAATTTTAATCTTATTTTT
1 TTAATTTT-ATATTATTTTT
* *
2135111 TTAATTTTGGATTTTATTATT
1 TTAATTTT--ATATTATTTTT
2135132 TT-ATTTTATATTATTTT
1 TTAATTTTATATTATTTT
2135149 ATTCTTAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 8 0.25
20 13 0.41
21 11 0.34
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (19 bp):
TTAATTTTATATTATTTTT
Found at i:2137332 original size:13 final size:13
Alignment explanation
Indices: 2137314--2137338 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2137304 ACATAAGTGT
2137314 TGTATCGATACAA
1 TGTATCGATACAA
2137327 TGTATCGATACA
1 TGTATCGATACA
2137339 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2137338 original size:32 final size:32
Alignment explanation
Indices: 2137295--2137357 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2137285 AAACAGTAAC
2137295 TGTATCAATACATAAGTGTTGTATCGATACAA
1 TGTATCAATACATAAGTGTTGTATCGATACAA
*
2137327 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCAATACATAAGTGTTGTATCGATACA
2137358 TAAGTGTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCAATACATAAGTGTTGTATCGATACAA
Found at i:2137358 original size:51 final size:51
Alignment explanation
Indices: 2137295--2137408 Score: 219
Period size: 51 Copynumber: 2.2 Consensus size: 51
2137285 AAACAGTAAC
*
2137295 TGTATCAATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGT
2137346 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGT
2137397 TGTATCGATACA
1 TGTATCGATACA
2137409 ATGTATCGAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (51 bp):
TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGT
Found at i:2137382 original size:32 final size:32
Alignment explanation
Indices: 2137346--2137480 Score: 261
Period size: 32 Copynumber: 4.2 Consensus size: 32
2137336 ACATAAGTGT
2137346 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2137378 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2137410 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2137442 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2137474 TGTATCG
1 TGTATCG
2137481 CTATGAAGCT
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 102 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2137383 original size:13 final size:13
Alignment explanation
Indices: 2137365--2137453 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
2137355 ACATAAGTGT
2137365 TGTATCGATACAA
1 TGTATCGATACAA
2137378 TGTATCGATACATAA
1 TGTATCGATAC--AA
2137393 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2137410 TGTATCGATACATAA
1 TGTATCGATAC--AA
2137425 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
2137442 TGTATCGATACA
1 TGTATCGATACA
2137454 TAAGTTTTGT
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 34 0.53
15 4 0.06
17 4 0.06
19 22 0.34
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2137440 original size:51 final size:47
Alignment explanation
Indices: 2137314--2137421 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 47
2137304 ACATAAGTGT
2137314 TGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACATAAGTG
1 TGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACA-AA--G
2137364 TTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATAC-AA-
1 -TGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACAAAG
2137410 TGTATCGATACA
1 TGTATCGATACA
2137422 TAAGTGTTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
45 12 0.21
49 2 0.04
51 43 0.75
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (47 bp):
TGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACAAAG
Found at i:2137472 original size:83 final size:79
Alignment explanation
Indices: 2137295--2137453 Score: 259
Period size: 83 Copynumber: 2.0 Consensus size: 79
2137285 AAACAGTAAC
*
2137295 TGTATCAATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACATA
1 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACA-A
2137360 AGTGTTGTATCGATACAA
65 A--G-TGTATCGATACAA
2137378 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATAC-AA
1 TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACAAA
2137442 -TGTATCGATACA
66 GTGTATCGATACA
2137454 TAAGTTTTGT
Statistics
Matches: 75, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
77 12 0.16
81 2 0.03
83 61 0.81
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (79 bp):
TGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTATCGATACAAA
GTGTATCGATACAA
Found at i:2137542 original size:13 final size:13
Alignment explanation
Indices: 2137524--2137551 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2137514 CATTACTCAA
2137524 TGTATCGATACAT
1 TGTATCGATACAT
2137537 TGTATCGATACAT
1 TGTATCGATACAT
2137550 TG
1 TG
2137552 ATCTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2137613 original size:20 final size:21
Alignment explanation
Indices: 2137580--2137622 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
2137570 TCTGAAAATT
2137580 TTACCCAGATGTATCGATACA
1 TTACCCAGATGTATCGATACA
2137601 TTACCCA-ATGTATCGATACA
1 TTACCCAGATGTATCGATACA
2137621 TT
1 TT
2137623 CAGGCATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (21 bp):
TTACCCAGATGTATCGATACA
Found at i:2140047 original size:76 final size:76
Alignment explanation
Indices: 2139921--2140105 Score: 298
Period size: 76 Copynumber: 2.4 Consensus size: 76
2139911 TTTTCATCTC
*
2139921 GGGGATACTCCAACCTCAGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
1 GGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
2139986 ATTATTTTCGA
66 ATTATTTTCGA
* * *
2139997 GGGGATACTCAAACCCCGGTTTTATTTCTAAAACATTAATTTTTCATCGGGGATACTCCAACCCC
1 GGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
*
2140062 GTTATTTTCGA
66 ATTATTTTCGA
** *
2140073 GGGGATACTCCAACCTCGACTTTATATCTAAAA
1 GGGGATACTCCAACCTCGGTTTTATTTCTAAAA
2140106 AAATTGTTTT
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 99 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (76 bp):
GGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCC
ATTATTTTCGA
Found at i:2140240 original size:51 final size:51
Alignment explanation
Indices: 2140183--2140301 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
2140173 TTATTTTTGA
* * *
2140183 GGGGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTCTCACAATC
* * *
2140234 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATT
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTCTCACAATC
2140285 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
2140302 GCTATTTTCG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTCTCACAATC
Found at i:2140320 original size:28 final size:28
Alignment explanation
Indices: 2140289--2140358 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
2140279 ACAATTGGGG
*
2140289 ATACTCCAACCCCGCTATTTTCGCGGGA
1 ATACTCCAACCCCGCTATTTTCGCAGGA
2140317 ATACTCCAACCCCGCTATTTTCGCAGGA
1 ATACTCCAACCCCGCTATTTTCGCAGGA
*
2140345 ATACTCTAACCCCG
1 ATACTCCAACCCCG
2140359 ATTTTATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.24, C:0.37, G:0.14, T:0.24
Consensus pattern (28 bp):
ATACTCCAACCCCGCTATTTTCGCAGGA
Found at i:2142287 original size:53 final size:51
Alignment explanation
Indices: 2142216--2142438 Score: 200
Period size: 52 Copynumber: 4.3 Consensus size: 51
2142206 GAAATAACGA
** * *
2142216 GGTTGGAGTATCATCGATTGTGAAAAAATTAGTGTTTTTGGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATT-TGAAAAAATTAGTG-TTTTAGAAATAAAATCGG
* * * * *
2142269 AGCTGGAGTATCCCCGA-TTAAAGGAAAATTGGTGTTTTAAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTTGAA--AAAATTAGTGTTTTAGAAATAAAATCGG
* * *
2142321 GGTTGAAGTATCCCCGATTATGGAAAAATTAGTGTTTTAGCAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-TGAAAAAATTAGTGTTTTAGAAATAAAATCGG
* * * * * *
2142373 GGTTGGAGTATCCCCGATTATG-AGAAATCAATATTTTA-AGAATAAAGTAGG
1 GGTTGGAGTATCCCCGATT-TGAAAAAATTAGTGTTTTAGA-AATAAAATCGG
2142424 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
2142439 TCAGAAATAA
Statistics
Matches: 140, Mismatches: 25, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
51 39 0.28
52 76 0.54
53 23 0.16
54 2 0.01
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTTGAAAAAATTAGTGTTTTAGAAATAAAATCGG
Found at i:2142335 original size:52 final size:53
Alignment explanation
Indices: 2142239--2142438 Score: 201
Period size: 52 Copynumber: 3.8 Consensus size: 53
2142229 TCGATTGTGA
** * * *
2142239 AAAAATTAGTGTTTTTGGAAATAAAATTGGAGCTGGAGTATCCCCGATTAAAGG
1 AAAAATTAGTG-TTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGATTAAAGG
* * *
2142293 -AAAATTGGTGTTTTAAAAATAAAATCGGGGTTGAAGTATCCCCGATT-ATGG
1 AAAAATTAGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGATTAAAGG
** *
2142344 AAAAATTAGTGTTTTAGCAATAAAATCGGGGTTGGAGTATCCCCGATT--ATG
1 AAAAATTAGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGATTAAAGG
* * * * * * *
2142395 AGAAATCAATATTTTAAGAATAAAGTAGGGGTTGGAGTATCCCC
1 AAAAATTAGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCC
2142439 TCAGAAATAA
Statistics
Matches: 123, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
51 40 0.33
52 74 0.60
53 9 0.07
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.30
Consensus pattern (53 bp):
AAAAATTAGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGATTAAAGG
Found at i:2142484 original size:27 final size:28
Alignment explanation
Indices: 2142422--2142496 Score: 109
Period size: 27 Copynumber: 2.7 Consensus size: 28
2142412 GAATAAAGTA
*
2142422 GGGGTTGGAGTATCCCCTCA-GAAATAAC
1 GGGGTTGGAGTATCCCC-GATGAAATAAC
*
2142450 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
2142477 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
2142497 TGTGAAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 26 0.59
28 18 0.41
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:2142567 original size:54 final size:50
Alignment explanation
Indices: 2142480--2142602 Score: 158
Period size: 50 Copynumber: 2.4 Consensus size: 50
2142470 GATTAACGGG
* *
2142480 GTTGGAGTATCCCCGATTGTGAAAATTTTGTGTTTTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAATTTAGTG---TTTTGAAAAT-AAATCGGA
2142534 GTTGGAGTATCCCCGATTATAGAAAA-TTAGTGTTTTGAAAATAAATCGGA
1 GTTGGAGTATCCCCGATTAT-GAAAATTTAGTGTTTTGAAAATAAATCGGA
* *
2142584 GATGGAATATCCCCGATTA
1 GTTGGAGTATCCCCGATTA
2142603 CGGAGAAGTG
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
50 25 0.39
51 10 0.16
54 24 0.38
55 5 0.08
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAATTTAGTGTTTTGAAAATAAATCGGA
Found at i:2144976 original size:13 final size:13
Alignment explanation
Indices: 2144958--2144983 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2144948 ACAAGGATCC
2144958 ATGTATCGATACA
1 ATGTATCGATACA
2144971 ATGTATCGATACA
1 ATGTATCGATACA
2144984 TAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2145047 original size:19 final size:18
Alignment explanation
Indices: 2145023--2145090 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
2145013 CAGTAGCTAA
2145023 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
2145042 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
2145057 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
2145074 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
2145091 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:2145063 original size:13 final size:13
Alignment explanation
Indices: 2145045--2145069 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2145035 ACAATACTTA
2145045 TGTATCGATACAT
1 TGTATCGATACAT
2145058 TGTATCGATACA
1 TGTATCGATACA
2145070 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2145067 original size:32 final size:32
Alignment explanation
Indices: 2145026--2145088 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2145016 TAGCTAATTA
*
2145026 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
2145058 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
2145089 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:2145973 original size:55 final size:55
Alignment explanation
Indices: 2145889--2146835 Score: 1003
Period size: 55 Copynumber: 16.8 Consensus size: 55
2145879 AAAGTGTATT
* * **
2145889 CTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATC
1 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
*
2145944 CTGCTCTTTGAGGACT-AAAAGGTACCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACTGAAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTC
*
2145999 CTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* * * * *
2146054 CTGCTCTTCGAGGACTG-AAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTC
1 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTC
*
2146113 CCGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTC
2146168 CTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* * * * *
2146223 CTGCTCTTTGAGGACTG-GAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTC
1 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTC
*
2146282 CCGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTC
* * * * * **
2146337 ATGCTCTTTGAGGACTG-GAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCATC
1 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTC
* *
2146396 CCGCCCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTC
2146451 CTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* *
2146506 CTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTAGGCTTTGAAAGGAGAAGGCGTC
1 CTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTGTC
** * * *
2146567 CTGCTCTTTGAGGACTGGGAAGCGCCACCAACTTGTGTGGGCTATAAAAGGAGAAGGCGTC
1 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCT-T----TGA-AAGGTGTC
* * *
2146628 CTGCTCTTTGGGGAC-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTC
1 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
*
2146682 CTGTTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* * * * *
2146737 CTGCTCGTTGAGGACTG-GAGGATGCCACCAACTTGTGTGGGCTTTAAAAGGCGTC
1 CTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* *
2146792 CTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGAGCTTT
1 CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
2146836 AAAAAGAAAA
Statistics
Matches: 765, Mismatches: 77, Indels: 101
0.81 0.08 0.11
Matches are distributed among these distances:
53 3 0.00
54 121 0.16
55 393 0.51
56 14 0.02
58 2 0.00
59 64 0.08
60 96 0.13
61 71 0.09
62 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (55 bp):
CTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
Found at i:2146149 original size:114 final size:112
Alignment explanation
Indices: 2145889--2146835 Score: 1067
Period size: 114 Copynumber: 8.4 Consensus size: 112
2145879 AAAGTGTATT
* * *
2145889 CTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATCCTGCTCTTT
1 CTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTT
*
2145953 GAGGACT--AAAAGGTACCACCAACTTGTGTGGGCTTTAAG--AGGTGTC
65 GAGGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTAAGAAAGGTGTC
* * *
2145999 CTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTCG
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
** * * *
2146064 AGGACT-GAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTC
66 AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAG-AAAGGTGTC
* *
2146113 CCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTT
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCGTCCTGCTCTTT
2146177 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--GAAAGGTGTC
65 GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAAGGTGTC
** * * *
2146223 CTGCTCTTTGAGGACTGG-AGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCT
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCCTGCT
2146287 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAG--AGGTGTC
61 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAAGGTGTC
* ** * * * * *
2146337 ATGCTCTTTGAGGACTGG-AGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCATCCCGCC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCGTCCTGCT
2146401 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAG--AGGTGTC
61 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAAGGTGTC
*
2146451 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTG
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
* *
2146516 AGGACTGGAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGAGAAGGCGTC
66 AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AA-GA-AAGGTGTC
* ** *
2146567 CTGCTCTTTGAGGACTGGGAAGCGCCACCAACTTGTGTGGGCTATAAAAGGAGAAGGCGTCCTGC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCT-T----TGA-AAGGCGTCCTGC
* * *
2146632 TCTTTGGGGAC--GAAAGGTGCCACCAACTTGTGTGGGCTTT--GAGAGGTGTC
60 TCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAAAGGTGTC
* * *
2146682 CTGTTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCGTTG
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
** *
2146747 AGGACTGGAGGATGCCACCAACTTGTGTGGGCTTT-A-AAAGGCGTC
66 AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAAGGTGTC
* *
2146792 CTGCTCTTTGAGGACT--AAAGGTGCCACCAACTTGTGTGAGCTTT
1 CTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT
2146836 AAAAAGAAAA
Statistics
Matches: 737, Mismatches: 65, Indels: 71
0.84 0.07 0.08
Matches are distributed among these distances:
108 3 0.00
109 84 0.11
110 182 0.25
111 14 0.02
112 2 0.00
113 3 0.00
114 257 0.35
115 93 0.13
116 49 0.07
117 1 0.00
120 4 0.01
121 24 0.03
122 21 0.03
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (112 bp):
CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTG
AGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAAAGGTGTC
Found at i:2146164 original size:169 final size:167
Alignment explanation
Indices: 2145889--2146837 Score: 1178
Period size: 169 Copynumber: 5.6 Consensus size: 167
2145879 AAAGTGTATT
** * *
2145889 CTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT--G-AAAGGCATCCTGCTCT
1 CTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTAAGAAAAGGCGTCCTGCTCT
*
2145951 TTGAGGACT-AAAAGGTACCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT
66 TTGAGGACTGAAAA--TGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACT
*
2146015 GAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
129 GGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* * *
2146054 CTGCTCTTCGAGGACT-GAAGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCT
1 CTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTT--AAGAAAAGGCGTCCTGCT
2146118 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGAC
64 CTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGAC
2146183 TGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
128 TGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* *
2146223 CTGCTCTTTGAGGACTGG-AGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCGTCCCGCT
1 CTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTT--AAGAAAAGGCGTCCTGCT
*
2146287 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCATGCTCTTTGAGGAC
64 CTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGAC
** * * **
2146352 TGG-AGGTGCCACCAACTCGGGTGGGCTTTAAAAGAAAAGGCATC
128 TGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTGTC
* * ** * *
2146396 CCGCCCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAG---AGGTGTCCTGCTCT
1 CTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTAAGAAAAGGCGTCCTGCTCT
2146458 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACT
66 TTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGAGGACT
* *
2146522 GGAAAATGCCACCAACTTGTGTAGGCTTTGAAAGGAGAAGGCGTC
129 GGAAAATGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTGTC
* * * *
2146567 CTGCTCTTTGAGGACTGGGAA-GCGCCACCAACTTGTGTGGGCTATAAAAGGAGAAGGCGTCCTG
1 CTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTCGTGTGGGCT-T-TAA-GAAAAGGCGTCCTG
* * * *
2146631 CTCTTTGGGGAC-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGTTCTTTGAGG
62 CTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGG
2146695 ACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
126 ACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* *
2146737 CTGCTCGTTGAGGACTGG-AGGATGCCACCAACTTGTGTGGGCTTT---AAAAGGCGTCCTGCTC
1 CTGCTCTTTGAGGACTGGAAGG-TGCCACCAACTCGTGTGGGCTTTAAGAAAAGGCGTCCTGCTC
* *
2146798 TTTGAGGACT-AAAGGTGCCACCAACTTGTGTGAGCTTTAA
65 TTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAA
2146838 AAAGAAAAAA
Statistics
Matches: 703, Mismatches: 51, Indels: 61
0.86 0.06 0.07
Matches are distributed among these distances:
164 76 0.11
165 15 0.02
168 24 0.03
169 315 0.45
170 67 0.10
171 51 0.07
172 9 0.01
173 25 0.04
174 23 0.03
175 5 0.01
176 73 0.10
177 20 0.03
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (167 bp):
CTGCTCTTTGAGGACTGGAAGGTGCCACCAACTCGTGTGGGCTTTAAGAAAAGGCGTCCTGCTCT
TTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGAGGACTGG
AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
Found at i:2146526 original size:27 final size:27
Alignment explanation
Indices: 2146444--2146526 Score: 62
Period size: 27 Copynumber: 3.0 Consensus size: 27
2146434 GGGCTTTAAG
2146444 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
* ** * * * *
2146471 A-ATG-CCACCAACTTGTGTGGGCTTTGAA
1 AGGTGTCCTGC-TCTT-TGAGGAC-TGGAA
2146499 AGGTGTCCTGCTCTTTGAGGACTGGAA
1 AGGTGTCCTGCTCTTTGAGGACTGGAA
2146526 A
1 A
2146527 ATGCCACCAA
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.14
27 11 0.30
28 10 0.27
29 5 0.14
30 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (27 bp):
AGGTGTCCTGCTCTTTGAGGACTGGAA
Found at i:2148420 original size:13 final size:13
Alignment explanation
Indices: 2148402--2148427 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2148392 CAAGTTTTTG
2148402 TGTATCGATACAT
1 TGTATCGATACAT
2148415 TGTATCGATACAT
1 TGTATCGATACAT
2148428 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2148452 original size:19 final size:18
Alignment explanation
Indices: 2148382--2148452 Score: 53
Period size: 19 Copynumber: 4.0 Consensus size: 18
2148372 TACAAGCCAA
*
2148382 TGTATCGATACAAGTTTTTG
1 TGTATCGATACAA--TTTGG
2148402 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
2148415 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
2148434 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
2148453 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:2149990 original size:13 final size:13
Alignment explanation
Indices: 2149972--2149996 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2149962 ACTGAAGTAA
2149972 TGTATCGATACAT
1 TGTATCGATACAT
2149985 TGTATCGATACA
1 TGTATCGATACA
2149997 ATCTGGAAAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2151647 original size:84 final size:84
Alignment explanation
Indices: 2151492--2151656 Score: 194
Period size: 84 Copynumber: 2.0 Consensus size: 84
2151482 CATTTTCCAC
* * * *
2151492 TTGCAACTCATTTCTTTTTTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTTTCTTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
2151557 TCATTGATTTACTTTCATT
66 TCATTGATTTACTTTCATT
*
2151576 TTGCAACTC-TTTCATATTCTT-CTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCT
1 TTGCAACTCATTTC-T-TTCTTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCT
* * *
2151637 ACACTTATTGATTTATTTTC
62 AAACTCATTGATTTACTTTC
2151657 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 50 0.72
85 4 0.06
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.53
Consensus pattern (84 bp):
TTGCAACTCATTTCTTTCTTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:2153627 original size:20 final size:22
Alignment explanation
Indices: 2153597--2153640 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
2153587 TGATTTCCCG
*
2153597 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCAATACATATT
2153618 TGTG-ATGTATCAATACATATT
1 TGTGAATGTATCAATACATATT
2153639 TG
1 TG
2153641 AAAAATATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCAATACATATT
Found at i:2153703 original size:13 final size:13
Alignment explanation
Indices: 2153685--2153710 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2153675 CAAGTTTTTG
2153685 TGTATCGATACAT
1 TGTATCGATACAT
2153698 TGTATCGATACAT
1 TGTATCGATACAT
2153711 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2153735 original size:19 final size:18
Alignment explanation
Indices: 2153665--2153735 Score: 53
Period size: 19 Copynumber: 4.0 Consensus size: 18
2153655 TACAAGCCAA
*
2153665 TGTATCGATACAAGTTTTTG
1 TGTATCGATACAA--TTTGG
2153685 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
2153698 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
2153717 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
2153736 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:2162470 original size:20 final size:20
Alignment explanation
Indices: 2162445--2162484 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2162435 ATATGAATTT
2162445 TATACAAATAATTGGGAGTA
1 TATACAAATAATTGGGAGTA
2162465 TATACAAATAATTGGGAGTA
1 TATACAAATAATTGGGAGTA
2162485 AAGTCAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (20 bp):
TATACAAATAATTGGGAGTA
Found at i:2162871 original size:19 final size:20
Alignment explanation
Indices: 2162847--2162897 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
2162837 TTATGCTTTG
2162847 TATCGATACATGCTC-ATTA
1 TATCGATACATGCTCAATTA
* *
2162866 TATCGATACATACTCAATTG
1 TATCGATACATGCTCAATTA
2162886 TATCGATACATG
1 TATCGATACATG
2162898 AAACTGGCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TATCGATACATGCTCAATTA
Found at i:2162891 original size:20 final size:18
Alignment explanation
Indices: 2162806--2162896 Score: 83
Period size: 20 Copynumber: 4.7 Consensus size: 18
2162796 ACCTTAGAAA
*
2162806 GTATCGATACATATCTAGAT
1 GTATCGATACATATC-A-TT
*
2162826 GTATCGATACATTATGCTTT
1 GTATCGATACA-TAT-CATT
*
2162846 GTATCGATACATGCTCATT
1 GTATCGATACAT-ATCATT
*
2162865 ATATCGATACATACTCAATT
1 GTATCGATACATA-TC-ATT
2162885 GTATCGATACAT
1 GTATCGATACAT
2162897 GAAACTGGCA
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
19 17 0.29
20 38 0.64
21 3 0.05
22 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (18 bp):
GTATCGATACATATCATT
Found at i:2166251 original size:21 final size:20
Alignment explanation
Indices: 2166212--2166265 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
2166202 AGTAGGTATA
2166212 AACATCAAATACATAAACAATT
1 AACA-CAAA-ACATAAACAATT
* *
2166234 AAGCACATAACATCAACAATT
1 AA-CACAAAACATAAACAATT
2166255 AACACAAAACA
1 AACACAAAACA
2166266 CATAAGATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 8 0.29
21 13 0.46
22 5 0.18
23 2 0.07
ACGTcount: A:0.59, C:0.22, G:0.02, T:0.17
Consensus pattern (20 bp):
AACACAAAACATAAACAATT
Found at i:2167217 original size:21 final size:20
Alignment explanation
Indices: 2167193--2167254 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
2167183 TTTCTTAGTT
*
2167193 AACTCATTATTTTCATCTTGC
1 AACTCATTATTTTC-TCTTCC
* *
2167214 AACTCATTTCTTTTCTTTTCC
1 AACTCA-TTATTTTCTCTTCC
2167235 AACTCATTCATTTTCTCTTC
1 AACTCATT-ATTTTCTCTTC
2167255 TAGTTCACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.06
21 25 0.74
22 7 0.21
ACGTcount: A:0.19, C:0.27, G:0.02, T:0.52
Consensus pattern (20 bp):
AACTCATTATTTTCTCTTCC
Found at i:2168911 original size:33 final size:30
Alignment explanation
Indices: 2168840--2168898 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
2168830 CCTTACAACA
*
2168840 CTATCTTTTGAAGGCTAAGATAGAACCTCC
1 CTATCTTTTGAAGGCTAAGATAAAACCTCC
*
2168870 CTATCTTTTTACA-GCTAAGATAAAACCTC
1 CTATCTTTTGA-AGGCTAAGATAAAACCTC
2168899 TTACCTATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (30 bp):
CTATCTTTTGAAGGCTAAGATAAAACCTCC
Found at i:2169306 original size:20 final size:19
Alignment explanation
Indices: 2169283--2169323 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
2169273 TACATGCTCC
2169283 AATGTATCGATACAATTCAT
1 AATGTATCGATACAATT-AT
*
2169303 AATGTATCGATATAATTAT
1 AATGTATCGATACAATTAT
2169322 AA
1 AA
2169324 CCGTTGGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (19 bp):
AATGTATCGATACAATTAT
Found at i:2171665 original size:87 final size:88
Alignment explanation
Indices: 2171463--2172197 Score: 640
Period size: 88 Copynumber: 8.4 Consensus size: 88
2171453 TTTATCGTGT
*
2171463 CATTAGTCAAATATTTTCTATCATGTTAGAAGGAATCTGATACCCCATGCATCTATCACATCTTT
1 CATTAGTCAAATATTTTCTATCATGTTAAAAGGAATCTGATACCCCATGCATCTATCACATCTTT
* *
2171528 CAGGTTTCAAGAAATTTATTTTG
66 CAGGTTCCAAGAAATTTATTATG
* * ** * ** *
2171551 CATTAGTTAAATATTTTATATTGTGTTAGAAGGAATCTGATACCCCATTTATCT-TCACTTCTTT
1 CATTAGTCAAATATTTTCTATCATGTTAAAAGGAATCTGATACCCCATGCATCTATCACATCTTT
* *
2171615 CGGGTTCCAAGAAATTTATTAGG
66 CAGGTTCCAAGAAATTTATTATG
* * * *
2171638 CATTAGTTAAATAGTTTCTATCATGTTAAAACGAAT-TCGATATCCCATGCATCTATCACATCTT
1 CATTAGTCAAATATTTTCTATCATGTTAAAAGGAATCT-GATACCCCATGCATCTATCACATCTT
* * * *
2171702 TCAAGTTCGAAAAAATTTATTAGG
65 TCAGGTTCCAAGAAATTTATTATG
* * * * ** * * *
2171726 CATTAGTCAAAT-TTTTTTATCGTGTCAAAAGGAATCTGATACCTCATATATTTGTCAAATCTTT
1 CATTAGTCAAATATTTTCTATCATGTTAAAAGGAATCTGATACCCCATGCATCTATCACATCTTT
** ** * *
2171790 TGGGTTATAAGAAATTTTTTAAG
66 CAGGTTCCAAGAAATTTATTATG
* * * * * * * *
2171813 CATTAGTCAAATATATTCTGTCATGTCAAAAGGAATTTGATACCTCATACATCTGTCACATTTTT
1 CATTAGTCAAATATTTTCTATCATGTTAAAAGGAATCTGATACCCCATGCATCTATCACATCTTT
* *
2171878 C-GAGTTTCAAGAAAATTATTATG
66 CAG-GTTCCAAGAAATTTATTATG
** * * * * *
2171901 CATTAGTCAAATATTTTCTGCCATGTCAAAAGGAATTTGATACCTCACGTATCTATCACAT-TTT
1 CATTAGTCAAATATTTTCTATCATGTTAAAAGGAATCTGATACCCCATGCATCTATCACATCTTT
*
2171965 CCAGGTTCCGAGAAATTTATTATG
66 -CAGGTTCCAAGAAATTTATTATG
* * * * *
2171989 AATTAATCAAATATTTTCTATCATGTTAGAAA-AAATCTGATACCCTATGCATCTGTCACATCTT
1 CATTAGTCAAATATTTTCTATCATGTTA-AAAGGAATCTGATACCCCATGCATCTATCACATCTT
* ****
2172053 T-TGAAAAACAATCGAAATTTATTA-G
65 TCAG-GTTCCAA--GAAATTTATTATG
* * * * * * * * *
2172078 ACATTAATCAAATATTTTTTATCATATCAAAAGAAATCTAATACCACATGCATCCATCACATTTT
1 -CATTAGTCAAATATTTTCTATCATGTTAAAAGGAATCTGATACCCCATGCATCTATCACATCTT
**
2172143 TCAGGTTCCAAGAAATTTATTAAA
65 TCAGGTTCCAAGAAATTTATTATG
* * *
2172167 TATTAGTCAAATATTTTTTATCATGTCAAAA
1 CATTAGTCAAATATTTTCTATCATGTTAAAA
2172198 ACAATCTAAT
Statistics
Matches: 524, Mismatches: 107, Indels: 32
0.79 0.16 0.05
Matches are distributed among these distances:
86 1 0.00
87 141 0.27
88 305 0.58
89 11 0.02
90 65 0.12
91 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (88 bp):
CATTAGTCAAATATTTTCTATCATGTTAAAAGGAATCTGATACCCCATGCATCTATCACATCTTT
CAGGTTCCAAGAAATTTATTATG
Found at i:2171804 original size:175 final size:173
Alignment explanation
Indices: 2171463--2172197 Score: 597
Period size: 175 Copynumber: 4.2 Consensus size: 173
2171453 TTTATCGTGT
*
2171463 CATTAGTCAAATATTTTCTATCATGTTAGAAGGAA-TCTGATACCCCATGCATCTATCACATCTT
1 CATTAGTCAAATA-TTTCTATCATGTTAAAAGGAATTC-GATA-CCCATGCATCTATCACATCTT
* * * * * * *
2171527 TCAGGTTTCAAGAAATTTATTTTGCATTAGTTAAATATTTTATATTGTGTTAGAAGGAATCTGAT
63 TCAAGTTTCAAAAAATTTATTATGCATTAGTCAAATATTTTATATCGTGTCAAAAGGAATCTGAT
* * ** * *
2171592 ACCCCATTTATCTTCACTTCTTTCGGGTTCCAAGAAATTTATTAGG
128 ACCTCATATATCTTCAAATCTTTCGGGTTACAAGAAATTTATTAAG
* *
2171638 CATTAGTTAAATAGTTTCTATCATGTTAAAACGAATTCGATATCCCATGCATCTATCACATCTTT
1 CATTAGTCAAATA-TTTCTATCATGTTAAAAGGAATTCGATA-CCCATGCATCTATCACATCTTT
* *
2171703 CAAG-TTCGAAAAAATTTATTAGGCATTAGTCAAAT-TTTTTTATCGTGTCAAAAGGAATCTGAT
64 CAAGTTTC-AAAAAATTTATTATGCATTAGTCAAATATTTTATATCGTGTCAAAAGGAATCTGAT
* * * *
2171766 ACCTCATATATTTGTCAAATCTTTTGGGTTATAAGAAATTTTTTAAG
128 ACCTCATATATCT-TCAAATCTTTCGGGTTACAAGAAATTTATTAAG
* * * * * *
2171813 CATTAGTCAAATATATTCTGTCATGTCAAAAGGAATTTGATACCTCATACATCTGTCACATTTTT
1 CATTAGTCAAATAT-TTCTATCATGTTAAAAGGAATTCGATACC-CATGCATCTATCACATCTTT
* * ** * *
2171878 CGAGTTTCAAGAAAA-TTATTATGCATTAGTCAAATATTTTCTGCCATGTCAAAAGGAATTTGAT
64 CAAGTTTCAA-AAAATTTATTATGCATTAGTCAAATATTTTATATCGTGTCAAAAGGAATCTGAT
** * * * * *
2171942 ACCTCACGTATCTATCACAT-TTTCCAGGTTCCGAGAAATTTATTATG
128 ACCTCATATATCT-TCAAATCTTT-CGGGTTACAAGAAATTTATTAAG
* * * *
2171989 AATTAATCAAATATTTTCTATCATGTTAGAAA--AAATCTGATACCCTATGCATCTGTCACATCT
1 CATTAGTCAAATA-TTTCTATCATGTTA-AAAGGAATTC-GATACCC-ATGCATCTATCACATC-
* *** * * * * * *
2172052 TTTGAA-AAACAATCGAAATTTATTA-GACATTAATCAAATATTTTTTATCATATCAAAAGAAAT
61 TTTCAAGTTTCAA--AAAATTTATTATG-CATTAGTCAAATATTTTATATCGTGTCAAAAGGAAT
* * ** * * * * * *
2172115 CTAATACCACATGCATCCATCACATTTTTCAGGTTCCAAGAAATTTATTAAA
123 CTGATACCTCATATAT-CTTCAAATCTTTCGGGTTACAAGAAATTTATTAAG
* * *
2172167 TATTAGTCAAATATTTTTTATCATGTCAAAA
1 CATTAGTCAAATA-TTTCTATCATGTTAAAA
2172198 ACAATCTAAT
Statistics
Matches: 456, Mismatches: 85, Indels: 36
0.79 0.15 0.06
Matches are distributed among these distances:
174 40 0.09
175 192 0.42
176 108 0.24
177 15 0.03
178 97 0.21
179 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (173 bp):
CATTAGTCAAATATTTCTATCATGTTAAAAGGAATTCGATACCCATGCATCTATCACATCTTTCA
AGTTTCAAAAAATTTATTATGCATTAGTCAAATATTTTATATCGTGTCAAAAGGAATCTGATACC
TCATATATCTTCAAATCTTTCGGGTTACAAGAAATTTATTAAG
Found at i:2172115 original size:90 final size:86
Alignment explanation
Indices: 2171975--2172208 Score: 247
Period size: 90 Copynumber: 2.6 Consensus size: 86
2171965 CCAGGTTCCG
* * *
2171975 AGAAATTTATTATGAATTAATCAAATATTTTCTATCATGTTAGAAAAAATCTGATACC-CTATGC
1 AGAAATTTATTA-GAATTAATCAAATATTTTTTATCATGTCA-AAAAAATCTAATACCAC-ATGC
** *
2172039 ATCTGTCACATCTTTTGA-AAAACA
63 ATCCATCACAT-TTTTCAGAAAACA
*
2172063 ATCGAAATTTATTAGACATTAATCAAATATTTTTTATCATATCAAAAGAAATCTAATACCACATG
1 A--GAAATTTATTAGA-ATTAATCAAATATTTTTTATCATGTCAAAA-AAATCTAATACCACATG
****
2172128 CATCCATCACATTTTTCAGGTTCCA
62 CATCCATCACATTTTTCAGAAAACA
* *
2172153 AGAAATTTATTAAATATTAGTCAAATATTTTTTATCATGTCAAAAACAATCTAATA
1 AGAAATTTATTAGA-ATTAATCAAATATTTTTTATCATGTCAAAAA-AATCTAATA
2172209 TGCCATGTAT
Statistics
Matches: 124, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
87 1 0.01
88 50 0.40
89 10 0.08
90 62 0.50
91 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (86 bp):
AGAAATTTATTAGAATTAATCAAATATTTTTTATCATGTCAAAAAAATCTAATACCACATGCATC
CATCACATTTTTCAGAAAACA
Found at i:2172239 original size:88 final size:88
Alignment explanation
Indices: 2172066--2172251 Score: 209
Period size: 88 Copynumber: 2.1 Consensus size: 88
2172056 AAAAACAATC
*
2172066 GAAATTTATTAGACATTAATCAAATATTTTTTATCATATCAAAAGAAATCTAATACCACATGCAT
1 GAAATTTATTAAACATTAATCAAATATTTTTTATCATATCAAAAGAAATCTAATACCACATGCAT
****
2172131 CCATCACATTTTTCAGGTTCCAA
66 CCATCACATAAAACAGGTTCCAA
* * * * *
2172154 GAAATTTATTAAATATTAGTCAAATATTTTTTATCATGTCAAAA-ACAATCTAATATGC-CATGT
1 GAAATTTATTAAACATTAATCAAATATTTTTTATCATATCAAAAGA-AATCTAATA-CCACATGC
* *
2172217 ATCTATTC-CATAAAACATGTTCCAA
64 ATCCA-TCACATAAAACAGGTTCCAA
2172242 GAAA-TTATTA
1 GAAATTTATTA
2172252 TGCATCTTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
87 7 0.08
88 73 0.88
89 3 0.04
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.37
Consensus pattern (88 bp):
GAAATTTATTAAACATTAATCAAATATTTTTTATCATATCAAAAGAAATCTAATACCACATGCAT
CCATCACATAAAACAGGTTCCAA
Found at i:2174112 original size:13 final size:13
Alignment explanation
Indices: 2174094--2174118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2174084 CATAAAGTGT
2174094 TGTATCGATACAA
1 TGTATCGATACAA
2174107 TGTATCGATACA
1 TGTATCGATACA
2174119 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2174116 original size:33 final size:33
Alignment explanation
Indices: 2174074--2174140 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
2174064 TTCAACGATT
2174074 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
2174107 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
2174140 T
1 T
2174141 TCAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:2174199 original size:13 final size:13
Alignment explanation
Indices: 2174181--2174205 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2174171 ATCACTTAAA
2174181 TGTATCGATACAT
1 TGTATCGATACAT
2174194 TGTATCGATACA
1 TGTATCGATACA
2174206 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2174270 original size:52 final size:52
Alignment explanation
Indices: 2174214--2174342 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
2174204 CACTGATCTT
*
2174214 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * **
2174266 TGTATCGATACATGCAGGAAAATTTGCCTAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
2174318 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2174343 TCATATTTAG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:2188195 original size:1 final size:1
Alignment explanation
Indices: 2188189--2188270 Score: 65
Period size: 1 Copynumber: 82.0 Consensus size: 1
2188179 CGTCCTCCAC
* * * * * * * * *
2188189 AAAAAAAAAGAAGAAAAACAAAACAAAAAAAAACAAAAACAAAAAAAAAACAAAAAAAACAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
2188254 AACAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAA
2188271 GGGGTCCGGA
Statistics
Matches: 59, Mismatches: 22, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.87, C:0.11, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:2188214 original size:24 final size:23
Alignment explanation
Indices: 2188187--2188269 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 23
2188177 GACGTCCTCC
*
2188187 ACAAAAAAAAAGAAGAAAAACAAA
1 ACAAAAAAAAACAA-AAAAACAAA
2188211 ACAAAAAAAAAC--AAAAAC-AA
1 ACAAAAAAAAACAAAAAAACAAA
*
2188231 A-AAAAAAACA-AAAAAAAC-AA
1 ACAAAAAAAAACAAAAAAACAAA
*
2188251 ACAAACAAAAACAAAAAAA
1 ACAAAAAAAAACAAAAAAA
2188270 AGGGGTCCGG
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
19 8 0.16
20 12 0.24
21 13 0.25
22 7 0.14
24 11 0.22
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (23 bp):
ACAAAAAAAAACAAAAAAACAAA
Found at i:2188218 original size:21 final size:21
Alignment explanation
Indices: 2188190--2188269 Score: 92
Period size: 20 Copynumber: 3.7 Consensus size: 21
2188180 GTCCTCCACA
2188190 AAAAAAAAGAAGAAAAACAAAAC
1 AAAAAAAA-AA-AAAAACAAAAC
*
2188213 AAAAAAAAACAAAAACAAAA-
1 AAAAAAAAAAAAAAACAAAAC
*
2188233 AAAAAACAAAAAAAAC-AAAC
1 AAAAAAAAAAAAAAACAAAAC
2188253 AAACAAAAACAAAAAAA
1 AAA-AAAAA-AAAAAAA
2188270 AGGGGTCCGG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
19 3 0.06
20 17 0.34
21 14 0.28
22 8 0.16
23 8 0.16
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (21 bp):
AAAAAAAAAAAAAAACAAAAC
Found at i:2188225 original size:34 final size:34
Alignment explanation
Indices: 2188190--2188270 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
2188180 GTCCTCCACA
* *
2188190 AAAAAAAAGAAGAAAAACAAAACAAA-AAA-AAAC
1 AAAAAAAA-AAAAAAAACAAAAAAAACAAACAAAC
*
2188223 AAAAACAAAAAAAAAACAAAAAAAACAAACAAAC
1 AAAAAAAAAAAAAAAACAAAAAAAACAAACAAAC
*
2188257 AAAAACAAAAAAAA
1 AAAAAAAAAAAAAA
2188271 GGGGTCCGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
32 15 0.35
33 10 0.23
34 18 0.42
ACGTcount: A:0.86, C:0.11, G:0.02, T:0.00
Consensus pattern (34 bp):
AAAAAAAAAAAAAAAACAAAAAAAACAAACAAAC
Found at i:2188268 original size:41 final size:41
Alignment explanation
Indices: 2188189--2188267 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 41
2188179 CGTCCTCCAC
* *
2188189 AAAAAAAAAGAAGAAAAACAAAACAAAAAAAAACAAAAACA
1 AAAAAAAAACAAAAAAAACAAAACAAAAAAAAACAAAAACA
*
2188230 AAAAAAAAACAAAAAAAAC-AAACAAACAAAAACAAAAA
1 AAAAAAAAACAAAAAAAACAAAACAAAAAAAAACAAAAA
2188268 AAAGGGGTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 18 0.51
41 17 0.49
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (41 bp):
AAAAAAAAACAAAAAAAACAAAACAAAAAAAAACAAAAACA
Found at i:2188270 original size:24 final size:24
Alignment explanation
Indices: 2188187--2188270 Score: 91
Period size: 24 Copynumber: 3.4 Consensus size: 24
2188177 GACGTCCTCC
* *
2188187 ACAAAAAAAAAGAAGAAAAAC-AAA
1 ACAAAAAAAAACAA-ACAAACAAAA
2188211 ACAAAAAAAAACAAAAACAAA-AAAA
1 ACAAAAAAAAAC--AAACAAACAAAA
*
2188236 AAACAAAAAAAACAAACAAACAAAA
1 ACA-AAAAAAAACAAACAAACAAAA
2188261 ACAAAAAAAA
1 ACAAAAAAAA
2188271 GGGGTCCGGA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
24 25 0.49
25 15 0.29
26 11 0.22
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (24 bp):
ACAAAAAAAAACAAACAAACAAAA
Found at i:2189689 original size:29 final size:29
Alignment explanation
Indices: 2189650--2189939 Score: 264
Period size: 29 Copynumber: 10.0 Consensus size: 29
2189640 TCACCCTTCA
*
2189650 AAAGTCCACAAGTCAGTGGCATATTTTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
** *
2189679 AAAGCCCACAAGTCAGTGGCA-ACCTTTA
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
* *
2189707 AAAGCCCACAAGTTAGTGGCATCTTTTTTC
1 AAAGCCCACAAGTCAGTGGCAT-ATTTTTC
* ** *
2189737 AAAGCCCATAAGTCAGTGGCA-ACCTTTA
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
* * *
2189765 AAAGACCACAAGTTAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
*
2189794 AAAGCCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
**
2189823 AAAAGCCCACAAGTCAGTGGCA-A-CCTTC
1 -AAAGCCCACAAGTCAGTGGCATATTTTTC
* ** *
2189851 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TATTTTTC
* * * *
2189881 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATATTTTTC
* * * *
2189910 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TATTTTTC
2189940 TTTTGTAAGC
Statistics
Matches: 211, Mismatches: 42, Indels: 15
0.79 0.16 0.06
Matches are distributed among these distances:
27 20 0.09
28 48 0.23
29 73 0.35
30 70 0.33
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATATTTTTC
Found at i:2189719 original size:28 final size:28
Alignment explanation
Indices: 2189644--2190102 Score: 226
Period size: 28 Copynumber: 15.6 Consensus size: 28
2189634 CATTCCTCAC
* *
2189644 CCTTCAAAAGTCCACAAGTCAGTGGCATA
1 CCTTTAAAAGCCCACAAGTCAGTGGCA-A
** *
2189673 TTTTTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
* *
2189701 CCTTTAAAAGCCCACAAGTTAGTGGCAT
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
* * *
2189729 CTTTTTTCAAAGCCCATAAGTCAGTGGCAA
1 C--CTTTAAAAGCCCACAAGTCAGTGGCAA
* * *
2189759 CCTTTAAAAGACCACAAGTTAGTGGCAT
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
* * *
2189787 CTTTTTCAAAGCCCACAAGTCAGTGGCATT
1 C-CTTTAAAAGCCCACAAGTCAGTGGCA-A
**
2189817 TTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CCTTT-AAAAGCCCACAAGTCAGTGGCAA
* * *
2189846 CC-TTCAAAGCCCACAAATCAGTGGCAC
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
** * *
2189873 CCTTTTCCGAAGCCCACAAGTCGGTGGCAT
1 CC-TTT-AAAAGCCCACAAGTCAGTGGCAA
* * * * * *
2189903 CTTTTCCAAAGTCCACAACTCCGTGGCACT
1 CCTTT-AAAAGCCCACAAGTCAGTGGCA-A
** * * * * *
2189933 CTTTTTCTTTTGTAAGCTCATAACTCTA-TAGCACT
1 C-----C-TTTAAAAGCCCACAAGTC-AGTGGCA-A
** * *
2189968 CTTTTTCTTTTTAAGCCCAC-AGTTAGTGGCAC
1 C-----CTTTAAAAGCCCACAAGTCAGTGGCAA
2190000 CCTTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CC-TTT-AAAAGCCCACAAGTCAGTGGCAA
*
2190030 CCTTTAAAAGCCCACAAGTCAGTAGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCAA
* *
2190058 CCTTTAAAAGCACACAAGT-TGAT-GCAAA
1 CCTTTAAAAGCCCACAAGTCAG-TGGC-AA
2190086 CCTCTTAAAAGCCCACA
1 CCT-TTAAAAGCCCACA
2190103 CAAGTTGGTG
Statistics
Matches: 342, Mismatches: 65, Indels: 46
0.75 0.14 0.10
Matches are distributed among these distances:
27 26 0.08
28 98 0.29
29 95 0.28
30 79 0.23
32 2 0.01
33 6 0.02
34 10 0.03
35 23 0.07
36 3 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (28 bp):
CCTTTAAAAGCCCACAAGTCAGTGGCAA
Found at i:2189757 original size:58 final size:57
Alignment explanation
Indices: 2189644--2190076 Score: 327
Period size: 57 Copynumber: 7.3 Consensus size: 57
2189634 CATTCCTCAC
* * *
2189644 CCTTCAAAAGTCCACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
* *
2189701 CCTTTAAAAGCCCACAAGTTAGTGGCATCTTTTTTCAAAGCCCATAAGTCAGTGGCAA
1 CCTTTAAAAGCCCACAAGTCAGTGGCATC-TTTTTCAAAGCCCACAAGTCAGTGGCAA
* * *
2189759 CCTTTAAAAGACCACAAGTTAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATT
1 CCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCA-A
** * * * *
2189817 TTTTTCAAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAGCCCACAAATCAGTGGCAC
1 CCTTT-AAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
** * * * * * *
2189873 CCTTTTCCGAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACT
1 CC-TTT-AAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCA-A
** * * * * * *
2189933 CTTTTTCTTTTGTAAGCTCATAACTCTA-TAGCACTCTTTTTCTTTTTAAGCCCAC-AGTTAGTG
1 C-----C-TTTAAAAGCCCACAAGTC-AGTGGCA-TCTTTTTC----AAAGCCCACAAGTCAGTG
*
2189996 GCAC
54 GCAA
* * * *
2190000 CCTTTTCAAAAGCCCACAAGTCAGTGGCAAC-CTTTAAAAGCCCACAAGTCAGTAGCAA
1 CC-TTT-AAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
*
2190058 CCTTTAAAAGCACACAAGT
1 CCTTTAAAAGCCCACAAGT
2190077 TGATGCAAAC
Statistics
Matches: 299, Mismatches: 56, Indels: 43
0.75 0.14 0.11
Matches are distributed among these distances:
56 13 0.04
57 109 0.36
58 69 0.23
59 41 0.14
60 1 0.00
61 3 0.01
62 7 0.02
63 14 0.05
64 14 0.05
65 12 0.04
67 1 0.00
68 8 0.03
69 7 0.02
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (57 bp):
CCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAA
Found at i:2189798 original size:87 final size:88
Alignment explanation
Indices: 2189646--2189907 Score: 334
Period size: 87 Copynumber: 3.0 Consensus size: 88
2189636 TTCCTCACCC
* ** * *
2189646 TTCAAAAGTCCACAAGTCAGTGGCATATTTTTCAAAGCCCACAAGTCAGTGGCAAC-CTTTAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCA-ACCTTTCAAAGCCCACAAGTCAGTGGCAACTTTTTCAAA
*
2189710 GCCCACAAGTTAGTGGCATCTTTT
65 GCCCACAAGTCAGTGGCATCTTTT
* * * * *
2189734 TTC-AAAGCCCATAAGTCAGTGGCAACCTTTAAAAGACCACAAGTTAGTGGCATCTTTTTCAAAG
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACTTTTTCAAAG
2189798 CCCACAAGTCAGTGGCAT-TTTT
66 CCCACAAGTCAGTGGCATCTTTT
* * * *
2189820 TTCAAAAGCCCACAAGTCAGTGGCAACC-TTCAAAGCCCACAAATCAGTGGCACCCTTTTCCGAA
1 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCA-ACTTTTTCAAA
*
2189884 GCCCACAAGTCGGTGGCATCTTTT
65 GCCCACAAGTCAGTGGCATCTTTT
2189908 CCAAAGTCCA
Statistics
Matches: 150, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
86 51 0.34
87 92 0.61
88 7 0.05
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (88 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACAAGTCAGTGGCAACTTTTTCAAAG
CCCACAAGTCAGTGGCATCTTTT
Found at i:2190248 original size:49 final size:46
Alignment explanation
Indices: 2190122--2190435 Score: 343
Period size: 43 Copynumber: 6.7 Consensus size: 46
2190112 GGCGTCTCCT
* *
2190122 TTTAAGCCCAATATAGCTGGCATTGAATCAGCATATTGGCACCTTGCC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT--C
* *
2190170 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
* * *
2190216 ATATTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCA-C--C
1 ---TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
*
2190262 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
* * *
2190308 ATATTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCA-C--C
1 ---TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
2190354 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC---T---TC
* *
2190406 TTTAAGTTCAATGTAGCTGGCCTTGAATCA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCA
2190436 ACACATTGAC
Statistics
Matches: 226, Mismatches: 22, Indels: 32
0.81 0.08 0.11
Matches are distributed among these distances:
43 75 0.33
44 2 0.01
46 4 0.02
48 43 0.19
49 73 0.32
52 29 0.13
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (46 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTC
Found at i:2190304 original size:92 final size:92
Alignment explanation
Indices: 2190168--2190452 Score: 462
Period size: 92 Copynumber: 3.1 Consensus size: 92
2190158 TGGCACCTTG
* *
2190168 CCTTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATATTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGTCCAATGT
2190233 AGCTGACCTTGAATCAGCACATTGGCA
66 AGCTGACCTTGAATCAGCACATTGGCA
*
2190260 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTAGCACCTTCATATTTAAGTCCAATGT
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGTCCAATGT
2190325 AGCTGACCTTGAATCAGCACATTGGCA
66 AGCTGACCTTGAATCAGCACATTGGCA
* *
2190352 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATATTTAAGTCCAA
* * *
2190417 TGTAGCTGGCCTTGAATCAACACATTGACA
63 TGTAGCTGACCTTGAATCAGCACATTGGCA
2190447 TCCTTT
1 -CCTTT
2190453 TTTTCATCTT
Statistics
Matches: 180, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
92 133 0.74
94 2 0.01
95 40 0.22
96 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATATTTAAGTCCAATGT
AGCTGACCTTGAATCAGCACATTGGCA
Found at i:2190431 original size:52 final size:52
Alignment explanation
Indices: 2190353--2190506 Score: 175
Period size: 52 Copynumber: 2.9 Consensus size: 52
2190343 ACATTGGCAC
*
2190353 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCCAT
* * * * *
2190405 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAACACATTGACATCCTTTTTTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCA-CC--TTTTCCAT
* * * *
2190460 CTTTAAGCCCAATATCGTTGG-CTGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCT-TGAATCAACATATTGGCACCTTT
2190507 ATCACTTTTC
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
52 40 0.48
53 2 0.02
54 3 0.04
55 39 0.46
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTTTCCAT
Found at i:2191970 original size:33 final size:30
Alignment explanation
Indices: 2191899--2191957 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
2191889 CCTTACAACA
*
2191899 CTATCTTTTGAAGGCTAAGATAGAACCTCC
1 CTATCTTTTGAAGGCTAAGATAAAACCTCC
*
2191929 CTATCTTTTTACA-GCTAAGATAAAACCTC
1 CTATCTTTTGA-AGGCTAAGATAAAACCTC
2191958 TTACCTATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (30 bp):
CTATCTTTTGAAGGCTAAGATAAAACCTCC
Found at i:2192365 original size:20 final size:19
Alignment explanation
Indices: 2192342--2192382 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
2192332 TACATGCTCC
2192342 AATGTATCGATACAATTCAT
1 AATGTATCGATACAATT-AT
*
2192362 AATGTATCGATATAATTAT
1 AATGTATCGATACAATTAT
2192381 AA
1 AA
2192383 CCGTTGGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (19 bp):
AATGTATCGATACAATTAT
Found at i:2194859 original size:175 final size:175
Alignment explanation
Indices: 2194518--2195277 Score: 724
Period size: 175 Copynumber: 4.3 Consensus size: 175
2194508 TTTATCGTGT
*
2194518 CATTAGTCAAATATTTTCTATCATGTTAGAAGGAATCTGATACCCCATGCATCTATCACATCTTT
1 CATTAGTCAAATATTTTCTATCATGTTAAAAGGAATCTGATACCCCATGCATCTATCACATCTTT
* * * * * * *
2194583 CAGGTTTCAAGAAATTTATTTTGCATTAGTTAAATATTTTATATTGTGTTAGAAGGAATCTGATA
66 CAAGTTTCAAAAAATTTATTATGCATTAGTCAAATATTTTATATCGTGTCAAAAGGAATCTGATA
* * * *
2194648 CCCCATTTATCTTCACTTCTTTCGGGTTCCAAGAAATTTATTAGG
131 CCTCATATATCTTCACATCTTTCGGGTTCCAAGAAATTTATTAAG
* * * *
2194693 CATTAGTTAAATAGTTTCTATCATGTTAAAACGAATTTGATACCCCATGCATCTATCACATCTTT
1 CATTAGTCAAATATTTTCTATCATGTTAAAAGGAATCTGATACCCCATGCATCTATCACATCTTT
* *
2194758 CAAG-TTCGAAAAAATTTATTAGGCATTAGTCAAAT-TTTTTTATCGTGTCAAAAGGAATCTGAT
66 CAAGTTTC-AAAAAATTTATTATGCATTAGTCAAATATTTTATATCGTGTCAAAAGGAATCTGAT
* * * ** *
2194821 ACCTCATATATTTGTCAAATCTTTTGGGTTATAAGAAATTTTTTAAG
130 ACCTCATATATCT-TCACATCTTTCGGGTTCCAAGAAATTTATTAAG
* * * * * * * *
2194868 CATTAGTCAAATATATTCTGTCATGTCAAAAGGAATTTGATACCTCATACATCTGTCACATTTTT
1 CATTAGTCAAATATTTTCTATCATGTTAAAAGGAATCTGATACCCCATGCATCTATCACATCTTT
* * * * *
2194933 CGAGTTTCAAGAAAA-TTATTATGCATTAGTCAAATATTTTCTGTCATGTCAAAAGGAATTTGAT
66 CAAGTTTCAA-AAAATTTATTATGCATTAGTCAAATATTTTATATCGTGTCAAAAGGAATCTGAT
** * *
2194997 ACCTCACGTATCTATCACAT-TTTCCAGGTTCCAAGAAATTTATTATG
130 ACCTCATATATCT-TCACATCTTT-CGGGTTCCAAGAAATTTATTAAG
* * * * *
2195044 AATTAATCAAATATTTTCTATCATGTTAGAAA-AAATCTGATACCCTATGCATCTGTCACATCTT
1 CATTAGTCAAATATTTTCTATCATGTTA-AAAGGAATCTGATACCCCATGCATCTATCACATC-T
* *** * * * * * *
2195108 TTGAA-AAACAATCGAAATTTATTA-GACATTAATCAAATATTTTTTATCATATCAAAAGAAATC
64 TTCAAGTTTCAA--AAAATTTATTATG-CATTAGTCAAATATTTTATATCGTGTCAAAAGGAATC
* * ** * * * *
2195171 TAATACCACATGCATCCATCACATTTTTCAGGTTCCAAGAAATTTATTAAA
126 TGATACCTCATATAT-CTTCACATCTTTCGGGTTCCAAGAAATTTATTAAG
* * * * * ** *
2195222 TATTAGTCAAATATTTTTTATCATGTCAAAAAGAATCTAATATGCCATGTATCTAT
1 CATTAGTCAAATATTTTCTATCATGTTAAAAGGAATCTGATACCCCATGCATCTAT
2195278 TCCATAAAAC
Statistics
Matches: 478, Mismatches: 93, Indels: 25
0.80 0.16 0.04
Matches are distributed among these distances:
174 37 0.08
175 194 0.41
176 113 0.24
177 14 0.03
178 116 0.24
179 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (175 bp):
CATTAGTCAAATATTTTCTATCATGTTAAAAGGAATCTGATACCCCATGCATCTATCACATCTTT
CAAGTTTCAAAAAATTTATTATGCATTAGTCAAATATTTTATATCGTGTCAAAAGGAATCTGATA
CCTCATATATCTTCACATCTTTCGGGTTCCAAGAAATTTATTAAG
Found at i:2195260 original size:88 final size:88
Alignment explanation
Indices: 2194518--2195277 Score: 679
Period size: 88 Copynumber: 8.6 Consensus size: 88
2194508 TTTATCGTGT
* * *
2194518 CATTAGTCAAATATTTTCTATCATGTTAGAAGGAATCTGATACCCCATGCATCTATCACATCTTT
1 CATTAGTCAAATATTTTCTATCATGTCAAAAGGAATCTGATACCCCATGCATCTATCACATTTTT
* **
2194583 CAGGTTTCAAGAAATTTATTTTG
66 CAGGTTCCAAGAAATTTATTAGG
* * ** * * **
2194606 CATTAGTTAAATATTTTATATTGTGTTAGAAGGAATCTGATACCCCATTTATCT-TCAC-TTCTT
1 CATTAGTCAAATATTTTCTATCATGTCAAAAGGAATCTGATACCCCATGCATCTATCACATT-TT
*
2194669 TCGGGTTCCAAGAAATTTATTAGG
65 TCAGGTTCCAAGAAATTTATTAGG
* * * * * *
2194693 CATTAGTTAAATAGTTTCTATCATGTTAAAACGAATTTGATACCCCATGCATCTATCACATCTTT
1 CATTAGTCAAATATTTTCTATCATGTCAAAAGGAATCTGATACCCCATGCATCTATCACATTTTT
* * *
2194758 CAAGTTCGAAAAAATTTATTAGG
66 CAGGTTCCAAGAAATTTATTAGG
* * * ** * * *
2194781 CATTAGTCAAAT-TTTTTTATCGTGTCAAAAGGAATCTGATACCTCATATATTTGTCAAATCTTT
1 CATTAGTCAAATATTTTCTATCATGTCAAAAGGAATCTGATACCCCATGCATCTATCACAT-TTT
* ** * *
2194845 T-GGGTTATAAGAAATTTTTTAAG
65 TCAGGTTCCAAGAAATTTATTAGG
* * * * * *
2194868 CATTAGTCAAATATATTCTGTCATGTCAAAAGGAATTTGATACCTCATACATCTGTCACATTTTT
1 CATTAGTCAAATATTTTCTATCATGTCAAAAGGAATCTGATACCCCATGCATCTATCACATTTTT
* * *
2194933 C-GAGTTTCAAGAAAATTATTATG
66 CAG-GTTCCAAGAAATTTATTAGG
* * * * * *
2194956 CATTAGTCAAATATTTTCTGTCATGTCAAAAGGAATTTGATACCTCACGTATCTATCACATTTTC
1 CATTAGTCAAATATTTTCTATCATGTCAAAAGGAATCTGATACCCCATGCATCTATCACATTTTT
*
2195021 CAGGTTCCAAGAAATTTATTATG
66 CAGGTTCCAAGAAATTTATTAGG
* * * * * *
2195044 AATTAATCAAATATTTTCTATCATGTTAGAAA-AAATCTGATACCCTATGCATCTGTCACATCTT
1 CATTAGTCAAATATTTTCTATCATGTCA-AAAGGAATCTGATACCCCATGCATCTATCACAT-TT
* **** *
2195108 TTGA-AAAACAATCGAAATTTATTAGA
64 TTCAGGTTCCAA--GAAATTTATTAGG
* * * * * * *
2195134 CATTAATCAAATATTTTTTATCATATCAAAAGAAATCTAATACCACATGCATCCATCACATTTTT
1 CATTAGTCAAATATTTTCTATCATGTCAAAAGGAATCTGATACCCCATGCATCTATCACATTTTT
**
2195199 CAGGTTCCAAGAAATTTATTAAA
66 CAGGTTCCAAGAAATTTATTAGG
* * * * ** *
2195222 TATTAGTCAAATATTTTTTATCATGTCAAAAAGAATCTAATATGCCATGTATCTAT
1 CATTAGTCAAATATTTTCTATCATGTCAAAAGGAATCTGATACCCCATGCATCTAT
2195278 TCCATAAAAC
Statistics
Matches: 547, Mismatches: 111, Indels: 28
0.80 0.16 0.04
Matches are distributed among these distances:
86 1 0.00
87 139 0.25
88 328 0.60
89 17 0.03
90 62 0.11
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.38
Consensus pattern (88 bp):
CATTAGTCAAATATTTTCTATCATGTCAAAAGGAATCTGATACCCCATGCATCTATCACATTTTT
CAGGTTCCAAGAAATTTATTAGG
Found at i:2195294 original size:88 final size:88
Alignment explanation
Indices: 2195121--2195306 Score: 209
Period size: 88 Copynumber: 2.1 Consensus size: 88
2195111 AAAAACAATC
*
2195121 GAAATTTATTAGACATTAATCAAATATTTTTTATCATATCAAAAGAAATCTAATACCACATGCAT
1 GAAATTTATTAAACATTAATCAAATATTTTTTATCATATCAAAAGAAATCTAATACCACATGCAT
****
2195186 CCATCACATTTTTCAGGTTCCAA
66 CCATCACATAAAACAGGTTCCAA
* * * * *
2195209 GAAATTTATTAAATATTAGTCAAATATTTTTTATCATGTCAAAA-AGAATCTAATATGC-CATGT
1 GAAATTTATTAAACATTAATCAAATATTTTTTATCATATCAAAAGA-AATCTAATA-CCACATGC
* *
2195272 ATCTATTC-CATAAAACATGTTCCAA
64 ATCCA-TCACATAAAACAGGTTCCAA
2195297 GAAA-TTATTA
1 GAAATTTATTA
2195307 TGCATCTTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
87 7 0.08
88 73 0.88
89 3 0.04
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.37
Consensus pattern (88 bp):
GAAATTTATTAAACATTAATCAAATATTTTTTATCATATCAAAAGAAATCTAATACCACATGCAT
CCATCACATAAAACAGGTTCCAA
Found at i:2197167 original size:13 final size:13
Alignment explanation
Indices: 2197149--2197175 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2197139 CATAAAGTGT
2197149 TGTATCGATACAA
1 TGTATCGATACAA
2197162 TGTATCGATACAA
1 TGTATCGATACAA
2197175 T
1 T
2197176 TCAAGCTACT
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:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2197234 original size:13 final size:13
Alignment explanation
Indices: 2197216--2197240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2197206 ATCACTTAAA
2197216 TGTATCGATACAT
1 TGTATCGATACAT
2197229 TGTATCGATACA
1 TGTATCGATACA
2197241 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2197305 original size:52 final size:52
Alignment explanation
Indices: 2197249--2197429 Score: 317
Period size: 52 Copynumber: 3.5 Consensus size: 52
2197239 CACTGATCTT
2197249 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
2197301 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* * **
2197353 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
2197405 TGCATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2197430 TCATATTTAG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:2202567 original size:21 final size:21
Alignment explanation
Indices: 2202543--2202582 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2202533 AGAGTCGAGC
2202543 CTAAA-ATTAATTATATTTTAA
1 CTAAATATTAATTA-ATTTTAA
*
2202564 CTAAATTTTAATTAATTTT
1 CTAAATATTAATTAATTTT
2202583 GTTTCAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (21 bp):
CTAAATATTAATTAATTTTAA
Found at i:2209362 original size:33 final size:32
Alignment explanation
Indices: 2209299--2209363 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
2209289 AATTGGTTCA
*
2209299 TGTATCGATACAATGAACATGTATCAATACAT
1 TGTATCGATACAAAGAACATGTATCAATACAT
*
2209331 TGTATCGATACAAAGCATA-ATGTATCGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCAATACAT
2209364 CTGAAAGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 14 0.48
33 14 0.48
34 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCAATACAT
Found at i:2210210 original size:13 final size:13
Alignment explanation
Indices: 2210192--2210216 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2210182 CATTATGCTT
2210192 TGTATCGATACAG
1 TGTATCGATACAG
2210205 TGTATCGATACA
1 TGTATCGATACA
2210217 TGTTCATTGT
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2210232 original size:32 final size:33
Alignment explanation
Indices: 2210172--2210236 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
2210162 CACACCTAGA
*
2210172 TGTATCGATACATTATGCTTTGTATCGATACAG
1 TGTATCGATACATTATGCATTGTATCGATACAG
2210205 TGTATCGATACATGT-T-CATTGTATCGATACAG
1 TGTATCGATACAT-TATGCATTGTATCGATACAG
2210237 GGACAACTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.50
33 14 0.47
34 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATTATGCATTGTATCGATACAG
Found at i:2210311 original size:20 final size:20
Alignment explanation
Indices: 2210286--2210336 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
2210276 CTACTACTGT
* *
2210286 TTGTATCGATAGATGGT-ATA
1 TTGTATCGATACATGATGA-A
2210306 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
2210326 TTGTATCGATA
1 TTGTATCGATA
2210337 TATTGCTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:2216940 original size:15 final size:16
Alignment explanation
Indices: 2216910--2216941 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2216900 GATAAAAAAA
2216910 ATAAATTGCTTTTGAT
1 ATAAATTGCTTTTGAT
2216926 ATAAATTGC-TTTGAT
1 ATAAATTGCTTTTGAT
2216941 A
1 A
2216942 AATAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.47
Consensus pattern (16 bp):
ATAAATTGCTTTTGAT
Found at i:2216952 original size:22 final size:22
Alignment explanation
Indices: 2216892--2216952 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
2216882 GGAGGTATAT
*
2216892 ATTGCTTTGATAAAAAAAATAA
1 ATTGCTTTGATAAATAAAATAA
*
2216914 ATTGCTTT--T-GAT---ATAA
1 ATTGCTTTGATAAATAAAATAA
2216930 ATTGCTTTGATAAATAAAATAA
1 ATTGCTTTGATAAATAAAATAA
2216952 A
1 A
2216953 ATAAATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 12
0.67 0.07 0.27
Matches are distributed among these distances:
16 12 0.40
18 1 0.03
19 3 0.10
20 1 0.03
22 13 0.43
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.38
Consensus pattern (22 bp):
ATTGCTTTGATAAATAAAATAA
Found at i:2217706 original size:13 final size:13
Alignment explanation
Indices: 2217688--2217718 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2217678 CAATACATGG
*
2217688 TACATTGTATCGA
1 TACATTGTATCAA
2217701 TACATTGTATCAA
1 TACATTGTATCAA
2217714 TACAT
1 TACAT
2217719 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (13 bp):
TACATTGTATCAA
Found at i:2217717 original size:33 final size:33
Alignment explanation
Indices: 2217675--2217739 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2217665 CCACTGTTTA
*
2217675 TATCAATACATGGT-ACATTGTATCGATACATTG
1 TATCAATACATGATGA-ATTGTATCGATACATTG
2217708 TATCAATACATGATGAATTGTATCGATACATT
1 TATCAATACATGATGAATTGTATCGATACATT
2217740 CCTTGTAACG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (33 bp):
TATCAATACATGATGAATTGTATCGATACATTG
Found at i:2220433 original size:13 final size:13
Alignment explanation
Indices: 2220415--2220453 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2220405 TAGTAACCCA
2220415 TGTATCGATACAT
1 TGTATCGATACAT
*
2220428 TGTATCGATACAA
1 TGTATCGATACAT
2220441 TGTATCGATACAT
1 TGTATCGATACAT
2220454 CTGGGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2224570 original size:11 final size:11
Alignment explanation
Indices: 2224554--2224613 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
2224544 ATAATTTACG
2224554 TATTTATATTA
1 TATTTATATTA
2224565 TATTTA-A--A
1 TATTTATATTA
2224573 TATTT-TATTA
1 TATTTATATTA
2224583 TA-TTATAATTA
1 TATTTAT-ATTA
* *
2224594 TATTTAAAATA
1 TATTTATATTA
2224605 T-TTTATATT
1 TATTTATATT
2224614 TTTATAAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
8 7 0.18
9 2 0.05
10 11 0.28
11 16 0.41
12 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTATATTA
Found at i:2224606 original size:43 final size:46
Alignment explanation
Indices: 2224559--2224667 Score: 102
Period size: 47 Copynumber: 2.4 Consensus size: 46
2224549 TTACGTATTT
* *
2224559 ATATTATATTTAAATATTTTATTATATT-ATAA-TTATATT-TAAA
1 ATATTATATTTAAATATTTTAATAAATTAATAATTTATATTATAAA
2224602 ATATTTTATATTTTTATAA-ATTTTAATAAATTAATAATTTATATTATAAA
1 ATA--TTATA--TTTA-AATATTTTAATAAATTAATAATTTATATTATAAA
* *
2224652 AT-TTTTATATAAATAT
1 ATATTATATTTAAATAT
2224668 CCAAATAGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
43 3 0.06
44 2 0.04
45 10 0.19
47 19 0.36
48 6 0.11
49 7 0.13
50 6 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (46 bp):
ATATTATATTTAAATATTTTAATAAATTAATAATTTATATTATAAA
Found at i:2224619 original size:30 final size:29
Alignment explanation
Indices: 2224556--2224620 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
2224546 AATTTACGTA
2224556 TTTAT-ATTATATTTAAATATTTTATTAT
1 TTTATAATTATATTTAAATATTTTATTAT
*
2224584 ATTATAATTATATTTAAAATATTTTA-TATT
1 TTTATAATTATATTT-AAATATTTTATTA-T
2224614 TTTATAA
1 TTTATAA
2224621 ATTTTAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 4 0.12
29 11 0.34
30 17 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTATAATTATATTTAAATATTTTATTAT
Found at i:2225025 original size:17 final size:18
Alignment explanation
Indices: 2224992--2225028 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
2224982 GCCTTTAAAT
2224992 ATAAGCATATATATTATC
1 ATAAGCATATATATTATC
2225010 ATAAG-ATATA-ATTTATC
1 ATAAGCATATATA-TTATC
2225027 AT
1 AT
2225029 TATTTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.06
17 12 0.67
18 5 0.28
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (18 bp):
ATAAGCATATATATTATC
Found at i:2226286 original size:21 final size:21
Alignment explanation
Indices: 2226262--2226343 Score: 57
Period size: 19 Copynumber: 4.0 Consensus size: 21
2226252 TTTAATATAA
2226262 ATTATTATTTAAATAATAATT
1 ATTATTATTTAAATAATAATT
*
2226283 ATTATTTTTATTTAAAT-TTAA-T
1 ATTA---TTATTTAAATAATAATT
* *
2226305 ATTATTTTTTTAA-AAT--TT
1 ATTATTATTTAAATAATAATT
*
2226323 AATATTATTTTAAATAATAAT
1 ATTATTA-TTTAAATAATAAT
2226344 ATAAATTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 17
0.65 0.10 0.25
Matches are distributed among these distances:
18 6 0.13
19 13 0.29
20 3 0.07
21 4 0.09
22 6 0.13
23 3 0.07
24 10 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATTATTTAAATAATAATT
Found at i:2226336 original size:18 final size:19
Alignment explanation
Indices: 2226282--2226333 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 19
2226272 AAATAATAAT
2226282 TATTATTTTTATTTAAATTTAA
1 TATTATTTTTA---AAATTTAA
2226304 TATTATTTTTTTAAAATTTAA
1 TATTA--TTTTTAAAATTTAA
2226325 TATTATTTT
1 TATTATTTT
2226334 AAATAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 4 0.14
21 13 0.46
22 5 0.18
24 6 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTATTTTTAAAATTTAA
Found at i:2226714 original size:25 final size:21
Alignment explanation
Indices: 2226669--2226714 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 21
2226659 TTAAATTATT
2226669 ATTTATTAAAAAATTATTTAA
1 ATTTATTAAAAAATTATTTAA
2226690 ATTTAATTATAAAAATATATATTAA
1 ATTT-ATTA-AAAAAT-TAT-TTAA
2226715 TAAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 4 0.19
23 6 0.29
24 3 0.14
25 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTATTAAAAAATTATTTAA
Found at i:2226915 original size:25 final size:25
Alignment explanation
Indices: 2226852--2226955 Score: 74
Period size: 26 Copynumber: 4.2 Consensus size: 25
2226842 TATATATTTA
*
2226852 TATTTAAAT-TAAAATATTAAAAGTT
1 TATTTAAATATAAAA-ATTAAAAATT
* * *
2226877 T-TGTATTATTTAAAAATTAAAAATT
1 TATTTA-AATATAAAAATTAAAAATT
* *
2226902 TATTTAAATATAAAAAAATAAAAGACT
1 TATTTAAATAT-AAAAATTAAAA-ATT
2226929 TATTT-AA-AT-AAAATTATAAAATT
1 TATTTAAATATAAAAATTA-AAAATT
2226952 TATT
1 TATT
2226956 ATTATTATTG
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
23 12 0.19
24 6 0.10
25 18 0.29
26 20 0.32
27 7 0.11
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (25 bp):
TATTTAAATATAAAAATTAAAAATT
Found at i:2226917 original size:19 final size:19
Alignment explanation
Indices: 2226882--2226918 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2226872 AAGTTTTGTA
*
2226882 TTATTTAAAAATTAAAAAT
1 TTATTTAAAAATAAAAAAT
*
2226901 TTATTTAAATATAAAAAA
1 TTATTTAAAAATAAAAAA
2226919 ATAAAAGACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTATTTAAAAATAAAAAAT
Found at i:2228648 original size:13 final size:13
Alignment explanation
Indices: 2228632--2228662 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2228622 TTTTTCTTGA
2228632 AATATTTTTATTT
1 AATATTTTTATTT
2228645 AATATTTTTATTT
1 AATATTTTTATTT
*
2228658 GATAT
1 AATAT
2228663 ATATTTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (13 bp):
AATATTTTTATTT
Found at i:2228669 original size:15 final size:14
Alignment explanation
Indices: 2228632--2228669 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
2228622 TTTTTCTTGA
2228632 AATATTTTTATTT-
1 AATATTTTTATTTG
2228645 AATATTTTTATTTG
1 AATATTTTTATTTG
*
2228659 ATATATATTTA
1 A-ATATTTTTA
2228670 GATATAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 13 0.59
14 1 0.05
15 8 0.36
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (14 bp):
AATATTTTTATTTG
Found at i:2231046 original size:2 final size:2
Alignment explanation
Indices: 2231039--2231068 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2231029 CTGGGAGTCT
2231039 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2231069 ATAGTGCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2231892 original size:21 final size:22
Alignment explanation
Indices: 2231853--2231893 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
2231843 ATATAAATAT
*
2231853 AATATGTATTATTTTATATTTA
1 AATATGTATTATTTAATATTTA
*
2231875 AATAT-TATTCTTTAATATT
1 AATATGTATTATTTAATATT
2231894 GAATATCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (22 bp):
AATATGTATTATTTAATATTTA
Found at i:2232442 original size:16 final size:16
Alignment explanation
Indices: 2232423--2232464 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
2232413 TTATATTCAA
*
2232423 ATCATTTTGAATTTGT
1 ATCATTTTAAATTTGT
2232439 ATCATTTTAAATTTGT
1 ATCATTTTAAATTTGT
*
2232455 GTCATTTTAA
1 ATCATTTTAA
2232465 GTTCGAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.29, C:0.07, G:0.10, T:0.55
Consensus pattern (16 bp):
ATCATTTTAAATTTGT
Found at i:2234116 original size:13 final size:13
Alignment explanation
Indices: 2234098--2234123 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2234088 CAATTTTTTG
2234098 TGTATCGATACAT
1 TGTATCGATACAT
2234111 TGTATCGATACAT
1 TGTATCGATACAT
2234124 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2234208 original size:20 final size:20
Alignment explanation
Indices: 2234183--2234255 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
2234173 CAACTTTTTT
*
2234183 ATGTATTGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2234203 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2234224 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2234244 ATGTATCGATAC
1 ATGTATCGATAC
2234256 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2234221 original size:41 final size:41
Alignment explanation
Indices: 2234162--2234255 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
2234152 CTGCCAAGAA
* *
2234162 ATGTATCGATACAACTTTTTTATGTATTGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
2234203 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
2234244 ATGTATCGATAC
1 ATGTATCGATAC
2234256 TTTGAATTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:2234237 original size:21 final size:21
Alignment explanation
Indices: 2234162--2234237 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
2234152 CTGCCAAGAA
* *
2234162 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
* ****
2234183 ATGTATTGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2234203 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2234224 ATGTATCGATACAT
1 ATGTATCGATACAT
2234238 TGCAACATGT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 14 0.33
21 28 0.67
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2234913 original size:21 final size:21
Alignment explanation
Indices: 2234889--2234954 Score: 96
Period size: 21 Copynumber: 3.0 Consensus size: 21
2234879 ATCTCCCCCT
2234889 TAATCAAGTAATTCACAACAA
1 TAATCAAGTAATTCACAACAA
2234910 TAATCAAGTAATTCACAACAA
1 TAATCAAGTAATTCACAACAA
*
2234931 AAATTCTCAAGTAATTCACAACAA
1 TAA---TCAAGTAATTCACAACAA
2234955 AAATTTATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
21 23 0.56
24 18 0.44
ACGTcount: A:0.52, C:0.20, G:0.05, T:0.24
Consensus pattern (21 bp):
TAATCAAGTAATTCACAACAA
Found at i:2234940 original size:24 final size:23
Alignment explanation
Indices: 2234892--2234960 Score: 106
Period size: 24 Copynumber: 3.0 Consensus size: 23
2234882 TCCCCCTTAA
*
2234892 TCAAGTAATTCACAACAATAA--
1 TCAAGTAATTCACAACAAAAATT
2234913 TCAAGTAATTCACAACAAAAATT
1 TCAAGTAATTCACAACAAAAATT
2234936 CTCAAGTAATTCACAACAAAAATT
1 -TCAAGTAATTCACAACAAAAATT
2234960 T
1 T
2234961 ATTTGCACTT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
21 20 0.45
23 1 0.02
24 23 0.52
ACGTcount: A:0.51, C:0.19, G:0.04, T:0.26
Consensus pattern (23 bp):
TCAAGTAATTCACAACAAAAATT
Found at i:2236759 original size:13 final size:13
Alignment explanation
Indices: 2236741--2236778 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
2236731 ATAATCACCC
2236741 TGTATCGATACAG
1 TGTATCGATACAG
*
2236754 TGTATCGATACAT
1 TGTATCGATACAG
2236767 TGTATCGATACA
1 TGTATCGATACA
2236779 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:2236792 original size:20 final size:20
Alignment explanation
Indices: 2236767--2236843 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
2236757 ATCGATACAT
2236767 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
2236787 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
* *
2236812 TGTATCGATACACAGAAACA
1 TGTATCGATACAAAGAAAAA
2236832 TGTATCGATACA
1 TGTATCGATACA
2236844 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 30 0.62
25 18 0.38
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:2238872 original size:15 final size:15
Alignment explanation
Indices: 2238852--2238882 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2238842 ATTTCGTTTG
*
2238852 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
2238867 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
2238882 G
1 G
2238883 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:2242957 original size:13 final size:13
Alignment explanation
Indices: 2242939--2242964 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2242929 CAATTTTTTG
2242939 TGTATCGATACAT
1 TGTATCGATACAT
2242952 TGTATCGATACAT
1 TGTATCGATACAT
2242965 ACTTGTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2243049 original size:20 final size:20
Alignment explanation
Indices: 2243024--2243096 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
2243014 CAACTTTTTT
2243024 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
2243044 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
2243065 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
2243085 ATGTATCGATAC
1 ATGTATCGATAC
2243097 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:2243062 original size:41 final size:41
Alignment explanation
Indices: 2243003--2243096 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2242993 CTGCCAAGAA
*
2243003 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
2243044 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
2243085 ATGTATCGATAC
1 ATGTATCGATAC
2243097 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:2243078 original size:21 final size:21
Alignment explanation
Indices: 2243003--2243078 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
2242993 CTGCCAAGAA
* *
2243003 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
2243024 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
2243044 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
2243065 ATGTATCGATACAT
1 ATGTATCGATACAT
2243079 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:2243495 original size:19 final size:19
Alignment explanation
Indices: 2243471--2243534 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
2243461 TTTCAGCGAT
2243471 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
2243490 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
2243504 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
2243522 TTGTATCGATACA
1 TTGTATCGATACA
2243535 ATGTATCGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
19 24 0.62
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2243508 original size:32 final size:32
Alignment explanation
Indices: 2243472--2243542 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
2243462 TTCAGCGATT
2243472 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2243504 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2243536 TGTATCG
1 TGTATCG
2243543 CTAGGAAGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2243509 original size:13 final size:13
Alignment explanation
Indices: 2243491--2243515 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2243481 ACATAAGTGT
2243491 TGTATCGATACAA
1 TGTATCGATACAA
2243504 TGTATCGATACA
1 TGTATCGATACA
2243516 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2243604 original size:13 final size:13
Alignment explanation
Indices: 2243586--2243611 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2243576 CATTTTTCTG
2243586 TGTATCGATACAT
1 TGTATCGATACAT
2243599 TGTATCGATACAT
1 TGTATCGATACAT
2243612 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2243629 original size:34 final size:33
Alignment explanation
Indices: 2243566--2243632 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
2243556 GCCAAGGAAA
*
2243566 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
2243599 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
2243633 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:2251131 original size:22 final size:24
Alignment explanation
Indices: 2251101--2251145 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
2251091 GCTCTCAATC
*
2251101 TCTTCAAGA-ATTATACCCCAAAT
1 TCTTCAAGAGATTATAACCCAAAT
*
2251124 TCTT-AAGAGATTGTAACCCAAA
1 TCTTCAAGAGATTATAACCCAAA
2251146 GTTGAATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (24 bp):
TCTTCAAGAGATTATAACCCAAAT
Found at i:2251340 original size:10 final size:10
Alignment explanation
Indices: 2251325--2251349 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2251315 TGCTTTGATC
2251325 TCTTGATGCT
1 TCTTGATGCT
2251335 TCTTGATGCT
1 TCTTGATGCT
2251345 TCTTG
1 TCTTG
2251350 TTATTCTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.20, G:0.20, T:0.52
Consensus pattern (10 bp):
TCTTGATGCT
Found at i:2251597 original size:20 final size:20
Alignment explanation
Indices: 2251569--2251607 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2251559 CTATGTATCG
2251569 ATACAATGTATCGATACAAT
1 ATACAATGTATCGATACAAT
*
2251589 ATACCATGTATCGATACAA
1 ATACAATGTATCGATACAA
2251608 ATAGTAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.18, G:0.10, T:0.28
Consensus pattern (20 bp):
ATACAATGTATCGATACAAT
Found at i:2251605 original size:13 final size:13
Alignment explanation
Indices: 2251561--2251588 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2251551 ACTTTTCACT
2251561 ATGTATCGATACA
1 ATGTATCGATACA
2251574 ATGTATCGATACA
1 ATGTATCGATACA
2251587 AT
1 AT
2251589 ATACCATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2251655 original size:13 final size:13
Alignment explanation
Indices: 2251637--2251663 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2251627 TGCCAGTTTC
2251637 ATGTATCGATACA
1 ATGTATCGATACA
2251650 ATGTATCGATACA
1 ATGTATCGATACA
2251663 A
1 A
2251664 AGCAATATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2256711 original size:149 final size:155
Alignment explanation
Indices: 2256401--2256768 Score: 423
Period size: 149 Copynumber: 2.4 Consensus size: 155
2256391 CTAAGTTCAA
* * * * * *
2256401 GAAAAATTATGAAAATGCTCATAAGGGATACCTTCGACGTAAAAGTACCCAATA-CCCTTAAAGA
1 GAAAAATTATGAAAATACCCCTAAGGGATACCTTCAATGTAAAAGTACCCAATACCCCTAAAAGA
* *
2256465 ACTTAAAAAAGATAATAGATGGAATGAACCTATCCTTAATATCTACCTTCAGCATAAAAACAGAC
66 ACTTAAAAAAGAGAATAGA-GGAATGAACCTATCCTAAATATCTACCTTCAGCATAAAAACAGAC
*
2256530 CTAGTGATAACCTAGGACTCGATTCT
130 CTAGTGACAACCTAGGACTCGATTCT
* *
2256556 -AGAAAATTACGAAAATACCCCTAGGGGATACCTTCAATGTAAAAGTACCCAATACCCCTAAAAG
1 GA-AAAATTATGAAAATACCCCTAAGGGATACCTTCAATGTAAAAGTACCCAATACCCCTAAAAG
* * ** * *
2256620 -A-TTTAAAAAG-GGAT-GA-G-ATGAACCTATCCTAAATATCTACCTTTGGCATAAAAGCGGA-
65 AACTTAAAAAAGAGAATAGAGGAATGAACCTATCCTAAATATCTACCTTCAGCATAAAAACAGAC
* * *
2256678 CTCGGTGACAACTTAGGACTCGATTTT
130 CT-AGTGACAACCTAGGACTCGATTCT
* * *
2256705 GAAAAATTATGAAAATGA-CCCTAAGGGATACTTTCAATGTAAAAATACCCGATACCCCTAAAAG
1 GAAAAATTATGAAAAT-ACCCCTAAGGGATACCTTCAATGTAAAAGTACCCAATACCCCTAAAAG
2256769 GACTCAAGAT
Statistics
Matches: 183, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
148 2 0.01
149 111 0.61
150 3 0.02
152 2 0.01
153 2 0.01
154 9 0.05
155 46 0.25
156 8 0.04
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (155 bp):
GAAAAATTATGAAAATACCCCTAAGGGATACCTTCAATGTAAAAGTACCCAATACCCCTAAAAGA
ACTTAAAAAAGAGAATAGAGGAATGAACCTATCCTAAATATCTACCTTCAGCATAAAAACAGACC
TAGTGACAACCTAGGACTCGATTCT
Done.