Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 73 of 226
Found at i:27298408 original size:101 final size:99
Alignment explanation
Indices: 27298199--27298384 Score: 239
Period size: 101 Copynumber: 1.8 Consensus size: 99
27298189 TGTTCGGTTC
* *
27298199 ACATAGTAGCCTGCACATAGTACTACACATGTAACCATTACCATCTAATACACGTAGTAGCCTAC
1 ACATAGTAGCCTACACATAGTACTACACATGCAACCA-TACCATCTAATACACGTAGTAGCCTAC
* *
27298264 ACATAGTACTACACGCGTGATCGAAACTATCCGGT
65 ACATAGTACTACACACGTGATCCAAACTATCCGGT
* * **
27298299 ACGCATAGTAGTCTACACATAGTACTACACATGCAACC-TATCATTCTGGTACACGTAGTAGCCT
1 A--CATAGTAGCCTACACATAGTACTACACATGCAACCATACCA-TCTAATACACGTAGTAGCCT
* *
27298363 GCACATAGTACTACACATGTGA
63 ACACATAGTACTACACACGTGA
27298385 CCATCACTTT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
100 5 0.07
101 37 0.50
102 32 0.43
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (99 bp):
ACATAGTAGCCTACACATAGTACTACACATGCAACCATACCATCTAATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCCAAACTATCCGGT
Found at i:27301043 original size:25 final size:25
Alignment explanation
Indices: 27301008--27301076 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
27300998 ATTCATGTAT
27301008 GCTCATGCGAGCTGAATAACGGAAA
1 GCTCATGCGAGCTGAATAACGGAAA
* * * *
27301033 GCTCATACGAGCTGAGTATCGGGAA
1 GCTCATGCGAGCTGAATAACGGAAA
*
27301058 GCTCATGTGAGCTGAATAA
1 GCTCATGCGAGCTGAATAA
27301077 TGGGAAGTTC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.20
Consensus pattern (25 bp):
GCTCATGCGAGCTGAATAACGGAAA
Found at i:27301081 original size:25 final size:25
Alignment explanation
Indices: 27301008--27301088 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
27300998 ATTCATGTAT
* *
27301008 GCTCATGCGAGCTGAATAACGGAAA
1 GCTCATGCGAGCTGAATAATGGGAA
* *
27301033 GCTCATACGAGCTGAGT-ATCGGGAA
1 GCTCATGCGAGCTGAATAAT-GGGAA
*
27301058 GCTCATGTGAGCTGAATAATGGGAA
1 GCTCATGCGAGCTGAATAATGGGAA
*
27301083 GTTCAT
1 GCTCAT
27301089 TTCAGCTGTG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 43 0.93
26 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (25 bp):
GCTCATGCGAGCTGAATAATGGGAA
Found at i:27310068 original size:21 final size:21
Alignment explanation
Indices: 27310044--27310087 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
27310034 GATTTAATAC
27310044 ACGAGTTAGCTAAATTAAGTT
1 ACGAGTTAGCTAAATTAAGTT
27310065 ACGAGTTAGCTAAATTAAGTT
1 ACGAGTTAGCTAAATTAAGTT
27310086 AC
1 AC
27310088 AACGATCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (21 bp):
ACGAGTTAGCTAAATTAAGTT
Found at i:27313313 original size:24 final size:25
Alignment explanation
Indices: 27313272--27313323 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
27313262 ATGATTTATC
* *
27313272 TTTGTTTTTTTTGGAAAAA-CGGAA
1 TTTGTTTTTTTTGAAAAAATCAGAA
27313296 TTTGTTTTGTTTT-AAAAAATCAGAA
1 TTTGTTTT-TTTTGAAAAAATCAGAA
27313321 TTT
1 TTT
27313324 AAAAATGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (25 bp):
TTTGTTTTTTTTGAAAAAATCAGAA
Found at i:27313314 original size:25 final size:24
Alignment explanation
Indices: 27313272--27313323 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
27313262 ATGATTTATC
** *
27313272 TTTGTTTTTTTTGGAAAAACGGAA
1 TTTGTTTTTTTTAAAAAAACAGAA
*
27313296 TTTGTTTTGTTTTAAAAAATCAGAA
1 TTTGTTTT-TTTTAAAAAAACAGAA
27313321 TTT
1 TTT
27313324 AAAAATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (24 bp):
TTTGTTTTTTTTAAAAAAACAGAA
Found at i:27313389 original size:155 final size:153
Alignment explanation
Indices: 27313055--27313569 Score: 641
Period size: 154 Copynumber: 3.3 Consensus size: 153
27313045 ATCAGCGGCT
* * *
27313055 GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTAG-ATGGGCCACTAAATGCAACTTCCTTT-
1 GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCT-GCATGGGCCATTAAATG--ATTTACTTTG
* * * *
27313118 ATTTTTTTGGGAAAACGGCAACGTTT-TATATT-ATTTATTAAAACAGAATTT-AGAATGAAAAT
63 TTTTTTTTGGAAAAACGG-AA--TTTGT-T-TTGATTTA-AAAAACAGAATTTAAAAATGAAAA-
*
27313180 CAACGGCCTATTAGCTCAGCTGGTTAGAGCGTC
121 CAAAGGCCTATTAGCTCAGCTGGTTAGAGCGTC
27313213 GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTGCATGGGCCATTAAATGATTTATCTTTGTT
1 GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTGCATGGGCCATTAAATGATTTA-CTTTGTT
* *
27313278 TTTTTTGGAAAAACGGAATTTGTTTTGTTTTAAAAAATCAGAATTTAAAAATGACAACAAAGGCC
65 TTTTTTGGAAAAACGGAATTTGTTTTGATTTAAAAAA-CAGAATTTAAAAATGAAAACAAAGGCC
27313343 TATTAGCTCAGCTGGTTAGAGCGTC
129 TATTAGCTCAGCTGGTTAGAGCGTC
* * * * *
27313368 GTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTGCATGGGCCATT-AGTAATTCA-TTTGTAG
1 GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTGCATGGGCCATTAAATGATTTACTTTGT-T
* * * *
27313431 TTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAAAACA-AATTTTTAAAAACTGATAAGAAAGG
65 TTTTTTGGAAAAACGGAATTTGTTTTGATTTAAAAAACAGAA--TTTAAAAA-TGAAAACAAAGG
*
27313495 CCTATTAGCTCAGTTGGTTAGAGCGTC
127 CCTATTAGCTCAGCTGGTTAGAGCGTC
*
27313522 GTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTGCATGGGCCATTA
1 GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTGCATGGGCCATTA
27313570 GTATTTCATT
Statistics
Matches: 325, Mismatches: 20, Indels: 27
0.87 0.05 0.07
Matches are distributed among these distances:
151 2 0.01
152 7 0.02
153 43 0.13
154 95 0.29
155 94 0.29
156 12 0.04
157 7 0.02
158 65 0.20
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (153 bp):
GTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTGCATGGGCCATTAAATGATTTACTTTGTTT
TTTTTGGAAAAACGGAATTTGTTTTGATTTAAAAAACAGAATTTAAAAATGAAAACAAAGGCCTA
TTAGCTCAGCTGGTTAGAGCGTC
Found at i:27313552 original size:154 final size:151
Alignment explanation
Indices: 27313184--27313657 Score: 650
Period size: 154 Copynumber: 3.1 Consensus size: 151
27313174 GAAAATCAAC
*
27313184 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAAACCTG
1 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
* * * * *
27313249 CATGGGCCATTAAATGATTTATCTTTGTTTTTTTTGGAAAAACGGAATTTGTTTTGTTTTAAAAA
66 CATGGGCCATT-AGTAATTCA--TTTGTTTTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAAA
* *
27313314 ATCAGAATTTAAAAA-TGACAACAAA
128 A-CA-AATTTAAAAACTGATAAGAAA
27313339 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
1 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
*
27313404 CATGGGCCATTAGTAATTCATTTGTAGTTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAAAAC
66 CATGGGCCATTAGTAATTCATTTGT-TTTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAAAAC
27313469 AAATTTTTAAAAACTGATAAGAAA
130 AAA--TTTAAAAACTGATAAGAAA
*
27313493 GGCCTATTAGCTCAGTTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
1 GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
* * * *
27313558 CATGGGCCATTAGTATTTCATTTTTTTTTACTTTTCGG-AAAACGGCAA-CGTTTTTGCTTTAGA
66 CATGGGCCATTAGTAATTCA-TTTGTTTT--TTTT-GGAAAAACGGAAATTG-TTTTGCTTT--A
*
27313621 AAAAACGAATTTAAAAACTGATAAG-AA
124 AAAAACAAATTTAAAAACTGATAAGAAA
27313648 GGCCTATTAG
1 GGCCTATTAG
27313658 GTGCTAATAA
Statistics
Matches: 292, Mismatches: 16, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
151 2 0.01
152 7 0.02
153 43 0.15
154 99 0.34
155 92 0.32
156 38 0.13
157 2 0.01
158 9 0.03
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (151 bp):
GGCCTATTAGCTCAGCTGGTTAGAGCGTCGTGCTAATAACGCGAAGGTCGCAGGTTCGAGACCTG
CATGGGCCATTAGTAATTCATTTGTTTTTTTTGGAAAAACGGAAATTGTTTTGCTTTAAAAAACA
AATTTAAAAACTGATAAGAAA
Found at i:27315284 original size:11 final size:11
Alignment explanation
Indices: 27315268--27315298 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
27315258 TATAGACAAC
27315268 GCCGCTAAATT
1 GCCGCTAAATT
27315279 GCCGCTAAATT
1 GCCGCTAAATT
27315290 GCCGCTAAA
1 GCCGCTAAA
27315299 AATCATGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (11 bp):
GCCGCTAAATT
Found at i:27315351 original size:43 final size:43
Alignment explanation
Indices: 27315290--27315430 Score: 155
Period size: 43 Copynumber: 3.3 Consensus size: 43
27315280 CCGCTAAATT
* *
27315290 GCCGCTAAA-AATCATGACCTATAGCGGTGCTTTTATCACAAAC
1 GCCGCTAAAGAA-CATGACCTTTAGCGGCGCTTTTATCACAAAC
* * *
27315333 GCCGCTAAAGACCATGACCTTTAGCGACACTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
* * * **
27315376 GCCGCTATAGAACA-AACCTTTAGCGGCGCTTCTCGCA-AAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
27315417 GCCGCTAAA-AACAT
1 GCCGCTAAAGAACAT
27315431 AACATTTAAA
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
40 4 0.05
41 12 0.15
42 17 0.21
43 48 0.59
44 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
Found at i:27315655 original size:43 final size:43
Alignment explanation
Indices: 27315574--27315702 Score: 199
Period size: 43 Copynumber: 3.0 Consensus size: 43
27315564 TCTATGAAAA
*
27315574 TTTTATCACAAACGCTGCTAAA-AACATGACCTTTAGCGGTGC
1 TTTTATCACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGC
*
27315616 TTTTGTCACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGC
1 TTTTATCACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGC
* * *
27315659 TTTTATCACAAACGCAGCTATAGAACA-AACCTTTAGCGGCGC
1 TTTTATCACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGC
27315701 TT
1 TT
27315703 CTCGCAAAAG
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
42 37 0.46
43 43 0.54
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
TTTTATCACAAACGCTGCTAAAGAACATGACCTTTAGCGGCGC
Found at i:27315828 original size:297 final size:298
Alignment explanation
Indices: 27315293--27315876 Score: 1064
Period size: 297 Copynumber: 2.0 Consensus size: 298
27315283 CTAAATTGCC
*
27315293 GCTAAAAATCATGACCTATAGCGGTGCTTTTATCACAAACGCCGCTAAAGACCATGACCTTTAGC
1 GCTAAAAATCATGACCTATAGCGGTGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGC
*
27315358 GACACTTTTATCACAAACGCCGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAACGCCGCT
66 GACACTTTTATCACAAACGCAGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAACGCCGCT
*
27315423 AAAAACATAACATTTAAAAAAATTATTTTAATCAAATAATATTTATTTTTATGATAAATATTATA
131 AAAAACATAACATTTAAAAAAAATATTTTAATCAAATAATATTTATTTTTATGATAAATATTATA
*
27315488 TTATGTTTTATTTTTTAAATTTTAACTTTAAATATATTTTTAAGGATAAAT-AAAAAATATTATT
196 TTATGTTTTATTTTTTAAATTTTAACTTTAAATATACTTTTAAGGATAAATAAAAAAATATTATT
27315552 TAAATTAAATTTTCTATGAAAATTTTATCACAAACGCT
261 TAAATTAAATTTTCTATGAAAATTTTATCACAAACGCT
* * *
27315590 GCTAAAAA-CATGACCTTTAGCGGTGCTTTTGTCACAAACGCTGCTAAAGAACATGACCTTTAGC
1 GCTAAAAATCATGACCTATAGCGGTGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGC
* *
27315654 GGCGCTTTTATCACAAACGCAGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAAGCGCCGC
66 GACACTTTTATCACAAACGCAGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAA-CGCCGC
27315719 TAAAAACATAACATTTAAAAAAAATATTTTAATCAAATAATATTTATTTTTATGATAAATATTAT
130 TAAAAACATAACATTTAAAAAAAATATTTTAATCAAATAATATTTATTTTTATGATAAATATTAT
27315784 ATTATGTTTTATTTTTTAAATTTTAACTTTAAATATACTTTTAAGGATAAATAAAAAAATATTAT
195 ATTATGTTTTATTTTTTAAATTTTAACTTTAAATATACTTTTAAGGATAAATAAAAAAATATTAT
27315849 TTAAATTAAATTTTCTATGAAAATTTTA
260 TTAAATTAAATTTTCTATGAAAATTTTA
27315877 ACTTTAAAAC
Statistics
Matches: 276, Mismatches: 9, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
296 107 0.39
297 129 0.47
298 40 0.14
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (298 bp):
GCTAAAAATCATGACCTATAGCGGTGCTTTTATCACAAACGCCGCTAAAGAACATGACCTTTAGC
GACACTTTTATCACAAACGCAGCTATAGAACAAACCTTTAGCGGCGCTTCTCGCAAAACGCCGCT
AAAAACATAACATTTAAAAAAAATATTTTAATCAAATAATATTTATTTTTATGATAAATATTATA
TTATGTTTTATTTTTTAAATTTTAACTTTAAATATACTTTTAAGGATAAATAAAAAAATATTATT
TAAATTAAATTTTCTATGAAAATTTTATCACAAACGCT
Found at i:27319473 original size:24 final size:24
Alignment explanation
Indices: 27319441--27319487 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
27319431 CTAAATTTAT
*
27319441 AACACTTTCCTTTC-CTTTCTCTTC
1 AACACTTTCC-ATCACTTTCTCTTC
*
27319465 AACATTTTCCATCACTTTCTCTT
1 AACACTTTCCATCACTTTCTCTT
27319488 ATTTCCCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.17, C:0.34, G:0.00, T:0.49
Consensus pattern (24 bp):
AACACTTTCCATCACTTTCTCTTC
Found at i:27321136 original size:16 final size:16
Alignment explanation
Indices: 27321115--27321153 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
27321105 AGCTTTCGTT
27321115 TGACATTACAATTAGC
1 TGACATTACAATTAGC
27321131 TGACATTACAATTAGC
1 TGACATTACAATTAGC
*
27321147 TAACATT
1 TGACATT
27321154 CTCATAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (16 bp):
TGACATTACAATTAGC
Found at i:27321304 original size:53 final size:53
Alignment explanation
Indices: 27321231--27321336 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
27321221 ATATATAGAA
27321231 TATCCAGAAAAAAAATCATCGTGTTCATTTTGATTGTAATCGTCACATATAGG
1 TATCCAGAAAAAAAATCATCGTGTTCATTTTGATTGTAATCGTCACATATAGG
27321284 TATCCAGAAAAAAAATCATCGTGTTCATTTTGATTGTAATCGTCACATATAGG
1 TATCCAGAAAAAAAATCATCGTGTTCATTTTGATTGTAATCGTCACATATAGG
27321337 CATCTTTACC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (53 bp):
TATCCAGAAAAAAAATCATCGTGTTCATTTTGATTGTAATCGTCACATATAGG
Found at i:27321597 original size:49 final size:49
Alignment explanation
Indices: 27321542--27321642 Score: 132
Period size: 49 Copynumber: 2.1 Consensus size: 49
27321532 CTCATTTTCT
* * * *
27321542 CGATGCCATAGTCCAACTATGGTCTTACATGTAATCACATATCA-TATAC
1 CGATGCCATAGACCAACTATGGTCCTACACGGAATCACATATCACT-TAC
* *
27321591 CGATGCCATAGACCAGCTATGGTCCTATACGGAATCACATATCACTTAC
1 CGATGCCATAGACCAACTATGGTCCTACACGGAATCACATATCACTTAC
27321640 CGA
1 CGA
27321643 AAGTACTCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
49 44 0.98
50 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (49 bp):
CGATGCCATAGACCAACTATGGTCCTACACGGAATCACATATCACTTAC
Found at i:27322461 original size:33 final size:34
Alignment explanation
Indices: 27322410--27322618 Score: 129
Period size: 33 Copynumber: 5.7 Consensus size: 34
27322400 TTATCCGTTA
* *
27322410 TCGGTGGATTCAGCACTTAGCAACCACCAGTGAT
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
27322444 TCGG-GGAATCAGCACTTAGCAACCCCTTTCATATTCAATGAT
1 TCGGTGGAATCAGCACTTAGCAA---C---C--A-CCAATGAT
* *
27322486 ACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
27322520 TCGG-GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGAT
1 TCGGTGGAATCAGCACTTAGCAACCAC---CA-A--T--GAT
* * * *
27322561 ACGGTGGGATTAGCACTTAGCAACCACCAATGAA
1 TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
*
27322595 TC-GAGGAATC-GACACTTAGCAACC
1 TCGGTGGAATCAG-CACTTAGCAACC
27322619 CTTTGGGGGA
Statistics
Matches: 137, Mismatches: 18, Indels: 41
0.70 0.09 0.21
Matches are distributed among these distances:
32 1 0.01
33 55 0.40
34 16 0.12
35 1 0.01
36 4 0.03
37 2 0.01
38 1 0.01
39 4 0.03
40 1 0.01
41 6 0.04
42 28 0.20
43 18 0.13
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (34 bp):
TCGGTGGAATCAGCACTTAGCAACCACCAATGAT
Found at i:27322509 original size:43 final size:39
Alignment explanation
Indices: 27322445--27322585 Score: 141
Period size: 33 Copynumber: 3.6 Consensus size: 39
27322435 ACCAGTGATT
27322445 CGGGGAATCAGCACTTAGCAACCCCTTTCATATTCAATGATA
1 CGGGGAATCAGCACTTAGCAACCCCTTTCA-ATT-AA-GATA
* *
27322487 CGGTGGAATCAGCACTTAGCAACCAC---CAA-TGA-AT-
1 CGG-GGAATCAGCACTTAGCAACCCCTTTCAATTAAGATA
27322521 CGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATA
1 CGGGGAATCAGCACTTAGCAACCCCTTTCA-A-TTAAGATA
* *
27322562 CGGTGGGATTAGCACTTAGCAACC
1 CGG-GGAATCAGCACTTAGCAACC
27322586 ACCAATGAAT
Statistics
Matches: 83, Mismatches: 6, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
33 21 0.25
34 3 0.04
35 2 0.02
36 2 0.02
37 2 0.02
38 1 0.01
39 3 0.04
40 4 0.05
41 3 0.04
42 21 0.25
43 21 0.25
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (39 bp):
CGGGGAATCAGCACTTAGCAACCCCTTTCAATTAAGATA
Found at i:27322537 original size:76 final size:75
Alignment explanation
Indices: 27322411--27322619 Score: 321
Period size: 76 Copynumber: 2.8 Consensus size: 75
27322401 TATCCGTTAT
* * * *
27322411 CGGTGGATTCAGCACTTAGCAACCACCAGTGATTCGGGGAATCAGCACTTAGCAACCCCTTTCAT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
27322476 ATTCAATGATA
66 ATTCAA-GATA
27322487 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
*
27322552 ATTTAAGATA
66 ATTCAAGATA
* * *
27322562 CGGTGGGATTAGCACTTAGCAACCACCAATGAATCGAGGAATC-GACACTTAGCAACCC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAG-CACTTAGCAACCC
27322620 TTTGGGGGAA
Statistics
Matches: 124, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
74 1 0.01
75 57 0.46
76 66 0.53
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.22
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTCAAGATA
Found at i:27322749 original size:51 final size:50
Alignment explanation
Indices: 27322671--27322809 Score: 172
Period size: 50 Copynumber: 2.8 Consensus size: 50
27322661 GATATCGGTT
*
27322671 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGC-TATCCAGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAGCAT-TCCAGTA
* * * * * **
27322722 CGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCATTCCAGTA
*
27322772 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA
27322810 TCACTTTCAC
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
50 41 0.55
51 33 0.45
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCATTCCAGTA
Found at i:27326270 original size:29 final size:29
Alignment explanation
Indices: 27326233--27326289 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
27326223 AACATGAAAC
27326233 AACTAATCTATTAAGCAAGTCAGAAAATT
1 AACTAATCTATTAAGCAAGTCAGAAAATT
*
27326262 AACTCATCTATTAAGCAAGTCAGAAAAT
1 AACTAATCTATTAAGCAAGTCAGAAAAT
27326290 CAAAAGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (29 bp):
AACTAATCTATTAAGCAAGTCAGAAAATT
Found at i:27326932 original size:26 final size:26
Alignment explanation
Indices: 27326896--27326948 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
27326886 AAAACCACCC
27326896 TTCACTTGTCCTTCTATAAATTAGAT
1 TTCACTTGTCCTTCTATAAATTAGAT
27326922 TTCACTTGTCCTTCTATAAATTAGAT
1 TTCACTTGTCCTTCTATAAATTAGAT
27326948 T
1 T
27326949 ATCCAAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.08, T:0.47
Consensus pattern (26 bp):
TTCACTTGTCCTTCTATAAATTAGAT
Found at i:27327615 original size:15 final size:15
Alignment explanation
Indices: 27327595--27327629 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
27327585 ATGACGAACC
27327595 GCTCGTCTCAAGTTT
1 GCTCGTCTCAAGTTT
27327610 GCTCGTCTCAAGTTT
1 GCTCGTCTCAAGTTT
27327625 GCTCG
1 GCTCG
27327630 AAAAGCCTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.29, G:0.23, T:0.37
Consensus pattern (15 bp):
GCTCGTCTCAAGTTT
Found at i:27328229 original size:41 final size:41
Alignment explanation
Indices: 27328184--27328302 Score: 157
Period size: 41 Copynumber: 2.9 Consensus size: 41
27328174 TGCTCGACTT
* *
27328184 TTAGCGACCCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCA
* **
27328225 TTAGCGGCGATTCTTTTAAAACGCCGCTAAAGCCCTGAGCA
1 TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCA
* *
27328266 TTAGCGGCGCTTTTTCAAAAAAACGCCACTAAAGCCC
1 TTAGCGGCGCTTCTTC--AAAAACGCCGCTAAAGCCC
27328303 AAAAAACTCA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
41 49 0.74
43 17 0.26
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGCCCTGAGCA
Found at i:27328912 original size:56 final size:58
Alignment explanation
Indices: 27328833--27328940 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 58
27328823 AATCAAATGA
* *
27328833 AGAAATAGAAAACATTTGGAAATGATTAAGCTTTTCTCC-AAATAAAAATGAACATGG
1 AGAAATAGAAAACATTTGAAAATGAATAAGCTTTTCTCCAAAATAAAAATGAACATGG
* ** * *
27328890 AGAAAT-GAAAATATTTGAAAATGAATGTGGTTTTCTCCAAAATGAAAATGA
1 AGAAATAGAAAACATTTGAAAATGAATAAGCTTTTCTCCAAAATAAAAATGA
27328941 CAATGAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 26 0.60
57 17 0.40
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.28
Consensus pattern (58 bp):
AGAAATAGAAAACATTTGAAAATGAATAAGCTTTTCTCCAAAATAAAAATGAACATGG
Found at i:27328952 original size:56 final size:54
Alignment explanation
Indices: 27328817--27328954 Score: 132
Period size: 56 Copynumber: 2.4 Consensus size: 54
27328807 AATGAATCGC
* * *
27328817 ATAATAAATCAAATGAAGAAATAGAAAACATTTGGAAATGATTAAGCTTTTCTCCAA
1 ATAA-AAATGAAATGAA-AAAT-GAAAACATTTGAAAATGAATAAGCTTTTCTCCAA
* * ** *
27328874 ATAAAAATGAACATGGAGAAATGAAAATATTTGAAAATGAATGTGGTTTTCTCCAAA
1 ATAAAAATGAA-AT-GAAAAATGAAAACATTTGAAAATGAATAAGCTTTTCTCC-AA
*
27328931 ATGAAAATGACAATGAAAAATGAA
1 ATAAAAATGA-AATGAAAAATGAA
27328955 TTTATATTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
56 41 0.61
57 23 0.34
58 3 0.04
ACGTcount: A:0.51, C:0.08, G:0.15, T:0.26
Consensus pattern (54 bp):
ATAAAAATGAAATGAAAAATGAAAACATTTGAAAATGAATAAGCTTTTCTCCAA
Found at i:27334034 original size:22 final size:22
Alignment explanation
Indices: 27334009--27334051 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
27333999 TATCCAAACA
27334009 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
27334031 ATAATAGTGAAATAGTAGCAA
1 ATAACAATAAAATAGTAGCAA
27334052 AACAGTGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:27336753 original size:9 final size:9
Alignment explanation
Indices: 27336723--27336762 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
27336713 ATTAATTTTT
27336723 TAAAATTTA
1 TAAAATTTA
*
27336732 -AAAATTCA
1 TAAAATTTA
*
27336740 AAAAATTTA
1 TAAAATTTA
27336749 TAAAATTTA
1 TAAAATTTA
27336758 TAAAA
1 TAAAA
27336763 AATTTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAATTTA
Found at i:27336770 original size:9 final size:9
Alignment explanation
Indices: 27336724--27336799 Score: 64
Period size: 10 Copynumber: 8.1 Consensus size: 9
27336714 TTAATTTTTT
27336724 AAAATTT-A
1 AAAATTTAA
*
27336732 AAAATTCAA
1 AAAATTTAA
27336741 AAAATTTATA
1 AAAATTTA-A
*
27336751 AAATTTATAA
1 AAAATT-TAA
27336761 AAAATTTAA
1 AAAATTTAA
*
27336770 AAAACATTAA
1 AAAA-TTTAA
*
27336780 AATGATTTAA
1 AA-AATTTAA
*
27336790 AAAATATAA
1 AAAATTTAA
27336799 A
1 A
27336800 CAAAACTGAT
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
8 6 0.11
9 21 0.39
10 24 0.44
11 3 0.06
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
AAAATTTAA
Found at i:27336770 original size:18 final size:17
Alignment explanation
Indices: 27336724--27336771 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
27336714 TTAATTTTTT
27336724 AAAATTTAAAAATTCAAA
1 AAAATTT-AAAATTCAAA
* *
27336742 AAATTTATAAAATTTATAA
1 AAAATT-TAAAATTCA-AA
27336761 AAAATTTAAAA
1 AAAATTTAAAA
27336772 AACATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATTTAAAATTCAAA
Found at i:27338329 original size:23 final size:24
Alignment explanation
Indices: 27338278--27338330 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
27338268 TAAATTTTAT
27338278 TTGATAAATGTTTTGATATAATAAA
1 TTGAT-AATGTTTTGATATAATAAA
27338303 --GATAATGTTTTTGA-ATAA-AAA
1 TTGATAATG-TTTTGATATAATAAA
27338324 TTGATAA
1 TTGATAA
27338331 ATTTCAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 3 0.12
22 8 0.32
23 14 0.56
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (24 bp):
TTGATAATGTTTTGATATAATAAA
Found at i:27340089 original size:8 final size:8
Alignment explanation
Indices: 27340076--27340110 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
27340066 AAAAAATCGT
27340076 AATAATAA
1 AATAATAA
27340084 AATAATAA
1 AATAATAA
27340092 AATAATAA
1 AATAATAA
27340100 GAGATAATAA
1 -A-ATAATAA
27340110 A
1 A
27340111 CACAATATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 16 0.64
9 2 0.08
10 7 0.28
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (8 bp):
AATAATAA
Found at i:27349160 original size:14 final size:14
Alignment explanation
Indices: 27349137--27349176 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
27349127 ACAGAAAAGT
*
27349137 AAAACATTTTTCAG
1 AAAACATTTTACAG
* *
27349151 AAATCATTTTACGG
1 AAAACATTTTACAG
27349165 AAAACATTTTAC
1 AAAACATTTTAC
27349177 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.35
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:27349160 original size:34 final size:35
Alignment explanation
Indices: 27349102--27349168 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
27349092 CAAACACCAG
* *
27349102 AAAATATTTTCCAGTAAATTATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
27349137 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
27349169 CATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:27350297 original size:22 final size:22
Alignment explanation
Indices: 27350269--27350337 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
27350259 GACATAGGGT
27350269 ATGGCTAACGTACTAAGCTCTC
1 ATGGCTAACGTACTAAGCTCTC
27350291 ATGGCTAACGTACTAAGCTCTC
1 ATGGCTAACGTACTAAGCTCTC
** *
27350313 ATGTTTCACGTACTAAGCTCTC
1 ATGGCTAACGTACTAAGCTCTC
27350335 ATG
1 ATG
27350338 TTTGAACAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (22 bp):
ATGGCTAACGTACTAAGCTCTC
Found at i:27353084 original size:24 final size:24
Alignment explanation
Indices: 27353034--27353084 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
27353024 TTTAAATATG
*
27353034 AAAGGATGTTTTAGTAATTTTATT
1 AAAGGATGTTTTAGTAATTTTACT
*
27353058 AAAGGATGTTTTAGTAATTTTCCT
1 AAAGGATGTTTTAGTAATTTTACT
27353082 AAA
1 AAA
27353085 TAAGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (24 bp):
AAAGGATGTTTTAGTAATTTTACT
Found at i:27355262 original size:45 final size:45
Alignment explanation
Indices: 27355211--27355298 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
27355201 GACTTTGTCT
27355211 CTTTGACCTTTTATGACTCAAAATTATCACTGAAAACATATTGTA
1 CTTTGACCTTTTATGACTCAAAATTATCACTGAAAACATATTGTA
*
27355256 CTTTGACCTTTTGTGACTCAAAATTATCACTGAAAACATATTG
1 CTTTGACCTTTTATGACTCAAAATTATCACTGAAAACATATTG
27355299 CATTAGAGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (45 bp):
CTTTGACCTTTTATGACTCAAAATTATCACTGAAAACATATTGTA
Found at i:27359074 original size:41 final size:42
Alignment explanation
Indices: 27358990--27359075 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 42
27358980 TTTCATAATT
* * * * * *
27358990 AAAACAGAGCCCAAAAAATTGAAGAGACCCAACGCACACGGA
1 AAAACAGAGCCCAAAAAACTAAACAGACCCAAAGAACAAGGA
*
27359032 AAAACAGAGCCC-AAAAACTAAACAGGCCCAAAGAACAAGGA
1 AAAACAGAGCCCAAAAAACTAAACAGACCCAAAGAACAAGGA
27359073 AAA
1 AAA
27359076 GTCCAAACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 25 0.68
42 12 0.32
ACGTcount: A:0.55, C:0.24, G:0.17, T:0.03
Consensus pattern (42 bp):
AAAACAGAGCCCAAAAAACTAAACAGACCCAAAGAACAAGGA
Found at i:27365294 original size:12 final size:12
Alignment explanation
Indices: 27365270--27365307 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
27365260 ATTAAAATGG
27365270 AAGAAAAAGTTAA
1 AAGAAAAA-TTAA
*
27365283 ATGAAAAATTAA
1 AAGAAAAATTAA
27365295 AAGAAAAA-TAA
1 AAGAAAAATTAA
27365306 AA
1 AA
27365308 CGTCGTCGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 5 0.22
12 11 0.48
13 7 0.30
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.16
Consensus pattern (12 bp):
AAGAAAAATTAA
Found at i:27373141 original size:3 final size:3
Alignment explanation
Indices: 27373133--27373166 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
27373123 ATCCATCACA
27373133 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
27373167 CAATTTCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27374210 original size:15 final size:15
Alignment explanation
Indices: 27374190--27374241 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
27374180 ACTACAAGAC
27374190 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
27374205 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
27374224 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
27374239 ATT
1 ATT
27374242 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:27383961 original size:167 final size:165
Alignment explanation
Indices: 27383401--27384472 Score: 1550
Period size: 167 Copynumber: 6.5 Consensus size: 165
27383391 CGTTACGATT
27383401 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* *** * * * * *
27383466 TAATAGGCCGTTGATATTCTAACCTAAATTCTGTTCTACTAAATAC--TAACATGTTGCGGTGTT
66 TAATAGGCCGTTGATACTCCCGCTTAAATTCTGTTTTAATAAATACTGTAACAGGTTGC-GTTTT
* *
27383529 CCAAAAAACAAAAAATAAAG--GAAAAAGCCACTAA
130 CCAAAAAACAAAAAATAAAGAAAAAAAAGCCATTAA
27383563 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* *** * * ** * *
27383628 TAATAGGCCGTTGATATTCTAACCTAAATTCTGTTCTGCTAAATAC--TAACATGTTGCGGTGTT
66 TAATAGGCCGTTGATACTCCCGCTTAAATTCTGTTTTAATAAATACTGTAACAGGTTGC-GTTTT
* *
27383691 CCAAAAAACAAAAAATAAAG--GAAAAAGCCACTAA
130 CCAAAAAACAAAAAATAAAGAAAAAAAAGCCATTAA
27383725 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * *
27383790 TAATAGGCCGCTGATATTCCCGCTAAAATTCTATTTTAATAAATACTGTAACAGGTTGACGTTTT
66 TAATAGGCCGTTGATACTCCCGCTTAAATTCTGTTTTAATAAATACTGTAACAGGTTG-CGTTTT
27383855 CCAAAAAACAAAAAATAAAGCAAAAAAAAGCCATTAA
130 CCAAAAAACAAAAAATAAAG-AAAAAAAAGCCATTAA
27383892 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * * * *
27383957 TAATAGGCCGTCGATACTGCTGTTTAAATTTTGTTTAAATAAATACTGTAACAGGTTGACGTTTT
66 TAATAGGCCGTTGATACTCCCGCTTAAATTCTGTTTTAATAAATACTGTAACAGGTTG-CGTTTT
27384022 CCAAAAAACAAAAAATAAAGACAAAAAAAGCCATTAA
130 CCAAAAAACAAAAAATAAAGA-AAAAAAAGCCATTAA
*
27384059 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACAACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
* * * * **
27384124 TAATAGGCCGTCGATACTGCTGCTTAAATTTTGTTGAAATAAATACTGTAACAGGTTGCCGTTTT
66 TAATAGGCCGTTGATACTCCCGCTTAAATTCTGTTTTAATAAATACTGTAACAGGTTG-CGTTTT
27384189 CCAAAAAACAAAAAATAAAGAAAAAAAAGCCATTAAA
130 CCAAAAAACAAAAAATAAAGAAAAAAAAGCCATT-AA
27384226 TGGCCCATGCAGGTCTCGAACCGACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCT
1 TGGCCCATGCAGGTCTCG-A---ACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCT
* * *
27384291 GAGCTAATAGGCCGTTGATACTCCCGCTTAAATTTTGTTTTAATAAATACTATAACAGGTTTCCG
62 GAGCTAATAGGCCGTTGATACTCCCGCTTAAATTCTGTTTTAATAAATACTGTAACAGG-TTGCG
*
27384356 TTTTCCAAAAAACAAAAAATAAAGAAAAAATA-CCATTAA
126 TTTTCCAAAAAACAAAAAATAAAGAAAAAAAAGCCATTAA
* *
27384395 TGGCCCATGCAGGTTTCGAACCTGTGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
1 TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
27384460 TAATAGGCCGTTG
66 TAATAGGCCGTTG
27384473 TGTACCCTTG
Statistics
Matches: 857, Mismatches: 40, Indels: 23
0.93 0.04 0.03
Matches are distributed among these distances:
162 262 0.31
164 33 0.04
165 59 0.07
166 14 0.02
167 334 0.39
168 2 0.00
169 19 0.02
170 5 0.01
171 127 0.15
172 2 0.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (165 bp):
TGGCCCATGCAGGTCTCGAACCTGCGACCTTCGCGTTATTAGCACGACGCTCTAACCAGCTGAGC
TAATAGGCCGTTGATACTCCCGCTTAAATTCTGTTTTAATAAATACTGTAACAGGTTGCGTTTTC
CAAAAAACAAAAAATAAAGAAAAAAAAGCCATTAA
Found at i:27389799 original size:2 final size:2
Alignment explanation
Indices: 27389794--27389823 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
27389784 ATATATATAT
*
27389794 AG AG AG AG AG AG AG AG AG TG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
27389824 TAAAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.50, T:0.03
Consensus pattern (2 bp):
AG
Found at i:27390110 original size:31 final size:29
Alignment explanation
Indices: 27390075--27390139 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
27390065 CTTAAAATTT
* * *
27390075 TACATAAATTTTAGTTTAATGTGTAATTGTA
1 TACATAAATTTTAATTT--GGTGTAATTATA
*
27390106 TACATGAATTTTAATTTGGTGTAATTATA
1 TACATAAATTTTAATTTGGTGTAATTATA
27390135 TACAT
1 TACAT
27390140 GAAACTTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 15 0.50
31 15 0.50
ACGTcount: A:0.35, C:0.05, G:0.12, T:0.48
Consensus pattern (29 bp):
TACATAAATTTTAATTTGGTGTAATTATA
Found at i:27395023 original size:48 final size:50
Alignment explanation
Indices: 27394963--27395067 Score: 151
Period size: 50 Copynumber: 2.1 Consensus size: 50
27394953 TTATATCGTA
** **
27394963 ATAAATTTAAATTTAAC-AAAATTTTTTTATATATA-ACAAAAAAATTAC
1 ATAAATTTAAATTTAACAAAAAAATTTAAATATATATACAAAAAAATTAC
*
27395011 ATAAATTTAAATTTAACAAAAAAATTTAAATATATATATAAAAAAATTAC
1 ATAAATTTAAATTTAACAAAAAAATTTAAATATATATACAAAAAAATTAC
27395061 ATAAATT
1 ATAAATT
27395068 ATATGTTCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
48 17 0.34
49 14 0.28
50 19 0.38
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (50 bp):
ATAAATTTAAATTTAACAAAAAAATTTAAATATATATACAAAAAAATTAC
Found at i:27395070 original size:22 final size:22
Alignment explanation
Indices: 27395028--27395071 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
27395018 TAAATTTAAC
*
27395028 AAAAAAATTTAAATATATATAT
1 AAAAAAATTTAAATAAATATAT
*
27395050 AAAAAAA-TTACATAAATTATAT
1 AAAAAAATTTAAATAAA-TATAT
27395072 GTTCAAAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAAAAATTTAAATAAATATAT
Found at i:27395473 original size:22 final size:22
Alignment explanation
Indices: 27395445--27395498 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
27395435 ATATACATAG
*
27395445 GAAAAATATG-GAATAAAATTTT
1 GAAAAATATGTGAA-AAAATATT
27395467 GAAAAATTATGTTGAAAAAATATT
1 GAAAAA-TATG-TGAAAAAATATT
27395491 -AAAAATAT
1 GAAAAATAT
27395499 ATATAATAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 9 0.32
23 9 0.32
24 7 0.25
25 3 0.11
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (22 bp):
GAAAAATATGTGAAAAAATATT
Found at i:27395594 original size:19 final size:19
Alignment explanation
Indices: 27395555--27395595 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
27395545 TTGAAATATC
*
27395555 TTTATTATAAAAACATCAT
1 TTTATTATAAAAACATAAT
* *
27395574 TTTATTATAAATACCTAAT
1 TTTATTATAAAAACATAAT
27395593 TTT
1 TTT
27395596 TTTAAATGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTATTATAAAAACATAAT
Found at i:27423001 original size:161 final size:161
Alignment explanation
Indices: 27422736--27423057 Score: 635
Period size: 161 Copynumber: 2.0 Consensus size: 161
27422726 GTCGAATTTT
27422736 TCAACCTTACCTAGATAGATTTGTGGTTGTATTTATTGATGATATACTAATCTATTCCAAGATAG
1 TCAACCTTACCTAGATAGATTTGTGGTTGTATTTATTGATGATATACTAATCTATTCCAAGATAG
27422801 AAACCGAGCATGTACAACACTTGAGAATTGTGCTACAAATCTTGAGGGAGAAACAGTTGTATGCA
66 AAACCGAGCATGTACAACACTTGAGAATTGTGCTACAAATCTTGAGGGAGAAACAGTTGTATGCA
27422866 AAGTTTAGTAAATGTGAATTCTGGCTTCATG
131 AAGTTTAGTAAATGTGAATTCTGGCTTCATG
27422897 TCAACCTTACCTAGATAGATTTGTGGTTGTATTTATTGATGATATACTAATCTATTCCAAGATAG
1 TCAACCTTACCTAGATAGATTTGTGGTTGTATTTATTGATGATATACTAATCTATTCCAAGATAG
*
27422962 AAACCGAGCATGTACAGCACTTGAGAATTGTGCTACAAATCTTGAGGGAGAAACAGTTGTATGCA
66 AAACCGAGCATGTACAACACTTGAGAATTGTGCTACAAATCTTGAGGGAGAAACAGTTGTATGCA
27423027 AAGTTTAGTAAATGTGAATTCTGGCTTCATG
131 AAGTTTAGTAAATGTGAATTCTGGCTTCATG
27423058 AGGTCAAATT
Statistics
Matches: 160, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
161 160 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (161 bp):
TCAACCTTACCTAGATAGATTTGTGGTTGTATTTATTGATGATATACTAATCTATTCCAAGATAG
AAACCGAGCATGTACAACACTTGAGAATTGTGCTACAAATCTTGAGGGAGAAACAGTTGTATGCA
AAGTTTAGTAAATGTGAATTCTGGCTTCATG
Found at i:27423581 original size:12 final size:12
Alignment explanation
Indices: 27423564--27423588 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27423554 TTTACAAATC
27423564 ACAAAAGTTTGA
1 ACAAAAGTTTGA
27423576 ACAAAAGTTTGA
1 ACAAAAGTTTGA
27423588 A
1 A
27423589 ATACTTGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
ACAAAAGTTTGA
Found at i:27426463 original size:25 final size:25
Alignment explanation
Indices: 27426435--27426484 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
27426425 GGAGAAAATG
27426435 TATGATTTATTTACAATTAAATTTA
1 TATGATTTATTTACAATTAAATTTA
* *
27426460 TATGATTTATTTATAATTTAATTTA
1 TATGATTTATTTACAATTAAATTTA
27426485 ATTTATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (25 bp):
TATGATTTATTTACAATTAAATTTA
Found at i:27440801 original size:22 final size:22
Alignment explanation
Indices: 27440775--27440823 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
27440765 CAAATCCTAT
*
27440775 CTCAATTTCCTTCTAAAATTCA
1 CTCAATTTCCTTCCAAAATTCA
*
27440797 CTCAATTTCCTTCCAAAATTCT
1 CTCAATTTCCTTCCAAAATTCA
27440819 CTCAA
1 CTCAA
27440824 ACTCTCAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCAATTTCCTTCCAAAATTCA
Found at i:27440831 original size:30 final size:30
Alignment explanation
Indices: 27440797--27440853 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
27440787 CTAAAATTCA
*
27440797 CTCAATTTCCTTCCAAAATTCTCTCAAACT
1 CTCAATTTCCTTCCAAAATCCTCTCAAACT
27440827 CTCAATTTCCTTCCAAAATCCTCTCAA
1 CTCAATTTCCTTCCAAAATCCTCTCAA
27440854 TTTCCTTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.35, G:0.00, T:0.35
Consensus pattern (30 bp):
CTCAATTTCCTTCCAAAATCCTCTCAAACT
Found at i:27440831 original size:52 final size:52
Alignment explanation
Indices: 27440774--27440876 Score: 170
Period size: 52 Copynumber: 2.0 Consensus size: 52
27440764 ACAAATCCTA
* * *
27440774 TCTCAATTTCCTTCTAAAATTCACTCAATTTCCTTCCAAAATTCTCTCAAAC
1 TCTCAATTTCCTTCCAAAATCCACTCAATTTCCTTCCAAAAATCTCTCAAAC
*
27440826 TCTCAATTTCCTTCCAAAATCCTCTCAATTTCCTTCCAAAAATCTCTCAAA
1 TCTCAATTTCCTTCCAAAATCCACTCAATTTCCTTCCAAAAATCTCTCAAA
27440877 TCCATATTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.31, C:0.32, G:0.00, T:0.37
Consensus pattern (52 bp):
TCTCAATTTCCTTCCAAAATCCACTCAATTTCCTTCCAAAAATCTCTCAAAC
Found at i:27440850 original size:22 final size:22
Alignment explanation
Indices: 27440825--27440875 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
27440815 TTCTCTCAAA
27440825 CTCTCAATTTCCTTCC-AAAAT
1 CTCTCAATTTCCTTCCAAAAAT
27440846 CCTCTCAATTTCCTTCCAAAAAT
1 -CTCTCAATTTCCTTCCAAAAAT
27440869 CTCTCAA
1 CTCTCAA
27440876 ATCCATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 23 0.82
23 5 0.18
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAAAT
Found at i:27440946 original size:31 final size:31
Alignment explanation
Indices: 27440911--27440976 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
27440901 TCAATTTCAT
*
27440911 TTTTTTAAAAATAATTTTAAATTTTTTTATA
1 TTTTTTAAAAACAATTTTAAATTTTTTTATA
27440942 TTTTTTAAAAACAATTTTAAATTTTTTTATA
1 TTTTTTAAAAACAATTTTAAATTTTTTTATA
27440973 TTTT
1 TTTT
27440977 CATCAATGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (31 bp):
TTTTTTAAAAACAATTTTAAATTTTTTTATA
Found at i:27443335 original size:29 final size:29
Alignment explanation
Indices: 27443291--27443839 Score: 832
Period size: 29 Copynumber: 18.9 Consensus size: 29
27443281 GTAAAAAAAT
*
27443291 CCTAATTTAATTAAAAACCCTAAACACTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
*
27443321 CCTAATTTAATAAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
27443350 CCTAATTTAATAAAAAACTCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
27443379 CTTAATTTAATTAAAAACCCTAACCCTAC
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
27443408 CCTAATTTAATTAAAAATCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
27443437 CTTAATTTAATTAAAAACCATAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
27443466 CCTAATTTAATTAAAAACCCTAACCTTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
27443495 CTTAATTTAATTAAAAACCCTAATCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
27443524 CATAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
** *
27443553 CCTAATTTAGGTAAAAACCCTAACCCTAC
1 CCTAATTTAATTAAAAACCCTAACCCTAA
27443582 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
27443611 CTTAATTT-ATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
**
27443639 CCTAATTT-ATTGTGAAACCCTAACCCTAA
1 CCTAATTTAATT-AAAAACCCTAACCCTAA
27443668 CCTAATTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
* *
27443697 CCTAATTTATTTTAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
*
27443727 CCTAATCTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
*
27443756 CCTAATTTAATTAAAAACCCTAACCTTAA
1 CCTAATTTAATTAAAAACCCTAACCCTAA
27443785 CCTAATTTAATTAAAAACCCTAAACCCTAA
1 CCTAATTTAATTAAAAACCCT-AACCCTAA
*
27443815 CTTAATTTAATTAAAAACCCTAACC
1 CCTAATTTAATTAAAAACCCTAACC
27443840 ATTAACAAAA
Statistics
Matches: 472, Mismatches: 43, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
28 30 0.06
29 366 0.78
30 76 0.16
ACGTcount: A:0.44, C:0.26, G:0.01, T:0.29
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACCCTAA
Found at i:27447238 original size:124 final size:124
Alignment explanation
Indices: 27447032--27447311 Score: 490
Period size: 124 Copynumber: 2.3 Consensus size: 124
27447022 CCACGAGGGC
*
27447032 GCGATTTTATACTATTTGCTCAAAAACGTCAAAAAAAATTATTTCTTACATGACCAACTATAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTATAGCG
* *
27447097 AAATTGCGTCCACGAGGGCACGATTTCACTATTCCTTCTCAAATAGCATCCTGGTAGAA
66 AAATCGCGTCCACGAGGGCACGATTTCACAATTCCTTCTCAAATAGCATCCTGGTAGAA
*
27447156 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTGTAGCG
1 GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTATAGCG
*
27447221 AAATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
66 AAATCGCGTCCACGAGGGCACGATTTCACAATTCCTTCTCAAATAGCATCCTGGTAGAA
*
27447280 GCGATTTTATACTATTTGAC-CAGAAACATCAA
1 GCGATTTTATACTATTTG-CTCAGAAACGTCAA
27447312 CTCGAAATAA
Statistics
Matches: 149, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
124 148 0.99
125 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (124 bp):
GCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCAACTATAGCG
AAATCGCGTCCACGAGGGCACGATTTCACAATTCCTTCTCAAATAGCATCCTGGTAGAA
Found at i:27447902 original size:14 final size:14
Alignment explanation
Indices: 27447860--27447909 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
27447850 CTAAACTTCA
27447860 ATTATAATAA-ATTT
1 ATTA-AATAATATTT
*
27447874 ATTAAA-ACTACTTT
1 ATTAAATAATA-TTT
27447888 ATTAAATAATATTT
1 ATTAAATAATATTT
*
27447902 AATAAATA
1 ATTAAATA
27447910 TTATGATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 1 0.03
13 3 0.10
14 23 0.77
15 3 0.10
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTAAATAATATTT
Found at i:27451700 original size:24 final size:24
Alignment explanation
Indices: 27451669--27451781 Score: 79
Period size: 24 Copynumber: 4.6 Consensus size: 24
27451659 CAATTGTCAA
* * *
27451669 GAAGCTCATACGAGCCGTAAACGG
1 GAAGCTCATAAGAGCCATAAACAG
*
27451693 GAAGCTCA-AGAGAGCCATTAACAG
1 GAAGCTCATA-AGAGCCATAAACAG
27451717 GAAGCTCATAAGAGCCA-AATATC-G
1 GAAGCTCATAAGAGCCATAA-A-CAG
* * *
27451741 AGAAGCTCGTGAGAACCATATAACAG
1 -GAAGCTCATAAGAGCCATA-AACAG
* *
27451767 GATGCTTATAAGAGC
1 GAAGCTCATAAGAGC
27451782 TAAATAACAG
Statistics
Matches: 68, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
23 2 0.03
24 35 0.51
25 27 0.40
26 3 0.04
27 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (24 bp):
GAAGCTCATAAGAGCCATAAACAG
Found at i:27451746 original size:49 final size:50
Alignment explanation
Indices: 27451693--27451787 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
27451683 CCGTAAACGG
*
27451693 GAAGCTCAAGAGAGCCAT-TAACAGGAAGCTCATAAGAGCCAAATATCGA
1 GAAGCTCAAGAGAACCATATAACAGGAAGCTCATAAGAGCCAAATATCGA
** * * *
27451742 GAAGCTCGTGAGAACCATATAACAGGATGCTTATAAGAGCTAAATA
1 GAAGCTCAAGAGAACCATATAACAGGAAGCTCATAAGAGCCAAATA
27451788 ACAGGACACT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 15 0.38
50 24 0.62
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (50 bp):
GAAGCTCAAGAGAACCATATAACAGGAAGCTCATAAGAGCCAAATATCGA
Found at i:27456224 original size:20 final size:19
Alignment explanation
Indices: 27456174--27456224 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
27456164 AATGTTTGTT
*
27456174 CTTTCTTCTTCTTCTTTTTG
1 CTTTCTT-TTCTTCTTTTAG
*
27456194 CTTCTCCTTTCTTTCTTTTAG
1 CTT-TCTTTTC-TTCTTTTAG
27456215 CTTTCTTTTC
1 CTTTCTTTTC
27456225 CTTTAATCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.02, C:0.27, G:0.04, T:0.67
Consensus pattern (19 bp):
CTTTCTTTTCTTCTTTTAG
Found at i:27459346 original size:3 final size:3
Alignment explanation
Indices: 27459340--27459365 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27459330 CCTCCTCCTA
27459340 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
27459366 ATAACCAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:27459952 original size:19 final size:19
Alignment explanation
Indices: 27459911--27459950 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
27459901 TATATATATG
* *
27459911 TTATGTGTTGTTTGTAATT
1 TTATGTGTTATTTATAATT
27459930 TTATGTGTTTATTTATAATT
1 TTATGTG-TTATTTATAATT
27459950 T
1 T
27459951 ATTAAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.65
Consensus pattern (19 bp):
TTATGTGTTATTTATAATT
Found at i:27461640 original size:6 final size:6
Alignment explanation
Indices: 27461629--27461664 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
27461619 ATATTTTTTG
27461629 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
27461665 TTTACATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:27462473 original size:19 final size:19
Alignment explanation
Indices: 27462441--27462478 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
27462431 ATTATAATAG
*
27462441 TTTTTTTAATATGT-TTAA
1 TTTTTTTAAAATGTATTAA
27462459 TTTTTTTAAAAATGTATTAA
1 TTTTTTT-AAAATGTATTAA
27462479 CGTCACACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 6 0.35
20 4 0.24
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TTTTTTTAAAATGTATTAA
Found at i:27467503 original size:17 final size:17
Alignment explanation
Indices: 27467481--27467570 Score: 55
Period size: 17 Copynumber: 5.2 Consensus size: 17
27467471 CTAAAATTAA
*
27467481 TATAAACTTACTAAA-AT
1 TATAAAATTA-TAAATAT
27467498 TATAAAAATTATAAATAT
1 TAT-AAAATTATAAATAT
27467516 TATAAAA-TATGAAA-AT
1 TATAAAATTAT-AAATAT
*
27467532 ATATAATAAGTTATAAGAAAT
1 -TATAA-AA-TTATAA-ATAT
*
27467553 TA-AAAATTAAAAAT-T
1 TATAAAATTATAAATAT
27467568 TAT
1 TAT
27467571 TAGAATTCTT
Statistics
Matches: 60, Mismatches: 3, Indels: 21
0.71 0.04 0.25
Matches are distributed among these distances:
15 3 0.05
16 6 0.10
17 24 0.40
18 15 0.25
19 4 0.07
20 6 0.10
21 2 0.03
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (17 bp):
TATAAAATTATAAATAT
Found at i:27467505 original size:9 final size:9
Alignment explanation
Indices: 27467493--27467659 Score: 67
Period size: 9 Copynumber: 18.4 Consensus size: 9
27467483 TAAACTTACT
27467493 AAAATTATA
1 AAAATTATA
27467502 AAAATTATA
1 AAAATTATA
*
27467511 AATATTAT-
1 AAAATTATA
*
27467519 AAAA-TATG
1 AAAATTATA
27467527 AAAATATATA
1 AAAAT-TATA
*
27467537 ATAAGTTATA
1 A-AAATTATA
27467547 AGAAA-T-TA
1 A-AAATTATA
27467555 AAAATTA-A
1 AAAATTATA
* *
27467563 AAATTTATT
1 AAAATTATA
* * *
27467572 AGAATTCTTG
1 AAAATT-ATA
* * *
27467582 AAAGTAACCA
1 AAAATTA-TA
*
27467592 AAAAGTA-A
1 AAAATTATA
** *
27467600 AAAAAAATT
1 AAAATTATA
*
27467609 AAAATTATT
1 AAAATTATA
27467618 AAAATTATA
1 AAAATTATA
*
27467627 TAAACTTATA
1 -AAAATTATA
27467637 AAAATTATAA
1 AAAATTAT-A
*
27467647 AAAATCATA
1 AAAATTATA
27467656 AAAA
1 AAAA
27467660 CTTGAGCTAG
Statistics
Matches: 116, Mismatches: 30, Indels: 24
0.68 0.18 0.14
Matches are distributed among these distances:
7 6 0.05
8 24 0.21
9 48 0.41
10 35 0.30
11 3 0.03
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAATTATA
Found at i:27467630 original size:19 final size:19
Alignment explanation
Indices: 27467608--27467659 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
27467598 AAAAAAAAAT
*
27467608 TAAAATTATTAAAATTATA
1 TAAAATTATAAAAATTATA
*
27467627 TAAACTTATAAAAATTATA
1 TAAAATTATAAAAATTATA
* *
27467646 AAAAATCATAAAAA
1 TAAAATTATAAAAA
27467660 CTTGAGCTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATTATAAAAATTATA
Found at i:27476691 original size:16 final size:16
Alignment explanation
Indices: 27476672--27476722 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 16
27476662 TTCATATTGG
27476672 TAATTTTTTATTTGAA
1 TAATTTTTTATTTGAA
* *
27476688 TAA-TTTTAATTTG-G
1 TAATTTTTTATTTGAA
**
27476702 TTGTTTTTTATTTGAA
1 TAATTTTTTATTTGAA
27476718 TAATT
1 TAATT
27476723 CTCCTTTTAT
Statistics
Matches: 25, Mismatches: 8, Indels: 4
0.68 0.22 0.11
Matches are distributed among these distances:
14 1 0.04
15 18 0.72
16 6 0.24
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (16 bp):
TAATTTTTTATTTGAA
Found at i:27481462 original size:37 final size:35
Alignment explanation
Indices: 27481421--27481590 Score: 100
Period size: 37 Copynumber: 4.7 Consensus size: 35
27481411 CAGTATTATA
*
27481421 TATTATGATTTTAGTAAATTCATATAAGAATATTGAT
1 TATTATGATTTTAGTAAATT-ATATAA-AATATTAAT
* * *
27481458 TATTAAGAATTTTATTAAATTATAT---ATTTTAAT
1 TATTATG-ATTTTAGTAAATTATATAAAATATTAAT
* * * *
27481491 TATAAT-ATATTTAATAATAATTATGTTAAATTATCT-A-
1 TATTATGAT-TTTAGT-A-AATTAT-ATAAAATAT-TAAT
*
27481528 TATTATGATTTGAGTAAATTCATATAAGAATATTAAT
1 TATTATGATTTTAGTAAATT-ATATAA-AATATTAAT
* *
27481565 TATTAAGAATTTTATTAAATTATATA
1 TATTATG-ATTTTAGTAAATTATATA
27481591 TTTTAATTAT
Statistics
Matches: 100, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
31 2 0.02
32 5 0.05
33 11 0.11
34 6 0.06
35 9 0.09
36 8 0.08
37 30 0.30
38 28 0.28
39 1 0.01
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (35 bp):
TATTATGATTTTAGTAAATTATATAAAATATTAAT
Found at i:27481500 original size:16 final size:16
Alignment explanation
Indices: 27481479--27481524 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
27481469 TTATTAAATT
27481479 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
27481495 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
27481510 AT-TATGTTAAATTAT
1 ATATAT-TTTAATTAT
27481525 CTATATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
16 12 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:27481533 original size:107 final size:108
Alignment explanation
Indices: 27481419--27481629 Score: 397
Period size: 107 Copynumber: 2.0 Consensus size: 108
27481409 TACAGTATTA
* *
27481419 TATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
27481484 TTTTAATTATAATATATTTAATAATAATTATG-TTAAATTATC
66 TTTTAATTATAATATATTTAATAATAATTATGTTTAAATTATC
27481526 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
27481591 TTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 TTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
27481630 ATGATTAAAT
Statistics
Matches: 101, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 95 0.94
108 6 0.06
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (108 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
TTTTAATTATAATATATTTAATAATAATTATGTTTAAATTATC
Found at i:27481607 original size:16 final size:16
Alignment explanation
Indices: 27481586--27481627 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
27481576 TTATTAAATT
*
27481586 ATATATTTTAATTATA
1 ATATATTTTAATAATA
27481602 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
27481617 AT-TATGTTTAA
1 ATATAT-TTTAA
27481628 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:27481612 original size:15 final size:15
Alignment explanation
Indices: 27481577--27481618 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
27481567 TTAAGAATTT
*
27481577 TATTAAATTAT-ATA
1 TATTTAATTATAATA
27481591 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
27481605 TATTTAATAATAAT
1 TATTTAATTATAAT
27481619 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:27481853 original size:45 final size:44
Alignment explanation
Indices: 27481772--27481862 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
27481762 ACCTCTATTC
*
27481772 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
*** *
27481816 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCATTA
27481861 CA
1 CA
27481863 CCTCTAATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 16 0.39
45 25 0.61
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCATTA
Found at i:27481862 original size:16 final size:16
Alignment explanation
Indices: 27481841--27481878 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
27481831 TTGATTTGCT
*
27481841 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
27481857 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
27481873 AATACA
1 ATTACA
27481879 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:27483261 original size:154 final size:154
Alignment explanation
Indices: 27482976--27483264 Score: 377
Period size: 154 Copynumber: 1.9 Consensus size: 154
27482966 TTTATTTTAT
** * * * *
27482976 ATTCTTTCACTTGATTAATTATAAAGTTCATAAATCTAACAAGCTCAATTAATTAGTATGAGTCA
1 ATTCTTTCACACGATTAATTATAAAGTTCATAAATATAACAACCTCAATTAATCAGTACGAGTCA
* * * * *
27483041 TCAAATTTAATTAATTAATTTATCATGCGTTATTAAATTCAAGTAATCAATTTATAAGTTTTTGA
66 TCAAATTAAATTAATTAATCTATAATGAGTTATTAAATTCAAGTAATCAATTTATAAGTTTATGA
27483106 TGTTCTAAATTCACAATAGAATAC
131 TGTTCTAAATTCACAATAGAATAC
* * *
27483130 ATTCTTTCACACGATTAATTATAAAGTTCATAAATATAACAACCTTAATTAATCGGTACGAGTTA
1 ATTCTTTCACACGATTAATTATAAAGTTCATAAATATAACAACCTCAATTAATCAGTACGAGTCA
* * *
27483195 -CAAAATTAAATTAA-TATATCTATAATGAGTTATTCAGTTTAAGTAATTC-ATTTATAAGTTTA
66 TC-AAATTAAATTAATTA-ATCTATAATGAGTTATTAAATTCAAGTAA-TCAATTTATAAGTTTA
27483257 TGATGTTC
128 TGATGTTC
27483265 CAAACTCATA
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
153 3 0.03
154 110 0.96
155 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.40
Consensus pattern (154 bp):
ATTCTTTCACACGATTAATTATAAAGTTCATAAATATAACAACCTCAATTAATCAGTACGAGTCA
TCAAATTAAATTAATTAATCTATAATGAGTTATTAAATTCAAGTAATCAATTTATAAGTTTATGA
TGTTCTAAATTCACAATAGAATAC
Found at i:27491231 original size:57 final size:58
Alignment explanation
Indices: 27491153--27491275 Score: 176
Period size: 57 Copynumber: 2.1 Consensus size: 58
27491143 ATTTCTAGGT
* * * *
27491153 CATTTTCATTTGCATTTTGGAGAAAACCACATTCATTTTCAAATGATT-CTATTTCTC
1 CATTTTCATTTGCATTATGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTC
* * *
27491210 CATTTTCATTTTCATTATGGAGAAAACCATAATCATTTCCAAATGTTTCCCATTTCTC
1 CATTTTCATTTGCATTATGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTC
27491268 CATTTTCA
1 CATTTTCA
27491276 CAATTTCTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 42 0.72
58 16 0.28
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.43
Consensus pattern (58 bp):
CATTTTCATTTGCATTATGGAGAAAACCACAATCATTTCCAAATGATTCCCATTTCTC
Found at i:27499218 original size:21 final size:21
Alignment explanation
Indices: 27499177--27499218 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
27499167 TTTATTCTAG
**
27499177 ATATATTTTTTAGTATTATAT
1 ATATATTTTTTAGTAAAATAT
27499198 ATATATTTTATTA-TAAAATAT
1 ATATATTTT-TTAGTAAAATAT
27499219 CAATTTATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATATTTTTTAGTAAAATAT
Found at i:27499302 original size:27 final size:26
Alignment explanation
Indices: 27499271--27499337 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 26
27499261 GTATAATATT
*
27499271 TTGAAAATATATAAAA-AATTAAAATA
1 TTGAAAATATATAAAAGAACTAAAA-A
27499297 TATG--AATATATAAAAGAACTAAAAA
1 T-TGAAAATATATAAAAGAACTAAAAA
*
27499322 TTTATAAATATATAAA
1 TTGA-AAATATATAAA
27499338 TATATAAAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
24 1 0.03
25 13 0.38
26 8 0.24
27 12 0.35
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (26 bp):
TTGAAAATATATAAAAGAACTAAAAA
Found at i:27499333 original size:35 final size:34
Alignment explanation
Indices: 27499282--27499355 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 34
27499272 TGAAAATATA
*
27499282 TAAAAAATTAAAATATATGAATATATAAAAGAAC
1 TAAAAAATTAAAATATATAAATATATAAAAGAAC
* *
27499316 TAAAAATTTATAAATATATAAATATATAAAGGAAC
1 TAAAAAATTA-AAATATATAAATATATAAAAGAAC
27499351 TAAAA
1 TAAAA
27499356 TAACACATGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 9 0.25
35 27 0.75
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.28
Consensus pattern (34 bp):
TAAAAAATTAAAATATATAAATATATAAAAGAAC
Found at i:27505123 original size:28 final size:28
Alignment explanation
Indices: 27505065--27505124 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
27505055 AAAGCCGTTT
27505065 TTTTTTTAAATTTACCGAAATGGACCGA
1 TTTTTTTAAATTTACCGAAATGGACCGA
* * *
27505093 TTTTTTTATTATTTACCGGAATGGTCC-A
1 TTTTTTTA-AATTTACCGAAATGGACCGA
27505121 TTTT
1 TTTT
27505125 CCGGGAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.25, C:0.13, G:0.13, T:0.48
Consensus pattern (28 bp):
TTTTTTTAAATTTACCGAAATGGACCGA
Found at i:27508676 original size:56 final size:56
Alignment explanation
Indices: 27508587--27508711 Score: 180
Period size: 56 Copynumber: 2.2 Consensus size: 56
27508577 TATGTAAAAC
* * ** *
27508587 TATGTAAAATGATTAAGCCCAATAACTTTTGTTAATGGTTAGTAA-ATTTATCAAAT
1 TATGTAAAATTATTAAGCCCAACAAAGTGTGTTAATGGTTAGTAAGA-TTATCAAAT
27508643 TATGTAAAATTATTAAGCCCAACAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
1 TATGTAAAATTATTAAGCCCAACAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
*
27508699 TAGGTAAAATTAT
1 TATGTAAAATTAT
27508712 GTTATGGTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
56 61 0.98
57 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (56 bp):
TATGTAAAATTATTAAGCCCAACAAAGTGTGTTAATGGTTAGTAAGATTATCAAAT
Found at i:27508731 original size:23 final size:23
Alignment explanation
Indices: 27508705--27508804 Score: 148
Period size: 23 Copynumber: 4.3 Consensus size: 23
27508695 AAATTAGGTA
*
27508705 AAATTATGTTATGGTTTTTAAAT
1 AAATTAGGTTATGGTTTTTAAAT
*
27508728 AAATTAGATTA-GAGTTTTTAAAT
1 AAATTAGGTTATG-GTTTTTAAAT
*
27508751 AAATTAGGTTAGGGTTTTTAAAT
1 AAATTAGGTTATGGTTTTTAAAT
*
27508774 AAATTAGGTTATGGTTTTTAATT
1 AAATTAGGTTATGGTTTTTAAAT
27508797 AAATTAGG
1 AAATTAGG
27508805 GTAGGGTTAG
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
22 1 0.01
23 68 0.97
24 1 0.01
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (23 bp):
AAATTAGGTTATGGTTTTTAAAT
Found at i:27508762 original size:28 final size:27
Alignment explanation
Indices: 27508712--27509268 Score: 527
Period size: 28 Copynumber: 20.2 Consensus size: 27
27508702 GTAAAATTAT
* *
27508712 GTTATGGTTTTTAAATAAATTAGATTA-
1 GTTA-GGTTTTTAATTAAATTAGGTTAG
*
27508739 G--A-GTTTTTAAATAAATTAGGTTA-
1 GTTAGGTTTTTAATTAAATTAGGTTAG
*
27508762 G---GGTTTTTAAATAAATTAGGTTA-
1 GTTAGGTTTTTAATTAAATTAGGTTAG
*
27508785 --T-GGTTTTTAATTAAATTAGGGTAGG
1 GTTAGGTTTTTAATTAAATTAGGTTA-G
27508810 GTTAGGGTTTTTAATTAAATTAGGTTAAG
1 GTTA-GGTTTTTAATTAAATTAGGTT-AG
* *
27508839 GTTAGGGTTTTTGATTAAATTAGGGTAGG
1 GTTA-GGTTTTTAATTAAATTAGGTTA-G
* *
27508868 GTTAGGGTTTTAATTAAATTAGGGTAGG
1 GTTAGGTTTTTAATTAAATTAGGTTA-G
*
27508896 GTTAGG--GTTAATGTTAAATTAGGTTAAG
1 GTTAGGTTTTTAA--TTAAATTAGGTT-AG
* *
27508924 ATTAGGGTTTTTAATTAAATTAGGTTAAT
1 GTTA-GGTTTTTAATTAAATTAGGTT-AG
* *
27508953 GTTAGGGTTTTAGTTAAATTAGGTTAGG
1 GTTAGGTTTTTAATTAAATTAGGTTA-G
* ****
27508981 GTTAGGGTTAGGGTTAAATTAGGTTAAG
1 GTTAGGTTTTTAATTAAATTAGGTT-AG
*
27509009 GTTAGGGTTTTTAATTAAATTAGGGTAGG
1 GTTA-GGTTTTTAATTAAATTAGGTTA-G
27509038 GTTAGG-TTTTAATTAAATTAGGTTAAG
1 GTTAGGTTTTTAATTAAATTAGGTT-AG
27509065 GTTAGGGTTTTTAATTAAATTAGAG-TAGG
1 GTTA-GGTTTTTAATTAAATTAG-GTTA-G
*
27509094 GTTAGG-TTTTAATCAAATTAGGTTAAG
1 GTTAGGTTTTTAATTAAATTAGGTT-AG
27509121 GTTAGGGTTTTTAATTAAATTAGGTTAAG
1 GTTA-GGTTTTTAATTAAATTAGGTT-AG
*
27509150 GTTAGGGTTTTAATTAAATTAGGTTAAG
1 GTTAGGTTTTTAATTAAATTAGGTT-AG
*
27509178 GTTAGGGTTTTAATTAAATTAGGTTAAG
1 GTTAGGTTTTTAATTAAATTAGGTT-AG
*
27509206 GTTAGGGTTTTAATTAAATTAGGTTAGG
1 GTTAGGTTTTTAATTAAATTAGGTTA-G
27509234 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTA-GGTTTTTAATTAAATTAGGTTA-G
27509263 GTTAGG
1 GTTAGG
27509269 GTATGAAATA
Statistics
Matches: 468, Mismatches: 31, Indels: 61
0.84 0.06 0.11
Matches are distributed among these distances:
23 62 0.13
25 1 0.00
26 5 0.01
27 46 0.10
28 185 0.40
29 163 0.35
30 2 0.00
31 4 0.01
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (27 bp):
GTTAGGTTTTTAATTAAATTAGGTTAG
Found at i:27508812 original size:23 final size:23
Alignment explanation
Indices: 27508717--27508898 Score: 121
Period size: 23 Copynumber: 7.2 Consensus size: 23
27508707 ATTATGTTAT
* **
27508717 GGTTTTTAAATAAATTAGATTAG
1 GGTTTTTAATTAAATTAGGGTAG
* * *
27508740 AGTTTTTAAATAAATTAGGTTAG
1 GGTTTTTAATTAAATTAGGGTAG
* * *
27508763 GGTTTTTAAATAAATTAGGTTAT
1 GGTTTTTAATTAAATTAGGGTAG
27508786 GGTTTTTAATTAAATTAGGGTAGGGTTAG
1 GGTTTTTAATTAAA-T----TAGGG-TAG
27508815 GGTTTTTAATTAAATTAGGTTAAGGTTAG
1 GGTTTTTAATTAAATTA-G----GG-TAG
*
27508844 GGTTTTTGATTAAATTAGGGTAG
1 GGTTTTTAATTAAATTAGGGTAG
27508867 GGTTAGGGTTTTAATTAAATTAGGGTAG
1 GG-T----TTTTAATTAAATTAGGGTAG
27508895 GGTT
1 GGTT
27508899 AGGGTTAATG
Statistics
Matches: 134, Mismatches: 9, Indels: 32
0.77 0.05 0.18
Matches are distributed among these distances:
23 61 0.46
24 6 0.04
25 1 0.01
27 1 0.01
28 27 0.20
29 38 0.28
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.43
Consensus pattern (23 bp):
GGTTTTTAATTAAATTAGGGTAG
Found at i:27509018 original size:56 final size:56
Alignment explanation
Indices: 27508779--27509270 Score: 679
Period size: 56 Copynumber: 8.7 Consensus size: 56
27508769 TAAATAAATT
* *
27508779 AGGTTATGGTTTTTAATTAAATTAGGGTAGGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTA-GGGTTTTAATTAAATTAGGTTAGGGTTAGGG-TTTTAATTAAATTAGGTTA
* * *
27508837 AGGTTAGGGTTTTTGATTAAATTAGGGTAGGGTTAGGGTTTTAATTAAATTAGGGTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAATTAAATTAGGTTA
* * *
27508894 GGGTTAGGG--TTAATGTTAAATTAGGTTAAGATTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTAA--TTAAATTAGGTTAGGGTTAGGG-TTTTAATTAAATTAGGTTA
* * ****
27508951 ATGTTAGGGTTTTAGTTAAATTAGGTTAGGGTTAGGGTTAGGGTTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAATTAAATTAGGTTA
*
27509007 AGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTA-GGTTTTAATTAAATTAGGTTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAATTAAATTAGGTTA
*
27509063 AGGTTAGGGTTTTTAATTAAATTAGAG-TAGGGTTA-GGTTTTAATCAAATTAGGTTA
1 AGGTTAGGG-TTTTAATTAAATTAG-GTTAGGGTTAGGGTTTTAATTAAATTAGGTTA
*
27509119 AGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTA
1 AGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAATTAAATTAGGTTA
*
27509176 AGGTTAGGGTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAATTAAATTAGGTTA
*
27509232 GGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
1 AGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAGGGT
27509271 ATGAAATAAA
Statistics
Matches: 393, Mismatches: 30, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
54 3 0.01
55 1 0.00
56 199 0.51
57 154 0.39
58 33 0.08
59 3 0.01
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (56 bp):
AGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTAATTAAATTAGGTTA
Found at i:27509283 original size:85 final size:86
Alignment explanation
Indices: 27508756--27509270 Score: 705
Period size: 85 Copynumber: 6.1 Consensus size: 86
27508746 TAAATAAATT
* * *
27508756 AGGTTAGGGTTTTTAAATAAATTAGGTT-A---T-GGTTTTTAATTAAATTAGGGTAGGGTTAGG
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGG
27508816 GTTTTTAATTAAATTAGGTTA
66 GTTTTTAATTAAATTAGGTTA
* * * *
27508837 AGGTTAGGGTTTTTGATTAAATTAGGGTAGGGTTAGGGTTTTAATTAAATTAGGGTAGGGTTAGG
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGG
** *
27508902 GTTAAT-GTTAAATTAGGTTA
66 GTTTTTAATTAAATTAGGTTA
* * *
27508922 AGATTAGGGTTTTTAATTAAATTAGGTTAATGTTAGGGTTTTAGTTAAATTAGGTTAGGGTTAGG
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGG
****
27508987 G-TTAGGGTTAAATTAGGTTA
66 GTTTTTAATTAAATTAGGTTA
* * *
27509007 AGGTTAGGGTTTTTAATTAAATTAGGGTAGGGTTA-GGTTTTAATTAAATTAGGTTAAGGTTAGG
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGG
27509071 GTTTTTAATTAAATTAGAG-TA
66 GTTTTTAATTAAATTAG-GTTA
* * *
27509092 GGGTTA-GG-TTTTAATCAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAG
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAG
27509155 GG-TTTTAATTAAATTAGGTTA
65 GGTTTTTAATTAAATTAGGTTA
27509176 AGGTTAGGG-TTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGG
1 AGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGG
27509240 GTTTTTAATTAAATTAGGTTA
66 GTTTTTAATTAAATTAGGTTA
*
27509261 GGGTTAGGGT
1 AGGTTAGGGT
27509271 ATGAAATAAA
Statistics
Matches: 385, Mismatches: 35, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
81 25 0.06
83 23 0.06
84 83 0.22
85 220 0.57
86 34 0.09
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (86 bp):
AGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTAATTAAATTAGGTTAGGGTTAGG
GTTTTTAATTAAATTAGGTTA
Found at i:27511628 original size:31 final size:30
Alignment explanation
Indices: 27511593--27511658 Score: 105
Period size: 31 Copynumber: 2.2 Consensus size: 30
27511583 GCCATTGATG
27511593 AAAATATAAAAAAAATTAAAATTATTTTAAA
1 AAAATATAAAAAAAATTAAAATTA-TTTAAA
* *
27511624 AAAATATAAAAAAATTTGAAATTATTTAAA
1 AAAATATAAAAAAAATTAAAATTATTTAAA
27511654 AAAAT
1 AAAAT
27511659 GAAATTGAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 11 0.33
31 22 0.67
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (30 bp):
AAAATATAAAAAAAATTAAAATTATTTAAA
Found at i:27511637 original size:30 final size:31
Alignment explanation
Indices: 27511593--27511658 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
27511583 GCCATTGATG
27511593 AAAATATAAAAAAAA-TTAAAATTATTTTAAA
1 AAAATATAAAAAAAATTTAAAATTA-TTTAAA
*
27511624 AAAATAT-AAAAAAATTTGAAATTATTTAAA
1 AAAATATAAAAAAAATTTAAAATTATTTAAA
27511654 AAAAT
1 AAAAT
27511659 GAAATTGAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 18 0.55
31 15 0.45
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (31 bp):
AAAATATAAAAAAAATTTAAAATTATTTAAA
Found at i:27511640 original size:21 final size:20
Alignment explanation
Indices: 27511601--27511640 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
27511591 TGAAAATATA
**
27511601 AAAAAAATTAAAATTATTTT
1 AAAAAAATTAAAAAAATTTT
27511621 AAAAAAATATAAAAAAATTT
1 AAAAAAAT-TAAAAAAATTT
27511641 GAAATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAAATTAAAAAAATTTT
Found at i:27511737 original size:23 final size:23
Alignment explanation
Indices: 27511690--27511742 Score: 74
Period size: 22 Copynumber: 2.4 Consensus size: 23
27511680 TTTAATATGG
*
27511690 ATTTGAGA-GATTTTTGGAATGA
1 ATTTGAGAGGATTTTTGGAAGGA
27511712 ATTTGAGAGGA-TTTTGGAAGGA
1 ATTTGAGAGGATTTTTGGAAGGA
*
27511734 AATTGAGAG
1 ATTTGAGAG
27511743 TTTAAGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (23 bp):
ATTTGAGAGGATTTTTGGAAGGA
Found at i:27511758 original size:52 final size:52
Alignment explanation
Indices: 27511695--27511793 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 52
27511685 TATGGATTTG
* * * *
27511695 AGAGATTTTTGGAATGAATTTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAAGGAAATTGAGAGTTTA
*
27511747 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAATGAAATTGAGA
1 AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAAGGAAATTGAGA
27511794 TAGGATTTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.38, C:0.00, G:0.30, T:0.31
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGGATTTTGAAAGGAAATTGAGAGTTTA
Found at i:27511777 original size:22 final size:22
Alignment explanation
Indices: 27511747--27511793 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
27511737 TGAGAGTTTA
*
27511747 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGAAAGGAAATTG
* *
27511769 AGAGGATTTTGAAATGAAATTG
1 AGAGAATTTTGAAAGGAAATTG
27511791 AGA
1 AGA
27511794 TAGGATTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.28
Consensus pattern (22 bp):
AGAGAATTTTGAAAGGAAATTG
Found at i:27518323 original size:3 final size:3
Alignment explanation
Indices: 27518315--27518363 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
27518305 CTTTCAACTT
27518315 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27518363 T
1 T
27518364 CTTCCAACTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27524347 original size:2 final size:2
Alignment explanation
Indices: 27524340--27524386 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
27524330 TTAGGGGAGT
27524340 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
27524382 AG AG A
1 AG AG A
27524387 CAACAATCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27524429 original size:18 final size:18
Alignment explanation
Indices: 27524395--27524429 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27524385 GACAACAATC
**
27524395 TTGAAGAAAATGGAAGAA
1 TTGAAGAAAATAAAAGAA
27524413 TTGAAGAAAATAAAAGA
1 TTGAAGAAAATAAAAGA
27524430 GAAGAGAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
TTGAAGAAAATAAAAGAA
Found at i:27532574 original size:3 final size:3
Alignment explanation
Indices: 27532560--27532604 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
27532550 ATTTATTTAT
27532560 TTA TTAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
27532605 TACTTTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27533003 original size:28 final size:23
Alignment explanation
Indices: 27532951--27532995 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
27532941 GATCCGTAAC
27532951 TTTCATATTATTTTAACCAAAAT
1 TTTCATATTATTTTAACCAAAAT
27532974 TTTCATATTATTTTAACCAAAA
1 TTTCATATTATTTTAACCAAAA
27532996 ACAAATTTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTCATATTATTTTAACCAAAAT
Found at i:27541572 original size:28 final size:27
Alignment explanation
Indices: 27541459--27541712 Score: 251
Period size: 27 Copynumber: 9.3 Consensus size: 27
27541449 TGCGAATCGT
* * *
27541459 GGGTAAAA-TAACTGAATTACCCCTGAA
1 GGGTAAAATTATC-GAAATACCCTTGAA
* * * **
27541486 GGGTAAAATGACCGAATTACCCACGAA
1 GGGTAAAATTATCGAAATACCCTTGAA
*
27541513 GGGTAAAATTATCGAAATA-CCTTAAA
1 GGGTAAAATTATCGAAATACCCTTGAA
*
27541539 GGGTAAAAATTATCGAAATACCCTTAAA
1 GGGT-AAAATTATCGAAATACCCTTGAA
* *
27541567 GGGTAAAATTACCGAAACACCCTTGAA
1 GGGTAAAATTATCGAAATACCCTTGAA
* * *
27541594 GGGTAAAAATTAACGTAATACCCTTGAT
1 GGGT-AAAATTATCGAAATACCCTTGAA
* *
27541622 GGGTAAAATTATCAAAATACCATTGAA
1 GGGTAAAATTATCGAAATACCCTTGAA
* * *
27541649 GGGTAAAAATTACCAAAATACCCTCGAA
1 GGGT-AAAATTATCGAAATACCCTTGAA
* * *
27541677 GGGTAAAATTATCAAAATACCCTCGAT
1 GGGTAAAATTATCGAAATACCCTTGAA
27541704 GGGTAAAAT
1 GGGTAAAAT
27541713 GATCTTTATA
Statistics
Matches: 195, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.04
27 127 0.65
28 60 0.31
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (27 bp):
GGGTAAAATTATCGAAATACCCTTGAA
Found at i:27541615 original size:55 final size:55
Alignment explanation
Indices: 27541476--27541711 Score: 269
Period size: 55 Copynumber: 4.3 Consensus size: 55
27541466 ATAACTGAAT
* * * * ** *
27541476 TACCCCTGAAGGGT-AAAATGACCGAATTACCCACGAAGGGTAAAATTATCGAAA
1 TACCCTTGAAGGGTAAAAATTAACGAAATACCCTTGAAGGGTAAAATTATCAAAA
* * * * *
27541530 TA-CCTTAAAGGGTAAAAATTATCGAAATACCCTTAAAGGGTAAAATTACCGAAA
1 TACCCTTGAAGGGTAAAAATTAACGAAATACCCTTGAAGGGTAAAATTATCAAAA
* * *
27541584 CACCCTTGAAGGGTAAAAATTAACGTAATACCCTTGATGGGTAAAATTATCAAAA
1 TACCCTTGAAGGGTAAAAATTAACGAAATACCCTTGAAGGGTAAAATTATCAAAA
* * * *
27541639 TACCATTGAAGGGTAAAAATTACCAAAATACCCTCGAAGGGTAAAATTATCAAAA
1 TACCCTTGAAGGGTAAAAATTAACGAAATACCCTTGAAGGGTAAAATTATCAAAA
* *
27541694 TACCCTCGATGGGTAAAA
1 TACCCTTGAAGGGTAAAA
27541712 TGATCTTTAT
Statistics
Matches: 153, Mismatches: 27, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
53 9 0.06
54 36 0.24
55 108 0.71
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.22
Consensus pattern (55 bp):
TACCCTTGAAGGGTAAAAATTAACGAAATACCCTTGAAGGGTAAAATTATCAAAA
Found at i:27541724 original size:82 final size:81
Alignment explanation
Indices: 27541482--27541712 Score: 293
Period size: 82 Copynumber: 2.8 Consensus size: 81
27541472 GAATTACCCC
* * * * *
27541482 TGAAGGGTAAAATGACCGAATTACCCACGAAGGGTAAAATTATCGAAATA-CCTTAAAGGGTAAA
1 TGAAGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGATGGGT-AA
* *
27541546 AATTATCGAAATACCCT
65 AATTATCAAAATACCAT
* * * * *
27541563 TAAAGGGTAAAATTACCGAAACACCCTTGAAGGGTAAAAATTAACGTAATACCCTTGATGGGTAA
1 TGAAGGGTAAAATTACCGAAATACCCTCGAAGGGT-AAAATTATCGAAATACCCTTGATGGGTAA
27541628 AATTATCAAAATACCAT
65 AATTATCAAAATACCAT
* * *
27541645 TGAAGGGTAAAAATTACCAAAATACCCTCGAAGGGTAAAATTATCAAAATACCCTCGATGGGTAA
1 TGAAGGGT-AAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGATGGGTAA
27541710 AAT
65 AAT
27541713 GATCTTTATA
Statistics
Matches: 127, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
81 29 0.23
82 65 0.51
83 33 0.26
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.23
Consensus pattern (81 bp):
TGAAGGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTATCGAAATACCCTTGATGGGTAAA
ATTATCAAAATACCAT
Found at i:27542124 original size:28 final size:28
Alignment explanation
Indices: 27542087--27542140 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
27542077 ACTGTAATGA
* *
27542087 TACTGTATTGGGTTAAGGCCCACACTAC
1 TACTGAATTGGGCTAAGGCCCACACTAC
*
27542115 TACTGAATTGGGCTAAGGCCCTCACT
1 TACTGAATTGGGCTAAGGCCCACACT
27542141 GTACTGTCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (28 bp):
TACTGAATTGGGCTAAGGCCCACACTAC
Found at i:27549087 original size:15 final size:15
Alignment explanation
Indices: 27549055--27549088 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27549045 AACTTTCCTT
*
27549055 TTTCATTCCATTCCA
1 TTTCATTCCATTCAA
*
27549070 TTTCATTCCATTTAA
1 TTTCATTCCATTCAA
27549085 TTTC
1 TTTC
27549089 TTTTCTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTCATTCCATTCAA
Found at i:27549110 original size:21 final size:22
Alignment explanation
Indices: 27549086--27549138 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
27549076 TCCATTTAAT
27549086 TTCTTTTCTTTTCCTT-TCTTA
1 TTCTTTTCTTTTCCTTCTCTTA
* *
27549107 TTCTTTTTTTTTCCTTCTCTTC
1 TTCTTTTCTTTTCCTTCTCTTA
27549129 TTCTTATTCT
1 TTCTT-TTCT
27549139 ACCTTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 15 0.56
22 9 0.33
23 3 0.11
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.72
Consensus pattern (22 bp):
TTCTTTTCTTTTCCTTCTCTTA
Found at i:27555406 original size:13 final size:14
Alignment explanation
Indices: 27555389--27555429 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
27555379 ATGGGGGTAG
27555389 GATTCTGTATATCT
1 GATTCTGTATATCT
**
27555403 -ATTCTACATATCT
1 GATTCTGTATATCT
27555416 GATTCTGT-TATCT
1 GATTCTGTATATCT
27555429 G
1 G
27555430 TATCTGTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 17 0.77
14 5 0.23
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (14 bp):
GATTCTGTATATCT
Found at i:27560735 original size:16 final size:17
Alignment explanation
Indices: 27560707--27560738 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
27560697 GACATTATTT
27560707 ATTAAATTAATTTTCTA
1 ATTAAATTAATTTTCTA
27560724 ATTAAA-TAATTTTCT
1 ATTAAATTAATTTTCT
27560739 CAACTCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAAATTAATTTTCTA
Found at i:27575815 original size:89 final size:89
Alignment explanation
Indices: 27574734--27575816 Score: 1612
Period size: 89 Copynumber: 12.2 Consensus size: 89
27574724 GCCAATACAT
* * * *** *
27574734 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTTTC
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTTC
* ***
27574798 TGCGATCTACTTCATGCCA--A-TACAT
64 TTCGATCTACTTC--GCCACCAGTATGG
* *
27574823 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAGTACACGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCTG-TTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
* ***
27574887 TCGATCTACTT---CACGCTGATACAT
65 TCGATCTACTTCGCCAC-CAG-TATGG
*
27574911 GAAGACAAGATCTACTT-TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTT-T
1 GAAGACAAGATCT-GTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
27574974 TCTGATCTACTTCGCCACCAGTATGG
65 TC-GATCTACTTCGCCACCAGTATGG
*
27575000 GAAGACAAGATCTGTTATCTTCGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
27575065 CGATCTGCTTCGCCACCAATATGG
66 CGATCTACTTCGCCACCAGTATGG
*
27575089 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
*
27575154 CGATCTACTTCACCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
*
27575178 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
*
27575243 CGATCTGCTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* *
27575267 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
27575332 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
* *
27575356 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAATATCTGCTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* *
27575421 CGATCTGCTTTGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
** *
27575445 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTATTTTTTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
27575510 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
*
27575534 GAAGACAAGATCTAG-TATCTTTAATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
1 GAAGACAAGATCT-GTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCT
27575598 TCGATCTACTTCGCCACCAGTATGG
65 TCGATCTACTTCGCCACCAGTATGG
* *
27575623 GAAGACAAGATCTGTTATCTTTGATCTACTTCATGCCAGTACATGAAGACAAGATCTGTTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
* * *
27575688 CGATCTGCTTCGCTACCAGTACGG
66 CGATCTACTTCGCCACCAGTATGG
* * *
27575712 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATTTGTTTTCTT
1 GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
27575777 CGATCTACTTCGCCACCAGTATGG
66 CGATCTACTTCGCCACCAGTATGG
27575801 GAAGACAAGATCTGTT
1 GAAGACAAGATCTGTT
27575817 GCTACTCCAC
Statistics
Matches: 920, Mismatches: 60, Indels: 28
0.91 0.06 0.03
Matches are distributed among these distances:
83 2 0.00
87 3 0.00
88 111 0.12
89 795 0.86
90 6 0.01
91 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (89 bp):
GAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCGCCACCAGTATGG
Found at i:27575990 original size:11 final size:11
Alignment explanation
Indices: 27575974--27576002 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
27575964 TAGACATGTA
27575974 TGAATGACATT
1 TGAATGACATT
27575985 TGAATGACATT
1 TGAATGACATT
27575996 TGAATGA
1 TGAATGA
27576003 ATGCTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (11 bp):
TGAATGACATT
Found at i:27577030 original size:42 final size:42
Alignment explanation
Indices: 27576963--27577060 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
27576953 CCTTATGCTT
* * *
27576963 ATCAGTATTTGAGCTACTCCAATAATCTCATGCCACATTCTG
1 ATCAATATTTGAGCTACTCCAATAATATCATGCCACATTCTA
* *
27577005 ATCAATATTTGAGCTACTCCGATAATATCATGCCCCATTCTA
1 ATCAATATTTGAGCTACTCCAATAATATCATGCCACATTCTA
27577047 ATCAATATTTGAGC
1 ATCAATATTTGAGC
27577061 CGCCCTTTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (42 bp):
ATCAATATTTGAGCTACTCCAATAATATCATGCCACATTCTA
Found at i:27580086 original size:13 final size:13
Alignment explanation
Indices: 27580068--27580094 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27580058 TAGTTCAATT
27580068 CTTCACTAGAAAA
1 CTTCACTAGAAAA
27580081 CTTCACTAGAAAA
1 CTTCACTAGAAAA
27580094 C
1 C
27580095 AAATCTCTTT
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:0.44, C:0.26, G:0.07, T:0.22
Consensus pattern (13 bp):
CTTCACTAGAAAA
Found at i:27585904 original size:17 final size:17
Alignment explanation
Indices: 27585882--27585914 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27585872 ATGAGTAACA
27585882 ATAAAAAAATAAAATAC
1 ATAAAAAAATAAAATAC
*
27585899 ATAAAAAAATGAAATA
1 ATAAAAAAATAAAATA
27585915 ACAAGTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (17 bp):
ATAAAAAAATAAAATAC
Found at i:27587798 original size:15 final size:17
Alignment explanation
Indices: 27587759--27587812 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
27587749 TTGGTTTAGG
* *
27587759 TGGGTATTGGGTTGATAT
1 TGGGTTTTGGGTAGAT-T
27587777 T-GGTTTTGGGT-G-TT
1 TGGGTTTTGGGTAGATT
27587791 TGGGTTTTGGGTAGATT
1 TGGGTTTTGGGTAGATT
27587808 TGGGT
1 TGGGT
27587813 ACTGGGCCGG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.34
16 2 0.06
17 16 0.50
18 1 0.03
ACGTcount: A:0.09, C:0.00, G:0.43, T:0.48
Consensus pattern (17 bp):
TGGGTTTTGGGTAGATT
Found at i:27594651 original size:14 final size:15
Alignment explanation
Indices: 27594632--27594662 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
27594622 ATTTTTATAA
27594632 TTTTTAAT-ATTTAT
1 TTTTTAATAATTTAT
27594646 TTTTTAATAATTTAT
1 TTTTTAATAATTTAT
27594661 TT
1 TT
27594663 GCTTTAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTTAATAATTTAT
Found at i:27595700 original size:17 final size:17
Alignment explanation
Indices: 27595623--27595702 Score: 63
Period size: 17 Copynumber: 4.4 Consensus size: 17
27595613 TAAATAACCT
* *
27595623 TTTTTTTAATTTTTATA
1 TTTTTTAAATTTTTAAA
27595640 TTTTTTAAATTAGTTTACATTA
1 TTTTTTAAATT--TTTA-A--A
*
27595662 TTTTTTAAA-TTTAAAA
1 TTTTTTAAATTTTTAAA
*
27595678 GGTTTTTAAATTTTTAAA
1 -TTTTTTAAATTTTTAAA
27595696 TTTTTTA
1 TTTTTTA
27595703 TTGAAAATAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
16 1 0.02
17 24 0.48
18 7 0.14
19 7 0.14
21 1 0.02
22 10 0.20
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (17 bp):
TTTTTTAAATTTTTAAA
Found at i:27596041 original size:9 final size:8
Alignment explanation
Indices: 27596012--27596037 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
27596002 CTTTCTTTTA
27596012 TTAATATT
1 TTAATATT
27596020 TTAATATT
1 TTAATATT
27596028 TTAATATT
1 TTAATATT
27596036 TT
1 TT
27596038 TAATTTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTAATATT
Found at i:27596747 original size:11 final size:10
Alignment explanation
Indices: 27596683--27596757 Score: 51
Period size: 11 Copynumber: 6.7 Consensus size: 10
27596673 TTCACTTAAC
27596683 TTTCTTTTTT
1 TTTCTTTTTT
* *
27596693 ATTATTCTTTT
1 TTTCTT-TTTT
27596704 ATTTCTTTCTTT
1 -TTTCTTT-TTT
*
27596716 CTTCTTTTTACAT
1 TTTCTTTTT---T
27596729 TGTTCTTTTTGT
1 T-TTCTTTTT-T
27596741 TTTCTTTTTT
1 TTTCTTTTTT
27596751 TTTCTTT
1 TTTCTTT
27596758 CCTTTCTTCC
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
10 14 0.27
11 19 0.37
12 9 0.18
13 1 0.02
14 8 0.16
ACGTcount: A:0.07, C:0.13, G:0.03, T:0.77
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:27601026 original size:58 final size:58
Alignment explanation
Indices: 27600952--27601068 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
27600942 TAAGATAAAG
27600952 AAAGAACCCAAAGTTTAACTTAGTTGGTTTATGCAGTCACTCTTAAGAAGTGGCATTC
1 AAAGAACCCAAAGTTTAACTTAGTTGGTTTATGCAGTCACTCTTAAGAAGTGGCATTC
27601010 AAAGAACCCAAAGTTTAACTTAGTTGGTTTATGCAGTCACTCTTAAGAAGTGGCATTC
1 AAAGAACCCAAAGTTTAACTTAGTTGGTTTATGCAGTCACTCTTAAGAAGTGGCATTC
27601068 A
1 A
27601069 GCAGATTTAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (58 bp):
AAAGAACCCAAAGTTTAACTTAGTTGGTTTATGCAGTCACTCTTAAGAAGTGGCATTC
Found at i:27612597 original size:45 final size:45
Alignment explanation
Indices: 27612496--27612723 Score: 179
Period size: 45 Copynumber: 4.8 Consensus size: 45
27612486 AACTAGTAGA
* * * * *
27612496 TTTAATCTGTTCCACTGCAACTTCAGAGAGATAAGATTTGTAACTTGTAGC
1 TTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGA--T-TCAC---TATC
* * *
27612547 TTTAATTTTTTCCACTGCAACTTTAGAGAAATAAGATTCACTATC
1 TTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATC
* ** * * *
27612592 TTTAATTTG-CCCTACAACAACTTCAGGGGAATAAGATTTGTAACTTGTAGC
1 TTTAATTTGTTCC-ACTGCAACTTCAGGGAAATAAGA--T-TCAC---TATC
* * *
27612643 TTTAATCTGTTCCACTGAAACTTCAGGGAAATAAGATTCGCTATC
1 TTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATC
27612688 TTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGA
1 TTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGA
27612724 CCTGTAGCTT
Statistics
Matches: 143, Mismatches: 26, Indels: 22
0.75 0.14 0.12
Matches are distributed among these distances:
44 2 0.01
45 66 0.46
47 1 0.01
48 8 0.06
49 2 0.01
51 62 0.43
52 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (45 bp):
TTTAATTTGTTCCACTGCAACTTCAGGGAAATAAGATTCACTATC
Done.