Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 110 of 226
Found at i:34281976 original size:27 final size:25
Alignment explanation
Indices: 34281937--34282005 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 25
34281927 CGTTTCGACC
* *
34281937 CACATCTCATGTGAGCAGACCTATTTT
1 CACAGCTCATGTGAGCAGACCGA--TT
* *
34281964 CACAGCTCGTGTGAGCATACCGATT
1 CACAGCTCATGTGAGCAGACCGATT
34281989 CACAGCTCATGTGAGCA
1 CACAGCTCATGTGAGCA
34282006 TACATGTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 18 0.49
27 19 0.51
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (25 bp):
CACAGCTCATGTGAGCAGACCGATT
Found at i:34287176 original size:20 final size:20
Alignment explanation
Indices: 34287126--34287176 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 20
34287116 AATAGTTCTG
*
34287126 TCTCTTGATGAACAGTTGTA
1 TCTCTTGATGAACAATTGTA
*
34287146 T-T-TT-TTGAACAATTGTA
1 TCTCTTGATGAACAATTGTA
*
34287163 TCTCTTGGTGAACA
1 TCTCTTGATGAACA
34287177 GATTCCTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
17 12 0.48
18 3 0.12
19 3 0.12
20 7 0.28
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (20 bp):
TCTCTTGATGAACAATTGTA
Found at i:34288494 original size:23 final size:23
Alignment explanation
Indices: 34288442--34288511 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 23
34288432 TAGTATTTTT
*
34288442 ATATTTGAAATTATTT-A-ATTTA
1 ATATTTGATA-TATTTAATATTTA
34288464 ATTCATTTGATATATTTAATATTTA
1 A-T-ATTTGATATATTTAATATTTA
* *
34288489 ATATTTTATATATTAAATATTTA
1 ATATTTGATATATTTAATATTTA
34288512 TCAAAAGTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 1 0.02
23 25 0.61
24 9 0.22
25 6 0.15
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (23 bp):
ATATTTGATATATTTAATATTTA
Found at i:34293646 original size:43 final size:43
Alignment explanation
Indices: 34293585--34293767 Score: 244
Period size: 43 Copynumber: 4.3 Consensus size: 43
34293575 TTATTTTTAT
*
34293585 AAACGCCGCTAAAGGTCATGTTCTTTAGTGGCAC-TTTTCCTAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTTTTCC-AC
**
34293628 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGTGCTTTTTCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTTTTCCAC
* *
34293671 AAACGTCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTTTTCCAC
* * * * *
34293714 AAACACCGTTAAATGTCATGTTCTTTTAGCGACA-TTTTTACAC
1 AAACGCCGCTAAAGGTCATGTTC-TTTAGCGGCACTTTTTCCAC
34293757 AAACGCCGCTA
1 AAACGCCGCTA
34293768 TTTGTTTGGT
Statistics
Matches: 124, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
43 110 0.89
44 14 0.11
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCACTTTTTCCAC
Found at i:34295911 original size:12 final size:12
Alignment explanation
Indices: 34295894--34295938 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
34295884 AGGTTATGTA
34295894 TTATTATGTAAG
1 TTATTATGTAAG
*
34295906 TTATTATGTAGG
1 TTATTATGTAAG
34295918 TTATTATGTAAG
1 TTATTATGTAAG
*
34295930 TCATTATGT
1 TTATTATGT
34295939 TGGTTATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.29, C:0.02, G:0.18, T:0.51
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:34295924 original size:24 final size:24
Alignment explanation
Indices: 34295887--34295945 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
34295877 TTTATGTAGG
*
34295887 TTATGTA--TTATTATGTAAGTTA
1 TTATGTAGGTTATTATGTAAGTCA
34295909 TTATGTAGGTTATTATGTAAGTCA
1 TTATGTAGGTTATTATGTAAGTCA
*
34295933 TTATGTTGGTTAT
1 TTATGTAGGTTAT
34295946 GTAAGTTGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 7 0.21
24 26 0.79
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.53
Consensus pattern (24 bp):
TTATGTAGGTTATTATGTAAGTCA
Found at i:34295947 original size:21 final size:22
Alignment explanation
Indices: 34295897--34295951 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
34295887 TTATGTATTA
*
34295897 TTATGTAAGTTATTATGTAGGTT
1 TTATGTAAGTCATTATGTAGG-T
*
34295920 ATTATGTAAGTCATTATGTTGG-
1 -TTATGTAAGTCATTATGTAGGT
34295942 TTATGTAAGT
1 TTATGTAAGT
34295952 TGTGATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
24 19 0.66
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (22 bp):
TTATGTAAGTCATTATGTAGGT
Found at i:34296131 original size:19 final size:18
Alignment explanation
Indices: 34296079--34296132 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 18
34296069 TCAATTTTTA
*
34296079 AAAATATATATAAATTTT
1 AAAATATATATAAATATT
*
34296097 AAAA-A-A-ATATATATT
1 AAAATATATATAAATATT
34296112 AAAACTATATATAAATATT
1 AAAA-TATATATAAATATT
34296131 AA
1 AA
34296133 TAAGTTATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
15 11 0.38
16 1 0.03
17 2 0.07
18 5 0.17
19 10 0.34
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATATATATAAATATT
Found at i:34296147 original size:9 final size:9
Alignment explanation
Indices: 34296133--34296213 Score: 69
Period size: 9 Copynumber: 9.0 Consensus size: 9
34296123 TAAATATTAA
34296133 TAAGTTATG
1 TAAGTTATG
34296142 TAAGTTATG
1 TAAGTTATG
* *
34296151 TATTA-TAAATT
1 TA--AGT-TATG
*
34296162 TAAATTATG
1 TAAGTTATG
34296171 TAAGTTATG
1 TAAGTTATG
34296180 -AA-TTATG
1 TAAGTTATG
34296187 TAAGTTATG
1 TAAGTTATG
* *
34296196 TAAATTACG
1 TAAGTTATG
34296205 TAAGTTATG
1 TAAGTTATG
34296214 AAATTTGAAC
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
7 5 0.09
8 4 0.07
9 41 0.72
10 2 0.04
11 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.16, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:34296185 original size:16 final size:16
Alignment explanation
Indices: 34296137--34296215 Score: 83
Period size: 16 Copynumber: 5.0 Consensus size: 16
34296127 TATTAATAAG
*
34296137 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGAA
* *
34296153 TTA--TAAATT-TAAA
1 TTATGTAAGTTATGAA
34296166 TTATGTAAGTTATGAA
1 TTATGTAAGTTATGAA
34296182 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATG--AA
*
34296200 TTACGTAAGTTATGAA
1 TTATGTAAGTTATGAA
34296216 ATTTGAACTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
13 5 0.10
14 5 0.10
15 5 0.10
16 22 0.42
18 15 0.29
ACGTcount: A:0.39, C:0.01, G:0.15, T:0.44
Consensus pattern (16 bp):
TTATGTAAGTTATGAA
Found at i:34303976 original size:28 final size:28
Alignment explanation
Indices: 34303913--34304063 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
34303903 ATATTAAGTC
*
34303913 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
34303940 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
34303968 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAACT
*
34303996 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
34304024 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
34304053 CGCACACTTAG
1 CGCACACTTAG
34304064 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.19
28 75 0.66
29 16 0.14
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34308220 original size:22 final size:22
Alignment explanation
Indices: 34308176--34308231 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
34308166 CCCTGAAACC
34308176 CTAAACCCTAA-ATCTATAACT
1 CTAAACCCTAACATCTATAACT
* *
34308197 CTTAACCACTAACATCTA-ACCT
1 CTAAACC-CTAACATCTATAACT
34308219 CTAAACCCCTAAC
1 CTAAA-CCCTAAC
34308232 CCCTAAACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 6 0.21
22 16 0.55
23 7 0.24
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (22 bp):
CTAAACCCTAACATCTATAACT
Found at i:34308536 original size:23 final size:24
Alignment explanation
Indices: 34308495--34308545 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
34308485 TCCCTAACTT
* *
34308495 TAAACCCCTAGCACGTCTAACCCC
1 TAAACCCCTAACACCTCTAACCCC
*
34308519 TAAACCCCTAAC-CCTCTAGCCCC
1 TAAACCCCTAACACCTCTAACCCC
34308542 TAAA
1 TAAA
34308546 TCTTAAATCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.31, C:0.45, G:0.06, T:0.18
Consensus pattern (24 bp):
TAAACCCCTAACACCTCTAACCCC
Found at i:34308918 original size:41 final size:40
Alignment explanation
Indices: 34308842--34308924 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 40
34308832 TAAAATATTT
* * * *
34308842 TTAGCGGCGCTTTTCAAAAAAGTCGCTAAATCCCCCAGCA
1 TTAGCGGCGCTTTTCAAAAAAGCCGCCAAAGCCCCCAACA
* *
34308882 TTAGCGGTGCTTTTTCAAAAACGCCGCCAAAGCCCCCAACA
1 TTAGCGGCGC-TTTTCAAAAAAGCCGCCAAAGCCCCCAACA
34308923 TT
1 TT
34308925 TTTGGCCGCT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 9 0.25
41 27 0.75
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (40 bp):
TTAGCGGCGCTTTTCAAAAAAGCCGCCAAAGCCCCCAACA
Found at i:34309130 original size:114 final size:113
Alignment explanation
Indices: 34308929--34309791 Score: 1056
Period size: 114 Copynumber: 7.6 Consensus size: 113
34308919 AACATTTTTG
* *
34308929 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATATTTTTTTGCGGCGCTTTG
1 GCCGCTAAAT-CCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
* * *
34308994 TCAAAAACGCCGATAAAACCCTGAGCATTAGCGGCGCTTCCTTAAAAAC
65 TCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* * * * *
34309043 GCCGCTAAATCACCGAAAGTTCATAAAACGACGTCGTTGGGCCTATGTTTTTTTGGGGCGCTTTC
1 GCCGCTAAATC-CCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
* **
34309108 CCAAAAACGCCGCTAAAGCCCTGAGCATTAGTAGCGCTTTCTTAAAAAC
65 TCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* * * *
34309157 GACGCTAAATCCTTGAAAGCTCACAAAACGGCGACGTTGGGCTTATGTTTTTTTTTTGCGGTGCT
1 GCCGCTAAATCC-CGAAAGCTCACAAAACGGCGTCGTTGGGCTTATG---TTTTTTTGCGGCGCT
* * *
34309222 TTCTCAAAAACGCCGCTAAAACCCTGAGCATTAGCAGCGCTTCCTTAAAAAC
62 TTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* ** * * *
34309274 GCCACTAAATCCCCGAAAGCTCACAAAACAACATCGTTGGGCTTTTGTTTTTTTGCGGTGCTTTG
1 GCCGCTAAAT-CCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTT-
* *
34309339 C-CAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAT
64 CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* * * ** *
34309388 GCCACTAAATCCCTGAAAACTCACAAAACGGCGTCATTGGGCTTAT-TTTTTTTGCGGCAATTTT
1 GCCGCTAAATCCC-GAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
* *
34309452 TCAAAAACGCCGCTAAAGCCCTGAGCATTAGTGGCACTTTCTTAAAAAC
65 TCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* * * * * *
34309501 GCCGTTAAATCCCCGAAAGCTCAGAAAACGACATCGTTGTGCTTA-GATTTTTTGCGGCGCTTTC
1 GCCGCTAAAT-CCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
34309565 TCAAAAACGCCGCTGAAA-CCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
65 TCAAAAACGCCGCT-AAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
** * * * *
34309614 GCCATTAAATCCTCGAAAGCTCACAAAACGGCGTCTTTGGGCTTATTTTTTTTTGCAGTGCTTTG
1 GCCGCTAAATCC-CGAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTT-
* *
34309679 C-CAAAAAC-TCACTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
64 CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* * * * *
34309727 GCCGCAAAATCCCCAGAAGTTCACAAAACGGCGTCGTTGTGCTTA-GGTTTTTTGCGGCGCTTTC
1 GCCGCTAAATCCCGA-AAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTC
34309791 T
65 T
34309792 GGAAACGCCG
Statistics
Matches: 641, Mismatches: 90, Indels: 38
0.83 0.12 0.05
Matches are distributed among these distances:
111 1 0.00
112 21 0.03
113 258 0.40
114 260 0.41
115 2 0.00
117 97 0.15
118 2 0.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (113 bp):
GCCGCTAAATCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATGTTTTTTTGCGGCGCTTTCT
CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
Found at i:34309438 original size:113 final size:113
Alignment explanation
Indices: 34308929--34309789 Score: 1048
Period size: 113 Copynumber: 7.6 Consensus size: 113
34308919 AACATTTTTG
34308929 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATATTTTTTTGCGGCGCTTTG
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAT-TTTTTTTGCGGCGCTTTG
* * * *
34308994 TCAAAAACGCCGATAAAACCCTGAGCATTAGCGGCGCTTCCTTAAAAAC
65 CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* * * * * * *
34309043 GCCGCTAAATCACCGAAAGTTCATAAAACGACGTCGTTGGGCCTATGTTTTTTTGGGGCGCTTTC
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAT-TTTTTTTGCGGCGCTTTG
**
34309108 CCAAAAACGCCGCTAAAGCCCTGAGCATTAGTAGCGCTTTCTTAAAAAC
65 CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* ** * *
34309157 GACGCTAAATCCTTGAAAGCTCACAAAACGGCGACGTTGGGCTTATGTTTTTTTTTTGCGGTGCT
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTA----TTTTTTTTGCGGCGCT
* * *
34309222 TT-CTCAAAAACGCCGCTAAAACCCTGAGCATTAGCAGCGCTTCCTTAAAAAC
62 TTGC-CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* ** * * *
34309274 GCCACTAAATCCCCGAAAGCTCACAAAACAACATCGTTGGGCTTTTGTTTTTTTGCGGTGCTTTG
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTAT-TTTTTTTGCGGCGCTTTG
* *
34309339 CCAAAAATGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAT
65 CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* * * * ** **
34309388 GCCACTAAATCCCTGAAAACTCACAAAACGGCGTCATTGGGCTTATTTTTTTTGCGGCAATTTTT
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATTTTTTTTGCGGCGCTTTGC
* *
34309453 CAAAAACGCCGCTAAAGCCCTGAGCATTAGTGGCACTTTCTTAAAAAC
66 CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* * * * * **
34309501 GCCGTTAAATCCCCGAAAGCTCAGAAAACGACATCGTTGTGCTTAGATTTTTTGCGGCGCTTT-C
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATTTTTTTTGCGGCGCTTTGC
34309565 TCAAAAACGCCGCTGAAA-CCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
66 -CAAAAACGCCGCT-AAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
** * * * *
34309614 GCCATTAAATCCTCGAAAGCTCACAAAACGGCGTCTTTGGGCTTATTTTTTTTTGCAGTGCTTTG
1 GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTA-TTTTTTTTGCGGCGCTTTG
* *
34309679 CCAAAAAC-TCACTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
65 CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
* * * **
34309727 GCCGCAAAATCCCC-AGAAGTTCACAAAACGGCGTCGTTGTGCTTAGGTTTTTTGCGGCGCTTT
1 GCCGCTAAATCCCCGA-AAGCTCACAAAACGGCGTCGTTGGGCTTATTTTTTTTGCGGCGCTTT
34309790 CTGGAAACGC
Statistics
Matches: 636, Mismatches: 98, Indels: 28
0.83 0.13 0.04
Matches are distributed among these distances:
112 18 0.03
113 259 0.41
114 259 0.41
115 2 0.00
116 1 0.00
117 96 0.15
118 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (113 bp):
GCCGCTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATTTTTTTTGCGGCGCTTTGC
CAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAAC
Found at i:34309646 original size:226 final size:227
Alignment explanation
Indices: 34308933--34309791 Score: 1118
Period size: 231 Copynumber: 3.8 Consensus size: 227
34308923 TTTTTGGCCG
* *
34308933 CTAAATCCCCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATATTTTTTTGCGGCGCTTTGTCAA
1 CTAAATCCTCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATTTTTTTTTGCGGCGCTTTGTCAA
* * *
34308998 AAACGCCGATAAAACCCTGAGCATTAGCGGCGCTTCCTTAAAAACGCCGCTAAATCACCGAAAGT
66 AAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCCTTAAAAACGCCGCTAAATCCCCGAAAGC
* * * * *
34309063 TCATAAAACGACGTCGTTGGGCCTATGTTTTTTTGGGGCGCTTTCCCAAAAACGCCGCTAAAGCC
131 TCACAAAACGACATCGTTGGGCTTA-GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCC
** * *
34309128 CTGAGCATTAGTAGCGCTTTCTTAAAAACGACG
195 CTGAGCATTAGCGGCGCTTTCTTAAAAACGCCA
* * * *
34309161 CTAAATCCTTGAAAGCTCACAAAACGGCGACGTTGGGCTTATGTTTTTTTTTTGCGGTGCTTTCT
1 CTAAATCCTCGAAAGCTCACAAAACGGCGTCGTTGGGCTTA---TTTTTTTTTGCGGCGCTTTGT
* *
34309226 CAAAAACGCCGCTAAAACCCTGAGCATTAGCAGCGCTTCCTTAAAAACGCCACTAAATCCCCGAA
63 CAAAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCCTTAAAAACGCCGCTAAATCCCCGAA
* * * *
34309291 AGCTCACAAAACAACATCGTTGGGCTTTTGTTTTTTTGCGGTGCTTTGC-CAAAAATGCCGCTAA
128 AGCTCACAAAACGACATCGTTGGGC-TTAGTTTTTTTGCGGCGCTTT-CTCAAAAACGCCGCTAA
*
34309355 AGCCCTGAGCATTAGCGGCGCTTTCTTAAAAATGCCA
191 AGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCA
* * ** *
34309392 CTAAATCC-CTGAAAACTCACAAAACGGCGTCATTGGGCTTA-TTTTTTTTGCGGCAATTTTTCA
1 CTAAATCCTC-GAAAGCTCACAAAACGGCGTCGTTGGGCTTATTTTTTTTTGCGGCGCTTTGTCA
* * * * *
34309455 AAAACGCCGCTAAAGCCCTGAGCATTAGTGGCACTTTCTTAAAAACGCCGTTAAATCCCCGAAAG
65 AAAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCCTTAAAAACGCCGCTAAATCCCCGAAAG
* * *
34309520 CTCAGAAAACGACATCGTTGTGCTTAGATTTTTTGCGGCGCTTTCTCAAAAACGCCGCTGAAA-C
130 CTCACAAAACGACATCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCT-AAAGC
34309584 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCA
194 CCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCA
* * * * *
34309618 TTAAATCCTCGAAAGCTCACAAAACGGCGTCTTTGGGCTTATTTTTTTTTGCAGTGCTTTGCCAA
1 CTAAATCCTCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATTTTTTTTTGCGGCGCTTTGTCAA
* * * * *
34309683 AAAC-TCACTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCAAAATCCCC-AGAAG
66 AAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCCTTAAAAACGCCGCTAAATCCCCGA-AAG
* * * * *
34309746 TTCACAAAACGGCGTCGTTGTGCTTAGGTTTTTTGCGGCGCTTTCT
130 CTCACAAAACGACATCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCT
34309792 GGAAACGCCG
Statistics
Matches: 553, Mismatches: 67, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
225 2 0.00
226 192 0.35
227 121 0.22
228 38 0.07
231 198 0.36
232 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (227 bp):
CTAAATCCTCGAAAGCTCACAAAACGGCGTCGTTGGGCTTATTTTTTTTTGCGGCGCTTTGTCAA
AAACGCCGCTAAAACCCTGAGCATTAGCGGCGCTTCCTTAAAAACGCCGCTAAATCCCCGAAAGC
TCACAAAACGACATCGTTGGGCTTAGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCC
TGAGCATTAGCGGCGCTTTCTTAAAAACGCCA
Found at i:34313816 original size:25 final size:25
Alignment explanation
Indices: 34313788--34313845 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
34313778 GCGAGCCATT
*
34313788 TATCGGGAAGCTCAAGAGAGCCAAA
1 TATCGGGAAACTCAAGAGAGCCAAA
*** * *
34313813 TATCAAAAAACTCATGATAGCCAAA
1 TATCGGGAAACTCAAGAGAGCCAAA
34313838 TATCGGGA
1 TATCGGGA
34313846 TTCTCATAAG
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (25 bp):
TATCGGGAAACTCAAGAGAGCCAAA
Found at i:34314320 original size:26 final size:27
Alignment explanation
Indices: 34314291--34314348 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
34314281 AATCCTTATT
*
34314291 TCAAGACTAACC-GATTTTCATACATA
1 TCAAGACAAACCAGATTTTCATACATA
* * *
34314317 TCAATAGAAACCAATATTTTCATACATA
1 TCAAGACAAACC-AGATTTTCATACATA
34314345 TCAA
1 TCAA
34314349 TAGAAACCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 9 0.35
28 17 0.65
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (27 bp):
TCAAGACAAACCAGATTTTCATACATA
Found at i:34314339 original size:28 final size:28
Alignment explanation
Indices: 34314304--34314361 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
34314294 AGACTAACCG
34314304 ATTTTCATACATATCAATAGAAACCAAT
1 ATTTTCATACATATCAATAGAAACCAAT
*
34314332 ATTTTCATACATATCAATAGAAACCCAT
1 ATTTTCATACATATCAATAGAAACCAAT
34314360 AT
1 AT
34314362 CAATAGAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (28 bp):
ATTTTCATACATATCAATAGAAACCAAT
Found at i:34314362 original size:16 final size:16
Alignment explanation
Indices: 34314341--34314371 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34314331 TATTTTCATA
34314341 CATATCAATAGAAACC
1 CATATCAATAGAAACC
34314357 CATATCAATAGAAAC
1 CATATCAATAGAAAC
34314372 TCTATTGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.23, G:0.06, T:0.19
Consensus pattern (16 bp):
CATATCAATAGAAACC
Found at i:34318495 original size:13 final size:13
Alignment explanation
Indices: 34318477--34318501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34318467 TCAGATCCGG
34318477 TCAAAAAAATATT
1 TCAAAAAAATATT
34318490 TCAAAAAAATAT
1 TCAAAAAAATAT
34318502 CAAAATCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
TCAAAAAAATATT
Found at i:34318574 original size:6 final size:6
Alignment explanation
Indices: 34318565--34318604 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
34318555 TGAAAATGAT
*
34318565 GAAAAA G-AAAA GAAAAA G-AGAA GAAAAA G-AAAA GAAAAA G
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA G
34318605 GAGAGACCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
5 14 0.48
6 15 0.52
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:34318581 original size:11 final size:11
Alignment explanation
Indices: 34318565--34318604 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
34318555 TGAAAATGAT
34318565 GAAAAAGAAAA
1 GAAAAAGAAAA
*
34318576 GAAAAAGAGAA
1 GAAAAAGAAAA
34318587 GAAAAAGAAAA
1 GAAAAAGAAAA
34318598 GAAAAAG
1 GAAAAAG
34318605 GAGAGACCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:34319563 original size:13 final size:12
Alignment explanation
Indices: 34319545--34319592 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
34319535 TTTGAGTCAA
*
34319545 AAAAAATAAAAAT
1 AAAAAA-AAAAAG
*
34319558 AAAAAAATAAAG
1 AAAAAAAAAAAG
34319570 AAAAAAGAAAAAG
1 AAAAAA-AAAAAG
34319583 AAAAAGAAAA
1 AAAAA-AAAA
34319593 TGGAGAGGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 10 0.33
13 19 0.63
14 1 0.03
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.06
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:34319580 original size:6 final size:6
Alignment explanation
Indices: 34319546--34319592 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
34319536 TTGAGTCAAA
* *
34319546 AAAAAT AAAAAT AAAAA- AATAAAG AAAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AA-AAAG -AAAAAG AAAAAG AAAAAG AAAA
34319593 TGGAGAGGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.05
6 30 0.79
7 4 0.11
8 2 0.05
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (6 bp):
AAAAAG
Found at i:34319580 original size:19 final size:19
Alignment explanation
Indices: 34319552--34319592 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
34319542 CAAAAAAAAT
*
34319552 AAAAATAAAAA-AATAAAGA
1 AAAAAGAAAAAGAA-AAAGA
34319571 AAAAAGAAAAAGAAAAAGA
1 AAAAAGAAAAAGAAAAAGA
34319590 AAA
1 AAA
34319593 TGGAGAGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (19 bp):
AAAAAGAAAAAGAAAAAGA
Found at i:34320911 original size:50 final size:50
Alignment explanation
Indices: 34320846--34321486 Score: 746
Period size: 50 Copynumber: 12.8 Consensus size: 50
34320836 CTGGCATTGT
* * * * *
34320846 AGTGGAACAGATTAAAGCTACAATAGTGAATCTTACTTCCCTGGCGTGGC
1 AGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTTGC
* * ** * *
34320896 ATTGAAATAGATTAAAGCTACAACAATGAATCTTACTTCCCTGGCGGTGC
1 AGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTTGC
* *
34320946 AGTGGAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTTAC
1 AGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTTGC
* * *
34320996 GGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGC
1 AGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTTGC
* * ** *
34321046 AGTGAAACAGATTAAGGCTACAACAGCAAATCTTACTTCCTTGGCGGTGC
1 AGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTTGC
* * * * *
34321096 AGTGGAACAGATTAAAGCTACAATAGCAAATCTTACTT-CCCAGTGTTGC
1 AGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTTGC
* * *
34321145 AATGAAACAAATTAAAGCTACAATAGCGAATCTTACTTCCCCGGCGTTGC
1 AGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTTGC
* * * *** *
34321195 AAT-AGAACAGATTGAAGCTACAATAGCGAATCTTACTTCTATGGCATTGC
1 AGTGA-AACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTTGC
*
34321245 AGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTGGC
1 AGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTTGC
* * * * *
34321295 AGTGAAGCAGATTAAAGCTACAACAGTGAATCTTACTTCCCTGACATTGC
1 AGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTTGC
** * ** * *
34321345 AGTGAAGTAGGTTAAAGCTACAACAATGAATCTTACTTCCCCGGCATTGT
1 AGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTTGC
* * * * *
34321395 GGTGAGACAGATTAAAGCTACAACAGCAAATCTTACTTCCCCAGCGTTAC
1 AGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTTGC
* * *
34321445 AATGAAACAGATTAAAGCTACAACAACGAATCTTATTTCCCC
1 AGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCC
34321487 TGTAATATCC
Statistics
Matches: 503, Mismatches: 85, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
49 41 0.08
50 461 0.92
51 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (50 bp):
AGTGAAACAGATTAAAGCTACAACAGCGAATCTTACTTCCCCGGCGTTGC
Found at i:34321516 original size:23 final size:23
Alignment explanation
Indices: 34321486--34321537 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
34321476 CTTATTTCCC
*
34321486 CTGTAATATCCCAAAAATTACTA
1 CTGTAATACCCCAAAAATTACTA
*
34321509 CTGTAATACCCCGAAAATTACTA
1 CTGTAATACCCCAAAAATTACTA
*
34321532 CAGTAA
1 CTGTAA
34321538 GAAAGTAGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (23 bp):
CTGTAATACCCCAAAAATTACTA
Found at i:34322033 original size:8 final size:8
Alignment explanation
Indices: 34322020--34322056 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
34322010 TTTTAGATAA
34322020 TATTTTAT
1 TATTTTAT
34322028 TATTTTAT
1 TATTTTAT
*
34322036 TATTTTTT
1 TATTTTAT
*
34322044 TATTTTTT
1 TATTTTAT
34322052 TATTT
1 TATTT
34322057 AGTATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (8 bp):
TATTTTAT
Found at i:34330336 original size:50 final size:50
Alignment explanation
Indices: 34330275--34330386 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 50
34330265 AATTCATATT
* *
34330275 CCGGAATGCTCATACGAGC-ATGTAAACAGGAAGCTCTTTCGAGCCATATAA
1 CCGGAA-GCTCATACGAGCGAAGT-AACAGGAAGCTCTTGCGAGCCATATAA
* ** * * *
34330326 CGGGAAGCTCATGTGAGCGAAGTAACGGGAAGCTCTTGCGAGCCATTTAT
1 CCGGAAGCTCATACGAGCGAAGTAACAGGAAGCTCTTGCGAGCCATATAA
34330376 CCGGAAGCTCA
1 CCGGAAGCTCA
34330387 ATAGAGCCAA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
50 43 0.84
51 8 0.16
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (50 bp):
CCGGAAGCTCATACGAGCGAAGTAACAGGAAGCTCTTGCGAGCCATATAA
Found at i:34330343 original size:25 final size:25
Alignment explanation
Indices: 34330277--34330386 Score: 80
Period size: 25 Copynumber: 4.4 Consensus size: 25
34330267 TTCATATTCC
* * *
34330277 GGAATGCTCATACGAG-CATGTAAACA
1 GGAA-GCTCATGCGAGCCATAT-AACG
* *
34330303 GGAAGCTCTTTCGAGCCATATAACG
1 GGAAGCTCATGCGAGCCATATAACG
* *
34330328 GGAAGCTCATGTGAGCGA-AGTAACG
1 GGAAGCTCATGCGAGCCATA-TAACG
* * * *
34330353 GGAAGCTCTTGCGAGCCATTTATCC
1 GGAAGCTCATGCGAGCCATATAACG
34330378 GGAAGCTCA
1 GGAAGCTCA
34330387 ATAGAGCCAA
Statistics
Matches: 66, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
24 1 0.02
25 57 0.86
26 8 0.12
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (25 bp):
GGAAGCTCATGCGAGCCATATAACG
Found at i:34332768 original size:23 final size:23
Alignment explanation
Indices: 34332742--34332851 Score: 64
Period size: 23 Copynumber: 4.9 Consensus size: 23
34332732 TGCACCACAA
*
34332742 AGGCCAAACAGAGTATGCCATAT
1 AGGCCAAACAGAATATGCCATAT
** * * *
34332765 AGGCTTAGCA-AATTATGCCACAA
1 AGGCCAAACAGAA-TATGCCATAT
**
34332788 AGGCCAAACAGAATACACCATAT
1 AGGCCAAACAGAATATGCCATAT
** * * *
34332811 AGGCTTAGCAAAATATGCCATAA
1 AGGCCAAACAGAATATGCCATAT
*
34332834 AGCCCAAACA-AA-ATGCCA
1 AGGCCAAACAGAATATGCCA
34332852 CCCAGGCATT
Statistics
Matches: 61, Mismatches: 24, Indels: 6
0.67 0.26 0.07
Matches are distributed among these distances:
21 6 0.10
22 3 0.05
23 50 0.82
24 2 0.03
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (23 bp):
AGGCCAAACAGAATATGCCATAT
Found at i:34332793 original size:46 final size:46
Alignment explanation
Indices: 34332736--34332843 Score: 162
Period size: 46 Copynumber: 2.3 Consensus size: 46
34332726 ACATAATGCA
* ** *
34332736 CCACAAAGGCCAAACAGAGTATGCCATATAGGCTTAGCAAATTATG
1 CCACAAAGGCCAAACAGAATACACCATATAGGCTTAGCAAAATATG
34332782 CCACAAAGGCCAAACAGAATACACCATATAGGCTTAGCAAAATATG
1 CCACAAAGGCCAAACAGAATACACCATATAGGCTTAGCAAAATATG
* *
34332828 CCATAAAGCCCAAACA
1 CCACAAAGGCCAAACA
34332844 AAATGCCACC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 56 1.00
ACGTcount: A:0.44, C:0.25, G:0.16, T:0.16
Consensus pattern (46 bp):
CCACAAAGGCCAAACAGAATACACCATATAGGCTTAGCAAAATATG
Found at i:34332830 original size:69 final size:68
Alignment explanation
Indices: 34332700--34332832 Score: 158
Period size: 69 Copynumber: 1.9 Consensus size: 68
34332690 ACCACATAAT
* * * * *
34332700 CTTAGCAGATTACGCCACAAAGGCAAACATAATGCACCACAAAGGCCAAACAGAGTATGCCATAT
1 CTTAGCAAATTACGCCACAAAGGCAAACAGAATACACCACAAAGGCCAAACAAAATATGCCATAT
34332765 AGG
66 AGG
* * * ** *
34332768 CTTAGCAAATTATGCCACAAAGGCCAAACAGAATACACCATATAGGCTTAGCAAAATATGCCATA
1 CTTAGCAAATTACGCCACAAAGG-CAAACAGAATACACCACAAAGGCCAAACAAAATATGCCATA
34332833 AAGCCCAAAC
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
68 21 0.40
69 32 0.60
ACGTcount: A:0.42, C:0.24, G:0.17, T:0.17
Consensus pattern (68 bp):
CTTAGCAAATTACGCCACAAAGGCAAACAGAATACACCACAAAGGCCAAACAAAATATGCCATAT
AGG
Found at i:34333373 original size:25 final size:25
Alignment explanation
Indices: 34333334--34333417 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
34333324 ACAGTTGGTA
**
34333334 AGAGCATACTGATTTATAGCTTGTG
1 AGAGCATACCAATTTATAGCTTGTG
* * *
34333359 AGAGTATATCAATTTATAGCTCGTG
1 AGAGCATACCAATTTATAGCTTGTG
* *
34333384 AGAGCATACCGATTCATAGCTTGT-
1 AGAGCATACCAATTTATAGCTTGTG
34333408 ATGAGCATAC
1 A-GAGCATAC
34333418 ATGTACGTGA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
24 1 0.02
25 47 0.98
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (25 bp):
AGAGCATACCAATTTATAGCTTGTG
Found at i:34335138 original size:17 final size:17
Alignment explanation
Indices: 34335116--34335153 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
34335106 CACTTGCCCA
34335116 TGTGTGGCAAACGACCG
1 TGTGTGGCAAACGACCG
* *
34335133 TGTGTGGCACATGACCG
1 TGTGTGGCAAACGACCG
34335150 TGTG
1 TGTG
34335154 AGCAAATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.21, G:0.37, T:0.24
Consensus pattern (17 bp):
TGTGTGGCAAACGACCG
Found at i:34347460 original size:19 final size:21
Alignment explanation
Indices: 34347436--34347480 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
34347426 CAACCCAATT
34347436 TTTATTTTTA-TTT-TTTTAC
1 TTTATTTTTATTTTATTTTAC
34347455 TTTA-TTTTATTTTATTTTAC
1 TTTATTTTTATTTTATTTTAC
34347475 -TTATTT
1 TTTATTT
34347481 GGATATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.22
19 10 0.43
20 8 0.35
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTATTTTTATTTTATTTTAC
Found at i:34366477 original size:8 final size:8
Alignment explanation
Indices: 34366460--34366527 Score: 70
Period size: 8 Copynumber: 8.5 Consensus size: 8
34366450 CTTTTAATCA
34366460 ATTT-ACC
1 ATTTGACC
34366467 ATTTGACC
1 ATTTGACC
34366475 ATTT-ACC
1 ATTTGACC
*
34366482 ATTT-AGC
1 ATTTGACC
34366489 ATTTGACC
1 ATTTGACC
34366497 ATTTGACC
1 ATTTGACC
*
34366505 ATTTTACAC
1 ATTTGAC-C
34366514 TTATTTGACC
1 --ATTTGACC
34366524 ATTT
1 ATTT
34366528 TCCATTTATC
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
7 17 0.33
8 27 0.52
9 1 0.02
10 1 0.02
11 6 0.12
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (8 bp):
ATTTGACC
Found at i:34366480 original size:15 final size:15
Alignment explanation
Indices: 34366460--34366534 Score: 80
Period size: 15 Copynumber: 4.7 Consensus size: 15
34366450 CTTTTAATCA
34366460 ATTTACCATTTGACC
1 ATTTACCATTTGACC
*
34366475 ATTTACCATTT-AGC
1 ATTTACCATTTGACC
34366489 ATTTGACCATTTGACC
1 ATTT-ACCATTTGACC
34366505 ATTTTACACTTATTTGACC
1 A-TTTAC-C--ATTTGACC
*
34366524 ATTTTCCATTT
1 ATTTACCATTT
34366535 ATCAATATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
14 6 0.12
15 22 0.43
16 5 0.10
17 5 0.10
18 4 0.08
19 9 0.18
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.45
Consensus pattern (15 bp):
ATTTACCATTTGACC
Found at i:34369767 original size:81 final size:81
Alignment explanation
Indices: 34369632--34369795 Score: 328
Period size: 81 Copynumber: 2.0 Consensus size: 81
34369622 TTGAAGAATT
34369632 GTAAGAGAATAAATCTTGAAATACTTCTGCAACCGAATACTCTATGTGTCAAACATTAGTTTGTT
1 GTAAGAGAATAAATCTTGAAATACTTCTGCAACCGAATACTCTATGTGTCAAACATTAGTTTGTT
34369697 CGAAGCTTATAAAGTG
66 CGAAGCTTATAAAGTG
34369713 GTAAGAGAATAAATCTTGAAATACTTCTGCAACCGAATACTCTATGTGTCAAACATTAGTTTGTT
1 GTAAGAGAATAAATCTTGAAATACTTCTGCAACCGAATACTCTATGTGTCAAACATTAGTTTGTT
34369778 CGAAGCTTATAAAGTG
66 CGAAGCTTATAAAGTG
34369794 GT
1 GT
34369796 GAACTCACTA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (81 bp):
GTAAGAGAATAAATCTTGAAATACTTCTGCAACCGAATACTCTATGTGTCAAACATTAGTTTGTT
CGAAGCTTATAAAGTG
Found at i:34371167 original size:23 final size:23
Alignment explanation
Indices: 34371139--34371182 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
34371129 GAATAATATG
34371139 ATTATTCTTAAAAGATCCTTATT
1 ATTATTCTTAAAAGATCCTTATT
34371162 ATTATTCTTAAAAGATCCTTA
1 ATTATTCTTAAAAGATCCTTA
34371183 ATCAAGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.14, G:0.05, T:0.45
Consensus pattern (23 bp):
ATTATTCTTAAAAGATCCTTATT
Found at i:34373206 original size:27 final size:26
Alignment explanation
Indices: 34373165--34373311 Score: 95
Period size: 27 Copynumber: 5.5 Consensus size: 26
34373155 GGCCTTCAGA
* **
34373165 AAGGTAAAATTACTAAAATATGCTCG
1 AAGGTAAAATGACTAAAATACCCTCG
*
34373191 AAGGATAAAATGACTAGAATACCCTCG
1 AAGG-TAAAATGACTAAAATACCCTCG
* * *
34373218 AAGGGTAAAATGA-TCGAAATACCCCCA
1 AA-GGTAAAATGACT-AAAATACCCTCG
* *
34373245 AAGGGTAAAATTGTC-GAAATATCCC-CG
1 AA-GGTAAAA-TGACTAAAATA-CCCTCG
*
34373272 AAGGGTAAAATGACTGAAATACCCT-G
1 AA-GGTAAAATGACTAAAATACCCTCG
*
34373298 TAGGATAAAATGAC
1 AAGG-TAAAATGAC
34373312 CGTAATGCCC
Statistics
Matches: 100, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
25 2 0.02
26 22 0.22
27 69 0.69
28 7 0.07
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (26 bp):
AAGGTAAAATGACTAAAATACCCTCG
Found at i:34373254 original size:54 final size:54
Alignment explanation
Indices: 34373191--34373295 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 54
34373181 AATATGCTCG
*
34373191 AAGGATAAAA-TGACTAGAATA-CCCTCGAAGGGTAAAATGA-TCGAAATACCCCCA
1 AAGGATAAAATTGACGA-AATATCCC-CGAAGGGTAAAATGACT-GAAATACCCCCA
* *
34373245 AAGGGTAAAATTGTCGAAATATCCCCGAAGGGTAAAATGACTGAAATACCC
1 AAGGATAAAATTGACGAAATATCCCCGAAGGGTAAAATGACTGAAATACCC
34373296 TGTAGGATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
54 37 0.82
55 8 0.18
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.18
Consensus pattern (54 bp):
AAGGATAAAATTGACGAAATATCCCCGAAGGGTAAAATGACTGAAATACCCCCA
Found at i:34373328 original size:27 final size:27
Alignment explanation
Indices: 34373273--34373416 Score: 173
Period size: 27 Copynumber: 5.4 Consensus size: 27
34373263 ATATCCCCGA
* * *
34373273 AGGGTAAAATGACTGAAAT-ACCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
*
34373299 AGGATAAAATGACCGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
34373326 AGGGTAAAATGACCATAATGCTCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* * *
34373353 AAGGTAAAATGACTGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATGCCCCTGT
* *
34373380 AGGGTAAATTGACCGTAATACCCCTGT
1 AGGGTAAAATGACCGTAATGCCCCTGT
34373407 AGGGTAAAAT
1 AGGGTAAAAT
34373417 AACTATTTTG
Statistics
Matches: 99, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 16 0.16
27 83 0.84
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATGCCCCTGT
Found at i:34373468 original size:24 final size:24
Alignment explanation
Indices: 34373438--34373570 Score: 158
Period size: 24 Copynumber: 5.5 Consensus size: 24
34373428 CCCTTGGGGT
* *
34373438 TAAATGATTGATTTGCCTGTGATG
1 TAAATGACTGATTTGTCTGTGATG
* ***
34373462 TAAATGAATGATTTGTCCAAGATG
1 TAAATGACTGATTTGTCTGTGATG
*
34373486 TAAATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATG
*
34373510 TAAATGACTGATTTGTCTGTGATT
1 TAAATGACTGATTTGTCTGTGATG
* *
34373534 TAAATGACTGATTTATCTGTGATT
1 TAAATGACTGATTTGTCTGTGATG
**
34373558 TGTATGACTGATT
1 TAAATGACTGATT
34373571 CCGTGCATGG
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 96 1.00
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (24 bp):
TAAATGACTGATTTGTCTGTGATG
Found at i:34373796 original size:32 final size:32
Alignment explanation
Indices: 34373745--34373931 Score: 241
Period size: 32 Copynumber: 5.8 Consensus size: 32
34373735 GTGATGCTAT
* *
34373745 TGATGGCTTTGTGCCGATCATATTACCATTAC
1 TGATGGCTGTGTGCCGATCATATTACTATTAC
**
34373777 TGATGGCTGTGTGTTGATCATATTA-TCATTAC
1 TGATGGCTGTGTGCCGATCATATTACT-ATTAC
* * *
34373809 TAATGGCTGTGTGTCGATCATATTACTACTAC
1 TGATGGCTGTGTGCCGATCATATTACTATTAC
* *
34373841 TGATGGCTTTGTGCCGATCATACTACTATTAC
1 TGATGGCTGTGTGCCGATCATATTACTATTAC
* *
34373873 TGATGGCTGTGTGCCAATCATATTACTACTAC
1 TGATGGCTGTGTGCCGATCATATTACTATTAC
* *
34373905 TGATGGCTTTGTGCCAATCATATTACT
1 TGATGGCTGTGTGCCGATCATATTACT
34373932 GTACTTATGG
Statistics
Matches: 136, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
32 135 0.99
33 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (32 bp):
TGATGGCTGTGTGCCGATCATATTACTATTAC
Found at i:34373911 original size:96 final size:95
Alignment explanation
Indices: 34373745--34373944 Score: 267
Period size: 96 Copynumber: 2.1 Consensus size: 95
34373735 GTGATGCTAT
* *** *
34373745 TGATGGCTTTGTGCCGATCATATTACCATTACTGATGGCTGTGTGTTGATCATATTATCATTACT
1 TGATGGCTTTGTGCCGATCATACTACCATTACTGATGGCTGTGTGCCAATCATATTATCACTACT
* *
34373810 AATGGCTGTGTGTCGATCATATTACTACTAC
66 AATGGCTGTGTGCCAATCATATTACT-CTAC
*
34373841 TGATGGCTTTGTGCCGATCATACTACTATTACTGATGGCTGTGTGCCAATCATATTA-CTACTAC
1 TGATGGCTTTGTGCCGATCATACTACCATTACTGATGGCTGTGTGCCAATCATATTATC-ACTAC
* * *
34373905 TGATGGCTTTGTGCCAATCATATTACTGTAC
65 TAATGGCTGTGTGCCAATCATATTACTCTAC
*
34373936 TTATGGCTT
1 TGATGGCTT
34373945 GTAGACATTC
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
95 12 0.13
96 79 0.87
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.39
Consensus pattern (95 bp):
TGATGGCTTTGTGCCGATCATACTACCATTACTGATGGCTGTGTGCCAATCATATTATCACTACT
AATGGCTGTGTGCCAATCATATTACTCTAC
Found at i:34378140 original size:38 final size:38
Alignment explanation
Indices: 34378098--34378171 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
34378088 ATGTAGAATC
34378098 AATGGAACCTAAAGGCTTGATCCATTTCTATTTACATT
1 AATGGAACCTAAAGGCTTGATCCATTTCTATTTACATT
34378136 AATGGAACCTAAAGGCTTGATCCATTTCTATTTACA
1 AATGGAACCTAAAGGCTTGATCCATTTCTATTTACA
34378172 AAATTTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (38 bp):
AATGGAACCTAAAGGCTTGATCCATTTCTATTTACATT
Found at i:34396601 original size:73 final size:72
Alignment explanation
Indices: 34396493--34396635 Score: 214
Period size: 73 Copynumber: 2.0 Consensus size: 72
34396483 TTAGGTAAGA
* * * * *
34396493 ATCTCCTCCGGTCTCATCCTAGAATAAAAGGTACCACATAAGCTTTCCTCTTGGTCTCAATTAGG
1 ATCTCCCCCGGTCTCATCCTAGAAGAAAAGATACCACATAAGCTCTCCTCTTGGTCTCAACTAGG
34396558 CATATCG
66 CATATCG
* *
34396565 ATCTCCCCTCGGTCTCATCCTAGACGAAAAGATACCACATAAGCTCTCCTCTTGGTCTTAACTAG
1 ATCTCCCC-CGGTCTCATCCTAGAAGAAAAGATACCACATAAGCTCTCCTCTTGGTCTCAACTAG
34396630 GCATAT
65 GCATAT
34396636 AGATTTCCTC
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
72 7 0.11
73 56 0.89
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (72 bp):
ATCTCCCCCGGTCTCATCCTAGAAGAAAAGATACCACATAAGCTCTCCTCTTGGTCTCAACTAGG
CATATCG
Found at i:34396654 original size:73 final size:73
Alignment explanation
Indices: 34396504--34396654 Score: 203
Period size: 73 Copynumber: 2.1 Consensus size: 73
34396494 TCTCCTCCGG
* * * * *
34396504 TCTCATCCTAGAATAAAAGGTACCACATAAGCTTTCCTCTTGGTCTCAATTAGGCATATCGATCT
1 TCTCATCCTAGAAGAAAAGATACCACATAAGCTCTCCTCTTGGTCTCAACTAGGCATATAGATCT
*
34396569 CCCCTCGG
66 CCCCTCGA
* * *
34396577 TCTCATCCTAGACGAAAAGATACCACATAAGCTCTCCTCTTGGTCTTAACTAGGCATATAGATTT
1 TCTCATCCTAGAAGAAAAGATACCACATAAGCTCTCCTCTTGGTCTCAACTAGGCATATAGATCT
* *
34396642 CCTCTTGA
66 CCCCTCGA
34396650 TCTCA
1 TCTCA
34396655 CTATTCGACA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (73 bp):
TCTCATCCTAGAAGAAAAGATACCACATAAGCTCTCCTCTTGGTCTCAACTAGGCATATAGATCT
CCCCTCGA
Found at i:34403759 original size:6 final size:6
Alignment explanation
Indices: 34403748--34403780 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
34403738 AATTATTTTG
34403748 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAA
34403781 TCTGGAACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:34411500 original size:54 final size:53
Alignment explanation
Indices: 34411413--34411515 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 53
34411403 CCAAGTCTGT
*
34411413 GAGTTACACGGCCTAGCACACGGCCTAGAACACGAGCGTGTGTGGGAACTTAGA
1 GAGTTACACAGCCTAGCACACGGCCTAGAACACGAGCGTGTG-GGGAACTTAGA
* * *
34411467 GAGTTACACAGCCTAGCACACGGCCTGGCACACGGGCGTGTGGGGAACT
1 GAGTTACACAGCCTAGCACACGGCCTAGAACACGAGCGTGTGGGGAACT
34411516 CAGTGAGGAC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.25, C:0.26, G:0.33, T:0.16
Consensus pattern (53 bp):
GAGTTACACAGCCTAGCACACGGCCTAGAACACGAGCGTGTGGGGAACTTAGA
Found at i:34412954 original size:14 final size:14
Alignment explanation
Indices: 34412922--34412961 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
34412912 ATTTCTCGTG
*
34412922 TTTCATTTATTTAC
1 TTTCTTTTATTTAC
*
34412936 TTTCTTTTATTTCC
1 TTTCTTTTATTTAC
34412950 TTTCTTATTATT
1 TTTCTT-TTATT
34412962 ATTTGTATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTCTTTTATTTAC
Found at i:34414159 original size:27 final size:27
Alignment explanation
Indices: 34414127--34414189 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
34414117 TGTTTGCCAC
* *
34414127 TAGGCCTGGCGAGTTAGTATTCACTAG
1 TAGGCCTGGCGAGTTAATATTCACCAG
* *
34414154 TGGGCCTGGCGAGTTAATATTCGCCAG
1 TAGGCCTGGCGAGTTAATATTCACCAG
34414181 TAGGCCTGG
1 TAGGCCTGG
34414190 TGAGGAGGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.27
Consensus pattern (27 bp):
TAGGCCTGGCGAGTTAATATTCACCAG
Found at i:34420674 original size:18 final size:18
Alignment explanation
Indices: 34420632--34420674 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
34420622 GTTTGAATTT
*
34420632 AATATTTCAATTATATAA
1 AATATTTCAATTAAATAA
34420650 AATTATTT-AATTAAAATAA
1 AA-TATTTCAATT-AAATAA
34420669 AATATT
1 AATATT
34420675 ATCTTTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATTTCAATTAAATAA
Found at i:34425897 original size:28 final size:26
Alignment explanation
Indices: 34425853--34425904 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
34425843 TTAATTCCAA
*
34425853 CTTTTATAACATGTATATATATACATAT
1 CTTTTATAACA--TATATAAATACATAT
*
34425881 CTTTTATAATATATATAAATACAT
1 CTTTTATAACATATATAAATACAT
34425905 GCACATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
28 10 0.45
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.46
Consensus pattern (26 bp):
CTTTTATAACATATATAAATACATAT
Found at i:34425985 original size:21 final size:20
Alignment explanation
Indices: 34425947--34425985 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34425937 ATACATCCTT
* *
34425947 TATGTTTTTACATGTATAAA
1 TATGTTTTTAAATATATAAA
34425967 TATGTTTTTATAATATATA
1 TATGTTTTTA-AATATATA
34425986 TGCATATACA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (20 bp):
TATGTTTTTAAATATATAAA
Found at i:34427736 original size:11 final size:11
Alignment explanation
Indices: 34427720--34427744 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34427710 AGCCCACCCC
34427720 TGTTCGGCTCA
1 TGTTCGGCTCA
34427731 TGTTCGGCTCA
1 TGTTCGGCTCA
34427742 TGT
1 TGT
34427745 CAAAGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.24, G:0.28, T:0.40
Consensus pattern (11 bp):
TGTTCGGCTCA
Found at i:34429150 original size:26 final size:25
Alignment explanation
Indices: 34429080--34429191 Score: 89
Period size: 26 Copynumber: 4.7 Consensus size: 25
34429070 TTAATAGGAT
34429080 TATTATTAAATATAATTTAATAATAA
1 TATTATTAAATATAATTTAAT-ATAA
* **
34429106 -ATTAATAAATTATTTTTTAATATAA
1 TATTATTAAA-TATAATTTAATATAA
34429131 CTATTATTAAATATAATTTAATA-AA
1 -TATTATTAAATATAATTTAATATAA
34429156 -A--A-TAATATATAATTT-A-ATAA
1 TATTATTAA-ATATAATTTAATATAA
*
34429176 TATTCTT-AATATAATT
1 TATTATTAAATATAATT
34429192 ATTTTTATAT
Statistics
Matches: 70, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
19 1 0.01
20 6 0.09
21 11 0.16
22 8 0.11
23 2 0.03
24 1 0.01
25 14 0.20
26 19 0.27
27 8 0.11
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
TATTATTAAATATAATTTAATATAA
Found at i:34429208 original size:22 final size:22
Alignment explanation
Indices: 34429183--34429229 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
34429173 TAATATTCTT
34429183 AATA-TAATTATTTTTATATTAA
1 AATATTAATTATTTTTATA-TAA
**
34429205 AATATTTTTTATTTTTATATAA
1 AATATTAATTATTTTTATATAA
34429227 AAT
1 AAT
34429230 TATATTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
AATATTAATTATTTTTATATAA
Found at i:34435429 original size:14 final size:14
Alignment explanation
Indices: 34435410--34435449 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
34435400 TTGATTGCCA
34435410 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
34435424 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
34435438 GGAAAATGTTTT
1 GTAAAATGTTTT
34435450 ACTTTTCTGT
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:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:34435458 original size:20 final size:20
Alignment explanation
Indices: 34435433--34435470 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34435423 CGTAAAATGA
*
34435433 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
34435453 TTTCTGTAAAATGATTTA
1 TTTCTGGAAAATGATTTA
34435471 GTAGAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:34440133 original size:12 final size:11
Alignment explanation
Indices: 34440102--34440132 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
34440092 CTATTGAGAG
34440102 AAAG-AAAAAT
1 AAAGCAAAAAT
34440112 AAAGCAAAAAT
1 AAAGCAAAAAT
34440123 AAAGCAAAAA
1 AAAGCAAAAA
34440133 AGAGTAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.20
11 16 0.80
ACGTcount: A:0.77, C:0.06, G:0.10, T:0.06
Consensus pattern (11 bp):
AAAGCAAAAAT
Found at i:34441562 original size:52 final size:52
Alignment explanation
Indices: 34441462--34441566 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
34441452 CATAGAGATG
* ***
34441462 TTTTCTCATTCCAATACATGAGCATGGACAGTTTCAATTCATGAAGACATTT
1 TTTTCTCATTCAAATACATGAGCATGGACAGTTTCAAAGAATGAAGACATTT
* *
34441514 TTTTCTCATTCAAATACATGAGCATGGACGGTTTCAAAGAATGGAGACATTT
1 TTTTCTCATTCAAATACATGAGCATGGACAGTTTCAAAGAATGAAGACATTT
34441566 T
1 T
34441567 CTCATCCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (52 bp):
TTTTCTCATTCAAATACATGAGCATGGACAGTTTCAAAGAATGAAGACATTT
Found at i:34444289 original size:20 final size:20
Alignment explanation
Indices: 34444266--34444307 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
34444256 GATTATATGA
34444266 AATGATCTATGAACTAAAGT
1 AATGATCTATGAACTAAAGT
*
34444286 AATGATCTATGAATTAAAGT
1 AATGATCTATGAACTAAAGT
34444306 AA
1 AA
34444308 GTATATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (20 bp):
AATGATCTATGAACTAAAGT
Found at i:34450472 original size:42 final size:42
Alignment explanation
Indices: 34450390--34450558 Score: 153
Period size: 42 Copynumber: 4.0 Consensus size: 42
34450380 TCTCATGAAA
* * * * *
34450390 TTCAGTCAA-CTCATATGAGTTTCAGATTAACCCTTTTGGGT
1 TTCAGTTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * * *
34450431 TTCAGTTCAGCTCTTTTGAGCTTCAGTTTAGCCCTAATGGGT
1 TTCAGTTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * * *
34450473 TTCCA-TTTAGCTCTTCTGTGCTTCAGATTAACCCTTATGGGT
1 TT-CAGTTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * * * *
34450515 TTCTGTTAAGGTCCTATGAGCTTCCGTTTAACCCTTACGGGT
1 TTCAGTTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
34450557 TT
1 TT
34450559 TCGTTTAGCA
Statistics
Matches: 101, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
41 8 0.08
42 91 0.90
43 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (42 bp):
TTCAGTTAAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
Found at i:34450557 original size:84 final size:84
Alignment explanation
Indices: 34450410--34450579 Score: 214
Period size: 84 Copynumber: 2.0 Consensus size: 84
34450400 TCATATGAGT
* * * * * *
34450410 TTCAGATTAACCCTTTTGGGTTTCAGTTCAGCTCTTTTGAGCTTCAGTTTAGCCCTAATGGGTTT
1 TTCAGATTAACCCTTATGGGTTTCAGTTAAGCTCCTATGAGCTTCAGTTTAACCCTAACGGGTTT
* *
34450475 CCATTTAGCTCTTCTGTGC
66 CCATTTAGCACTTATGTGC
* * * *
34450494 TTCAGATTAACCCTTATGGGTTTCTGTTAAGGTCCTATGAGCTTCCGTTTAACCCTTACGGGTTT
1 TTCAGATTAACCCTTATGGGTTTCAGTTAAGCTCCTATGAGCTTCAGTTTAACCCTAACGGGTTT
* *
34450559 TCGTTTAGCACTTATGTGC
66 CCATTTAGCACTTATGTGC
34450578 TT
1 TT
34450580 TTATGCAACC
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
84 72 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.42
Consensus pattern (84 bp):
TTCAGATTAACCCTTATGGGTTTCAGTTAAGCTCCTATGAGCTTCAGTTTAACCCTAACGGGTTT
CCATTTAGCACTTATGTGC
Found at i:34452188 original size:27 final size:27
Alignment explanation
Indices: 34452158--34452335 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34452148 ATATTGAGTC
* * * *
34452158 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34452185 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34452212 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
34452240 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34452267 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34452294 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34452321 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34452336 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34452297 original size:82 final size:81
Alignment explanation
Indices: 34452179--34452334 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34452169 TGCTATATAA
* *
34452179 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34452244 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34452261 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34452325 CACTTAGTGC
65 CACTTAGTGC
34452335 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34460023 original size:27 final size:27
Alignment explanation
Indices: 34459993--34460170 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
34459983 ATATTGAGTC
* * * *
34459993 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
34460020 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34460047 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
34460075 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
34460102 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
34460129 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
34460156 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34460171 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:34460132 original size:82 final size:81
Alignment explanation
Indices: 34460014--34460169 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
34460004 TGCTATATAA
* *
34460014 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
34460079 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
34460096 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
34460160 CACTTAGTGC
65 CACTTAGTGC
34460170 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:34466882 original size:8 final size:8
Alignment explanation
Indices: 34466838--34466867 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
34466828 TCGCCCCTTA
34466838 ATTGTCGC
1 ATTGTCGC
34466846 ATTGTCGC
1 ATTGTCGC
34466854 ATTGTCGC
1 ATTGTCGC
*
34466862 AATGTC
1 ATTGTC
34466868 ATATGTCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (8 bp):
ATTGTCGC
Found at i:34472466 original size:19 final size:20
Alignment explanation
Indices: 34472437--34472480 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
34472427 TTACCGTATA
* *
34472437 AAAAACTAAAATCAATTTTT
1 AAAAACTAAAAGCAAATTTT
*
34472457 AAAAAC-AAAAGGAAATTTT
1 AAAAACTAAAAGCAAATTTT
34472476 AAAAA
1 AAAAA
34472481 AATGAGTGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAAACTAAAAGCAAATTTT
Found at i:34472827 original size:57 final size:57
Alignment explanation
Indices: 34472763--34472873 Score: 213
Period size: 57 Copynumber: 1.9 Consensus size: 57
34472753 CGTGATTTAA
34472763 TAGATTTTATTAATTGGTCAATTAGTCAAGGTAAAAGTGTTGCATATCGAAAGTTAG
1 TAGATTTTATTAATTGGTCAATTAGTCAAGGTAAAAGTGTTGCATATCGAAAGTTAG
*
34472820 TAGATTTTATTAATTGGTCAATTAGTCAAGGTAAAAGTGTTGCGTATCGAAAGT
1 TAGATTTTATTAATTGGTCAATTAGTCAAGGTAAAAGTGTTGCATATCGAAAGT
34472874 CAAGTGATTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (57 bp):
TAGATTTTATTAATTGGTCAATTAGTCAAGGTAAAAGTGTTGCATATCGAAAGTTAG
Found at i:34473167 original size:11 final size:12
Alignment explanation
Indices: 34473151--34473190 Score: 57
Period size: 11 Copynumber: 3.5 Consensus size: 12
34473141 AATGTGAAAT
34473151 ATTTTAT-TTTA
1 ATTTTATATTTA
*
34473162 ATTTTATAATTA
1 ATTTTATATTTA
34473174 ATTTT-TATTTA
1 ATTTTATATTTA
34473185 ATTTTA
1 ATTTTA
34473191 ATGTTAAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 17 0.68
12 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTATATTTA
Found at i:34477497 original size:16 final size:16
Alignment explanation
Indices: 34477476--34477506 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34477466 ATTGGGTTGA
*
34477476 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
34477492 GAAAATTAATTAATT
1 GAAAATTAATTAATT
34477507 AATTTAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:34479676 original size:50 final size:50
Alignment explanation
Indices: 34479605--34479788 Score: 163
Period size: 50 Copynumber: 3.6 Consensus size: 50
34479595 CTATACTGCA
* * * ** ** *
34479605 AATGCCATATCCCAGATATGGTCTTAC-ATGAGAGTTCTCATATCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACAAAG-GACCTCTCATATCAATACC
* *
34479655 CATGCCATGTCCCAGACATGGTCTTACAAAGGACCTCTCATCTCAATACC
1 AATGCCATGTCCCAGACATGGTCTTACAAAGGACCTCTCATATCAATACC
* *** *
34479705 AACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTAAATAATGCC
1 AATGCCATGTCCCAGACATGGTCTTACAAAGGACCTCTCAT-A--TCAAT-A--CC
34479761 AATGCCATGTCCCAGACATGGTCTTACA
1 AATGCCATGTCCCAGACATGGTCTTACA
34479789 TGGGGTCTCA
Statistics
Matches: 108, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
50 73 0.68
51 2 0.02
53 4 0.04
54 1 0.01
56 28 0.26
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACAAAGGACCTCTCATATCAATACC
Found at i:34481373 original size:20 final size:19
Alignment explanation
Indices: 34481327--34481381 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
34481317 AAAAAATTTT
*
34481327 AAAATTATTAGAAATTATT
1 AAAATTATTAGAAATTATG
34481346 AAAA-TATTAGAAAAATTA-G
1 AAAATTATTAG--AAATTATG
34481365 AAAATTATTA-AAATTAT
1 AAAATTATTAGAAATTAT
34481382 ATACGTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 8 0.26
20 11 0.35
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
AAAATTATTAGAAATTATG
Found at i:34481377 original size:9 final size:9
Alignment explanation
Indices: 34481319--34481408 Score: 71
Period size: 9 Copynumber: 9.8 Consensus size: 9
34481309 TTTTTGTTAA
34481319 AAAATT-TT
1 AAAATTATT
34481327 AAAATTATT
1 AAAATTATT
34481336 AGAAATTATT
1 A-AAATTATT
34481346 AAAA-TATT
1 AAAATTATT
*
34481354 AGAAAAATTA-G
1 ---AAAATTATT
34481365 AAAATTATT
1 AAAATTATT
34481374 AAAATTA-T
1 AAAATTATT
**
34481382 ATACGTTATT
1 A-AAATTATT
34481392 AAAATTATT
1 AAAATTATT
34481401 AAATATTA
1 AAA-ATTA
34481409 AATAAAATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
8 19 0.29
9 26 0.39
10 15 0.23
11 4 0.06
12 2 0.03
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.40
Consensus pattern (9 bp):
AAAATTATT
Found at i:34481377 original size:18 final size:19
Alignment explanation
Indices: 34481318--34481381 Score: 55
Period size: 20 Copynumber: 3.5 Consensus size: 19
34481308 ATTTTTGTTA
*
34481318 AAAAATT-TTAAAATTATT
1 AAAAATTATGAAAATTATT
* *
34481336 AGAAATTATTAAAA-TATT
1 AAAAATTATGAAAATTATT
34481354 AGAAAAATTA-GAAAATTATT
1 --AAAAATTATGAAAATTATT
34481374 -AAAATTAT
1 AAAAATTAT
34481382 ATACGTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
17 7 0.18
18 10 0.26
19 10 0.26
20 11 0.29
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.38
Consensus pattern (19 bp):
AAAAATTATGAAAATTATT
Found at i:34481532 original size:30 final size:32
Alignment explanation
Indices: 34481477--34481554 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 32
34481467 ATAGTCCTTG
34481477 AAAATTAATTAAGTCCACCTAAAATA-ATTTAA
1 AAAATTAATTAAG-CCACCTAAAATATATTTAA
* *
34481509 AAAATTAATTAAGCC-CGTAAAATATTTTTAA
1 AAAATTAATTAAGCCACCTAAAATATATTTAA
* *
34481540 AAGATCAATTAAGCC
1 AAAATTAATTAAGCC
34481555 TTCCAAGTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
30 8 0.20
31 20 0.49
32 13 0.32
ACGTcount: A:0.50, C:0.13, G:0.06, T:0.31
Consensus pattern (32 bp):
AAAATTAATTAAGCCACCTAAAATATATTTAA
Found at i:34482668 original size:30 final size:30
Alignment explanation
Indices: 34482632--34482692 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
34482622 GTCTTTCTTT
34482632 TCATTAGAAGATTT-CCTATTTAAGCAAGGG
1 TCATTAGAAG-TTTACCTATTTAAGCAAGGG
*
34482662 TCATTAGAAGTTTAGCTATTTAAGCAAGGG
1 TCATTAGAAGTTTACCTATTTAAGCAAGGG
34482692 T
1 T
34482693 AGCCAATTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 3 0.10
30 26 0.90
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (30 bp):
TCATTAGAAGTTTACCTATTTAAGCAAGGG
Found at i:34484068 original size:18 final size:18
Alignment explanation
Indices: 34484045--34484111 Score: 64
Period size: 18 Copynumber: 3.5 Consensus size: 18
34484035 ATAGAACATA
* *
34484045 TTAGATATAGTTACAGAT
1 TTAGATACAGATACAGAT
34484063 TTAGATACAGATACAGAACAT
1 TTAGATACAGATACAG---AT
34484084 ATTAGATACA-ATGACAGAT
1 -TTAGATACAGAT-ACAGAT
34484103 TTAGATACA
1 TTAGATACA
34484112 AATGCAGAGT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
18 23 0.55
19 2 0.05
21 4 0.10
22 13 0.31
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (18 bp):
TTAGATACAGATACAGAT
Found at i:34484089 original size:22 final size:22
Alignment explanation
Indices: 34484037--34484101 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
34484027 AAATGAATAT
* *
34484037 AGAACATATTAGATATAGTTAC
1 AGAACATATTAGATACAGATAC
34484059 AG---AT-TTAGATACAGATAC
1 AGAACATATTAGATACAGATAC
34484077 AGAACATATTAGATACA-ATGAC
1 AGAACATATTAGATACAGAT-AC
34484099 AGA
1 AGA
34484102 TTTAGATACA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
18 14 0.39
19 2 0.06
21 4 0.11
22 16 0.44
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (22 bp):
AGAACATATTAGATACAGATAC
Found at i:34484806 original size:63 final size:63
Alignment explanation
Indices: 34484739--34484940 Score: 239
Period size: 63 Copynumber: 3.2 Consensus size: 63
34484729 CCCAAATCAC
* * **
34484739 TGAGTTAAACGACTTAGACACACGCTCGTGTCTCTAGCCCATGTGACCCTAATTCA-AAAATTG
1 TGAGTTACACGACTTAGACACACGCTCGTGTCTCTAGCCCGTGTGACCCTAATTCACAAAA-AA
* * * *
34484802 TGAGTTACACGACCTAGCCACACG-TCTGTGTCTCTAGCTCGTGTGACCTTAATTCACAAAAAA
1 TGAGTTACACGACTTAGACACACGCTC-GTGTCTCTAGCCCGTGTGACCCTAATTCACAAAAAA
* * * *
34484865 TGAGTTACAC-AGCTTGGACACACGCCCGTGTCTCTAGCCTGTGTGACCCTAATTCACAAACAA
1 TGAGTTACACGA-CTTAGACACACGCTCGTGTCTCTAGCCCGTGTGACCCTAATTCACAAAAAA
*
34484928 TTAGTTACACGAC
1 TGAGTTACACGAC
34484941 CTGCCACACT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
62 3 0.03
63 108 0.92
64 6 0.05
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (63 bp):
TGAGTTACACGACTTAGACACACGCTCGTGTCTCTAGCCCGTGTGACCCTAATTCACAAAAAA
Found at i:34485505 original size:4 final size:4
Alignment explanation
Indices: 34485492--34485524 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
34485482 GAGGAAAGGA
34485492 AAAG -AAG AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA
34485525 TAAGAAGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:34487998 original size:16 final size:16
Alignment explanation
Indices: 34487979--34488013 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
34487969 TCCACTTAAG
34487979 TTTCTTTTCTTTATAT
1 TTTCTTTTCTTTATAT
*
34487995 TTTCTTTTCTTTTTAT
1 TTTCTTTTCTTTATAT
34488011 TTT
1 TTT
34488014 TTATCATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTCTTTTCTTTATAT
Found at i:34490233 original size:12 final size:12
Alignment explanation
Indices: 34490212--34490245 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
34490202 CCACATGTCT
*
34490212 GTGTGCTAGGCC
1 GTGTGGTAGGCC
*
34490224 TTGTGGTAGGCC
1 GTGTGGTAGGCC
34490236 GTGTGGTAGG
1 GTGTGGTAGG
34490246 TCATGTAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.15, G:0.47, T:0.29
Consensus pattern (12 bp):
GTGTGGTAGGCC
Found at i:34491287 original size:32 final size:32
Alignment explanation
Indices: 34491232--34491370 Score: 181
Period size: 32 Copynumber: 4.4 Consensus size: 32
34491222 AAATGGCTAC
* *
34491232 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
34491263 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
*
34491295 AAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
34491327 AAGCAATCAGTAACGGTAATATGACCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
34491359 AAACTATCAGTA
1 AAGCCATCAGTA
34491371 GCATTGCAAC
Statistics
Matches: 96, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
31 10 0.10
32 86 0.90
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:34491568 original size:11 final size:11
Alignment explanation
Indices: 34491552--34491594 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
34491542 AATCAGTCAT
34491552 ACAAATCACAG
1 ACAAATCACAG
*
34491563 ACAAATCAGTCAT
1 ACAAATCA--CAG
*
34491576 ACTAATCACAG
1 ACAAATCACAG
34491587 ACAAATCA
1 ACAAATCA
34491595 GTAATTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 17 0.65
13 9 0.35
ACGTcount: A:0.51, C:0.26, G:0.07, T:0.16
Consensus pattern (11 bp):
ACAAATCACAG
Found at i:34491569 original size:24 final size:24
Alignment explanation
Indices: 34491542--34491640 Score: 126
Period size: 24 Copynumber: 4.1 Consensus size: 24
34491532 TCATGCTCAG
34491542 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
*
34491566 AATCAGTCATACTAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* **
34491590 AATCAGTAATTTAAATCACAGACA
1 AATCAGTCATACAAATCACAGACA
* ** *
34491614 AATTAGTCATTTACATCACAGACA
1 AATCAGTCATACAAATCACAGACA
34491638 AAT
1 AAT
34491641 TAATCATTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.47, C:0.21, G:0.08, T:0.23
Consensus pattern (24 bp):
AATCAGTCATACAAATCACAGACA
Found at i:34491641 original size:24 final size:24
Alignment explanation
Indices: 34491542--34491652 Score: 125
Period size: 24 Copynumber: 4.6 Consensus size: 24
34491532 TCATGCTCAG
** *
34491542 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTACATCACAGACA
*
34491566 AATCAGTCATACTA-ATCACAGACA
1 AATCAGTCAT-TTACATCACAGACA
* *
34491590 AATCAGTAATTTAAATCACAGACA
1 AATCAGTCATTTACATCACAGACA
*
34491614 AATTAGTCATTTACATCACAGACA
1 AATCAGTCATTTACATCACAGACA
* *
34491638 AATTAATCATTTACA
1 AATCAGTCATTTACA
34491653 CTCGAGGGGA
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 2 0.03
24 74 0.96
25 1 0.01
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.25
Consensus pattern (24 bp):
AATCAGTCATTTACATCACAGACA
Found at i:34491713 original size:27 final size:26
Alignment explanation
Indices: 34491669--34491864 Score: 169
Period size: 27 Copynumber: 7.3 Consensus size: 26
34491659 GGGAAAAATA
* *
34491669 GTCA-TTTACCCTCTAGGGGCATTACG
1 GTCATTTTA-CCTATAGGGGTATTACG
* * *
34491695 GTCATTTTACCTTACAGGGGTATTTCA
1 GTCATTTTACC-TATAGGGGTATTACG
* *
34491722 GTCATTTAACCCTATAGGTGTATTACG
1 GTCATTTTA-CCTATAGGGGTATTACG
*
34491749 GTCATTTTATCCTATAGGGGCATTACG
1 GTCATTTTA-CCTATAGGGGTATTACG
* **
34491776 GTCATTTTACCCTATAGGGGTTTTTTG
1 GTCATTTTA-CCTATAGGGGTATTACG
* *
34491803 GTCATTTTAACCTATAGGGGTATGATG
1 GTCATTTT-ACCTATAGGGGTATTACG
* * *
34491830 GTCATTTTGCCTTATTGGGGCATTACG
1 GTCATTTTACC-TATAGGGGTATTACG
*
34491857 ATCATTTT
1 GTCATTTT
34491865 TCCCGACGAG
Statistics
Matches: 137, Mismatches: 28, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
26 8 0.06
27 126 0.92
28 3 0.02
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (26 bp):
GTCATTTTACCTATAGGGGTATTACG
Found at i:34491769 original size:81 final size:80
Alignment explanation
Indices: 34491669--34491922 Score: 264
Period size: 81 Copynumber: 3.1 Consensus size: 80
34491659 GGGAAAAATA
* *
34491669 GTCA-TTTACCCTCTAGGGGCATTACGGTCATTTTACCTTACAGGGGTATTTCAGTCATTTAACC
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTTCAGTCATTTAACC
34491733 CTATAGGTGTATTACG
66 CTATAGG-GTATTACG
* * * **
34491749 GTCATTTTATCCTATAGGGGCATTACGGTCATTTTACCCTATAGGGGTTTTTTGGTCATTTTAA-
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTTCAGTCA-TTTAAC
* *
34491813 CCTATAGGGGTATGATG
65 CCTATA-GGGTATTACG
* * * * * * * *
34491830 GTCATTTTGCCTTATTGGGGCATTACGATCATTTTTCCCGAC-GAGGGTATTTCAGTTATTTTAC
1 GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAG-GGGTATTTCAGTCATTTAAC
*
34491894 CC-ATCGAGGGTATTTCG
65 CCTAT--AGGGTATTACG
34491911 GTCATTTTACCC
1 GTCATTTTACCC
34491923 ATTAAATGTA
Statistics
Matches: 140, Mismatches: 27, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
80 11 0.08
81 121 0.86
82 8 0.06
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.39
Consensus pattern (80 bp):
GTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGGGTATTTCAGTCATTTAACC
CTATAGGGTATTACG
Found at i:34491890 original size:27 final size:27
Alignment explanation
Indices: 34491858--34491989 Score: 113
Period size: 27 Copynumber: 4.9 Consensus size: 27
34491848 GGCATTACGA
*
34491858 TCATTTTTCCCGA-CGAGGGTATTTCAG
1 TCATTTTACCC-ATCGAGGGTATTTCAG
* *
34491885 TTATTTTACCCATCGAGGGTATTTCGG
1 TCATTTTACCCATCGAGGGTATTTCAG
** ** **
34491912 TCATTTTACCCATTAAATGTATTTTGG
1 TCATTTTACCCATCGAGGGTATTTCAG
* * * *
34491939 TAATTTTACCTATCAAGGGTATTTCGG
1 TCATTTTACCCATCGAGGGTATTTCAG
* *
34491966 TAATTTTACCCGTCGAGGGTATTT
1 TCATTTTACCCATCGAGGGTATTT
34491990 TAATCATTAA
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
26 1 0.01
27 85 0.99
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCATCGAGGGTATTTCAG
Found at i:34491990 original size:54 final size:54
Alignment explanation
Indices: 34491860--34491991 Score: 147
Period size: 54 Copynumber: 2.4 Consensus size: 54
34491850 CATTACGATC
* * * * * *
34491860 ATTTTTCCCGACGAGGGTATTTCAGTTATTTTACCCATCGAGGGTATTTCGGTC
1 ATTTTACCCGTCGAGGGTATTTTAGTAATTTTACCCATCAAGGGTATTTCGGTA
* ** ** * *
34491914 ATTTTACCCATTAAATGTATTTTGGTAATTTTACCTATCAAGGGTATTTCGGTA
1 ATTTTACCCGTCGAGGGTATTTTAGTAATTTTACCCATCAAGGGTATTTCGGTA
34491968 ATTTTACCCGTCGAGGGTATTTTA
1 ATTTTACCCGTCGAGGGTATTTTA
34491992 ATCATTAAAC
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (54 bp):
ATTTTACCCGTCGAGGGTATTTTAGTAATTTTACCCATCAAGGGTATTTCGGTA
Found at i:34504352 original size:16 final size:16
Alignment explanation
Indices: 34504331--34504361 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34504321 TTCACTGTTA
*
34504331 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
34504347 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
34504362 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:34505753 original size:11 final size:11
Alignment explanation
Indices: 34505737--34505761 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34505727 AATCAAGCCT
34505737 TAAAACATATA
1 TAAAACATATA
34505748 TAAAACATATA
1 TAAAACATATA
34505759 TAA
1 TAA
34505762 TAAGACCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAAACATATA
Found at i:34509290 original size:19 final size:19
Alignment explanation
Indices: 34509262--34509301 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
34509252 ATTAATTTTG
* *
34509262 ATCAAGTAAAATTAAATTA
1 ATCAAATAAAATAAAATTA
34509281 ATCAAATAAAATAAAATTA
1 ATCAAATAAAATAAAATTA
34509300 AT
1 AT
34509302 ATGATACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (19 bp):
ATCAAATAAAATAAAATTA
Found at i:34511361 original size:20 final size:21
Alignment explanation
Indices: 34511323--34511361 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
34511313 TTAAAAAAAT
**
34511323 TATATTTATAATATTATAACA
1 TATATTTATAATAAAATAACA
34511344 TATA-TTATAATAAAATAA
1 TATATTTATAATAAAATAA
34511362 AAGAAACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (21 bp):
TATATTTATAATAAAATAACA
Found at i:34513849 original size:34 final size:35
Alignment explanation
Indices: 34513785--34513873 Score: 105
Period size: 34 Copynumber: 2.6 Consensus size: 35
34513775 CTGTATTGTG
*
34513785 ATGGGCTAAGGCCCTAATACT--TACTAATACT-AAA
1 ATGGGCTTAGG-CCTAA-ACTGATACTAATACTGAAA
*
34513819 ATGGGCTTAGGCCTAAACTGATACTGATACTGAAA
1 ATGGGCTTAGGCCTAAACTGATACTAATACTGAAA
*
34513854 A-AGGCTTAGGCCTAAACTGA
1 ATGGGCTTAGGCCTAAACTGA
34513874 GATTATCTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
32 3 0.06
33 5 0.10
34 37 0.76
35 4 0.08
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (35 bp):
ATGGGCTTAGGCCTAAACTGATACTAATACTGAAA
Found at i:34523639 original size:14 final size:13
Alignment explanation
Indices: 34523612--34523636 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34523602 AATATAAAGA
34523612 ACATATTTAAAAT
1 ACATATTTAAAAT
34523625 ACATATTTAAAA
1 ACATATTTAAAA
34523637 ATATGAAGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
ACATATTTAAAAT
Found at i:34523884 original size:16 final size:15
Alignment explanation
Indices: 34523857--34523894 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
34523847 TAAATGAGCA
*
34523857 AATAACAATAACAAT
1 AATAATAATAACAAT
34523872 AATTAATAATAACAAT
1 AA-TAATAATAACAAT
34523888 AATAATA
1 AATAATA
34523895 TGAAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAATAATAACAAT
Found at i:34528478 original size:10 final size:10
Alignment explanation
Indices: 34528463--34528498 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
34528453 AATTTTTAAA
34528463 AAAATTATTT
1 AAAATTATTT
34528473 AAAATTATTT
1 AAAATTATTT
*
34528483 AAAA-TGTTT
1 AAAATTATTT
34528492 AAAATTA
1 AAAATTA
34528499 ATCCGGACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (10 bp):
AAAATTATTT
Found at i:34536489 original size:126 final size:126
Alignment explanation
Indices: 34535992--34536490 Score: 653
Period size: 126 Copynumber: 4.0 Consensus size: 126
34535982 TTGGGGTGAT
* * * *
34535992 ACTTTCCTAAGTGTTCGGATAAACTTGCCAACATACGCTTTGGCCAACACTTTATATAAGGGTTG
1 ACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGGTTG
* * * * * * *
34536057 GGGTATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGCTTTGTCCAGTC-TTAAGACGAC
66 GGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCA-ACACTATGCCGAC
* * * * * *
34536118 ATTTTCCTACGTGTTGGGATACACTTGCCGACATACGCTTTGGCCAACTCTTTCTATAAGGGTTA
1 ACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGGTTG
* * * * *
34536183 GGATATGCTTGCTTAAGGTAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATACTGAC
66 GGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCGAC
* * * *
34536244 ACTTTCTTAAGTGTTGGGATAGACTTGTCGACATACGTTTTGGCCAA--CTTTGTATAAGGGTTG
1 ACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGGTTG
* *
34536307 GGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAAC
66 GGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCGAC
* *
34536368 ACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGTCAACTCTTTGTATAAGGGTTG
1 ACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGGTTG
* * * * *
34536433 GGACATGCATGCCTAAGGCAACACTTGAATAAGAGTTGGCTTTGTCCAATAGTATGCC
66 GGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCC
34536491 TAAGGCAACA
Statistics
Matches: 323, Mismatches: 47, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
124 109 0.34
125 1 0.00
126 213 0.66
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (126 bp):
ACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGGTTG
GGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCGAC
Found at i:34537642 original size:130 final size:130
Alignment explanation
Indices: 34537234--34537886 Score: 1119
Period size: 130 Copynumber: 5.0 Consensus size: 130
34537224 ACACTTAATG
* * * *
34537234 ATGAAGTTATGGTATTATGAATTGTTTACGGTAAATTCAAATTTTAAATTGTTTTTAATCATTTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCAGATTTAAAATTTTTTTTAATCATTTT
*
34537299 GAACTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
66 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
* *
34537364 ATGAAGTTATAGTATTATGAATTGTTTAGGGTAAATTCAGATTTTAAACTTTTTTTTTAATCATT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCAGA-TTTAAA-ATTTTTTTTAATCATT
*
34537429 TTGAATTTTAAGTTATTTTTGGTTGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAG
64 TTGAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAG
34537494 TT
129 TT
*
34537496 ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAATTTTTTTTAATCATTTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCAGATTTAAAATTTTTTTTAATCATTTT
* * *
34537561 GAATTTTAAGTTATTTTTGCTCAAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
66 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
*
34537626 ATGAAGTTATGCTATTATGAATTGTTTAGGGTAAATTCAGATTTTTAAAA-TTTTTTTAATCATT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCAGA--TTTAAAATTTTTTTTAATCATT
*
34537690 TTGAATTTTAAGTTATTTTTGGTTGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAG
64 TTGAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAG
34537755 TT
129 TT
*
34537757 ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAATTTTTTTTAATCATTTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCAGATTTAAAATTTTTTTTAATCATTTT
*
34537822 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
66 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
34537887 TTTCAAGTTA
Statistics
Matches: 493, Mismatches: 25, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
129 7 0.01
130 234 0.47
131 127 0.26
132 125 0.25
ACGTcount: A:0.28, C:0.06, G:0.18, T:0.48
Consensus pattern (130 bp):
ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCAGATTTAAAATTTTTTTTAATCATTTT
GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
Found at i:34537812 original size:262 final size:261
Alignment explanation
Indices: 34537234--34537886 Score: 1175
Period size: 261 Copynumber: 2.5 Consensus size: 261
34537224 ACACTTAATG
* * * * *
34537234 ATGAAGTTATGGTATTATGAATTGTTTACGGTAAATTCAAATTTTAAATTGTTTTTAATCATTTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAATTTTTTTTAATCATTTT
* *
34537299 GAACTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
66 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
*
34537364 ATGAAGTTATAGTATTATGAATTGTTTAGGGTAAATTCAGATTTTAAACTTTTTTTTTAATCATT
131 ATGAAGTTATAGTATTATGAATTGTTTAGGGTAAATTCAGATTTTAAAC-ATTTTTTTAATCATT
34537429 TTGAATTTTAAGTTATTTTTGGTTGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAG
195 TTGAATTTTAAGTTATTTTTGGTTGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAG
34537494 TT
260 TT
34537496 ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAATTTTTTTTAATCATTTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAATTTTTTTTAATCATTTT
* *
34537561 GAATTTTAAGTTATTTTTGCTCAAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
66 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
34537626 ATGAAGTTAT-GCTATTATGAATTGTTTAGGGTAAATTCAGATTTTTAAA-ATTTTTTTAATCAT
131 ATGAAGTTATAG-TATTATGAATTGTTTAGGGTAAATTCAGA-TTTTAAACATTTTTTTAATCAT
34537689 TTTGAATTTTAAGTTATTTTTGGTTGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGA
194 TTTGAATTTTAAGTTATTTTTGGTTGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGA
34537754 GTT
259 GTT
34537757 ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAATTTTTTTTAATCATTTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAATTTTTTTTAATCATTTT
34537822 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
66 GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
34537887 TTTCAAGTTA
Statistics
Matches: 377, Mismatches: 12, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
261 210 0.56
262 160 0.42
263 7 0.02
ACGTcount: A:0.28, C:0.06, G:0.18, T:0.48
Consensus pattern (261 bp):
ATGAAGTTATGGTATTATGAATTGTTTAGGGAAAATTCAGATTTAAAATTTTTTTTAATCATTTT
GAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTTATTCAAGTTTGTTAATCGAGTT
ATGAAGTTATAGTATTATGAATTGTTTAGGGTAAATTCAGATTTTAAACATTTTTTTAATCATTT
TGAATTTTAAGTTATTTTTGGTTGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGT
T
Found at i:34538825 original size:14 final size:14
Alignment explanation
Indices: 34538808--34538834 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34538798 AGGATTATTG
34538808 CATAAAAGGTTAAT
1 CATAAAAGGTTAAT
34538822 CATAAAAGGTTAA
1 CATAAAAGGTTAA
34538835 GTCGAATCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.15, T:0.26
Consensus pattern (14 bp):
CATAAAAGGTTAAT
Found at i:34550555 original size:44 final size:44
Alignment explanation
Indices: 34550506--34550936 Score: 517
Period size: 44 Copynumber: 9.9 Consensus size: 44
34550496 ATCTACTTCG
* * * * *
34550506 AATCTTCTACCTATTTCGCTACTAGTCAGGGAGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * *
34550550 AATCTTCCACCTATTTCGCTGCTGGTCAGGGAGATAGGACATAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * **
34550594 AATCTTCAACCTATTCCTCTGCTGTTCAGGGATCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * * * *
34550638 AATCTTCTACCTATT-CACTGCTGTTCAGGGAGCTAGAACATAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* *
34550681 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGGCTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* ** ** * *
34550725 AATCTTCCACCTACTCTGCTATTGGTTAGGGAGA-AGGAATTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
*
34550768 AATCTTCCACCTATT-CGCTGCTGGTCAGGGAGATAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* * **
34550811 AATCTTCCACCTATTCCACTACTGTTCAGGGATCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* *
34550855 AATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACTTAC
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
* *
34550899 AATCTTCAACCTATTCCATTGCTGGTCAGGGAGATAGG
1 AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGG
34550937 GCTTTGTGAT
Statistics
Matches: 336, Mismatches: 48, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
42 14 0.04
43 82 0.24
44 240 0.71
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
AATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTAC
Found at i:34550696 original size:87 final size:87
Alignment explanation
Indices: 34550506--34550931 Score: 473
Period size: 87 Copynumber: 4.9 Consensus size: 87
34550496 ATCTACTTCG
* * * * * *
34550506 AATCTTCTACCTATTTCGCTACTAGTCAGGGAGATAGGACTTACAATCTTCCACCTATTTCGCTG
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCCACCTA-TTCACTG
* * *
34550571 CTGGTCAGGGAGATAGGACATAC
65 CTGTTCAGGGAGCTAGAACATAC
* * ** *
34550594 AATCTTCAACCTATTCCTCTGCTGTTCAGGGATCTAGGACTTACAATCTTCTACCTATTCACTGC
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTCACTGC
34550659 TGTTCAGGGAGCTAGAACATAC
66 TGTTCAGGGAGCTAGAACATAC
* * * *
34550681 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGGCTTACAATCTTCCACCTACTCTGCTA
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTC-ACTG
* * *
34550746 TTGGTT-AGGGAG-AAGGAA-TTAC
65 CT-GTTCAGGGAGCTA-GAACATAC
* * *
34550768 AATCTTCCACCTATT-CGCTGCTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTCCACTA
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATT-CACTG
* * *
34550832 CTGTTCAGGGATCTAGGACTTAC
65 CTGTTCAGGGAGCTAGAACATAC
* * * * *
34550855 AATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACTTACAATCTTCAACCTATTCCATTG
1 AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATT-CACTG
*
34550920 CTGGTCAGGGAG
65 CTGTTCAGGGAG
34550932 ATAGGGCTTT
Statistics
Matches: 288, Mismatches: 42, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
85 3 0.01
86 51 0.18
87 118 0.41
88 113 0.39
89 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (87 bp):
AATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTTACAATCTTCCACCTATTCACTGC
TGTTCAGGGAGCTAGAACATAC
Found at i:34562714 original size:23 final size:22
Alignment explanation
Indices: 34562675--34562718 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
34562665 GAATAGACTC
*
34562675 ATTCAGCTTCAATTTCATATATT
1 ATTCAGCCTCAATTTCA-ATATT
34562698 ATTCAGCCTCTAA-TTCAATAT
1 ATTCAGCCTC-AATTTCAATAT
34562719 CCACCATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 13 0.68
24 2 0.11
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (22 bp):
ATTCAGCCTCAATTTCAATATT
Found at i:34563013 original size:45 final size:45
Alignment explanation
Indices: 34562949--34563039 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
34562939 AACAGATACT
* * *
34562949 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATAAATGATGTC
34562994 CGGTGGAATCAGCACATAGCAACCACCTTACTAATAAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATAAATGATGTC
34563039 C
1 C
34563040 AGTTCACATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATAAATGATGTC
Found at i:34563105 original size:51 final size:50
Alignment explanation
Indices: 34563044--34563220 Score: 194
Period size: 51 Copynumber: 3.5 Consensus size: 50
34563034 ATGTCCAGTT
* ** *
34563044 CACATTGTACTACACATGTGACCATTACCATCCGATACACATAGTAGCCTG
1 CACATAGTACTACACACATGACCA-TACCATCCGGTACACATAGTAGCCTG
* * * * *
34563095 CACATAGTACTACACACGTGATCGAAACTATCCGGTACGCATAGTAGCCTG
1 CACATAGTACTACACACATGA-CCATACCATCCGGTACACATAGTAGCCTG
* ** * *
34563146 CACATAGTACTACACATACAACC-TATCATTCCGGTACACGTAGTAGCCTG
1 CACATAGTACTACACACATGACCATACCA-TCCGGTACACATAGTAGCCTG
34563196 CACATAGTACTACACACATGACCAT
1 CACATAGTACTACACACATGACCAT
34563221 CACTTTCACT
Statistics
Matches: 103, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
49 2 0.02
50 40 0.39
51 59 0.57
52 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (50 bp):
CACATAGTACTACACACATGACCATACCATCCGGTACACATAGTAGCCTG
Found at i:34567001 original size:50 final size:50
Alignment explanation
Indices: 34566926--34567023 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
34566916 ATACATGGCA
*
34566926 AGTACTTCTTATTCATTATAATTTGGAACATTGGGCTTGTATGAAACACC
1 AGTACTTCTTATTCATTATAATTTGGAACATTGGGCATGTATGAAACACC
34566976 AGTACTTCTTATTCATTATAATTTGGAACATTGGGCATGTATGAAACA
1 AGTACTTCTTATTCATTATAATTTGGAACATTGGGCATGTATGAAACA
34567024 ATCATTGATG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (50 bp):
AGTACTTCTTATTCATTATAATTTGGAACATTGGGCATGTATGAAACACC
Found at i:34569418 original size:12 final size:12
Alignment explanation
Indices: 34569401--34569426 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34569391 TGTAACTTAA
34569401 TAATTTTAGTTT
1 TAATTTTAGTTT
34569413 TAATTTTAGTTT
1 TAATTTTAGTTT
34569425 TA
1 TA
34569427 GCATCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (12 bp):
TAATTTTAGTTT
Found at i:34575155 original size:30 final size:30
Alignment explanation
Indices: 34575106--34575179 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
34575096 GCATTTCCAC
* * *
34575106 ACGGGATGGCCACACGCCCGTGTGAGCCAT
1 ACGGGATGGACACACGCCCGTGTCAGCCAG
* *
34575136 ACGGGTTGGACACATGCCCGTGTCAGCCAG
1 ACGGGATGGACACACGCCCGTGTCAGCCAG
* *
34575166 ACGGGCTAGACACA
1 ACGGGATGGACACA
34575180 AGCACATGTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.23, C:0.31, G:0.32, T:0.14
Consensus pattern (30 bp):
ACGGGATGGACACACGCCCGTGTCAGCCAG
Found at i:34576580 original size:75 final size:75
Alignment explanation
Indices: 34576490--34576642 Score: 252
Period size: 75 Copynumber: 2.0 Consensus size: 75
34576480 CAGTTGTCCC
* * * ** *
34576490 ATAATTTTTTGATGTCATGGGAAACAGGTTGACATCATGTTTGCAACGTGTTGACTGCTTCTATT
1 ATAACTTTTTGATGTCATGAGAAACAGGTTGACAACATGTTCACAACATGTTGACTGCTTCTATT
34576555 AGGATTTTGT
66 AGGATTTTGT
34576565 ATAACTTTTTGATGTCATGAGAAACAGGTTGACAACATGTTCACAACATGTTGACTGCTTCTATT
1 ATAACTTTTTGATGTCATGAGAAACAGGTTGACAACATGTTCACAACATGTTGACTGCTTCTATT
34576630 AGGATTTTGT
66 AGGATTTTGT
34576640 ATA
1 ATA
34576643 TATATTAATA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.39
Consensus pattern (75 bp):
ATAACTTTTTGATGTCATGAGAAACAGGTTGACAACATGTTCACAACATGTTGACTGCTTCTATT
AGGATTTTGT
Found at i:34581930 original size:44 final size:44
Alignment explanation
Indices: 34581845--34581930 Score: 127
Period size: 44 Copynumber: 2.0 Consensus size: 44
34581835 TGTAAAATGA
* * * * *
34581845 AAGTTGTGATAATTATACATTTAAAAATAGTTATAATTTAATAC
1 AAGTTGTGATAAGTACACATTTAAAAATAATAATAAGTTAATAC
34581889 AAGTTGTGATAAGTACACATTTAAAAATAATAATAAGTTAAT
1 AAGTTGTGATAAGTACACATTTAAAAATAATAATAAGTTAAT
34581931 TTACCATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (44 bp):
AAGTTGTGATAAGTACACATTTAAAAATAATAATAAGTTAATAC
Found at i:34583067 original size:29 final size:30
Alignment explanation
Indices: 34583035--34583093 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
34583025 TATGATTTAA
*
34583035 TGTGCAATTGTATTTATG-AATTTTAATTT
1 TGTGCAATTGTATATATGAAATTTTAATTT
* *
34583064 TGTGTAATTTTATATATGAAATTTTAATTT
1 TGTGCAATTGTATATATGAAATTTTAATTT
34583094 GATCCAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.56
Consensus pattern (30 bp):
TGTGCAATTGTATATATGAAATTTTAATTT
Done.