Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 101 of 199
Found at i:30780774 original size:33 final size:33
Alignment explanation
Indices: 30780729--30780800 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
30780719 AATCTAAATA
* * * *
30780729 CTAAACCCTAACCTGACCCTGAATCCCTAATCC
1 CTAAACCCTAACCCGACCCCGAACCCCTAACCC
* *
30780762 CTAAACCTTAACCCGGCCCCGAACCCCTAACCC
1 CTAAACCCTAACCCGACCCCGAACCCCTAACCC
30780795 CTAAAC
1 CTAAAC
30780801 ATTATTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.46, G:0.07, T:0.17
Consensus pattern (33 bp):
CTAAACCCTAACCCGACCCCGAACCCCTAACCC
Found at i:30781706 original size:41 final size:41
Alignment explanation
Indices: 30781649--30781851 Score: 320
Period size: 41 Copynumber: 5.0 Consensus size: 41
30781639 GGCGCTAAAG
*
30781649 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGTCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
30781690 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
30781731 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGG-CCGA
1 GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
*
30781771 GCATTAGCGGCGCTT-TCTCAAAAACGCCGCTAAAGGCCCTA
1 GCATTAGCGGCGCTTCT-TCAAAAACGCCGCTAAAGGCCCGA
* * * *
30781812 GCATTAGCAGAGCTTTTTTCAAAAACGCCGCTAAATGCCC
1 GCATTAGCGGCGC-TTCTTCAAAAACGCCGCTAAAGGCCC
30781852 CAAAAACTCA
Statistics
Matches: 153, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
39 1 0.01
40 38 0.25
41 90 0.59
42 23 0.15
43 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.20
Consensus pattern (41 bp):
GCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGA
Found at i:30781936 original size:39 final size:38
Alignment explanation
Indices: 30781887--30781961 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 38
30781877 CGGCTTAGGC
*
30781887 TTTTTGCGGCGCTTTCTAAAAAACGCCGCTAATGCTTA
1 TTTTTGCGGCGCTTTCCAAAAAACGCCGCTAATGCTTA
* *
30781925 TTTTTAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCT
1 TTTTT-GCGGCGCTTTCCAAAAAACGCCGCTAATGCT
30781962 CGACCTTTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 5 0.15
39 28 0.85
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (38 bp):
TTTTTGCGGCGCTTTCCAAAAAACGCCGCTAATGCTTA
Found at i:30782149 original size:16 final size:16
Alignment explanation
Indices: 30782136--30782256 Score: 67
Period size: 16 Copynumber: 7.8 Consensus size: 16
30782126 AGCCTACATG
30782136 ACTTACATAATACACA
1 ACTTACATAATACACA
* *
30782152 ACTTACATAACTGAAATA
1 ACTTACATAA-T-ACACA
*
30782170 ACTTACATGAT--ACA
1 ACTTACATAATACACA
* *
30782184 A--TAC-T--TCCATA
1 ACTTACATAATACACA
*
30782195 ACTTACATTATACACA
1 ACTTACATAATACACA
*
30782211 ACTTACATAACTTACATA
1 ACTTACATAA--TACACA
* **
30782229 GCTTACATTCTACACA
1 ACTTACATAATACACA
30782245 ACTTACATAATA
1 ACTTACATAATA
30782257 TACATAATAC
Statistics
Matches: 78, Mismatches: 16, Indels: 22
0.67 0.14 0.19
Matches are distributed among these distances:
9 1 0.01
11 4 0.05
12 3 0.04
13 3 0.04
14 4 0.05
16 37 0.47
17 2 0.03
18 24 0.31
ACGTcount: A:0.44, C:0.23, G:0.02, T:0.31
Consensus pattern (16 bp):
ACTTACATAATACACA
Found at i:30782158 original size:25 final size:25
Alignment explanation
Indices: 30782111--30782159 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
30782101 ACTTATAATA
* *
30782111 ACTTACATAATACATAGCCTACATG
1 ACTTACATAATACACAACCTACATG
*
30782136 ACTTACATAATACACAACTTACAT
1 ACTTACATAATACACAACCTACAT
30782160 AACTGAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.24, G:0.04, T:0.29
Consensus pattern (25 bp):
ACTTACATAATACACAACCTACATG
Found at i:30782174 original size:34 final size:32
Alignment explanation
Indices: 30782136--30782254 Score: 101
Period size: 34 Copynumber: 3.8 Consensus size: 32
30782126 AGCCTACATG
*
30782136 ACTTACATAATACACAACTTACATAACTGAAATA
1 ACTTACATTATACACAACTTACATAACT--AATA
*
30782170 ACTTACATGATACA-ATACTT-C----C--ATA
1 ACTTACATTATACACA-ACTTACATAACTAATA
30782195 ACTTACATTATACACAACTTACATAACTTACATA
1 ACTTACATTATACACAACTTACATAAC-TA-ATA
* *
30782229 GCTTACATTCTACACAACTTACATAA
1 ACTTACATTATACACAACTTACATAA
30782255 TATACATAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
25 20 0.29
26 2 0.03
29 1 0.01
30 1 0.01
33 2 0.03
34 44 0.63
ACGTcount: A:0.44, C:0.24, G:0.03, T:0.30
Consensus pattern (32 bp):
ACTTACATTATACACAACTTACATAACTAATA
Found at i:30782183 original size:25 final size:24
Alignment explanation
Indices: 30782167--30782227 Score: 86
Period size: 25 Copynumber: 2.5 Consensus size: 24
30782157 CATAACTGAA
*
30782167 ATAACTTACATGATACAATACTTCC
1 ATAACTTACATGATACAA-ACTTAC
*
30782192 ATAACTTACATTATACACAACTTAC
1 ATAACTTACATGATACA-AACTTAC
30782217 ATAACTTACAT
1 ATAACTTACAT
30782228 AGCTTACATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.33
Consensus pattern (24 bp):
ATAACTTACATGATACAAACTTAC
Found at i:30782217 original size:9 final size:9
Alignment explanation
Indices: 30782108--30782399 Score: 153
Period size: 9 Copynumber: 34.7 Consensus size: 9
30782098 CTTACTTATA
30782108 ATAACTTAC
1 ATAACTTAC
30782117 ATAA--TAC
1 ATAACTTAC
* *
30782124 ATAGCCTAC
1 ATAACTTAC
*
30782133 ATGACTTAC
1 ATAACTTAC
30782142 ATAA--TAC
1 ATAACTTAC
*
30782149 ACAACTTAC
1 ATAACTTAC
* *
30782158 ATAACTGAA
1 ATAACTTAC
30782167 ATAACTTAC
1 ATAACTTAC
*
30782176 ATGA--TAC
1 ATAACTTAC
*
30782183 A-ATACTTCC
1 ATA-ACTTAC
30782192 ATAACTTAC
1 ATAACTTAC
*
30782201 ATTA--TAC
1 ATAACTTAC
*
30782208 ACAACTTAC
1 ATAACTTAC
30782217 ATAACTTAC
1 ATAACTTAC
*
30782226 ATAGCTTAC
1 ATAACTTAC
*
30782235 AT-TC-TAC
1 ATAACTTAC
*
30782242 ACAACTTAC
1 ATAACTTAC
30782251 ATAA-TATAC
1 ATAACT-TAC
30782260 ATAA--TAC
1 ATAACTTAC
*
30782267 ACAACTTAC
1 ATAACTTAC
*
30782276 ATAACATAC
1 ATAACTTAC
30782285 ATAA--TAC
1 ATAACTTAC
*
30782292 ATAACATAC
1 ATAACTTAC
* *
30782301 ATAGCTAAC
1 ATAACTTAC
*
30782310 ATAA--AAC
1 ATAACTTAC
30782317 ATAACTTAC
1 ATAACTTAC
*
30782326 ATAACTTAT
1 ATAACTTAC
30782335 ATAA--TAC
1 ATAACTTAC
30782342 ATAACTTAC
1 ATAACTTAC
* *
30782351 ACAATTTAC
1 ATAACTTAC
*
30782360 TTAA--TAC
1 ATAACTTAC
* *
30782367 ATAA-ATAT
1 ATAACTTAC
* *
30782375 ATATCATATC
1 ATAACTTA-C
30782385 ATAACTTAC
1 ATAACTTAC
30782394 ATAACT
1 ATAACT
30782400 CATTTATACT
Statistics
Matches: 215, Mismatches: 44, Indels: 48
0.70 0.14 0.16
Matches are distributed among these distances:
7 58 0.27
8 8 0.04
9 142 0.66
10 7 0.03
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (9 bp):
ATAACTTAC
Found at i:30782242 original size:25 final size:25
Alignment explanation
Indices: 30782214--30782370 Score: 172
Period size: 25 Copynumber: 6.3 Consensus size: 25
30782204 ATACACAACT
* **
30782214 TACATAACTTACATAGCTTACATTC
1 TACATAACTTACATAACTTACATAA
*
30782239 TACACAACTTACATAA-TATACATAA
1 TACATAACTTACATAACT-TACATAA
* *
30782264 TACACAACTTACATAACATACATAA
1 TACATAACTTACATAACTTACATAA
* * *
30782289 TACATAACATACATAGCTAACATAA
1 TACATAACTTACATAACTTACATAA
* *
30782314 AACATAACTTACATAACTTATATAA
1 TACATAACTTACATAACTTACATAA
* * *
30782339 TACATAACTTACACAATTTACTTAA
1 TACATAACTTACATAACTTACATAA
30782364 TACATAA
1 TACATAA
30782371 ATATATATCA
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
24 1 0.01
25 109 0.99
ACGTcount: A:0.48, C:0.20, G:0.01, T:0.30
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:30782261 original size:34 final size:34
Alignment explanation
Indices: 30782186--30782263 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
30782176 ATGATACAAT
*
30782186 ACTTCCATAACTTACATTATACACAACTTACATA
1 ACTTACATAACTTACATTATACACAACTTACATA
* *
30782220 ACTTACATAGCTTACATTCTACACAACTTACATA
1 ACTTACATAACTTACATTATACACAACTTACATA
30782254 A-TATACATAA
1 ACT-TACATAA
30782264 TACACAACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 1 0.03
34 38 0.97
ACGTcount: A:0.42, C:0.24, G:0.01, T:0.32
Consensus pattern (34 bp):
ACTTACATAACTTACATTATACACAACTTACATA
Found at i:30782286 original size:50 final size:50
Alignment explanation
Indices: 30782191--30782370 Score: 186
Period size: 50 Copynumber: 3.6 Consensus size: 50
30782181 ACAATACTTC
* * **
30782191 CATAACTTACAT--TATACACAACTTACATAACTTACATAGCTTACATTCTA
1 CATAACTTACATAATATACATAA--TACATAACTTACATAACTTACATAATA
* * *
30782241 CACAACTTACATAATATACATAATACACAACTTACATAACATACATAATA
1 CATAACTTACATAATATACATAATACATAACTTACATAACTTACATAATA
* * * *
30782291 CATAACATACATAGCTA-ACATAAAACATAACTTACATAACTTATATAATA
1 CATAACTTACATA-ATATACATAATACATAACTTACATAACTTACATAATA
* * *
30782341 CATAACTTACACAATTTACTTAATACATAA
1 CATAACTTACATAATATACATAATACATAA
30782371 ATATATATCA
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 1 0.01
50 95 0.90
51 2 0.02
52 8 0.08
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.30
Consensus pattern (50 bp):
CATAACTTACATAATATACATAATACATAACTTACATAACTTACATAATA
Found at i:30782286 original size:59 final size:58
Alignment explanation
Indices: 30782108--30782288 Score: 206
Period size: 59 Copynumber: 3.1 Consensus size: 58
30782098 CTTACTTATA
* * * *
30782108 ATAACTTACATAATAC-ATAGCCTACATGACTTACATAATACACAACTTACATAACTGAA
1 ATAACTTACATGATACAATA-CTTACATAACTTACATAATACACAACTTACATAACT-AC
* *
30782167 ATAACTTACATGATACAATACTTCCATAACTTACATTATACACAACTTACATAACTTAC
1 ATAACTTACATGATACAATACTTACATAACTTACATAATACACAACTTACATAAC-TAC
* **
30782226 ATAGCTTACATTCTACACA-ACTTACATAA-TATACATAATACACAACTTACATAACATAC
1 ATAACTTACATGATACA-ATACTTACATAACT-TACATAATACACAACTTACATAAC-TAC
30782285 ATAA
1 ATAA
30782289 TACATAACAT
Statistics
Matches: 105, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
58 1 0.01
59 99 0.94
60 5 0.05
ACGTcount: A:0.45, C:0.23, G:0.03, T:0.29
Consensus pattern (58 bp):
ATAACTTACATGATACAATACTTACATAACTTACATAATACACAACTTACATAACTAC
Found at i:30783814 original size:36 final size:36
Alignment explanation
Indices: 30783773--30783844 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
30783763 AAGGAGAACT
*
30783773 TTAATTTACGTGCAGCTTGATGTGAACTATTAATGA
1 TTAATTTACGTGCAGCTTGATGTGAACCATTAATGA
30783809 TTAATTTACGTGCAGCTTGATGTGAACCATTAATGA
1 TTAATTTACGTGCAGCTTGATGTGAACCATTAATGA
30783845 CTTCCCCGCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (36 bp):
TTAATTTACGTGCAGCTTGATGTGAACCATTAATGA
Found at i:30787001 original size:43 final size:43
Alignment explanation
Indices: 30786953--30787041 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
30786943 TACTTTAAAG
30786953 AAAGATTATTATAAGACAAAAACAACCATCGATCAGAAATTGC
1 AAAGATTATTATAAGACAAAAACAACCATCGATCAGAAATTGC
30786996 AAAGATTATTATAAGACAAAAACAACCATCGATCAGAAATTGC
1 AAAGATTATTATAAGACAAAAACAACCATCGATCAGAAATTGC
30787039 AAA
1 AAA
30787042 ATGTCCCGCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.20
Consensus pattern (43 bp):
AAAGATTATTATAAGACAAAAACAACCATCGATCAGAAATTGC
Found at i:30787951 original size:21 final size:20
Alignment explanation
Indices: 30787925--30787973 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
30787915 CAACTTAAAG
*
30787925 CAGAGGTGGCAGCGAGGGAAA
1 CAGAGGT-GCAGCGAGAGAAA
*
30787946 CAGAGGCTGCAGCGAGAGAAG
1 CAGAGG-TGCAGCGAGAGAAA
30787967 CAGAGGT
1 CAGAGGT
30787974 TCAAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.45, T:0.06
Consensus pattern (20 bp):
CAGAGGTGCAGCGAGAGAAA
Found at i:30788037 original size:87 final size:87
Alignment explanation
Indices: 30787882--30788058 Score: 264
Period size: 87 Copynumber: 2.0 Consensus size: 87
30787872 GACCACAGTT
* * * *
30787882 GAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGTGGCAGCGAGGGAAAC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGGCAGCGAGAGAAAC
*
30787947 AGAGGCTGCAGCGAGAGAAGCA
66 AGAGGCTACAGCGAGAGAAGCA
* * * *
30787969 GAGGTTCAAAAGAAATATGAAGAACTCTAGCAACAACTTAAAGCAGATGCGGCATCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGGCAGCGAGAGAAAC
*
30788034 AGAGGCTACAGCGAGGGAAGCA
66 AGAGGCTACAGCGAGAGAAGCA
30788056 GAG
1 GAG
30788059 TAGAGCAGAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.40, C:0.17, G:0.31, T:0.12
Consensus pattern (87 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGGCAGCGAGAGAAAC
AGAGGCTACAGCGAGAGAAGCA
Found at i:30788081 original size:87 final size:87
Alignment explanation
Indices: 30787882--30788084 Score: 228
Period size: 87 Copynumber: 2.3 Consensus size: 87
30787872 GACCACAGTT
* * * * * *
30787882 GAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGTGGCAGCGAGGGAAAC
1 GAGGTACAAAAGAAATACGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGGCAGCGAGAGAAAC
*
30787947 AGAGGCTGCAGCGAGAGAAGCA
66 AGAGGCTACAGCGAGAGAAGCA
* * * * * *
30787969 GAGGTTCAAAAGAAATATGAAGAACTCTAGCAACAACTTAAAGCAGATGCGGCATCGAGAGAAGC
1 GAGGTACAAAAGAAATACGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGGCAGCGAGAGAAAC
*
30788034 AGAGGCTACAGCGAGGGAAGCA
66 AGAGGCTACAGCGAGAGAAGCA
* ** *
30788056 GA-GTAGAGCAGAAAGTACGACGAACTCCA
1 GAGGTACAAAAGAAA-TACGAAGAACTCCA
30788085 ACAGCAGCTT
Statistics
Matches: 98, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
86 8 0.08
87 90 0.92
ACGTcount: A:0.40, C:0.18, G:0.30, T:0.12
Consensus pattern (87 bp):
GAGGTACAAAAGAAATACGAAGAACTCCAGCAACAACTTAAAGCAGAGGCGGCAGCGAGAGAAAC
AGAGGCTACAGCGAGAGAAGCA
Found at i:30788462 original size:43 final size:44
Alignment explanation
Indices: 30788414--30788676 Score: 224
Period size: 43 Copynumber: 6.1 Consensus size: 44
30788404 AATAGAAGTA
* * * *
30788414 TTTGTGGAAGAAGCACTGCT-AAAGAACATGACT-TTTACCGGCG
1 TTTGTGGAAAAAGCGCCGCTAAAAG-ACATGACTCTTTAGCGGCG
* * * *
30788457 TTTGTGGGAAAAAAACGCCACTAAAAGTCATG-CTCTATAGCGGCG
1 TTTGT-GG-AAAAAGCGCCGCTAAAAGACATGACTCTTTAGCGGCG
* *
30788502 TTTGTGGAAAAAGCGCCGCTAAAAGTCAT-ATTCTTTAGCGGCG
1 TTTGTGGAAAAAGCGCCGCTAAAAGACATGACTCTTTAGCGGCG
* * * * *
30788545 TTTGTTGG-AGAAGCACCGCTAAAAGTCATG-TTCTTTAGTGGCG
1 TTTG-TGGAAAAAGCGCCGCTAAAAGACATGACTCTTTAGCGGCG
* *
30788588 TTTGTGAAAAAAGCGCCGCT-AAAGAACATGAC-CTTTAGCGGAG
1 TTTGTGGAAAAAGCGCCGCTAAAAG-ACATGACTCTTTAGCGGCG
*
30788631 TTTGTAGG-AAAAGCGCCGCT-AAAGAACATGAC-CTTTAGTGGCG
1 TTTGT-GGAAAAAGCGCCGCTAAAAG-ACATGACTCTTTAGCGGCG
30788674 TTT
1 TTT
30788677 ATTTCTATAA
Statistics
Matches: 184, Mismatches: 25, Indels: 22
0.80 0.11 0.10
Matches are distributed among these distances:
42 6 0.03
43 139 0.76
44 10 0.05
45 25 0.14
46 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (44 bp):
TTTGTGGAAAAAGCGCCGCTAAAAGACATGACTCTTTAGCGGCG
Found at i:30790046 original size:25 final size:25
Alignment explanation
Indices: 30790000--30790047 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
30789990 ATAGGAGCAC
* *
30790000 GCTTAAAACATAGCTTTAAAACATG
1 GCTTAAAACATAACTTGAAAACATG
* *
30790025 GCTTAAAATATAACTTGGAAACA
1 GCTTAAAACATAACTTGAAAACA
30790048 CATCTTGAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.27
Consensus pattern (25 bp):
GCTTAAAACATAACTTGAAAACATG
Found at i:30791151 original size:15 final size:14
Alignment explanation
Indices: 30791109--30791171 Score: 65
Period size: 15 Copynumber: 4.4 Consensus size: 14
30791099 TCTACCAAAC
* *
30791109 TAATAATATAATAG
1 TAATAAAATAATAA
30791123 TAGA-AAAATAATAA
1 TA-ATAAAATAATAA
*
30791137 TAATCAAAATGATAA
1 TAAT-AAAATAATAA
30791152 TAATAAAATAATAAA
1 TAATAAAATAAT-AA
30791167 TAATA
1 TAATA
30791172 TAAACAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
13 1 0.02
14 19 0.46
15 21 0.51
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (14 bp):
TAATAAAATAATAA
Found at i:30799727 original size:68 final size:67
Alignment explanation
Indices: 30799650--30799846 Score: 205
Period size: 62 Copynumber: 3.0 Consensus size: 67
30799640 TTGAATATAT
* * * *
30799650 TTAATATTAAATTAAATTTAGTACTTATCTTAAT-AGTATTTTATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
30799714 TA
66 TA
* * *
30799716 CCTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTT-A-A-T-AA
1 --TTAATATTAAATTTAATTTAATATTTATC-T-TA-ATAAGTATTATATTAATTTAATATTAAA
30799777 --GA-T-
61 GTGATTA
* *
30799780 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
30799845 TA
66 TA
30799847 AGTTTAACCA
Statistics
Matches: 106, Mismatches: 11, Indels: 25
0.75 0.08 0.18
Matches are distributed among these distances:
59 17 0.16
60 2 0.02
61 2 0.02
62 28 0.26
63 2 0.02
65 3 0.03
66 3 0.03
68 27 0.25
69 2 0.02
70 3 0.03
71 3 0.03
72 14 0.13
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (67 bp):
TTAATATTAAATTTAATTTAATATTTATCTTAATAAGTATTATATTAATTTAATATTAAAGTGAT
TA
Found at i:30805043 original size:3 final size:3
Alignment explanation
Indices: 30805035--30805117 Score: 130
Period size: 3 Copynumber: 27.7 Consensus size: 3
30805025 CCACTCATCT
30805035 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
30805083 TAA TAA TAC TAA TAA TAC TAA TAC TAA TAT TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
30805118 CTTACCTCAC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:30806116 original size:7 final size:7
Alignment explanation
Indices: 30806104--30806137 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
30806094 TAGAATTTAA
30806104 TAATAAC
1 TAATAAC
30806111 TAATAAC
1 TAATAAC
30806118 TAATAAC
1 TAATAAC
30806125 TAATAAC
1 TAATAAC
30806132 TAATAA
1 TAATAA
30806138 TAAATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (7 bp):
TAATAAC
Found at i:30806116 original size:10 final size:10
Alignment explanation
Indices: 30806101--30806147 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
30806091 TCTTAGAATT
30806101 TAATAATAAC
1 TAATAATAAC
30806111 TAATAACTAA-
1 TAATAA-TAAC
30806121 TAACTAATAAC
1 TAA-TAATAAC
*
30806132 TAATAATAAA
1 TAATAATAAC
30806142 TAATAA
1 TAATAA
30806148 ATATCTTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 24 0.73
11 9 0.27
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.30
Consensus pattern (10 bp):
TAATAATAAC
Found at i:30806150 original size:21 final size:20
Alignment explanation
Indices: 30806101--30806147 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
30806091 TCTTAGAATT
30806101 TAATAATAACTAATAACT-AA
1 TAATAATAACTAATAA-TAAA
30806121 TAACTAATAACTAATAATAAA
1 TAA-TAATAACTAATAATAAA
30806142 TAATAA
1 TAATAA
30806148 ATATCTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.30
Consensus pattern (20 bp):
TAATAATAACTAATAATAAA
Found at i:30812226 original size:17 final size:17
Alignment explanation
Indices: 30812183--30812229 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
30812173 TAAAACCATA
30812183 ATAATATTTA-ATAATT
1 ATAATATTTATATAATT
* *
30812199 ATACTAATTATATACA-T
1 ATAATATTTATATA-ATT
30812216 ATAATATTTATATA
1 ATAATATTTATATA
30812230 TAACCTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
16 8 0.32
17 16 0.64
18 1 0.04
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
ATAATATTTATATAATT
Found at i:30820466 original size:113 final size:113
Alignment explanation
Indices: 30820202--30820471 Score: 296
Period size: 113 Copynumber: 2.4 Consensus size: 113
30820192 GTTTTATTTA
* * ** * *
30820202 TTTATTCC-CAGGCAAATTCAAATTAATTCCCTCCTCATCTATTAGGAAACCGAAACTACTTTTA
1 TTTATTCCTAAGGCAACTTCAAATTAATTAGCTCCTCATCT-CTAGGAAACCAAAACTACTTTTA
* * ** * *
30820266 ATATTTTGATCAAATAAAAAAAACCAATTTTTTCAGTTATTTTTTTCCG
65 ATATTTTAATCAAAGAAAAAAAACCAATTTTTTCAACTATTCTTTCCCG
* * *
30820315 TTTATTCCTAATGCAACTTCAAATTAATTGGCTCCTCATCTCT-GGGAACCAAAACTACTTTTAA
1 TTTATTCCTAAGGCAACTTCAAATTAATTAGCTCCTCATCTCTAGGAAACCAAAACTACTTTTAA
* *
30820379 TTTTTTTAATTAAAGAAAAAGAAACC-ATTTTTTCAACT-TTCTTTCCCTG
66 -TATTTTAATCAAAGAAAAA-AAACCAATTTTTTCAACTATTCTTTCCC-G
* * *
30820428 TTTGTTTCTAAGGCAACTTCAAATTAATTAGCTTCTCATCTCTA
1 TTTATTCCTAAGGCAACTTCAAATTAATTAGCTCCTCATCTCTA
30820472 ACTACTTCTA
Statistics
Matches: 131, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
112 26 0.20
113 73 0.56
114 32 0.24
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (113 bp):
TTTATTCCTAAGGCAACTTCAAATTAATTAGCTCCTCATCTCTAGGAAACCAAAACTACTTTTAA
TATTTTAATCAAAGAAAAAAAACCAATTTTTTCAACTATTCTTTCCCG
Found at i:30822358 original size:36 final size:36
Alignment explanation
Indices: 30822285--30822358 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 36
30822275 GGATGAGTGC
* * * * *
30822285 ATCAGTCAGAATAGATCTAAAAGACTGCTGAATTGA
1 ATCAGCCAGAATAGATCCAAAAGACTACTAAACTGA
* *
30822321 ATCAGCCAGAATAGATCCGAAAGGCTACTAAACTGA
1 ATCAGCCAGAATAGATCCAAAAGACTACTAAACTGA
30822357 AT
1 AT
30822359 AGAATAGAGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.22
Consensus pattern (36 bp):
ATCAGCCAGAATAGATCCAAAAGACTACTAAACTGA
Found at i:30829331 original size:15 final size:15
Alignment explanation
Indices: 30829311--30829340 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
30829301 GTCCTCTAAT
30829311 GACATAAACTAAGGC
1 GACATAAACTAAGGC
30829326 GACATAAACTAAGGC
1 GACATAAACTAAGGC
30829341 ATGCTGTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (15 bp):
GACATAAACTAAGGC
Found at i:30830056 original size:26 final size:26
Alignment explanation
Indices: 30830012--30830067 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
30830002 TCACACGAGT
*
30830012 TGTGAAATGGATCTACTCATACGAAC
1 TGTGAAATGGACCTACTCATACGAAC
* * * *
30830038 TGTGAAATGGGCCTGCTCATATGAGC
1 TGTGAAATGGACCTACTCATACGAAC
30830064 TGTG
1 TGTG
30830068 GGTCAGAATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (26 bp):
TGTGAAATGGACCTACTCATACGAAC
Found at i:30833637 original size:43 final size:43
Alignment explanation
Indices: 30833577--30833705 Score: 136
Period size: 43 Copynumber: 3.0 Consensus size: 43
30833567 ATAGGATTTC
*
30833577 CGATATGTGA-TATCGTGTAAGACCATGTCTGGGACGTTGGCAT
1 CGATATATGATTA-CGTGTAAGACCATGTCTGGGACGTTGGCAT
* * * * *
30833620 CGATTTATGTTTACGTGTAAGACCCTGTCTGGGACAG-CGACAT
1 CGATATATGATTACGTGTAAGACCATGTCTGGGAC-GTTGGCAT
* * **
30833663 CGATATGTGATTACATGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATATGATTACGTGTAAGACCATGTCTGGGACGTTGGCAT
30833706 TGTACGAGTT
Statistics
Matches: 68, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
42 1 0.01
43 64 0.94
44 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
CGATATATGATTACGTGTAAGACCATGTCTGGGACGTTGGCAT
Found at i:30835373 original size:2 final size:2
Alignment explanation
Indices: 30835322--30835353 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
30835312 ATTCTTAATG
*
30835322 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30835354 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:30836681 original size:23 final size:23
Alignment explanation
Indices: 30836655--30836752 Score: 178
Period size: 23 Copynumber: 4.3 Consensus size: 23
30836645 ATAAGTGCAA
*
30836655 CACTGATATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
30836678 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
30836701 CACTGAAATGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
*
30836724 CACTGAAACGTAGCCGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTAC
30836747 CACTGA
1 CACTGA
30836753 TCAATAACAC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 73 1.00
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.17
Consensus pattern (23 bp):
CACTGAAATGTAGCCGAAGCTAC
Found at i:30844665 original size:13 final size:13
Alignment explanation
Indices: 30844647--30844673 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30844637 TATGAATTTG
30844647 GCCCATTGTAATT
1 GCCCATTGTAATT
30844660 GCCCATTGTAATT
1 GCCCATTGTAATT
30844673 G
1 G
30844674 GACTTTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (13 bp):
GCCCATTGTAATT
Found at i:30847878 original size:28 final size:27
Alignment explanation
Indices: 30847847--30847909 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 27
30847837 AAAAACTAAA
30847847 AAAAATATTTAAAAAA-ATATAAAAATAT
1 AAAAAT-TTTAAAAAAGATAT-AAAATAT
30847875 AAAAACTTTTAAAAAAGATATAAAATAT
1 AAAAA-TTTTAAAAAAGATATAAAATAT
30847903 AAAAATT
1 AAAAATT
30847910 AAGATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
27 2 0.06
28 26 0.79
29 5 0.15
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (27 bp):
AAAAATTTTAAAAAAGATATAAAATAT
Found at i:30854185 original size:20 final size:20
Alignment explanation
Indices: 30854162--30854199 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30854152 TTAAATCTAA
30854162 TTAATGTA-GTTTAATCAAAC
1 TTAATGTATG-TTAATCAAAC
*
30854182 TTAATTTATGTTAATCAA
1 TTAATGTATGTTAATCAA
30854200 GCTATTATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.94
21 1 0.06
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (20 bp):
TTAATGTATGTTAATCAAAC
Found at i:30856452 original size:32 final size:33
Alignment explanation
Indices: 30856388--30856452 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
30856378 TACTTTTCTT
* *
30856388 AAAAAATCAAATCCTTATTTCTAAATAGTTAAA
1 AAAAAATCAAAACCTTATTTCTAAAAAGTTAAA
* * *
30856421 AAAAAATCAAAACTTTGTTT-TAAAAATTTAAA
1 AAAAAATCAAAACCTTATTTCTAAAAAGTTAAA
30856453 CTTTCCTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (33 bp):
AAAAAATCAAAACCTTATTTCTAAAAAGTTAAA
Found at i:30856505 original size:52 final size:51
Alignment explanation
Indices: 30856419--30856669 Score: 140
Period size: 53 Copynumber: 4.8 Consensus size: 51
30856409 TAAATAGTTA
** * * *
30856419 AAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACT
1 AAAAAAAA-CAAATTTTTATTTTTAAAATCTAAACTTTCCTTTAAAATGACT
* * * *
30856471 TAAAAAAACAAATTTTTATTTTTCAAAATCTAAACTTTCTCCTT--ATTTA--
1 AAAAAAAACAAATTTTTATTTTT-AAAATCTAAACTTTC-CTTTAAAATGACT
* * * * ** * *
30856520 AAAAAAAACACACTGTTT-TTCTTAAAGAT-TGAAGCTTTTATTTTGAAAT-AGTT
1 AAAAAAAACA-AATTTTTATTTTTAAA-ATCT-AAAC-TTTCCTTTAAAATGA-CT
* * *
30856573 AAAAAAAATCAAAATTTTA-TTTTAAAATTTTAAACTTTCCTTTAAAATGACAA
1 AAAAAAAA-CAAATTTTTATTTTTAAAA-TCTAAACTTTCCTTTAAAATGAC-T
*
30856626 AAAAAAAACAGATTTTTATTTTTCAAAATCTAAACTTTCTCTTT
1 AAAAAAAACAAATTTTTATTTTT-AAAATCTAAACTTTC-CTTT
30856670 TTTTTAAATA
Statistics
Matches: 148, Mismatches: 31, Indels: 38
0.68 0.14 0.18
Matches are distributed among these distances:
48 4 0.03
49 20 0.14
50 9 0.06
51 16 0.11
52 40 0.27
53 48 0.32
54 11 0.07
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (51 bp):
AAAAAAAACAAATTTTTATTTTTAAAATCTAAACTTTCCTTTAAAATGACT
Found at i:30856611 original size:154 final size:155
Alignment explanation
Indices: 30856402--30856821 Score: 559
Period size: 154 Copynumber: 2.7 Consensus size: 155
30856392 AATCAAATCC
30856402 TTATTTCT-AAATAGTTAAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAA
1 TTATTT-TGAAATAGTTAAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAA
30856466 TGACTTAAAAAAACAAATTTTTATTTTTCAAAATCTAAACTTTCTC-CTTATTTAAA-AAAAAAC
65 TGAC-TAAAAAAACAAATTTTTATTTTTCAAAATCTAAACTTTCTCTCTTATTTAAATAAAAAA-
* *
30856529 ACACTGTTTTTCTTAAAGATTGAAGCTT
128 ACACTATTTTTCTTAAAGATTAAAGCTT
* * *
30856557 TTATTTTGAAATAGTT-AAAAAAAATCAAAATTTTATTTTAAAATTTTAAACTTTCCTTTAAAAT
1 TTATTTTGAAATAGTTAAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAAT
* * * *
30856621 GACAAAAAAAAAACAGATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTTTTTAAATAAAAAAA
66 GAC--TAAAAAAACAAATTTTTATTTTTCAAAATCTAAACTTTCTCTCTTATTTAAATAAAAAAA
* *
30856686 TATTATTTTTCTTAAAGATTAAAGCTT
129 CACTATTTTTCTTAAAGATTAAAGCTT
* *
30856713 TTACTTTGAAGTAGTTGAAAAAAAAAATCAAAACTTTGTTTTAAAAATTT-AACATTTCCTTTAA
1 TTATTTTGAAATAGTT--AAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAAC-TTTCCTTTAA
* * * *
30856777 AATAACTAAAAAAA-AAA--ATTATTTGTGAAAATCTAAACTTTCTCT
63 AATGACTAAAAAAACAAATTTTTATTTTTCAAAATCTAAACTTTCTCT
30856822 TTTTTTTTTT
Statistics
Matches: 234, Mismatches: 23, Indels: 17
0.85 0.08 0.06
Matches are distributed among these distances:
154 74 0.32
155 53 0.23
156 48 0.21
157 13 0.06
158 3 0.01
159 43 0.18
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (155 bp):
TTATTTTGAAATAGTTAAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAAT
GACTAAAAAAACAAATTTTTATTTTTCAAAATCTAAACTTTCTCTCTTATTTAAATAAAAAAACA
CTATTTTTCTTAAAGATTAAAGCTT
Found at i:30857644 original size:39 final size:39
Alignment explanation
Indices: 30857600--30857723 Score: 115
Period size: 39 Copynumber: 3.1 Consensus size: 39
30857590 CAATGAAAAG
* * *
30857600 TAAACTAGAAACGTAAATAGACCTCTACACCTGGGCCTC
1 TAAACTAGAAAAGTAAACAGACCTCCACACCTGGGCCTC
* * *
30857639 TAAACTAGAAAAGTAAACGGACCTCCACACTTGGGTCTC
1 TAAACTAGAAAAGTAAACAGACCTCCACACCTGGGCCTC
* * * *
30857678 TAAATGCAATGAAAAGTGAA-TGAACCTCCACACCTGGGTCTC
1 TAAA--CTA-GAAAAGTAAACAG-ACCTCCACACCTGGGCCTC
30857720 TAAA
1 TAAA
30857724 TGCAATTAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
39 37 0.52
41 3 0.04
42 31 0.44
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (39 bp):
TAAACTAGAAAAGTAAACAGACCTCCACACCTGGGCCTC
Found at i:30857705 original size:42 final size:42
Alignment explanation
Indices: 30857619--30858023 Score: 519
Period size: 42 Copynumber: 9.7 Consensus size: 42
30857609 AACGTAAATA
* * * * *
30857619 GACCTCTACACCTGGGCCTCTAAA--CTA-GAAAAGTAAACG
1 GACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATG
*
30857658 GACCTCCACACTTGGGTCTCTAAATGCAATGAAAAGTGAATG
1 GACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATG
* * *
30857700 AACCTCCACACCTGGGTCTCTAAATGCAATTAAAAGTGAACG
1 GACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATG
* * * *
30857742 AACCTCCAGACCTGGGTCTCTAGATGGAATGAAAAGTGAATG
1 GACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATG
* * * * *
30857784 GACCTTCACACCCGAGTCACTAGATGCAATGAAAAGTGAATG
1 GACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATG
**
30857826 GACGACCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATG
1 GACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATG
30857868 GACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATG
1 GACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATG
* *
30857910 GACCTCCACACCTGGGTTTCTAAATGCAATGAAAAGTGAACG
1 GACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATG
* ***
30857952 GATCAAAACACCTGGGTCTCTAAATGCAATGAAAAGTGAATG
1 GACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATG
* * * *
30857994 GACCTCCATACCTGTGTCTTTAGATGCAAT
1 GACCTCCACACCTGGGTCTCTAAATGCAAT
30858024 AAATGTTTTC
Statistics
Matches: 316, Mismatches: 47, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
39 21 0.07
41 2 0.01
42 293 0.93
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (42 bp):
GACCTCCACACCTGGGTCTCTAAATGCAATGAAAAGTGAATG
Found at i:30871170 original size:27 final size:27
Alignment explanation
Indices: 30871139--30871191 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
30871129 AAATGGTAGG
30871139 TAAGATCTTAAGGACGAACCTAAATCT
1 TAAGATCTTAAGGACGAACCTAAATCT
30871166 TAAGATCTTAAGGACGAACCTAAATC
1 TAAGATCTTAAGGACGAACCTAAATC
30871192 CAAATGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (27 bp):
TAAGATCTTAAGGACGAACCTAAATCT
Found at i:30871567 original size:10 final size:10
Alignment explanation
Indices: 30871515--30871573 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
30871505 AGGGAATGTG
30871515 TAAAAA-AAA
1 TAAAAATAAA
*
30871524 TATAAATAGACA
1 TAAAAATA-A-A
*
30871536 TGAAAATAAA
1 TAAAAATAAA
30871546 TAAAAATGAAA
1 TAAAAAT-AAA
*
30871557 TAAGAATAAA
1 TAAAAATAAA
30871567 TAAAAAT
1 TAAAAAT
30871574 TATACAAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 5 0.12
10 17 0.43
11 11 0.28
12 7 0.17
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:30871643 original size:25 final size:24
Alignment explanation
Indices: 30871597--30871643 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
30871587 ATAAATATAA
**
30871597 AACATTAAAATATAGTGCATAATT
1 AACATTAAAATATAAAGCATAATT
*
30871621 AACATTAAATATATAAAGTATAA
1 AACATTAAA-ATATAAAGCATAA
30871644 ATGCAAGTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (24 bp):
AACATTAAAATATAAAGCATAATT
Found at i:30872456 original size:153 final size:150
Alignment explanation
Indices: 30872137--30872557 Score: 471
Period size: 153 Copynumber: 2.8 Consensus size: 150
30872127 GCTTATTTCA
* *
30872137 AAATAGTT-AGAAAAAATTAAAACTTTGTTTTAAAATTTTAAA----CTTTAAAATGACTTAAAA
1 AAATAGTTGAAAAAAAAATAAAACTTTGTTTTAAAATTTTAAATTTCCTTTAAAATGAC-T-AAA
* *
30872197 AAACAGATTTTTATTTTTCAAAATCTAAACTTTCTCCTTTTTTTTTTAAAAAAAAATACTAATTT
64 AAACATATTTTTATTTTTCAAAATCTAAACTTTCT-C---TTTTTTTAAAAAAAAACACTAATTT
* * * * *
30872262 TATTAAAGTTTGAAGTTTTTATTTTT
125 TATTAAAGATTAAAGCTTTTACTTTG
* *
30872288 ACATAGTTGCAAAAAAAATAAAACTTTGTTTTAAAATTTTACAATTTCCTTTAAAATGACTAAAA
1 AAATAGTTGAAAAAAAAATAAAACTTTGTTTTAAAATTTTA-AATTTCCTTTAAAATGACTAAAA
* *
30872353 AACCATATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTATTTAAAAAAAAACACTATTTTTCT
65 AA-CATATTTTTATTTTTCAAAATCTAAACTTTCTCTTTT-TTTAAAAAAAAACACTAATTTTAT
30872418 TAAAGATTAAAGCTTTTACTTTG
128 TAAAGATTAAAGCTTTTACTTTG
* * * *
30872441 AAATAGTTGAAAAAAAAATCAAAACTTTATTTTAAAAATTTAAAATTTCTTTTAAAATAACTAAA
1 AAATAGTTGAAAAAAAAAT-AAAACTTTGTTTT-AAAATTTTAAATTTCCTTTAAAATGACTAAA
* * * *
30872506 ATAAAATAAAATATTATTTATCAAAATCTAAAC--TCTC-TTTTTTAAAAAAAAA
64 A-AACAT--ATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTTTTAAAAAAAAA
30872558 TTAAAACTTT
Statistics
Matches: 234, Mismatches: 23, Indels: 25
0.83 0.08 0.09
Matches are distributed among these distances:
151 7 0.03
152 45 0.19
153 61 0.26
154 39 0.17
155 17 0.07
156 53 0.23
157 12 0.05
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (150 bp):
AAATAGTTGAAAAAAAAATAAAACTTTGTTTTAAAATTTTAAATTTCCTTTAAAATGACTAAAAA
ACATATTTTTATTTTTCAAAATCTAAACTTTCTCTTTTTTTAAAAAAAAACACTAATTTTATTAA
AGATTAAAGCTTTTACTTTG
Found at i:30872479 original size:20 final size:20
Alignment explanation
Indices: 30872453--30872497 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
30872443 ATAGTTGAAA
*
30872453 AAAAAATCAAAACTTTATTTT
1 AAAAATTCAAAA-TTTATTTT
* *
30872474 AAAAATTTAAAATTTCTTTT
1 AAAAATTCAAAATTTATTTT
30872494 AAAA
1 AAAA
30872498 TAACTAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATTCAAAATTTATTTT
Found at i:30874607 original size:28 final size:28
Alignment explanation
Indices: 30874493--30874595 Score: 143
Period size: 28 Copynumber: 3.7 Consensus size: 28
30874483 AACACATCAA
* * *
30874493 GAAATAATAAGCCTTTGTGGCGAACAAT
1 GAAAGAATAAACCTTTGTGGCGAACTAT
*
30874521 GAAAGAATAAACCTTTGTGGCAAACTAT
1 GAAAGAATAAACCTTTGTGGCGAACTAT
* *
30874549 GAAAGAATAAGCCTTCGTGGCGAACTAT
1 GAAAGAATAAACCTTTGTGGCGAACTAT
*
30874577 GAAGGAATAAACCTTTGTG
1 GAAAGAATAAACCTTTGTG
30874596 ATGAGCTATG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (28 bp):
GAAAGAATAAACCTTTGTGGCGAACTAT
Found at i:30876226 original size:17 final size:17
Alignment explanation
Indices: 30876204--30876237 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
30876194 GTAAATAATG
*
30876204 TTATTATTATAATTATA
1 TTATTATAATAATTATA
*
30876221 TTATTATAATATTTATA
1 TTATTATAATAATTATA
30876238 AAACATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATTATAATAATTATA
Found at i:30880688 original size:15 final size:15
Alignment explanation
Indices: 30880670--30880698 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30880660 AGAAGTTGTT
30880670 TGTAGTTGATGTTGG
1 TGTAGTTGATGTTGG
30880685 TGTAGTTGATGTTG
1 TGTAGTTGATGTTG
30880699 AATTTCTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (15 bp):
TGTAGTTGATGTTGG
Found at i:30885365 original size:24 final size:22
Alignment explanation
Indices: 30885333--30885376 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
30885323 TTGGTTTCAA
30885333 TTATTATTTTAATATGTTTAATTT
1 TTATTATTTT-AT-TGTTTAATTT
30885357 TTATTATTTTATTGTTTAAT
1 TTATTATTTTATTGTTTAAT
30885377 ATTCGATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 2 0.10
24 10 0.50
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (22 bp):
TTATTATTTTATTGTTTAATTT
Found at i:30886028 original size:24 final size:24
Alignment explanation
Indices: 30885983--30886029 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
30885973 TAAAAAACTA
*
30885983 AACCCGCAAAACTTGAAAACAAAG
1 AACCCGCAAAACGTGAAAACAAAG
*
30886007 AACCCTCAAAACGT-AAACACAAA
1 AACCCGCAAAACGTGAAA-ACAAA
30886030 ATTCTCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.55, C:0.28, G:0.09, T:0.09
Consensus pattern (24 bp):
AACCCGCAAAACGTGAAAACAAAG
Found at i:30895781 original size:42 final size:40
Alignment explanation
Indices: 30895660--30895800 Score: 169
Period size: 42 Copynumber: 3.5 Consensus size: 40
30895650 ATGTCATTAT
*
30895660 AGAACATGACCTTTAGCGGCACTTTCCCCACAAACACCGCTCA
1 AGAACATGACCTTTAGC-GC-CTTT-CCCACAAACACCGCTAA
* ***
30895703 AGAACATGACCTTTA--GCTTTTCCCACAAATTTCGCTAA
1 AGAACATGACCTTTAGCGCCTTTCCCACAAACACCGCTAA
*
30895741 AGAACATGACCTTTAGCGACGCTTTCCTACAAACACCGCTAA
1 AGAACATGACCTTTAGCG-C-CTTTCCCACAAACACCGCTAA
30895783 AGAACATGACCTTTAGCG
1 AGAACATGACCTTTAGCG
30895801 GTGCTCTTCC
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
38 28 0.33
39 3 0.04
40 3 0.04
41 1 0.01
42 34 0.40
43 15 0.18
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.23
Consensus pattern (40 bp):
AGAACATGACCTTTAGCGCCTTTCCCACAAACACCGCTAA
Found at i:30903363 original size:3 final size:3
Alignment explanation
Indices: 30903355--30903404 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
30903345 TATCAAAATG
30903355 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30903403 AA
1 AA
30903405 ATTAGCTGAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:30905340 original size:41 final size:41
Alignment explanation
Indices: 30905283--30905624 Score: 398
Period size: 41 Copynumber: 8.3 Consensus size: 41
30905273 TATAGTGGCA
* * * *
30905283 TTTTTTAAGAAGCGCCGCTAATGCTCAGGCCGTTAGCAGCG
1 TTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCG
* * *
30905324 TTTTTGAAAAAGCGCCGCTAATGCTCTGGCCTTTAGTGGCG
1 TTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCG
* * * *
30905365 TTTTTGAAGAAGCGCTGCTAATGTTCTGGCCTTTAGCGACG
1 TTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCG
* * * * *
30905406 TTTTTTAAGCAGTGTCGCTAATGCTCTGGCCTTTAGCGGCG
1 TTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCG
* * * * *
30905447 TTTCTTCAA-AAACGCCGCTAGTGCTGGGGTCTTTAGCGGCG
1 TTT-TTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCG
* * *
30905488 TTTTTGAAGTAGCGCCACTAATGCTCGGGCCTTTAGCAGCG
1 TTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCG
* * *
30905529 TTTTTGAAGAATCGCCGCTACTGGTCGGGCCTTTAGCGGCG
1 TTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCG
* *
30905570 TTTTTGAGGAAGCGCTGCTAATGCTCGGGCCTTTAGCGGCG
1 TTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCG
*
30905611 TTTTTGTAGAAGCG
1 TTTTTGAAGAAGCG
30905625 TCGTTTTATC
Statistics
Matches: 251, Mismatches: 48, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
40 4 0.02
41 243 0.97
42 4 0.02
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (41 bp):
TTTTTGAAGAAGCGCCGCTAATGCTCGGGCCTTTAGCGGCG
Found at i:30905765 original size:26 final size:26
Alignment explanation
Indices: 30905717--30905767 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
30905707 AAAATGGATA
** * *
30905717 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
30905743 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
30905768 AATATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:30906031 original size:14 final size:15
Alignment explanation
Indices: 30905998--30906031 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
30905988 TAAGGTTTAT
30905998 AGATTATGGAATTAG
1 AGATTATGGAATTAG
30906013 AGATTATGG-ATTAG
1 AGATTATGGAATTAG
*
30906027 GGATT
1 AGATT
30906032 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (15 bp):
AGATTATGGAATTAG
Found at i:30906139 original size:14 final size:14
Alignment explanation
Indices: 30906113--30906153 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
30906103 AAGGTTTATT
30906113 GGTTTAGGGGTTTGG
1 GGTTTA-GGGTTTGG
30906128 GGTTTAGGGTTTGG
1 GGTTTAGGGTTTGG
*
30906142 GATTTAAGGGTT
1 GGTTT-AGGGTT
30906154 AGGAGTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.12, C:0.00, G:0.46, T:0.41
Consensus pattern (14 bp):
GGTTTAGGGTTTGG
Found at i:30906874 original size:16 final size:16
Alignment explanation
Indices: 30906853--30906884 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30906843 ACTTAGTAAT
30906853 TAAAAGATACAATTAA
1 TAAAAGATACAATTAA
30906869 TAAAAGATACAATTAA
1 TAAAAGATACAATTAA
30906885 GAAATAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (16 bp):
TAAAAGATACAATTAA
Found at i:30906900 original size:28 final size:29
Alignment explanation
Indices: 30906850--30906904 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
30906840 TATACTTAGT
*
30906850 AATTAAAAGATACAATTAATAAAAGATAC
1 AATTAAAAGATACAATAAATAAAAGATAC
30906879 AATTAAGAA-ATA-AATAAATAAAAGAT
1 AATTAA-AAGATACAATAAATAAAAGAT
30906905 GTGAGATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 13 0.54
29 9 0.38
30 2 0.08
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (29 bp):
AATTAAAAGATACAATAAATAAAAGATAC
Found at i:30907252 original size:24 final size:25
Alignment explanation
Indices: 30907220--30907277 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
30907210 CACTTAGCCG
* *
30907220 AAATTCCCCCC-AAATTTCTCCCCA
1 AAATCCCCCCCGAAATTTCCCCCCA
*
30907244 AAATCCCCCCCGAATTTTCCCCCCA
1 AAATCCCCCCCGAAATTTCCCCCCA
30907269 AAATCCCCC
1 AAATCCCCC
30907278 AATTCTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.28, C:0.50, G:0.02, T:0.21
Consensus pattern (25 bp):
AAATCCCCCCCGAAATTTCCCCCCA
Found at i:30907696 original size:12 final size:12
Alignment explanation
Indices: 30907679--30907704 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30907669 AGTTTGAAAC
30907679 TGTTCATAATTT
1 TGTTCATAATTT
30907691 TGTTCATAATTT
1 TGTTCATAATTT
30907703 TG
1 TG
30907705 ACTATCCTGT
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:0.23, C:0.08, G:0.12, T:0.58
Consensus pattern (12 bp):
TGTTCATAATTT
Found at i:30908675 original size:18 final size:18
Alignment explanation
Indices: 30908652--30908686 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
30908642 TCAGTGGAAG
30908652 ATTAGTTTAAAAGCAAAA
1 ATTAGTTTAAAAGCAAAA
30908670 ATTAGTTTAAAAGCAAA
1 ATTAGTTTAAAAGCAAA
30908687 CAAAGTTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.06, G:0.11, T:0.29
Consensus pattern (18 bp):
ATTAGTTTAAAAGCAAAA
Found at i:30908734 original size:22 final size:22
Alignment explanation
Indices: 30908709--30908750 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
30908699 CGCTGTTATT
30908709 ATATAATACATAACTTACATTA
1 ATATAATACATAACTTACATTA
*
30908731 ATATTATACATAACTTACAT
1 ATATAATACATAACTTACAT
30908751 AACTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATAATACATAACTTACATTA
Found at i:30909076 original size:25 final size:25
Alignment explanation
Indices: 30909047--30909117 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
30909037 TATTTTTAAT
* *
30909047 ATAATACATAACTTACTTAATTTTC
1 ATAATACATAACTTACATAATTTAC
* *
30909072 ATAATAAATAACTTACATAACTTAC
1 ATAATACATAACTTACATAATTTAC
30909097 ATAATACATAACTTACATAAT
1 ATAATACATAACTTACATAAT
30909118 ACACAACTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATACATAACTTACATAATTTAC
Found at i:30909104 original size:16 final size:16
Alignment explanation
Indices: 30909085--30909211 Score: 134
Period size: 16 Copynumber: 7.7 Consensus size: 16
30909075 ATAAATAACT
30909085 TACATAACTTACATAA
1 TACATAACTTACATAA
30909101 TACATAACTTACATAA
1 TACATAACTTACATAA
*
30909117 TACACAACTTACATAA
1 TACATAACTTACATAA
*
30909133 TTTTCATAA--TACATAA
1 --TACATAACTTACATAA
*
30909149 CTTACATAA-TATTCATAA
1 --TACATAACT-TACATAA
*
30909167 TAAATAACTTACATAA
1 TACATAACTTACATAA
30909183 TACATAACTTACATAA
1 TACATAACTTACATAA
30909199 CTTACATAACTTA
1 --TACATAACTTA
30909212 ATTATACTTA
Statistics
Matches: 95, Mismatches: 9, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
16 72 0.76
17 1 0.01
18 22 0.23
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:30909118 original size:41 final size:41
Alignment explanation
Indices: 30909071--30909211 Score: 187
Period size: 41 Copynumber: 3.4 Consensus size: 41
30909061 ACTTAATTTT
*
30909071 CATAATAAATAACTTACATAACTTACATAATACATAACTTA
1 CATAATACATAACTTACATAACTTACATAATACATAACTTA
* * *
30909112 CATAATACACAACTTACATAATTTTCATAATACATAACTTA
1 CATAATACATAACTTACATAACTTACATAATACATAACTTA
*
30909153 CATAATATTCATAA--TAAATAACTTACATAATACATAACTTA
1 CATAATA--CATAACTTACATAACTTACATAATACATAACTTA
30909194 CATAACTTACATAACTTA
1 CATAA--TACATAACTTA
30909212 ATTATACTTA
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
41 78 0.91
43 8 0.09
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (41 bp):
CATAATACATAACTTACATAACTTACATAATACATAACTTA
Found at i:30909126 original size:66 final size:66
Alignment explanation
Indices: 30909047--30909207 Score: 243
Period size: 66 Copynumber: 2.4 Consensus size: 66
30909037 TATTTTTAAT
* *
30909047 ATAATACATAACTTACTTAATTTTCATAATAAATAACTTACATAACT-TACATAATACATAACTT
1 ATAATACATAACTTACATAATTTTCATAATAAATAACTTACATAA-TATACATAATAAATAACTT
30909111 AC
65 AC
* * *
30909113 ATAATACACAACTTACATAATTTTCATAATACATAACTTACATAATATTCATAATAAATAACTTA
1 ATAATACATAACTTACATAATTTTCATAATAAATAACTTACATAATATACATAATAAATAACTTA
30909178 C
66 C
* *
30909179 ATAATACATAACTTACATAACTTACATAA
1 ATAATACATAACTTACATAATTTTCATAA
30909208 CTTAATTATA
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
65 1 0.01
66 85 0.99
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (66 bp):
ATAATACATAACTTACATAATTTTCATAATAAATAACTTACATAATATACATAATAAATAACTTA
C
Found at i:30909129 original size:25 final size:25
Alignment explanation
Indices: 30909085--30909207 Score: 109
Period size: 25 Copynumber: 5.0 Consensus size: 25
30909075 ATAAATAACT
30909085 TACATAACTTACATAA--TACATAA
1 TACATAACTTACATAACTTACATAA
*
30909108 CTTACATAA--TACACAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
*
30909133 TTTTCATAA--TACATAACTTACATAA
1 --TACATAACTTACATAACTTACATAA
*
30909158 TATTCATAA--TAAATAACTTACATAA
1 TA--CATAACTTACATAACTTACATAA
30909183 TACATAACTTACATAACTTACATAA
1 TACATAACTTACATAACTTACATAA
30909208 CTTAATTATA
Statistics
Matches: 85, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
23 12 0.14
25 73 0.86
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (25 bp):
TACATAACTTACATAACTTACATAA
Found at i:30914840 original size:19 final size:19
Alignment explanation
Indices: 30914816--30914852 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
30914806 GTAAATATTT
*
30914816 TTATCATTTTGACTTTTAA
1 TTATCATTTTAACTTTTAA
30914835 TTATCATTTTAACTTTTA
1 TTATCATTTTAACTTTTA
30914853 TCATTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.11, G:0.03, T:0.59
Consensus pattern (19 bp):
TTATCATTTTAACTTTTAA
Found at i:30915111 original size:45 final size:43
Alignment explanation
Indices: 30915050--30915259 Score: 224
Period size: 43 Copynumber: 4.8 Consensus size: 43
30915040 ACGTTTTTTA
* ** *
30915050 AAAAAGCGCCACTAAAGGTCATTGTCATTAGCGGCGTTTGTGG
1 AAAAAGCGCCGCTAAAGGTCAGGGTCTTTAGCGGCGTTTGTGG
* *
30915093 AAAAAAAGCGCCGCTAAAGGTCAGGGTCTTTAACGGCGCTTGTGG
1 --AAAAAGCGCCGCTAAAGGTCAGGGTCTTTAGCGGCGTTTGTGG
* ** * *
30915138 AAATAGCGTTGTTAAAGGTCAGGGTCTTTAGCGGCGATTGTAGG
1 AAAAAGCGCCGCTAAAGGTCAGGGTCTTTAGCGGCGTTTGT-GG
* * *
30915182 -AAAAGCGCCGCTAAAGATCAGGGTCTTTAGCAGCGTTTGTCG
1 AAAAAGCGCCGCTAAAGGTCAGGGTCTTTAGCGGCGTTTGTGG
* * * *
30915224 AACAAGCGCCACTAAAGGTCATGGTCTTTAGTGGCG
1 AAAAAGCGCCGCTAAAGGTCAGGGTCTTTAGCGGCG
30915260 CAATCCCAAA
Statistics
Matches: 137, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
42 1 0.01
43 97 0.71
44 2 0.01
45 37 0.27
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (43 bp):
AAAAAGCGCCGCTAAAGGTCAGGGTCTTTAGCGGCGTTTGTGG
Found at i:30926033 original size:17 final size:18
Alignment explanation
Indices: 30926000--30926038 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
30925990 TTTTTAACTT
30926000 TTTTTTAATATTCTTTAA
1 TTTTTTAATATTCTTTAA
30926018 TTTTTTAGA-ATT-TTTAA
1 TTTTTTA-ATATTCTTTAA
30926035 TTTT
1 TTTT
30926039 AAAAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 10 0.50
19 1 0.05
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTTAATATTCTTTAA
Found at i:30926100 original size:19 final size:19
Alignment explanation
Indices: 30926044--30926107 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 19
30926034 ATTTTAAAAA
*
30926044 AATTTTAAAATATAAATTTTGG
1 AATTTTAAAA-AT-TATTTT-G
*
30926066 AATTTTTATAAA-TATTTTG
1 AA-TTTTAAAAATTATTTTG
*
30926085 AATTTTAAAAATTATTTTA
1 AATTTTAAAAATTATTTTG
30926104 AATT
1 AATT
30926108 ATTTTGTAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
18 8 0.22
19 13 0.36
20 5 0.14
22 3 0.08
23 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
AATTTTAAAAATTATTTTG
Found at i:30926207 original size:18 final size:18
Alignment explanation
Indices: 30926184--30926222 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
30926174 ATACTAATTC
*
30926184 ATTATTTGAGTTATTCAA
1 ATTATTTGACTTATTCAA
*
30926202 ATTATTTGACTTATTCTA
1 ATTATTTGACTTATTCAA
30926220 ATT
1 ATT
30926223 GTAAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (18 bp):
ATTATTTGACTTATTCAA
Found at i:30929229 original size:40 final size:40
Alignment explanation
Indices: 30929154--30929472 Score: 347
Period size: 40 Copynumber: 8.0 Consensus size: 40
30929144 TATTATATAT
* * *
30929154 TGAAATGTATGCGCTTTCAAGCCTTACCTACTGAATCTAC
1 TGAAATGTATGCGCTTTCGAGCCATACCTATTGAATCTAC
* * *
30929194 TGAAATGTATGTGTTTTCGAGCCATACATATTGAATCTAC
1 TGAAATGTATGCGCTTTCGAGCCATACCTATTGAATCTAC
* * * *
30929234 TAAAATGTATGTGCTTTCGAGCCATACCTAATAAATCTAC
1 TGAAATGTATGCGCTTTCGAGCCATACCTATTGAATCTAC
* * *
30929274 AGAAATGTACGCGCTTTTGAGCCATACCTATTGAATCTAC
1 TGAAATGTATGCGCTTTCGAGCCATACCTATTGAATCTAC
* * * *
30929314 TGAAATGTATACGCTTTCTAGCCATACCTACTGAATCCA-
1 TGAAATGTATGCGCTTTCGAGCCATACCTATTGAATCTAC
* * * *
30929353 TCGAAATATATGCACTTTCGAGCCATACGTATTAAATCTAC
1 T-GAAATGTATGCGCTTTCGAGCCATACCTATTGAATCTAC
* * * *
30929394 CGAAATGTATGCGCTTTTGAGCCATACCTATCGATTCTAC
1 TGAAATGTATGCGCTTTCGAGCCATACCTATTGAATCTAC
* * *
30929434 TGAAA-GTATGCCCTATT-GAGCCATACCTACTGATTCTAC
1 TGAAATGTATGCGCT-TTCGAGCCATACCTATTGAATCTAC
30929473 AAAAAGCTGC
Statistics
Matches: 231, Mismatches: 45, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
39 29 0.13
40 202 0.87
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (40 bp):
TGAAATGTATGCGCTTTCGAGCCATACCTATTGAATCTAC
Found at i:30929371 original size:120 final size:120
Alignment explanation
Indices: 30929155--30929466 Score: 387
Period size: 120 Copynumber: 2.6 Consensus size: 120
30929145 ATTATATATT
** * * * *
30929155 GAAATGTATGCGCTTTCAAGCCTTACCTACTGAATCTACTGAAATGTATGTGTTTTCGAGCCATA
1 GAAATGTATGCGCTTTTGAGCCATACCTATTGAATCTACTGAAATGTATGCGCTTTCGAGCCATA
* * * * **
30929220 CATATTGAATCTACTAAAATGTATGTGCTTTCGAGCCATACCTAATAAATCTACA
66 CCTACTGAATCCACTAAAATATATGCACTTTCGAGCCATACCTAATAAATCTACA
* * *
30929275 GAAATGTACGCGCTTTTGAGCCATACCTATTGAATCTACTGAAATGTATACGCTTTCTAGCCATA
1 GAAATGTATGCGCTTTTGAGCCATACCTATTGAATCTACTGAAATGTATGCGCTTTCGAGCCATA
* * * *
30929340 CCTACTGAATCCA-TCGAAATATATGCACTTTCGAGCCATACGTATTAAATCTACC
66 CCTACTGAATCCACT-AAAATATATGCACTTTCGAGCCATACCTAATAAATCTACA
* * *
30929395 GAAATGTATGCGCTTTTGAGCCATACCTATCGATTCTACTGAAA-GTATGCCCTATT-GAGCCAT
1 GAAATGTATGCGCTTTTGAGCCATACCTATTGAATCTACTGAAATGTATGCGCT-TTCGAGCCAT
30929458 ACCTACTGA
65 ACCTACTGA
30929467 TTCTACAAAA
Statistics
Matches: 165, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
119 23 0.14
120 142 0.86
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (120 bp):
GAAATGTATGCGCTTTTGAGCCATACCTATTGAATCTACTGAAATGTATGCGCTTTCGAGCCATA
CCTACTGAATCCACTAAAATATATGCACTTTCGAGCCATACCTAATAAATCTACA
Found at i:30938485 original size:27 final size:27
Alignment explanation
Indices: 30938447--30938533 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
30938437 GAAAGTGTGG
*
30938447 TCGCCAATCTGTTTGGCAAGCTGGGGT
1 TCGCCAATCTGTTTGGCGAGCTGGGGT
* *
30938474 TCGCCAATCTGTTCGACGAGCTGGGGT
1 TCGCCAATCTGTTTGGCGAGCTGGGGT
* * * *
30938501 TCGCTAGTGTGTTTAGCGAGCTGGGGT
1 TCGCCAATCTGTTTGGCGAGCTGGGGT
30938528 TCGCCA
1 TCGCCA
30938534 GTTGAGTTGT
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.14, C:0.23, G:0.34, T:0.29
Consensus pattern (27 bp):
TCGCCAATCTGTTTGGCGAGCTGGGGT
Found at i:30938558 original size:25 final size:25
Alignment explanation
Indices: 30938524--30938576 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
30938514 TAGCGAGCTG
*
30938524 GGGTTCGCCAGTTGAGTTGTGAACT
1 GGGTTCGCCAGTTGAGTTGCGAACT
*
30938549 GGGTTTGCCAGTTGAGTTGCGAACT
1 GGGTTCGCCAGTTGAGTTGCGAACT
30938574 GGG
1 GGG
30938577 GGTTCGCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.15, C:0.15, G:0.40, T:0.30
Consensus pattern (25 bp):
GGGTTCGCCAGTTGAGTTGCGAACT
Found at i:30938714 original size:19 final size:18
Alignment explanation
Indices: 30938672--30938714 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
30938662 TTCTAAACTG
30938672 ACTAGGGTTCCTAAGTCT
1 ACTAGGGTTCCTAAGTCT
*
30938690 AGTAGGGTATCCTAAGATC-
1 ACTAGGGT-TCCTAAG-TCT
30938709 ACTAGG
1 ACTAGG
30938715 TCACTTAGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 7 0.33
19 12 0.57
20 2 0.10
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (18 bp):
ACTAGGGTTCCTAAGTCT
Found at i:30939492 original size:18 final size:18
Alignment explanation
Indices: 30939463--30939506 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
30939453 TATTTTTTGT
*
30939463 AACCCTTGTATG-ATTGCG
1 AACCCTTATATGCA-TGCG
*
30939481 ACCCCTTATATGCATGCG
1 AACCCTTATATGCATGCG
30939499 AACCCTTA
1 AACCCTTA
30939507 GGAGCGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (18 bp):
AACCCTTATATGCATGCG
Found at i:30939767 original size:68 final size:68
Alignment explanation
Indices: 30939672--30939884 Score: 282
Period size: 68 Copynumber: 3.1 Consensus size: 68
30939662 ATTCATGTTT
* * * * *
30939672 TTGTGTGAATTCATGCTTATTGTTGTTATGCGAACTCATGTGTTACTTCGATATGCGAACTTATG
1 TTGTGTGAATTCATGCTTATTGTTGTTATGAGAACTCATGTGTAACTTAGATATGCGAACCTACG
30939737 TTG
66 TTG
** ** * *
30939740 TTGTGCAAATTCATGCTTATTACTGTTATGTGAACTCATGTGTGACTTAGATATGCGAACCTACG
1 TTGTGTGAATTCATGCTTATTGTTGTTATGAGAACTCATGTGTAACTTAGATATGCGAACCTACG
30939805 TTG
66 TTG
* * * * *
30939808 TTGTGTGAATTCATGTTTATTGTTGTTATGAAAAATAATGTGAAACTTAGATATGCGAACCTACG
1 TTGTGTGAATTCATGCTTATTGTTGTTATGAGAACTCATGTGTAACTTAGATATGCGAACCTACG
30939873 TTG
66 TTG
30939876 TTGTGTGAA
1 TTGTGTGAA
30939885 CCTTAATAAT
Statistics
Matches: 125, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 125 1.00
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (68 bp):
TTGTGTGAATTCATGCTTATTGTTGTTATGAGAACTCATGTGTAACTTAGATATGCGAACCTACG
TTG
Found at i:30941531 original size:37 final size:37
Alignment explanation
Indices: 30941461--30941594 Score: 173
Period size: 37 Copynumber: 3.6 Consensus size: 37
30941451 AGTACCAAGA
* **
30941461 AATCCAACCGA-AACACGCC-GATCGCTTGTAAGAGCT
1 AATCCAACCGATAACACGCCAAAT-GCTCATAAGAGCT
* * *
30941497 AATCCATCCGATAAAATGCCAAATGCTCATAAGAGCT
1 AATCCAACCGATAACACGCCAAATGCTCATAAGAGCT
* *
30941534 AATCCACCCGATAACACGCCAATTGCTCATAAGAGCT
1 AATCCAACCGATAACACGCCAAATGCTCATAAGAGCT
30941571 AATCCAACCGATAACACGCCAAAT
1 AATCCAACCGATAACACGCCAAAT
30941595 CAGGGAGTAT
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
36 10 0.12
37 72 0.86
38 2 0.02
ACGTcount: A:0.38, C:0.30, G:0.14, T:0.18
Consensus pattern (37 bp):
AATCCAACCGATAACACGCCAAATGCTCATAAGAGCT
Found at i:30951502 original size:21 final size:21
Alignment explanation
Indices: 30951478--30951540 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
30951468 CATGCTTATA
30951478 ATGTTTGTGCCTCAATCGATC
1 ATGTTTGTGCCTCAATCGATC
* *
30951499 ATG-TT-T---TCAAT-TATA
1 ATGTTTGTGCCTCAATCGATC
30951514 ATGTTTGTGCCTCAATCGATC
1 ATGTTTGTGCCTCAATCGATC
30951535 ATGTTT
1 ATGTTT
30951541 TCAATTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 5 0.16
16 7 0.22
17 1 0.03
19 1 0.03
20 7 0.22
21 11 0.34
ACGTcount: A:0.22, C:0.17, G:0.16, T:0.44
Consensus pattern (21 bp):
ATGTTTGTGCCTCAATCGATC
Found at i:30951520 original size:36 final size:36
Alignment explanation
Indices: 30951473--30951547 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
30951463 TGATTCATGC
30951473 TTATAATGTTTGTGCCTCAATCGATCATGTTTTCAA
1 TTATAATGTTTGTGCCTCAATCGATCATGTTTTCAA
30951509 TTATAATGTTTGTGCCTCAATCGATCATGTTTTCAA
1 TTATAATGTTTGTGCCTCAATCGATCATGTTTTCAA
30951545 TTA
1 TTA
30951548 AAATCAAGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (36 bp):
TTATAATGTTTGTGCCTCAATCGATCATGTTTTCAA
Found at i:30952454 original size:45 final size:45
Alignment explanation
Indices: 30952361--30952465 Score: 113
Period size: 45 Copynumber: 2.3 Consensus size: 45
30952351 CCTAAACAGT
* * * * *
30952361 AATCAGTAATAGTAACAGTAACAGTATTCAACATAGACAGTGCTG
1 AATCGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
* * * *
30952406 AATCTGTACCAGTAACAGTAATAGTATTTAACACACAAAGTG-TCG
1 AATCGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCT-G
30952451 AATCGGTAACAGTAA
1 AATCGGTAACAGTAA
30952466 TAGTTGTCGG
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
44 1 0.02
45 48 0.98
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.25
Consensus pattern (45 bp):
AATCGGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
Found at i:30952768 original size:40 final size:40
Alignment explanation
Indices: 30952670--30952777 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 40
30952660 AATTCATTAC
* * * * *
30952670 TTCAATAATTTCACAGTTCAATGCAGTACACATAACAATA
1 TTCAGTAACTTCACAATTCAATTCAGTACACAAAACAATA
*
30952710 TTCAGTAACTTCACAATTCAATTCAGTACTCAAAAACAATA
1 TTCAGTAACTTCACAATTCAATTCAGTACAC-AAAACAATA
*
30952751 TTCAGT-A-TTCCATAATTCAATTCAGTA
1 TTCAGTAACTT-CACAATTCAATTCAGTA
30952778 TCAGTCTCAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.03
40 43 0.73
41 14 0.24
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.32
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATTCAGTACACAAAACAATA
Found at i:30953491 original size:16 final size:16
Alignment explanation
Indices: 30953458--30953515 Score: 71
Period size: 17 Copynumber: 3.5 Consensus size: 16
30953448 AAACCCTAAT
* *
30953458 TTTCCCTTTCTTCTTTC
1 TTTCCTTTTTTTC-TTC
30953475 TTTCCTTTTTTTCTTC
1 TTTCCTTTTTTTCTTC
30953491 TTTCCTTTTTTTTCTTC
1 TTTCC-TTTTTTTCTTC
*
30953508 TCTCCTTT
1 TTTCCTTT
30953516 CTCTGTTTCG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
16 11 0.30
17 26 0.70
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTCCTTTTTTTCTTC
Found at i:30953873 original size:17 final size:16
Alignment explanation
Indices: 30953842--30953885 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
30953832 GATTTATTTA
30953842 ATAATATAATATCATT
1 ATAATATAATATCATT
*
30953858 ATAATTTAATTATCATT
1 ATAATATAA-TATCATT
*
30953875 AATTATATAAT
1 -ATAATATAAT
30953886 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.35
17 8 0.35
18 7 0.30
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATATAATATCATT
Found at i:30959942 original size:39 final size:39
Alignment explanation
Indices: 30959897--30959993 Score: 104
Period size: 45 Copynumber: 2.3 Consensus size: 39
30959887 AAGTAACAGC
* * *
30959897 AACAGTAATAGTATTCAACACACAAAGTGTTGAATCTGT
1 AACAGTAATAGTATTCAACACACAAAGTGTAGAACCGGT
*
30959936 AACAGTAATGGTAACATTATTCAACACACAAAGTGTAGAACCGGT
1 AACAGTAA---T---AGTATTCAACACACAAAGTGTAGAACCGGT
30959981 AACAGTAATAGTA
1 AACAGTAATAGTA
30959994 GCCAGCATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
39 11 0.23
42 2 0.04
45 34 0.72
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.25
Consensus pattern (39 bp):
AACAGTAATAGTATTCAACACACAAAGTGTAGAACCGGT
Found at i:30968104 original size:17 final size:16
Alignment explanation
Indices: 30968079--30968114 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
30968069 CATAATTTAA
30968079 TTCACTTTAATTCAATT
1 TTCACTTTAATTC-ATT
*
30968096 TTCATTTTAATTCATT
1 TTCACTTTAATTCATT
30968112 TTC
1 TTC
30968115 CAATCAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.25, C:0.17, G:0.00, T:0.58
Consensus pattern (16 bp):
TTCACTTTAATTCATT
Found at i:30969117 original size:5 final size:5
Alignment explanation
Indices: 30969109--30969179 Score: 72
Period size: 5 Copynumber: 13.4 Consensus size: 5
30969099 TTATTTTACC
30969109 TAATA TAATA -ATATAA TAATA TAATA TAATA TAATA TAATA TAATTTA
1 TAATA TAATA TA-AT-A TAATA TAATA TAATA TAATA TAATA TAA--TA
* *
30969157 CAATA TAATA AAATAA TAATA TA
1 TAATA TAATA TAAT-A TAATA TA
30969180 CTTCAAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
4 1 0.02
5 43 0.77
6 7 0.12
7 5 0.09
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (5 bp):
TAATA
Found at i:30969122 original size:8 final size:8
Alignment explanation
Indices: 30969109--30969179 Score: 67
Period size: 8 Copynumber: 8.9 Consensus size: 8
30969099 TTATTTTACC
30969109 TAATATAA
1 TAATATAA
30969117 TAATATAA
1 TAATATAA
30969125 TAATATAA
1 TAATATAA
30969133 T-ATA-ATA
1 TAATATA-A
30969140 TAATATAA
1 TAATATAA
*
30969148 T-ATAATTTA
1 TAAT-A-TAA
*
30969157 CAATATAA
1 TAATATAA
*
30969165 TAAAATAA
1 TAATATAA
30969173 TAATATA
1 TAATATA
30969180 CTTCAAAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
6 1 0.02
7 7 0.14
8 37 0.73
9 4 0.08
10 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (8 bp):
TAATATAA
Found at i:30972530 original size:14 final size:14
Alignment explanation
Indices: 30972511--30972538 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30972501 TAAAGTTATA
30972511 TTAAATAATTCATT
1 TTAAATAATTCATT
30972525 TTAAATAATTCATT
1 TTAAATAATTCATT
30972539 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAATAATTCATT
Found at i:30973755 original size:21 final size:22
Alignment explanation
Indices: 30973726--30973766 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
30973716 AGTTTATTTA
30973726 TGTTATAATTGTTAC-AAAATTG
1 TGTTATAATT-TTACTAAAATTG
30973748 TGTT-TAATTTTACTAAAAT
1 TGTTATAATTTTACTAAAAT
30973767 GTATTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.49
Consensus pattern (22 bp):
TGTTATAATTTTACTAAAATTG
Found at i:30983560 original size:52 final size:50
Alignment explanation
Indices: 30983445--30983562 Score: 157
Period size: 50 Copynumber: 2.3 Consensus size: 50
30983435 TAATAAAGTT
*
30983445 ATGCATTATGTAACTTCCATGCTAGTTAAGTATGCATCATAAATAATGAC
1 ATGCATTATGTAACTCCCATGCTAGTTAAGTATGCATCATAAATAATGAC
* *
30983495 ATGCATTATGTAACTCCCATGCTAGTTTAAGTCTGCATCATTAAATTAA-GTC
1 ATGCATTATGTAACTCCCATGCTAG-TTAAGTATGCATCA-TAAA-TAATGAC
* *
30983547 TTGCATTAAGTAACTC
1 ATGCATTATGTAACTC
30983563 ATTTGTTCAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 24 0.40
51 13 0.22
52 20 0.33
53 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (50 bp):
ATGCATTATGTAACTCCCATGCTAGTTAAGTATGCATCATAAATAATGAC
Found at i:30985926 original size:12 final size:12
Alignment explanation
Indices: 30985906--30985949 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
30985896 AGTTTTAATA
*
30985906 AAATCGAAAAAG
1 AAATAGAAAAAG
30985918 AAATAGAAAAAG
1 AAATAGAAAAAG
**
30985930 AAAGGGAAAAAG
1 AAATAGAAAAAG
30985942 AAA-AGAAA
1 AAATAGAAA
30985950 TCAAAAAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
11 4 0.14
12 24 0.86
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (12 bp):
AAATAGAAAAAG
Found at i:30989362 original size:20 final size:19
Alignment explanation
Indices: 30989337--30989399 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
30989327 CTTGTATAGA
30989337 TTTGCACTTTGGTGCCTCTG
1 TTTGCACTTT-GTGCCTCTG
*
30989357 TTTGCACTTCAGTGCCTCTG
1 TTTGCACTT-TGTGCCTCTG
* *
30989377 ATCGCACATTTGTGCCTCTG
1 TTTGCAC-TTTGTGCCTCTG
30989397 TTT
1 TTT
30989400 CGCATATATG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 33 0.94
21 2 0.06
ACGTcount: A:0.10, C:0.27, G:0.21, T:0.43
Consensus pattern (19 bp):
TTTGCACTTTGTGCCTCTG
Found at i:30996216 original size:25 final size:25
Alignment explanation
Indices: 30996177--30996258 Score: 110
Period size: 25 Copynumber: 3.3 Consensus size: 25
30996167 GAGATTCATG
30996177 AACTCACGCCTACAAGCATCAACAT
1 AACTCACGCCTACAAGCATCAACAT
* * *
30996202 AGCTCACGCCCACAAGAATCAACAT
1 AACTCACGCCTACAAGCATCAACAT
* * *
30996227 AACGCACACCTACGAGCATCAACAT
1 AACTCACGCCTACAAGCATCAACAT
30996252 AACTCAC
1 AACTCAC
30996259 ACCTTAGAAG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.40, C:0.37, G:0.10, T:0.13
Consensus pattern (25 bp):
AACTCACGCCTACAAGCATCAACAT
Found at i:31014403 original size:12 final size:13
Alignment explanation
Indices: 31014382--31014414 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
31014372 AATGGACATG
31014382 TAAATAAAT-AAA
1 TAAATAAATAAAA
*
31014394 TAAATGAATAAAA
1 TAAATAAATAAAA
31014407 TAAATAAA
1 TAAATAAA
31014415 AGATACACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:31015539 original size:16 final size:17
Alignment explanation
Indices: 31015518--31015552 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
31015508 TCTTATGCAG
31015518 AAGATAAAATAAAA-AA
1 AAGATAAAATAAAATAA
31015534 AAGATAAAATAAAATAA
1 AAGATAAAATAAAATAA
31015551 AA
1 AA
31015553 CAAGCAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (17 bp):
AAGATAAAATAAAATAA
Found at i:31016538 original size:40 final size:41
Alignment explanation
Indices: 31016438--31017667 Score: 355
Period size: 44 Copynumber: 28.7 Consensus size: 41
31016428 CTTCTGTCTA
* * * *
31016438 CTCCACTACTGCTTAGGGAGATAGGA-TTGGTTTC-TTCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATTGCAATCTG
* * *
31016477 TCTGGTCCACTACTACCTAGGGAGATAAGACTTGA-TGCGATCTG
1 -C---TCCACTACTGCTTAGGGAGATAAGACTTGATTGCAATCTG
* * ** * * *
31016521 CTCCACTATTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAA-GACT-TGAT-TGCAATCTG
* * * * * ***
31016565 TTCCACTGCTGCTCAAGGAGATAGGA-TTGATT-TTGTCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATTGCAATCTG
*
31016604 CTCCACTACTACTTAGGGAGATAAGACTTGA-TGCAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATTGCAATCTG
* * * *
31016644 CTCTACTACTGCTTAGGGAGATAAGA-TTGGTTTCTTCTATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTT-G-AT-TGCAATCTG
* * ** * * *
31016687 CTTCACTACTGCTTAGGAAGATAAGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TGAT-TGCAATCTG
* * * * *
31016731 CTCCACTACTGCTCAAGGAGATAGGACTGGTGGCTT-AAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACT--T-GATTGCAATCTG
* * * * *
31016774 CTTCACTACTGCTTAGGAAGATAAGA-TTCACCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGA---T-TGCAATCTG
** ** *
31016818 CTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTG
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TGAT-TGCAATCTG
* ** * * *
31016862 CTCCACTACTGCTTAGGGAGATAGGACTACCATCTTCGACCTG
1 CTCCACTACTGCTTAGGGAGATAAGACT-TGAT-TGCAATCTG
* * *
31016905 CTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTT-AAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACT--T-GATTGCAATCTG
* * * * *
31016948 CTTCACTACTGCTTAGGAAGATAAGA-TTCGCCTTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTT-G--AT-TGCAATCTG
* ** *** *
31016992 CTCCACTACTGCTTAGAGAGATAAGATCTACCATCTTTGACCTG
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TGAT-TGCAATCTG
* ** * * *
31017036 CTCCACTACTGCTTAGGGAGATAGGACTACCATCTTCGACCTG
1 CTCCACTACTGCTTAGGGAGATAAGACT-TGAT-TGCAATCTG
* * * * *
31017079 CTCCACTACTGCTTAGGGAGATAGGGCTGGTGGCTT-AAATCTA
1 CTCCACTACTGCTTAGGGAGATAAGACT--T-GATTGCAATCTG
* * * * *
31017122 CTTCACTACTGCTTAGGAAGATAAGA-TTCACCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGA---T-TGCAATCTG
* *** *
31017166 CTCCGCTACTGCTTAGGGAGATAAGATCTACT-ATCTTTGACCTG
1 CTCCACTACTGCTTAGGGAGATAAGA-CT--TGAT-TGCAATCTG
* ** * * *
31017210 CTCCACTACTGCTTAGGGAGATAGGA-TCCATCTTCGACCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAT-TGCAATCTG
* * *
31017251 CTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTT-AAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACT--T-GATTGCAATCTG
* * * * * *
31017294 CTTCACTGCTGCTTAGGAAGATAAGA-TTCGCCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTT-G--AT-TGCAATCTG
* ** ** *
31017338 CTACACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTG
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TGAT-TGCAATCTG
* ** * *
31017382 CTCCACTACTGCTTAGGGAGATAGGACTACCATCTTCGA-CTTG
1 CTCCACTACTGCTTAGGGAGATAAGACT-TGAT-TGCAATC-TG
* * *
31017425 CTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTT-AAATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACT--T-GATTGCAATCTG
* * * * * *
31017468 TTTCACTACTGCTTAGGAAGATAAGA-TTCGCCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAAGACTT-G--AT-TGCAATCTG
* * ** ** *
31017512 CTCCACTACTGCTGAGGGAGATAAAATCTACCATCTTTAACCTG
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TGAT-TGCAATCTG
* *
31017556 CTCCACTACTGCTTAGGGAGATAGGACTTGATGTG--ATCTA
1 CTCCACTACTGCTTAGGGAGATAAGACTTGAT-TGCAATCTG
* * * *
31017596 CTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTTC-GTCTG
1 CTCCACTACTGCTTAGGGAGATAAGA-CT-TGA--TTGCAATCTG
31017640 CTCCACTACTGCTTAGGGAGATAAGACT
1 CTCCACTACTGCTTAGGGAGATAAGACT
31017668 GTAATCTTCA
Statistics
Matches: 911, Mismatches: 203, Indels: 149
0.72 0.16 0.12
Matches are distributed among these distances:
39 25 0.03
40 90 0.10
41 44 0.05
42 20 0.02
43 323 0.35
44 394 0.43
45 6 0.01
46 5 0.01
47 3 0.00
48 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (41 bp):
CTCCACTACTGCTTAGGGAGATAAGACTTGATTGCAATCTG
Found at i:31016631 original size:123 final size:127
Alignment explanation
Indices: 31016439--31016668 Score: 351
Period size: 123 Copynumber: 1.8 Consensus size: 127
31016429 TTCTGTCTAC
* * * *
31016439 TCCACTACTGCTTAGGGAGATAGGATTGGTTTCTTCTGTCTGGTCCACTACTACCTAGGGAGATA
1 TCCACTACTGCTCAAGGAGATAGGATTGGTATCTTCTGTCTGCTCCACTACTACCTAGGGAGATA
* *
31016504 AGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTAT
66 AGACTTGATGCAATCTGCTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTAT
* *
31016566 TCCACTGCTGCTCAAGGAGATAGGATT-G-AT-TT-TGTCTGCTCCACTACTACTTAGGGAGATA
1 TCCACTACTGCTCAAGGAGATAGGATTGGTATCTTCTGTCTGCTCCACTACTACCTAGGGAGATA
*
31016627 AGACTTGATGCAATCTGCTCTACTACTGCTTAGGGAGATAAG
66 AGACTTGATGCAATCTGCTCCACTACTGCTTAGGGAGATAAG
31016669 ATTGGTTTCT
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
123 66 0.70
124 2 0.02
125 1 0.01
126 1 0.01
127 24 0.26
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (127 bp):
TCCACTACTGCTCAAGGAGATAGGATTGGTATCTTCTGTCTGCTCCACTACTACCTAGGGAGATA
AGACTTGATGCAATCTGCTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTAT
Found at i:31016773 original size:87 final size:87
Alignment explanation
Indices: 31016516--31017534 Score: 897
Period size: 87 Copynumber: 11.8 Consensus size: 87
31016506 ACTTGATGCG
* * * * * ** * * *
31016516 ATCTGCTCCACTATTGCTTAGGGAGATAAGGTCTACAATCTTCAACCTATTCCACTGCTGCTCAA
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
* **
31016581 GGAGATAGGA-T--T-GATTTT
66 GGAGATAGGACTAGTGGCTTAA
* * * ** * * * *
31016599 GTCTGCTCCACTACTACTTAGGGAGATAAGA-CT-TGA--TGCAATCTGCTCTACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
* * * ** **
31016660 GGAGATAAGATTGGTTTCTTCT
66 GGAGATAGGACTAGTGGCTTAA
* * * * * *
31016682 ATCTGCTTCACTACTGCTTAGGAAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAA
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
*
31016747 GGAGATAGGACTGGTGGCTTAA
66 GGAGATAGGACTAGTGGCTTAA
* * *
31016769 ATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCACCGTCTTCGATCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCT-ACCATCTTCGACCTGCTCCACTACTGCTTA
* **** *
31016833 GGGAGATAAGATCTACCATCTTTA
65 GGGAGATAGGA-CTAGTGGCTTAA
* * *
31016857 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTACCATCTTCGACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
*
31016921 GGAGATAGGACTGGTGGCTTAA
66 GGAGATAGGACTAGTGGCTTAA
* * * *
31016943 ATCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCGCCTTCTTCGATCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCT-ACCATCTTCGACCTGCTCCACTACTGCTTA
* * **** **
31017007 GAGAGATAAGATCTACCATCTTTG
65 GGGAGATAGGA-CTAGTGGCTTAA
* * *
31017031 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTACCATCTTCGACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
* *
31017095 GGAGATAGGGCTGGTGGCTTAA
66 GGAGATAGGACTAGTGGCTTAA
* * * * *
31017117 ATCTACTTCACTACTGCTTAGGAAGATAAGAT-TCACCGTCTTCGATCTGCTCCGCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCT-ACCATCTTCGACCTGCTCCACTACTGCTTA
* * ** **
31017181 GGGAGATAAGATCTACTATCTTTG
65 GGGAGATAGGA-CTAGTGGCTTAA
* * *
31017205 ACCTGCTCCACTACTGCTTAGGGAGATAGGA--T-CCATCTTCGACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
31017267 GGAGATAGGACTAGTGGCTTAA
66 GGAGATAGGACTAGTGGCTTAA
* * * * * *
31017289 ATCTGCTTCACTGCTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGATCTGCTACACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCT-ACCATCTTCGACCTGCTCCACTACTGCTTA
* **** *
31017353 GGGAGATAAGATCTACCATCTTTA
65 GGGAGATAGGA-CTAGTGGCTTAA
* * * *
31017377 ACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTACCATCTTCGACTTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
*
31017441 GGAGATAGGACTGGTGGCTTAA
66 GGAGATAGGACTAGTGGCTTAA
* * * * * *
31017463 ATCTGTTTCACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGATCTGCTCCACTACTGCTGA
1 ATCTGCTCCACTACTGCTTAGGAAGATAAGATCT-ACCATCTTCGACCTGCTCCACTACTGCTTA
31017527 GGGAGATA
65 GGGAGATA
31017535 AAATCTACCA
Statistics
Matches: 744, Mismatches: 167, Indels: 46
0.78 0.17 0.05
Matches are distributed among these distances:
79 26 0.03
80 1 0.00
81 1 0.00
82 3 0.00
83 57 0.08
84 35 0.05
85 38 0.05
86 100 0.13
87 350 0.47
88 133 0.18
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (87 bp):
ATCTGCTCCACTACTGCTTAGGAAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAG
GGAGATAGGACTAGTGGCTTAA
Found at i:31016911 original size:174 final size:174
Alignment explanation
Indices: 31016639--31017583 Score: 1565
Period size: 174 Copynumber: 5.4 Consensus size: 174
31016629 ACTTGATGCA
* **** * *
31016639 ATCTGCTCTACTACTGCTTAGGGAGATAAGAT-TGGTTTCTTCT-ATCTGCTTCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTT-TAACCTGCTCCACTACTGCTTA
* * * * * * *
31016702 GGAAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAGGACTGGTGGCTT
65 GGGAGATAGGA-CTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTT
*
31016767 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCG
129 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
31016813 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAG
31016878 GGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
66 GGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
*
31016943 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCTTCTTCG
131 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
* *
31016987 ATCTGCTCCACTACTGCTTAGAGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAG
*
31017052 GGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGGCTGGTGGCTTAA
66 GGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
* *
31017117 ATCTACTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCG
131 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
* * *
31017161 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTACTATCTTTGACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAG
*
31017226 GGAGATAGGA-T-CCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAA
66 GGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
*
31017289 ATCTGCTTCACTGCTGCTTAGGAAGATAAGATTCGCCGTCTTCG
131 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
*
31017333 ATCTGCTACACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAG
*
31017398 GGAGATAGGACTACCATCTTCGACTTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
66 GGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
*
31017463 ATCTGTTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
131 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
* *
31017507 ATCTGCTCCACTACTGCTGAGGGAGATAAAATCTACCATCTTTAACCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAG
31017572 GGAGATAGGACT
66 GGAGATAGGACT
31017584 TGATGTGATC
Statistics
Matches: 726, Mismatches: 41, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
172 162 0.22
173 2 0.00
174 530 0.73
175 32 0.04
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (174 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAG
GGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCG
Found at i:31017291 original size:520 final size:521
Alignment explanation
Indices: 31016639--31017583 Score: 1626
Period size: 520 Copynumber: 1.8 Consensus size: 521
31016629 ACTTGATGCA
* ** * * *
31016639 ATCTGCTCTACTACTGCTTAGGGAGATAAGATTGGTTTCTTCTATCTGCTTCACTACTGCTTAGG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATTACTATCTTCTACCTGCTCCACTACTGCTTAGG
*
31016704 AAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAGGACTGGTGGCTTAA
66 AAGATAAGATC-ACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAGGACTAGTGGCTTAA
*
31016769 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
130 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTACACTACTGCTTAG
31016834 GGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCATCTTC
195 GGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCATCTTC
31016899 GACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAG
260 GACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAG
* * *
31016964 GAAGATAAGATTCGCCTTCTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTACCATCTT
325 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTGAGAGAGATAAAATCTACCATCTT
*
31017029 TGACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTA
390 TAACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTA
31017094 GGGAGATAGGGCTGGTGGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTT
455 GGGAGATAGGGCTGGTGGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTT
31017159 CG
520 CG
*
31017161 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTACTATCTT-TGACCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TACTATCTTCT-ACCTGCTCCACTACTGCTTA
* * * * * *
31017225 GGGAGATAGGATC-C-ATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTA
64 GGAAGATAAGATCACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAGGACTAGTGGCTTA
* *
31017288 AATCTGCTTCACTGCTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTACACTACTGCTTA
129 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTACACTACTGCTTA
31017353 GGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCATCTT
194 GGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCATCTT
* *
31017418 CGACTTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGTTTCACTACTGCTTA
259 CGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTA
*
31017483 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTGAGGGAGATAAAATCTACCATCT
324 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTGAGAGAGATAAAATCTACCATCT
31017548 TTAACCTGCTCCACTACTGCTTAGGGAGATAGGACT
389 TTAACCTGCTCCACTACTGCTTAGGGAGATAGGACT
31017584 TGATGTGATC
Statistics
Matches: 397, Mismatches: 24, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
520 330 0.83
521 1 0.00
522 31 0.08
523 35 0.09
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (521 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATTACTATCTTCTACCTGCTCCACTACTGCTTAGG
AAGATAAGATCACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAGGACTAGTGGCTTAAA
TCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTACACTACTGCTTAGG
GAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCATCTTCG
ACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGG
AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTGAGAGAGATAAAATCTACCATCTTT
AACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAG
GGAGATAGGGCTGGTGGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTC
G
Found at i:31017656 original size:346 final size:345
Alignment explanation
Indices: 31016639--31017618 Score: 1563
Period size: 346 Copynumber: 2.8 Consensus size: 345
31016629 ACTTGATGCA
**** * *
31016639 ATCTGCTCTACTACTGCTTAGGGAGATAAGAT-TGGTTTCTTCTATCTGCTTCACTACTGCTTAG
1 ATCTGCTC-ACTACTGCTTAGGGAGATAAGATCTACCATCTT-TACCTGCTCCACTACTGCTTAG
* * * * * * *
31016703 GAAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAGGACTGGTGGCTTA
64 GGAGATAGGA-CTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
31016768 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTA
128 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTA
31016833 GGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAGGGAGATAGGACTACCATCTT
193 GGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAGGGAGATAGGACT-CCATCTT
*
31016898 CGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTA
257 CGACCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTA
*
31016963 GGAAGATAAGATTCGCCTTCTTCG
322 GGAAGATAAGATTCGCCGTCTTCG
*
31016987 ATCTGCTCCACTACTGCTTAGAGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAG
1 ATCTGCT-CACTACTGCTTAGGGAGATAAGATCTACCATCTTT-ACCTGCTCCACTACTGCTTAG
*
31017052 GGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGGCTGGTGGCTTAA
64 GGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
* *
31017117 ATCTACTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCGCTACTGCTTAG
129 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
* *
31017182 GGAGATAAGATCTACTATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGA-TCCATCTTCG
194 GGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAGGGAGATAGGACTCCATCTTCG
*
31017246 ACCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTGCTGCTTAGG
259 ACCTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGG
31017311 AAGATAAGATTCGCCGTCTTCG
324 AAGATAAGATTCGCCGTCTTCG
31017333 ATCTGCTACACTACTGCTTAGGGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAG
1 ATCTGCT-CACTACTGCTTAGGGAGATAAGATCTACCATCTTT-ACCTGCTCCACTACTGCTTAG
*
31017398 GGAGATAGGACTACCATCTTCGACTTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
64 GGAGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAA
* * *
31017463 ATCTGTTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTGAG
129 ATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAG
* ** *
31017528 GGAGATAAAATCTACCATCTTTAACCTGCTCCACTACTGCTTAGGGAGATAGGACTTGAT-GT-G
194 GGAGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAGGGAGATAGGACTCCATCTTCG
* * *
31017591 ATCTACTCTACTACTGCTTAGGGAGATA
259 ACCTGCTCCACTACTGCTTAGGGAGATA
31017619 AGATCTGTAA
Statistics
Matches: 587, Mismatches: 41, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
345 26 0.04
346 330 0.56
347 4 0.01
348 194 0.33
349 33 0.06
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.30
Consensus pattern (345 bp):
ATCTGCTCACTACTGCTTAGGGAGATAAGATCTACCATCTTTACCTGCTCCACTACTGCTTAGGG
AGATAGGACTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAAT
CTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGG
AGATAAGATCTACCATCTTTAACCTGCTCCACTACTGCTTAGGGAGATAGGACTCCATCTTCGAC
CTGCTCCACTACTGCTTAGGGAGATAGGACTAGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
GATAAGATTCGCCGTCTTCG
Found at i:31018886 original size:7 final size:7
Alignment explanation
Indices: 31018876--31018908 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
31018866 CACTTTTACT
31018876 TTTTTCA
1 TTTTTCA
31018883 TTTTTCA
1 TTTTTCA
*
31018890 TTTTTTA
1 TTTTTCA
31018897 TTTTTCA
1 TTTTTCA
31018904 TTTTT
1 TTTTT
31018909 TTTCTTACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTTCA
Found at i:31018909 original size:14 final size:15
Alignment explanation
Indices: 31018875--31018909 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
31018865 CCACTTTTAC
31018875 TTTTTTCATTTTTCA
1 TTTTTTCATTTTTCA
31018890 TTTTTT-ATTTTTCA
1 TTTTTTCATTTTTCA
31018904 TTTTTT
1 TTTTTT
31018910 TTCTTACTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTCATTTTTCA
Found at i:31019911 original size:23 final size:26
Alignment explanation
Indices: 31019885--31019941 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 26
31019875 TTCTTTCTTC
31019885 TTTTTGTTTTTTT-TTT-ATTTTGAT
1 TTTTTGTTTTTTTATTTGATTTTGAT
31019909 TTTTTGATATTTTTTACTTTGATTTTGAT
1 TTTTTG-T-TTTTTTA-TTTGATTTTGAT
31019938 TTTT
1 TTTT
31019942 CTTTTTCTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
24 6 0.21
25 1 0.04
26 6 0.21
28 3 0.11
29 12 0.43
ACGTcount: A:0.12, C:0.02, G:0.09, T:0.77
Consensus pattern (26 bp):
TTTTTGTTTTTTTATTTGATTTTGAT
Found at i:31019946 original size:23 final size:23
Alignment explanation
Indices: 31019885--31019961 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
31019875 TTCTTTCTTC
* *
31019885 TTTTTGTTTTTTTTTTATTTTGA
1 TTTTTGATTTTTTTTTACTTTGA
*
31019908 TTTTTTGA-TATTTTTTACTTTGA
1 -TTTTTGATTTTTTTTTACTTTGA
* **
31019931 -TTTTGATTTTTCTTTTTCTTCCA
1 TTTTTGATTTTT-TTTTACTTTGA
31019954 TTTTTGAT
1 TTTTTGAT
31019962 CTGAGCCTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
21 6 0.14
22 3 0.07
23 21 0.49
24 13 0.30
ACGTcount: A:0.12, C:0.06, G:0.08, T:0.74
Consensus pattern (23 bp):
TTTTTGATTTTTTTTTACTTTGA
Found at i:31025162 original size:14 final size:14
Alignment explanation
Indices: 31025143--31025172 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31025133 TTTCTTATGC
*
31025143 AAAAGATAAAATAA
1 AAAAGATAAAAGAA
31025157 AAAAGATAAAAGAA
1 AAAAGATAAAAGAA
31025171 AA
1 AA
31025173 GAAAACAAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (14 bp):
AAAAGATAAAAGAA
Found at i:31029977 original size:19 final size:19
Alignment explanation
Indices: 31029950--31029988 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
31029940 CTCTGTTTTA
31029950 CCCTCTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
*
31029969 CCCTTTGCCTCTTCTGTTC
1 CCCTCTGCCTCTTCTGTTC
31029988 C
1 C
31029989 TCCCTTCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.00, C:0.46, G:0.10, T:0.44
Consensus pattern (19 bp):
CCCTCTGCCTCTTCTGTTC
Found at i:31033784 original size:91 final size:91
Alignment explanation
Indices: 31033637--31033844 Score: 328
Period size: 91 Copynumber: 2.3 Consensus size: 91
31033627 TTGATTTTAG
* *
31033637 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
31033702 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
31033729 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATGATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
31033794 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
*
31033820 CAAAGTT-ATATAAGAAAATTTATTA
1 TAAA-TTCATATAAGAAAATTTATTA
31033845 GTTATAATTA
Statistics
Matches: 108, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
91 90 0.83
92 18 0.17
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:31033819 original size:44 final size:44
Alignment explanation
Indices: 31033677--31033819 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 44
31033667 GAATTTTATG
* * *
31033677 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATAATTATTAAATTATATATAATAATAATTATTTT
* ** * * * *
31033721 AAATTGTATA-AATTCATATAAGAAAATTTATTATCAAGAATT-TTATG
1 AAATTATATATAATT-AT-TAA-ATTATATATAAT-AATAATTATT-TT
* *
31033768 AAATTATATATGATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATAATTATTAAATTATATATAATAATAATTATTTT
31033812 AAATTATA
1 AAATTATA
31033820 CAAAGTTATA
Statistics
Matches: 73, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
43 3 0.04
44 26 0.36
45 12 0.16
46 12 0.16
47 17 0.23
48 3 0.04
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (44 bp):
AAATTATATATAATTATTAAATTATATATAATAATAATTATTTT
Found at i:31033883 original size:17 final size:17
Alignment explanation
Indices: 31033861--31033898 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
31033851 ATTATTTTAA
*
31033861 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAA-AATAT
31033878 ATTTTAATTAAAAATAT
1 ATTTTAATTAAAAATAT
31033895 ATTT
1 ATTT
31033899 AATATTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTTAATTAAAAATAT
Found at i:31034120 original size:61 final size:61
Alignment explanation
Indices: 31034054--31034241 Score: 201
Period size: 61 Copynumber: 3.1 Consensus size: 61
31034044 TTATAGTATC
31034054 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * *
31034115 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-AATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
31034173 C
61 T
*
31034174 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
31034235 ATATATT
1 ATATATT
31034242 TTAATTATAA
Statistics
Matches: 98, Mismatches: 17, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 19 0.19
60 16 0.16
61 26 0.27
62 7 0.07
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:31034141 original size:15 final size:15
Alignment explanation
Indices: 31034106--31034157 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
31034096 TTAAGAATTT
*
31034106 TATTAAATTAT-ATA
1 TATTTAATTATAATA
31034120 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
31034134 TATTTAATAATAAT-
1 TATTTAATTATAATA
31034148 TATGTTAATT
1 TAT-TTAATT
31034158 TAAATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:31034261 original size:15 final size:15
Alignment explanation
Indices: 31034231--31034276 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
31034221 AATTTTATTA
31034231 AATTAT-ATAT-TTT
1 AATTATAATATGTTT
31034244 AATTATAATATGTTT
1 AATTATAATATGTTT
*
31034259 AATAATAATTATGTTT
1 AATTATAA-TATGTTT
31034275 AA
1 AA
31034277 ATATGATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 6 0.21
14 4 0.14
15 10 0.34
16 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (15 bp):
AATTATAATATGTTT
Found at i:31034271 original size:120 final size:120
Alignment explanation
Indices: 31033860--31034278 Score: 705
Period size: 120 Copynumber: 3.5 Consensus size: 120
31033850 AATTATTTTA
* *
31033860 AATTTTATTAAATCATATATTTTAATTAAAAATATATTTAATATTAATTAT-TTCAAATTATCTT
1 AATTTTATTAAATTATATATTTTAATT-AAAATATATTTAATAATAATTATGTT-AAATTATCTT
31033924 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
31033981 AATTTTATTAAATTATTTATTTTAATTAAAATATATTTAATAATAATTATATTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
31034046 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * **
31034101 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTAAATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
*
31034166 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
31034221 AATTTTATTAAATTATATATTTTAATTATAATATGTTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
31034279 ATGATTAAAT
Statistics
Matches: 284, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
120 252 0.89
121 32 0.11
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:31034511 original size:16 final size:16
Alignment explanation
Indices: 31034490--31034543 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
31034480 TTGATTTGCT
*
31034490 ATTACACTTCTATTCC
1 ATTACACCTCTATTCC
31034506 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
31034522 ATTACATCTCTAATCC
1 ATTACACCTCTATTCC
*
31034538 AATACA
1 ATTACA
31034544 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:31037913 original size:101 final size:101
Alignment explanation
Indices: 31037793--31037977 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 101
31037783 AAAGTGATGG
*
31037793 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAAT-G-ATGGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGGAAT-GGTCACATGTGTAGT
31037856 ACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
64 ACTATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
*
31037894 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGCTGGAAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGG-AATGGTCACATGTGTAGTA
31037959 CTATGTGCAGGCTACTATG
65 CTATGTGCAGGCTACTATG
31037978 TGAACCGGGT
Statistics
Matches: 79, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
100 1 0.01
101 42 0.53
102 34 0.43
103 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAATGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCAAATAGCTTCGA
Done.