Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 89 of 313
Found at i:29685375 original size:35 final size:35
Alignment explanation
Indices: 29685329--29685400 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
29685319 AGAATTTTTA
29685329 ATAAAAAGGACTAATTGTTATTTGATCTAACATAT
1 ATAAAAAGGACTAATTGTTATTTGATCTAACATAT
*
29685364 ATAAAAAGGACTAATTGTTATTTGATTTAACATAT
1 ATAAAAAGGACTAATTGTTATTTGATCTAACATAT
29685399 AT
1 AT
29685401 GAATTAGTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (35 bp):
ATAAAAAGGACTAATTGTTATTTGATCTAACATAT
Found at i:29692062 original size:34 final size:33
Alignment explanation
Indices: 29692007--29692097 Score: 110
Period size: 34 Copynumber: 2.7 Consensus size: 33
29691997 GTATGCATTT
* *
29692007 CTGATATTGTACTGAAATGGGCTAAGGCCCACA
1 CTGATACTGTACTGAAATGGGCTAAGACCCACA
* *
29692040 CTGATACTGTTACTGTATTGGGCTAAGACCCACA
1 CTGATACTG-TACTGAAATGGGCTAAGACCCACA
* *
29692074 CTGATATTGCGACTGAAATGGGCT
1 CTGATACTG-TACTGAAATGGGCT
29692098 TAGGCCCAGA
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
33 8 0.17
34 40 0.83
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (33 bp):
CTGATACTGTACTGAAATGGGCTAAGACCCACA
Found at i:29715016 original size:18 final size:17
Alignment explanation
Indices: 29714990--29715026 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
29714980 CCCATGTTGT
*
29714990 AAAACTAAAAAAATATAA
1 AAAAATAAAAAAATA-AA
29715008 AAAAATAAAAAAATAAA
1 AAAAATAAAAAAATAAA
29715025 AA
1 AA
29715027 TTACACTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAAATAAAAAAATAAA
Found at i:29715017 original size:7 final size:8
Alignment explanation
Indices: 29714997--29715026 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
29714987 TGTAAAACTA
29714997 AAAAAATAT
1 AAAAAA-AT
29715006 AAAAAAAT
1 AAAAAAAT
29715014 AAAAAAAT
1 AAAAAAAT
29715022 AAAAA
1 AAAAA
29715027 TTACACTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 15 0.71
9 6 0.29
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:29720210 original size:44 final size:44
Alignment explanation
Indices: 29719018--29720194 Score: 2041
Period size: 44 Copynumber: 26.8 Consensus size: 44
29719008 CGTTATCCTC
* **
29719018 GATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG-CTATCTCC
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTC-ATCTTT
* ** * ** * *
29719062 GATCTGATCTCTAACAATATAGAGACGCCAAACCTGTTATCTTC
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
* *
29719106 GATCTGCTCTCTGTCAATACAGAAACGCCAAATCTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
* * * * *
29719150 GATCTGTTCTCTGACAATACAGAGACGCCAAATCTGTCATCATC
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
* * * *
29719194 GATCTGCTCTCTGACAATACAGATACGCCAAATCTGTCATCTTC
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
* * *
29719238 GATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATATTC
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719282 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719326 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719370 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719414 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719458 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719502 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719546 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719590 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719634 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719678 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719722 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719766 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719810 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719854 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719898 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719942 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29719986 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
29720030 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
* * *
29720074 GATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATATTC
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
* * *
29720118 GATCTGCTCTCTGTCAATACAGAGACGCCAAATCTATCATCTTC
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
* *
29720162 GATCTGCTCCCTGACAATACAGAGACGCCAAAT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAAT
29720195 CTGCTATTGG
Statistics
Matches: 1096, Mismatches: 36, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
44 1096 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (44 bp):
GATCTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCTTT
Found at i:29732151 original size:27 final size:29
Alignment explanation
Indices: 29732090--29732151 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 29
29732080 AAAATAATAA
*
29732090 AAATATATTATATGATATAATAGCTTAAT
1 AAATATATTATATGAAATAATAGCTTAAT
* *
29732119 ATATAT-TTATAT-AAATAATA-CTATATT
1 AAATATATTATATGAAATAATAGCT-TAAT
29732146 AAATAT
1 AAATAT
29732152 GTATGAAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 2 0.07
27 15 0.54
28 6 0.21
29 5 0.18
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATATATTATATGAAATAATAGCTTAAT
Found at i:29732313 original size:33 final size:33
Alignment explanation
Indices: 29732246--29732406 Score: 98
Period size: 33 Copynumber: 4.7 Consensus size: 33
29732236 TGCAAATTTT
* *
29732246 TAAAATTATACATAATAATAA-ATATTGAAGTAATA
1 TAAAA-TATA-ATAAAAATAATATAATGAA-TAATA
29732281 TAAAATATAATAAAAATAATATAATGAATAATA
1 TAAAATATAATAAAAATAATATAATGAATAATA
* * * *
29732314 TATATATATAGT-AAAATGATATAAT--ATATTA
1 TA-AAATATAATAAAAATAATATAATGAATAATA
* * *
29732345 TAAAATATACAAATAAAATGTATAATAATGTAAATGATA
1 TAAAATATA-ATA-AAAAT-AAT-ATAATG--AATAATA
*
29732384 TGATAA-ATAATAAAAATAATATA
1 T-AAAATATAATAAAAATAATATA
29732407 TATACTATTT
Statistics
Matches: 99, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
30 6 0.06
31 7 0.07
33 33 0.33
34 20 0.20
35 13 0.13
36 2 0.02
37 5 0.05
38 2 0.02
39 8 0.08
40 3 0.03
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.34
Consensus pattern (33 bp):
TAAAATATAATAAAAATAATATAATGAATAATA
Found at i:29732320 original size:18 final size:18
Alignment explanation
Indices: 29732257--29732321 Score: 50
Period size: 18 Copynumber: 3.8 Consensus size: 18
29732247 AAAATTATAC
* *
29732257 ATAATA-ATAAATATTGA
1 ATAATATATATATAATGA
*
29732274 AGTAATATAAAATATAAT-A
1 A-TAATAT-ATATATAATGA
29732293 A-AA-ATA-ATATAATGA
1 ATAATATATATATAATGA
29732308 ATAATATATATATA
1 ATAATATATATATA
29732322 TAGTAAAATG
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
14 7 0.18
15 3 0.08
16 4 0.11
17 6 0.16
18 10 0.26
19 2 0.05
20 6 0.16
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
ATAATATATATATAATGA
Found at i:29732348 original size:20 final size:21
Alignment explanation
Indices: 29732311--29732350 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
29732301 ATAATGAATA
29732311 ATATATATATATAGTAAAATG
1 ATATATATATATAGTAAAATG
29732332 ATATA-ATATATTA-TAAAAT
1 ATATATATATA-TAGTAAAAT
29732351 ATACAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
ATATATATATATAGTAAAATG
Found at i:29746549 original size:6 final size:6
Alignment explanation
Indices: 29746540--29746567 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
29746530 GTAGTACCAT
29746540 TATTAG TATTAG TATTAG TATTAG TATT
1 TATTAG TATTAG TATTAG TATTAG TATT
29746568 GCCTCCACTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (6 bp):
TATTAG
Found at i:29750949 original size:30 final size:32
Alignment explanation
Indices: 29750889--29750951 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 32
29750879 CACTTATTTT
29750889 CACCTATGCCGAATGCATACACATAAATATATC
1 CACCTATGCCGAATGCA-ACACATAAATATATC
* *
29750922 CACCTATGCCGAATGCAACATATATATATA
1 CACCTATGCCGAATGCAACACATAAATATA
29750952 CATATCTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 11 0.39
33 17 0.61
ACGTcount: A:0.40, C:0.25, G:0.10, T:0.25
Consensus pattern (32 bp):
CACCTATGCCGAATGCAACACATAAATATATC
Found at i:29751210 original size:41 final size:41
Alignment explanation
Indices: 29751165--29751320 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
29751155 ACCGGCTCTT
*
29751165 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
29751206 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
29751247 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
29751288 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
29751321 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:29753349 original size:6 final size:6
Alignment explanation
Indices: 29753329--29753361 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
29753319 TCTATATTAT
29753329 AAATAA AAA-ATA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATA-A AAATAA AAATAA AAATAA AAA
29753362 AGAGGTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 1 0.04
6 23 0.92
7 1 0.04
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:29754451 original size:30 final size:30
Alignment explanation
Indices: 29754391--29754452 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
29754381 AAATTAACTA
* *
29754391 TATAAAAACAATTTAAAAATAAATTGTATG
1 TATAAAAACAATTTAAAAATAAAATATATG
29754421 TATAAAAA-AATTT-AAAATAAGTAATATATG
1 TATAAAAACAATTTAAAAATAA--AATATATG
29754451 TA
1 TA
29754453 AAAGTTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 7 0.25
29 5 0.18
30 16 0.57
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (30 bp):
TATAAAAACAATTTAAAAATAAAATATATG
Found at i:29754784 original size:13 final size:13
Alignment explanation
Indices: 29754758--29754792 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
29754748 AAAACAATTC
29754758 AAAACTATACAAAA
1 AAAACTA-ACAAAA
*
29754772 GAAACTAACAAAA
1 AAAACTAACAAAA
29754785 AAAACTAA
1 AAAACTAA
29754793 AACAATGTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.71, C:0.14, G:0.03, T:0.11
Consensus pattern (13 bp):
AAAACTAACAAAA
Found at i:29756263 original size:44 final size:43
Alignment explanation
Indices: 29756131--29756355 Score: 141
Period size: 45 Copynumber: 5.0 Consensus size: 43
29756121 GAGACTAGCC
* * *
29756131 TTGTAGCTTTTAATCTGCTTTACTGCAATTTCAGGGAGATAAGGT
1 TTGTAGC-TTTAATCTGCTTCACTGCAACTTCAGGGAGATAA-GA
** * * * **
29756176 TTGTATATTTTTATCCTG-TTCTACTACAACTTTAAAGAGATAAGGA
1 TTGTA-GCTTTAAT-CTGCTTC-ACTGCAACTTCAGGGAGATAA-GA
*
29756222 TTGTAGCTTTGATCTGCTTCACTGCAACTTCAGGGAGATAAGA
1 TTGTAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGA
* * * * *
29756265 TCTGATATCTTCAACCTG-TACCTCTGCAACTTCAGGGAGATAAGA
1 T-TG-TAGCTTTAATCTGCT-TCACTGCAACTTCAGGGAGATAAGA
* * * * *
29756310 CTTGTAGCTTAAATCTGC-TCTATTGCTACCTCATGGAGATAAGA
1 -TTGTAGCTTTAATCTGCTTC-ACTGCAACTTCAGGGAGATAAGA
29756354 TT
1 TT
29756356 CGCCATCTTC
Statistics
Matches: 138, Mismatches: 32, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
43 6 0.04
44 51 0.37
45 54 0.39
46 27 0.20
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (43 bp):
TTGTAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGA
Found at i:29756326 original size:89 final size:91
Alignment explanation
Indices: 29756130--29756354 Score: 226
Period size: 89 Copynumber: 2.5 Consensus size: 91
29756120 AGAGACTAGC
* * * * * * *
29756130 CTTGTAGCTTTTAATCTGCTTTACTGCAATTTCAGGGAGATAAGGTTTGTATATTTTTATCCTGT
1 CTTGTAGC-TTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTGTATATCTTCAACCTGT
* *
29756195 TCTACTACAACTTTAAAGAGATAAGGA
65 CCTACTACAACTTCAAAGAGATAAGGA
*
29756222 -TTGTAGCTTTGATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTG-ATATCTTCAACCTGTA
1 CTTGTAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTGTATATCTTCAACCTGT-
* **
29756285 CCT-CTGCAACTTCAGGGAGATAA-GA
65 CCTACTACAACTTCAAAGAGATAAGGA
* * * * *
29756310 CTTGTAGCTTAAATCTGC-TCTATTGCTACCTCATGGAGATAAGAT
1 CTTGTAGCTTTAATCTGCTTC-ACTGCAACTTCAGGGAGATAAGAT
29756355 TCGCCATCTT
Statistics
Matches: 111, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
88 4 0.04
89 63 0.57
90 37 0.33
91 7 0.06
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.36
Consensus pattern (91 bp):
CTTGTAGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAAGATCTGTATATCTTCAACCTGTC
CTACTACAACTTCAAAGAGATAAGGA
Found at i:29756584 original size:44 final size:44
Alignment explanation
Indices: 29756534--29756827 Score: 175
Period size: 44 Copynumber: 6.6 Consensus size: 44
29756524 ATAAGATCCT
*
29756534 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATGAGACTA
1 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
* * * *
29756578 CAATCTTCAG-CTTGTTTCCTTGCTACCTCAGGGAGATAAGGCTA
1 CAATCTTCAGTC-TGCTCCCTTGCTACCTCAGGAAGATAAGACTA
**** ** * * * ** ** *
29756622 GTGGCTAAAATCTGCTCCCCTACTATTTTGGGAAGATAAGATTCA
1 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACT-A
** * * * *
29756667 CCGTTTTCTA-TCTGC-CCCACTGCTATCTCGAGG-AGACAAGATCTA
1 CAATCTTC-AGTCTGCTCCC-TTGCTACCTC-AGGAAGATAAGA-CTA
* * * *
29756712 CAATATTCGGTCTGCTCCCTTTCTACCTCAGGAAGATAAGACAA
1 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
* * * * *
29756756 CAATCTTTAGTTTCCTCCCTTGCTACCTTAAGAAGATAAGACTA
1 CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
*
29756800 CAATCATT-AGCCTGCTCCCTTGCTACCT
1 CAATC-TTCAGTCTGCTCCCTTGCTACCT
29756828 TAGGGAGAGA
Statistics
Matches: 183, Mismatches: 56, Indels: 22
0.70 0.21 0.08
Matches are distributed among these distances:
43 1 0.01
44 125 0.68
45 50 0.27
46 7 0.04
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (44 bp):
CAATCTTCAGTCTGCTCCCTTGCTACCTCAGGAAGATAAGACTA
Found at i:29756780 original size:178 final size:176
Alignment explanation
Indices: 29756377--29756799 Score: 424
Period size: 178 Copynumber: 2.4 Consensus size: 176
29756367 ATCTGATTCA
* * * * * * * *
29756377 TTGCTACCTCATGG-AGATAAGACCTACGATCTTTAGCCTACTCCATTGCT-GCTTAGGGAGATA
1 TTGCTACCTCA-GGAAGATAAGA-CAACAATCTTCAGCTTCCTCCCTTGCTACCTCAGGGAGATA
* * * *
29756440 AGACTAGTGGCTTAAATCTGCTCCCTTGCTACCTTAGGGAGATAAGATTCGCCGTCTTCGATCTG
64 AGACTAGTGGCTAAAATCTGCTCCCCTACTACCTTAGGGAGATAAGATTCACCGTCTTCGATCTG
** * * *
29756505 TTCCCTATTACTAAGGGAGATAAGATCCTCAATCTTCAGTCTGCTCCC
129 CCCCCTACTACTAAGGGAGACAAGATCCTCAATATTCAGTCTGCTCCC
* * ** *
29756553 TTGCTACCTCAGGAAGATGAGACTACAATCTTCAGCTTGTTTCCTTGCTACCTCAGGGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACAACAATCTTCAGCTTCCTCCCTTGCTACCTCAGGGAGATAAG
* * * * *
29756618 GCTAGTGGCTAAAATCTGCTCCCCTACTA-TTTTGGGAAGATAAGATTCACCGTTTTCTATCTGC
66 ACTAGTGGCTAAAATCTGCTCCCCTACTACCTTAGGG-AGATAAGATTCACCGTCTTCGATCTGC
* * *
29756682 CCCACTGCTATCT-CGAGGAGACAAGAT-CTACAATATTCGGTCTGCTCCC
130 CCC-CTACTA-CTAAG-GGAGACAAGATCCT-CAATATTCAGTCTGCTCCC
* * * * * *
29756731 TTTCTACCTCAGGAAGATAAGACAACAATCTTTAGTTTCCTCCCTTGCTACCTTAAGAAGATAAG
1 TTGCTACCTCAGGAAGATAAGACAACAATCTTCAGCTTCCTCCCTTGCTACCTCAGGGAGATAAG
29756796 ACTA
66 ACTA
29756800 CAATCATTAG
Statistics
Matches: 201, Mismatches: 39, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
175 27 0.13
176 81 0.40
177 7 0.03
178 86 0.43
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (176 bp):
TTGCTACCTCAGGAAGATAAGACAACAATCTTCAGCTTCCTCCCTTGCTACCTCAGGGAGATAAG
ACTAGTGGCTAAAATCTGCTCCCCTACTACCTTAGGGAGATAAGATTCACCGTCTTCGATCTGCC
CCCTACTACTAAGGGAGACAAGATCCTCAATATTCAGTCTGCTCCC
Found at i:29772715 original size:43 final size:42
Alignment explanation
Indices: 29772638--29772740 Score: 136
Period size: 43 Copynumber: 2.5 Consensus size: 42
29772628 GATAAATCCC
* *
29772638 GCAGGCCTAGTGCTGGT-ATTATATTCGGGACTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATTATATTCGGGACTTCGTGCCTA
* *
29772679 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGAT-TATATTCGGGACTTCGTGCCTA
* *
29772722 GTAGGCTTCGTGCCGGTGA
1 GCAGGCTTAGTGCCGGTGA
29772741 AATGATATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 15 0.28
42 2 0.04
43 37 0.69
ACGTcount: A:0.14, C:0.22, G:0.34, T:0.30
Consensus pattern (42 bp):
GCAGGCTTAGTGCCGGTGATTATATTCGGGACTTCGTGCCTA
Found at i:29780821 original size:27 final size:28
Alignment explanation
Indices: 29780783--29780842 Score: 104
Period size: 27 Copynumber: 2.2 Consensus size: 28
29780773 ATGATAAAAT
*
29780783 TCAAAGCAAACAAAGAG-AAAAAGATAG
1 TCAAAGCAAACAAAGAGAAAAAAAATAG
29780810 TCAAAGCAAACAAAGAGAAAAAAAATAG
1 TCAAAGCAAACAAAGAGAAAAAAAATAG
29780838 TCAAA
1 TCAAA
29780843 CACCTATCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 17 0.55
28 14 0.45
ACGTcount: A:0.65, C:0.12, G:0.15, T:0.08
Consensus pattern (28 bp):
TCAAAGCAAACAAAGAGAAAAAAAATAG
Found at i:29783747 original size:47 final size:45
Alignment explanation
Indices: 29783601--29783861 Score: 190
Period size: 47 Copynumber: 5.6 Consensus size: 45
29783591 TTATCAATGC
* * * **
29783601 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTGCTAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTG-G-GCCGATG
* * * * *
29783650 CATGTCCCAGGCATGTCTTACACTAGCACAGCTCT-T-AGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTGGGCCGATG
* *
29783694 CGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTTGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTCTG-TG-GGCCGATG
*
29783741 CATGTCCTAGACATGTCTTACACTGGCACTCATCTCTGT--GCCGATG
1 CATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTGTGGGCCGATG
* * * * * *
29783787 CCATATCCCAGACATGGACTTACACTAGCTCTCATAATGT-GGCCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTGGGCCGATG
29783835 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
29783862 GCACAAATCA
Statistics
Matches: 170, Mismatches: 29, Indels: 29
0.75 0.13 0.13
Matches are distributed among these distances:
43 5 0.03
44 28 0.16
45 3 0.02
46 21 0.12
47 59 0.35
48 30 0.18
49 17 0.10
50 7 0.04
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCTCTGTGGGCCGATG
Found at i:29783838 original size:94 final size:92
Alignment explanation
Indices: 29783597--29783861 Score: 288
Period size: 94 Copynumber: 2.8 Consensus size: 92
29783587 TATATTATCA
* * *
29783597 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCGTG-CTAATGCATGTCCCAGG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGAG-GCCGAA-GCATGTCCCAGA
*
29783661 CATGTCTTACACTAGCACAGCTCTTAGCCG
63 CATGTCTTACACTGGCACAGCTCTTAGCCG
* * ** * *
29783691 ATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTC-TGTTGAGGCCGATGCATGTCCTAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGC--TCTCATAATGAGGCCGAAGCATGTCCCAGAC
*
29783753 ATGTCTTACACTGGCACTCATCTCTGT-GCCG
64 ATGTCTTACACTGGCA--CAGCTCT-TAGCCG
* * * *
29783784 ATGCCATATCCCAGACATGGACTTACACTAGCTCTCATAATGTGGCCGAAGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGAAGCATGTCCCAGACAT
29783849 GTCTTACACTGGC
66 GTCTTACACTGGC
29783862 GCACAAATCA
Statistics
Matches: 141, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
91 27 0.19
92 18 0.13
93 30 0.21
94 55 0.39
95 11 0.08
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (92 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGAGGCCGAAGCATGTCCCAGACAT
GTCTTACACTGGCACAGCTCTTAGCCG
Found at i:29786595 original size:13 final size:12
Alignment explanation
Indices: 29786574--29786606 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
29786564 AAAATTTTTG
29786574 TATTTTATATTT
1 TATTTTATATTT
29786586 TATCTTTATATTT
1 TAT-TTTATATTT
29786599 TATTTTAT
1 TATTTTAT
29786607 CTACTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (12 bp):
TATTTTATATTT
Found at i:29786604 original size:18 final size:17
Alignment explanation
Indices: 29786581--29786620 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
29786571 TTGTATTTTA
29786581 TATTTTATCTTTA-TATTT
1 TATTTTATC--TACTATTT
29786599 TATTTTATCTACTATTT
1 TATTTTATCTACTATTT
29786616 TATTT
1 TATTT
29786621 ATTTGCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.10
17 10 0.48
18 9 0.43
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (17 bp):
TATTTTATCTACTATTT
Found at i:29799598 original size:89 final size:89
Alignment explanation
Indices: 29799484--29800571 Score: 1780
Period size: 89 Copynumber: 12.3 Consensus size: 89
29799474 TTATCGTGGC
* * * *
29799484 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTAGAGCC-ACAAATCTTATCTCCCTGAAGT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTA-AACCTATAAATCTTATCTCCTTGAAGT
29799548 TGTAGTGGAGCAGATTGAAAATAGA
65 TGTAGTGGAGCAGATTGAAAATAGA
29799573 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
29799638 GTAGTGGAGCAGATTGAAAATAGA
66 GTAGTGGAGCAGATTGAAAATAGA
29799662 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
29799727 GTAGTGGAGCAGATTGAAAATAGA
66 GTAGTGGAGCAGATTGAAAATAGA
29799751 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
29799816 GTAGTGGAGCAGATTGAAAATAGA
66 GTAGTGGAGCAGATTGAAAATAGA
29799840 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
29799905 GTAGTGGAGCAGATTGAAAATAGA
66 GTAGTGGAGCAGATTGAAAATAGA
29799929 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
29799994 GTAGTGGAGCAGATTGAAAATAGA
66 GTAGTGGAGCAGATTGAAAATAGA
29800018 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
29800083 GTAGTGGAGCAGATTGAAAATAGA
66 GTAGTGGAGCAGATTGAAAATAGA
29800107 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
29800172 GTAGTGGAGCAGATTGAAAATAGA
66 GTAGTGGAGCAGATTGAAAATAGA
29800196 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
29800261 GTAGTGGAGCAGATTGAAAATAGA
66 GTAGTGGAGCAGATTGAAAATAGA
29800285 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
* *
29800350 GTAGTGGAGCAGATTGAAGATAGC
66 GTAGTGGAGCAGATTGAAAATAGA
* * * * * *
29800374 AAATCTTATCTCTTTCAAGTTACAGTAGAACAGATTAAAGCC-ACAAATCTTATCT-CTCTAAAG
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAA-CCTATAAATCTTATCTCCT-TGAAG
* * * * *
29800437 TTGCA-TAGAGTAGATT-AAAGTTA-C
64 TTGTAGTGGAGCAGATTGAAA-ATAGA
* * * * ** * * * *
29800461 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTACAAATCTCATTTCCCT-AATGT
1 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAA-GT
* ** *
29800525 TGCA-TGGAGCAGATTGAAGTTA-T
65 TGTAGTGGAGCAGATTGAAAATAGA
*
29800548 AAATCTTATCTCCCTGAAGTTGCA
1 AAATCTTATCTCTCTGAAGTTGCA
29800572 ATGGAGTAGA
Statistics
Matches: 957, Mismatches: 34, Indels: 18
0.95 0.03 0.02
Matches are distributed among these distances:
86 2 0.00
87 88 0.09
88 19 0.02
89 846 0.88
90 2 0.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (89 bp):
AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTATAAATCTTATCTCCTTGAAGTT
GTAGTGGAGCAGATTGAAAATAGA
Found at i:29800625 original size:44 final size:43
Alignment explanation
Indices: 29799483--29800621 Score: 624
Period size: 44 Copynumber: 25.7 Consensus size: 43
29799473 GTTATCGTGG
* * * **
29799483 CAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATT-AGAGCCA
1 CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGA-AGTTA
* * * **
29799527 CAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAAATA
1 CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * **
29799571 GAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTA
1 -CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * * **
29799616 TAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAAATA
1 CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * **
29799660 GAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTA
1 -CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * * **
29799705 TAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAAATA
1 CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * **
29799749 GAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTA
1 -CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * * **
29799794 TAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAAATA
1 CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * **
29799838 GAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTA
1 -CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * * **
29799883 TAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAAATA
1 CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * **
29799927 GAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTA
1 -CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * * **
29799972 TAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAAATA
1 CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * **
29800016 GAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTA
1 -CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * * **
29800061 TAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAAATA
1 CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * **
29800105 GAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTA
1 -CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * * **
29800150 TAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAAATA
1 CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * **
29800194 GAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTA
1 -CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * * **
29800239 TAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAAATA
1 CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * **
29800283 GAAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAACCTA
1 -CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * * * *
29800328 TAAATCTTATCTCCTTGAAGTTGTAGTGGAGCAGATTGAAGATA
1 CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
** * * * * **
29800372 GCAAATCTTATCTCTTTCAAGTTACAGTAGAACAGATTAAAGCCA
1 -CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * *
29800417 CAAATCTTATCTCTCTAAAGTTGCATAGAGTAGATTAAAGTTA
1 CAAATCTTATCTCCCTAAAGTTGCATAGAGCAGATTGAAGTTA
*
29800460 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTA
1 CAAATCTTATCTCCCTAAAGTTGCA-TAGAGCAGATTGAAGTTA
* * * *
29800504 CAAATCTCATTTCCCTAATGTTGCATGGAGCAGATTGAAGTTA
1 CAAATCTTATCTCCCTAAAGTTGCATAGAGCAGATTGAAGTTA
* * * *
29800547 TAAATCTTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGTTA
1 CAAATCTTATCTCCCTAAAGTTGC-ATAGAGCAGATTGAAGTTA
* *
29800591 CAAGTCTTATCTCCCTAAAGTTACACTAGAG
1 CAAATCTTATCTCCCTAAAGTTGCA-TAGAG
29800622 TAGAACCTCT
Statistics
Matches: 896, Mismatches: 185, Indels: 28
0.81 0.17 0.03
Matches are distributed among these distances:
43 76 0.08
44 460 0.51
45 360 0.40
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (43 bp):
CAAATCTTATCTCCCTAAAGTTGCATAGAGCAGATTGAAGTTA
Found at i:29802544 original size:27 final size:28
Alignment explanation
Indices: 29802513--29802575 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 28
29802503 ATCTACTATA
*
29802513 TTATTTATTTGCACATGTTATT-TTATT
1 TTATTTATTTGCACATGTCATTATTATT
* ** *
29802540 TTA-TTCTTTGTGCTTGTCATTATTATT
1 TTATTTATTTGCACATGTCATTATTATT
29802567 TTATTTATT
1 TTATTTATT
29802576 CAATTTAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 13 0.46
27 11 0.39
28 4 0.14
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (28 bp):
TTATTTATTTGCACATGTCATTATTATT
Found at i:29803017 original size:19 final size:19
Alignment explanation
Indices: 29802993--29803054 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
29802983 AATCTTTAAG
29802993 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
29803012 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
29803031 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
29803052 GAT
1 GAT
29803055 CTTGTAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
21 9 0.22
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:29809219 original size:15 final size:16
Alignment explanation
Indices: 29809193--29809225 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
29809183 ATTTGATCAT
29809193 TAAAATAATAATTATA
1 TAAAATAATAATTATA
*
29809209 TAAAA-AATAATTTTA
1 TAAAATAATAATTATA
29809224 TA
1 TA
29809226 CTAATAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAATAATAATTATA
Found at i:29812145 original size:10 final size:9
Alignment explanation
Indices: 29812120--29812144 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
29812110 AAAAGAAGAG
29812120 TTTTTTTGT
1 TTTTTTTGT
29812129 TTTTTTTGT
1 TTTTTTTGT
29812138 TTTTTTT
1 TTTTTTT
29812145 TTGAAAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:29812699 original size:3 final size:3
Alignment explanation
Indices: 29812685--29812715 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
29812675 GTTGTTTTAG
*
29812685 TAT TAT TTT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
29812716 TTCTTTCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:29812700 original size:12 final size:12
Alignment explanation
Indices: 29812679--29812717 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
29812669 GAATTAGTTG
*
29812679 TTTTAGTATTAT
1 TTTTATTATTAT
29812691 TTTTATTATTAT
1 TTTTATTATTAT
*
29812703 TATTATTATTAT
1 TTTTATTATTAT
29812715 TTT
1 TTT
29812718 CTTTCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:29812859 original size:26 final size:22
Alignment explanation
Indices: 29812822--29812872 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 22
29812812 TTCCTTTTTA
*
29812822 TTTTTTGTTTTCTTCGTTTGTCGTT
1 TTTTTTCTTTTCTT--TTTGT-GTT
29812847 TTTTTTCTATTTCTTTTTGTGTT
1 TTTTTTCT-TTTCTTTTTGTGTT
29812870 TTT
1 TTT
29812873 GGTTATCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 6 0.25
24 5 0.21
25 7 0.29
26 6 0.25
ACGTcount: A:0.02, C:0.10, G:0.12, T:0.76
Consensus pattern (22 bp):
TTTTTTCTTTTCTTTTTGTGTT
Found at i:29816739 original size:12 final size:12
Alignment explanation
Indices: 29816724--29816769 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
29816714 ATGCAGAAGG
*
29816724 AGATGCAATAAC
1 AGATGCAAGAAC
29816736 AGATGCAAGAAC
1 AGATGCAAGAAC
*
29816748 AGATGCAAGTAC
1 AGATGCAAGAAC
*
29816760 AAATGCAAGA
1 AGATGCAAGA
29816770 GCAATTGGCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.50, C:0.15, G:0.22, T:0.13
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:29816741 original size:24 final size:24
Alignment explanation
Indices: 29816709--29816769 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
29816699 GAAAGGTTCG
*
29816709 AACAAATGC-AGAAGGAGATGCAAT
1 AACAAATGCAAGAA-CAGATGCAAT
*
29816733 AACAGATGCAAGAACAGATGCAAGT
1 AACAAATGCAAGAACAGATGCAA-T
29816758 -ACAAATGCAAGA
1 AACAAATGCAAGA
29816770 GCAATTGGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 27 0.84
25 5 0.16
ACGTcount: A:0.51, C:0.15, G:0.23, T:0.11
Consensus pattern (24 bp):
AACAAATGCAAGAACAGATGCAAT
Found at i:29817816 original size:9 final size:9
Alignment explanation
Indices: 29817802--29817826 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
29817792 ACTAAACCGA
29817802 AAATTTTGG
1 AAATTTTGG
29817811 AAATTTTGG
1 AAATTTTGG
29817820 AAATTTT
1 AAATTTT
29817827 ACCTAGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (9 bp):
AAATTTTGG
Found at i:29819111 original size:54 final size:52
Alignment explanation
Indices: 29818981--29819130 Score: 167
Period size: 54 Copynumber: 2.8 Consensus size: 52
29818971 CATTTCTTCA
* * * *
29818981 ATGCCATAGCCTAGTTATGGTCTTATAC-AGATCACCTGTATCACTTTAATCTG
1 ATGCCATAGCCCAGCTATGGTCTTATACGAAATCA-CT-TATCACTTTAATCCG
* * **
29819034 AAGCCATAGCCCAACTATGGTCTTATACGAAAATCACTTATCACTTGTTTTCCG
1 ATGCCATAGCCCAGCTATGGTCTTATACG-AAATCACTTATCACTT-TAATCCG
*
29819088 ATGCCATAGCCCAGCTATGGTCTTATACGGATATCACTTATCA
1 ATGCCATAGCCCAGCTATGGTCTTATAC-GAAATCACTTATCA
29819131 ATTGCCGCCA
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
53 32 0.39
54 44 0.54
55 6 0.07
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (52 bp):
ATGCCATAGCCCAGCTATGGTCTTATACGAAATCACTTATCACTTTAATCCG
Found at i:29819229 original size:17 final size:17
Alignment explanation
Indices: 29819209--29819254 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
29819199 AATCCGATGT
29819209 TTTATTCAATTTGATTA
1 TTTATTCAATTTGATTA
29819226 TTTATTCAATTTGATTA
1 TTTATTCAATTTGATTA
*
29819243 TTTCTTCAATTT
1 TTTATTCAATTT
29819255 CATATTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.26, C:0.09, G:0.04, T:0.61
Consensus pattern (17 bp):
TTTATTCAATTTGATTA
Found at i:29828189 original size:133 final size:134
Alignment explanation
Indices: 29828002--29828258 Score: 338
Period size: 133 Copynumber: 1.9 Consensus size: 134
29827992 GCTATAAATA
* * *
29828002 AGCAGATCTTATTCCCTGAAGTTACAGTAGAGCAGATCGAAGCCACAATTCTTATCTCTCTGAAG
1 AGCAGATCTTATTACCTAAAGTTACAGTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAG
* ** * * ** *
29828067 TTGCAGTAGAGTAGG-TTGAAGTA-GCAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGA
66 TTGCACTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA
29828130 AGAC
131 AGAC
* * * * * *
29828134 AGCAGATCTTCTCTACCTAAAGTTGCAGTGGAGTAGATTGAAGCCACGATCCTTATCTCTCTGAA
1 AGCAGATCTTAT-TACCTAAAGTTACAGTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAA
29828199 GTTGCACTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCA
65 GTTGCACTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCA
29828259 AGTTGAAGTT
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
132 11 0.10
133 59 0.56
134 5 0.05
135 30 0.29
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (134 bp):
AGCAGATCTTATTACCTAAAGTTACAGTAGAGCAGATCGAAGCCACAATCCTTATCTCTCTGAAG
TTGCACTAGAGTAGGATAAAAATACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGA
AGAC
Found at i:29828212 original size:44 final size:43
Alignment explanation
Indices: 29828002--29828213 Score: 180
Period size: 44 Copynumber: 4.8 Consensus size: 43
29827992 GCTATAAATA
* * *
29828002 AGCAGATCTTAT-TCCCTGAAGTTACAGTAGAGCAGATCGAAGCC
1 AGCA-ATCTTATCT-CCTGAAGTTGCAGTAGAGTAGATTGAAGCC
* *
29828046 A-CAATTCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAG-T
1 AGCAA-TCTTATCTC-CTGAAGTTGCAGTAGAGTAGATTGAAGCC
* * * *
29828089 AGCAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGAC
1 AGCAA-TCTTATCTCC-TGAAGTTGCAGTAGAGTAGATTGAAGCC
* * *
29828134 AGCAGATCTTCTCTACCTAAAGTTGCAGTGGAGTAGATTGAAGCC
1 AGCA-ATCTTATCT-CCTGAAGTTGCAGTAGAGTAGATTGAAGCC
* *
29828179 A-CGATCCTTATCTCTCTGAAGTTGCACTAGAGTAG
1 AGCAAT-CTTATCTC-CTGAAGTTGCAGTAGAGTAG
29828214 GATAAAAATA
Statistics
Matches: 137, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
42 1 0.01
43 14 0.10
44 83 0.61
45 36 0.26
46 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
AGCAATCTTATCTCCTGAAGTTGCAGTAGAGTAGATTGAAGCC
Found at i:29828304 original size:135 final size:133
Alignment explanation
Indices: 29828035--29828317 Score: 293
Period size: 135 Copynumber: 2.1 Consensus size: 133
29828025 ACAGTAGAGC
* * ** * * **
29828035 AGATCGAAGCCACAATTCTTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAGTAGCAAGTCTTA
1 AGATCGAAGCCACAATCCTTATCTCTCTGAAGTTGCACTAGAGTAGGTAAAAATAACAAACCTTA
* * * * * * * *
29828100 TCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGACAGCAGATCTTCTCTACCTAAAGTTGCAGTGG
66 TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACACCAGATCTTATATACCTAAAGCTCCAATGA
29828165 AGT
131 AGT
* *
29828168 AGATTGAAGCCACGATCCTTATCTCTCTGAAGTTGCACTAGAGTAGGATAAAAATACACAAACCT
1 AGATCGAAGCCACAATCCTTATCTCTCTGAAGTTGCACTAGAGTAGG-TAAAAATA-ACAAACCT
* ** *
29828233 TATCTCCCTGAAGTTGCAGTGGAGCA-AGTTGAAGTTACCA-ATTCTTATAT-CCTTTAAGCTCC
64 TATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGACACCAGA-TCTTATATACC-TAAAGCTCC
29828295 AATGAAGT
126 AATGAAGT
*
29828303 AGATCGAAGCTACAA
1 AGATCGAAGCCACAA
29828318 ATCTCTTCTC
Statistics
Matches: 120, Mismatches: 25, Indels: 8
0.78 0.16 0.05
Matches are distributed among these distances:
133 43 0.36
134 9 0.08
135 68 0.57
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (133 bp):
AGATCGAAGCCACAATCCTTATCTCTCTGAAGTTGCACTAGAGTAGGTAAAAATAACAAACCTTA
TCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGACACCAGATCTTATATACCTAAAGCTCCAATGA
AGT
Found at i:29829819 original size:3 final size:3
Alignment explanation
Indices: 29829811--29829838 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
29829801 GTTTTAGTAA
29829811 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
29829839 TCTTATTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:29829989 original size:27 final size:25
Alignment explanation
Indices: 29829946--29830002 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 25
29829936 AAATTGTTCC
29829946 TTTTTATTTTTATTTTCTTCGTTTGTCG
1 TTTTTATTTTTATTTTCTT--TTTGT-G
29829974 TTTTT-TTTTCTA-TTTCTTTTTGTG
1 TTTTTATTTT-TATTTTCTTTTTGTG
29829998 TTTTT
1 TTTTT
29830003 GTTATCAACC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
24 6 0.21
25 5 0.18
27 10 0.36
28 7 0.25
ACGTcount: A:0.05, C:0.09, G:0.09, T:0.77
Consensus pattern (25 bp):
TTTTTATTTTTATTTTCTTTTTGTG
Found at i:29837935 original size:81 final size:82
Alignment explanation
Indices: 29837836--29837990 Score: 262
Period size: 81 Copynumber: 1.9 Consensus size: 82
29837826 TTGATAAATG
29837836 AAGGGCAAAATTGAAATATTGCAAAATTAACTAAATAAA-ACTA-GACTAAATAGGAAATATCTA
1 AAGGGCAAAATTGAAATATTGCAAAATTAACTAAATAAAGA-TAGGACTAAATAGGAAATATCTA
29837899 GATTTCTCTTTATGATTT
65 GATTTCTCTTTATGATTT
*
29837917 AAGGGCAAAATT-AGAATATTGCATAATTAACTAAATAAAGATAGGACTAAATAGGAAATATCTA
1 AAGGGCAAAATTGA-AATATTGCAAAATTAACTAAATAAAGATAGGACTAAATAGGAAATATCTA
29837981 GATTTCTCTT
65 GATTTCTCTT
29837991 CATTTTTATT
Statistics
Matches: 70, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
80 1 0.01
81 38 0.54
82 31 0.44
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.31
Consensus pattern (82 bp):
AAGGGCAAAATTGAAATATTGCAAAATTAACTAAATAAAGATAGGACTAAATAGGAAATATCTAG
ATTTCTCTTTATGATTT
Found at i:29842210 original size:12 final size:12
Alignment explanation
Indices: 29842193--29842226 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
29842183 ATATTAATAA
29842193 TTTTATATAATT
1 TTTTATATAATT
*
29842205 TTTTATTTAAATT
1 TTTTATAT-AATT
29842218 TTTTATATA
1 TTTTATATA
29842227 TAAATAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTATATAATT
Found at i:29844931 original size:21 final size:22
Alignment explanation
Indices: 29844892--29844933 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
29844882 TTTTTCTCTC
* *
29844892 ATTTTATCTTTTTCCAAACACT
1 ATTTTATCTTCTTCAAAACACT
29844914 ATTTT-TCTTCTTCAAAACAC
1 ATTTTATCTTCTTCAAAACAC
29844934 AACATTCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTTATCTTCTTCAAAACACT
Found at i:29848483 original size:28 final size:28
Alignment explanation
Indices: 29848433--29848486 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
29848423 GTGCTCTAGT
*
29848433 AAAAAAAACATAAATACTTAATTGAATA
1 AAAAAAAACATAAATACTAAATTGAATA
* * *
29848461 AAAAAAAACTTAGATGCTAAATTGAA
1 AAAAAAAACATAAATACTAAATTGAA
29848487 CATTGGAGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.24
Consensus pattern (28 bp):
AAAAAAAACATAAATACTAAATTGAATA
Found at i:29848643 original size:56 final size:55
Alignment explanation
Indices: 29848543--29848648 Score: 131
Period size: 56 Copynumber: 1.9 Consensus size: 55
29848533 ATATCAAAAT
* * *
29848543 AAAAAATTAGATACTAAAATAAACATTAAAACCAAACTTAAGTACTAAATCAAGA
1 AAAAAATCAGATACTAAAATAAACATTAAAACCAAAATTAAGTACCAAATCAAGA
* * * * *
29848598 AAAAAACTCAGATACTAAATTAAACATTGACACTAAAATTTAGTACCAAAT
1 AAAAAA-TCAGATACTAAAATAAACATTAAAACCAAAATTAAGTACCAAAT
29848649 AATGTATTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
55 6 0.14
56 36 0.86
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.24
Consensus pattern (55 bp):
AAAAAATCAGATACTAAAATAAACATTAAAACCAAAATTAAGTACCAAATCAAGA
Found at i:29849065 original size:31 final size:29
Alignment explanation
Indices: 29849030--29849099 Score: 104
Period size: 29 Copynumber: 2.3 Consensus size: 29
29849020 ATACAAAAAT
29849030 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATGAACTATGATTT--TGTGCAATTG
* *
29849061 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATGAACTATGATTTTGTGCAATTG
29849090 TATACATGAA
1 TATACATGAA
29849100 ATTTTGATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
29 19 0.51
31 18 0.49
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.41
Consensus pattern (29 bp):
TATACATGAACTATGATTTTGTGCAATTG
Found at i:29849084 original size:29 final size:30
Alignment explanation
Indices: 29849030--29849109 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 30
29849020 ATACAAAAAT
*
29849030 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATGAACTTTGATTT-ATGTGCAATTG
*
29849061 TATACATGAACTTTGATTT-TGTGCAATTT
1 TATACATGAACTTTGATTTATGTGCAATTG
*
29849090 TATACATGAAATTTTGATTT
1 TATACATG-AACTTTGATTT
29849110 GATCCAATTC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.38
30 10 0.22
31 18 0.40
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (30 bp):
TATACATGAACTTTGATTTATGTGCAATTG
Found at i:29849118 original size:30 final size:29
Alignment explanation
Indices: 29849030--29849118 Score: 90
Period size: 29 Copynumber: 3.0 Consensus size: 29
29849020 ATACAAAAAT
* *
29849030 TATACATGAACTATGATTTAATGTGCAATTG
1 TATACATGAACTTTGATTT--TGTCCAATTG
* *
29849061 TATACATGAACTTTGATTTTGTGCAATTT
1 TATACATGAACTTTGATTTTGTCCAATTG
*
29849090 TATACATGAAATTTTGA-TTTGATCCAATT
1 TATACATG-AACTTTGATTTTG-TCCAATT
29849119 CTTGTAAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
29 21 0.40
30 13 0.25
31 18 0.35
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (29 bp):
TATACATGAACTTTGATTTTGTCCAATTG
Found at i:29851371 original size:4 final size:4
Alignment explanation
Indices: 29851362--29851389 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
29851352 TTTTAATTCC
29851362 TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT
29851390 CAGGTTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:29852079 original size:23 final size:22
Alignment explanation
Indices: 29851988--29852114 Score: 69
Period size: 23 Copynumber: 5.5 Consensus size: 22
29851978 TACATGAAAA
*
29851988 TTATTTTAAACTCTTTTATTAT
1 TTATTTTAAACTTTTTTATTAT
* * **
29852010 TCATTGTAAACTTTTATTATTGC
1 TTATTTTAAACTTTT-TTATTAT
* * * *
29852033 TAATTTTAAGA-TTATATAGGTAT
1 TTATTTTAA-ACTTTTTTA-TTAT
29852056 TTATTTTAAACTTTTTTA-TAT
1 TTATTTTAAACTTTTTTATTAT
*
29852077 ATTATTTTAGATATATATATTTTATTAT
1 -TTATTTTA-A-A-CT-T-TTTTATTAT
29852105 TTATTTTAAA
1 TTATTTTAAA
29852115 TTTCTCTTTT
Statistics
Matches: 78, Mismatches: 16, Indels: 19
0.69 0.14 0.17
Matches are distributed among these distances:
21 3 0.04
22 23 0.29
23 30 0.38
24 2 0.03
25 2 0.03
26 2 0.03
27 13 0.17
28 3 0.04
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (22 bp):
TTATTTTAAACTTTTTTATTAT
Found at i:29852711 original size:4 final size:4
Alignment explanation
Indices: 29852702--29852727 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
29852692 GTCATATATG
29852702 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
29852728 TTGCTCCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:29857951 original size:45 final size:44
Alignment explanation
Indices: 29857871--29857961 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 44
29857861 AATAGGAAAA
* *
29857871 GAGAAATGGGAAACATTTAGGAATGATTATGGGTTTTTCCAAAATG
1 GAGAAATGGGAAACATTTAGGAATGAATATAGG--TTTCCAAAATG
* *
29857917 GAGAAAT-GGAACCATTT-GGAAATGAATGTAGGTTTCCAAAATG
1 GAGAAATGGGAAACATTTAGG-AATGAATATAGGTTTCCAAAATG
29857960 GA
1 GA
29857962 AATGAAAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
43 13 0.32
44 2 0.05
45 18 0.45
46 7 0.17
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.27
Consensus pattern (44 bp):
GAGAAATGGGAAACATTTAGGAATGAATATAGGTTTCCAAAATG
Found at i:29867267 original size:16 final size:16
Alignment explanation
Indices: 29867246--29867276 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29867236 GCTCATCACA
29867246 TAGCAGCAATACAACG
1 TAGCAGCAATACAACG
*
29867262 TAGCAGCGATACAAC
1 TAGCAGCAATACAAC
29867277 ACCCTTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.26, G:0.19, T:0.13
Consensus pattern (16 bp):
TAGCAGCAATACAACG
Found at i:29867883 original size:25 final size:25
Alignment explanation
Indices: 29867855--29867903 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
29867845 TACAGTTTAT
* *
29867855 CTATAGTAGTCTCAGTATATACTAC
1 CTATAGCAGTCTCAGGATATACTAC
*
29867880 CTATAGCAGTTTCAGGATATACTA
1 CTATAGCAGTCTCAGGATATACTA
29867904 TCAAAAATAG
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:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (25 bp):
CTATAGCAGTCTCAGGATATACTAC
Found at i:29887332 original size:71 final size:71
Alignment explanation
Indices: 29887216--29887355 Score: 244
Period size: 71 Copynumber: 2.0 Consensus size: 71
29887206 AGGCGTTACA
* *
29887216 ACATGGTACGCAAGTCTCGAGACATGGCAAGTAAGGTCTAAGGTCTTAAAAAATGATTCTAAGGT
1 ACATGGCACGCAAGTCTCGAGACATGGCAAGTAAGGTCTAAGGTCTCAAAAAATGATTCTAAGGT
29887281 CTCAAG
66 CTCAAG
* *
29887287 ACATGGCACGCAAGTCTCGGGACATGGCAAGTAAGGTCTAAGGTCTCAAGAAATGATTCTAAGGT
1 ACATGGCACGCAAGTCTCGAGACATGGCAAGTAAGGTCTAAGGTCTCAAAAAATGATTCTAAGGT
29887352 CTCA
66 CTCA
29887356 TGAAATGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 65 1.00
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (71 bp):
ACATGGCACGCAAGTCTCGAGACATGGCAAGTAAGGTCTAAGGTCTCAAAAAATGATTCTAAGGT
CTCAAG
Found at i:29887347 original size:21 final size:21
Alignment explanation
Indices: 29887323--29887367 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
29887313 GCAAGTAAGG
29887323 TCTAAGGTCTCAAGAAATGAT
1 TCTAAGGTCTCAAGAAATGAT
*
29887344 TCTAAGGTCTCATGAAATGAT
1 TCTAAGGTCTCAAGAAATGAT
29887365 TCT
1 TCT
29887368 TATATCTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (21 bp):
TCTAAGGTCTCAAGAAATGAT
Found at i:29887375 original size:21 final size:21
Alignment explanation
Indices: 29887323--29887379 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
29887313 GCAAGTAAGG
*
29887323 TCTAAGGTCTCAAGAAATGAT
1 TCTAAGATCTCAAGAAATGAT
* *
29887344 TCTAAGGTCTCATGAAATGAT
1 TCTAAGATCTCAAGAAATGAT
* *
29887365 TCTTATATCTCAAGA
1 TCTAAGATCTCAAGA
29887380 CATACGAAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (21 bp):
TCTAAGATCTCAAGAAATGAT
Found at i:29895701 original size:21 final size:21
Alignment explanation
Indices: 29895675--29895717 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
29895665 GGTTCGCTGT
*
29895675 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
29895696 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
29895717 A
1 A
29895718 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:29895717 original size:16 final size:16
Alignment explanation
Indices: 29895698--29895730 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29895688 TGTATTGGAT
*
29895698 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
29895714 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
29895730 T
1 T
29895731 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:29895775 original size:45 final size:44
Alignment explanation
Indices: 29895709--29895803 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
29895699 GGATTAGAGG
* *
29895709 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
29895754 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
29895798 TGTAAT
1 TGTAAT
29895804 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:29907344 original size:21 final size:20
Alignment explanation
Indices: 29907304--29907359 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 20
29907294 TTAGTACTTA
* *
29907304 TTTTTTTCTTTTTTT-CTTT
1 TTTTTTTATTTTTTTAATTT
29907323 TTTTTTTATTTTTTTAAATTT
1 TTTTTTTATTTTTTT-AATTT
* * *
29907344 TATTATTATTTATTTA
1 TTTTTTTATTTTTTTA
29907360 CTTAGGAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 14 0.47
20 1 0.03
21 15 0.50
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTTATTTTTTTAATTT
Found at i:29907623 original size:118 final size:118
Alignment explanation
Indices: 29907463--29907693 Score: 381
Period size: 118 Copynumber: 2.0 Consensus size: 118
29907453 TATTTCCGAT
*
29907463 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGTAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
29907528 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGAC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGAC
****
29907581 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
29907646 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
29907694 ATGGAAAACA
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 104 1.00
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGAC
Found at i:29908655 original size:19 final size:20
Alignment explanation
Indices: 29908624--29908691 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 20
29908614 ATATTTAACT
29908624 AAAATAAAATAAAAATAAAAGAA
1 AAAAT-AAATAAAAAT-AAA-AA
*
29908647 AATAATAAATAAAAA-AATAA
1 AA-AATAAATAAAAATAAAAA
29908667 AAAATAAATAAAAATAAAAA
1 AAAATAAATAAAAATAAAAA
29908687 TAAAA
1 -AAAA
29908692 AGAAAGATCG
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 12 0.30
20 8 0.20
21 6 0.15
23 11 0.28
24 3 0.08
ACGTcount: A:0.82, C:0.00, G:0.01, T:0.16
Consensus pattern (20 bp):
AAAATAAATAAAAATAAAAA
Found at i:29908658 original size:7 final size:6
Alignment explanation
Indices: 29908624--29908692 Score: 74
Period size: 6 Copynumber: 11.7 Consensus size: 6
29908614 ATATTTAACT
29908624 AAAAT- AAAATA AAAATA AAAGA-A AATAATA AATAA-A AAAATA AAAA-A
1 AAAATA AAAATA AAAATA AAA-ATA AA-AATA AA-AATA AAAATA AAAATA
*
29908671 TAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAA
29908693 GAAAGATCGG
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
5 11 0.20
6 37 0.66
7 8 0.14
ACGTcount: A:0.83, C:0.00, G:0.01, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:29908660 original size:23 final size:22
Alignment explanation
Indices: 29908624--29908696 Score: 85
Period size: 25 Copynumber: 3.1 Consensus size: 22
29908614 ATATTTAACT
29908624 AAAAT-AAAATAAAAATAAAAG
1 AAAATAAAAATAAAAATAAAAG
*
29908645 AAAATAATAAATAAAAAAATAAAAA
1 AAAATAA-AAAT--AAAAATAAAAG
29908670 ATAAATAAAAATAAAAATAAAAAG
1 A-AAATAAAAATAAAAAT-AAAAG
29908694 AAA
1 AAA
29908697 GATCGGGTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
21 5 0.11
22 1 0.02
23 12 0.27
24 5 0.11
25 15 0.34
26 6 0.14
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (22 bp):
AAAATAAAAATAAAAATAAAAG
Found at i:29908667 original size:31 final size:31
Alignment explanation
Indices: 29908624--29908692 Score: 50
Period size: 32 Copynumber: 2.1 Consensus size: 31
29908614 ATATTTAACT
* *
29908624 AAAATAAAATAAAAAT-AAAAGAAAATAATAA
1 AAAAT-AAATAAAAATAAAAATAAAAAAATAA
* *
29908655 ATAAAAAAATAAAAAATAAATAAAAATAAAAATAA
1 A-AAATAAAT-AAAAATAAA-AATAA-AAAAATAA
29908690 AAA
1 AAA
29908693 GAAAGATCGG
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
31 5 0.17
32 9 0.30
33 2 0.07
34 6 0.20
35 8 0.27
ACGTcount: A:0.83, C:0.00, G:0.01, T:0.16
Consensus pattern (31 bp):
AAAATAAATAAAAATAAAAATAAAAAAATAA
Found at i:29918947 original size:15 final size:14
Alignment explanation
Indices: 29918917--29918943 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29918907 AACATGTGTT
29918917 TTTTTAAATATTTA
1 TTTTTAAATATTTA
29918931 TTTTTAAATATTT
1 TTTTTAAATATTT
29918944 TATTATACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTAAATATTTA
Found at i:29919275 original size:49 final size:49
Alignment explanation
Indices: 29919219--29919318 Score: 123
Period size: 49 Copynumber: 2.0 Consensus size: 49
29919209 CAAAAATTAC
* * *
29919219 TAGATTTATATAGATTTGAAGT-GGGATATTAGATTTTATATTTAAAA-AT
1 TAGATTTATATAGATTAGAAGTAGGG-TATAACATTTTATA-TTAAAATAT
* *
29919268 TAGATTTATATGGATTAGAATTAGGGTATAACATTTTATATTAAAATAT
1 TAGATTTATATAGATTAGAAGTAGGGTATAACATTTTATATTAAAATAT
29919317 TA
1 TA
29919319 TTAGAAAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
48 6 0.14
49 35 0.80
50 3 0.07
ACGTcount: A:0.40, C:0.01, G:0.15, T:0.44
Consensus pattern (49 bp):
TAGATTTATATAGATTAGAAGTAGGGTATAACATTTTATATTAAAATAT
Found at i:29920672 original size:14 final size:14
Alignment explanation
Indices: 29920626--29920674 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
29920616 ATTGAGCTAT
* *
29920626 TTATAAAATCTTCTT
1 TTATAAAAT-TTATA
29920641 TTATAAATATTATATA
1 TTATAAA-ATT-TATA
29920657 TTATAAAATTTATA
1 TTATAAAATTTATA
29920671 TTAT
1 TTAT
29920675 TTTAAACTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 8 0.27
15 11 0.37
16 11 0.37
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATAAAATTTATA
Found at i:29924366 original size:47 final size:47
Alignment explanation
Indices: 29924257--29924355 Score: 162
Period size: 47 Copynumber: 2.1 Consensus size: 47
29924247 CATTTGCTCA
29924257 CATTTGACTGAAACCATAATTGAGCTTTGTCTACAATCTTGCAAACT
1 CATTTGACTGAAACCATAATTGAGCTTTGTCTACAATCTTGCAAACT
* * * *
29924304 CATTTGACTAAAACCATGATTGAGCTTTGTCTATAATTTTGCAAACT
1 CATTTGACTGAAACCATAATTGAGCTTTGTCTACAATCTTGCAAACT
29924351 CATTT
1 CATTT
29924356 ATTTGAAACC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (47 bp):
CATTTGACTGAAACCATAATTGAGCTTTGTCTACAATCTTGCAAACT
Found at i:29927057 original size:19 final size:19
Alignment explanation
Indices: 29927033--29927069 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
29927023 TAGGCTTAGA
29927033 CTTGCGGATTCAATTTCTG
1 CTTGCGGATTCAATTTCTG
29927052 CTTGCGGATTCAATTTCT
1 CTTGCGGATTCAATTTCT
29927070 AGGTTGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (19 bp):
CTTGCGGATTCAATTTCTG
Found at i:29930057 original size:27 final size:27
Alignment explanation
Indices: 29929995--29930045 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
29929985 AATTCATCTG
* *
29929995 TAATATTAAAAATATTATGAAAACAAT
1 TAATAATAAAAAAATTATGAAAACAAT
*
29930022 TAATTATAAAAAAATTAT-AAAACA
1 TAATAATAAAAAAATTATGAAAACA
29930046 TGATAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (27 bp):
TAATAATAAAAAAATTATGAAAACAAT
Found at i:29946044 original size:46 final size:46
Alignment explanation
Indices: 29945994--29946087 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
29945984 TCTTATGTTT
* *
29945994 TAATTTCATCAATTTTAGTTTTTATATTTTTCCAATCAATTAATTC
1 TAATTTCATCAATTTCAATTTTTATATTTTTCCAATCAATTAATTC
*
29946040 TAATTTCATCAATTTCAATTTTTATATTTTTCGAATCAATTAATTC
1 TAATTTCATCAATTTCAATTTTTATATTTTTCCAATCAATTAATTC
29946086 TA
1 TA
29946088 GTCCTGACTG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.32, C:0.13, G:0.02, T:0.53
Consensus pattern (46 bp):
TAATTTCATCAATTTCAATTTTTATATTTTTCCAATCAATTAATTC
Found at i:29946045 original size:23 final size:24
Alignment explanation
Indices: 29946016--29946087 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
29946006 TTTTAGTTTT
29946016 TATATTTTTCCAATCAATTAATTC
1 TATATTTTTCCAATCAATTAATTC
*
29946040 TA-A--TTT-C-ATCAATTTCAATTTT
1 TATATTTTTCCAATCAA-TT-AA-TTC
*
29946062 TATATTTTTCGAATCAATTAATTC
1 TATATTTTTCCAATCAATTAATTC
29946086 TA
1 TA
29946088 GTCCTGACTG
Statistics
Matches: 37, Mismatches: 3, Indels: 16
0.66 0.05 0.29
Matches are distributed among these distances:
19 5 0.14
20 3 0.08
21 5 0.14
22 4 0.11
23 2 0.05
24 6 0.16
25 5 0.14
26 2 0.05
27 5 0.14
ACGTcount: A:0.33, C:0.14, G:0.01, T:0.51
Consensus pattern (24 bp):
TATATTTTTCCAATCAATTAATTC
Found at i:29946739 original size:18 final size:17
Alignment explanation
Indices: 29946698--29946741 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
29946688 CAAAATTTTT
29946698 TATTTAAAT-TTAATTA
1 TATTTAAATATTAATTA
29946714 TA--TAAATATTAATGTA
1 TATTTAAATATTAAT-TA
29946730 TATTTAAATATT
1 TATTTAAATATT
29946742 TGTTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.21
15 5 0.21
16 6 0.25
18 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TATTTAAATATTAATTA
Found at i:29948291 original size:19 final size:19
Alignment explanation
Indices: 29948256--29948293 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
29948246 GAGATGATAG
29948256 TTTGATTGAGTGAAAAAAT
1 TTTGATTGAGTGAAAAAAT
29948275 TTTGAATTGAGTGAAAAAA
1 TTTG-ATTGAGTGAAAAAA
29948294 AGTTTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (19 bp):
TTTGATTGAGTGAAAAAAT
Found at i:29948294 original size:21 final size:19
Alignment explanation
Indices: 29948254--29948299 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 19
29948244 TAGAGATGAT
29948254 AGTTTGATTGAGTGAAAAA
1 AGTTTGATTGAGTGAAAAA
*
29948273 ATTTTGAATTGAGTGAAAAAA
1 AGTTTG-ATTGAGTG-AAAAA
29948294 AGTTTG
1 AGTTTG
29948300 TTATTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 5 0.22
20 8 0.35
21 10 0.43
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (19 bp):
AGTTTGATTGAGTGAAAAA
Found at i:29952271 original size:15 final size:15
Alignment explanation
Indices: 29952251--29952281 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29952241 TTGGTTGGAT
*
29952251 TAGCTCTTATGAGCA
1 TAGCTCTCATGAGCA
29952266 TAGCTCTCATGAGCA
1 TAGCTCTCATGAGCA
29952281 T
1 T
29952282 TTGGAGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (15 bp):
TAGCTCTCATGAGCA
Found at i:29953178 original size:20 final size:20
Alignment explanation
Indices: 29953153--29953192 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
29953143 GTCATGTATC
29953153 CATTGGTTTTTAATTTTATT
1 CATTGGTTTTTAATTTTATT
29953173 CATTGGTTTTTAATTTTATT
1 CATTGGTTTTTAATTTTATT
29953193 TAACTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.65
Consensus pattern (20 bp):
CATTGGTTTTTAATTTTATT
Found at i:29957088 original size:26 final size:26
Alignment explanation
Indices: 29957058--29957110 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
29957048 TTATTGCATG
29957058 TAAGTCCCTAGCCATTTTTCATTGAT
1 TAAGTCCCTAGCCATTTTTCATTGAT
29957084 TAAGTCCCTAGCCATTTTTCATTGAT
1 TAAGTCCCTAGCCATTTTTCATTGAT
29957110 T
1 T
29957111 TTTTTTAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (26 bp):
TAAGTCCCTAGCCATTTTTCATTGAT
Found at i:29962889 original size:68 final size:68
Alignment explanation
Indices: 29962713--29962894 Score: 249
Period size: 68 Copynumber: 2.7 Consensus size: 68
29962703 AGAGGTTTAA
* * *
29962713 TGTGTAAGACCATAGCTAGGCTAT-GACAACATATGGAGTCCTCCAAGACAATAAACACGGGTTT
1 TGTGTAAGACCATAGCTAGGCTATGGA-AACATATGAAGTCTTCCAAGACAATAAACACGAGTTT
29962777 ATAT
65 ATAT
* * * *
29962781 TGTTTAAGACCATAGCTAGGCTATGGAAACATATGAAGTCTTCCAGGACAGTAAACATGAGTTTA
1 TGTGTAAGACCATAGCTAGGCTATGGAAACATATGAAGTCTTCCAAGACAATAAACACGAGTTTA
29962846 TAT
66 TAT
* * * *
29962849 TGTGTAAGACTATAGCTAGGCTATGGTAACAAATGAAGTCTGCCAA
1 TGTGTAAGACCATAGCTAGGCTATGGAAACATATGAAGTCTTCCAA
29962895 AATGGAAAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
68 98 0.98
69 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (68 bp):
TGTGTAAGACCATAGCTAGGCTATGGAAACATATGAAGTCTTCCAAGACAATAAACACGAGTTTA
TAT
Found at i:29970687 original size:12 final size:12
Alignment explanation
Indices: 29970670--29970694 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29970660 GGTGTTCATT
29970670 CGGTTAACCGAC
1 CGGTTAACCGAC
29970682 CGGTTAACCGAC
1 CGGTTAACCGAC
29970694 C
1 C
29970695 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:29970868 original size:9 final size:9
Alignment explanation
Indices: 29970854--29970932 Score: 113
Period size: 9 Copynumber: 8.8 Consensus size: 9
29970844 TTTGGTTAAA
29970854 AATTACCCG
1 AATTACCCG
*
29970863 AATTACCTG
1 AATTACCCG
*
29970872 AATTACCTG
1 AATTACCCG
29970881 AATTACCCG
1 AATTACCCG
29970890 AATTACCCG
1 AATTACCCG
*
29970899 AATTAACCG
1 AATTACCCG
*
29970908 AATTAACCG
1 AATTACCCG
*
29970917 AATTAACCG
1 AATTACCCG
29970926 AATTACC
1 AATTACC
29970933 GAAAAATACC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.38, C:0.27, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:29971436 original size:35 final size:35
Alignment explanation
Indices: 29971397--29971467 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
29971387 CGTCGTGCCC
*
29971397 AGCGTCGTGCCCACGACTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
29971432 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
1 AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
29971467 A
1 A
29971468 AAAGAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.28, C:0.34, G:0.24, T:0.14
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACTCCAACCGTGACAGAATA
Found at i:29979706 original size:35 final size:35
Alignment explanation
Indices: 29979660--29979730 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 35
29979650 CGTCGTGCCC
*
29979660 AGCGTCGTGCCCACGA-CTCCAGCCGTGACAGAATA
1 AGCGTCGTGCCCACGACCT-CAACCGTGACAGAATA
29979695 AGCGTCGTGCCCACGACCTCAACCGTGACAGAATA
1 AGCGTCGTGCCCACGACCTCAACCGTGACAGAATA
29979730 A
1 A
29979731 AAAGAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 32 0.94
36 2 0.06
ACGTcount: A:0.28, C:0.34, G:0.24, T:0.14
Consensus pattern (35 bp):
AGCGTCGTGCCCACGACCTCAACCGTGACAGAATA
Found at i:29984660 original size:20 final size:20
Alignment explanation
Indices: 29984637--29984677 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
29984627 AAGAATTGAG
29984637 ATAGTCGAGTGTGCATATTA
1 ATAGTCGAGTGTGCATATTA
29984657 ATAGTCGAGTGTGCATATTA
1 ATAGTCGAGTGTGCATATTA
29984677 A
1 A
29984678 CTTCATGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.24, T:0.34
Consensus pattern (20 bp):
ATAGTCGAGTGTGCATATTA
Found at i:29985708 original size:28 final size:26
Alignment explanation
Indices: 29985650--29985701 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
29985640 ATGCAGTTAT
29985650 ATTATTTTTTTTGGTTGATTAATTAC
1 ATTATTTTTTTTGGTTGATTAATTAC
* *
29985676 TTTATTGTTTCTTTGGTTGTTTAATT
1 ATTATT-TTT-TTTGGTTGATTAATT
29985702 TGATTATGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 3 0.14
28 14 0.64
ACGTcount: A:0.17, C:0.04, G:0.13, T:0.65
Consensus pattern (26 bp):
ATTATTTTTTTTGGTTGATTAATTAC
Found at i:30002168 original size:28 final size:29
Alignment explanation
Indices: 30002137--30002201 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
30002127 TACTTCTCCG
*
30002137 ACTCTTTTTCTACTCTTTATCCTT-GTTT
1 ACTCTTTTTATACTCTTTATCCTTCGTTT
* * * *
30002165 ACTCGTTTTATTCTCTTTTTCCTTCTTTT
1 ACTCTTTTTATACTCTTTATCCTTCGTTT
30002194 A-TCTTTTT
1 ACTCTTTTT
30002202 TCTCTACAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 26 0.87
29 4 0.13
ACGTcount: A:0.09, C:0.23, G:0.03, T:0.65
Consensus pattern (29 bp):
ACTCTTTTTATACTCTTTATCCTTCGTTT
Found at i:30007588 original size:14 final size:14
Alignment explanation
Indices: 30007543--30007607 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
30007533 TTATTTTATC
*
30007543 ATATATTTTATCTAT
1 ATATATTTTAT-TTT
* * *
30007558 AAATTATATTATATT
1 ATA-TATTTTATTTT
30007573 ATATATTTTATTTT
1 ATATATTTTATTTT
*
30007587 ATATA-TTT-CTTT
1 ATATATTTTATTTT
30007599 ATATATTTT
1 ATATATTTT
30007608 TATAAAATTG
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
12 8 0.20
13 6 0.15
14 14 0.35
15 5 0.12
16 7 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATATTTTATTTT
Found at i:30020149 original size:206 final size:206
Alignment explanation
Indices: 30019781--30020331 Score: 834
Period size: 206 Copynumber: 2.7 Consensus size: 206
30019771 GTAGATCTGG
*
30019781 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAATACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
30019846 GATTTGGCTTTCACATGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * **
30019911 AGAACAAATCAAAGTTTGGCGTCTCTATATTCGACGAAGAGCAGATACATAGCAGATATGGCCTT
130 AGAACAAATAAAAGTTTGGCGTCTCCATATTCGACGAAGAGCAGACACATAGCAGATATAACCTT
* * *
30019976 TAGATGTTTATA
195 CAGATGATTAGA
* * * *
30019988 CTGAAGCAGATCCAAGATGATTTGGCATCTTTGTGTTTACAAGGAACAAATCGAAGACATAGCCG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * * *
30020053 ATTTGGCTTTCGCGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTATCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * *
30020118 GAACAAATAAAAGTTTGGCGTCTCCATATTCGATGGAGGGTAGACACATAGCAGATCTAACCTTC
131 GAACAAATAAAAGTTTGGCGTCTCCATATTCGACGAAGAGCAGACACATAGCAGATATAACCTTC
30020183 AGATGATTAGA
196 AGATGATTAGA
*
30020194 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
30020259 ATTTGGTTTTCACGTGCTTAC-ATTGAATCAAATCTAAGATGATTTGGCATCTCTATATTGTCAG
66 ATTTGGCTTTCACGTGCTTACGA-TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
30020323 AGAACAAAT
130 AGAACAAAT
30020332 CGAATAAGCA
Statistics
Matches: 308, Mismatches: 35, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
206 301 0.98
207 7 0.02
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATAAAAGTTTGGCGTCTCCATATTCGACGAAGAGCAGACACATAGCAGATATAACCTTC
AGATGATTAGA
Found at i:30022091 original size:14 final size:14
Alignment explanation
Indices: 30022046--30022110 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
30022036 TTATTTTATC
*
30022046 ATATATTTTATCTAT
1 ATATATTTTAT-TTT
* * *
30022061 AAATTATATTATATT
1 ATA-TATTTTATTTT
30022076 ATATATTTTATTTT
1 ATATATTTTATTTT
*
30022090 ATATA-TTT-CTTT
1 ATATATTTTATTTT
30022102 ATATATTTT
1 ATATATTTT
30022111 TATAAAATTG
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
12 8 0.20
13 6 0.15
14 14 0.35
15 5 0.12
16 7 0.17
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATATTTTATTTT
Found at i:30022455 original size:21 final size:21
Alignment explanation
Indices: 30022431--30022471 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30022421 TTTCTTATAT
*
30022431 TTTTATATATTATTTATTTTG
1 TTTTATATACTATTTATTTTG
*
30022452 TTTTTTATACTATTTATTTT
1 TTTTATATACTATTTATTTT
30022472 ACTATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTTATATACTATTTATTTTG
Found at i:30024516 original size:10 final size:10
Alignment explanation
Indices: 30024501--30024598 Score: 110
Period size: 10 Copynumber: 9.4 Consensus size: 10
30024491 TCCTCTTATC
30024501 CAAATTCTCT
1 CAAATTCTCT
30024511 CAAATTCTCT
1 CAAATTCTCT
30024521 CAAATTCT-T
1 CAAATTCTCT
30024530 CCAAAAATTCTCT
1 -C--AAATTCTCT
30024543 CAAATTCTCT
1 CAAATTCTCT
30024553 CAAATTCT-T
1 CAAATTCTCT
30024562 CCAAAAATTCTCT
1 -C--AAATTCTCT
*
30024575 CATATTCTCT
1 CAAATTCTCT
*
30024585 CAAATTTTCT
1 CAAATTCTCT
30024595 CAAA
1 CAAA
30024599 GCTCTCTTTA
Statistics
Matches: 77, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
9 2 0.03
10 57 0.74
12 16 0.21
13 2 0.03
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:30024539 original size:32 final size:32
Alignment explanation
Indices: 30024502--30024598 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
30024492 CCTCTTATCC
30024502 AAATTCTCTCAAATTCTCTCAAATTCTTCCAA
1 AAATTCTCTCAAATTCTCTCAAATTCTTCCAA
30024534 AAATTCTCTCAAATTCTCTCAAATTCTTCCAA
1 AAATTCTCTCAAATTCTCTCAAATTCTTCCAA
*
30024566 AAATTCTCTCATATTCTCTCAAATT-TTCTCAA
1 AAATTCTCTCAAATTCTCTCAAATTCTTC-CAA
30024598 A
1 A
30024599 GCTCTCTTTA
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 3 0.05
32 60 0.95
ACGTcount: A:0.34, C:0.27, G:0.00, T:0.39
Consensus pattern (32 bp):
AAATTCTCTCAAATTCTCTCAAATTCTTCCAA
Found at i:30024841 original size:47 final size:48
Alignment explanation
Indices: 30024747--30024843 Score: 151
Period size: 47 Copynumber: 2.0 Consensus size: 48
30024737 AGGGATAATT
**
30024747 TTAATATTTCAATAGTATTTAATATTTTTTTAATTTATGCAATTTTAA
1 TTAATATTTCAATACAATTTAATATTTTTTTAATTTATGCAATTTTAA
* *
30024795 TTAATTTTTCAATACAATTTAATA-TTTTTTCATTTATGCAATTTTAA
1 TTAATATTTCAATACAATTTAATATTTTTTTAATTTATGCAATTTTAA
30024842 TT
1 TT
30024844 TTAATTTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 24 0.53
48 21 0.47
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (48 bp):
TTAATATTTCAATACAATTTAATATTTTTTTAATTTATGCAATTTTAA
Found at i:30024845 original size:6 final size:6
Alignment explanation
Indices: 30024834--30024858 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
30024824 TCATTTATGC
30024834 AATTTT AATTTT AATTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT A
30024859 TAAATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
AATTTT
Found at i:30025806 original size:7 final size:7
Alignment explanation
Indices: 30025794--30025839 Score: 83
Period size: 7 Copynumber: 6.6 Consensus size: 7
30025784 AATTATCTCA
30025794 TATTTAG
1 TATTTAG
*
30025801 TATTTAA
1 TATTTAG
30025808 TATTTAG
1 TATTTAG
30025815 TATTTAG
1 TATTTAG
30025822 TATTTAG
1 TATTTAG
30025829 TATTTAG
1 TATTTAG
30025836 TATT
1 TATT
30025840 ATGTATACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:30026493 original size:18 final size:18
Alignment explanation
Indices: 30026452--30026486 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30026442 GCCAGGTGCG
*
30026452 TATCCTAGCCCTTATATA
1 TATCCTAACCCTTATATA
30026470 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
30026487 GTTTCCTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.03, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:30026661 original size:22 final size:23
Alignment explanation
Indices: 30026636--30026680 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
30026626 CCATCGCCTT
*
30026636 ATGGG-ATTCAAACACCTCCGCC
1 ATGGGAATGCAAACACCTCCGCC
30026658 ATGGGTAATGCAAACACCTCCGC
1 ATGGG-AATGCAAACACCTCCGC
30026681 AGTCATTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
24 15 0.75
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.18
Consensus pattern (23 bp):
ATGGGAATGCAAACACCTCCGCC
Found at i:30026953 original size:27 final size:27
Alignment explanation
Indices: 30026923--30027020 Score: 85
Period size: 26 Copynumber: 3.6 Consensus size: 27
30026913 TAAAAGTTTT
30026923 TTTTAATATTT-TAATTATAATTTAATC
1 TTTT-ATATTTGTAATTATAATTTAATC
* ** *
30026950 TTTTATATTTGTAA-TAAAATAAAAGTTGT
1 TTTTATATTTGTAATTATAATTTAA--T-C
*
30026979 TTTTAGTATTT-TAATTATAATTTACTC
1 TTTTA-TATTTGTAATTATAATTTAATC
30027006 TTTTATATTTGTAAT
1 TTTTATATTTGTAAT
30027021 AGAATAAAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
26 18 0.33
27 16 0.29
28 2 0.04
29 8 0.15
30 11 0.20
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (27 bp):
TTTTATATTTGTAATTATAATTTAATC
Found at i:30026966 original size:56 final size:56
Alignment explanation
Indices: 30026905--30027042 Score: 231
Period size: 56 Copynumber: 2.5 Consensus size: 56
30026895 TTCTTTCATT
*
30026905 TAATAAAATAAAAGTTTTTTTTAATATTTTAATTATAATTTAATCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTAATCTTTTATATTTG
* *
30026961 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTAATCTTTTATATTTG
* *
30027017 TAATAGAATAAAAGTTGTTTTGAATA
1 TAATAAAATAAAAGTTGTTTTTAATA
30027043 AGGAAATATT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 76 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (56 bp):
TAATAAAATAAAAGTTGTTTTTAATATTTTAATTATAATTTAATCTTTTATATTTG
Found at i:30033103 original size:100 final size:100
Alignment explanation
Indices: 30032930--30033128 Score: 389
Period size: 100 Copynumber: 2.0 Consensus size: 100
30032920 AAAACTTTGT
30032930 TCTTTTCACCCCTTTTTCTTTTAATAAAATTTCATATTTCATCCATTTAATTCTTTAATACAAAA
1 TCTTTTCACCCCTTTTTCTTTTAATAAAATTTCATATTTCATCCATTTAATTCTTTAATACAAAA
30032995 GACATGAAATGCCCATCATGGAACATTTACCTAAG
66 GACATGAAATGCCCATCATGGAACATTTACCTAAG
30033030 TCTTTTCACCCCTTTTTCTTTTAATAAAATTTCATATTTCATCCATTTAATTCTTTAATACAAAA
1 TCTTTTCACCCCTTTTTCTTTTAATAAAATTTCATATTTCATCCATTTAATTCTTTAATACAAAA
*
30033095 GACATGAAATGCCCATCATGGAATATTTACCTAA
66 GACATGAAATGCCCATCATGGAACATTTACCTAA
30033129 TCCATTATCA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.33, C:0.21, G:0.06, T:0.41
Consensus pattern (100 bp):
TCTTTTCACCCCTTTTTCTTTTAATAAAATTTCATATTTCATCCATTTAATTCTTTAATACAAAA
GACATGAAATGCCCATCATGGAACATTTACCTAAG
Found at i:30033140 original size:26 final size:26
Alignment explanation
Indices: 30033109--30033164 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
30033099 TGAAATGCCC
* *
30033109 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
30033135 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30033161 ATCA
1 ATCA
30033165 ATTTGTACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30033781 original size:26 final size:25
Alignment explanation
Indices: 30033719--30033782 Score: 101
Period size: 26 Copynumber: 2.4 Consensus size: 25
30033709 AATTAATATT
30033719 TAATTTAATTAATTAATCTTACACCC
1 TAATTT-ATTAATTAATCTTACACCC
30033745 TAATTATATTAATTAATCTTACACCC
1 TAATT-TATTAATTAATCTTACACCC
30033771 TAATTTGATTAA
1 TAATTT-ATTAA
30033783 CTAAACCCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
25 1 0.03
26 34 0.94
27 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.44
Consensus pattern (25 bp):
TAATTTATTAATTAATCTTACACCC
Found at i:30033828 original size:22 final size:22
Alignment explanation
Indices: 30033798--30033846 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
30033788 CCCTTACAAA
* *
30033798 AACCATAAACCCTAAAAACCAT
1 AACCTTAAACCATAAAAACCAT
*
30033820 AACCTTAAACCATAAAAACCCT
1 AACCTTAAACCATAAAAACCAT
30033842 AACCT
1 AACCT
30033847 ACCCTAACCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.51, C:0.33, G:0.00, T:0.16
Consensus pattern (22 bp):
AACCTTAAACCATAAAAACCAT
Found at i:30033856 original size:6 final size:6
Alignment explanation
Indices: 30033836--30033871 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
30033826 AAACCATAAA
30033836 AACCCT AA-CCT -ACCCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AACCCT AACCCT AA
30033872 AAAACCCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.04
5 6 0.21
6 21 0.75
ACGTcount: A:0.36, C:0.47, G:0.00, T:0.17
Consensus pattern (6 bp):
AACCCT
Found at i:30050868 original size:41 final size:41
Alignment explanation
Indices: 30050810--30050892 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
30050800 AAAATTAGTA
*
30050810 GCTTCAATCTGTTCCACTACAACTTT-AGAGAGATAAGGTTC
1 GCTTCAATCTGTTCCACTACAACTTTAAG-GAGATAAGATTC
* * *
30050851 GCTTTAATCTGTTCCACTGCAATTTTAAGGAGATAAGATTC
1 GCTTCAATCTGTTCCACTACAACTTTAAGGAGATAAGATTC
30050892 G
1 G
30050893 TAACTTCAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 35 0.95
42 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (41 bp):
GCTTCAATCTGTTCCACTACAACTTTAAGGAGATAAGATTC
Found at i:30050982 original size:51 final size:48
Alignment explanation
Indices: 30050915--30051272 Score: 215
Period size: 51 Copynumber: 7.4 Consensus size: 48
30050905 GCTCTATTGC
*
30050915 AACTTCAGAGAGATAAGATCTGTAACTTGTCGCTTCAATCTGTTTCACTGT
1 AACTTCAGGGAGATAAGAT-TGTAAC-TGT-GCTTCAATCTGTTTCACTGT
* * * * * * *
30050966 AACTTTAGGGAAATAAGATTCG---CTAT-ATTCAATTTGCTCCACTGT
1 AACTTCAGGGAGATAAGATT-GTAACTGTGCTTCAATCTGTTTCACTGT
** *
30051011 AACTTTTGGGAGATAAGATTTGTAACTTGTAGCTTTAATCTG-TTCTACTGT
1 AACTTCAGGGAGATAAGA-TTGTAAC-TGT-GCTTCAATCTGTTTC-ACTGT
* * * * *
30051062 AAATTTAGGGAGATAAGATTCG---CTGT-ATTCAATCTG-CTCAACTGC
1 AACTTCAGGGAGATAAGATT-GTAACTGTGCTTCAATCTGTTTC-ACTGT
* *
30051107 AACTTCAGGGAGATAAAATTTGTAACATGTAGCTTCAATCTGTTCCACTGT
1 AACTTCAGGGAGATAAGA-TTGTAAC-TGT-GCTTCAATCTGTTTCACTGT
* * * *
30051158 AACTTCAGGGA-ATAAGA-T-TAACTAT-ATTCAATCTGCTTCACTGC
1 AACTTCAGGGAGATAAGATTGTAACTGTGCTTCAATCTGTTTCACTGT
* * * * *
30051202 AACTTCAAGGAGATAAGATTTGTGACTTATAGCTTCAATCTGTTCCACTGC
1 AACTTCAGGGAGATAAGA-TTGTAAC-TGT-GCTTCAATCTGTTTCACTGT
30051253 AACTTCAAGGGA-ATAAGATT
1 AACTTC-AGGGAGATAAGATT
30051273 AGCTATATTC
Statistics
Matches: 240, Mismatches: 41, Indels: 53
0.72 0.12 0.16
Matches are distributed among these distances:
44 25 0.10
45 68 0.28
46 6 0.03
47 10 0.04
48 8 0.03
49 8 0.03
50 12 0.05
51 98 0.41
52 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (48 bp):
AACTTCAGGGAGATAAGATTGTAACTGTGCTTCAATCTGTTTCACTGT
Found at i:30051009 original size:45 final size:45
Alignment explanation
Indices: 30050768--30051363 Score: 303
Period size: 44 Copynumber: 12.9 Consensus size: 45
30050758 ATCTTGTCGT
* * * * * * **
30050768 TTCAATCTGCTCTATTGCAACTTCAAGGAGATAAAATTAG-TAGC
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATA
* * * * *
30050812 TTCAATCTGTTCCACTACAACTTTAGAGAGATAAGGTTCGC--T-
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATA
* * * *
30050854 TT-AATCTGTTCCACTGCAATTTTAAGGAGATAAGATTCG-TA-A
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATA
* * * * * * *
30050896 CTTCAATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTAACTTGTCGC
1 -TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT-T-T-GC-TAT--A
* * * * *
30050948 TTCAATCTGTTTCACTGTAACTTTAGGGAAATAAGATTCGCTATA
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATA
* * * *
30050993 TTCAATTTGCTCCACTGTAACTTTTGGGAGATAAGATTTGTAACTTGTA
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG---C-TATA
* * * * * * *
30051042 GCTTTAATCTGTTCTACTGTAAATTTAGGGAGATAAGATTCGCTGTA
1 --TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATA
* * * *
30051089 TTCAATCTGCTCAACTGCAACTTCAGGGAGATAAAATTTGTAACATGTA
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG---C-TATA
* * * **
30051138 GCTTCAATCTGTTCCACTGTAACTTCAGGGA-ATAAGATTAACTATA
1 --TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATA
* * *
30051184 TTCAATCTGCTTCACTGCAACTTCAAGGAGATAAGATTTGTGACTTATA
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TT-TG-C-TATA
* * *
30051233 GCTTCAATCTGTTCCACTGCAACTTCAAGGGA-ATAAGATTAGCTATA
1 --TTCAATCTGCTCCACTGCAACTT-TAGGGAGATAAGATTTGCTATA
* * * ***
30051280 TTCAATCTCCTCTACTACAACTTTAGGGAGATAAGATTTG-TGGC
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATA
* * * *
30051324 TTTAATCAGTTCCACTGCAACTTTAGGGAGATAAAATTTG
1 TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG
30051364 TCATGGTGAC
Statistics
Matches: 422, Mismatches: 95, Indels: 70
0.72 0.16 0.12
Matches are distributed among these distances:
41 32 0.08
42 2 0.00
43 2 0.00
44 121 0.29
45 101 0.24
46 5 0.01
47 11 0.03
48 6 0.01
49 13 0.03
50 10 0.02
51 115 0.27
52 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (45 bp):
TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCTATA
Found at i:30051035 original size:96 final size:96
Alignment explanation
Indices: 30050851--30051320 Score: 561
Period size: 96 Copynumber: 4.9 Consensus size: 96
30050841 GATAAGGTTC
* * * * * * *
30050851 GCTTTAATCTGTTCCACTGCAATTTTAAGGAGATAAGATTCG-TA-ACTTCAATCTGCTCTATTG
1 GCTTCAATCTGTTCCACTGTAACTTTAGGGAAATAAGATTCGCTATA-TTCAATCTGCTCCACTG
* * *
30050914 CAACTTCAGAGAGATAAGATCTGTAACTTGTC
65 CAACTTCAGGGAGATAAGATTTGTAACTTGTA
* * *
30050946 GCTTCAATCTGTTTCACTGTAACTTTAGGGAAATAAGATTCGCTATATTCAATTTGCTCCACTGT
1 GCTTCAATCTGTTCCACTGTAACTTTAGGGAAATAAGATTCGCTATATTCAATCTGCTCCACTGC
**
30051011 AACTTTTGGGAGATAAGATTTGTAACTTGTA
66 AACTTCAGGGAGATAAGATTTGTAACTTGTA
* * * * * *
30051042 GCTTTAATCTGTTCTACTGTAAATTTAGGGAGATAAGATTCGCTGTATTCAATCTGCTCAACTGC
1 GCTTCAATCTGTTCCACTGTAACTTTAGGGAAATAAGATTCGCTATATTCAATCTGCTCCACTGC
* *
30051107 AACTTCAGGGAGATAAAATTTGTAACATGTA
66 AACTTCAGGGAGATAAGATTTGTAACTTGTA
* ** *
30051138 GCTTCAATCTGTTCCACTGTAACTTCAGGG-AATAAGATTAACTATATTCAATCTGCTTCACTGC
1 GCTTCAATCTGTTCCACTGTAACTTTAGGGAAATAAGATTCGCTATATTCAATCTGCTCCACTGC
* * *
30051202 AACTTCAAGGAGATAAGATTTGTGACTTATA
66 AACTTCAGGGAGATAAGATTTGTAACTTGTA
* * * * * *
30051233 GCTTCAATCTGTTCCACTGCAACTTCAAGGG-AATAAGATTAGCTATATTCAATCTCCTCTACTA
1 GCTTCAATCTGTTCCACTGTAACTT-TAGGGAAATAAGATTCGCTATATTCAATCTGCTCCACTG
*
30051297 CAACTTTAGGGAGATAAGATTTGT
65 CAACTTCAGGGAGATAAGATTTGT
30051321 GGCTTTAATC
Statistics
Matches: 320, Mismatches: 52, Indels: 5
0.85 0.14 0.01
Matches are distributed among these distances:
95 114 0.36
96 205 0.64
97 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (96 bp):
GCTTCAATCTGTTCCACTGTAACTTTAGGGAAATAAGATTCGCTATATTCAATCTGCTCCACTGC
AACTTCAGGGAGATAAGATTTGTAACTTGTA
Found at i:30051216 original size:191 final size:191
Alignment explanation
Indices: 30050851--30051320 Score: 604
Period size: 191 Copynumber: 2.5 Consensus size: 191
30050841 GATAAGGTTC
* * * *
30050851 GCTTTAATCTGTTCCACTGCAATTTTAAGGAGATAAGATTCG-TAACTTCAATCTGCTCTATTGC
1 GCTTTAATCTGTTCCACTGCAAATTTAGGGAGATAAGATTCGCTTA-TTCAATCTGCTCTACTGC
* * * * * *
30050915 AACTTCAGAGAGATAAGATCTGTAACTTGTCGCTTCAATCTGTTTCACTGTAACTTTAGGGAAAT
65 AACTTCAGGGAGATAAGATTTGTAACATGTAGCTTCAATCTGTTCCACTGTAACTTCAGGGAAAT
** * * *** *
30050980 AAGATTCGCTATATTCAATTTGCTCCACTGTAACTTTTGGGAGATAAGATTTGTAACTTGTA
130 AAGATTAACTATATTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTATA
* * *
30051042 GCTTTAATCTGTTCTACTGTAAATTTAGGGAGATAAGATTCGCTGTATTCAATCTGCTCAACTGC
1 GCTTTAATCTGTTCCACTGCAAATTTAGGGAGATAAGATTCGCT-TATTCAATCTGCTCTACTGC
*
30051107 AACTTCAGGGAGATAAAATTTGTAACATGTAGCTTCAATCTGTTCCACTGTAACTTCAGGG-AAT
65 AACTTCAGGGAGATAAGATTTGTAACATGTAGCTTCAATCTGTTCCACTGTAACTTCAGGGAAAT
* *
30051171 AAGATTAACTATATTCAATCTGCTTCACTGCAACTTCAAGGAGATAAGATTTGTGACTTATA
130 AAGATTAACTATATTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTATA
* * * * * *
30051233 GCTTCAATCTGTTCCACTGCAACTTCAAGGGA-ATAAGATTAGCTATATTCAATCTCCTCTACTA
1 GCTTTAATCTGTTCCACTGCAAATT-TAGGGAGATAAGATTCGCT-TATTCAATCTGCTCTACTG
*
30051297 CAACTTTAGGGAGATAAGATTTGT
64 CAACTTCAGGGAGATAAGATTTGT
30051321 GGCTTTAATC
Statistics
Matches: 240, Mismatches: 36, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
191 163 0.68
192 76 0.32
193 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (191 bp):
GCTTTAATCTGTTCCACTGCAAATTTAGGGAGATAAGATTCGCTTATTCAATCTGCTCTACTGCA
ACTTCAGGGAGATAAGATTTGTAACATGTAGCTTCAATCTGTTCCACTGTAACTTCAGGGAAATA
AGATTAACTATATTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTATA
Found at i:30054311 original size:33 final size:33
Alignment explanation
Indices: 30054269--30054333 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
30054259 GTACTGTCTC
30054269 AATCTTCGGGTTATTCAGATTAAGGTACAACAT
1 AATCTTCGGGTTATTCAGATTAAGGTACAACAT
* *
30054302 AATCTTCGGGTTGTTTAGATTAAGGTACAACA
1 AATCTTCGGGTTATTCAGATTAAGGTACAACA
30054334 CAACTTCTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (33 bp):
AATCTTCGGGTTATTCAGATTAAGGTACAACAT
Found at i:30064829 original size:7 final size:7
Alignment explanation
Indices: 30064819--30064863 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
30064809 GTACATTATA
*
30064819 TATTATT
1 TATTGTT
*
30064826 TATTAT-
1 TATTGTT
30064832 TATTGTT
1 TATTGTT
30064839 TATTGTT
1 TATTGTT
30064846 TATTGTT
1 TATTGTT
30064853 TATTGTT
1 TATTGTT
30064860 TATT
1 TATT
30064864 TTATAATGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
6 5 0.14
7 31 0.86
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (7 bp):
TATTGTT
Found at i:30065923 original size:13 final size:12
Alignment explanation
Indices: 30065901--30065950 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 12
30065891 TTCATATTTC
*
30065901 TATACAAAAATCT
1 TATA-AAAAATAT
30065914 TATAATAAAATAT
1 TATAA-AAAATAT
30065927 TATAAAAAATAT
1 TATAAAAAATAT
*
30065939 TA-ATAAAATAT
1 TATAAAAAATAT
30065950 T
1 T
30065951 TTAACCAGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 9 0.26
12 10 0.29
13 15 0.44
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (12 bp):
TATAAAAAATAT
Found at i:30065946 original size:11 final size:11
Alignment explanation
Indices: 30065916--30065950 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
30065906 AAAAATCTTA
30065916 TAATAAAATAT
1 TAATAAAATAT
*
30065927 TATAAAAAATAT
1 TA-ATAAAATAT
30065939 TAATAAAATAT
1 TAATAAAATAT
30065950 T
1 T
30065951 TTAACCAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:30066878 original size:21 final size:21
Alignment explanation
Indices: 30066830--30066888 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
30066820 TCGATGATTA
* *
30066830 AGTAT-TACTATATAATGTAAT
1 AGTATATATTATATTAT-TAAT
30066851 AGT-TATATTATATTATTAAT
1 AGTATATATTATATTATTAAT
*
30066871 AGTATATATTTTATTATT
1 AGTATATATTATATTATT
30066889 TTATGGAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 8 0.24
21 25 0.76
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.53
Consensus pattern (21 bp):
AGTATATATTATATTATTAAT
Done.