Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008310.1 Hibiscus syriacus cultivar Beakdansim tig00111000_pilon, whole genome shotgun sequence
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: 3887810
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 15
Found at i:1340209 original size:19 final size:19
Alignment explanation
Indices: 1340166--1340209 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1340156 AATATAATTG
* *
1340166 TAAAAAATGACAAAGAATT
1 TAAAAAATGAAAAAGAATA
*
1340185 TAAAAAATGAAAAATAATA
1 TAAAAAATGAAAAAGAATA
1340204 TGAAAA
1 T-AAAA
1340210 TGTATAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.68, C:0.02, G:0.09, T:0.20
Consensus pattern (19 bp):
TAAAAAATGAAAAAGAATA
Found at i:1364151 original size:77 final size:79
Alignment explanation
Indices: 1364057--1364201 Score: 199
Period size: 77 Copynumber: 1.9 Consensus size: 79
1364047 AAAAAATATG
*
1364057 ATTTAATTAATTCAAATTAAATATAC-ATT-AAAGACTTATAATCAAAATTACAATC-TTTATTG
1 ATTTAATTAATTCAAATTAAATAT-CGATTAAAAGACTTATAATCAAAATTACAATCTTTTAATG
1364119 TTTATTTAAACTCTT
65 TTTATTTAAACTCTT
* * * *
1364134 ATTTAATT-ATTCTAAATTAAATATCGATTAAAAGAGTTGTAATCAAAGTTACATTCTTTTAATG
1 ATTTAATTAATTC-AAATTAAATATCGATTAAAAGACTTATAATCAAAATTACAATCTTTTAATG
1364198 TTTA
65 TTTA
1364202 CTTACTATAT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
76 5 0.08
77 22 0.37
78 22 0.37
79 10 0.17
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (79 bp):
ATTTAATTAATTCAAATTAAATATCGATTAAAAGACTTATAATCAAAATTACAATCTTTTAATGT
TTATTTAAACTCTT
Found at i:1374196 original size:65 final size:64
Alignment explanation
Indices: 1374099--1374241 Score: 153
Period size: 65 Copynumber: 2.2 Consensus size: 64
1374089 TACACTAGGG
* *** * * *
1374099 TGTGCATCGGTGCACAAATTTTCTTCGATGTTTCAA-AAATAGTCGGGGTGCATCGATGCATGGC
1 TGTGCATCGGTGCACAAAATCAATTCGATGTTTCAATAAA-AGTCAGAGTGCATCAATGCATGG-
*
1374163 T
64 A
* * *
1374164 TGTGCATCGGTGCACAAAATCAATTCGTTGTTTTAATAAAATTCAGAGTGCATCAATGCATGGA
1 TGTGCATCGGTGCACAAAATCAATTCGATGTTTCAATAAAAGTCAGAGTGCATCAATGCATGGA
*
1374228 TGTGCATCAGTGCA
1 TGTGCATCGGTGCA
1374242 TAAATTGTAT
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
64 13 0.20
65 49 0.75
66 3 0.05
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.31
Consensus pattern (64 bp):
TGTGCATCGGTGCACAAAATCAATTCGATGTTTCAATAAAAGTCAGAGTGCATCAATGCATGGA
Found at i:1376159 original size:6 final size:6
Alignment explanation
Indices: 1376148--1376174 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1376138 TATTTGGGTC
1376148 ATTTGG ATTTGG ATTTGG ATTTGG ATT
1 ATTTGG ATTTGG ATTTGG ATTTGG ATT
1376175 AGGTGGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.52
Consensus pattern (6 bp):
ATTTGG
Found at i:1376936 original size:23 final size:23
Alignment explanation
Indices: 1376902--1376981 Score: 92
Period size: 23 Copynumber: 3.6 Consensus size: 23
1376892 CACAGCAGAG
*
1376902 TGCATCGATGCACATTCAAGTCA
1 TGCATCGATGCACATTCAAGTGA
* * *
1376925 TGCATCGGTGCACCTTC-A-TGG
1 TGCATCGATGCACATTCAAGTGA
* *
1376946 TGAATCGATGCACATTCAAGGGA
1 TGCATCGATGCACATTCAAGTGA
1376969 TGCATCGATGCAC
1 TGCATCGATGCAC
1376982 TAGGTAGTGT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 28 0.62
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGTGA
Found at i:1386114 original size:30 final size:30
Alignment explanation
Indices: 1386058--1386135 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
1386048 AGAACCTGAA
** *
1386058 GAAAACCGGGAAAACTTGGGTGAACC-GACT
1 GAAAACCGGGAAAACCGGGGTAAACCGGA-T
1386088 GAAAACCGGGAAAACCGGGGTAAACCGGAT
1 GAAAACCGGGAAAACCGGGGTAAACCGGAT
* *
1386118 GAAAACTGGCAAAACCGG
1 GAAAACCGGGAAAACCGG
1386136 TTTGAACCGC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 40 0.95
31 2 0.05
ACGTcount: A:0.40, C:0.21, G:0.31, T:0.09
Consensus pattern (30 bp):
GAAAACCGGGAAAACCGGGGTAAACCGGAT
Found at i:1386144 original size:30 final size:31
Alignment explanation
Indices: 1386058--1386144 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 31
1386048 AGAACCTGAA
* **
1386058 GAAAACCGGGAAAACTTGGGTGAACC-GACT
1 GAAAACCGGCAAAACCGGGGTGAACCGGACT
* *
1386088 GAAAACCGGGAAAACCGGGGTAAACCGGA-T
1 GAAAACCGGCAAAACCGGGGTGAACCGGACT
* **
1386118 GAAAACTGGCAAAACCGGTTTGAACCG
1 GAAAACCGGCAAAACCGGGGTGAACCG
1386145 CCGGTTCACT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 46 0.96
31 2 0.04
ACGTcount: A:0.38, C:0.21, G:0.30, T:0.11
Consensus pattern (31 bp):
GAAAACCGGCAAAACCGGGGTGAACCGGACT
Found at i:1386398 original size:24 final size:24
Alignment explanation
Indices: 1386368--1386423 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
1386358 TAGAAGTTCG
1386368 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
1386392 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
1386416 ATTGAAGC
1 ATTGAAGC
1386424 GAAATAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (24 bp):
ATTGAAGCCTAAAATTTGAGCTCA
Found at i:1394803 original size:19 final size:19
Alignment explanation
Indices: 1394759--1394810 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
1394749 AATTAATTGA
1394759 ACATCGAATGCA-T-TCCAT
1 ACATCG-ATGCACTCTCCAT
*
1394777 ACACCGATGCACTCTCCAT
1 ACATCGATGCACTCTCCAT
*
1394796 GCATCGATGCACTCT
1 ACATCGATGCACTCT
1394811 GAATATTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 5 0.17
18 6 0.21
19 18 0.62
ACGTcount: A:0.27, C:0.35, G:0.13, T:0.25
Consensus pattern (19 bp):
ACATCGATGCACTCTCCAT
Found at i:1394905 original size:18 final size:17
Alignment explanation
Indices: 1394882--1394916 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1394872 CCAGGCTATT
1394882 TTTCAAACATCGAATGCA
1 TTTCAAACATCG-ATGCA
*
1394900 TTTCAAGCATCGATGCA
1 TTTCAAACATCGATGCA
1394917 CACTTGGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (17 bp):
TTTCAAACATCGATGCA
Found at i:1394915 original size:64 final size:65
Alignment explanation
Indices: 1394758--1394918 Score: 184
Period size: 65 Copynumber: 2.5 Consensus size: 65
1394748 GAATTAATTG
* * *** *
1394758 AACATCGAATGCATTCCATA-CACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCA
1 AACATCGAATGCATTTCA-AGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCA
1394822 A
65 A
* * * **
1394823 AACATCGAATGCATTTGATGCATTGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCAAGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
1394886 A
65 A
1394887 AACATCGAATGCATTTCAAGCATCGATGCACA
1 AACATCGAATGCATTTCAAGCATCGATGCACA
1394919 CTTGGTGCAC
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
64 34 0.43
65 46 0.57
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCAAGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:1406435 original size:21 final size:21
Alignment explanation
Indices: 1406411--1406474 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
1406401 AAAACCGTCC
1406411 TCCCGTTCCTCAACATCCTAA
1 TCCCGTTCCTCAACATCCTAA
** *
1406432 TCCCGTTCCTCCTCAACCTAA
1 TCCCGTTCCTCAACATCCTAA
* *
1406453 TCCTGATCCTCAAGC-TCCTAA
1 TCCCGTTCCTCAA-CATCCTAA
1406474 T
1 T
1406475 GGCTTATTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.22, C:0.42, G:0.06, T:0.30
Consensus pattern (21 bp):
TCCCGTTCCTCAACATCCTAA
Found at i:1407300 original size:21 final size:21
Alignment explanation
Indices: 1407274--1407317 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1407264 ACTCCGGGAG
*
1407274 CTAGTTCTTCTCGAGCTGCTC
1 CTAGTTCTTCTCGAGCTCCTC
* *
1407295 CTAGTTCTTTTCGTGCTCCTC
1 CTAGTTCTTCTCGAGCTCCTC
1407316 CT
1 CT
1407318 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.34, G:0.16, T:0.43
Consensus pattern (21 bp):
CTAGTTCTTCTCGAGCTCCTC
Found at i:1408391 original size:19 final size:19
Alignment explanation
Indices: 1408367--1408405 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1408357 TCGAATGCAT
1408367 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1408386 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1408405 T
1 T
1408406 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1408422 original size:65 final size:64
Alignment explanation
Indices: 1408353--1408513 Score: 189
Period size: 65 Copynumber: 2.5 Consensus size: 64
1408343 GAATTAATTG
* * *** *
1408353 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGAATATTTTTC-
1408417 A
64 A
* * * * **
1408418 AACATCGAACGCATTTGATGTATCGATACACAAGCCATGCATCGATGCACCAGGCTATTTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACCAGAATATTTTTCA
1408482 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
1408514 CTTGGTACAC
Statistics
Matches: 79, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
64 33 0.42
65 46 0.58
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACCAGAATATTTTTCA
Found at i:1411324 original size:23 final size:23
Alignment explanation
Indices: 1411289--1411340 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
1411279 GGAATCGATA
*
1411289 CCCCC-TTGTAGGGGAACCAATT
1 CCCCCTTTGAAGGGGAACCAATT
* *
1411311 CCCCCTTTGAAGGGGAATCGATT
1 CCCCCTTTGAAGGGGAACCAATT
1411334 CCCCCTT
1 CCCCCTT
1411341 GGAGCGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.19, C:0.35, G:0.21, T:0.25
Consensus pattern (23 bp):
CCCCCTTTGAAGGGGAACCAATT
Found at i:1415316 original size:6 final size:6
Alignment explanation
Indices: 1415301--1415332 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
1415291 GAGTGATTTG
*
1415301 GATGAA GATGAC GATGAC GATGAC GATGAC GA
1 GATGAC GATGAC GATGAC GATGAC GATGAC GA
1415333 GGAAATGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.34, T:0.16
Consensus pattern (6 bp):
GATGAC
Found at i:1417503 original size:15 final size:15
Alignment explanation
Indices: 1417483--1417515 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1417473 CCCTTCCGAG
1417483 GAAGGATTCTTGTGT
1 GAAGGATTCTTGTGT
1417498 GAAGGATTCTTGTGT
1 GAAGGATTCTTGTGT
1417513 GAA
1 GAA
1417516 TGATGATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.33, T:0.36
Consensus pattern (15 bp):
GAAGGATTCTTGTGT
Found at i:1419604 original size:23 final size:22
Alignment explanation
Indices: 1419581--1419657 Score: 66
Period size: 23 Copynumber: 3.5 Consensus size: 22
1419571 TAGACTATGT
*
1419581 ACCGATGCATCCCTTGAATGTGT
1 ACCGATGCA-CCCTTGAATGTGC
* * * *
1419604 ATCGATACA-CCATGAAGGTGC
1 ACCGATGCACCCTTGAATGTGC
*
1419625 ACCGATGTACTCCTTGAATGTGC
1 ACCGATGCAC-CCTTGAATGTGC
*
1419648 ATCGATGCAC
1 ACCGATGCAC
1419658 TATGTTGTGC
Statistics
Matches: 40, Mismatches: 12, Indels: 4
0.71 0.21 0.07
Matches are distributed among these distances:
21 15 0.38
23 25 0.62
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (22 bp):
ACCGATGCACCCTTGAATGTGC
Found at i:1424278 original size:3 final size:3
Alignment explanation
Indices: 1424266--1424319 Score: 72
Period size: 3 Copynumber: 17.3 Consensus size: 3
1424256 ATTTAAAAAA
* *
1424266 TAT TATT TAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAA TAT TTT
1 TAT TA-T TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
1424313 TAT TAT T
1 TAT TAT T
1424320 TTACAGGAAC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:1424290 original size:19 final size:19
Alignment explanation
Indices: 1424266--1424319 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
1424256 ATTTAAAAAA
1424266 TATTATTTATTATTATTAT
1 TATTATTTATTATTATTAT
1424285 TATTATTTATTATTATTAT
1 TATTATTTATTATTATTAT
*
1424304 TAATATTT-TTATTATT
1 TATTATTTATTATTATT
1424320 TTACAGGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 8 0.24
19 26 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTATTTATTATTATTAT
Found at i:1425500 original size:25 final size:25
Alignment explanation
Indices: 1425472--1425522 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
1425462 AATATTTTAT
1425472 ATATAAT-TAATATAAAAAATATAAA
1 ATATAATAT-ATATAAAAAATATAAA
* **
1425497 ATATTATATATATAATTAATATAAA
1 ATATAATATATATAAAAAATATAAA
1425522 A
1 A
1425523 AATATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (25 bp):
ATATAATATATATAAAAAATATAAA
Found at i:1425507 original size:34 final size:34
Alignment explanation
Indices: 1425460--1425544 Score: 161
Period size: 34 Copynumber: 2.5 Consensus size: 34
1425450 TCCGAACCCG
*
1425460 AAAATATTTTATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
1425494 AAAATATTATATATATAATTAATATAAAAAATAT
1 AAAATATTATATATATAATTAATATAAAAAATAT
1425528 AAAATATTATATATATA
1 AAAATATTATATATATA
1425545 TATATATATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (34 bp):
AAAATATTATATATATAATTAATATAAAAAATAT
Found at i:1437324 original size:34 final size:34
Alignment explanation
Indices: 1437279--1437345 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
1437269 AATAGGAATT
*
1437279 ACAACTTCTCTC-GATCTAACAAGGAGAAAACAAGA
1 ACAACTTCTCTCTGA--TAAAAAGGAGAAAACAAGA
1437314 ACAA-TTCTCTCTTGATAAAAAGGAGAAAACAA
1 ACAACTTCTCTC-TGATAAAAAGGAGAAAACAA
1437346 CTCTCAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 23 0.79
35 4 0.14
36 2 0.07
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (34 bp):
ACAACTTCTCTCTGATAAAAAGGAGAAAACAAGA
Found at i:1444466 original size:24 final size:24
Alignment explanation
Indices: 1444438--1444484 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1444428 TCAAATTATG
*
1444438 TTCTAAACATTCTCATCATTTCTA
1 TTCTAAACATTCTCATAATTTCTA
1444462 TTCTAAACATTCTCATAATTTCT
1 TTCTAAACATTCTCATAATTTCT
1444485 CCAATCAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (24 bp):
TTCTAAACATTCTCATAATTTCTA
Found at i:1445090 original size:36 final size:35
Alignment explanation
Indices: 1445030--1445110 Score: 108
Period size: 36 Copynumber: 2.3 Consensus size: 35
1445020 CTTGGCTTGC
** *
1445030 TTTCTTTTTGACTTTTTCTCCTTTTTTTATTTTAT
1 TTTCTTTTTGAAATTTTCTCCTTTTTGTATTTTAT
* *
1445065 TTTCTTTTCTGAAATTTTCTTCTTTTTGTCTTTTAT
1 TTTCTTTT-TGAAATTTTCTCCTTTTTGTATTTTAT
1445101 TTTCTTTTTG
1 TTTCTTTTTG
1445111 TACTCCAATT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 10 0.25
36 30 0.75
ACGTcount: A:0.09, C:0.14, G:0.05, T:0.73
Consensus pattern (35 bp):
TTTCTTTTTGAAATTTTCTCCTTTTTGTATTTTAT
Found at i:1445110 original size:18 final size:17
Alignment explanation
Indices: 1445030--1445112 Score: 60
Period size: 18 Copynumber: 4.7 Consensus size: 17
1445020 CTTGGCTTGC
1445030 TTTCTTTTTG-ACTTTTT
1 TTTCTTTTTGTA-TTTTT
* * *
1445047 CTCCTTTTTTTATTTTAT
1 TTTCTTTTTGTATTTT-T
* *
1445065 TTTCTTTTCTGAAATTTT
1 TTTCTTTT-TGTATTTTT
* *
1445083 CTTCTTTTTGTCTTTTAT
1 TTTCTTTTTGTATTTT-T
1445101 TTTCTTTTTGTA
1 TTTCTTTTTGTA
1445113 CTCCAATTTT
Statistics
Matches: 48, Mismatches: 14, Indels: 7
0.70 0.20 0.10
Matches are distributed among these distances:
17 16 0.33
18 27 0.56
19 5 0.10
ACGTcount: A:0.10, C:0.13, G:0.05, T:0.72
Consensus pattern (17 bp):
TTTCTTTTTGTATTTTT
Found at i:1446741 original size:14 final size:14
Alignment explanation
Indices: 1446695--1446741 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
1446685 AGTTATTATC
1446695 ATAATAACTATAGAT
1 ATAATAACTATAG-T
1446710 ATAATATA-TATA-T
1 ATAATA-ACTATAGT
1446723 GATAATAACTATAGT
1 -ATAATAACTATAGT
1446738 ATAA
1 ATAA
1446742 CAAATGAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.07
14 14 0.50
15 11 0.39
16 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.36
Consensus pattern (14 bp):
ATAATAACTATAGT
Found at i:1449011 original size:20 final size:20
Alignment explanation
Indices: 1448969--1449013 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1448959 ATTTGAGAGG
* *
1448969 TTCTAGAGAATTATAGAGCT
1 TTCTAGAGAAGTATAGAACT
* *
1448989 TTCTGGAGAAGTATAGAATT
1 TTCTAGAGAAGTATAGAACT
1449009 TTCTA
1 TTCTA
1449014 CAATATTTCG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (20 bp):
TTCTAGAGAAGTATAGAACT
Found at i:1449048 original size:18 final size:17
Alignment explanation
Indices: 1449025--1449063 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
1449015 AATATTTCGA
1449025 AGAACTCTAGAGAAGTGT
1 AGAACTCTAGAGAAG-GT
**
1449043 AGAACTCTCTAGAAGGT
1 AGAACTCTAGAGAAGGT
1449060 AGAA
1 AGAA
1449064 GATTGTGGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.21
Consensus pattern (17 bp):
AGAACTCTAGAGAAGGT
Found at i:1449124 original size:50 final size:50
Alignment explanation
Indices: 1449061--1449165 Score: 156
Period size: 50 Copynumber: 2.1 Consensus size: 50
1449051 CTAGAAGGTA
* * * *
1449061 GAAGATTGTGGAATCCTCTGGAAAATTCTGGAGATGTGTAGAATCTTGTG
1 GAAGAATGTGGAATCCTCTGGAAAATTCTAGAGATGTGTAGAACCTTATG
* *
1449111 GAAGAATGTGGAATCCTCTGGAATATTCTAGAGATGTGTGGAACCTTATG
1 GAAGAATGTGGAATCCTCTGGAAAATTCTAGAGATGTGTAGAACCTTATG
1449161 GAAGA
1 GAAGA
1449166 CTATGGAAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (50 bp):
GAAGAATGTGGAATCCTCTGGAAAATTCTAGAGATGTGTAGAACCTTATG
Found at i:1449183 original size:50 final size:50
Alignment explanation
Indices: 1449079--1449183 Score: 111
Period size: 50 Copynumber: 2.1 Consensus size: 50
1449069 TGGAATCCTC
* * * * *** *
1449079 TGGAAAATTCTGGAGATGTGTAGAATCTTGTGGAAGAATGTGGAATCCTC
1 TGGAAAATTCTAGAGATGTGTAGAACCTTATGGAAGAATATGGAAGAATA
* * *
1449129 TGGAATATTCTAGAGATGTGTGGAACCTTATGGAAGACTATGGAAGAATA
1 TGGAAAATTCTAGAGATGTGTAGAACCTTATGGAAGAATATGGAAGAATA
1449179 TGGAA
1 TGGAA
1449184 GGGAGTTGAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (50 bp):
TGGAAAATTCTAGAGATGTGTAGAACCTTATGGAAGAATATGGAAGAATA
Found at i:1461274 original size:24 final size:22
Alignment explanation
Indices: 1461223--1461277 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
1461213 AATTTGAAAA
*
1461223 ATATTTTGGGATTTATATTTTG
1 ATATTTTAGGATTTATATTTTG
*
1461245 ATTATTATTAGGATTTATCTTTTAG
1 A-TATT-TTAGGATTTATATTTT-G
1461270 ATATTTTA
1 ATATTTTA
1461278 TTTAACATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 1 0.04
23 7 0.25
24 18 0.64
25 2 0.07
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (22 bp):
ATATTTTAGGATTTATATTTTG
Found at i:1464811 original size:93 final size:94
Alignment explanation
Indices: 1464698--1464939 Score: 281
Period size: 93 Copynumber: 2.6 Consensus size: 94
1464688 AACTAAGTAT
* *
1464698 TATA-TTTTAAAAGAGTTTGATAATTACAACAATTATCTTTATTTTAACTATA-AAACACATCTC
1 TATATTTTTAATAGAGTTTGATAATTACAACAATTATCTTTATTTTAAATATATAAACACATCTC
* * *
1464761 AACTCAGATTAGGTTTTATTAAATAAATA
66 AACTCAGATAAGGTTTTATCAAATAAAGA
* * * *** *
1464790 TATATTTTTAATAGAGTTTGATGATTACAATAATTATCTTTGTTTTAAATATATAAATTTATTTC
1 TATATTTTTAATAGAGTTTGATAATTACAACAATTATCTTTATTTTAAATATATAAACACATCTC
*
1464855 AACTCAGATAAGGTTTTATCATATAAAGA
66 AACTCAGATAAGGTTTTATCAAATAAAGA
* * * ** * *
1464884 TATATATTTCAATAGAATTTGATAATTATAACAACCATCTCTCTTTTAAATATATA
1 TATAT-TTTTAATAGAGTTTGATAATTACAACAATTATCTTTATTTTAAATATATA
1464940 TAAATTTATT
Statistics
Matches: 125, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
92 4 0.03
93 43 0.34
94 37 0.30
95 41 0.33
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (94 bp):
TATATTTTTAATAGAGTTTGATAATTACAACAATTATCTTTATTTTAAATATATAAACACATCTC
AACTCAGATAAGGTTTTATCAAATAAAGA
Found at i:1464966 original size:97 final size:94
Alignment explanation
Indices: 1464698--1464978 Score: 287
Period size: 97 Copynumber: 3.0 Consensus size: 94
1464688 AACTAAGTAT
* * ** * * * *** *
1464698 TATATTTT-AAAAGAGTTTGATAATTACAACAATTATCTTTATTTTAACTATA-AAACACATCTC
1 TATATTTTCAATAGAATTTGATAATTACAACAACCATCTCTCTTTTAAATATATAAATTTATTTC
* * * *
1464761 AACTCAGATTAGGTTTTATTAAATAAATA
66 AACTCAGATAAGGTTTTATCATATAAAGA
* * * * ** * *
1464790 TATATTTTTAATAGAGTTTGATGATTACAATAATTATCTTTGTTTTAAATATATAAATTTATTTC
1 TATATTTTCAATAGAATTTGATAATTACAACAACCATCTCTCTTTTAAATATATAAATTTATTTC
1464855 AACTCAGATAAGGTTTTATCATATAAAGA
66 AACTCAGATAAGGTTTTATCATATAAAGA
*
1464884 TATATATTTCAATAGAATTTGATAATTATAACAACCATCTCTCTTTTAAATATATATAAATTTAT
1 TATAT-TTTCAATAGAATTTGATAATTACAACAACCATCTCTCTTTT-AA-ATATATAAATTTAT
* *
1464949 TTCAACTCAGGTGAGGTTTTATCATATAAA
63 TTCAACTCAGATAAGGTTTTATCATATAAA
1464979 AAAATATGAC
Statistics
Matches: 160, Mismatches: 24, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
92 8 0.05
93 39 0.24
94 37 0.23
95 32 0.20
96 2 0.01
97 42 0.26
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.43
Consensus pattern (94 bp):
TATATTTTCAATAGAATTTGATAATTACAACAACCATCTCTCTTTTAAATATATAAATTTATTTC
AACTCAGATAAGGTTTTATCATATAAAGA
Found at i:1477353 original size:361 final size:361
Alignment explanation
Indices: 1476689--1477411 Score: 1437
Period size: 361 Copynumber: 2.0 Consensus size: 361
1476679 GCAAAACTCG
1476689 TAGAACTCATGGCCAAACTCTTCGATGAAAAAAACAACAAAGAGAACAAAACAAGCATCAATTAA
1 TAGAACTCATGGCCAAACTCTTCGATGAAAAAAACAACAAAGAGAACAAAACAAGCATCAATTAA
1476754 ATTTGGAATCCACTTGCAAAACACCATCTCATACTCAATCCTACGAAGAATCAGTACCTGACACC
66 ATTTGGAATCCACTTGCAAAACACCATCTCATACTCAATCCTACGAAGAATCAGTACCTGACACC
1476819 AATTCAATTGCACCATTCATAGACCCCACAACTGAACCGAAACTGATGGCGCATAGAACGATTAG
131 AATTCAATTGCACCATTCATAGACCCCACAACTGAACCGAAACTGATGGCGCATAGAACGATTAG
1476884 AGAGCTAGCCGCAACTCCCTCCATGAAATAGCAACTCTCTACTTCTTTCCCTAATGGTGAGACCC
196 AGAGCTAGCCGCAACTCCCTCCATGAAATAGCAACTCTCTACTTCTTTCCCTAATGGTGAGACCC
1476949 CTTATCAAGTCAATACGGGATTAATTCATCTTCTTCCCACCTTCAAAGGTTTTCCTAGTGAGTGT
261 CTTATCAAGTCAATACGGGATTAATTCATCTTCTTCCCACCTTCAAAGGTTTTCCTAGTGAGTGT
1477014 CTGGAAAAACATCTCATAGAATTTCATATGATCTGC
326 CTGGAAAAACATCTCATAGAATTTCATATGATCTGC
1477050 TAGAACTCATGGCCAAACTCTTCGATGAAAAAAACAACAAAGAGAACAAAACAAGCATCAATTAA
1 TAGAACTCATGGCCAAACTCTTCGATGAAAAAAACAACAAAGAGAACAAAACAAGCATCAATTAA
1477115 ATTTGGAATCCACTTGCAAAACACCATCTCATACTCAATCCTACGAAGAATCAGTACCTGACACC
66 ATTTGGAATCCACTTGCAAAACACCATCTCATACTCAATCCTACGAAGAATCAGTACCTGACACC
*
1477180 AATTCAATTGCACCATTCATAGACCCCACACCTGAACCGAAACTGATGGCGCATAGAACGATTAG
131 AATTCAATTGCACCATTCATAGACCCCACAACTGAACCGAAACTGATGGCGCATAGAACGATTAG
1477245 AGAGCTAGCCGCAACTCCCTCCATGAAATAGCAACTCTCTACTTCTTTCCCTAATGGTGAGACCC
196 AGAGCTAGCCGCAACTCCCTCCATGAAATAGCAACTCTCTACTTCTTTCCCTAATGGTGAGACCC
1477310 CTTATCAAGTCAATACGGGATTAATTCATCTTCTTCCCACCTTCAAAGGTTTTCCTAGTGAGTGT
261 CTTATCAAGTCAATACGGGATTAATTCATCTTCTTCCCACCTTCAAAGGTTTTCCTAGTGAGTGT
1477375 CTGGAAAAACATCTCATAGAATTTCATATGATCTGC
326 CTGGAAAAACATCTCATAGAATTTCATATGATCTGC
1477411 T
1 T
1477412 CCAGTGTGAA
Statistics
Matches: 361, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
361 361 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (361 bp):
TAGAACTCATGGCCAAACTCTTCGATGAAAAAAACAACAAAGAGAACAAAACAAGCATCAATTAA
ATTTGGAATCCACTTGCAAAACACCATCTCATACTCAATCCTACGAAGAATCAGTACCTGACACC
AATTCAATTGCACCATTCATAGACCCCACAACTGAACCGAAACTGATGGCGCATAGAACGATTAG
AGAGCTAGCCGCAACTCCCTCCATGAAATAGCAACTCTCTACTTCTTTCCCTAATGGTGAGACCC
CTTATCAAGTCAATACGGGATTAATTCATCTTCTTCCCACCTTCAAAGGTTTTCCTAGTGAGTGT
CTGGAAAAACATCTCATAGAATTTCATATGATCTGC
Found at i:1480688 original size:11 final size:11
Alignment explanation
Indices: 1480672--1480696 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1480662 CTTGTCTTGA
1480672 ATTTTAACCTT
1 ATTTTAACCTT
1480683 ATTTTAACCTT
1 ATTTTAACCTT
1480694 ATT
1 ATT
1480697 ACCACCTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.16, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTTAACCTT
Found at i:1484216 original size:24 final size:24
Alignment explanation
Indices: 1484187--1484242 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
1484177 ATAAATATTA
* *
1484187 CTTTAAATTAGAACTCCTTAAGAG
1 CTTTAAAATAGAACTCCTAAAGAG
* *
1484211 CTTTAAAATAGAATTCCTAAAGAA
1 CTTTAAAATAGAACTCCTAAAGAG
*
1484235 TTTTAAAA
1 CTTTAAAA
1484243 GTATCTTGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (24 bp):
CTTTAAAATAGAACTCCTAAAGAG
Found at i:1490701 original size:19 final size:20
Alignment explanation
Indices: 1490650--1490702 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
1490640 TTGATTTAAA
* *
1490650 GAAGTATCGATACTGAGGTG
1 GAAGTATCGATACCGAGGAG
* **
1490670 GAGGTATTAATACCGA-GAG
1 GAAGTATCGATACCGAGGAG
1490689 GAAGTATCGATACC
1 GAAGTATCGATACC
1490703 ATAATCAAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (20 bp):
GAAGTATCGATACCGAGGAG
Found at i:1491188 original size:54 final size:54
Alignment explanation
Indices: 1491107--1491615 Score: 707
Period size: 54 Copynumber: 9.6 Consensus size: 54
1491097 AATGTATATG
* * *
1491107 TTGT-AATTACTGTATCGGTACTATGTGTGCAACCCACATAATTCATAATGAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * *
1491160 TTGTAAATTACCATATCGGCACTATGTGTGCAACCCATGTAATTCATAATGAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * *
1491214 TTGTGAATTACCGTATCGACATTATGTGTG---CCCACGTAATTCATAATTAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * *
1491265 TTGTAAATTAGCGTATCGGCACTA--TGTGCAACCCACATAATTCATAATGAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * * *
1491317 TTGTGAATTACCATATCGACACTATATGTGCAACCCACGTAATTCATAATTAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* *
1491371 TTGTGAATTATCGTATC-G-ACTTATGTGTGCAACCCACGTAATTCATAATTAGT
1 TTGTGAATTACCGTATCGGCAC-TATGTGTGCAACCCACGTAATTCATAATGAGT
*
1491424 TTGTGAATTACCGTATCAGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * *
1491478 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCAAC--AATTCATAACGAGC
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
* *
1491530 TTGTGAATTACCGTATCGACACTATGTATGCAACCCACGTAATTCATAATGAG-
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
*
1491583 TTGTGAATTACCGTATCGACACTATGTGTGCAA
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAA
1491616 AACCATAGAA
Statistics
Matches: 407, Mismatches: 38, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
49 4 0.01
51 39 0.10
52 88 0.22
53 83 0.20
54 191 0.47
55 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (54 bp):
TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGT
Found at i:1491504 original size:159 final size:161
Alignment explanation
Indices: 1491107--1491638 Score: 742
Period size: 159 Copynumber: 3.3 Consensus size: 161
1491097 AATGTATATG
* * *
1491107 TTGT-AATTACTGTATCGGTACTATGTGTGCAACCCACATAATTCATAATGAGTTTGTAAATTAC
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACATAATTCATAATGAGTTTGTGAATTAC
*
1491171 CATATCGGCACTATGTGTGCAACCCATGTAATTCATAATGAGTTTGTGAATTACCGTATCGACAT
66 CATATCGGCACTA-GTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCGTATCGACAT
1491236 TATGTGTG---CCCACGTAATTCATAATTAGT
130 TATGTGTGCAACCCACGTAATTCATAATTAGT
* *
1491265 TTGTAAATTAGCGTATCGGCACTA--TGTGCAACCCACATAATTCATAATGAGTTTGTGAATTAC
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACATAATTCATAATGAGTTTGTGAATTAC
* * * *
1491328 CATATCGACACTATATGTGCAACCCACGTAATTCATAATTAGTTTGTGAATTATCGTATCGAC-T
66 CATATCGGCACTA-GTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCGTATCGACAT
1491392 TATGTGTGCAACCCACGTAATTCATAATTAGT
130 TATGTGTGCAACCCACGTAATTCATAATTAGT
* *
1491424 TTGTGAATTACCGTATCAGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTAC
1 TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACATAATTCATAATGAGTTTGTGAATTAC
* * * * *
1491489 CGTATCGGCACTATGTGTGCAACCAAC--AATTCATAACGAGCTTGTGAATTACCGTATCGACAC
66 CATATCGGCACTA-GTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCGTATCGACAT
* *
1491552 TATGTATGCAACCCACGTAATTCATAATGAG-
130 TATGTGTGCAACCCACGTAATTCATAATTAGT
* * * * *
1491583 TTGTGAATTACCGTATCGACACTATGTGTGCAAAACCATAGAATTTATAATGAGTT
1 TTGTGAATTACCGTATCGGCACTATGTGTGC-AACCCACATAATTCATAATGAGTT
1491639 GAAATATTAA
Statistics
Matches: 335, Mismatches: 31, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
156 9 0.03
157 96 0.29
158 4 0.01
159 117 0.35
160 48 0.14
161 61 0.18
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (161 bp):
TTGTGAATTACCGTATCGGCACTATGTGTGCAACCCACATAATTCATAATGAGTTTGTGAATTAC
CATATCGGCACTAGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCGTATCGACATT
ATGTGTGCAACCCACGTAATTCATAATTAGT
Found at i:1491536 original size:213 final size:209
Alignment explanation
Indices: 1491126--1491615 Score: 700
Period size: 213 Copynumber: 2.3 Consensus size: 209
1491116 CTGTATCGGT
* * *
1491126 ACTATGTGTGCAACCCACATAATTCATAATGAGTTTGTAAATTACCATATCGGCACTATGTGTGC
1 ACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCGTATC-G-ACTATGTGTGC
* *
1491191 AACCCATGTAATTCATAATGAGTTTGTGAATTACCGTATCGACATTATGTGTGCCCACGTAATTC
64 AACCCACGTAATTCATAATGAGTTTGTGAATTACCGTATCGACACTATGTGTGCCCACGTAATTC
* * * * *
1491256 ATAATTAGTTTGTAAATTAGCGTATCGGCACTATGTGCAACCCACATAATTCATAATGAGTTTGT
129 ATAATGAGTTTGTAAATTACCGTATCGGCACTATGTGCAACCCACACAATTCATAACGAGCTTGT
1491321 GAATTACCATATCGAC
194 GAATTACCATATCGAC
* * *
1491337 ACTATATGTGCAACCCACGTAATTCATAATTAGTTTGTGAATTATCGTATCGACTTATGTGTGCA
1 ACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCGTATCGAC-TATGTGTGCA
*
1491402 ACCCACGTAATTCATAATTAGTTTGTGAATTACCGTATC-AGCACTATGTGTGCAACCCACGTAA
65 ACCCACGTAATTCATAATGAGTTTGTGAATTACCGTATCGA-CACTATGTGTG---CCCACGTAA
*
1491466 TTCATAATGAGTTTGTGAATTACCGTATCGGCACTATGTGTGCAA-CCA-ACAATTCATAACGAG
126 TTCATAATGAGTTTGTAAATTACCGTATCGGCACTA--TGTGCAACCCACACAATTCATAACGAG
*
1491529 CTTGTGAATTACCGTATCGAC
189 CTTGTGAATTACCATATCGAC
*
1491550 ACTATGTATGCAACCCACGTAATTCATAATGAG-TTGTGAATTACCGTATCGACACTATGTGTGC
1 ACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCGTATCG--ACTATGTGTGC
1491614 AA
64 AA
1491616 AACCATAGAA
Statistics
Matches: 250, Mismatches: 20, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
209 3 0.01
210 58 0.23
211 45 0.18
212 17 0.07
213 115 0.46
214 5 0.02
215 7 0.03
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (209 bp):
ACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCGTATCGACTATGTGTGCAA
CCCACGTAATTCATAATGAGTTTGTGAATTACCGTATCGACACTATGTGTGCCCACGTAATTCAT
AATGAGTTTGTAAATTACCGTATCGGCACTATGTGCAACCCACACAATTCATAACGAGCTTGTGA
ATTACCATATCGAC
Found at i:1491867 original size:357 final size:357
Alignment explanation
Indices: 1491453--1492166 Score: 1121
Period size: 357 Copynumber: 2.0 Consensus size: 357
1491443 CACTATGTGT
*
1491453 GCAACCCACGTAATTCATAATGAGTTTGTGAATTACCGTATCGGCACTATGTGTGCAACCAAC-A
1 GCAACCCACGTAATTCATAATGAGTTTGTGAATTACCGTATCGGCACTATATGTGCAACCAACGA
*
1491517 ATTCATAACGAGCTTGTGAATTACCGTATCGACACTATGTATGCAACCCACGTAATTCATAATGA
66 ATTCATAACGAGCTTGTGAATTACCATATCGACACTATG--TGCAACCCACGTAATTCATAATGA
* * *
1491582 GTTGTGAATTACCGTATC-GACACTATGTGTGCAAAACCATAG-AATTTATAATGAGTTGAAATA
129 GTTGTGAATTACCGTATCAGA-ACTATGTATACAAAACCA-AGAAATTTATAATGAGTTAAAATA
* *
1491645 TTAAATTCATATTTTTATAGTTATGATATACTTATGTTTGAAATTCACCTCATTATTATTATGCC
192 TTAAATTCATATTTTGATAGTTATGATATACTTATATTTGAAATTCACCTCATTATTATTATGCC
*
1491710 TCACTAAGTGATTACTTAGCATGTGTTGATTTCA-CGTAGGTGTTAGTACGAGCAGAGTAAGGAG
257 TCACTAAGTGATTACTTAGCATGTGTTGATTTCAGCGTAGGTGTTAGTACAAGCAGAGTAAGGAG
*
1491774 TGCATATGACATCGTCAATCAAAAGTTGCCTCATCA
322 TGCATATGACATCCTCAATCAAAAGTTGCCTCATCA
* * * *
1491810 GCAACCCATGTAATTCATAATGAGTTTGTGAATTACTGTATCGGCGCTATATGTGCAACCCACGT
1 GCAACCCACGTAATTCATAATGAGTTTGTGAATTACCGTATCGGCACTATATGTGCAACCAACG-
* * ** *
1491875 AATTCATAATGAGTTTGTGAATTATTATATCGGCACTATGTGCAACCCACGTAATTCATAATGAG
65 AATTCATAACGAGCTTGTGAATTACCATATCGACACTATGTGCAACCCACGTAATTCATAATGAG
* *
1491940 TTGTGATTTACCGTATCAGAACTATGTATACAAAACCACGAAATTTATAATGAGTTAAAATATTA
130 TTGTGAATTACCGTATCAGAACTATGTATACAAAACCAAGAAATTTATAATGAGTTAAAATATTA
* *
1492005 AATTCATATTTTGATAGTTATGATATACTTATATTTTAAATTCACCTCATTATTATTATTCCTCA
195 AATTCATATTTTGATAGTTATGATATACTTATATTTGAAATTCACCTCATTATTATTATGCCTCA
* * *
1492070 CTGAGTGATTACTTAGCGTGTGTTGATTTCATGCGTAGGTGTTAGTACAAGCGGAGTAAGGAGTG
260 CTAAGTGATTACTTAGCATGTGTTGATTTCA-GCGTAGGTGTTAGTACAAGCAGAGTAAGGAGTG
1492135 CATATGACATCCTCAATCAAAAGTTGCCTCAT
324 CATATGACATCCTCAATCAAAAGTTGCCTCAT
1492167 TAGTAACTGT
Statistics
Matches: 326, Mismatches: 25, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
356 1 0.00
357 228 0.70
358 2 0.01
359 95 0.29
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (357 bp):
GCAACCCACGTAATTCATAATGAGTTTGTGAATTACCGTATCGGCACTATATGTGCAACCAACGA
ATTCATAACGAGCTTGTGAATTACCATATCGACACTATGTGCAACCCACGTAATTCATAATGAGT
TGTGAATTACCGTATCAGAACTATGTATACAAAACCAAGAAATTTATAATGAGTTAAAATATTAA
ATTCATATTTTGATAGTTATGATATACTTATATTTGAAATTCACCTCATTATTATTATGCCTCAC
TAAGTGATTACTTAGCATGTGTTGATTTCAGCGTAGGTGTTAGTACAAGCAGAGTAAGGAGTGCA
TATGACATCCTCAATCAAAAGTTGCCTCATCA
Found at i:1491892 original size:54 final size:52
Alignment explanation
Indices: 1491810--1491966 Score: 217
Period size: 54 Copynumber: 3.0 Consensus size: 52
1491800 TGCCTCATCA
* *
1491810 GCAACCCATGTAATTCATAATGAGTTTGTGAATTACTGTATCGGCGCTATATGT
1 GCAACCCACGTAATTCATAATGAGTTTGTGAATTACTGTATCGGCAC--TATGT
* *
1491864 GCAACCCACGTAATTCATAATGAGTTTGTGAATTATTATATCGGCACTATGT
1 GCAACCCACGTAATTCATAATGAGTTTGTGAATTACTGTATCGGCACTATGT
* * * *
1491916 GCAACCCACGTAATTCATAATGAG-TTGTGATTTACCGTATCAGAACTATGT
1 GCAACCCACGTAATTCATAATGAGTTTGTGAATTACTGTATCGGCACTATGT
1491967 ATACAAAACC
Statistics
Matches: 93, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
51 21 0.23
52 29 0.31
54 43 0.46
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
GCAACCCACGTAATTCATAATGAGTTTGTGAATTACTGTATCGGCACTATGT
Found at i:1498533 original size:54 final size:54
Alignment explanation
Indices: 1498170--1498518 Score: 522
Period size: 54 Copynumber: 6.5 Consensus size: 54
1498160 GTCATCAACA
* *
1498170 TATCGGAACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGAGAATTACCG
1 TATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
* **
1498224 TATCGTGCACTATGTGTGCAACCCACGTAATTCAT-ATAAGTTTGTGAATTTTCG
1 TATCG-GCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
* * **
1498278 TATCGGCACTATGTGTGCACCCCACGTAATTCATAATTAGTTTGTGAATTATTG
1 TATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
* *
1498332 TATCGGCACTATGTGTGCAACCTACGTAATTCATAATGAGTTTGTGAATTACTG
1 TATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
**
1498386 TATCAACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
1 TATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
* * *
1498440 TATCAGCACTATGTGTGCAACCCAAGTAATTCATAATGAG-TTGTGAATTACAG
1 TATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
1498493 TATCGGCACTATGTGTGCAAACCCAC
1 TATCGGCACTATGTGTGC-AACCCAC
1498519 AAAATTTGTA
Statistics
Matches: 270, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
53 57 0.21
54 185 0.69
55 28 0.10
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (54 bp):
TATCGGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
Found at i:1500929 original size:30 final size:30
Alignment explanation
Indices: 1500884--1500991 Score: 162
Period size: 30 Copynumber: 3.6 Consensus size: 30
1500874 TCCTTTAATT
*
1500884 TTTTTTGCTATTTTAGTCCTTTAACTTTCTA
1 TTTTTT-CTATTTTAGTCATTTAACTTTCTA
* *
1500915 TTTTTTCTACTTTAGTCATTTAAGTTTCTA
1 TTTTTTCTATTTTAGTCATTTAACTTTCTA
*
1500945 TTTTTGCTATTTTAGTCATTTAACTTTCTA
1 TTTTTTCTATTTTAGTCATTTAACTTTCTA
*
1500975 TTTTTCCTATTTTAGTC
1 TTTTTTCTATTTTAGTC
1500992 CATTAAATTT
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 64 0.91
31 6 0.09
ACGTcount: A:0.18, C:0.15, G:0.06, T:0.61
Consensus pattern (30 bp):
TTTTTTCTATTTTAGTCATTTAACTTTCTA
Found at i:1501019 original size:67 final size:68
Alignment explanation
Indices: 1500946--1501085 Score: 192
Period size: 67 Copynumber: 2.1 Consensus size: 68
1500936 AAGTTTCTAT
*
1500946 TTTTGCTATTTTAGTCATTTAACTTTCTATTTTTCCTATTTTAGTCCATTAAA-TTTTGTTTTTG
1 TTTTGCTATTTTAGTCATTTAACTTTCTATATTTCCTATTTTAGTCCATTAAAGTTTTGTTTTTG
*
1501010 GTA
66 CTA
* * * * * * *
1501013 TTTTGCTATTTTGGTCTTTTAACTTTTTGTATTTGCTATTTTAGTCCTTTAAAGTTTTGTTTTTT
1 TTTTGCTATTTTAGTCATTTAACTTTCTATATTTCCTATTTTAGTCCATTAAAGTTTTGTTTTTG
1501078 CTA
66 CTA
1501081 TTTTG
1 TTTTG
1501086 GTCTCTTAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
67 46 0.73
68 17 0.27
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.62
Consensus pattern (68 bp):
TTTTGCTATTTTAGTCATTTAACTTTCTATATTTCCTATTTTAGTCCATTAAAGTTTTGTTTTTG
CTA
Found at i:1501024 original size:37 final size:35
Alignment explanation
Indices: 1500976--1501085 Score: 86
Period size: 37 Copynumber: 3.1 Consensus size: 35
1500966 AACTTTCTAT
*
1500976 TTTTCCTATTTTAGTCCATTAAATTTTGTTTTTGGTA
1 TTTTGCTATTTTAGTCC-TTAAATTTTGTTTTT-GTA
* ***
1501013 TTTTGCTATTTTGGT-CTT---TTAACTTTTTGTA
1 TTTTGCTATTTTAGTCCTTAAATTTTGTTTTTGTA
*
1501044 -TTTGCTATTTTAGTCCTTTAAAGTTTTGTTTTTTCTA
1 TTTTGCTATTTTAGTCC-TTAAA-TTTTG-TTTTTGTA
1501081 TTTTG
1 TTTTG
1501086 GTCTCTTAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
30 13 0.24
31 4 0.07
32 9 0.16
35 2 0.04
36 3 0.05
37 20 0.36
38 4 0.07
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.63
Consensus pattern (35 bp):
TTTTGCTATTTTAGTCCTTAAATTTTGTTTTTGTA
Found at i:1501026 original size:16 final size:16
Alignment explanation
Indices: 1501005--1501054 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
1500995 TAAATTTTGT
1501005 TTTTGGTATTTTGCTA
1 TTTTGGTATTTTGCTA
* *
1501021 TTTTGGTCTTTTAACT-
1 TTTTGGTATTTT-GCTA
1501037 TTTT-GTA-TTTGCTA
1 TTTTGGTATTTTGCTA
1501051 TTTT
1 TTTT
1501055 AGTCCTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 2 0.07
14 7 0.25
15 2 0.07
16 15 0.54
17 2 0.07
ACGTcount: A:0.12, C:0.08, G:0.14, T:0.66
Consensus pattern (16 bp):
TTTTGGTATTTTGCTA
Found at i:1501050 original size:30 final size:30
Alignment explanation
Indices: 1501004--1501096 Score: 105
Period size: 30 Copynumber: 3.0 Consensus size: 30
1500994 TTAAATTTTG
*
1501004 TTTTTGGTATTTTGCTATTTTGGTCTTTTAAC
1 TTTTT-GTA-TTTGCTATTTTGGTCTTTTAAA
* *
1501036 TTTTTGTATTTGCTATTTTAGTCCTTTAAA
1 TTTTTGTATTTGCTATTTTGGTCTTTTAAA
* * * *
1501066 GTTTTGTTTTTTCTATTTTGGTCTCTTAAA
1 TTTTTGTATTTGCTATTTTGGTCTTTTAAA
1501096 T
1 T
1501097 CTCTGAATGA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
30 43 0.84
31 3 0.06
32 5 0.10
ACGTcount: A:0.15, C:0.10, G:0.13, T:0.62
Consensus pattern (30 bp):
TTTTTGTATTTGCTATTTTGGTCTTTTAAA
Found at i:1501082 original size:60 final size:60
Alignment explanation
Indices: 1500885--1501094 Score: 206
Period size: 60 Copynumber: 3.4 Consensus size: 60
1500875 CCTTTAATTT
* * * * *
1500885 TTTTTGCTATTTTAGTCCTTTAACTTTCTATTTTTTCTACTTTAGTCATTT-AAGTTTCTA
1 TTTTTGCTATTTTAGTCTTTTAACTTTCTATTTTTCCTATTTTAGTCCTTTAAAGTTT-TG
* *
1500945 TTTTTGCTATTTTAGTCATTTAACTTTCTATTTTTCCTATTTTAGTCCATTAAATTTTGTTTTTG
1 TTTTTGCTATTTTAGTCTTTTAACTTTCTATTTTTCCTATTTTAGTCCTTTAAA----G-TTTT-
1501010 G
60 G
* * * * *
1501011 TATTTTGCTATTTTGGTCTTTTAACTTTTTGTATTTGCTATTTTAGTCCTTTAAAGTTTTG
1 T-TTTTGCTATTTTAGTCTTTTAACTTTCTATTTTTCCTATTTTAGTCCTTTAAAGTTTTG
* * *
1501072 TTTTTTCTATTTTGGTCTCTTAA
1 TTTTTGCTATTTTAGTCTTTTAA
1501095 ATCTCTGAAT
Statistics
Matches: 127, Mismatches: 15, Indels: 16
0.80 0.09 0.10
Matches are distributed among these distances:
60 66 0.52
61 4 0.03
62 4 0.03
63 1 0.01
65 2 0.02
66 4 0.03
67 46 0.36
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.61
Consensus pattern (60 bp):
TTTTTGCTATTTTAGTCTTTTAACTTTCTATTTTTCCTATTTTAGTCCTTTAAAGTTTTG
Found at i:1502943 original size:30 final size:31
Alignment explanation
Indices: 1502883--1502945 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
1502873 ATCTTGCTTG
* *
1502883 TACTAGCTCATTTTTCTCTTTTTTTTTGTGT
1 TACTAACTCATTTTTCTCTTTTTGTTTGTGT
*
1502914 TACTAACTCGTTTTTCTC-TTTTGTTTGTGT
1 TACTAACTCATTTTTCTCTTTTTGTTTGTGT
1502944 TA
1 TA
1502946 TTATTCATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.11, C:0.16, G:0.11, T:0.62
Consensus pattern (31 bp):
TACTAACTCATTTTTCTCTTTTTGTTTGTGT
Found at i:1503742 original size:30 final size:30
Alignment explanation
Indices: 1503706--1503765 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
1503696 ATCCTAAGGT
* *
1503706 TTATGATGTTTAAGTCGTGCTCAGTTACCA
1 TTATGATGTTGAAGTCGTGCGCAGTTACCA
*
1503736 TTATGATGTTGAAGTCGTTCGCAGTTACCA
1 TTATGATGTTGAAGTCGTGCGCAGTTACCA
1503766 CATAGGAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (30 bp):
TTATGATGTTGAAGTCGTGCGCAGTTACCA
Found at i:1505136 original size:55 final size:55
Alignment explanation
Indices: 1505031--1505297 Score: 371
Period size: 55 Copynumber: 4.9 Consensus size: 55
1505021 CTATACGGAA
* * * *
1505031 ATTCATCAACTCAGGATAAATTCTGTGG-GTTGCACACATAGTGCTTGTACGGTG
1 ATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAAAGTGCTTGTACGGTG
* * *
1505085 ATTCCTCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTGTTTGTACGGTG
1 ATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAAAGTGCTTGTACGGTG
* * * *
1505140 ATTCATCAACCCATGATGAATTCCGTGGA-TTGCACATATAGTGC-TGTACGGTG
1 ATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAAAGTGCTTGTACGGTG
* * *
1505193 ATTCAACAACTCGTGATGAATTTTGTGGATTTGCACACAAAGTG-TCTGTACGGTG
1 ATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAAAGTGCT-TGTACGGTG
1505248 ATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAAAGTGCTTGTA
1 ATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAAAGTGCTTGTA
1505298 GTACACATAG
Statistics
Matches: 186, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
53 33 0.18
54 48 0.26
55 104 0.56
56 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (55 bp):
ATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAAAGTGCTTGTACGGTG
Found at i:1505229 original size:108 final size:108
Alignment explanation
Indices: 1505031--1505293 Score: 391
Period size: 108 Copynumber: 2.4 Consensus size: 108
1505021 CTATACGGAA
* * * **
1505031 ATTCATCAACTCAGGATAAATTCTGTGGGTTGCACACATAGTGCTTGTACGGTGATTCCTCAACT
1 ATTCATCAACTCATGATGAATTCTGTGGATTGCACACATAGTGC-TGTACGGTGATTCAACAACT
*
1505096 CATGATGAATTCCGTGGATTTGCACACAAAGTGTTTGTACGGTG
65 CATGATGAATTCCGTGGATTTGCACACAAAGTGTCTGTACGGTG
* * *
1505140 ATTCATCAACCCATGATGAATTCCGTGGATTGCACATATAGTGCTGTACGGTGATTCAACAACTC
1 ATTCATCAACTCATGATGAATTCTGTGGATTGCACACATAGTGCTGTACGGTGATTCAACAACTC
* **
1505205 GTGATGAATTTTGTGGATTTGCACACAAAGTGTCTGTACGGTG
66 ATGATGAATTCCGTGGATTTGCACACAAAGTGTCTGTACGGTG
*
1505248 ATTCATCAACTCATGATGAATTCTGTGGATTTGCACACAAAGTGCT
1 ATTCATCAACTCATGATGAATTCTGTGGA-TTGCACACATAGTGCT
1505294 TGTAGTACAC
Statistics
Matches: 137, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
108 85 0.62
109 52 0.38
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (108 bp):
ATTCATCAACTCATGATGAATTCTGTGGATTGCACACATAGTGCTGTACGGTGATTCAACAACTC
ATGATGAATTCCGTGGATTTGCACACAAAGTGTCTGTACGGTG
Found at i:1505736 original size:20 final size:20
Alignment explanation
Indices: 1505711--1505784 Score: 71
Period size: 22 Copynumber: 3.6 Consensus size: 20
1505701 CAATGTTGCC
*
1505711 TGGTATCGATACCCTTACCA
1 TGGTATCGATACCCCTACCA
*
1505731 TGGTATCGATACTACCCTACTA
1 TGGTATCGATAC--CCCTACCA
* *
1505753 TGGTACCGATACCCC-A-TA
1 TGGTATCGATACCCCTACCA
1505771 TCGGTATCGATACC
1 T-GGTATCGATACC
1505785 AAAATTAGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
18 3 0.06
19 12 0.26
20 15 0.32
22 17 0.36
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (20 bp):
TGGTATCGATACCCCTACCA
Found at i:1505810 original size:95 final size:95
Alignment explanation
Indices: 1505653--1505841 Score: 290
Period size: 95 Copynumber: 2.0 Consensus size: 95
1505643 GATACTTTTA
* *
1505653 TACTATGGTACCAATACCCCCTTCAGGTATCGATACCAAAAATAGGTTCAATGTTGCCTGGTATC
1 TACTATGGTACCAATACCCCATTCAGGTATCGATACCAAAAATAGATTCAATGTTGCCTGGTATC
1505718 GATACCCTTACCATGGTATCGATACTACCC
66 GATACCCTTACCATGGTATCGATACTACCC
* * * * *
1505748 TACTATGGTACCGATACCCCATATC-GGTATCGATACCAAAATTAGATTCGATGTTTCTTGGTAT
1 TACTATGGTACCAATACCCCAT-TCAGGTATCGATACCAAAAATAGATTCAATGTTGCCTGGTAT
*
1505812 CGATACCCTTACCATTGTATCGATACTACC
65 CGATACCCTTACCATGGTATCGATACTACC
1505842 TCATCGGTAT
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
95 83 0.98
96 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (95 bp):
TACTATGGTACCAATACCCCATTCAGGTATCGATACCAAAAATAGATTCAATGTTGCCTGGTATC
GATACCCTTACCATGGTATCGATACTACCC
Found at i:1511166 original size:109 final size:109
Alignment explanation
Indices: 1510971--1511215 Score: 328
Period size: 109 Copynumber: 2.2 Consensus size: 109
1510961 CTATACAGAA
* *** * *
1510971 ATTCATCAACTCATGATGAATTCTGTGGGTTGTACACATAGTGCATGTACGGTGATTCATCAACT
1 ATTCATCAACTCATGATGAATTCCGTGAAATGCACACATAATGCATGTACGGTGATTCATCAACT
* *
1511036 CATGATGAATTCCATGGATTTGTACAAAAAGTGTTTGTATGGTG
66 CATGATGAATTCCATGGATTTGAACAAAAAGTGTTTGTACGGTG
* * * * *
1511080 ATTTATCAACCCATGATGAATTCCGTGAAATGCACATATAATGCATGTATGGTGATTCGTCAACT
1 ATTCATCAACTCATGATGAATTCCGTGAAATGCACACATAATGCATGTACGGTGATTCATCAACT
* *
1511145 CATGATGAATTCCGTGGATTTGAACACAAAGTGTTTGTACGGTG
66 CATGATGAATTCCATGGATTTGAACAAAAAGTGTTTGTACGGTG
* **
1511189 ATTCATAAACTCATGACAAATTCCGTG
1 ATTCATCAACTCATGATGAATTCCGTG
1511216 GATGTGCACA
Statistics
Matches: 116, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
109 116 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.33
Consensus pattern (109 bp):
ATTCATCAACTCATGATGAATTCCGTGAAATGCACACATAATGCATGTACGGTGATTCATCAACT
CATGATGAATTCCATGGATTTGAACAAAAAGTGTTTGTACGGTG
Found at i:1511227 original size:55 final size:55
Alignment explanation
Indices: 1510971--1511231 Score: 276
Period size: 55 Copynumber: 4.8 Consensus size: 55
1510961 CTATACAGAA
* * * *
1510971 ATTCATCAACTCATGATGAATTCTGTGG-GTTGTACACATAGTGCATGTACGGTG
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTGCATGTACGGTG
* * * ** *
1511025 ATTCATCAACTCATGATGAATTCCATGGATTTGTACAAAAAGTGTTTGTATGGTG
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTGCATGTACGGTG
* * ** * *
1511080 ATTTATCAACCCATGATGAATTCCGT-GAAATGCACATATAA-TGCATGTATGGTG
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA-AAGTGCATGTACGGTG
* * **
1511134 ATTCGTCAACTCATGATGAATTCCGTGGATTTGAACACAAAGTGTTTGTACGGTG
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTGCATGTACGGTG
* ** *
1511189 ATTCATAAACTCATGACAAATTCCGTGGATGTGCACACAAAGT
1 ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGT
1511232 ACCTGTAGTG
Statistics
Matches: 170, Mismatches: 33, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
54 70 0.41
55 100 0.59
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (55 bp):
ATTCATCAACTCATGATGAATTCCGTGGATTTGCACACAAAGTGCATGTACGGTG
Found at i:1511749 original size:95 final size:98
Alignment explanation
Indices: 1511596--1511788 Score: 248
Period size: 95 Copynumber: 2.0 Consensus size: 98
1511586 CGATACTCTA
* * *
1511596 TACTATGGTACCGATACCCTACCCCTTCGGGTATCGATACCAAAAATAGGTTCGATGTTGCATGG
1 TACTATGGTACCGATACCCTA-CCCTACCGGTATCGATACCAAAAATAGATTCGATGTTGCATGG
* * *
1511661 TATCGATACCTTTATCATGGTATCGATACTACCC
65 TATCGATACCCTTACCATGGTATCAATACTACCC
** ** * *
1511695 TACTATGGTACCGATA-CC-A-CCTACCGGTATCGATGTCAAATTTAGATTCGATGTTTCTTGGT
1 TACTATGGTACCGATACCCTACCCTACCGGTATCGATACCAAAAATAGATTCGATGTTGCATGGT
1511757 ATCGATACCCTTACCATGGTATCAATACTACC
66 ATCGATACCCTTACCATGGTATCAATACTACC
1511789 TCGTCGGTTC
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
95 63 0.77
97 1 0.01
98 2 0.02
99 16 0.20
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (98 bp):
TACTATGGTACCGATACCCTACCCTACCGGTATCGATACCAAAAATAGATTCGATGTTGCATGGT
ATCGATACCCTTACCATGGTATCAATACTACCC
Found at i:1512791 original size:81 final size:81
Alignment explanation
Indices: 1512609--1512792 Score: 291
Period size: 81 Copynumber: 2.3 Consensus size: 81
1512599 GGGCATTACA
1512609 TTTCATCTAACTTGTATGATT-AACACCCTTCTGCCAAATGCACAATTAGGCATTTAATCTTTTA
1 TTTCATCTAACTTGTATGATTGAACA-CCTTCTGCCAAATGCACAATTAGGCATTTAATCTTTTA
1512673 CTCAAAGGCATTTAGCC
65 CTCAAAGGCATTTAGCC
* * * *
1512690 TTTCATCTAACTTGCATGATTGGAACA-TTTCTGCCAAATGCACAGTTAGGCATTTATTCTTTTA
1 TTTCATCTAACTTGTATGATT-GAACACCTTCTGCCAAATGCACAATTAGGCATTTAATCTTTTA
1512754 CTCAAAGGCATTTAGCC
65 CTCAAAGGCATTTAGCC
*
1512771 TTTCATCTAACTTGTTTGATTG
1 TTTCATCTAACTTGTATGATTG
1512793 CACAATTAGG
Statistics
Matches: 95, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
80 1 0.01
81 90 0.95
83 4 0.04
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (81 bp):
TTTCATCTAACTTGTATGATTGAACACCTTCTGCCAAATGCACAATTAGGCATTTAATCTTTTAC
TCAAAGGCATTTAGCC
Found at i:1512803 original size:63 final size:63
Alignment explanation
Indices: 1512728--1513005 Score: 475
Period size: 63 Copynumber: 4.4 Consensus size: 63
1512718 TTCTGCCAAA
* **
1512728 TGCACAGTTAGGCATTTATTCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGTTTGAT
1 TGCACAGTTAGGCATTTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCATGAT
* * *
1512791 TGCACAATTAGGCATTTCATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTACATGAT
1 TGCACAGTTAGGCATTTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCATGAT
*
1512854 TTCACAGTTAGGCATTTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCATGAT
1 TGCACAGTTAGGCATTTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCATGAT
*
1512917 TGCACAGTTAGGCATTTAATCTTTTACTCAAAGGCATTTATCCTTTCATCTAACTTGCATGAT
1 TGCACAGTTAGGCATTTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCATGAT
*
1512980 TGCACAGTTAGGAATTTAATCTTTTA
1 TGCACAGTTAGGCATTTAATCTTTTA
1513006 TTTTAAAACA
Statistics
Matches: 202, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 202 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (63 bp):
TGCACAGTTAGGCATTTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTTGCATGAT
Found at i:1513552 original size:95 final size:95
Alignment explanation
Indices: 1513413--1513609 Score: 304
Period size: 95 Copynumber: 2.1 Consensus size: 95
1513403 ACCATGGTAT
* * *
1513413 CGATACTTATATATTATGGTACCGATACTCCCTTTCAGTATCGATACCATTTCGGCATTCTGGAA
1 CGATACTTATATACTATAGTACCGATACTCCCTTTCAGTATCGATACCATTTCGACATTCTGGAA
*
1513478 TCCATGGTATCGATACCTTTCTCCTAGTAC
66 TCCAAGGTATCGATACCTTTCTCCTAGTAC
* ** * *
1513508 CGATACTTCTATACTATAGTATTGATACTCCCTTTCAGTATCGATACCATTTCTACATTCTGGAT
1 CGATACTTATATACTATAGTACCGATACTCCCTTTCAGTATCGATACCATTTCGACATTCTGGAA
*
1513573 TCCAAGGTATCGATACCTTTCTCCTAGTAT
66 TCCAAGGTATCGATACCTTTCTCCTAGTAC
1513603 CGATACT
1 CGATACT
1513610 CACATCAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 92 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (95 bp):
CGATACTTATATACTATAGTACCGATACTCCCTTTCAGTATCGATACCATTTCGACATTCTGGAA
TCCAAGGTATCGATACCTTTCTCCTAGTAC
Found at i:1513621 original size:18 final size:18
Alignment explanation
Indices: 1513598--1513645 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
1513588 CCTTTCTCCT
1513598 AGTATCGATACTCACATC
1 AGTATCGATACTCACATC
1513616 AGTATCGATACTCACATC
1 AGTATCGATACTCACATC
1513634 AGTATCGATACT
1 AGTATCGATACT
1513646 AATTACATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.29
Consensus pattern (18 bp):
AGTATCGATACTCACATC
Found at i:1515302 original size:14 final size:14
Alignment explanation
Indices: 1515280--1515326 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
1515270 AGATCACATC
*
1515280 AAAGCAAAGAGAAA
1 AAAGAAAAGAGAAA
1515294 AAAGAAAAGA-AAA
1 AAAGAAAAGAGAAA
*
1515307 CAAAGACAA-AGAAA
1 -AAAGAAAAGAGAAA
1515321 AAAGAA
1 AAAGAA
1515327 GACAATAAGC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 9 0.32
14 19 0.68
ACGTcount: A:0.77, C:0.06, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAAAGAGAAA
Found at i:1515326 original size:22 final size:23
Alignment explanation
Indices: 1515284--1515331 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
1515274 CACATCAAAG
*
1515284 CAAAGAGAAAAAAGAAAAGAAAA
1 CAAAGACAAAAAAGAAAAGAAAA
* *
1515307 CAAAGACAAAGAA-AAAAGAAGA
1 CAAAGACAAAAAAGAAAAGAAAA
1515329 CAA
1 CAA
1515332 TAAGCACATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.75, C:0.08, G:0.17, T:0.00
Consensus pattern (23 bp):
CAAAGACAAAAAAGAAAAGAAAA
Found at i:1516589 original size:36 final size:36
Alignment explanation
Indices: 1516539--1516617 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
1516529 GCTATAGGCA
* *
1516539 AATTTTCCTAAAAACAAATTTTGTCTCACTGGAGAC
1 AATTTTTCTAAAAACAAATTTCGTCTCACTGGAGAC
* * *
1516575 AATTTTTCTCAAAACAAATTTCGTCTCGCTTGAGAC
1 AATTTTTCTAAAAACAAATTTCGTCTCACTGGAGAC
1516611 -ATTTTTC
1 AATTTTTC
1516618 CTTTAAGATA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
35 7 0.18
36 31 0.82
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (36 bp):
AATTTTTCTAAAAACAAATTTCGTCTCACTGGAGAC
Found at i:1516810 original size:65 final size:65
Alignment explanation
Indices: 1516670--1516895 Score: 244
Period size: 65 Copynumber: 3.5 Consensus size: 65
1516660 TTGATCTCAC
* ** * ** * *
1516670 TTGAGATTGTTTTTCTCAAAACAAA-TTTTGTCTCACTTGAGAA-AATCTTTCTTAAGACAAA-C
1 TTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGAAGTTTCTTT-TGAAGAAAAATC
1516732 T
65 T
* *
1516733 TTGAAATTGTTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGAAGTTTCTTTTGAAGAAAAATGT
1 TTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGAAGTTTCTTTTGAAGAAAAATCT
* * * *
1516798 TTGAGTTTGTTTCTCTGGAAATAAAATTTTGTCTCTCTTGAGACAGTTTCTTTTGAAGAAAAATC
1 TTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGA-AGTTTCTTTTGAAGAAAAATC
*
1516863 A
65 T
*
1516864 TTGAG-TATGTTTATCTTGAAACAAAAGTTTTG
1 TTGAGAT-TGTTTCTCTTGAAAC-AAAGTTTTG
1516896 AGTTTGTTTC
Statistics
Matches: 136, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
63 21 0.15
64 25 0.18
65 45 0.33
66 37 0.27
67 8 0.06
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (65 bp):
TTGAGATTGTTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGAAGTTTCTTTTGAAGAAAAATCT
Found at i:1516875 original size:66 final size:65
Alignment explanation
Indices: 1516740--1516895 Score: 231
Period size: 66 Copynumber: 2.4 Consensus size: 65
1516730 ACTTTGAAAT
* ** *
1516740 TGTTTCTCTTGAAACAAAGTTTTGTCTCTCTTGAGAAGTTTCTTTTGAAGAAAAATGTTTGAGTT
1 TGTTTCTCTTGAAACAAAATTTTGTCTCTCTTGAGAAGTTTCTTTTGAAGAAAAATCATTGAGTA
* *
1516805 TGTTTCTCTGGAAATAAAATTTTGTCTCTCTTGAGACAGTTTCTTTTGAAGAAAAATCATTGAGT
1 TGTTTCTCTTGAAACAAAATTTTGTCTCTCTTGAGA-AGTTTCTTTTGAAGAAAAATCATTGAGT
1516870 A
65 A
*
1516871 TGTTTATCTTGAAACAAAAGTTTTG
1 TGTTTCTCTTGAAACAAAA-TTTTG
1516896 AGTTTGTTTC
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
65 33 0.41
66 42 0.52
67 5 0.06
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (65 bp):
TGTTTCTCTTGAAACAAAATTTTGTCTCTCTTGAGAAGTTTCTTTTGAAGAAAAATCATTGAGTA
Found at i:1516889 original size:29 final size:30
Alignment explanation
Indices: 1516843--1516947 Score: 119
Period size: 29 Copynumber: 3.6 Consensus size: 30
1516833 TCTTGAGACA
* *
1516843 GTTTCTTTTGAAGA-AAAA-TCATTGAGTAT
1 GTTTCTCTTGAA-ACAAAAGTCTTTGAGTAT
* *
1516872 GTTTATCTTGAAACAAAAGT-TTTGAGTTT
1 GTTTCTCTTGAAACAAAAGTCTTTGAGTAT
1516901 GTTTCTCTTGAAACAAAAGTCTTTGAG-ATT
1 GTTTCTCTTGAAACAAAAGTCTTTGAGTA-T
*
1516931 GTTTCCCTTGAAACAAA
1 GTTTCTCTTGAAACAAA
1516948 TTTTGTCTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.02
29 40 0.62
30 24 0.37
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.40
Consensus pattern (30 bp):
GTTTCTCTTGAAACAAAAGTCTTTGAGTAT
Found at i:1516933 original size:30 final size:29
Alignment explanation
Indices: 1516871--1516947 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 29
1516861 TCATTGAGTA
* *
1516871 TGTTTATCTTGAAACAAAAGTTTTGAGTT
1 TGTTTCTCTTGAAACAAAAGTTTTGAGAT
1516900 TGTTTCTCTTGAAACAAAAGTCTTTGAGAT
1 TGTTTCTCTTGAAACAAAAGT-TTTGAGAT
*
1516930 TGTTTCCCTTGAAACAAA
1 TGTTTCTCTTGAAACAAA
1516948 TTTTGTCTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 20 0.45
30 24 0.55
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (29 bp):
TGTTTCTCTTGAAACAAAAGTTTTGAGAT
Found at i:1517007 original size:66 final size:67
Alignment explanation
Indices: 1516901--1517079 Score: 229
Period size: 67 Copynumber: 2.7 Consensus size: 67
1516891 TTTTGAGTTT
1516901 GTTTCTCTTGAAACA-AAAGTCTTTGAGAT-TGTTTCCCTTGAAACAAA-TTTTGTCTCCCGTGA
1 GTTTCTCTTGAAACACAAA-TCTTTGAG-TCTGTTTCCCTTGAAACAAAGTTTTGTCTCCCGTGA
1516963 GACA
64 GACA
** *
1516967 GTTTCTCGCGAAACACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGA
1 GTTTCTCTTGAAACACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCCCGTGAGA
*
1517032 TA
66 CA
* ** * * *
1517034 ATTTCTCTTGAAACACCCATCTGTGAGTCAGTTTCTCTTGAAACAA
1 GTTTCTCTTGAAACACAAATCTTTGAGTCTGTTTCCCTTGAAACAA
1517080 TTATCCCTAA
Statistics
Matches: 98, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
65 1 0.01
66 39 0.40
67 58 0.59
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (67 bp):
GTTTCTCTTGAAACACAAATCTTTGAGTCTGTTTCCCTTGAAACAAAGTTTTGTCTCCCGTGAGA
CA
Found at i:1517210 original size:43 final size:46
Alignment explanation
Indices: 1517143--1517256 Score: 126
Period size: 48 Copynumber: 2.5 Consensus size: 46
1517133 CGACCAGACC
* * *
1517143 TCCTCATCACGTAGGAGCTGTGTTA-C-CCATAGATA-ACCAATCA
1 TCCTCATCACGTAGGAACTATGTTATCACCATAAATAGACCAATCA
* * *
1517186 TCCTCATCACGTAGGAACCATGTTATCATCCCTAAATATGGCCAATCA
1 TCCTCATCACGTAGGAACTATGTTATCA-CCATAAATA-GACCAATCA
*
1517234 TCCTCATCATGTAGGAACTATGT
1 TCCTCATCACGTAGGAACTATGT
1517257 CATCCACCGA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
43 22 0.38
44 1 0.02
46 7 0.12
48 28 0.48
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (46 bp):
TCCTCATCACGTAGGAACTATGTTATCACCATAAATAGACCAATCA
Found at i:1517598 original size:3 final size:3
Alignment explanation
Indices: 1517590--1517621 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
1517580 TTTACAAAAA
1517590 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1517622 GCATATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1519134 original size:29 final size:29
Alignment explanation
Indices: 1519101--1519371 Score: 251
Period size: 30 Copynumber: 9.2 Consensus size: 29
1519091 TGTCCAACCT
* * *
1519101 TTTAACTTTCTATTTTTTTATTTTAGTCC
1 TTTAAATTTTTATTTTTCTATTTTAGTCC
* *
1519130 TTTAACTTTTTATTTTTGCTATTTTAGTCT
1 TTTAAATTTTTATTTTT-CTATTTTAGTCC
** *
1519160 TTTATGTTTTTATTTTGGT-TATTTTAGTCA
1 TTTAAATTTTTATTTT--TCTATTTTAGTCC
*
1519190 TTTAAATTTCTATTTTTGCTATTTTAGTCC
1 TTTAAATTTTTATTTTT-CTATTTTAGTCC
* *
1519220 TTTAAGTTTTT-TTTAT-TATTTTAGTCC
1 TTTAAATTTTTATTTTTCTATTTTAGTCC
* * *
1519247 TTTAACTTTCTATTTTTTCTATTTTAATCC
1 TTTAAATTTTTA-TTTTTCTATTTTAGTCC
* * *
1519277 TCTAAATTTTTGTTTTTCTATTTTGGTCC
1 TTTAAATTTTTATTTTTCTATTTTAGTCC
* *
1519306 TTTAAATTTTTGTTTTGCTATTTTAGTCC
1 TTTAAATTTTTATTTTTCTATTTTAGTCC
* * * *
1519335 TTTAAGTTCTTGTTTTTGCTATTTTGGTCC
1 TTTAAATTTTTATTTTT-CTATTTTAGTCC
*
1519365 CTTAAAT
1 TTTAAAT
1519372 CACTGAGTGA
Statistics
Matches: 201, Mismatches: 32, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
27 20 0.10
28 1 0.00
29 79 0.39
30 100 0.50
32 1 0.00
ACGTcount: A:0.17, C:0.11, G:0.08, T:0.63
Consensus pattern (29 bp):
TTTAAATTTTTATTTTTCTATTTTAGTCC
Found at i:1519254 original size:117 final size:114
Alignment explanation
Indices: 1519113--1519369 Score: 311
Period size: 117 Copynumber: 2.2 Consensus size: 114
1519103 TAACTTTCTA
* * * * **
1519113 TTTTTTTATTTTAGTCCTTTAACTTTTTATTTTTGCTATTTTAGTCTTTTATGTTTTTATTTTGG
1 TTTTTTTATTTTAGTCCTTTAACTTTCTATTTTTGCTATTTTAATCCTCTAAATTTTTATTTT--
1519178 T-TATTTTAGTCATTTAAATTTCTAT-TTTTGCTATTTTAGTCCTTTAAGTTT
64 TCTATTTTAGTCATTTAAATTT-T-TGTTTTGCTATTTTAGTCCTTTAAGTTT
* *
1519229 TTTTTATTATTTTAGTCCTTTAACTTTCTATTTTTTCTATTTTAATCCTCTAAATTTTTGTTTTT
1 TTTTT-TTATTTTAGTCCTTTAACTTTCTATTTTTGCTATTTTAATCCTCTAAATTTTTATTTTT
* *
1519294 CTATTTTGGTCCTTTAAATTTTTGTTTTGCTATTTTAGTCCTTTAAGTTCT
65 CTATTTTAGTCATTTAAATTTTTGTTTTGCTATTTTAGTCCTTTAAGTT-T
* *
1519345 TGTTTTTGCTATTTTGGTCCCTTAA
1 T-TTTTT--TATTTTAGTCCTTTAA
1519370 ATCACTGAGT
Statistics
Matches: 122, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
114 1 0.01
115 27 0.22
116 26 0.21
117 54 0.44
118 14 0.11
ACGTcount: A:0.17, C:0.11, G:0.09, T:0.63
Consensus pattern (114 bp):
TTTTTTTATTTTAGTCCTTTAACTTTCTATTTTTGCTATTTTAATCCTCTAAATTTTTATTTTTC
TATTTTAGTCATTTAAATTTTTGTTTTGCTATTTTAGTCCTTTAAGTTT
Found at i:1523294 original size:20 final size:20
Alignment explanation
Indices: 1523269--1523389 Score: 136
Period size: 20 Copynumber: 6.0 Consensus size: 20
1523259 AATTGGAAAA
1523269 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
1523289 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
1523309 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* * *
1523329 ATCGCAATACGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
1523350 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
1523370 TTCGCAATTCGATTCTGACT
1 ATCGCAATGCGATACTGACT
1523390 TTCACAACGC
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.02
20 68 0.81
21 12 0.14
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:1523402 original size:20 final size:20
Alignment explanation
Indices: 1523354--1523403 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1523344 TACAAAATCG
* * *
1523354 CAACGAGATACTGACTTTCG
1 CAACGCGATTCTGACTTTCA
**
1523374 CAATTCGATTCTGACTTTCA
1 CAACGCGATTCTGACTTTCA
1523394 CAACGCGATT
1 CAACGCGATT
1523404 TACATAGCGT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (20 bp):
CAACGCGATTCTGACTTTCA
Found at i:1523982 original size:19 final size:19
Alignment explanation
Indices: 1523958--1524021 Score: 110
Period size: 19 Copynumber: 3.4 Consensus size: 19
1523948 GCAACGAGAG
1523958 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
1523977 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
**
1523996 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAATAAA
1524015 AATCGCA
1 AATCGCA
1524022 TTGCGATTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAATAAA
Found at i:1524077 original size:14 final size:14
Alignment explanation
Indices: 1524058--1524113 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
1524048 TTTCATTTCG
1524058 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1524072 CGTTGCGATAGTCATTT
1 CGTTGCGAT--TC-TCT
1524089 CGCATTGCGATTCTCT
1 CG--TTGCGATTCTCT
1524105 CGTTGCGAT
1 CGTTGCGAT
1524114 AGTCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 6 0.17
19 7 0.20
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.39
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1524087 original size:33 final size:33
Alignment explanation
Indices: 1524039--1524137 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
1524029 TTTCATTTCG
**
1524039 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
*
1524072 CGTTGCGATAGTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
1524105 CGTTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 CGTTGCGATAGTCATTT-CGCGTTGCGATTCTC
1524138 ATTATCTCGT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 47 0.77
34 14 0.23
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.40
Consensus pattern (33 bp):
CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
Found at i:1524139 original size:20 final size:19
Alignment explanation
Indices: 1524017--1524162 Score: 114
Period size: 19 Copynumber: 8.1 Consensus size: 19
1524007 GAAACCAAAA
* *
1524017 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTCTCATT
*
1524036 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTCTCATT
1524055 TCGCGTTGCGATTCTC---
1 TCGCGTTGCGATTCTCATT
**
1524071 T--CGTTGCGATAGTCATT
1 TCGCGTTGCGATTCTCATT
*
1524088 TCGCATTGCGATTCTC---
1 TCGCGTTGCGATTCTCATT
**
1524104 T--CGTTGCGATAGTCATT
1 TCGCGTTGCGATTCTCATT
1524121 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTCTCATT
* *
1524141 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTCTCATT
1524161 TC
1 TC
1524163 AACCAAAAGA
Statistics
Matches: 101, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
14 21 0.21
16 2 0.02
17 2 0.02
19 45 0.45
20 30 0.30
21 1 0.01
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTCTCATT
Found at i:1526244 original size:21 final size:21
Alignment explanation
Indices: 1526220--1526264 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
1526210 GAGGTCCACT
1526220 CCTATCATTCCTCGAGAGTCC
1 CCTATCATTCCTCGAGAGTCC
1526241 CCTATCATTCCTCGAGAGTCC
1 CCTATCATTCCTCGAGAGTCC
1526262 CCT
1 CCT
1526265 CCCACCGTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.18, C:0.40, G:0.13, T:0.29
Consensus pattern (21 bp):
CCTATCATTCCTCGAGAGTCC
Found at i:1527698 original size:14 final size:14
Alignment explanation
Indices: 1527679--1527714 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1527669 ATTGTTTAAT
1527679 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
1527693 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
1527707 TGATTTGT
1 TGATTTGT
1527715 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:1527845 original size:19 final size:19
Alignment explanation
Indices: 1527821--1527887 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
1527811 AAAAAGTACT
*
1527821 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
1527840 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
1527854 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
1527873 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
1527888 TAAATTTGCG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
14 10 0.24
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 25 0.61
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.12
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:1527938 original size:33 final size:31
Alignment explanation
Indices: 1527896--1528019 Score: 178
Period size: 33 Copynumber: 3.9 Consensus size: 31
1527886 ATTAAATTTG
1527896 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT--CT
**
1527929 CGTTGCGATTTTCATTTCGCATTGCGAAATTAG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCT
*
1527962 CGTTGCGATTTTCA-TTCACATTGCGATTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCT
1527992 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1528020 AGTAATTTCC
Statistics
Matches: 82, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
30 17 0.21
31 12 0.15
32 10 0.12
33 40 0.49
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (31 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCT
Found at i:1528011 original size:63 final size:65
Alignment explanation
Indices: 1527889--1528018 Score: 219
Period size: 63 Copynumber: 2.0 Consensus size: 65
1527879 ACGCGAAATT
* *
1527889 AAATTTGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCACATTGCGATT-CCTCGTTGCGATTTTCATTTCGCATTGC
1527954 G
65 G
1527955 AAATTAGCGTTGCGATTTTCA-TTCACATTGCGATT-CTCGTTGCGATTTTCATTTCGCATTGCG
1 AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCCTCGTTGCGATTTTCATTTCGCATTGCG
1528018 A
1 A
1528019 TAGTAATTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
63 29 0.47
65 13 0.21
66 20 0.32
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.42
Consensus pattern (65 bp):
AAATTAGCGTTGCGATTTTCATTTCACATTGCGATTCCTCGTTGCGATTTTCATTTCGCATTGCG
Found at i:1528046 original size:63 final size:64
Alignment explanation
Indices: 1527915--1528046 Score: 142
Period size: 63 Copynumber: 2.1 Consensus size: 64
1527905 TTTCATTTCG
* * * * * *
1527915 CATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTAGCGTTGCGATTTTCATTCA
1 CATTGCGATT-CCTCGTTGCGATTTTCATTTCGCATTGCGAAAGTAGAGTTCCGAGTTGCATACA
* * * *
1527980 CATTGCGATT-CTCGTTGCGATTTTCATTTCGCATTGCGATAGTA-ATTTCCGCGTTGCGATAGA
1 CATTGCGATTCCTCGTTGCGATTTTCATTTCGCATTGCGAAAGTAGAGTTCCGAGTTGC-ATACA
1528043 CATT
1 CATT
1528047 AAGATGATTG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
62 7 0.12
63 39 0.70
65 10 0.18
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (64 bp):
CATTGCGATTCCTCGTTGCGATTTTCATTTCGCATTGCGAAAGTAGAGTTCCGAGTTGCATACA
Found at i:1530322 original size:12 final size:12
Alignment explanation
Indices: 1530305--1530341 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
1530295 TCTTCGGGGA
1530305 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1530317 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1530329 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1530341 C
1 C
1530342 AGGATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1531407 original size:20 final size:20
Alignment explanation
Indices: 1531374--1531452 Score: 70
Period size: 20 Copynumber: 3.9 Consensus size: 20
1531364 GAATAAGTAA
* *
1531374 ATCGCAATGCGATACTGACT
1 ATCGCAACGAGATACTGACT
* *
1531394 ATCGCAACGAGATAAT-ACAAA
1 ATCGCAACGAGATACTGAC--T
*
1531415 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATACTGACT
* *
1531435 TTCGCAACGAGATTCTGA
1 ATCGCAACGAGATACTGA
1531453 AAATCGCAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 2 0.04
20 30 0.62
21 14 0.29
22 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGAGATACTGACT
Found at i:1531459 original size:20 final size:20
Alignment explanation
Indices: 1531412--1531461 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1531402 GAGATAATAC
1531412 AAAATCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
***
1531432 ACTTTCGCAACGAGATTCTG
1 AAAATCGCAACGAGATTCTG
1531452 AAAATCGCAA
1 AAAATCGCAA
1531462 TCATCTTCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGAGATTCTG
Found at i:1531700 original size:20 final size:20
Alignment explanation
Indices: 1531675--1531741 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
1531665 CAACGGGGAA
1531675 ATCGCAATGCGAAAATGGCT
1 ATCGCAATGCGAAAATGGCT
* ***
1531695 ATCGCAATTCG-AAATGAAAA
1 ATCGCAATGCGAAAATG-GCT
*
1531715 ATCGCAACGCGAAAATGGCT
1 ATCGCAATGCGAAAATGGCT
1531735 ATCGCAA
1 ATCGCAA
1531742 CTAGAAAATC
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.18
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGGCT
Found at i:1531754 original size:34 final size:34
Alignment explanation
Indices: 1531659--1531762 Score: 109
Period size: 40 Copynumber: 2.9 Consensus size: 34
1531649 ATTCGTTTGA
** *
1531659 CTATCGCAACGGGGAAATCGCAATGCGAAAATGG
1 CTATCGCAACAAGAAAATCGCAATGCGAAAATGG
*
1531693 CTATCGCAATTCGAAATGAAAAATCGCAACGCGAAAATGG
1 CTATCGCAA--C--AA-G-AAAATCGCAATGCGAAAATGG
*
1531733 CTATCGCAACTAGAAAATCGCAATGCGAAA
1 CTATCGCAACAAGAAAATCGCAATGCGAAA
1531763 TGAAAATCGC
Statistics
Matches: 58, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
34 25 0.43
35 1 0.02
36 2 0.03
38 1 0.02
39 1 0.02
40 28 0.48
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.16
Consensus pattern (34 bp):
CTATCGCAACAAGAAAATCGCAATGCGAAAATGG
Found at i:1531793 original size:14 final size:14
Alignment explanation
Indices: 1531774--1531827 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
1531764 GAAAATCGCA
1531774 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
1531788 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
1531805 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
1531821 TTGCGAT
1 TTGCGAT
1531828 AGTCAGTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:1531793 original size:33 final size:33
Alignment explanation
Indices: 1531756--1531826 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
1531746 AAAATCGCAA
1531756 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
1531789 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1531822 TGCGA
1 TGCGA
1531827 TAGTCAGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:1531973 original size:14 final size:14
Alignment explanation
Indices: 1531954--1531990 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1531944 CATCAATTAA
1531954 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1531968 ACAAATCATCTTTT
1 ACAAATCAACATTT
1531982 ACAAATCAA
1 ACAAATCAA
1531991 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1533457 original size:21 final size:20
Alignment explanation
Indices: 1533433--1533492 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
1533423 AACGGTGGGG
1533433 GGGGACTCTTGAGGGA-GGATA
1 GGGGACTCTTGAGGGATGG--A
* **
1533454 GGGGCCTCTTGAATGATTGGA
1 GGGGACTCTTGAGGGA-TGGA
1533475 GGGGACTCTTGAGGGATG
1 GGGGACTCTTGAGGGATG
1533493 ACAGGTGAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
23 2 0.06
ACGTcount: A:0.20, C:0.12, G:0.45, T:0.23
Consensus pattern (20 bp):
GGGGACTCTTGAGGGATGGA
Found at i:1533882 original size:20 final size:20
Alignment explanation
Indices: 1533859--1533925 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
1533849 GAAACTTAAA
1533859 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
1533879 ATCGCAACGC-AGAAATGGCT
1 ATCGCAACGCGA-AAATGACT
* *
1533899 ATCGCAATGCG-AAATGA-A
1 ATCGCAACGCGAAAATGACT
1533917 ATCGCAACG
1 ATCGCAACG
1533926 ACAAAATCGC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 8 0.20
19 6 0.15
20 26 0.65
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1533992 original size:14 final size:14
Alignment explanation
Indices: 1533973--1534030 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
1533963 TTTCATTTCG
1533973 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1533987 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1534003 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1534019 CGTTGCGATTTT
1 CGTTGCGATTTT
1534031 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1534037 original size:33 final size:33
Alignment explanation
Indices: 1533956--1534046 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
1533946 ACAAATCGCA
*
1533956 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1533989 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1534021 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
1534047 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:1534083 original size:20 final size:20
Alignment explanation
Indices: 1534031--1534074 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1534021 TTGCGATTTT
*
1534031 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
1534050 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCGTTGCGATAGC
1534070 CATTT
1 CATTT
1534075 TCGTGTTGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:1534593 original size:18 final size:18
Alignment explanation
Indices: 1534567--1534611 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1534557 GTCGATCAGA
*
1534567 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
1534585 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
1534603 TGATGGCTC
1 TGATGGCTC
1534612 CCAAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:1535976 original size:20 final size:20
Alignment explanation
Indices: 1535928--1535986 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1535918 AATAGTTTCT
** *
1535928 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
1535948 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
1535968 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
1535987 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:1536506 original size:20 final size:20
Alignment explanation
Indices: 1536480--1536614 Score: 155
Period size: 20 Copynumber: 6.7 Consensus size: 20
1536470 GATTATGTAT
* *
1536480 TATCGCGTTGCGAAAGTCAG
1 TATCGCATTGCGATAGTCAG
* * *
1536500 AATCGCGTTGCGAAAGTCAG
1 TATCGCATTGCGATAGTCAG
* * * *
1536520 TATCTCGTTGCGATTTTGT-AT
1 TATCGCATTGCGA--TAGTCAG
*
1536541 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTCAG
1536561 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTCAG
1536581 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTCAG
1536601 TATCGCATTGCGAT
1 TATCGCATTGCGAT
1536615 TTTCCCAATT
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
19 3 0.03
20 84 0.83
21 12 0.12
22 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (20 bp):
TATCGCATTGCGATAGTCAG
Found at i:1536572 original size:61 final size:61
Alignment explanation
Indices: 1536460--1536613 Score: 186
Period size: 61 Copynumber: 2.5 Consensus size: 61
1536450 CGCTTTGAAA
* * * *
1536460 ATCGCATTGTGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * * *
1536521 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
*
1536582 ATCGCATTGCGA-TA-GTCAGTATCGCATTGCGA
1 ATCGCATTGCGATTATGT-ATTATCGCATTGCGA
1536614 TTTTCCCAAT
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
59 2 0.03
60 15 0.19
61 61 0.78
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGATTATGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:1536654 original size:81 final size:81
Alignment explanation
Indices: 1536480--1536635 Score: 197
Period size: 81 Copynumber: 1.9 Consensus size: 81
1536470 GATTATGTAT
* * * * ** *
1536480 TATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATC
1 TATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATC
1536545 GCATTGCGATAGTAAG
66 GCATTGCGATAGTAAG
* * *
1536561 TATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT-T
1 TATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAATAT
*
1536625 CGCGTTGCGAT
65 CGCATTGCGAT
1536636 TTACTTATTC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 61 0.97
82 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (81 bp):
TATCGCATTGCGAAAGTCAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAATATC
GCATTGCGATAGTAAG
Found at i:1538558 original size:12 final size:12
Alignment explanation
Indices: 1538541--1538565 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1538531 TGAAATCGGG
1538541 GGAGGAAGGGGA
1 GGAGGAAGGGGA
1538553 GGAGGAAGGGGA
1 GGAGGAAGGGGA
1538565 G
1 G
1538566 TTGAGAGTGA
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:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (12 bp):
GGAGGAAGGGGA
Found at i:1538560 original size:73 final size:72
Alignment explanation
Indices: 1538475--1538630 Score: 303
Period size: 73 Copynumber: 2.2 Consensus size: 72
1538465 ATGAGAGGTC
1538475 GGGGAGGAGGAAGGGGAGTTGAGAGTGAAAGCAGATTTTTGTTTTGTTTCAGACAATGAAATCGG
1 GGGGAGGAGGAAGGGGAGTTGAGAGTGAAAGCAGATTTTTGTTTTGTTT-AGACAATGAAATCGG
1538540 GGGAGGAA
65 GGGAGGAA
1538548 GGGGAGGAGGAAGGGGAGTTGAGAGTGAAAGCAGATTTTTGTTTTGTTTAGACAATGAAATCGGG
1 GGGGAGGAGGAAGGGGAGTTGAGAGTGAAAGCAGATTTTTGTTTTGTTTAGACAATGAAATCGGG
1538613 GGAGGAA
66 GGAGGAA
1538620 GGGGAGGAGGA
1 GGGGAGGAGGA
1538631 TAAGAAATTT
Statistics
Matches: 83, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 34 0.41
73 49 0.59
ACGTcount: A:0.30, C:0.04, G:0.44, T:0.22
Consensus pattern (72 bp):
GGGGAGGAGGAAGGGGAGTTGAGAGTGAAAGCAGATTTTTGTTTTGTTTAGACAATGAAATCGGG
GGAGGAA
Found at i:1538844 original size:31 final size:28
Alignment explanation
Indices: 1538778--1538848 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
1538768 AGGCGGAGGA
* *
1538778 GGAAGCGGGAGAGTAAAAGCAGAAAGGT
1 GGAAGGGGGAGGGTAAAAGCAGAAAGGT
*
1538806 -GAAGGGGGAGGGTCAAAGCAGAAAGGT
1 GGAAGGGGGAGGGTAAAAGCAGAAAGGT
1538833 CGGGGAAGGGGGAGGG
1 ---GGAAGGGGGAGGG
1538849 GCTTTATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 24 0.67
31 12 0.33
ACGTcount: A:0.35, C:0.07, G:0.52, T:0.06
Consensus pattern (28 bp):
GGAAGGGGGAGGGTAAAAGCAGAAAGGT
Found at i:1544730 original size:24 final size:24
Alignment explanation
Indices: 1544703--1544807 Score: 106
Period size: 24 Copynumber: 4.4 Consensus size: 24
1544693 AAACGGAGAT
* *
1544703 ATCAAAAATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
1544727 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
*
1544751 ATCAGAAATCAGAACAAAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* * *
1544775 GTAATG-TATCAGAACAGAATTCA-
1 ATCA-GAAATCAGAACAGAATTCAG
1544798 AGTCAGAAAT
1 A-TCAGAAAT
1544808 TAGATAAAAT
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
23 1 0.02
24 62 0.97
25 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.19
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:1564922 original size:16 final size:17
Alignment explanation
Indices: 1564890--1564922 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1564880 GTAAATAGTT
1564890 TATGTCTTGTGGATGAA
1 TATGTCTTGTGGATGAA
*
1564907 TATGTGTTGT-GATGAA
1 TATGTCTTGTGGATGAA
1564923 GCTACCTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.24, C:0.03, G:0.30, T:0.42
Consensus pattern (17 bp):
TATGTCTTGTGGATGAA
Found at i:1565131 original size:21 final size:20
Alignment explanation
Indices: 1565101--1565140 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1565091 GAAATACATA
**
1565101 TATTAAAATATTAAAAATAT
1 TATTAAAATAAAAAAAATAT
1565121 TATTAAAAATAAAAAAAATA
1 TATT-AAAATAAAAAAAATA
1565141 CATTATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TATTAAAATAAAAAAAATAT
Found at i:1565644 original size:42 final size:42
Alignment explanation
Indices: 1565497--1565646 Score: 167
Period size: 42 Copynumber: 3.6 Consensus size: 42
1565487 TTATATCATT
* *
1565497 ATCGTGAATTGTCATATCAACATCGTTGGACATCATGTTAGC
1 ATCGTGAATTGCCATATCAACATCGTTGGACACCATGTTAGC
* * * * *
1565539 ATCGTGAACTGCTATATCAACATCATTGGCCACTATGTTAGC
1 ATCGTGAATTGCCATATCAACATCGTTGGACACCATGTTAGC
* ** * * *
1565581 ATCGTGAACTGTTACATCAACATCGTTGGTCACCATGTTAAC
1 ATCGTGAATTGCCATATCAACATCGTTGGACACCATGTTAGC
1565623 ATCGTGAATTGCCATGA-CAACATC
1 ATCGTGAATTGCCAT-ATCAACATC
1565647 ATAATGATAA
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
42 89 0.99
43 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (42 bp):
ATCGTGAATTGCCATATCAACATCGTTGGACACCATGTTAGC
Found at i:1566103 original size:47 final size:48
Alignment explanation
Indices: 1566037--1566127 Score: 141
Period size: 47 Copynumber: 1.9 Consensus size: 48
1566027 AATTTGATCT
1566037 AAATATATAAAAAAATATTTTTATAAGATAAAATAAGA-ATTTAATTGA
1 AAATATATAAAAAAATATTTTTATAAGATAAAATAA-ATATTTAATTGA
* *
1566085 AAATATAT-AAAAATTATTTTTATTAGATAAAATAAATATTTAA
1 AAATATATAAAAAAATATTTTTATAAGATAAAATAAATATTTAA
1566128 GAAAAAGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
46 1 0.03
47 31 0.77
48 8 0.20
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (48 bp):
AAATATATAAAAAAATATTTTTATAAGATAAAATAAATATTTAATTGA
Found at i:1566142 original size:47 final size:46
Alignment explanation
Indices: 1566037--1566143 Score: 119
Period size: 47 Copynumber: 2.3 Consensus size: 46
1566027 AATTTGATCT
*
1566037 AAATATATAAAAAAATATTTTTATAAGATAAAATAAGAATTTAATTGA
1 AAATAAAT-AAAAAATATTTTTATAAGATAAAATAAGAATTTAA-TGA
* * *
1566085 AAATATATAAAAATTATTTTTATTAGATAAAATAA-ATATTTAA-GAA
1 AAATAAATAAAAAATATTTTTATAAGATAAAATAAGA-ATTTAATG-A
1566131 AAAGTAAATAAAA
1 AAA-TAAATAAAA
1566144 TAAAAAAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
45 1 0.02
46 5 0.09
47 39 0.74
48 8 0.15
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (46 bp):
AAATAAATAAAAAATATTTTTATAAGATAAAATAAGAATTTAATGA
Found at i:1567701 original size:87 final size:87
Alignment explanation
Indices: 1567555--1567714 Score: 293
Period size: 87 Copynumber: 1.8 Consensus size: 87
1567545 GTTATATTAT
*
1567555 TTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGATAGC
1 TTAACCGGAAATATTATCAAATACAATAACATATTAGGTAACGCTTATATAATGTAATAGATAGC
1567620 GCTTATATAATAAAATAAGTAA
66 GCTTATATAATAAAATAAGTAA
* *
1567642 TTAACCGGAAATATTATCAAATACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGC
1 TTAACCGGAAATATTATCAAATACAATAACATATTAGGTAACGCTTATATAATGTAATAGATAGC
1567707 GCTTATAT
66 GCTTATAT
1567715 TGACCTACTT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (87 bp):
TTAACCGGAAATATTATCAAATACAATAACATATTAGGTAACGCTTATATAATGTAATAGATAGC
GCTTATATAATAAAATAAGTAA
Found at i:1568157 original size:182 final size:182
Alignment explanation
Indices: 1567850--1568871 Score: 1766
Period size: 182 Copynumber: 5.6 Consensus size: 182
1567840 TGCGTTCACC
** * * *
1567850 TTTTGTCATTTATAGACCGGTTTTATCATATTTTTACATGTTATATTATTATGGATCGATATATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
1567915 TTTATAAATTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAAGTGTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
*
1567979 ATACTTATAATAAATTATCGACACTTTCAACATATCCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* *
1568032 TTTTGTCATTTCGAGACCGATTTTGTCATATTTTTACTTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1568097 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
1568162 TACTTATAATAAATTATTGACACTTTCAACATAACCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * *
1568214 TTTTGTCATTTCGATACCGGTTTTGTCATATTATTACCTGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
1568279 TTTATAAATTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
1568344 TACTTATAATAAATTATCGACATTTTCAACATAACCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
1568396 TTTTGTCATTTCGAGATCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
*
1568461 TTTATAAAGTATCGACACGTTATTGGCGCTATAACTTCTTCTCTTATT-AATTCCAAAA--GTCG
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCG
1568523 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
130 ATACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
*
1568576 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCAATACATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
1568641 TTTATAAAGTATCGACACTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATTCCAAAAGTGTCGA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
*
1568705 TACGTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
131 TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
* * * *
1568757 TTTTTTCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATTGATAAATT
1 TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
* *
1568822 TTTATAAAGTATCGACACTTTATTGACGATATAACTTCTTCTCTTTTAAA
66 TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAA
1568872 AAAGGTAAAA
Statistics
Matches: 799, Mismatches: 35, Indels: 12
0.94 0.04 0.01
Matches are distributed among these distances:
178 2 0.00
179 19 0.02
180 153 0.19
181 151 0.19
182 472 0.59
183 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.43
Consensus pattern (182 bp):
TTTTGTCATTTCGAGACCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGATACATT
TTTATAAAGTATCGACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGA
TACTTATAATAAATTATCGACACTTTCAACATAACCGGTAGCGCTTTACCTG
Found at i:1573049 original size:12 final size:12
Alignment explanation
Indices: 1573016--1573050 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
1573006 AATTGTTTGG
*
1573016 ATCATCATCATC
1 ATCATCATCGTC
1573028 ATCATCATCGTC
1 ATCATCATCGTC
*
1573040 ATCTTCATCGT
1 ATCATCATCGT
1573051 AACCTCATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.31, G:0.06, T:0.37
Consensus pattern (12 bp):
ATCATCATCGTC
Found at i:1574946 original size:189 final size:191
Alignment explanation
Indices: 1574539--1575140 Score: 861
Period size: 190 Copynumber: 3.2 Consensus size: 191
1574529 CGATATTAAA
*
1574539 AATAGTATCGAC-AAATTAAAAAGTGTCG----ATATATTACCACCAATTCTCTCATAAATCCGG
1 AATAGTATCGACAAAATTAAAAAGTGTCGATACATATATTA-CACCTATTCTCTCATAAAT-CGG
*
1574599 TATA-TTA-CCGGTTAGATTGAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGG
64 TATACTTATACGGTTAGATTGAAAATTACCTATTAC--TATACTTATGGGTTTCGATGTTTCTGG
* *
1574662 GATCGACACCTTTTATATGGATCGAGA-TTTATGGTTGCACCCTG-TTGCCATTCATTCTGGACC
127 GATCGACACCTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1574725 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCGG
1 AATAGTATCG--ACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCGG
1574790 TATACTTATACGGTTAGATTGAAAAATTACCTA-TAC-ATACTTATGGGTTTCGATGTTTCTGGG
64 TATACTTATACGGTTAGATTG-AAAATTACCTATTACTATACTTATGGGTTTCGATGTTTCTGGG
1574853 ATCGACACCTTTTATATGGATCGA-ACTTTATGGTTGCA-CCTGTTTTCCATTCATTCTGGA-C
128 ATCGACACCTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
1574914 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACA-CTA-T-TCT-ATAAATCGG
1 AATAGTATCG--ACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCGG
*
1574975 TATAACTTATACGGTTAGATTGAAAATTACCTATTACATTATACTTATGGGTTTCGA-GTTTATG
64 TAT-ACTTATACGGTTAGATTGAAAATTACCTATTAC--TATACTTATGGGTTTCGATGTTTCTG
1575039 GGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTGCCATTCATTCTG
126 GGATCGACACC-TTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTT-CCATTCATTCTG
1575104 GACC
188 GACC
1575108 AATAGTAT---CAAAATTAAAAAAGTGTCGATACAT
1 AATAGTATCGACAAAATT-AAAAAGTGTCGATACAT
1575141 TATACCGGTT
Statistics
Matches: 388, Mismatches: 4, Indels: 44
0.89 0.01 0.10
Matches are distributed among these distances:
185 23 0.06
186 34 0.09
187 1 0.00
188 22 0.06
189 94 0.24
190 108 0.28
191 21 0.05
192 29 0.07
193 36 0.09
194 20 0.05
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (191 bp):
AATAGTATCGACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAATCGGTA
TACTTATACGGTTAGATTGAAAATTACCTATTACTATACTTATGGGTTTCGATGTTTCTGGGATC
GACACCTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
Found at i:1575172 original size:161 final size:158
Alignment explanation
Indices: 1574981--1575303 Score: 517
Period size: 160 Copynumber: 2.0 Consensus size: 158
1574971 TCGGTATAAC
1574981 TTATACGGTTAGATTGAAAATTACCTATTACATTATACTTATGGGTTTCGA-GTTTATGGGATCG
1 TTATACGGTTAGATTGAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCG
1575045 ACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTGCCATTCATTCTGGACCAA
66 ACACC-TTT-TATATGGATCGACACTTTATGGTTGCACCCTG-TTTGCCATTCATTCTGGACCAA
1575110 TAGTA-T-CAAAATTAAAAAAGTGTCGATACA
128 TAGTATTACAAAATT-AAAAAGTGTCGATACA
*
1575140 TTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTTTGGGAT
1 TTATA-CGGTTAGATTG-AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGAT
**
1575205 CGACGTCTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAT
64 CGACACCTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAT
1575270 AGTATTGACACAAAATTAAAAAGTGTCGATACA
129 AGTATT---ACAAAATTAAAAAGTGTCGATACA
1575303 T
1 T
1575304 ATTACACCTA
Statistics
Matches: 153, Mismatches: 3, Indels: 12
0.91 0.02 0.07
Matches are distributed among these distances:
159 32 0.21
160 44 0.29
161 38 0.25
162 15 0.10
163 17 0.11
164 7 0.05
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (158 bp):
TTATACGGTTAGATTGAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCG
ACACCTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAATAG
TATTACAAAATTAAAAAGTGTCGATACA
Done.