Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 38
Found at i:1431943 original size:20 final size:21
Alignment explanation
Indices: 1431904--1431943 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1431894 AGTTGAAAAT
* *
1431904 TTTGATTTTATTATTTTATTA
1 TTTGATTATATTATTATATTA
1431925 TTTGATTAT-TTATTATATT
1 TTTGATTATATTATTATATT
1431944 TATTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTGATTATATTATTATATTA
Found at i:1433625 original size:13 final size:13
Alignment explanation
Indices: 1433603--1433636 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
1433593 ACCAAACTAT
1433603 ACTACATGCCTCC
1 ACTACATGCCTCC
*
1433616 ACTACGTGCCTCC
1 ACTACATGCCTCC
1433629 ACTACATG
1 ACTACATG
1433637 ATCATGCTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.41, G:0.12, T:0.24
Consensus pattern (13 bp):
ACTACATGCCTCC
Found at i:1435058 original size:19 final size:20
Alignment explanation
Indices: 1435017--1435071 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
1435007 AAAATTATAA
*
1435017 AAAAATTATTTAAAGGCAGG
1 AAAAATTATTTAAAGACAGG
*
1435037 AAAAATTATTTAAAGAC-TG
1 AAAAATTATTTAAAGACAGG
1435056 AAAAATTATTTAAAGA
1 AAAAATTATTTAAAGA
1435072 AATTATTAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.29
Consensus pattern (20 bp):
AAAAATTATTTAAAGACAGG
Found at i:1436292 original size:20 final size:21
Alignment explanation
Indices: 1436252--1436303 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
1436242 TTATTTTGAG
1436252 TATATGTATTT-AATATACATA
1 TATATGT-TTTAAATATACATA
1436273 TATATGTTTTAAATAT-CATA
1 TATATGTTTTAAATATACATA
1436293 TGATA-GTTTTA
1 T-ATATGTTTTA
1436304 CTTGAGATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (21 bp):
TATATGTTTTAAATATACATA
Found at i:1438138 original size:13 final size:13
Alignment explanation
Indices: 1438115--1438174 Score: 84
Period size: 13 Copynumber: 4.6 Consensus size: 13
1438105 GTCATAAATC
1438115 TATGACGCGCATT
1 TATGACGCGCATT
* *
1438128 GATGACACGCATT
1 TATGACGCGCATT
* *
1438141 TATGACTCACATT
1 TATGACGCGCATT
1438154 TATGACGCGCATT
1 TATGACGCGCATT
1438167 TATGACGC
1 TATGACGC
1438175 ATATTGAGCG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:1438153 original size:26 final size:26
Alignment explanation
Indices: 1438115--1438181 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 26
1438105 GTCATAAATC
*
1438115 TATGACGCGCATTGATGACACGCATT
1 TATGACGCACATTGATGACACGCATT
* * *
1438141 TATGACTCACATTTATGACGCGCATT
1 TATGACGCACATTGATGACACGCATT
*
1438167 TATGACGCATATTGA
1 TATGACGCACATTGA
1438182 GCGTCATTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (26 bp):
TATGACGCACATTGATGACACGCATT
Found at i:1442202 original size:9 final size:8
Alignment explanation
Indices: 1442181--1442211 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
1442171 TGGCGTTTAG
*
1442181 GAAAAAGG
1 GAAAAAGT
1442189 GAAAAAGT
1 GAAAAAGT
1442197 GAAAAAGT
1 GAAAAAGT
1442205 GAAAAAG
1 GAAAAAG
1442212 GGGAAGCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.29, T:0.06
Consensus pattern (8 bp):
GAAAAAGT
Found at i:1444347 original size:2 final size:2
Alignment explanation
Indices: 1444340--1444392 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1444330 AGTATCGACT
1444340 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1444382 TA TA TA TA TA T
1 TA TA TA TA TA T
1444393 TGAGTTTTGG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1447579 original size:20 final size:21
Alignment explanation
Indices: 1447539--1447590 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
1447529 TTATTTTGAG
1447539 TATATGTATTT-AATATACATA
1 TATATGT-TTTAAATATACATA
1447560 TATATGTTTTAAATAT-CATA
1 TATATGTTTTAAATATACATA
1447580 TGATA-GTTTTA
1 T-ATATGTTTTA
1447591 CTTGAGATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (21 bp):
TATATGTTTTAAATATACATA
Found at i:1455343 original size:20 final size:20
Alignment explanation
Indices: 1455320--1455388 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
1455310 ACCCCTTTAG
*
1455320 TATCGATACCCCATGAGCAA
1 TATCAATACCCCATGAGCAA
1455340 TATCAATACCCCATGAG-AA
1 TATCAATACCCCATGAGCAA
* *
1455359 GTATCAATACCCTATGAACAA
1 -TATCAATACCCCATGAGCAA
1455380 TATCAATAC
1 TATCAATAC
1455389 TCTTGGAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 2 0.05
20 40 0.91
21 2 0.05
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (20 bp):
TATCAATACCCCATGAGCAA
Found at i:1455827 original size:9 final size:9
Alignment explanation
Indices: 1455806--1455834 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1455796 ATCTCTCTCA
1455806 CTAATAT-G
1 CTAATATAG
1455814 CTAATATAG
1 CTAATATAG
1455823 CTAATATAG
1 CTAATATAG
1455832 CTA
1 CTA
1455835 TATCACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.34
Consensus pattern (9 bp):
CTAATATAG
Found at i:1459883 original size:19 final size:18
Alignment explanation
Indices: 1459861--1459912 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
1459851 ATGGACATGA
* *
1459861 TATTTTTATTATTGCTTTT
1 TATTTTTATTATTAC-ATT
* *
1459880 TATTATTATCATTTACATT
1 TATTTTTATTA-TTACATT
1459899 TATTTTTATTATTA
1 TATTTTTATTATTA
1459913 TTAATATTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 3 0.12
19 20 0.77
20 3 0.12
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTTTTATTATTACATT
Found at i:1459932 original size:13 final size:13
Alignment explanation
Indices: 1459914--1459938 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1459904 TTATTATTAT
1459914 TAATATTGTTGAA
1 TAATATTGTTGAA
1459927 TAATATTGTTGA
1 TAATATTGTTGA
1459939 TTATTCTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TAATATTGTTGAA
Found at i:1460629 original size:31 final size:31
Alignment explanation
Indices: 1460591--1460652 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
1460581 TGATCATATG
1460591 TGATTTTATCTAATGCCAGTATTAATTGAAT
1 TGATTTTATCTAATGCCAGTATTAATTGAAT
1460622 TGATTTTATCTAATGCCAGTATTAATTGAAT
1 TGATTTTATCTAATGCCAGTATTAATTGAAT
1460653 CTATAGGTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (31 bp):
TGATTTTATCTAATGCCAGTATTAATTGAAT
Found at i:1462478 original size:17 final size:16
Alignment explanation
Indices: 1462456--1462489 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1462446 TAAAAACAGT
1462456 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
1462473 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
1462489 A
1 A
1462490 TCTTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:1471987 original size:17 final size:16
Alignment explanation
Indices: 1471965--1471998 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1471955 TAAAAACAAT
1471965 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
1471982 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
1471998 A
1 A
1471999 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:1473913 original size:12 final size:12
Alignment explanation
Indices: 1473898--1473923 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1473888 CTTATTCTCA
1473898 TTTATCTTCTTC
1 TTTATCTTCTTC
1473910 TTTATCTTCTTC
1 TTTATCTTCTTC
1473922 TT
1 TT
1473924 ATCGCTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTATCTTCTTC
Found at i:1476433 original size:18 final size:18
Alignment explanation
Indices: 1476391--1476438 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
1476381 CTAACATATT
1476391 ATAATA-ATAAAATAAAA
1 ATAATATATAAAATAAAA
*
1476408 ATTAATATAAAAAATAAATA
1 A-TAATATATAAAATAAA-A
1476428 ATATATATATA
1 ATA-ATATATA
1476439 TATATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 1 0.04
18 5 0.20
19 11 0.44
20 8 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAATATATAAAATAAAA
Found at i:1476435 original size:20 final size:20
Alignment explanation
Indices: 1476390--1476436 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
1476380 CCTAACATAT
1476390 TATA-ATAATAAAATAAAAA
1 TATATATAATAAAATAAAAA
1476409 T-TAATATAA-AAAATAAATAA
1 TAT-ATATAATAAAATAAA-AA
1476429 TATATATA
1 TATATATA
1476437 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
18 1 0.04
19 10 0.42
20 12 0.50
21 1 0.04
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TATATATAATAAAATAAAAA
Found at i:1476955 original size:24 final size:25
Alignment explanation
Indices: 1476901--1476955 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
1476891 ATTAATTGAT
* *
1476901 ATTTACAAAATTTAAATTAATCTAG
1 ATTTACAAAATTTAAATTAATCAAA
* * *
1476926 ACTTACAAATTTTGAATT-ATCAAA
1 ATTTACAAAATTTAAATTAATCAAA
1476950 ATTTAC
1 ATTTAC
1476956 TATGTATTCT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (25 bp):
ATTTACAAAATTTAAATTAATCAAA
Found at i:1479233 original size:67 final size:67
Alignment explanation
Indices: 1479125--1479259 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
1479115 CACCGCCGTC
1479125 TGGCCACCCCAACTCGAGCCATCACTACTAAAAGACTCACCGTCGAACGATGAACAAAAGTGACC
1 TGGCCACCCCAACTCGAGCCATCACTACTAAAAGACTCACCGTCGAACGATGAACAAAAGTGACC
1479190 CT
66 CT
1479192 TGGCCACCCCAACTCGAGCCATCACTACTAAAAGACTCACCGTCGAACGATGAACAAAAGTGACC
1 TGGCCACCCCAACTCGAGCCATCACTACTAAAAGACTCACCGTCGAACGATGAACAAAAGTGACC
1479257 CT
66 CT
1479259 T
1 T
1479260 ATCCCATCGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.34, C:0.34, G:0.16, T:0.16
Consensus pattern (67 bp):
TGGCCACCCCAACTCGAGCCATCACTACTAAAAGACTCACCGTCGAACGATGAACAAAAGTGACC
CT
Found at i:1479964 original size:17 final size:18
Alignment explanation
Indices: 1479921--1479964 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
1479911 TTTTCAATAA
*
1479921 TTTATTTTCGGATTCAAG
1 TTTATTTTCCGATTCAAG
*
1479939 TTGATTTTCCGATT-AAG
1 TTTATTTTCCGATTCAAG
*
1479956 TTTAGTTTC
1 TTTATTTTC
1479965 TGACGTAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.20, C:0.11, G:0.16, T:0.52
Consensus pattern (18 bp):
TTTATTTTCCGATTCAAG
Found at i:1488097 original size:18 final size:18
Alignment explanation
Indices: 1488074--1488118 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
1488064 CAATGATTTA
1488074 TTTTCGATTCAAGTTGGT
1 TTTTCGATTCAAGTTGGT
1488092 TTTTCGATTCAAGTTGGT
1 TTTTCGATTCAAGTTGGT
1488110 TTTTCGATT
1 TTTTCGATT
1488119 GTGTTTAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.16, C:0.11, G:0.20, T:0.53
Consensus pattern (18 bp):
TTTTCGATTCAAGTTGGT
Found at i:1494296 original size:31 final size:31
Alignment explanation
Indices: 1494258--1494362 Score: 97
Period size: 31 Copynumber: 3.3 Consensus size: 31
1494248 AGACTTTGGC
1494258 AGGTTCAGTCGTTGCTGGTAATTCCTTGTAT
1 AGGTTCAGTCGTTGCTGGTAATTCCTTGTAT
*** * *
1494289 AGGTTCAG-CACAGACTGGTAATTCCTATCTCTGGT
1 AGGTTCAGTCGTTG-CTGGTAATTCC--T-TGT-AT
1494324 AGGTTCA-TACGTTGCTGGTAATTCCTTGTAT
1 AGGTTCAGT-CGTTGCTGGTAATTCCTTGTAT
1494355 AGGTTCAG
1 AGGTTCAG
1494363 CACCAACTAG
Statistics
Matches: 56, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
30 2 0.04
31 27 0.48
32 2 0.04
33 2 0.04
34 2 0.04
35 19 0.34
36 2 0.04
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (31 bp):
AGGTTCAGTCGTTGCTGGTAATTCCTTGTAT
Found at i:1496437 original size:30 final size:30
Alignment explanation
Indices: 1496373--1496430 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1496363 GGTTTGGCAA
* **
1496373 TGAACCAACTGAAAACCGGTAAAACCGGGG
1 TGAACCAACTGAAAACCGGCAAAACCAAGG
*
1496403 TGAACCGACTGAAAACCGGCAAAACCAA
1 TGAACCAACTGAAAACCGGCAAAACCAA
1496431 TTTGAACTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.26, G:0.22, T:0.09
Consensus pattern (30 bp):
TGAACCAACTGAAAACCGGCAAAACCAAGG
Found at i:1516896 original size:2 final size:2
Alignment explanation
Indices: 1516889--1516913 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1516879 TGTTTTCAAC
1516889 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1516914 ATTTTAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1521388 original size:2 final size:2
Alignment explanation
Indices: 1521381--1521434 Score: 83
Period size: 2 Copynumber: 26.5 Consensus size: 2
1521371 ATTATTTTGA
1521381 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
1521424 ACT AT -T AT AT A
1 A-T AT AT AT AT A
1521435 AGTATAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.02
2 44 0.90
3 4 0.08
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1529110 original size:31 final size:31
Alignment explanation
Indices: 1529072--1529240 Score: 232
Period size: 31 Copynumber: 5.5 Consensus size: 31
1529062 TCCTTCAGGT
* *
1529072 CATATGGACAGTTTACCTATGTTCTTCTGGA
1 CATATGGACAGATTACCTATGTTCTTCGGGA
*
1529103 CATATGGATAGATTACCTATGTTCTTCGGGA
1 CATATGGACAGATTACCTATGTTCTTCGGGA
***
1529134 CATATGGACAG-TTACCTATGTTCTTCAAAA
1 CATATGGACAGATTACCTATGTTCTTCGGGA
* *
1529164 TATATGGACAGATTACCTATGTTCTTCGGTA
1 CATATGGACAGATTACCTATGTTCTTCGGGA
*
1529195 CATATAGACAGATTACCTATGTTCTTCGGGA
1 CATATGGACAGATTACCTATGTTCTTCGGGA
* *
1529226 CAAATGGATAGATTA
1 CATATGGACAGATTA
1529241 TTATACGAGT
Statistics
Matches: 120, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
30 26 0.22
31 94 0.78
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (31 bp):
CATATGGACAGATTACCTATGTTCTTCGGGA
Found at i:1529169 original size:61 final size:62
Alignment explanation
Indices: 1529072--1529221 Score: 221
Period size: 61 Copynumber: 2.4 Consensus size: 62
1529062 TCCTTCAGGT
* *** *
1529072 CATATGGACAGTTTACCTATGTTCTTCTGGACATATGGATAGATTACCTATGTTCTTCGGGA
1 CATATGGACAGATTACCTATGTTCTTCAAAACATATGGACAGATTACCTATGTTCTTCGGGA
* *
1529134 CATATGGACAG-TTACCTATGTTCTTCAAAATATATGGACAGATTACCTATGTTCTTCGGTA
1 CATATGGACAGATTACCTATGTTCTTCAAAACATATGGACAGATTACCTATGTTCTTCGGGA
*
1529195 CATATAGACAGATTACCTATGTTCTTC
1 CATATGGACAGATTACCTATGTTCTTC
1529222 GGGACAAATG
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
61 54 0.68
62 26 0.32
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (62 bp):
CATATGGACAGATTACCTATGTTCTTCAAAACATATGGACAGATTACCTATGTTCTTCGGGA
Found at i:1529553 original size:18 final size:19
Alignment explanation
Indices: 1529527--1529573 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
1529517 AAATGGGTTA
*
1529527 ATGACAATGATAGA-GAT-C
1 ATGATAATGATA-ATGATGC
1529545 ATGATAATGATAATGATGC
1 ATGATAATGATAATGATGC
1529564 -TGATAATGAT
1 ATGATAATGAT
1529574 GGCATATGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.43, C:0.06, G:0.21, T:0.30
Consensus pattern (19 bp):
ATGATAATGATAATGATGC
Found at i:1531137 original size:15 final size:15
Alignment explanation
Indices: 1531102--1531139 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
1531092 AAAAAAACAG
1531102 AAAAAA-GAAGAAGA
1 AAAAAATGAAGAAGA
1531116 AAAAAATGAA-AATGA
1 AAAAAATGAAGAA-GA
1531131 AAAAAATGA
1 AAAAAATGA
1531140 GAGATGCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (15 bp):
AAAAAATGAAGAAGA
Found at i:1532396 original size:30 final size:30
Alignment explanation
Indices: 1532362--1532436 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 30
1532352 AAATGGATTT
* *
1532362 AGTTTAGTGACCAAATTATAAGATTTTG-AA
1 AGTTTAGTGACCAAAGTATAA-ACTTTGAAA
1532392 AGTTTAGTGACCAAAGTATAAACTTTGAAA
1 AGTTTAGTGACCAAAGTATAAACTTTGAAA
1532422 AGTTTAAG-GACCAAA
1 AGTTT-AGTGACCAAA
1532437 ATAGTAATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 5 0.12
30 34 0.83
31 2 0.05
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (30 bp):
AGTTTAGTGACCAAAGTATAAACTTTGAAA
Found at i:1533425 original size:30 final size:30
Alignment explanation
Indices: 1533381--1533448 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 30
1533371 AAGCCTTAGA
* ** *
1533381 AAAATTTGGGGACCA-TTTTTTAATTTTTG
1 AAAAGTTGGGGACCACTTTGGTAATTTTGG
1533410 AAAAGTTGGGAGACCACTTTGGTAATTTTGG
1 AAAAGTTGGG-GACCACTTTGGTAATTTTGG
1533441 AAAAGTTG
1 AAAAGTTG
1533449 TGAATGGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 9 0.27
30 5 0.15
31 19 0.58
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (30 bp):
AAAAGTTGGGGACCACTTTGGTAATTTTGG
Found at i:1534757 original size:21 final size:22
Alignment explanation
Indices: 1534731--1534788 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
1534721 GGTTACATAT
* *
1534731 GTCCTTTGAGACATATGAT-AG
1 GTCCTTTGGGACATATGATGAC
* *
1534752 GTCCTTCGGGACACA-GATGAC
1 GTCCTTTGGGACATATGATGAC
1534773 GTCCTTTGGGACATAT
1 GTCCTTTGGGACATAT
1534789 CAGTTAACCT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (22 bp):
GTCCTTTGGGACATATGATGAC
Found at i:1534833 original size:31 final size:31
Alignment explanation
Indices: 1534795--1534950 Score: 199
Period size: 31 Copynumber: 5.0 Consensus size: 31
1534785 ATATCAGTTA
*
1534795 ACCTATGTTCTTCGGGACATATAGACAGATT
1 ACCTATGTTCTTCGGGACATATGGACAGATT
* *
1534826 ACCTATGTTCTTCGGGACATACGGGCA-ATTT
1 ACCTATGTTCTTCGGGACATATGGACAGA-TT
*
1534857 ACCTATGTT-TTGCGGGACATATGGACATATT
1 ACCTATGTTCTT-CGGGACATATGGACAGATT
*
1534888 ACCTATGTTCTTCGGGATATATGGACAGATT
1 ACCTATGTTCTTCGGGACATATGGACAGATT
* * **
1534919 ACCTATATTCTTTGGGGTATATGGACAGATT
1 ACCTATGTTCTTCGGGACATATGGACAGATT
1534950 A
1 A
1534951 TTATACGAGC
Statistics
Matches: 111, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
30 3 0.03
31 105 0.95
32 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (31 bp):
ACCTATGTTCTTCGGGACATATGGACAGATT
Found at i:1537738 original size:17 final size:17
Alignment explanation
Indices: 1537716--1537750 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1537706 AAACATTGAT
1537716 AGCCTTATTTCTGCAAA
1 AGCCTTATTTCTGCAAA
1537733 AGCCTTATTTCTGCAAA
1 AGCCTTATTTCTGCAAA
1537750 A
1 A
1537751 ACAATAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.34
Consensus pattern (17 bp):
AGCCTTATTTCTGCAAA
Found at i:1541809 original size:55 final size:55
Alignment explanation
Indices: 1541740--1541857 Score: 209
Period size: 55 Copynumber: 2.1 Consensus size: 55
1541730 TTGCCAATAA
* *
1541740 CATGCTATCTTATGTCACCTAACGTTGGATGATATTCATTTATAATATTTGAATT
1 CATGATATCTTATGTCACCTAACGTTAGATGATATTCATTTATAATATTTGAATT
*
1541795 CATGATATCTTATGTCACCTAACGTTAGATGATATTCATTTATAATATTTGATTT
1 CATGATATCTTATGTCACCTAACGTTAGATGATATTCATTTATAATATTTGAATT
1541850 CATGATAT
1 CATGATAT
1541858 TACAATCAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 60 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.44
Consensus pattern (55 bp):
CATGATATCTTATGTCACCTAACGTTAGATGATATTCATTTATAATATTTGAATT
Found at i:1546065 original size:90 final size:90
Alignment explanation
Indices: 1545912--1546089 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
1545902 CCTAACACAC
* * * *
1545912 CCTTTTATAGCCAAGTTACCCTAGTCATATTAGGGTTTTTATTATTTCATATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
* *
1545977 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGAAATTAAATAAT
*
1546002 CCTTTTATATCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1546067 ATTTAATTAATTGAAATTAAATA
66 ATTTAATTAATTGAAATTAAATA
1546090 TTCGAGATTA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGAAATTAAATAAT
Found at i:1552676 original size:22 final size:22
Alignment explanation
Indices: 1552649--1552691 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1552639 CCATTAACCT
*
1552649 GTCTGACCGTTGATTTTGACCG
1 GTCTGACCGTTGACTTTGACCG
1552671 GTCTGACCGTTGACTTTGACC
1 GTCTGACCGTTGACTTTGACC
1552692 AAAAAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.26, G:0.26, T:0.35
Consensus pattern (22 bp):
GTCTGACCGTTGACTTTGACCG
Found at i:1554851 original size:772 final size:773
Alignment explanation
Indices: 1553341--1554885 Score: 3058
Period size: 772 Copynumber: 2.0 Consensus size: 773
1553331 GAATTGTCCT
1553341 GGAAGTGGAAAAAATAATTTTAAAAAGACAGATTGATCCGATGAAACTACTGATGTACATGGAAA
1 GGAAGTGGAAAAAATAATTTTAAAAAGACAGATTGATCCGATGAAACTACTGATGTACATGGAAA
1553406 ATGCTAGTTTTGCTTAGAAAATCTAGATAACCGATTTATAACCTCCAAGATGGAAAAAGATTTAT
66 ATGCTAGTTTTGCTTAGAAAATCTAGATAACCGATTTATAACCTCCAAGATGGAAAAAGATTTAT
1553471 AATTTATGGTTTTTGGACAAAACCACCTGATAAATAAATTACTAAAATGATGCATATATTTGAAT
131 AATTTATGGTTTTTGGACAAAACCACCTGATAAATAAATTACTAAAATGATGCATATATTTGAAT
1553536 CAAAGAAAGTAATTGAATACCCTTGAACTGTAAAATGACCAAAATACCCCCAAAGAGTAAATGAC
196 CAAAGAAAGTAATTGAATACCCTTGAACTGTAAAATGACCAAAATACCCCCAAAGAGTAAATGAC
1553601 CTAAGGTAACCTCAAGTCATGAAATGACAGAATACCTGATCGTCTCACTGAGATCCATTCAGTGC
261 CTAAGGTAACCTCAAGTCATGAAATGACAGAATACCTGATCGTCTCACTGAGATCCATTCAGTGC
1553666 TGATTCTGAACATGATCAGTTCGACAAACGTTGTCAGTATTAAAGTGTGAATACCCTTGAAGTGT
326 TGATTCTGAACATGATCAGTTCGACAAACGTTGTCAGTATTAAAGTGTGAATACCCTTGAAGTGT
1553731 AACGATTTGACTGGCTGACCGGTATCATAGTGCTGGGATTTGTTCAGTTTGAGTTAACTCGATAT
391 AACGATTTGACTGGCTGACCGGTATCATAGTGCTGGGATTTGTTCAGTTTGAGTTAACTCGATAT
*
1553796 CCTGATAAATTGACACGAATCTTCAATACCATGAATCATCATTTATCCCTTATTAGATAAAATTA
456 CCTGATAAATTGACACGAATCATCAATACCATGAATCATCATTTATCCCTTATTAGATAAAATTA
1553861 CTAAGAATTCTCCAAGAACCTAATGTCCAAATGCCCCTGATTTCCTGAATAGTGAAAACACTCAT
521 CTAAGAATTCTCCAAGAACCTAATGTCCAAATGCCCCTGATTTCCTGAATAGTGAAAACACTCAT
1553926 GTCAGATCTGAAATCACAAGTAACTCTGATGCAGAGATTCTGAAAACCTTTATGATTTCATAGTG
586 GTCAGATCTGAAATCACAAGTAACTCTGATGCAGAGATTCTGAAAACCTTTATGATTTCATAGTG
1553991 CCTTCGAAAAATATCCGAATACTATATGATCTTGATAAATCATATCCCGAATAACTGATGAATCT
651 CCTTCGAAAAATATCCGAATACTATATGATCTTGATAAATCATATCCCGAATAACTGATGAATCT
1554056 GTTAGTTATCAAACCCTTTTTATAGGGATTTTGTTTCTAAATTTAATCAGTTGAAAAA
716 GTTAGTTATCAAACCCTTTTTATAGGGATTTTGTTTCTAAATTTAATCAGTTGAAAAA
1554114 GGAAGTGGAAAAAAT-ATTTTAAAAAGACAGATTGATCCGATGAAACTACTGATGTACATGGAAA
1 GGAAGTGGAAAAAATAATTTTAAAAAGACAGATTGATCCGATGAAACTACTGATGTACATGGAAA
1554178 ATGCTAGTTTTGCTTAGAAAATCTAGATAACCGATTTATAACCTCCAAGATGGAAAAAGATTTAT
66 ATGCTAGTTTTGCTTAGAAAATCTAGATAACCGATTTATAACCTCCAAGATGGAAAAAGATTTAT
1554243 AATTTATGGTTTTTGGACAAAACCACCTGATAAATAAATTACTAAAATGATGCATATATTTGAAT
131 AATTTATGGTTTTTGGACAAAACCACCTGATAAATAAATTACTAAAATGATGCATATATTTGAAT
1554308 CAAAGAAAGTAATTGAATACCCTTGAACTGTAAAATGACCAAAATACCCCCAAAGAGTAAATGAC
196 CAAAGAAAGTAATTGAATACCCTTGAACTGTAAAATGACCAAAATACCCCCAAAGAGTAAATGAC
1554373 CTAAGGTAACCTCAAGTCATGAAATGACAGAATACCTGATCGTCTCACTGAGATCCATTCAGTGC
261 CTAAGGTAACCTCAAGTCATGAAATGACAGAATACCTGATCGTCTCACTGAGATCCATTCAGTGC
1554438 TGATTCTGAACATGATCAGTTCGACAAACGTTGTCAGTATTAAAGTGTGAATACCCTTGAAGTGT
326 TGATTCTGAACATGATCAGTTCGACAAACGTTGTCAGTATTAAAGTGTGAATACCCTTGAAGTGT
1554503 AACGATTTGACTGGCTGACCGGTATCATAGTGCTGGGATTTGTTCAGTTTGAGTTAACTCGATAT
391 AACGATTTGACTGGCTGACCGGTATCATAGTGCTGGGATTTGTTCAGTTTGAGTTAACTCGATAT
1554568 CCTGATAAATTGACACGAATCATCAATACCATGAATCATCATTTATCCCTTATTAGATAAAATTA
456 CCTGATAAATTGACACGAATCATCAATACCATGAATCATCATTTATCCCTTATTAGATAAAATTA
1554633 CTAAGAATTCTCCAAGAACCTAATGTCCAAATGCCCCTGATTTCCTGAATAGTGAAAACACTCAT
521 CTAAGAATTCTCCAAGAACCTAATGTCCAAATGCCCCTGATTTCCTGAATAGTGAAAACACTCAT
1554698 GTCAGATCTGAAATCACAAGTAACTCTGATGCAGAGGATTCTGAAAACCTTTATGATTTCATAGT
586 GTCAGATCTGAAATCACAAGTAACTCTGATGCAGA-GATTCTGAAAACCTTTATGATTTCATAGT
1554763 GCCTTCGAAAAATATCCGAATACTATATGATCTTGATAAATCATATCCCGAATAACTGATGAATC
650 GCCTTCGAAAAATATCCGAATACTATATGATCTTGATAAATCATATCCCGAATAACTGATGAATC
1554828 TGTTAGTTATCAAACCC-TTTTATAGGGATTTTGTTTCTAAATTTAATCAGTTGAAAAA
715 TGTTAGTTATCAAACCCTTTTTATAGGGATTTTGTTTCTAAATTTAATCAGTTGAAAAA
1554886 CATTTCTTGG
Statistics
Matches: 770, Mismatches: 1, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
772 644 0.84
773 126 0.16
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (773 bp):
GGAAGTGGAAAAAATAATTTTAAAAAGACAGATTGATCCGATGAAACTACTGATGTACATGGAAA
ATGCTAGTTTTGCTTAGAAAATCTAGATAACCGATTTATAACCTCCAAGATGGAAAAAGATTTAT
AATTTATGGTTTTTGGACAAAACCACCTGATAAATAAATTACTAAAATGATGCATATATTTGAAT
CAAAGAAAGTAATTGAATACCCTTGAACTGTAAAATGACCAAAATACCCCCAAAGAGTAAATGAC
CTAAGGTAACCTCAAGTCATGAAATGACAGAATACCTGATCGTCTCACTGAGATCCATTCAGTGC
TGATTCTGAACATGATCAGTTCGACAAACGTTGTCAGTATTAAAGTGTGAATACCCTTGAAGTGT
AACGATTTGACTGGCTGACCGGTATCATAGTGCTGGGATTTGTTCAGTTTGAGTTAACTCGATAT
CCTGATAAATTGACACGAATCATCAATACCATGAATCATCATTTATCCCTTATTAGATAAAATTA
CTAAGAATTCTCCAAGAACCTAATGTCCAAATGCCCCTGATTTCCTGAATAGTGAAAACACTCAT
GTCAGATCTGAAATCACAAGTAACTCTGATGCAGAGATTCTGAAAACCTTTATGATTTCATAGTG
CCTTCGAAAAATATCCGAATACTATATGATCTTGATAAATCATATCCCGAATAACTGATGAATCT
GTTAGTTATCAAACCCTTTTTATAGGGATTTTGTTTCTAAATTTAATCAGTTGAAAAA
Found at i:1555224 original size:35 final size:35
Alignment explanation
Indices: 1555178--1555305 Score: 150
Period size: 35 Copynumber: 3.6 Consensus size: 35
1555168 AGGTTTAACT
*
1555178 CGATCAAACTGGTAATTCCTTATATAGTTTCAAAC
1 CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
* ** *
1555213 CGATCGAACTGGTAATTCCTTATGGCAGGTTC-AGC
1 CGATCAAACTGGTAATTCCTTAT-ATAGGTTCAAAC
** *
1555248 TCGATCAAACTATTAATTCCTTATATAGGTTCAGAC
1 -CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
*
1555284 CGATCAAACTGGTAATTTCTTA
1 CGATCAAACTGGTAATTCCTTA
1555306 CGGATCTAAG
Statistics
Matches: 75, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
35 49 0.65
36 26 0.35
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (35 bp):
CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
Found at i:1555286 original size:71 final size:71
Alignment explanation
Indices: 1555166--1555305 Score: 208
Period size: 71 Copynumber: 2.0 Consensus size: 71
1555156 TGAAGTCTCT
* * * *
1555166 GCAGGTTTAACTCGATCAAACTGGTAATTCCTTATATAGTTTCAAACCGATCGAACTGGTAATTC
1 GCAGGTTCAACTCGATCAAACTAGTAATTCCTTATATAGGTTCAAACCGATCAAACTGGTAATTC
1555231 CTTATG
66 CTTATG
* * * *
1555237 GCAGGTTCAGCTCGATCAAACTATTAATTCCTTATATAGGTTCAGACCGATCAAACTGGTAATTT
1 GCAGGTTCAACTCGATCAAACTAGTAATTCCTTATATAGGTTCAAACCGATCAAACTGGTAATTC
1555302 CTTA
66 CTTA
1555306 CGGATCTAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (71 bp):
GCAGGTTCAACTCGATCAAACTAGTAATTCCTTATATAGGTTCAAACCGATCAAACTGGTAATTC
CTTATG
Found at i:1555550 original size:61 final size:59
Alignment explanation
Indices: 1555414--1555550 Score: 143
Period size: 61 Copynumber: 2.3 Consensus size: 59
1555404 TATGTGCTTT
* * * *
1555414 GGGTAAGTCCTTATGGACCTAAGGGTACTCCCCTGAGGTAGGCACCTACACTTCGTCTA
1 GGGTAAGTCCTTATGGACCTAAGGGTACTCCCCTGAGATAGGCACCTACAATGCGCCTA
* * * * *
1555473 GGGTAAGACCTTATGGACCTAA-GGTA-TTCCCTGAGATTGGCACCTATGCCCAATGGGCCTC
1 GGGTAAGTCCTTATGGACCTAAGGGTACTCCCCTGAGATAGGCACCTA----CAATGCGCCTA
1555534 GGGTAAGTCCTTATGGA
1 GGGTAAGTCCTTATGGA
1555551 TATAATTATG
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
57 17 0.27
58 4 0.06
59 21 0.33
61 22 0.34
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.26
Consensus pattern (59 bp):
GGGTAAGTCCTTATGGACCTAAGGGTACTCCCCTGAGATAGGCACCTACAATGCGCCTA
Found at i:1558735 original size:35 final size:35
Alignment explanation
Indices: 1558689--1558816 Score: 141
Period size: 35 Copynumber: 3.6 Consensus size: 35
1558679 AGGTTTAACT
*
1558689 CGATCAAACTGGTAATTCCTTATATAGTTTCAAAC
1 CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
* * * *
1558724 CGATCGAACTGGTAATTCATTATGGTAGGTTC-AGC
1 CGATCAAACTGGTAATTCCTTAT-ATAGGTTCAAAC
** * *
1558759 TCGATCAAACTATTAATTCCATATATAGGTTCAGAC
1 -CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
*
1558795 CGATCAAACTGGTAATTTCTTA
1 CGATCAAACTGGTAATTCCTTA
1558817 CGGATCTAAG
Statistics
Matches: 73, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
35 48 0.66
36 25 0.34
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (35 bp):
CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
Found at i:1558955 original size:60 final size:59
Alignment explanation
Indices: 1558866--1559007 Score: 148
Period size: 59 Copynumber: 2.4 Consensus size: 59
1558856 TGAGCCAAGT
* * ** *
1558866 GGTAAGACCTTAAGGACCATAA-GGAACT-CCCTTAGG-GTGGCACCTTTGCTAT-GTGCTTTG
1 GGTAAGACCTTATGGACC-TAAGGGAACTCCCCTCAGGTG-GGCACCTAAGCT-TCG-GC-TAG
* *
1558926 GGTAAGTCCTTATGGACCTAAGGGCACTCCCCTCAGGTGGGCACCTAAGCTTCGGCTAG
1 GGTAAGACCTTATGGACCTAAGGGAACTCCCCTCAGGTGGGCACCTAAGCTTCGGCTAG
1558985 GGTAAGACCTTATGGACCTAAGG
1 GGTAAGACCTTATGGACCTAAGG
1559008 TATTCCCTGA
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
59 27 0.39
60 24 0.34
61 18 0.26
62 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (59 bp):
GGTAAGACCTTATGGACCTAAGGGAACTCCCCTCAGGTGGGCACCTAAGCTTCGGCTAG
Found at i:1561343 original size:27 final size:26
Alignment explanation
Indices: 1561299--1561349 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
1561289 AAAGTAATTG
* *
1561299 AATACCCTTGAACTGTAAAATGACCAA
1 AATACCCTTAAACAGT-AAATGACCAA
*
1561326 AATACCCTTAAAGAGTAAATGACC
1 AATACCCTTAAACAGTAAATGACC
1561350 TAAGGTAACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.22
Consensus pattern (26 bp):
AATACCCTTAAACAGTAAATGACCAA
Found at i:1562205 original size:35 final size:35
Alignment explanation
Indices: 1562154--1562282 Score: 143
Period size: 35 Copynumber: 3.7 Consensus size: 35
1562144 AGGTTTAACT
* *
1562154 CGATCAAACTGATAATTCCTTATATAGTTTCAAAC
1 CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
* ** *
1562189 CGATCGAACTGGTAATTCCTTATGGCAGGTTC-AGC
1 CGATCAAACTGGTAATTCCTTAT-ATAGGTTCAAAC
** *
1562224 TCGATCAAACTATTAATTCCTTATATAGGTTCAGAC
1 -CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
*
1562260 CGATCAAACTGGTAATTTCTTAT
1 CGATCAAACTGGTAATTCCTTAT
1562283 GGATCTAAGG
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
35 49 0.65
36 26 0.35
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (35 bp):
CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
Found at i:1562262 original size:71 final size:71
Alignment explanation
Indices: 1562152--1562284 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
1562142 GTAGGTTTAA
* *
1562152 CTCGATCAAACTGATAATTCCTTATATAGTTTCAAACCGATCGAACTGGTAATTCCTTATGGCAG
1 CTCGATCAAACTGATAATTCCTTATATAGGTTCAAACCGATCAAACTGGTAATTCCTTATGGCAG
1562217 GTTCAG
66 GTTCAG
* *
1562223 CTCGATCAAACT-ATTAATTCCTTATATAGGTTCAGACCGATCAAACTGGTAATTTCTTATGG
1 CTCGATCAAACTGA-TAATTCCTTATATAGGTTCAAACCGATCAAACTGGTAATTCCTTATGG
1562285 ATCTAAGGTG
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
70 1 0.02
71 56 0.98
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (71 bp):
CTCGATCAAACTGATAATTCCTTATATAGGTTCAAACCGATCAAACTGGTAATTCCTTATGGCAG
GTTCAG
Found at i:1564586 original size:22 final size:22
Alignment explanation
Indices: 1564559--1564600 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1564549 TCGTTGACCA
* *
1564559 TTGACCTGTTTGACCGTTGATT
1 TTGACCGGTCTGACCGTTGATT
1564581 TTGACCGGTCTGACCGTTGA
1 TTGACCGGTCTGACCGTTGA
1564601 CTTAGACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.38
Consensus pattern (22 bp):
TTGACCGGTCTGACCGTTGATT
Found at i:1566345 original size:35 final size:35
Alignment explanation
Indices: 1566294--1566422 Score: 143
Period size: 35 Copynumber: 3.7 Consensus size: 35
1566284 AGGTTTAACT
* *
1566294 CGATCAAACTGATAATTCCTTATATAGTTTCAAAC
1 CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
* ** *
1566329 CGATCGAACTGGTAATTCCTTATGGCAGGTTC-AGC
1 CGATCAAACTGGTAATTCCTTAT-ATAGGTTCAAAC
** *
1566364 TCGATCAAACTATTAATTCCTTATATAGGTTCAGAC
1 -CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
*
1566400 CGATCAAACTGGTAATTTCTTAT
1 CGATCAAACTGGTAATTCCTTAT
1566423 GGATCTAAGG
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
35 49 0.65
36 26 0.35
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (35 bp):
CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
Found at i:1566402 original size:71 final size:71
Alignment explanation
Indices: 1566292--1566424 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
1566282 GTAGGTTTAA
* *
1566292 CTCGATCAAACTGATAATTCCTTATATAGTTTCAAACCGATCGAACTGGTAATTCCTTATGGCAG
1 CTCGATCAAACTGATAATTCCTTATATAGGTTCAAACCGATCAAACTGGTAATTCCTTATGGCAG
1566357 GTTCAG
66 GTTCAG
* *
1566363 CTCGATCAAACT-ATTAATTCCTTATATAGGTTCAGACCGATCAAACTGGTAATTTCTTATGG
1 CTCGATCAAACTGA-TAATTCCTTATATAGGTTCAAACCGATCAAACTGGTAATTCCTTATGG
1566425 ATCTAAGGTG
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
70 1 0.02
71 56 0.98
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (71 bp):
CTCGATCAAACTGATAATTCCTTATATAGGTTCAAACCGATCAAACTGGTAATTCCTTATGGCAG
GTTCAG
Found at i:1566666 original size:61 final size:59
Alignment explanation
Indices: 1566530--1566666 Score: 143
Period size: 59 Copynumber: 2.3 Consensus size: 59
1566520 TATGTGCTTT
* * *
1566530 GGGTAAGTCCTTATGGACCTAAGGGCACTCCCCTGAGGTGGGCACCTACGCTTCGGCTA
1 GGGTAAGTCCTTATGGACCTAAGGGCACTCCCCTGAGATGGGCACCTACCCATCGGCTA
* * * * * *
1566589 GGGTAAGACCTTATGGACCTAA-GGTA-TTCCCTGAGATTGGCACCTATGCCCAATGGGCCTC
1 GGGTAAGTCCTTATGGACCTAAGGGCACTCCCCTGAGATGGGCACCTA--CCC-ATCGG-CTA
1566650 GGGTAAGTCCTTATGGA
1 GGGTAAGTCCTTATGGA
1566667 TGTAATTATG
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
57 17 0.27
58 3 0.05
59 23 0.36
60 3 0.05
61 18 0.28
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (59 bp):
GGGTAAGTCCTTATGGACCTAAGGGCACTCCCCTGAGATGGGCACCTACCCATCGGCTA
Found at i:1568769 original size:22 final size:22
Alignment explanation
Indices: 1568742--1568783 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1568732 TCGTTGACCA
* *
1568742 TTGACCTGTTTGACCGTTGATT
1 TTGACCGGTCTGACCGTTGATT
1568764 TTGACCGGTCTGACCGTTGA
1 TTGACCGGTCTGACCGTTGA
1568784 CTTAGACCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.38
Consensus pattern (22 bp):
TTGACCGGTCTGACCGTTGATT
Found at i:1570511 original size:35 final size:35
Alignment explanation
Indices: 1570465--1570592 Score: 141
Period size: 35 Copynumber: 3.6 Consensus size: 35
1570455 AGGTTTAACT
*
1570465 CGATCAAACTGGTAATTCCTTATATAGTTTCAAAC
1 CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
* ** *
1570500 CGATCGAACTGGTAATTCCTTATGGCAGGTTC-AGC
1 CGATCAAACTGGTAATTCCTTAT-ATAGGTTCAAAC
** *
1570535 TCGATCAAACTATTAATTCCTTATATAGGTTCACAC
1 -CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
* *
1570571 CGATCAAAATGGTAATTTCTTA
1 CGATCAAACTGGTAATTCCTTA
1570593 CGGATCTAAG
Statistics
Matches: 74, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
35 48 0.65
36 26 0.35
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (35 bp):
CGATCAAACTGGTAATTCCTTATATAGGTTCAAAC
Found at i:1570573 original size:71 final size:71
Alignment explanation
Indices: 1570453--1570592 Score: 199
Period size: 71 Copynumber: 2.0 Consensus size: 71
1570443 TGAAGTCTCT
* * * * *
1570453 GCAGGTTTAACTCGATCAAACTGGTAATTCCTTATATAGTTTCAAACCGATCGAACTGGTAATTC
1 GCAGGTTCAACTCGATCAAACTAGTAATTCCTTATATAGGTTCAAACCGATCAAAATGGTAATTC
1570518 CTTATG
66 CTTATG
* * * *
1570524 GCAGGTTCAGCTCGATCAAACTATTAATTCCTTATATAGGTTCACACCGATCAAAATGGTAATTT
1 GCAGGTTCAACTCGATCAAACTAGTAATTCCTTATATAGGTTCAAACCGATCAAAATGGTAATTC
1570589 CTTA
66 CTTA
1570593 CGGATCTAAG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (71 bp):
GCAGGTTCAACTCGATCAAACTAGTAATTCCTTATATAGGTTCAAACCGATCAAAATGGTAATTC
CTTATG
Found at i:1570707 original size:60 final size:58
Alignment explanation
Indices: 1570642--1570783 Score: 155
Period size: 59 Copynumber: 2.4 Consensus size: 58
1570632 TGGGCCAAGT
* ** *
1570642 GGTAAGACCTTATGGACCATAAGGAACT-CCCTTAGG-GTGGCACCTTTGCTAT-GTGCTTTG
1 GGTAAGACCTTATGGACC-TAAGGAACTCCCCTGAGGTG-GGCACCTACGCT-TCG-GC-TAG
* *
1570702 GGTAAGTCCTTATGGACCTAAGGGCACTCCCCTGAGGTGGGCACCTACGCTTCGGCTAG
1 GGTAAGACCTTATGGACCTAA-GGAACTCCCCTGAGGTGGGCACCTACGCTTCGGCTAG
1570761 GGTAAGACCTTATGGACCTAAGG
1 GGTAAGACCTTATGGACCTAAGG
1570784 TATTCCCTGA
Statistics
Matches: 71, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
58 2 0.03
59 25 0.35
60 25 0.35
61 18 0.25
62 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (58 bp):
GGTAAGACCTTATGGACCTAAGGAACTCCCCTGAGGTGGGCACCTACGCTTCGGCTAG
Found at i:1570774 original size:59 final size:60
Alignment explanation
Indices: 1570642--1570783 Score: 159
Period size: 60 Copynumber: 2.4 Consensus size: 60
1570632 TGGGCCAAGT
* ** *
1570642 GGTAAGACCTTATGGACCATAA-GGAACTCCCTTAGGGTGGCACCTTTGCTATGTGCTTTG
1 GGTAAGACCTTATGGACC-TAAGGGAACTCCCTGAGGGTGGCACCTACGCTATGTGCTTAG
* *
1570702 GGTAAGTCCTTATGGACCTAAGGGCACTCCCCTGA-GGTGGGCACCTACGCT-TCG-GC-TAG
1 GGTAAGACCTTATGGACCTAAGGGAACT-CCCTGAGGGT-GGCACCTACGCTAT-GTGCTTAG
1570761 GGTAAGACCTTATGGACCTAAGG
1 GGTAAGACCTTATGGACCTAAGG
1570784 TATTCCCTGA
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
59 27 0.38
60 28 0.39
61 16 0.23
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (60 bp):
GGTAAGACCTTATGGACCTAAGGGAACTCCCTGAGGGTGGCACCTACGCTATGTGCTTAG
Found at i:1572911 original size:19 final size:19
Alignment explanation
Indices: 1572867--1572921 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
1572857 CGACAAGACC
* *
1572867 CATTGACGTTGACCCGACT
1 CATTGACATTGACCTGACT
** *
1572886 CGCTGACTTTGACCTGACT
1 CATTGACATTGACCTGACT
1572905 CATTGACCATTGACCTG
1 CATTGA-CATTGACCTG
1572922 TCTGACCGTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.29
Consensus pattern (19 bp):
CATTGACATTGACCTGACT
Found at i:1572941 original size:22 final size:22
Alignment explanation
Indices: 1572914--1572963 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
1572904 TCATTGACCA
* *
1572914 TTGACCTGTCTGACCGTTGAGT
1 TTGACCGGTCTGACCGTTGACT
1572936 TTGACCGGTCTGACCGTTGACT
1 TTGACCGGTCTGACCGTTGACT
1572958 TTGACC
1 TTGACC
1572964 AAAAAAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.14, C:0.26, G:0.26, T:0.34
Consensus pattern (22 bp):
TTGACCGGTCTGACCGTTGACT
Found at i:1574706 original size:35 final size:35
Alignment explanation
Indices: 1574667--1574794 Score: 125
Period size: 35 Copynumber: 3.6 Consensus size: 35
1574657 AAGTTTAACT
*
1574667 CGATCAAACTGATAATTCCTTATATAGTTTCAAAC
1 CGATCAAACTGATAATTCCTTATATAGGTTCAAAC
* * *** *
1574702 CGATCGAACTGGTAATTCCTTACGGCAGGTTC-AGC
1 CGATCAAACTGATAATTCCTTA-TATAGGTTCAAAC
*
1574737 TCGATCAAACT-ATTAATTCCTTATATAGGTTCAAAT
1 -CGATCAAACTGA-TAATTCCTTATATAGGTTCAAAC
* *
1574773 CGATCGAACTGGTAATTCCTTA
1 CGATCAAACTGATAATTCCTTA
1574795 CGGCAACGTT
Statistics
Matches: 72, Mismatches: 16, Indels: 10
0.73 0.16 0.10
Matches are distributed among these distances:
35 47 0.65
36 25 0.35
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (35 bp):
CGATCAAACTGATAATTCCTTATATAGGTTCAAAC
Found at i:1574781 original size:71 final size:71
Alignment explanation
Indices: 1574665--1574799 Score: 236
Period size: 71 Copynumber: 1.9 Consensus size: 71
1574655 GCAAGTTTAA
*
1574665 CTCGATCAAACTGATAATTCCTTATATAGTTTCAAACCGATCGAACTGGTAATTCCTTACGGCAG
1 CTCGATCAAACTGATAATTCCTTATATAGGTTCAAACCGATCGAACTGGTAATTCCTTACGGCAG
1574730 GTTCAG
66 GTTCAG
*
1574736 CTCGATCAAACT-ATTAATTCCTTATATAGGTTCAAATCGATCGAACTGGTAATTCCTTACGGCA
1 CTCGATCAAACTGA-TAATTCCTTATATAGGTTCAAACCGATCGAACTGGTAATTCCTTACGGCA
1574800 ACGTTGACCC
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
70 1 0.02
71 60 0.98
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (71 bp):
CTCGATCAAACTGATAATTCCTTATATAGGTTCAAACCGATCGAACTGGTAATTCCTTACGGCAG
GTTCAG
Found at i:1574832 original size:19 final size:20
Alignment explanation
Indices: 1574804--1574849 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
1574794 ACGGCAACGT
*
1574804 TGACCCGACTCGCTGA-CAC
1 TGACCTGACTCGCTGACCAC
* *
1574823 TGACCTGACTCGTTGACCAT
1 TGACCTGACTCGCTGACCAC
1574843 TGACCTG
1 TGACCTG
1574850 TCTGACCGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.20, C:0.35, G:0.22, T:0.24
Consensus pattern (20 bp):
TGACCTGACTCGCTGACCAC
Found at i:1574874 original size:22 final size:22
Alignment explanation
Indices: 1574849--1574891 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1574839 CCATTGACCT
1574849 GTCTGACCGTTGACTTTGACAG
1 GTCTGACCGTTGACTTTGACAG
1574871 GTCTGACCGTTGACTTTGACA
1 GTCTGACCGTTGACTTTGACA
1574892 AAAAAAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.33
Consensus pattern (22 bp):
GTCTGACCGTTGACTTTGACAG
Found at i:1577807 original size:26 final size:28
Alignment explanation
Indices: 1577747--1577808 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
1577737 GAGTATTGCT
*
1577747 GAGCTCGACTCGACTCGAAAACTCTGAAATG
1 GAGCTCGACTCGACTCGAAAACTCTG--A-C
1577778 GAGCTCGACTCGACTCGAAAACTC-G-C
1 GAGCTCGACTCGACTCGAAAACTCTGAC
1577804 GAGCT
1 GAGCT
1577809 TAAAATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.17
30 1 0.03
31 24 0.80
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (28 bp):
GAGCTCGACTCGACTCGAAAACTCTGAC
Found at i:1578271 original size:20 final size:20
Alignment explanation
Indices: 1578229--1578272 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1578219 AATGAACTGG
* *
1578229 TATCTATACCGAAGATTGGA
1 TATCCATACCGAAGATTGAA
1578249 TATCCATACCGAAGGATT-AA
1 TATCCATACCGAA-GATTGAA
1578269 TATC
1 TATC
1578273 AGTACCCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (20 bp):
TATCCATACCGAAGATTGAA
Found at i:1579563 original size:31 final size:31
Alignment explanation
Indices: 1579528--1579599 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
1579518 AGTCTATAAT
1579528 TAAAATTTTATATGAAGTTCAGGAGTTAAAA
1 TAAAATTTTATATGAAGTTCAGGAGTTAAAA
1579559 TAAAATTTTATATGAAGTTCAGGAGTTAAAA
1 TAAAATTTTATATGAAGTTCAGGAGTTAAAA
1579590 TAAAATTTTA
1 TAAAATTTTA
1579600 CCCTTTTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.46, C:0.03, G:0.14, T:0.38
Consensus pattern (31 bp):
TAAAATTTTATATGAAGTTCAGGAGTTAAAA
Found at i:1579645 original size:2 final size:2
Alignment explanation
Indices: 1579638--1579692 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
1579628 AATTTTGTAA
1579638 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1579679 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
1579693 TATGAATTTA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1579804 original size:16 final size:16
Alignment explanation
Indices: 1579783--1579820 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
1579773 GTCAAATATA
1579783 TATTCCAATAATCTTT
1 TATTCCAATAATCTTT
1579799 TATTCCAATAATCTTT
1 TATTCCAATAATCTTT
1579815 TATTCC
1 TATTCC
1579821 TTTAACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTCCAATAATCTTT
Found at i:1582650 original size:8 final size:8
Alignment explanation
Indices: 1582637--1582666 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
1582627 ATTACCCTAT
1582637 ATTTTGGA
1 ATTTTGGA
1582645 ATTTTGGA
1 ATTTTGGA
*
1582653 ATTTTGAA
1 ATTTTGGA
1582661 ATTTTG
1 ATTTTG
1582667 AGTTTGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (8 bp):
ATTTTGGA
Found at i:1585064 original size:28 final size:30
Alignment explanation
Indices: 1585024--1585084 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 30
1585014 AAATTTTGTC
*
1585024 TAGTGACTAAAGTAT-AATTTTG-AAAGTT
1 TAGTGACTAAAGTATAAACTTTGAAAAGTT
*
1585052 TAGTGGCTAAAGTATAAACTTTGAAAAGTT
1 TAGTGACTAAAGTATAAACTTTGAAAAGTT
1585082 TAG
1 TAG
1585085 GGACCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 14 0.48
29 6 0.21
30 9 0.31
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (30 bp):
TAGTGACTAAAGTATAAACTTTGAAAAGTT
Found at i:1586538 original size:24 final size:24
Alignment explanation
Indices: 1586511--1586607 Score: 176
Period size: 24 Copynumber: 4.0 Consensus size: 24
1586501 TGCATGACAT
1586511 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
*
1586535 TGTACATAGATGTTTTATAAATCA
1 TGTACATAGATGTTTTATACATCA
1586559 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
*
1586583 TGTACATAGATGTTTTATATATCA
1 TGTACATAGATGTTTTATACATCA
1586607 T
1 T
1586608 CAGGAAGACT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:1589893 original size:17 final size:17
Alignment explanation
Indices: 1589851--1589893 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
1589841 TCATGCTTGA
*
1589851 TTCTAGCTCTACAAAAC
1 TTCTAGCTTTACAAAAC
1589868 TTCTAGCTTTACAAAAC
1 TTCTAGCTTTACAAAAC
1589885 TTCTAGCTT
1 TTCTAGCTT
1589894 CTTAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (17 bp):
TTCTAGCTTTACAAAAC
Found at i:1594115 original size:36 final size:36
Alignment explanation
Indices: 1594044--1594229 Score: 182
Period size: 36 Copynumber: 5.1 Consensus size: 36
1594034 TTCACTCAAT
*
1594044 ATTTTATCTCAATTGAGATTATT-TTTTTCTTAAAACAA
1 ATTTTATCTCACTTGA-A--ATTGTTTTTCTTAAAACAA
* *
1594082 ATTTTATCTCACTTGAAATTGTTTTTCTCAAAACAG
1 ATTTTATCTCACTTGAAATTGTTTTTCTTAAAACAA
* *
1594118 ATTTTA--TCACTTGAGATTGTTTTTTCTTAAAACAT
1 ATTTTATCTCACTTGAAATTG-TTTTTCTTAAAACAA
* * * *
1594153 ATTTTATCTCACTCGAGATTGATTTCCTTAAAACAA
1 ATTTTATCTCACTTGAAATTGTTTTTCTTAAAACAA
* * *
1594189 ATTTTATCTCACTTTAAAGTT-TTTCTCTTGAAACAA
1 ATTTTATCTCACTTGAAA-TTGTTTTTCTTAAAACAA
*
1594225 TTTTT
1 ATTTT
1594230 TCCTCATTCA
Statistics
Matches: 125, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
34 12 0.10
35 22 0.18
36 61 0.49
37 15 0.12
38 15 0.12
ACGTcount: A:0.31, C:0.15, G:0.07, T:0.48
Consensus pattern (36 bp):
ATTTTATCTCACTTGAAATTGTTTTTCTTAAAACAA
Found at i:1594157 original size:71 final size:72
Alignment explanation
Indices: 1594056--1594196 Score: 203
Period size: 71 Copynumber: 2.0 Consensus size: 72
1594046 TTTATCTCAA
* * * * *
1594056 TTGAGATTATTTTTTTCTTAAAACAAATTTTATCTCACTTGAAATTGTTTTTCTCAAAACAGATT
1 TTGAGATTAGTTTTTTCTTAAAACAAATTTTATCTCACTCGAAATTGATTTCCTCAAAACAAATT
1594121 TTATCAC
66 TTATCAC
* * *
1594128 TTGAGATT-GTTTTTTCTTAAAACATATTTTATCTCACTCGAGATTGATTTCCTTAAAACAAATT
1 TTGAGATTAGTTTTTTCTTAAAACAAATTTTATCTCACTCGAAATTGATTTCCTCAAAACAAATT
1594192 TTATC
66 TTATC
1594197 TCACTTTAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
71 53 0.87
72 8 0.13
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (72 bp):
TTGAGATTAGTTTTTTCTTAAAACAAATTTTATCTCACTCGAAATTGATTTCCTCAAAACAAATT
TTATCAC
Found at i:1594211 original size:71 final size:70
Alignment explanation
Indices: 1594056--1594228 Score: 188
Period size: 71 Copynumber: 2.4 Consensus size: 70
1594046 TTTATCTCAA
* * * * *
1594056 TTGAGATTATTTTTTTCTTAAAACAAATTTTATCTCACTTGAAATTGTTTTTCTCAAAACAGATT
1 TTGAGA-TAGTTTTTTCTTAAAAC-AATTTTATCTCACTCGAAATTGATTTCCTCAAAACAAATT
1594121 TTATCAC
64 TTATCAC
* * *
1594128 TTGAGATTGTTTTTTCTTAAAACATATTTTATCTCACTCGAGATTGATTTCCTTAAAACAAATTT
1 TTGAGATAGTTTTTTCTTAAAACA-ATTTTATCTCACTCGAAATTGATTTCCTCAAAACAAATTT
1594193 TATCTCAC
65 TA--TCAC
* *
1594201 TTTA-A-AGTTTTTCTCTTGAAACAATTTT
1 TTGAGATAGTTTTT-TCTTAAAACAATTTT
1594229 TTCCTCATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
70 1 0.01
71 62 0.72
72 16 0.19
73 7 0.08
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (70 bp):
TTGAGATAGTTTTTTCTTAAAACAATTTTATCTCACTCGAAATTGATTTCCTCAAAACAAATTTT
ATCAC
Found at i:1595091 original size:13 final size:13
Alignment explanation
Indices: 1595073--1595098 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1595063 TTTGAAGCTG
1595073 CCATATGACAAGA
1 CCATATGACAAGA
1595086 CCATATGACAAGA
1 CCATATGACAAGA
1595099 TTTTGGTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (13 bp):
CCATATGACAAGA
Found at i:1596498 original size:38 final size:37
Alignment explanation
Indices: 1596444--1596530 Score: 129
Period size: 38 Copynumber: 2.3 Consensus size: 37
1596434 AATTTAGACC
*
1596444 TTAGATTAATTATGTTATTAATTAATCTTAATATTAAT
1 TTAGATTAA-TATGTTAATAATTAATCTTAATATTAAT
1596482 TTAGATTAATACTGTTAATAATTAATCTTAATATTAAT
1 TTAGATTAATA-TGTTAATAATTAATCTTAATATTAAT
* *
1596520 TTGGTTTAATA
1 TTAGATTAATA
1596531 AATTCATGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 2 0.04
38 43 0.96
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (37 bp):
TTAGATTAATATGTTAATAATTAATCTTAATATTAAT
Found at i:1597172 original size:22 final size:22
Alignment explanation
Indices: 1597146--1597192 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
1597136 GTTTAATGCT
1597146 TTAGGTTTCTTTAAATTTCATA
1 TTAGGTTTCTTTAAATTTCATA
1597168 TTAGGTTTCTTTAAATTTCATA
1 TTAGGTTTCTTTAAATTTCATA
1597190 TTA
1 TTA
1597193 AGTTAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.09, G:0.09, T:0.55
Consensus pattern (22 bp):
TTAGGTTTCTTTAAATTTCATA
Found at i:1597633 original size:22 final size:21
Alignment explanation
Indices: 1597577--1597673 Score: 92
Period size: 21 Copynumber: 4.8 Consensus size: 21
1597567 TCTCTGACTT
* * *
1597577 AAAGGATCAATCCCTTAG-CA
1 AAAGGATCGATCCCTTTGTCC
* *
1597597 AAAGGATTGATCCTTTTGTCC
1 AAAGGATCGATCCCTTTGTCC
*
1597618 AAAGGATCTATCCCTTTGTCC
1 AAAGGATCGATCCCTTTGTCC
* * *
1597639 AAATGATCGATCCCCTTG--A
1 AAAGGATCGATCCCTTTGTCC
1597658 AAAGGATCGATCCCTT
1 AAAGGATCGATCCCTT
1597674 GGATAACAAT
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
19 14 0.23
20 14 0.23
21 34 0.55
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (21 bp):
AAAGGATCGATCCCTTTGTCC
Found at i:1597808 original size:20 final size:19
Alignment explanation
Indices: 1597785--1597828 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
1597775 GGTCGAAATA
*
1597785 TTTGAAAAATGATCGATCCC
1 TTTGAAAAATAATCGAT-CC
*
1597805 TTTGGTAAAATAATCGATCC
1 TTT-GAAAAATAATCGATCC
1597825 TTTG
1 TTTG
1597829 TGCCTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 1 0.05
20 8 0.38
21 12 0.57
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (19 bp):
TTTGAAAAATAATCGATCC
Found at i:1597820 original size:21 final size:20
Alignment explanation
Indices: 1597790--1597828 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
1597780 AAATATTTGA
*
1597790 AAAATGATCGATCCCTTTGGT
1 AAAATAATCGAT-CCTTTGGT
1597811 AAAATAATCGATCCTTTG
1 AAAATAATCGATCCTTTG
1597829 TGCCTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (20 bp):
AAAATAATCGATCCTTTGGT
Found at i:1600552 original size:20 final size:20
Alignment explanation
Indices: 1600527--1600603 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
1600517 TCTCTCGCTT
*
1600527 AAAGGATCAATCCCTTAGCA
1 AAAGGATCGATCCCTTAGCA
* * *
1600547 AAAGGATCGATCTCTTTGACC
1 AAAGGATCGATCCCTTAG-CA
* *
1600568 AAAGGATTGATCCCGTTA-AA
1 AAAGGATCGATCCC-TTAGCA
1600588 AAAGGATCGATCCCTT
1 AAAGGATCGATCCCTT
1600604 GGATAATAGT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.04
20 28 0.62
21 13 0.29
22 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (20 bp):
AAAGGATCGATCCCTTAGCA
Found at i:1600788 original size:19 final size:20
Alignment explanation
Indices: 1600749--1600788 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1600739 GACTATTTTG
* *
1600749 ATCCCTAACGGCTCCGAAAC
1 ATCCCCAACGGCTCAGAAAC
1600769 ATCCCCAACGGCT-AGAAAC
1 ATCCCCAACGGCTCAGAAAC
1600788 A
1 A
1600789 ACTAAACAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.35, C:0.38, G:0.15, T:0.12
Consensus pattern (20 bp):
ATCCCCAACGGCTCAGAAAC
Found at i:1606722 original size:2 final size:2
Alignment explanation
Indices: 1606715--1606741 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1606705 TGTACGGATA
1606715 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1606742 GTTACACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1620227 original size:27 final size:27
Alignment explanation
Indices: 1620193--1620256 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
1620183 TTTTTGAAGT
1620193 GACTAAATTGGAAATATTAATTTTAGG
1 GACTAAATTGGAAATATTAATTTTAGG
*
1620220 GACTAAATTGGAAATATTAATTTTAGT
1 GACTAAATTGGAAATATTAATTTTAGG
1620247 GACTAAATTG
1 GACTAAATTG
1620257 TAAAAGGATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.41, C:0.05, G:0.17, T:0.38
Consensus pattern (27 bp):
GACTAAATTGGAAATATTAATTTTAGG
Found at i:1623816 original size:2 final size:2
Alignment explanation
Indices: 1623809--1623834 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1623799 TTTGAATCGA
1623809 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1623835 TGACTCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1623977 original size:32 final size:32
Alignment explanation
Indices: 1623912--1624010 Score: 105
Period size: 32 Copynumber: 3.1 Consensus size: 32
1623902 ATCTTAATTG
* * *
1623912 AAAATCAATTGATTCGATATTGACCTT-ACCC
1 AAAATCAATTGATCCGATATTGATCTTGAACC
1623943 AAAATCTAATTGATCCGATATT-ATCTTGAACC
1 AAAATC-AATTGATCCGATATTGATCTTGAACC
* * *
1623975 AAAAATCAAATGATCCAATATTGATC-AGAACC
1 -AAAATCAATTGATCCGATATTGATCTTGAACC
1624007 AAAA
1 AAAA
1624011 AACAATCGAT
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
31 14 0.24
32 35 0.60
33 9 0.16
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.28
Consensus pattern (32 bp):
AAAATCAATTGATCCGATATTGATCTTGAACC
Found at i:1624442 original size:3 final size:3
Alignment explanation
Indices: 1624434--1624461 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1624424 CTGCTAATAT
1624434 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1624462 CAACTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1624679 original size:12 final size:12
Alignment explanation
Indices: 1624658--1624696 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
1624648 ATGTTTCAGT
1624658 AAAAGCAAAAAGA
1 AAAAG-AAAAAGA
1624671 AAAAGAAAAAG-
1 AAAAGAAAAAGA
1624682 AAAA-AAAAAGA
1 AAAAGAAAAAGA
1624693 AAAA
1 AAAA
1624697 AACCATCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 6 0.24
11 8 0.32
12 6 0.24
13 5 0.20
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAGA
Found at i:1624691 original size:16 final size:17
Alignment explanation
Indices: 1624665--1624696 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1624655 AGTAAAAGCA
1624665 AAAAGAAAAAGAAAAAG
1 AAAAGAAAAAGAAAAAG
1624682 AAAA-AAAAAGAAAAA
1 AAAAGAAAAAGAAAAA
1624697 AACCATCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAAG
Found at i:1624697 original size:7 final size:6
Alignment explanation
Indices: 1624658--1624696 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
1624648 ATGTTTCAGT
1624658 AAAAGCA AAAAGA AAAAGA AAAAG- AAAA-A AAAAGA AAAA
1 AAAAG-A AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA
1624697 AACCATCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 8 0.27
6 17 0.57
7 5 0.17
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:1624748 original size:45 final size:43
Alignment explanation
Indices: 1624672--1624755 Score: 132
Period size: 45 Copynumber: 1.9 Consensus size: 43
1624662 GCAAAAAGAA
*
1624672 AAAGAAAAAGAAAAAAAAAGAAAAAAACCATCATGTTGTGTTT
1 AAAGAAAAACAAAAAAAAAGAAAAAAACCATCATGTTGTGTTT
*
1624715 AAAGAAAAAACAAGAAAAAAAGAAAAAAGCCATCATGTTGT
1 AAAG-AAAAACAA-AAAAAAAGAAAAAAACCATCATGTTGT
1624756 AAAAAATCGG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 4 0.11
44 7 0.19
45 26 0.70
ACGTcount: A:0.62, C:0.08, G:0.14, T:0.15
Consensus pattern (43 bp):
AAAGAAAAACAAAAAAAAAGAAAAAAACCATCATGTTGTGTTT
Found at i:1625628 original size:22 final size:22
Alignment explanation
Indices: 1625600--1625645 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
1625590 GAACATCAAA
* *
1625600 TATGTTTTTATTTATTTTAATT
1 TATGTTTTAATTTATATTAATT
1625622 TATGTTTTAATTTATATTAATT
1 TATGTTTTAATTTATATTAATT
1625644 TA
1 TA
1625646 GTCACCATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TATGTTTTAATTTATATTAATT
Found at i:1625631 original size:12 final size:12
Alignment explanation
Indices: 1625600--1625636 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1625590 GAACATCAAA
*
1625600 TATGTTTTTATT
1 TATGTTTTAATT
1625612 TA--TTTTAATT
1 TATGTTTTAATT
1625622 TATGTTTTAATT
1 TATGTTTTAATT
1625634 TAT
1 TAT
1625637 ATTAATTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
10 9 0.41
12 13 0.59
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.70
Consensus pattern (12 bp):
TATGTTTTAATT
Found at i:1627540 original size:16 final size:16
Alignment explanation
Indices: 1627521--1627573 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
1627511 CCATAACCCC
1627521 TATCACACATATATCA
1 TATCACACATATATCA
** * *
1627537 TATCATGCACACATCA
1 TATCACACATATATCA
1627553 TATCACACATCATATACA
1 TATCACACAT-ATAT-CA
1627571 TAT
1 TAT
1627574 ATCACATACA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
16 19 0.70
17 3 0.11
18 5 0.19
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (16 bp):
TATCACACATATATCA
Found at i:1627934 original size:23 final size:23
Alignment explanation
Indices: 1627908--1627971 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1627898 CAGCTCGTAT
1627908 AATTGCACCGAAGTGCCACATAG
1 AATTGCACCGAAGTGCCACATAG
* * *
1627931 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACATAG
*
1627954 AATTGCACCGCAGTGCCA
1 AATTGCACCGAAGTGCCA
1627972 TATAATAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACATAG
Found at i:1628158 original size:103 final size:103
Alignment explanation
Indices: 1627987--1628199 Score: 363
Period size: 103 Copynumber: 2.1 Consensus size: 103
1627977 TAATGTCCAT
* * * *
1627987 AAGGACCACATATCATTCTTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACTA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
1628052 GACTTCACACCTATTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATATTCCAAAGAATACATATATGTCCCG
*
1628090 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
1628155 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATATTCCAAAGAATACATATATGTCCCG
1628193 AAGGACC
1 AAGGACC
1628200 GCGTAGACCC
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATATTCCAAAGAATACATATATGTCCCG
Found at i:1631211 original size:55 final size:55
Alignment explanation
Indices: 1631127--1631230 Score: 154
Period size: 55 Copynumber: 1.9 Consensus size: 55
1631117 TCAAATGATT
* * * *
1631127 CATGAAGAAGGACATCTGGTGAATGAAGAAATTTGAAGCTGATTAAAGAACGATC
1 CATGAAGAAGGACATATGATGAATCAAGAAATTTGAAACTGATTAAAGAACGATC
* *
1631182 CATGAAGAATGACATATGATGAATCAAGAAATTTGAAACTGATTGAAGA
1 CATGAAGAAGGACATATGATGAATCAAGAAATTTGAAACTGATTAAAGA
1631231 CTTCCTTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (55 bp):
CATGAAGAAGGACATATGATGAATCAAGAAATTTGAAACTGATTAAAGAACGATC
Found at i:1637893 original size:231 final size:231
Alignment explanation
Indices: 1637314--1638226 Score: 1107
Period size: 231 Copynumber: 3.9 Consensus size: 231
1637304 AAAAAATGAA
** * * * *
1637314 ATGAGAAAGGTTTCTCATTCCAATATGAAAATTAAAATTTTTGAAAAGTAAGAAAGGTTTTTTAC
1 ATGAGAAAGGTTTCTCATTTAAATATAAAAATCAAAATTTTTGAAAAATAAGAAAGGTTTCTTAC
** * * *
1637379 CTAGTAATCTATTTCCAAAATTTATAAGTCCTTTAGGCCATCAGTAAGTCTTTTGAGCATGATG-
66 CTAGTAAAATATTTCCAAAATTTATAAGTCCTTCAGGCCATCAATAAGTCTTTCGAGCATGATGT
* * * * * * * *
1637443 CTTAAATCCTTTGGGTTATCTATAAGCCTGTAGAGCAAGATGATAATTCCTTTGGGCCATCCATA
131 C-TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATA
* **
1637508 AGACCTTTGGGCAGGATGTTTTCACATGTCTATCAAAAT
195 AGACCTTTGGGTAGGATGTTTT--CATGTCTATTGAAAT
* * ** * * *
1637547 ATGAGAAATGTTTCTCATTTAAATAT-TAAATGTGAGATTTTTGAAAAGTGAGAAAGGTTTCTTA
1 ATGAGAAAGGTTTCTCATTTAAATATAAAAAT-CAAAATTTTTGAAAAATAAGAAAGGTTTCTTA
* * * *
1637611 CCTAGTAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGTATAATG
65 CCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCAGGCCATCAATAAGTCTTTCGAGCATGATG
* * * **
1637676 ACTAAATCATTTGGGTCATCTGTAAGTCTTTCGAGTGAGATGATAAGTCCTTCGGGCCATCCATA
130 TCTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATA
1637741 AGACCTTTGGGTAGGATGTTTTCATGTCTATTGAAAT
195 AGACCTTTGGGTAGGATGTTTTCATGTCTATTGAAAT
* * *
1637778 ATGAGAAAGGTTTCTCATTTAAATCTAAAAATCAAAATTTTTTAAAAATAAAAAAGGTTTCTTAC
1 ATGAGAAAGGTTTCTCATTTAAATATAAAAATCAAAATTTTTGAAAAATAAGAAAGGTTTCTTAC
* * * * * * * *
1637843 CTAGTAAAATATTTTC-ATATTATATAAGTCATTCGGGACATTAGTAAGTCTTTCGAGAATGATG
66 CTAGTAAAATATTTCCAAAATT-TATAAGTCCTTCAGGCCATCAATAAGTCTTTCGAGCATGATG
* * * * *
1637907 TTTAAAACCTTCAGGTCATCTGTAAGTCTTTCGAG-AGAGATGATAAGTCCTCCAGGCCATCCAT
130 TCTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCA-AGATGATAAGTCCTTCGGGCCATCCAT
* *
1637971 AAGACCTTTGGGTAGGATGTATTCATGTCTTTTGAAAT
194 AAGACCTTTGGGTAGGATGTTTTCATGTCTATTGAAAT
* * * *
1638009 ACGAGAAAGGTGTCTCATTTAAATCTAAAAATCAAATTTTTTGAAAAATAAGAAAGGTTTCTTAC
1 ATGAGAAAGGTTTCTCATTTAAATATAAAAATCAAAATTTTTGAAAAATAAGAAAGGTTTCTTAC
* *
1638074 GTAGTAAAATATTTCC-AAATTATATATGTCCTTCAGGCCATCAATAAGTCTTTCGAGCATGATG
66 CTAGTAAAATATTTCCAAAATT-TATAAGTCCTTCAGGCCATCAATAAGTCTTTCGAGCATGATG
* * * *
1638138 TTTAAATCCTTCGGGTCATCTCTAAGTCTTTTGAGCAAGATGATAAGTTCTTCGGGCCATCCATA
130 TCTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATA
* **
1638203 AGACCTTCGTATAGGATGTTTTCA
195 AGACCTTTGGGTAGGATGTTTTCA
1638227 CAGATCAATT
Statistics
Matches: 590, Mismatches: 84, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
230 4 0.01
231 393 0.67
232 9 0.02
233 183 0.31
234 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (231 bp):
ATGAGAAAGGTTTCTCATTTAAATATAAAAATCAAAATTTTTGAAAAATAAGAAAGGTTTCTTAC
CTAGTAAAATATTTCCAAAATTTATAAGTCCTTCAGGCCATCAATAAGTCTTTCGAGCATGATGT
CTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAA
GACCTTTGGGTAGGATGTTTTCATGTCTATTGAAAT
Found at i:1638760 original size:7 final size:7
Alignment explanation
Indices: 1638748--1638785 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
1638738 ATGTTTCAGT
1638748 AAAAGAA
1 AAAAGAA
1638755 AAAAG-A
1 AAAAGAA
*
1638761 AAAAGCA
1 AAAAGAA
1638768 AAAAGAA
1 AAAAGAA
1638775 AAAAGAA
1 AAAAGAA
1638782 AAAA
1 AAAA
1638786 AACACAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:1638764 original size:13 final size:14
Alignment explanation
Indices: 1638748--1638785 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
1638738 ATGTTTCAGT
1638748 AAAAGAAAAAAG-A
1 AAAAGAAAAAAGAA
*
1638761 AAAAGCAAAAAGAA
1 AAAAGAAAAAAGAA
1638775 AAAAGAAAAAA
1 AAAAGAAAAAA
1638786 AACACAATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAGAA
Found at i:1641848 original size:17 final size:17
Alignment explanation
Indices: 1641810--1641850 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1641800 CTATCTGAGG
* *
1641810 GTGACTAGTATACTCGG
1 GTGACTAGTATACCCGA
1641827 GTGACTAGTATACCCGA
1 GTGACTAGTATACCCGA
*
1641844 TTGACTA
1 GTGACTA
1641851 ATTTTTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (17 bp):
GTGACTAGTATACCCGA
Found at i:1653917 original size:2 final size:2
Alignment explanation
Indices: 1653912--1653948 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1653902 TGTGTGTGTG
1653912 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1653949 GCAATTCTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1654572 original size:29 final size:30
Alignment explanation
Indices: 1654518--1654580 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
1654508 TTTTGGTCCA
*
1654518 TAAACTTTTACAAAATTTATACTTTGGCTAC
1 TAAACTTTTA-AAAACTTATACTTTGGCTAC
* *
1654549 TAAACTTTT-AAAACTTATATTTTGGTTAC
1 TAAACTTTTAAAAACTTATACTTTGGCTAC
1654578 TAA
1 TAA
1654581 CCAAAATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 20 0.69
31 9 0.31
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (30 bp):
TAAACTTTTAAAAACTTATACTTTGGCTAC
Found at i:1658309 original size:12 final size:12
Alignment explanation
Indices: 1658294--1658321 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1658284 ATTCTTAAAC
1658294 AAATAAAGGCTT
1 AAATAAAGGCTT
1658306 AAATAAAGGCTT
1 AAATAAAGGCTT
1658318 AAAT
1 AAAT
1658322 GCATCATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (12 bp):
AAATAAAGGCTT
Found at i:1662173 original size:16 final size:16
Alignment explanation
Indices: 1662154--1662195 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1662144 AATATAAAGA
1662154 AAGAAATGATTAAATG
1 AAGAAATGATTAAATG
* *
1662170 AAGAAATAATTGAATG
1 AAGAAATGATTAAATG
1662186 AAGGAAATGA
1 AA-GAAATGA
1662196 AATGAAAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.21, T:0.21
Consensus pattern (16 bp):
AAGAAATGATTAAATG
Found at i:1665796 original size:17 final size:17
Alignment explanation
Indices: 1665774--1665806 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1665764 CGGCTTAAAA
*
1665774 AGAAATGGTTATGGTAT
1 AGAAATGGATATGGTAT
1665791 AGAAATGGATATGGTA
1 AGAAATGGATATGGTA
1665807 AAGGTAGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (17 bp):
AGAAATGGATATGGTAT
Found at i:1667873 original size:18 final size:18
Alignment explanation
Indices: 1667852--1667886 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1667842 TTTTCATTTA
1667852 TTTTTGCCTTTTTTTTCT
1 TTTTTGCCTTTTTTTTCT
* *
1667870 TTTTTTCTTTTTTTTTC
1 TTTTTGCCTTTTTTTTC
1667887 GAACATCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.03, T:0.83
Consensus pattern (18 bp):
TTTTTGCCTTTTTTTTCT
Found at i:1672374 original size:18 final size:19
Alignment explanation
Indices: 1672351--1672388 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1672341 TATTTAAGTG
*
1672351 ATAAAAGCGA-TTAAATAA
1 ATAAAAGCAATTTAAATAA
1672369 ATAAAAGCAATTTAAATAA
1 ATAAAAGCAATTTAAATAA
1672388 A
1 A
1672389 AATAAGAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.63, C:0.05, G:0.08, T:0.24
Consensus pattern (19 bp):
ATAAAAGCAATTTAAATAA
Found at i:1673277 original size:26 final size:26
Alignment explanation
Indices: 1673248--1673310 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
1673238 CAGATGAAGT
* *
1673248 CTTCTAGAAACCGCCGCTGACTGGAC
1 CTTCTAGAAACCGCCACTGACTAGAC
1673274 CTTCTAGAAACCGCCACTGACTAGAC
1 CTTCTAGAAACCGCCACTGACTAGAC
*
1673300 ATTCTAGAAAC
1 CTTCTAGAAAC
1673311 TACCACATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (26 bp):
CTTCTAGAAACCGCCACTGACTAGAC
Found at i:1673904 original size:16 final size:16
Alignment explanation
Indices: 1673885--1673923 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
1673875 AGAAATGATT
1673885 AAATGAAG-AAGAAATA
1 AAATGAAGTAA-AAATA
*
1673901 AAATGAAGTAAAAATG
1 AAATGAAGTAAAAATA
1673917 AAATGAA
1 AAATGAA
1673924 AGCTTAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (16 bp):
AAATGAAGTAAAAATA
Found at i:1675936 original size:29 final size:30
Alignment explanation
Indices: 1675874--1675937 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 30
1675864 TCGCTGTTGT
1675874 CTTATCATCTTTCGATAATAAAAAAGTTTA
1 CTTATCATCTTTCGATAATAAAAAAGTTTA
*
1675904 CTTATCATCTTTCGAT-ATTAAAAAGTTTA
1 CTTATCATCTTTCGATAATAAAAAAGTTTA
1675933 CTTAT
1 CTTAT
1675938 ACATTTGCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (30 bp):
CTTATCATCTTTCGATAATAAAAAAGTTTA
Found at i:1688537 original size:19 final size:19
Alignment explanation
Indices: 1688492--1688537 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
1688482 TTTTTTGTGT
1688492 TCTTTTTTTTCGAACAGTC
1 TCTTTTTTTTCGAACAGTC
*
1688511 TCTCTTTTTTCGAACAGT-
1 TCTTTTTTTTCGAACAGTC
1688529 TGCTTTTTT
1 T-CTTTTTT
1688538 GTTTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.13, C:0.20, G:0.11, T:0.57
Consensus pattern (19 bp):
TCTTTTTTTTCGAACAGTC
Found at i:1698554 original size:14 final size:14
Alignment explanation
Indices: 1698532--1698561 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1698522 TAGGATTATC
*
1698532 TTTAGATATTTAGT
1 TTTAAATATTTAGT
1698546 TTTAAATATTTAGT
1 TTTAAATATTTAGT
1698560 TT
1 TT
1698562 ATCTTTAGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (14 bp):
TTTAAATATTTAGT
Found at i:1699641 original size:31 final size:31
Alignment explanation
Indices: 1699583--1699678 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
1699573 CTCCCGAAGT
* *
1699583 ACCTATCCATATGTCACGAAGGGCATAGGTA
1 ACCTGTCCATATGTCACGAAGGACATAGGTA
* * * *
1699614 ACCTGTCCATATATCTCGAAAGTCATAGGTA
1 ACCTGTCCATATGTCACGAAGGACATAGGTA
** * *
1699645 AATTGTCTATATGTCCCGAAGGACATAGGTA
1 ACCTGTCCATATGTCACGAAGGACATAGGTA
1699676 ACC
1 ACC
1699679 CTCGACTCTT
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (31 bp):
ACCTGTCCATATGTCACGAAGGACATAGGTA
Found at i:1718255 original size:2 final size:2
Alignment explanation
Indices: 1718243--1718284 Score: 75
Period size: 2 Copynumber: 20.5 Consensus size: 2
1718233 CAAAACAAAC
1718243 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1718285 CATGTTAAGC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1719221 original size:77 final size:78
Alignment explanation
Indices: 1719091--1719238 Score: 192
Period size: 77 Copynumber: 1.9 Consensus size: 78
1719081 TTAATTAACA
* * *
1719091 TCTTATTTAATTAATTCAAATTAAATATCCATTAAAGTCTTATAATCCGAATTATAATC-TTTAA
1 TCTTATTTAATTAATTCAAATTAAATATCCATTAAAGACTTATAATCAGAATTACAATCTTTTAA
1719155 TGTTTATTTAAAC
66 TGTTTATTTAAAC
* * * * * *
1719168 TCTTATTTAATT-ATTCTAATTAAATATCTATTAAAAGAGTTGTAATCATAATTACATTCTTTTA
1 TCTTATTTAATTAATTCAAATTAAATATCCATT-AAAGACTTATAATCAGAATTACAATCTTTTA
1719232 ATGTTTA
65 ATGTTTA
1719239 CTTACTATAT
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
76 18 0.30
77 31 0.52
78 11 0.18
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (78 bp):
TCTTATTTAATTAATTCAAATTAAATATCCATTAAAGACTTATAATCAGAATTACAATCTTTTAA
TGTTTATTTAAAC
Found at i:1722785 original size:22 final size:23
Alignment explanation
Indices: 1722738--1722787 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
1722728 CGATTCCCTT
1722738 AGGGGGAATCAGTTCCCCTTCAA
1 AGGGGGAATCAGTTCCCCTTCAA
*
1722761 AGGGGGAATCGGTTCCCCTTC-A
1 AGGGGGAATCAGTTCCCCTTCAA
1722783 AGGGG
1 AGGGG
1722788 TATCGATTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 6 0.23
23 20 0.77
ACGTcount: A:0.22, C:0.24, G:0.34, T:0.20
Consensus pattern (23 bp):
AGGGGGAATCAGTTCCCCTTCAA
Found at i:1732129 original size:22 final size:23
Alignment explanation
Indices: 1732093--1732137 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
1732083 ATCCTAAAAT
1732093 ACCATCTAAAAAACCCATAGAGA
1 ACCATCTAAAAAACCCATAGAGA
1732116 ACCATCT-AAAAACCCATAGAGA
1 ACCATCTAAAAAACCCATAGAGA
1732138 TCCTAACTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.51, C:0.27, G:0.09, T:0.13
Consensus pattern (23 bp):
ACCATCTAAAAAACCCATAGAGA
Found at i:1738112 original size:56 final size:56
Alignment explanation
Indices: 1738043--1738357 Score: 357
Period size: 56 Copynumber: 5.5 Consensus size: 56
1738033 ACTTAAACTT
* * *
1738043 TTTTTAAAAACTATATTATATATAATAGTTTTCAAAACCATATTATATGATAATTA
1 TTTTCAAAAACTATATTATATATAATAGTTTTCAAAACTATATTATATAATAATTA
* * *
1738099 TTTTCAAAAACTATACTATATATATAGTAATAGCTTTCAAAACTACATTATATAATAACTA
1 TTTTCAAAAAC--TA-TAT-TATATA-TAATAGTTTTCAAAACTATATTATATAATAATTA
* * * *
1738160 TTTTTCAAAAACTATATTATGTATAATAGTTTTCAAAA-TCAAATTGTATAATAACTA
1 -TTTTCAAAAACTATATTATATATAATAGTTTTCAAAACT-ATATTATATAATAATTA
* *
1738217 TTTT-AACAAACTATACTATATTTATAATAATTTTC-AAACTTATATTATATAATAATTA
1 TTTTCAA-AAACTATA-T-TATATATAATAGTTTTCAAAAC-TATATTATATAATAATTA
* * *
1738275 TTTTCAAAAATTATACTATATATAATAGTTTTCAAAACTATGTTATATAATAATTA
1 TTTTCAAAAACTATATTATATATAATAGTTTTCAAAACTATATTATATAATAATTA
**
1738331 TTTTCAAAAACTATGCTATATATAATA
1 TTTTCAAAAACTATATTATATATAATA
1738358 TACATATGCT
Statistics
Matches: 223, Mismatches: 22, Indels: 28
0.82 0.08 0.10
Matches are distributed among these distances:
55 2 0.01
56 80 0.36
57 37 0.17
58 47 0.21
59 9 0.04
60 8 0.04
61 29 0.13
62 11 0.05
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (56 bp):
TTTTCAAAAACTATATTATATATAATAGTTTTCAAAACTATATTATATAATAATTA
Done.