Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 19 of 193
Found at i:6582996 original size:21 final size:21
Alignment explanation
Indices: 6582953--6582998 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
6582943 GGGTTTTGAA
*
6582953 TTTAGGATTTAGGGCTTAAAG
1 TTTAGGATTTAGAGCTTAAAG
* * *
6582974 TTTAGGATTTCGAGTTTAGAG
1 TTTAGGATTTAGAGCTTAAAG
6582995 TTTA
1 TTTA
6582999 TAAGTATGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.43
Consensus pattern (21 bp):
TTTAGGATTTAGAGCTTAAAG
Found at i:6585601 original size:52 final size:52
Alignment explanation
Indices: 6585524--6585765 Score: 351
Period size: 52 Copynumber: 4.7 Consensus size: 52
6585514 GTAAATAAAA
*
6585524 AAAAGGT-CAGATGACCATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCA-ATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* *
6585576 AAAAGGTCCAATGACTATTTGTCATCGTGAGTACATGAATCCTTTATGGATT
1 AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
*
6585628 AAAAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
1 AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * * * * *
6585680 AAAATGTCCAATGGCTATGTGTCATCGTGAGTATCTGATTCCTTCACGGATT
1 AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
* * *
6585732 AAGAGGTCCGATGACTATTTGTCATCGTGAGTAT
1 AAAAGGTCCAATGACTATGTGTCATCGTGAGTAT
6585766 TAAATGGAAT
Statistics
Matches: 171, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
52 169 0.99
53 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (52 bp):
AAAAGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATT
Found at i:6585817 original size:60 final size:62
Alignment explanation
Indices: 6585717--6585836 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 62
6585707 TGAGTATCTG
* * * *
6585717 ATTCCTTCACGGATTAAGAGGTCCGATGACTATTTGTCATCGTGAGTATTAAATG-GAATGA
1 ATTCCTTCACGGAATAAGAGGTCCGATGACTATGTATCATCGTGAGTATCAAATGCGAATGA
*
6585778 ATTCCATT-ACGGAATAA-AGGTCCGATGACTCTGTATCATCGTGAGTATCAAATGCGAAT
1 ATTCC-TTCACGGAATAAGAGGTCCGATGACTATGTATCATCGTGAGTATCAAATGCGAAT
6585837 TGGAATCTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
60 33 0.63
61 17 0.33
62 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (62 bp):
ATTCCTTCACGGAATAAGAGGTCCGATGACTATGTATCATCGTGAGTATCAAATGCGAATGA
Found at i:6586580 original size:21 final size:21
Alignment explanation
Indices: 6586551--6586602 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
6586541 GCAGTTTTTA
6586551 GTATCGGTAGAAG-CATGACAT
1 GTATCGGTAGAAGTCAT-ACAT
* *
6586572 GTTTCGGTAGAAGTCATACTT
1 GTATCGGTAGAAGTCATACAT
6586593 GTATCGGTAG
1 GTATCGGTAG
6586603 TATTGTCTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 24 0.89
22 3 0.11
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGTCATACAT
Found at i:6589928 original size:3 final size:3
Alignment explanation
Indices: 6589920--6589945 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6589910 TTATTTCTCT
6589920 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
6589946 TCTTCTTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6592185 original size:29 final size:30
Alignment explanation
Indices: 6592137--6592195 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
6592127 GAATTGGATT
*
6592137 AAATTAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
*
6592167 AAATCAAAA-TTCATGTATACAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
6592196 TTAAACCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:6610095 original size:2 final size:2
Alignment explanation
Indices: 6610088--6610123 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
6610078 TAGAAGGAAG
6610088 AT AT AT AT AT 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 AT AT AT AT AT
6610124 TTGGTTCACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6621499 original size:12 final size:12
Alignment explanation
Indices: 6621461--6621510 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
6621451 AGAAGAAGTG
6621461 AAAGAAAATAATA
1 AAAGAAAATAA-A
**
6621474 AAAGAAAAGGAA
1 AAAGAAAATAAA
*
6621486 AAAGAAAAT-TA
1 AAAGAAAATAAA
6621497 AAA-AAAATAAA
1 AAAGAAAATAAA
6621508 AAA
1 AAA
6621511 TAAATTACTC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 5 0.16
11 8 0.26
12 9 0.29
13 9 0.29
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (12 bp):
AAAGAAAATAAA
Found at i:6625551 original size:32 final size:32
Alignment explanation
Indices: 6625487--6625552 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
6625477 TATATATATG
* **
6625487 ATCCTTTGCATTTTCTATTAAATATTACGATA
1 ATCCTTTGCATTTTCTATGAAATACAACGATA
* *
6625519 ATCCTTTGCATTTTCTGTGAAATACAATGATA
1 ATCCTTTGCATTTTCTATGAAATACAACGATA
6625551 AT
1 AT
6625553 ATTATTGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (32 bp):
ATCCTTTGCATTTTCTATGAAATACAACGATA
Found at i:6627315 original size:41 final size:38
Alignment explanation
Indices: 6627215--6627318 Score: 111
Period size: 37 Copynumber: 2.7 Consensus size: 38
6627205 TTCGAAGCAA
*
6627215 TAAATTGACACCCAGTGTCTCATCG-GCCTAGCCGAAG
1 TAAATTGACACCCAGTGTCTCATCGAACCTAGCCGAAG
** ** * *
6627252 TAAATTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAATTGACACCCAGTGTCTCATCGAACCTAGCCGAAG
6627290 TAAAATAATGACACCCAGTGTCTCATCGA
1 T-AAAT--TGACACCCAGTGTCTCATCGA
6627319 CTCAAGGTCG
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
37 21 0.40
38 10 0.19
39 4 0.08
41 17 0.33
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (38 bp):
TAAATTGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:6628234 original size:10 final size:10
Alignment explanation
Indices: 6628216--6628261 Score: 56
Period size: 10 Copynumber: 4.3 Consensus size: 10
6628206 CTCTTCCTCC
*
6628216 TTTTGTTTCT
1 TTTTTTTTCT
6628226 TTTTTTTTCT
1 TTTTTTTTCT
6628236 TTTCTTTATTCT
1 TTT-TTT-TTCT
6628248 TTTTTTTATCT
1 TTTTTTT-TCT
6628259 TTT
1 TTT
6628262 ATATATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
10 13 0.41
11 12 0.38
12 7 0.22
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.83
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:6628255 original size:12 final size:12
Alignment explanation
Indices: 6628225--6628261 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
6628215 CTTTTGTTTC
6628225 TTTTTTT-TTCT
1 TTTTTTTATTCT
*
6628236 TTTCTTTATTCT
1 TTTTTTTATTCT
6628248 TTTTTTTA-TCT
1 TTTTTTTATTCT
6628259 TTT
1 TTT
6628262 ATATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTATTCT
Found at i:6628266 original size:2 final size:2
Alignment explanation
Indices: 6628261--6628289 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6628251 TTTTATCTTT
6628261 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 T
6628290 TAGTTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6631497 original size:52 final size:51
Alignment explanation
Indices: 6631390--6631497 Score: 137
Period size: 54 Copynumber: 2.1 Consensus size: 51
6631380 GGGTCAAAGA
* * *
6631390 AAAATCCGCAAAGGGTATTTCAAAAAAAAAGAAGAAAGAAAAAGTCAAGATG
1 AAAACCCGCAAAGGGTATTTCAAAAAAAAAAAAGAAAGAAAAAG-CAAGAAG
* *
6631442 AAAACCCGCAAAAGGGTATTTTTAAAAAAAAAAAAGAAAGGAAAAG-AAGAAG
1 AAAACCCGC-AAAGGGTA-TTTCAAAAAAAAAAAAGAAAGAAAAAGCAAGAAG
6631494 AAAA
1 AAAA
6631498 GAAAAAGGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 17 0.35
53 8 0.16
54 24 0.49
ACGTcount: A:0.61, C:0.08, G:0.19, T:0.12
Consensus pattern (51 bp):
AAAACCCGCAAAGGGTATTTCAAAAAAAAAAAAGAAAGAAAAAGCAAGAAG
Found at i:6632389 original size:7 final size:7
Alignment explanation
Indices: 6632386--6632432 Score: 55
Period size: 7 Copynumber: 7.1 Consensus size: 7
6632376 CAAAAAAGAA
*
6632386 AAAAAAA
1 AAAAAAG
6632393 AAAAAAG
1 AAAAAAG
*
6632400 GAAAAAG
1 AAAAAAG
6632407 -AAAAAG
1 AAAAAAG
6632413 -AAAAAG
1 AAAAAAG
6632419 -AAAAAG
1 AAAAAAG
6632425 AAAAAAG
1 AAAAAAG
6632432 A
1 A
6632433 CAGGTTGAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 18 0.49
7 19 0.51
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:6632393 original size:6 final size:6
Alignment explanation
Indices: 6632378--6632429 Score: 81
Period size: 6 Copynumber: 8.8 Consensus size: 6
6632368 TTTTACCCCA
6632378 AAAAAG AAAAA- AAAAA- AAAAAGG AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAA-G AAAAAG AAAAAG AAAAAG AAAAAG
6632425 AAAAA
1 AAAAA
6632430 AGACAGGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
5 10 0.23
6 29 0.66
7 5 0.11
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:6633424 original size:49 final size:48
Alignment explanation
Indices: 6633339--6633768 Score: 296
Period size: 49 Copynumber: 8.8 Consensus size: 48
6633329 CAGGTTTCAT
* * * * *
6633339 TACCACGAAGATATGAATGGAAAAATTTAAGTCGCAACGACGAACATTG
1 TACCTCGAAGACATGAAGGGAAAGATTTAAGCCGCAACGACGAAC-TTG
*
6633388 TACCTCGGAAG-CATGAAGGGAAAGATTTAAGCCGCAAC-AGCGAATCTAG
1 TACCTC-GAAGACATGAAGGGAAAGATTTAAGCCGCAACGA-CGAA-CTTG
* * * * ** * *
6633437 TACCACGAAGATATGGAGGGAAAGGTTTAAGTTGCAATGGCGAACCTTG
1 TACCTCGAAGACATGAAGGGAAAGATTTAAGCCGCAACGACGAA-CTTG
* ** * **
6633486 TACCTC-AGAGACATGAAAGGAAAGATTTAAGCTACAACGATGAATCCAG
1 TACCTCGA-AGACATGAAGGGAAAGATTTAAGCCGCAACGACGAA-CTTG
* * ** * * *
6633535 TACTTCGAAGATACAAAGGGAAAGGTTTAAGTCGCAACGACAAACTTTG
1 TACCTCGAAGACATGAAGGGAAAGATTTAAGCCGCAACGACGAAC-TTG
* *
6633584 TACCTCAGAAG-CATGAAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
1 TACCTC-GAAGACATGAAGGGAAAGATTTAAGCCGCAACGACGAA-CTTG
* * * * * * *
6633633 TACCACGAAGATATAAATGGAAAGGTTTAAGTCGCAACGGCGAACCTTG
1 TACCTCGAAGACATGAAGGGAAAGATTTAAGCCGCAACGACGAA-CTTG
* * * *
6633682 TACCTC-AGAGACATGAAGGGAAAAATTTAAGCTGCAACGGCGAATTTAG
1 TACCTCGA-AGACATGAAGGGAAAGATTTAAGCCGCAACGACGAACTT-G
* * * *
6633731 TACCAT-GTAGACACGAAGGGGAAGATTGAAGCCGCAAC
1 TACC-TCGAAGACATGAAGGGAAAGATTTAAGCCGCAAC
6633769 AAGAAATCTT
Statistics
Matches: 292, Mismatches: 74, Indels: 30
0.74 0.19 0.08
Matches are distributed among these distances:
48 14 0.05
49 266 0.91
50 12 0.04
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (48 bp):
TACCTCGAAGACATGAAGGGAAAGATTTAAGCCGCAACGACGAACTTG
Found at i:6633508 original size:98 final size:98
Alignment explanation
Indices: 6633339--6633735 Score: 510
Period size: 98 Copynumber: 4.1 Consensus size: 98
6633329 CAGGTTTCAT
* * ** * *
6633339 TACCACGAAGATATGAATGGAAAAATTTAAGTCGCAACGACGAACATTGTACCTCGGAAGCATGA
1 TACCACGAAGATATAAAGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCATGA
*
6633404 AGGGAAAGATTTAAGCCGCAACAGCGAATCTAG
66 AGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
** * * *
6633437 TACCACGAAGATATGGAGGGAAAGGTTTAAGTTGCAATGGCGAACCTTGTACCTCAG-AGACATG
1 TACCACGAAGATATAAAGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAGAAG-CATG
* ** ** *
6633501 AAAGGAAAGATTTAAGCTACAACGATGAATCCAG
65 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
** * * *
6633535 TACTTCGAAGATACAAAGGGAAAGGTTTAAGTCGCAACGACAAACTTTGTACCTCAGAAGCATGA
1 TACCACGAAGATATAAAGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCATGA
6633600 AGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
66 AGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
* *
6633633 TACCACGAAGATATAAATGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAG-AGACATG
1 TACCACGAAGATATAAAGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAGAAG-CATG
* * *
6633697 AAGGGAAAAATTTAAGCTGCAACGGCGAATTTAG
65 AAGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
6633731 TACCA
1 TACCA
6633736 TGTAGACACG
Statistics
Matches: 254, Mismatches: 42, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
97 4 0.02
98 248 0.98
99 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (98 bp):
TACCACGAAGATATAAAGGGAAAGGTTTAAGTCGCAACGACGAACCTTGTACCTCAGAAGCATGA
AGGGAAAGATTTAAGCCGCAACGGCGAATCTAG
Found at i:6633678 original size:196 final size:196
Alignment explanation
Indices: 6633364--6633720 Score: 606
Period size: 196 Copynumber: 1.8 Consensus size: 196
6633354 AATGGAAAAA
* *
6633364 TTTAAGTCGCAACGACGAACATTGTACCTCGGAAGCATGAAGGGAAAGATTTAAGCCGCAACAGC
1 TTTAAGTCGCAACGACAAACATTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACAGC
** * *
6633429 GAATCTAGTACCACGAAGATATGGAGGGAAAGGTTTAAGTTGCAATGGCGAACCTTGTACCTCAG
66 GAATCTAGTACCACGAAGATATAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAG
*
6633494 AGACATGAAAGGAAAGATTTAAGCTACAACGATGAATCCAGTACTTCGAAGATACAAAGGGAAAG
131 AGACATGAAAGGAAAAATTTAAGCTACAACGATGAATCCAGTACTTCGAAGATACAAAGGGAAAG
6633559 G
196 G
* *
6633560 TTTAAGTCGCAACGACAAACTTTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACGGC
1 TTTAAGTCGCAACGACAAACATTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACAGC
*
6633625 GAATCTAGTACCACGAAGATATAAATGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAG
66 GAATCTAGTACCACGAAGATATAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAG
* *
6633690 AGACATGAAGGGAAAAATTTAAGCTGCAACG
131 AGACATGAAAGGAAAAATTTAAGCTACAACG
6633721 GCGAATTTAG
Statistics
Matches: 149, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 149 1.00
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.20
Consensus pattern (196 bp):
TTTAAGTCGCAACGACAAACATTGTACCTCAGAAGCATGAAGGGAAAGATTTAAGCCGCAACAGC
GAATCTAGTACCACGAAGATATAAAGGGAAAGGTTTAAGTCGCAACGGCGAACCTTGTACCTCAG
AGACATGAAAGGAAAAATTTAAGCTACAACGATGAATCCAGTACTTCGAAGATACAAAGGGAAAG
G
Found at i:6640181 original size:2 final size:2
Alignment explanation
Indices: 6640176--6640200 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6640166 CTAAAAAAAT
6640176 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 T
6640201 GTGTGTGTGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6640205 original size:2 final size:2
Alignment explanation
Indices: 6640200--6640234 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6640190 TATATATATA
6640200 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
6640235 TTTTATTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:6640872 original size:12 final size:13
Alignment explanation
Indices: 6640833--6640874 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
6640823 AGTTAACTAC
*
6640833 TTTATATATAATA
1 TTTATATATATTA
**
6640846 TAAATATATATTA
1 TTTATATATATTA
6640859 TTTATATA-ATTA
1 TTTATATATATTA
6640871 TTTA
1 TTTA
6640875 AAAAATAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTTATATATATTA
Found at i:6642976 original size:22 final size:22
Alignment explanation
Indices: 6642935--6642976 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6642925 CTCATCTAAT
* **
6642935 ATTTATAAATTCTATCAATTTA
1 ATTTAAAAATTCTAAAAATTTA
6642957 ATTTAAAAATTCTAAAAATT
1 ATTTAAAAATTCTAAAAATT
6642977 CAATAAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (22 bp):
ATTTAAAAATTCTAAAAATTTA
Found at i:6643042 original size:7 final size:7
Alignment explanation
Indices: 6643032--6643057 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6643022 TGAATCATAA
6643032 AAAATTC
1 AAAATTC
6643039 AAAATTC
1 AAAATTC
6643046 AAAATTC
1 AAAATTC
6643053 AAAAT
1 AAAAT
6643058 AAAATTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTC
Found at i:6643184 original size:16 final size:17
Alignment explanation
Indices: 6643154--6643194 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
6643144 ATTTTCTAAC
6643154 ATAATATTTATTAAA-ATA
1 ATAAT-TTTATTAAATA-A
6643172 ATAATTTTA-TAAATAA
1 ATAATTTTATTAAATAA
6643188 ATAATTT
1 ATAATTT
6643195 AAGAGAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 12 0.55
17 5 0.23
18 5 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATTTTATTAAATAA
Found at i:6643195 original size:15 final size:15
Alignment explanation
Indices: 6643144--6643194 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
6643134 ATTTTTTTTC
*
6643144 ATTTTCTAACATAATA
1 ATTTTATAA-ATAATA
*
6643160 TTTATTA-AAATAATA
1 ATT-TTATAAATAATA
6643175 ATTTTATAAATAAATA
1 ATTTTATAAAT-AATA
6643191 ATTT
1 ATTT
6643195 AAGAGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 3 0.10
15 12 0.41
16 12 0.41
17 2 0.07
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTATAAATAATA
Found at i:6644858 original size:20 final size:20
Alignment explanation
Indices: 6644817--6644854 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6644807 AAAAAAGGCA
*
6644817 AAAATTCAAGTAAACAACAT
1 AAAATCCAAGTAAACAACAT
6644837 AAAATCCAAGT-AACAACA
1 AAAATCCAAGTAAACAACA
6644855 ATAACATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.18, G:0.05, T:0.16
Consensus pattern (20 bp):
AAAATCCAAGTAAACAACAT
Found at i:6645237 original size:42 final size:42
Alignment explanation
Indices: 6645190--6645277 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
6645180 AAAAAGAGTT
*
6645190 GTTTATGAGTACTATT-TAGGAATAAAATTATATTTGGGTTTA
1 GTTTATGAGTACTATTGTA-AAATAAAATTATATTTGGGTTTA
** * *
6645232 GTTTATGAGTGTTTTTGTAAAATGAAATTATATTTGGGTTTA
1 GTTTATGAGTACTATTGTAAAATAAAATTATATTTGGGTTTA
6645274 GTTT
1 GTTT
6645278 GTTGATGAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.30, C:0.01, G:0.20, T:0.49
Consensus pattern (42 bp):
GTTTATGAGTACTATTGTAAAATAAAATTATATTTGGGTTTA
Found at i:6650581 original size:33 final size:37
Alignment explanation
Indices: 6650506--6650584 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
6650496 TACTCTAAAG
* *
6650506 CTTAAAGCTCATCGACTGGCCATAAGAAGAAAGAAAT
1 CTTAAAGCTCATCAACTGGCCACAAGAAGAAAGAAAT
*
6650543 TTTAAAGCTCATCAACTGGCC-CAAGAA-AAAG-AA-
1 CTTAAAGCTCATCAACTGGCCACAAGAAGAAAGAAAT
6650576 CTTAAAGCT
1 CTTAAAGCT
6650585 GAGCTCATGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 8 0.21
34 2 0.05
35 4 0.11
36 5 0.13
37 19 0.50
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.20
Consensus pattern (37 bp):
CTTAAAGCTCATCAACTGGCCACAAGAAGAAAGAAAT
Found at i:6656703 original size:24 final size:24
Alignment explanation
Indices: 6656669--6656714 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6656659 AATTCATTTT
* *
6656669 TCTCTCGTCCTTCCTTTCCTTCTC
1 TCTCTCCTCCTTCATTTCCTTCTC
*
6656693 TCTCTCCTCCTTCATTTTCTTC
1 TCTCTCCTCCTTCATTTCCTTC
6656715 CCTTTTGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.02, C:0.43, G:0.02, T:0.52
Consensus pattern (24 bp):
TCTCTCCTCCTTCATTTCCTTCTC
Found at i:6657639 original size:117 final size:117
Alignment explanation
Indices: 6657430--6657667 Score: 449
Period size: 117 Copynumber: 2.0 Consensus size: 117
6657420 TATGTTATGA
*
6657430 AAGTGGAAAAAAGCAATGGAAATTTGGAAATGTATAAAAATTTATAGATATACCAATGCAAGATA
1 AAGTGGAAAAAAGCAATAGAAATTTGGAAATGTATAAAAATTTATAGATATACCAATGCAAGATA
*
6657495 ATTGAATAGCTAATATGATAAAGACGTGTTTATTCCATCACTTTAAGGATTT
66 ATTGAATAGCTAATATGATAAAAACGTGTTTATTCCATCACTTTAAGGATTT
*
6657547 AAGTGGAAAAAAGCAATAGAAATTTGGGAATGTATAAAAATTTATAGATATACCAATGCAAGATA
1 AAGTGGAAAAAAGCAATAGAAATTTGGAAATGTATAAAAATTTATAGATATACCAATGCAAGATA
6657612 ATTGAATAGCTAATATGATAAAAACGTGTTTATTCCATCACTTTAAGGATTT
66 ATTGAATAGCTAATATGATAAAAACGTGTTTATTCCATCACTTTAAGGATTT
6657664 AAGT
1 AAGT
6657668 AAGTTCTCAA
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 118 1.00
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (117 bp):
AAGTGGAAAAAAGCAATAGAAATTTGGAAATGTATAAAAATTTATAGATATACCAATGCAAGATA
ATTGAATAGCTAATATGATAAAAACGTGTTTATTCCATCACTTTAAGGATTT
Found at i:6666296 original size:24 final size:24
Alignment explanation
Indices: 6666251--6666314 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 24
6666241 AATTTTATAT
*
6666251 AAAATTTATAAAAAAATTAAAAAG
1 AAAATTTATAAAAAAATAAAAAAG
* *
6666275 AAAATTT-TAAAAAGTATAAAAATTAC
1 AAAATTTATAAAAA-AATAAAAA--AG
6666301 AAAATGTTATAAAA
1 AAAAT-TTATAAAA
6666315 TTATCAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
23 6 0.19
24 13 0.41
26 6 0.19
27 2 0.06
28 5 0.16
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (24 bp):
AAAATTTATAAAAAAATAAAAAAG
Found at i:6669034 original size:20 final size:20
Alignment explanation
Indices: 6669009--6669062 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
6668999 AGTCTTCAAG
6669009 GTATCGGTAGAAGTGGAGTT
1 GTATCGGTAGAAGTGGAGTT
*
6669029 GTATCGGTAGAAGTTGAGTT
1 GTATCGGTAGAAGTGGAGTT
* * *
6669049 CTACCGGTAAAAGT
1 GTATCGGTAGAAGT
6669063 CTTACTGGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.30
Consensus pattern (20 bp):
GTATCGGTAGAAGTGGAGTT
Found at i:6682342 original size:21 final size:19
Alignment explanation
Indices: 6682318--6682358 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
6682308 TTCTTTGGTA
*
6682318 AGAAGGGAGAAAATGTAAAAG
1 AGAAGGGA-AAAAAG-AAAAG
6682339 AGAAGGGAAAAAAGAAAAG
1 AGAAGGGAAAAAAGAAAAG
6682358 A
1 A
6682359 AAAGAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 5 0.26
21 8 0.42
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.05
Consensus pattern (19 bp):
AGAAGGGAAAAAAGAAAAG
Found at i:6688372 original size:31 final size:31
Alignment explanation
Indices: 6688337--6688416 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
6688327 TTTTTAGTCC
*
6688337 AATTTGTTACTCAAACTTGTCAC-TTTTTCTT
1 AATTTGGTACTCAAACTTGTCACTTTTTTC-T
6688368 AATTTGGTACTCAAACTTGTCACTTTTTTCT
1 AATTTGGTACTCAAACTTGTCACTTTTTTCT
6688399 AATTTGGTAC-CTAAACTT
1 AATTTGGTACTC-AAACTT
6688417 TTTGGGCTCC
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
30 1 0.02
31 39 0.85
32 6 0.13
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (31 bp):
AATTTGGTACTCAAACTTGTCACTTTTTTCT
Found at i:6688815 original size:14 final size:14
Alignment explanation
Indices: 6688796--6688822 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6688786 TTTGTTACCT
6688796 TCCCCTTCCCTTTC
1 TCCCCTTCCCTTTC
6688810 TCCCCTTCCCTTT
1 TCCCCTTCCCTTT
6688823 TTCCTTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (14 bp):
TCCCCTTCCCTTTC
Found at i:6689555 original size:10 final size:11
Alignment explanation
Indices: 6689525--6689560 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
6689515 TTATATTTAA
6689525 AAAATAATTTT
1 AAAATAATTTT
*
6689536 AAATTAATTTT
1 AAAATAATTTT
*
6689547 AAAATATTTTT
1 AAAATAATTTT
6689558 AAA
1 AAA
6689561 TAAAAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:6690030 original size:58 final size:58
Alignment explanation
Indices: 6689954--6690063 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 58
6689944 ATTTAATCTA
* * *
6689954 AAAAAAGTTTAGTTATCAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAATTGGGTC
1 AAAAAAGTTTAGTTATCAAATTAGAAAAAAGTGTCAAATTCAAGTACCAAATTGGGTC
* *
6690012 AAAAAAGTTTAAG-TATCAAATTCGAAAAAAGTGTCAAATTCAAGTACTAAAT
1 AAAAAAGTTT-AGTTATCAAATTAGAAAAAAGTGTCAAATTCAAGTACCAAAT
6690064 ATTATATTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
58 44 0.96
59 2 0.04
ACGTcount: A:0.46, C:0.10, G:0.16, T:0.27
Consensus pattern (58 bp):
AAAAAAGTTTAGTTATCAAATTAGAAAAAAGTGTCAAATTCAAGTACCAAATTGGGTC
Found at i:6692622 original size:26 final size:26
Alignment explanation
Indices: 6692576--6692665 Score: 80
Period size: 25 Copynumber: 3.6 Consensus size: 26
6692566 CTTCAATTTC
* ** *
6692576 ATAAAAAAAATATTGCT-AATATCAA
1 ATAATAAAAATATTATTAAATATAAA
6692601 ATAATAAAAATATTATTAAATATAAA
1 ATAATAAAAATATTATTAAATATAAA
*
6692627 ATAATAATAAATA--ATTAAATAAAAA
1 ATAATAA-AAATATTATTAAATATAAA
* *
6692652 ACAGTAAAAA-ATTA
1 ATAATAAAAATATTA
6692666 AGTATAAAAG
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
23 1 0.02
24 3 0.06
25 31 0.57
26 14 0.26
27 5 0.09
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (26 bp):
ATAATAAAAATATTATTAAATATAAA
Found at i:6695927 original size:24 final size:22
Alignment explanation
Indices: 6695898--6695959 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 22
6695888 CAATTGATCC
6695898 TTATTTTTTTTATTTTGA-GTTAT
1 TTATTTTTTTTATTTT-ATGTT-T
*
6695921 TTAATTTTTTTTCTTTTATGTTT
1 TT-ATTTTTTTTATTTTATGTTT
*
6695944 TTTTTTTTTTTATTTT
1 TTATTTTTTTTATTTT
6695960 CATTCTCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 12 0.35
23 6 0.18
24 16 0.47
ACGTcount: A:0.13, C:0.02, G:0.05, T:0.81
Consensus pattern (22 bp):
TTATTTTTTTTATTTTATGTTT
Found at i:6697384 original size:20 final size:19
Alignment explanation
Indices: 6697355--6697395 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
6697345 AAGTCTCCAT
6697355 TTTTTCTC-TTCTCTTCTTC
1 TTTTTCTCTTTCTCTT-TTC
6697374 TTTTTCTTCTTTCTCTTTTC
1 TTTTTC-TCTTTCTCTTTTC
6697394 TT
1 TT
6697396 AAATCCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 7 0.35
21 7 0.35
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTCTCTTTCTCTTTTC
Found at i:6702313 original size:23 final size:23
Alignment explanation
Indices: 6702287--6702482 Score: 227
Period size: 23 Copynumber: 8.4 Consensus size: 23
6702277 AGTGCTGGGC
6702287 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
* * *
6702310 AACAGAGAGTACACAAAGTACTA
1 AACAGAGAGCACACACAGTGCTA
* * *
6702333 ATCAGAGAACACACAAAGTGCTAA
1 AACAGAGAGCACACACAGTGCT-A
* *
6702357 TAATAGAGAGCACGAGAC-GTGCTA
1 -AACAGAGAGCAC-ACACAGTGCTA
6702381 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
*
6702404 AACAGAGAGCACGAGAC-GTGCTA
1 AACAGAGAGCAC-ACACAGTGCTA
*
6702427 AACAGAGAGCACGAGAC-GTGCTA
1 AACAGAGAGCAC-ACACAGTGCTA
*
6702450 AACAGAGAGCACACACAGTGTTA
1 AACAGAGAGCACACACAGTGCTA
6702473 AACAGAGAGC
1 AACAGAGAGC
6702483 GCGCTAGTGT
Statistics
Matches: 150, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
22 6 0.04
23 123 0.82
24 5 0.03
25 14 0.09
26 2 0.01
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (23 bp):
AACAGAGAGCACACACAGTGCTA
Found at i:6702365 original size:71 final size:67
Alignment explanation
Indices: 6702239--6702482 Score: 231
Period size: 71 Copynumber: 3.5 Consensus size: 67
6702229 TAAATGGAAC
* * * * *
6702239 AAACAGAGAGTAC-CGAAGTACTGAACAGAGAGCACATAAGTGCTGGGCAACAGAGAGCAC-ACA
1 AAACAGAGAGCACACAAAGTACT-AACAGAGAGCACAAAAGTGCT---AAACAGAGAGCACGAGA
6702302 CAGTGCT
62 C-GTGCT
* * *
6702309 AAACAGAGAGTACACAAAGTACTAATCAGAGAACACACAAAGTGCTAATAATAGAGAGCACGAGA
1 AAACAGAGAGCACACAAAGTACTAA-CAGAGAGCACA-AAAGTGCT-A-AACAGAGAGCACGAGA
6702374 CGTGCT
62 CGTGCT
* * * *
6702380 AAACAGAGAGCACACACAGTGCTAAACAGAGAGCACGAGACGTGCTAAACAGAGAGCACGAGACG
1 AAACAGAGAGCACACAAAGTACT-AACAGAGAGCAC-AAAAGTGCTAAACAGAGAGCACGAGACG
6702445 TGCT
64 TGCT
* **
6702449 AAACAGAGAGCACACACAGTGTTAAACAGAGAGC
1 AAACAGAGAGCACACAAAGTACT-AACAGAGAGC
6702483 GCGCTAGTGT
Statistics
Matches: 152, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
69 54 0.36
70 16 0.11
71 69 0.45
72 13 0.09
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (67 bp):
AAACAGAGAGCACACAAAGTACTAACAGAGAGCACAAAAGTGCTAAACAGAGAGCACGAGACGTG
CT
Found at i:6702460 original size:69 final size:71
Alignment explanation
Indices: 6702287--6702482 Score: 256
Period size: 69 Copynumber: 2.8 Consensus size: 71
6702277 AGTGCTGGGC
* * * * * *
6702287 AACAGAGAGCAC-ACACAGTGCTAAACAGAGAGTACACAAAGTACTAATCAGAGAACACACAAAG
1 AACAGAGAGCACGAGAC-GTGCTAAACAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAG
6702351 TGCTAAT
65 TGCTAAT
* * *
6702358 AATAGAGAGCACGAGACGTGCTAAACAGAGAGCACACACAGTGCTAAACAGAGAGCACGA-GACG
1 AACAGAGAGCACGAGACGTGCTAAACAGAGAGCACACACAGTGCTAAACAGAGAGCAC-ACAAAG
6702422 TGCT-A-
65 TGCTAAT
*
6702427 AACAGAGAGCACGAGACGTGCTAAACAGAGAGCACACACAGTGTTAAACAGAGAGC
1 AACAGAGAGCACGAGACGTGCTAAACAGAGAGCACACACAGTGCTAAACAGAGAGC
6702483 GCGCTAGTGT
Statistics
Matches: 112, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
69 54 0.48
70 1 0.01
71 53 0.47
72 4 0.04
ACGTcount: A:0.44, C:0.21, G:0.24, T:0.11
Consensus pattern (71 bp):
AACAGAGAGCACGAGACGTGCTAAACAGAGAGCACACACAGTGCTAAACAGAGAGCACACAAAGT
GCTAAT
Found at i:6705543 original size:18 final size:19
Alignment explanation
Indices: 6705511--6705556 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
6705501 GAAATAGAAA
*
6705511 GAAAGGAAA-AGGAAA-AG
1 GAAAGGAAAGAGGAAATAC
6705528 GAAAGGAAAGAGGAAATAC
1 GAAAGGAAAGAGGAAATAC
6705547 GAAA-GAAAGA
1 GAAAGGAAAGA
6705557 AAGAAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 9 0.35
18 12 0.46
19 5 0.19
ACGTcount: A:0.63, C:0.02, G:0.33, T:0.02
Consensus pattern (19 bp):
GAAAGGAAAGAGGAAATAC
Found at i:6708196 original size:123 final size:123
Alignment explanation
Indices: 6707975--6708222 Score: 451
Period size: 123 Copynumber: 2.0 Consensus size: 123
6707965 CCTACACTGC
6707975 CAATGCAACCCAGTATACACGACTACATGCAATCTTTGGGGCCCATCTTACATGCCCATGACCAA
1 CAATGCAACCCAGTATACACGACTACATGCAATCTTTGGGGCCCATCTTACATGCCCATGACCAA
6708040 GCCATCCAAGTTATTGCTTCTAGGATGGATATTGGTTTGTGCCACATCTTGAATTGGT
66 GCCATCCAAGTTATTGCTTCTAGGATGGATATTGGTTTGTGCCACATCTTGAATTGGT
* * * *
6708098 CAATGCAACCCATTATACATGACTACATGCAATCTTTGGGGCCCATCTTACATGGCCATGACCAT
1 CAATGCAACCCAGTATACACGACTACATGCAATCTTTGGGGCCCATCTTACATGCCCATGACCAA
*
6708163 GCCATCCAAGTTATTGCTTCTAGGATGGCTATTGGTTTGTGCCACATCTTGAATTGGT
66 GCCATCCAAGTTATTGCTTCTAGGATGGATATTGGTTTGTGCCACATCTTGAATTGGT
6708221 CA
1 CA
6708223 CCACAGATAA
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 120 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (123 bp):
CAATGCAACCCAGTATACACGACTACATGCAATCTTTGGGGCCCATCTTACATGCCCATGACCAA
GCCATCCAAGTTATTGCTTCTAGGATGGATATTGGTTTGTGCCACATCTTGAATTGGT
Found at i:6716696 original size:13 final size:13
Alignment explanation
Indices: 6716672--6716709 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
6716662 CATTTCCAGG
*
6716672 TCATTTTAATTTT
1 TCATTTTCATTTT
*
6716685 TTATTTTCA-TTT
1 TCATTTTCATTTT
6716697 TCATTTTCATTTT
1 TCATTTTCATTTT
6716710 GGAAAAAACC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.71
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:6726710 original size:16 final size:17
Alignment explanation
Indices: 6726690--6726730 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
6726680 TAATATTTTA
6726690 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
* *
6726706 TAAA-TATTAAAATAAT
1 AAAATTATAAAAATAAT
6726722 AAAATTATA
1 AAAATTATA
6726731 TTTTTATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 3
0.73 0.15 0.12
Matches are distributed among these distances:
15 8 0.42
16 8 0.42
17 3 0.16
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:6734965 original size:21 final size:20
Alignment explanation
Indices: 6734941--6735000 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 20
6734931 CTTAAATCTT
*
6734941 AAACTTGAATCCTAAACTTCA
1 AAACTTGAATCCTAAACCT-A
*
6734962 AAACCAT-AATCTCTAAACCTA
1 AAA-CTTGAATC-CTAAACCTA
* *
6734983 AATCTTGAATCCCAAACC
1 AAACTTGAATCCTAAACC
6735001 CAAATTCGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
20 8 0.26
21 14 0.45
22 9 0.29
ACGTcount: A:0.43, C:0.28, G:0.03, T:0.25
Consensus pattern (20 bp):
AAACTTGAATCCTAAACCTA
Found at i:6746888 original size:6 final size:6
Alignment explanation
Indices: 6746877--6746919 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
6746867 TGAATTTATT
* *
6746877 TTAAAA TTAAAA TTAAAA TTATTAAA TTTAAA TTAAAT TTAAA
1 TTAAAA TTAAAA TTAAAA TTA--AAA TTAAAA TTAAAA TTAAA
6746920 TTTGGATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 27 0.84
8 5 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
TTAAAA
Found at i:6746913 original size:11 final size:11
Alignment explanation
Indices: 6746880--6746921 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
6746870 ATTTATTTTA
*
6746880 AAATTAAAATT
1 AAATTTAAATT
*
6746891 AAAATT--ATT
1 AAATTTAAATT
6746900 AAATTTAAATT
1 AAATTTAAATT
6746911 AAATTTAAATT
1 AAATTTAAATT
6746922 TGGATTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 8 0.31
11 18 0.69
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
AAATTTAAATT
Found at i:6746920 original size:17 final size:17
Alignment explanation
Indices: 6746898--6746942 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
6746888 ATTAAAATTA
6746898 TTAAATTTAAATTAAAT
1 TTAAATTTAAATTAAAT
** *
6746915 TTAAATTTGGATTTAAT
1 TTAAATTTAAATTAAAT
*
6746932 TTGAATTTAAA
1 TTAAATTTAAA
6746943 ATTATTATAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (17 bp):
TTAAATTTAAATTAAAT
Found at i:6746930 original size:12 final size:12
Alignment explanation
Indices: 6746901--6746942 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
6746891 AAAATTATTA
*
6746901 AATTTAAA-TTA
1 AATTTAAATTTG
6746912 AATTTAAATTTG
1 AATTTAAATTTG
*
6746924 GATTT-AATTTG
1 AATTTAAATTTG
6746935 AATTTAAA
1 AATTTAAA
6746943 ATTATTATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
AATTTAAATTTG
Found at i:6748938 original size:29 final size:30
Alignment explanation
Indices: 6748873--6749072 Score: 173
Period size: 30 Copynumber: 6.8 Consensus size: 30
6748863 CCCTGATCTA
* ** *
6748873 TCTAAAAATTACATTTTAACCTTAAAATTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
*
6748903 TCTAAAAATTATA-TTTGACCCCAAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
*
6748932 TCCAAAAATTACATTTTGACCCCAAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
* * *
6748962 TTTAAAAATTACATTTTAACCCTAAAACTT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
* * *
6748992 TCT-AAAATTCCATTTTTACCCC--GA-TT
1 TCTAAAAATTACATTTTGACCCCAAAACTT
**
6749018 TC-ACCAAAATTACCATTTT-ACCCCCGAACTT
1 TCTA--AAAATTA-CATTTTGACCCCAAAACTT
* *
6749049 TCT-AAAATTCCATTTTTACCCCAA
1 TCTAAAAATTACATTTTGACCCCAA
6749073 TTTTACCAAA
Statistics
Matches: 139, Mismatches: 21, Indels: 21
0.77 0.12 0.12
Matches are distributed among these distances:
26 4 0.03
27 1 0.01
28 17 0.12
29 56 0.40
30 57 0.41
31 4 0.03
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (30 bp):
TCTAAAAATTACATTTTGACCCCAAAACTT
Found at i:6748948 original size:59 final size:59
Alignment explanation
Indices: 6748876--6749013 Score: 163
Period size: 59 Copynumber: 2.3 Consensus size: 59
6748866 TGATCTATCT
** * *
6748876 AAAAATTACATTTTAACCTTAAAA-TTTTCTAAAAATTATA-TTTGACCCCAAAACTTTCC
1 AAAAATTACATTTTAACCCCAAAACTTTT-TAAAAATTACATTTTAACCCCAAAACTTT-C
* *
6748935 AAAAATTACATTTTGACCCCAAAACTTTTTAAAAATTACATTTTAACCCTAAAACTTTC
1 AAAAATTACATTTTAACCCCAAAACTTTTTAAAAATTACATTTTAACCCCAAAACTTTC
* * *
6748994 TAAAATTCCATTTTTACCCC
1 AAAAATTACATTTTAACCCC
6749014 GATTTCACCA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
59 49 0.72
60 19 0.28
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (59 bp):
AAAAATTACATTTTAACCCCAAAACTTTTTAAAAATTACATTTTAACCCCAAAACTTTC
Found at i:6749091 original size:29 final size:29
Alignment explanation
Indices: 6748995--6749151 Score: 132
Period size: 29 Copynumber: 5.5 Consensus size: 29
6748985 AAAACTTTCT
* *
6748995 AAAATT-CCATTTTTACCCCGATTTCACC
1 AAAATTACCATTTTTACCCCAATTTTACC
* *
6749023 AAAATTACCA-TTTTACCCCCGAACTTT-CT
1 AAAATTACCATTTTTA-CCCC-AATTTTACC
6749052 AAAATT-CCATTTTTACCCCAATTTTACC
1 AAAATTACCATTTTTACCCCAATTTTACC
* *
6749080 AAAATTATCA-TTTTACCCTCGAACTTT-CC
1 AAAATTACCATTTTTACCC-C-AATTTTACC
* *
6749109 AAAA-T-CCTATTTTTATCCCAATTTCGACC
1 AAAATTACC-ATTTTTACCCCAATTT-TACC
6749138 AAAATTACCATTTT
1 AAAATTACCATTTT
6749152 GCCCTCGGGT
Statistics
Matches: 103, Mismatches: 12, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
27 10 0.10
28 36 0.35
29 41 0.40
30 14 0.14
31 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAATTACCATTTTTACCCCAATTTTACC
Found at i:6749169 original size:57 final size:57
Alignment explanation
Indices: 6748966--6749158 Score: 255
Period size: 57 Copynumber: 3.4 Consensus size: 57
6748956 AAACTTTTTA
** * *
6748966 AAAATTA-CATTTTAACCCTAAAACTTTCTAAAATTCCATTTTTACCCCGATTTCACC
1 AAAATTACCATTTT-ACCCTCGAACTTTCCAAAATTCCATTTTTACCCCAATTTCACC
* * *
6749023 AAAATTACCATTTTACCCCCGAACTTTCTAAAATTCCATTTTTACCCCAATTTTACC
1 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTACCCCAATTTCACC
* *
6749080 AAAATTATCATTTTACCCTCGAACTTTCCAAAA-TCCTATTTTTATCCCAATTTCGACC
1 AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCC-ATTTTTACCCCAATTTC-ACC
*
6749138 AAAATTACCATTTTGCCCTCG
1 AAAATTACCATTTTACCCTCG
6749159 GGTATCCAAA
Statistics
Matches: 121, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
56 3 0.02
57 90 0.74
58 28 0.23
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (57 bp):
AAAATTACCATTTTACCCTCGAACTTTCCAAAATTCCATTTTTACCCCAATTTCACC
Found at i:6752892 original size:7 final size:7
Alignment explanation
Indices: 6752880--6752940 Score: 67
Period size: 7 Copynumber: 9.3 Consensus size: 7
6752870 TAAAAATATT
6752880 ATTAATA
1 ATTAATA
6752887 ATTAATA
1 ATTAATA
6752894 ATT-ATA
1 ATTAATA
6752900 ATTAAT-
1 ATTAATA
* *
6752906 ATTTATG
1 ATTAATA
6752913 ATT-ATA
1 ATTAATA
*
6752919 GTTAAT-
1 ATTAATA
6752925 ATTAATA
1 ATTAATA
6752932 ATTAATA
1 ATTAATA
6752939 AT
1 AT
6752941 ATTAAAATAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
6 20 0.43
7 26 0.57
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (7 bp):
ATTAATA
Found at i:6752902 original size:13 final size:13
Alignment explanation
Indices: 6752884--6752940 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
6752874 AATATTATTA
6752884 ATAATTAATAATT
1 ATAATTAATAATT
*
6752897 ATAATTAATATTT
1 ATAATTAATAATT
* *
6752910 ATGATT-ATAGTT
1 ATAATTAATAATT
6752922 A-ATATTAATAATT
1 ATA-ATTAATAATT
6752935 AATAAT
1 -ATAAT
6752941 ATTAAAATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
12 9 0.26
13 22 0.63
14 3 0.09
15 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (13 bp):
ATAATTAATAATT
Found at i:6752918 original size:19 final size:19
Alignment explanation
Indices: 6752880--6752940 Score: 77
Period size: 19 Copynumber: 3.1 Consensus size: 19
6752870 TAAAAATATT
6752880 ATTAATAATTAATAATTATA
1 ATTAAT-ATTAATAATTATA
* *
6752900 ATTAATATTTATGATTATA
1 ATTAATATTAATAATTATA
*
6752919 GTTAATATTAATAATTAATA
1 ATTAATATTAATAATT-ATA
6752939 AT
1 AT
6752941 ATTAAAATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 24 0.71
20 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (19 bp):
ATTAATATTAATAATTATA
Found at i:6754081 original size:162 final size:162
Alignment explanation
Indices: 6753808--6754119 Score: 491
Period size: 162 Copynumber: 1.9 Consensus size: 162
6753798 CTTTTCAATT
* *
6753808 TAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACATGTCATTTTTTGCATTATTTCTGCAT
1 TAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACATGTCATTTTTAGCATTATTTATGCAT
* *
6753873 TTAGTCCCTGACATTTTTAATTTGTTTTAATTTAATCCCTAAATCAACTTTTATTAAATTACAAA
66 TTAATCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACAAA
6753938 ATTGGCCCAAGAATTTTTCATGGTTTATAAAG
131 ATTGGCCCAAGAATTTTTCATGGTTTATAAAG
* * *
6753970 TAGTCCTTTGACTGTTTGACTGTACCAGGGGTTGCCACGTGTCACTTTTTAGC-TTATTTATGCA
1 TAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACATGTCA-TTTTTAGCATTATTTATGCA
* *** * *
6754034 TTTAATCCTTTTTATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTTAATTACGA
65 TTTAATCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACAA
6754099 AATTGGCCCAAGAATTTTTCA
130 AATTGGCCCAAGAATTTTTCA
6754120 AGATTTACAA
Statistics
Matches: 136, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
162 129 0.95
163 7 0.05
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.44
Consensus pattern (162 bp):
TAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACATGTCATTTTTAGCATTATTTATGCAT
TTAATCCCTGACATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACAAA
ATTGGCCCAAGAATTTTTCATGGTTTATAAAG
Found at i:6754337 original size:59 final size:58
Alignment explanation
Indices: 6754274--6754587 Score: 434
Period size: 59 Copynumber: 5.4 Consensus size: 58
6754264 CCGAAACTTT
*
6754274 CAAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTCTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATT-TTAACCTCGATTTCAC
* *
6754333 CAAAAATTACCATTTTACCCCAGAATCTTTTAAAATTCCATTTTTAACCTCGATTTCAT
1 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCA-TTTTAACCTCGATTTCAC
*
6754392 CAAAAATTACCATTTTACCCCCTGAATCTTTTAAAATTCCATTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCC-GAATCTTTTAAAATTCCATTTTAACCTCGATTTCAC
* *** * * *
6754451 CGAAAATTACCATTTTACCCTTAAATCTTTTAAAATTCCATTTTTAACCCCAATTTTAC
1 CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCA-TTTTAACCTCGATTTCAC
** *
6754510 CAAAAATTACCATTTTACCCTTGAA-CTTTCCAAAATTCCATTTTAACCTCGATTTCAC
1 CAAAAATTACCATTTTACCCCCGAATCTTT-TAAAATTCCATTTTAACCTCGATTTCAC
*
6754568 C-AAAATTACCATTTTGCCCC
1 CAAAAATTACCATTTTACCCC
6754588 TGGGTATCCA
Statistics
Matches: 231, Mismatches: 20, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
57 17 0.07
58 37 0.16
59 157 0.68
60 20 0.09
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTAACCTCGATTTCAC
Found at i:6762650 original size:51 final size:51
Alignment explanation
Indices: 6762571--6762949 Score: 364
Period size: 51 Copynumber: 7.5 Consensus size: 51
6762561 ATCATGAAAT
* *
6762571 ACAAAGGGAAAGATCTAAGACCGTAATGGCAGATCCAGTACCGTAAAAGAC
1 ACAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAGAC
*
6762622 ACAAAGGGAAAGATCTAAGACCACAATGGCAGATCCAGTACCGCAAAAGAC
1 ACAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAGAC
* * *
6762673 ACAAAGGCAAAGATCTAATACCGCAATGGCAGATCCAGTACCACAAAA-AC
1 ACAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAGAC
* * * * * * *
6762723 ACAACAGGGAAAGGTCTAA-ATCGCAAGGGCGGA-CCGTGTACCTCAGAAGA-
1 ACAA-AGGGAAAGATCTAAGACCGCAATGGCAGATCC-AGTACCGCAAAAGAC
** * * * *
6762773 ATGACGGAAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCCAAA-AC
1 ACAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAGAC
* * * ** ** * *
6762823 ACAAAAGGGAAAGGTCTAAG-TCGCAACGGTGGATCGTGTACCTCAGAAG-C
1 AC-AAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAGAC
**
6762873 A-TGAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAA-AC
1 ACAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAGAC
* *
6762922 ACAAAAGGGAAAGGTCTAAG-TCGCAATG
1 AC-AAAGGGAAAGATCTAAGACCGCAATG
6762950 ACGGACCGTG
Statistics
Matches: 261, Mismatches: 55, Indels: 25
0.77 0.16 0.07
Matches are distributed among these distances:
48 14 0.05
49 36 0.14
50 77 0.30
51 134 0.51
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.12
Consensus pattern (51 bp):
ACAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAGAC
Found at i:6762813 original size:100 final size:99
Alignment explanation
Indices: 6762579--6762969 Score: 480
Period size: 100 Copynumber: 3.9 Consensus size: 99
6762569 ATACAAAGGG
* * * *
6762579 AAAGATCTAAGACCGTAATGGCAGATCCAGTACCGTAAAAGACAC-AAAGGGAAAGATCTAAGAC
1 AAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAA-ACACAAAAGGGAAAGGTCTAA-AT
* * * * * ** *
6762643 CACAATGGCAGATCC-AGTACCGCAAAAGACACAAAGGC
64 CGCAATGGCGGA-CCGTGTACCTCAGAAGA-A-TGAGGA
* * *
6762681 AAAGATCTAATACCGCAATGGCAGATCCAGTACCACAAAAACACAACAGGGAAAGGTCTAAATCG
1 AAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAATCG
*
6762746 CAAGGGCGGACCGTGTACCTCAGAAGAATGACGGA
66 CAATGGCGGACCGTGTACCTCAGAAGAATGA-GGA
* * *
6762781 AAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCCAAAACACAAAAGGGAAAGGTCTAAGTCG
1 AAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAATCG
* * * * *
6762846 CAACGGTGGATCGTGTACCTCAGAAGCATGAGGG
66 CAATGGCGGACCGTGTACCTCAGAAGAATGAGGA
*
6762880 AAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCG
1 AAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAATCG
*
6762945 CAATGACGGACCGTGTACCTCAGAA
66 CAATGGCGGACCGTGTACCTCAGAA
6762970 ACAGGAAGGA
Statistics
Matches: 253, Mismatches: 33, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
99 87 0.34
100 91 0.36
101 25 0.10
102 50 0.20
ACGTcount: A:0.40, C:0.23, G:0.24, T:0.13
Consensus pattern (99 bp):
AAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAATCG
CAATGGCGGACCGTGTACCTCAGAAGAATGAGGA
Found at i:6762922 original size:199 final size:202
Alignment explanation
Indices: 6762579--6762969 Score: 538
Period size: 199 Copynumber: 2.0 Consensus size: 202
6762569 ATACAAAGGG
* * * *
6762579 AAAGATCTAAGACCGTAATGGCAGATCCAGTACCGTAAAAGACACAAAGGGAAAGATCTAAGACC
1 AAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAACACACAAAGGGAAAGATCTAAGACC
* *
6762644 ACAATGGCAGATCCAGTACCGCAAAAGACACAAAGGCAAAGATCTAATACCGCAATGGCAGATCC
66 ACAACGGCAGATCCAGTACCGCAAAAGACACAAAGGCAAAGATCTAAGACCGCAATGGCAGATCC
* *
6762709 AGTACCACAAAAACACAACAGGGAAAGGTCTAAATCGCAAGGGCGGACCGTGTACCTCAGAAGAA
131 AGTACCACAAAAACACAAAAGGGAAAGGTCTAAATCGCAAGGACGGACCGTGTACCTCAGAAGAA
6762774 TGACGGA
196 TGACGGA
* *
6762781 AAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCCAAAACACA-AAAGGGAAAGGTCTAAG-T
1 AAAGATCTAAGACCGCAACGGCAGATCCAGTACCG-CAAAACACACAAAGGGAAAGATCTAAGAC
* ** ** * * ** *
6762844 CGCAACGGTGGATCGTGTACCTCAGAAG-CA-TGAGGGAAAGATCTAAGACCGCAATGGCAGATC
65 CACAACGGCAGATCCAGTACCGCAAAAGACACAAAGGCAAAGATCTAAGACCGCAATGGCAGATC
* * *
6762907 CAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGTCGCAATGACGGACCGTGTACCTCAGAA
130 CAGTACCACAAAAACACAAAAGGGAAAGGTCTAAATCGCAAGGACGGACCGTGTACCTCAGAA
6762970 ACAGGAAGGA
Statistics
Matches: 165, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
199 87 0.53
200 2 0.01
201 20 0.12
202 49 0.30
203 7 0.04
ACGTcount: A:0.40, C:0.23, G:0.24, T:0.13
Consensus pattern (202 bp):
AAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAACACACAAAGGGAAAGATCTAAGACC
ACAACGGCAGATCCAGTACCGCAAAAGACACAAAGGCAAAGATCTAAGACCGCAATGGCAGATCC
AGTACCACAAAAACACAAAAGGGAAAGGTCTAAATCGCAAGGACGGACCGTGTACCTCAGAAGAA
TGACGGA
Found at i:6762981 original size:99 final size:100
Alignment explanation
Indices: 6762577--6762982 Score: 507
Period size: 99 Copynumber: 4.1 Consensus size: 100
6762567 AAATACAAAG
* * *
6762577 GGAAAGATCTAAGACCGTAATGGCAGATCCAGTACCGTAAAAGACAC-AAAGGGAAAGATCTAAG
1 GGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAA-ACACAAAAGGGAAAGGTCTAAG
* * * * * * **
6762641 ACCACAATGGCAGATCC-AGTACCGCAAAAGACACAAA
65 -TCGCAATGGCGGA-CCGTGTACCTCAGAAGACATGAA
* * * *
6762678 GGCAAAGATCTAATACCGCAATGGCAGATCCAGTACCACAAAAACACAACAGGGAAAGGTCTAAA
1 GG-AAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAG
* *
6762743 TCGCAAGGGCGGACCGTGTACCTCAGAAGA-ATGAC
65 TCGCAATGGCGGACCGTGTACCTCAGAAGACATGAA
* *
6762778 GGAAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCCAAAACACAAAAGGGAAAGGTCTAAG
1 GG-AAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAG
* * * *
6762843 TCGCAACGGTGGATCGTGTACCTCAGAAG-CATGAG
65 TCGCAATGGCGGACCGTGTACCTCAGAAGACATGAA
6762878 GGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGT
1 GGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGT
* *
6762943 CGCAATGACGGACCGTGTACCTCAGAA-ACAGGAA
66 CGCAATGGCGGACCGTGTACCTCAGAAGACATGAA
6762977 GGAAAG
1 GGAAAG
6762983 GATTTAAGTC
Statistics
Matches: 264, Mismatches: 36, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
99 94 0.36
100 94 0.36
101 26 0.10
102 50 0.19
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.12
Consensus pattern (100 bp):
GGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTAAGT
CGCAATGGCGGACCGTGTACCTCAGAAGACATGAA
Found at i:6763779 original size:17 final size:17
Alignment explanation
Indices: 6763731--6763814 Score: 87
Period size: 17 Copynumber: 4.9 Consensus size: 17
6763721 AACCACTTTG
* *
6763731 AATTTGTTTTAAAATTA
1 AATTTATTTTAAATTTA
6763748 AATTTATTTTAAAATTTA
1 AATTTATTTT-AAATTTA
*
6763766 AATTTATTTTAAATTTG
1 AATTTATTTTAAATTTA
* * *
6763783 GATTTAATTTGAATTTA
1 AATTTATTTTAAATTTA
* *
6763800 AAATTATTATAAATT
1 AATTTATTTTAAATT
6763815 CAATAAAATA
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
17 38 0.70
18 16 0.30
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:6763792 original size:18 final size:18
Alignment explanation
Indices: 6763731--6763778 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
6763721 AACCACTTTG
*
6763731 AATTTGTTTTAAAA-TTA
1 AATTTATTTTAAAATTTA
6763748 AATTTATTTTAAAATTTA
1 AATTTATTTTAAAATTTA
6763766 AATTTATTTTAAA
1 AATTTATTTTAAA
6763779 TTTGGATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 13 0.45
18 16 0.55
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
AATTTATTTTAAAATTTA
Found at i:6765822 original size:60 final size:59
Alignment explanation
Indices: 6765729--6765923 Score: 222
Period size: 60 Copynumber: 3.3 Consensus size: 59
6765719 GATCTGTCCA
* *
6765729 AAAATTACATTTTAACACCAAAAC-TTCTTAAAAATTATATTTTGAACTC-AAAACTTTTCG
1 AAAATTACATTTTAAC-CCAAAACTTTC-TAAAAATTACATTTT-AACCCTAAAACTTTTCG
* *
6765789 AAAATTACATTTTAAACCCAAAACTTTCTAAAAATCACATTTTAACCCTAAAACTTTTTG
1 AAAATTACATTTT-AACCCAAAACTTTCTAAAAATTACATTTTAACCCTAAAACTTTTCG
* * *
6765849 AAAATTACATTTTGACCCCAAAACTTTCT-AAAATTACATTTTTACCCCT-AAAC-TTTCT
1 AAAATTACATTTT-AACCCAAAACTTTCTAAAAATTACA-TTTTAACCCTAAAACTTTTCG
6765907 AAAATT-CTATTTTAACC
1 AAAATTAC-ATTTTAACC
6765924 TCGATTTCAC
Statistics
Matches: 119, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
57 4 0.03
58 14 0.12
59 16 0.13
60 79 0.66
61 6 0.05
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (59 bp):
AAAATTACATTTTAACCCAAAACTTTCTAAAAATTACATTTTAACCCTAAAACTTTTCG
Found at i:6765835 original size:29 final size:29
Alignment explanation
Indices: 6765728--6765923 Score: 195
Period size: 30 Copynumber: 6.6 Consensus size: 29
6765718 TGATCTGTCC
6765728 AAAAATTACATTTTAACACCAAAAC-TTCTT
1 AAAAATTACATTTTAAC-CCAAAACTTTC-T
* *
6765758 AAAAATTATATTTTGAACTCAAAACTTT-T
1 AAAAATTACATTTT-AACCCAAAACTTTCT
*
6765787 CGAAAATTACATTTTAAACCCAAAACTTTCT
1 -AAAAATTACATTTT-AACCCAAAACTTTCT
* *
6765818 AAAAATCACATTTTAACCCTAAAACTTTTT
1 AAAAATTACATTTTAACCC-AAAACTTTCT
* *
6765848 GAAAATTACATTTTGACCCCAAAACTTTCT
1 AAAAATTACATTTT-AACCCAAAACTTTCT
* *
6765878 -AAAATTACATTTTTACCCCTAAACTTTCT
1 AAAAATTACA-TTTTAACCCAAAACTTTCT
6765907 -AAAATT-CTATTTTAACC
1 AAAAATTAC-ATTTTAACC
6765924 TCGATTTCAC
Statistics
Matches: 143, Mismatches: 15, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
28 8 0.06
29 36 0.25
30 89 0.62
31 10 0.07
ACGTcount: A:0.41, C:0.20, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAAATTACATTTTAACCCAAAACTTTCT
Found at i:6765947 original size:29 final size:28
Alignment explanation
Indices: 6765907--6766010 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 28
6765897 TAAACTTTCT
* * *
6765907 AAAATTCTATTTTAACCTCGATTTCACC
1 AAAATTCCATTTTACCCCCGATTTCACC
* *
6765935 AAAATTACCATTTTATCCCCGAACTTT--CT
1 AAAATT-CCATTTTACCCCCG-A-TTTCACC
6765964 AAAATTCCATTTTTACCCCCGATTTCACC
1 AAAATTCCA-TTTTACCCCCGATTTCACC
*
6765993 AAACTTACCATTTTACCC
1 AAAATT-CCATTTTACCC
6766011 TCAAACTTTC
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
27 3 0.05
28 10 0.16
29 42 0.68
30 4 0.06
31 3 0.05
ACGTcount: A:0.31, C:0.30, G:0.03, T:0.37
Consensus pattern (28 bp):
AAAATTCCATTTTACCCCCGATTTCACC
Found at i:6765960 original size:57 final size:58
Alignment explanation
Indices: 6765878--6766064 Score: 213
Period size: 58 Copynumber: 3.2 Consensus size: 58
6765868 AAAACTTTCT
* *
6765878 AAAATTA-CATTTT-TACCCCTAAACTTTCTAAAATTCTA-TTTTAACCTCGATTTCACC
1 AAAATTACCATTTTAT-CCCC-AAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* *
6765935 AAAATTACCATTTTATCCCCGAACTTTCTAAAATTCCATTTTTACCCCCGATTTCACC
1 AAAATTACCATTTTATCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
* * * * *
6765993 AAACTTACCATTTTA-CCCTCAAACTTTCCAAAATCCCATTTTTATCCCAG-TTTCGACC
1 AAAATTACCATTTTATCCC-CAAACTTTCTAAAATTCCATTTTTAACCCCGATTTC-ACC
*
6766051 AAAATTATCATTTT
1 AAAATTACCATTTT
6766065 GCCCTCGGGT
Statistics
Matches: 113, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
57 30 0.27
58 82 0.73
59 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.38
Consensus pattern (58 bp):
AAAATTACCATTTTATCCCCAAACTTTCTAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:6766901 original size:29 final size:27
Alignment explanation
Indices: 6766840--6766904 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
6766830 TTTTTGATCC
6766840 CTTAAAAGTTAAAAAAAAAATTAGACT
1 CTTAAAAGTTAAAAAAAAAATTAGACT
* * *
6766867 CTTTAAAAGTTGATAAAAAAATTTGAGCTT
1 C-TTAAAAGTTAAAAAAAAAATTAGA-C-T
6766897 CTTAAAAG
1 CTTAAAAG
6766905 CTGAATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 1 0.03
28 21 0.66
29 8 0.25
30 2 0.06
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.31
Consensus pattern (27 bp):
CTTAAAAGTTAAAAAAAAAATTAGACT
Found at i:6772584 original size:18 final size:18
Alignment explanation
Indices: 6772563--6772602 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6772553 AAAGAGGAAG
*
6772563 TTTGGCTGTGATTGATTC
1 TTTGGCTGTAATTGATTC
**
6772581 TTTGTTTGTAATTGATTC
1 TTTGGCTGTAATTGATTC
6772599 TTTG
1 TTTG
6772603 TTTGTAACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.07, G:0.23, T:0.57
Consensus pattern (18 bp):
TTTGGCTGTAATTGATTC
Found at i:6772603 original size:18 final size:18
Alignment explanation
Indices: 6772573--6772609 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6772563 TTTGGCTGTG
6772573 ATTGATTCTTTGTTTGTA
1 ATTGATTCTTTGTTTGTA
6772591 ATTGATTCTTTGTTTGTA
1 ATTGATTCTTTGTTTGTA
6772609 A
1 A
6772610 CTTTATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.19, C:0.05, G:0.16, T:0.59
Consensus pattern (18 bp):
ATTGATTCTTTGTTTGTA
Found at i:6783205 original size:2 final size:2
Alignment explanation
Indices: 6783193--6783235 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
6783183 ATAAAAATCT
*
6783193 TA TA TA CA 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
6783235 T
1 T
6783236 TAACTTTTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6785019 original size:38 final size:38
Alignment explanation
Indices: 6784968--6785045 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
6784958 AAGCAGTTGG
6784968 AAGCCATCGAAGCTCTGTACTATAGCAGCACTGCCAAT
1 AAGCCATCGAAGCTCTGTACTATAGCAGCACTGCCAAT
6785006 AAGCCATCGAAGCTCTGTACTATAGCAGCACTGCCAAT
1 AAGCCATCGAAGCTCTGTACTATAGCAGCACTGCCAAT
6785044 AA
1 AA
6785046 AGTCATAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (38 bp):
AAGCCATCGAAGCTCTGTACTATAGCAGCACTGCCAAT
Found at i:6787830 original size:2 final size:2
Alignment explanation
Indices: 6787823--6787882 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
6787813 CACTATTTAA
6787823 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
6787865 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
6787883 CAAACAAAAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6800894 original size:136 final size:138
Alignment explanation
Indices: 6800704--6800980 Score: 364
Period size: 140 Copynumber: 2.0 Consensus size: 138
6800694 TTTATCCTTG
* *
6800704 AGGATGTAATCACAATTATCTAACCAACTAACGACATGAACTAATATGTTAAAAATATTAATTAA
1 AGGATGTAATCACAATTATCTAACCAACTAACGAAATGAACTAATATGTTAAAAACATTAATTAA
*** * ** *
6800769 AAA-AACTTG-ATGAAGCGACATGAAATAAAAGTTACAAATGTGAGTAGTAGAA-GAATCAAACT
66 AAATAAAAAGCATGAAGCAACATGAAATAAAAAATACAAATATGAGTA-TAGAAGGAATCAAACT
6800831 CGAGACTTA
130 CGAGACTTA
* * *
6800840 AGGATTTAATTACAATTATCTAACCATCTAACGAAAT-AACTAATATGTTAAAAAACATTAATTA
1 AGGATGTAATCACAATTATCTAACCAACTAACGAAATGAACTAATATGTT-AAAAACATTAATTA
* *
6800904 AAAATTTAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATATGAGTATGGAAGGAATCAAA
65 AAAA--TAAAAAGCATGAAGCAACATGAAATAAAAAATACAAATATGAGTATAGAAGGAATCAAA
6800969 CTCGAGACTTA
128 CTCGAGACTTA
6800980 A
1 A
6800981 TGATAAAAAC
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
135 12 0.10
136 50 0.41
139 7 0.06
140 52 0.43
ACGTcount: A:0.49, C:0.12, G:0.13, T:0.26
Consensus pattern (138 bp):
AGGATGTAATCACAATTATCTAACCAACTAACGAAATGAACTAATATGTTAAAAACATTAATTAA
AAATAAAAAGCATGAAGCAACATGAAATAAAAAATACAAATATGAGTATAGAAGGAATCAAACTC
GAGACTTA
Found at i:6814097 original size:29 final size:28
Alignment explanation
Indices: 6814065--6814124 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
6814055 AAAATTGAAT
* * *
6814065 CAAATTAAAATGTCGTATATAAAATTACA
1 CAAATCAAAAT-TCATATACAAAATTACA
*
6814094 CAAAATCAAAATTCATATACAACATTACA
1 C-AAATCAAAATTCATATACAAAATTACA
6814123 CA
1 CA
6814125 TTTGACCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.04
29 16 0.62
30 9 0.35
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.27
Consensus pattern (28 bp):
CAAATCAAAATTCATATACAAAATTACA
Found at i:6815303 original size:18 final size:19
Alignment explanation
Indices: 6815277--6815318 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
6815267 TTTCAATATA
6815277 ATTTAATGCT-ATATCAAT
1 ATTTAATGCTGATATCAAT
* *
6815295 ATTTCATGCTGGATTTCAAT
1 ATTTAATGCT-GATATCAAT
6815315 ATTT
1 ATTT
6815319 TTATCCTGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
20 11 0.55
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.48
Consensus pattern (19 bp):
ATTTAATGCTGATATCAAT
Found at i:6815376 original size:21 final size:20
Alignment explanation
Indices: 6815335--6815376 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
6815325 TGCAAAATTT
*
6815335 AAATTTAAATAAAAATCTTA
1 AAATTTAAATAAAAATATTA
*
6815355 AAATTTAAAATAAAATTATTA
1 AAATTT-AAATAAAAATATTA
6815376 A
1 A
6815377 TTTAATACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTTAAATAAAAATATTA
Found at i:6820178 original size:13 final size:14
Alignment explanation
Indices: 6820162--6820191 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
6820152 TGCAAAATAA
6820162 ATATATAAAACA-T
1 ATATATAAAACAGT
6820175 ATATATAAAACAGT
1 ATATATAAAACAGT
6820189 ATA
1 ATA
6820192 CCTTCTGCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (14 bp):
ATATATAAAACAGT
Found at i:6822647 original size:62 final size:62
Alignment explanation
Indices: 6822333--6822649 Score: 501
Period size: 62 Copynumber: 5.1 Consensus size: 62
6822323 GAAAAGGGTT
*
6822333 TGATGTCTTTGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTACGGATTAAAGGTC
1 TGATGTCTTCGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTACGGATTAAAGGTC
*
6822395 CGATGTCCTT-GTGATATCGTGAGTATTACATGAGAAATGAATCCTATTACGGATTAAAGGTC
1 TGATGT-CTTCGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTACGGATTAAAGGTC
* * * *
6822457 CGATGTCTTCGTGATATCGTGAGTATTACATGAGAAATGAATGCTATTTCGGACTAAAGGTC
1 TGATGTCTTCGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTACGGATTAAAGGTC
** *
6822519 TGATGTCTTTTTGATATCGTGAGTATTACATGAGAAATGAATCCTATTACAGATTAAAGGTC
1 TGATGTCTTCGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTACGGATTAAAGGTC
* * * *
6822581 TGATGTCTTCGTGATATCGTGAGTATTATATGAGAAATGAATCCTATTACGAATTTAAGGTT
1 TGATGTCTTCGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTACGGATTAAAGGTC
6822643 TGATGTC
1 TGATGTC
6822650 AGAAATCTTG
Statistics
Matches: 235, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
61 3 0.01
62 229 0.97
63 3 0.01
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.35
Consensus pattern (62 bp):
TGATGTCTTCGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTACGGATTAAAGGTC
Found at i:6823477 original size:21 final size:21
Alignment explanation
Indices: 6823451--6823498 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6823441 GGAGTTTTTA
*
6823451 GTATCGAAAGAAGCA-TAACTT
1 GTATCGAAAGAAG-AGAAACTT
*
6823472 GTATCGATAGAAGAGAAACTT
1 GTATCGAAAGAAGAGAAACTT
6823493 GTATCG
1 GTATCG
6823499 GTAGAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (21 bp):
GTATCGAAAGAAGAGAAACTT
Found at i:6828958 original size:14 final size:14
Alignment explanation
Indices: 6828941--6828983 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
6828931 ATTAAATCAC
6828941 AAACCCTAAATCCT
1 AAACCCTAAATCCT
* * *
6828955 AAACCGTGAATCTT
1 AAACCCTAAATCCT
*
6828969 AAACCCAAAATCCT
1 AAACCCTAAATCCT
6828983 A
1 A
6828984 GGTCTGAACT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.44, C:0.30, G:0.05, T:0.21
Consensus pattern (14 bp):
AAACCCTAAATCCT
Found at i:6831319 original size:16 final size:16
Alignment explanation
Indices: 6831300--6831332 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6831290 GATAAATAGG
6831300 GTTGCAATGAAATAAA
1 GTTGCAATGAAATAAA
*
6831316 GTTGCAATGGAATAAA
1 GTTGCAATGAAATAAA
6831332 G
1 G
6831333 CTGTAATTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.24
Consensus pattern (16 bp):
GTTGCAATGAAATAAA
Found at i:6831593 original size:35 final size:35
Alignment explanation
Indices: 6831554--6831621 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 35
6831544 ATATAATTAT
6831554 TTTTATATTAAATTATATTAAAATATTTT-TTTTAG
1 TTTTATATTAAATTAT-TTAAAATATTTTATTTTAG
*
6831589 TTTTATATTAAATTATTTCAAATATTTTATTTT
1 TTTTATATTAAATTATTTAAAATATTTTATTTT
6831622 TATATTTATG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 11 0.35
35 20 0.65
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (35 bp):
TTTTATATTAAATTATTTAAAATATTTTATTTTAG
Found at i:6831912 original size:16 final size:17
Alignment explanation
Indices: 6831889--6831925 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6831879 ATATGTGAAT
*
6831889 TATT-TAATAT-ACAAA
1 TATTATAATATAAAAAA
6831904 TATTATAATATAAAAAA
1 TATTATAATATAAAAAA
6831921 TATTA
1 TATTA
6831926 ATTAAGGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.21
16 6 0.32
17 9 0.47
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
TATTATAATATAAAAAA
Found at i:6832520 original size:21 final size:20
Alignment explanation
Indices: 6832482--6832522 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
6832472 ATAATAATAG
*
6832482 TATTTTAATTTTAGAATATA
1 TATTTTAATTTTAAAATATA
*
6832502 TATTTTATTTTTTAAAATATA
1 TATTTTA-ATTTTAAAATATA
6832523 ATTATATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTTTAATTTTAAAATATA
Found at i:6835778 original size:2 final size:2
Alignment explanation
Indices: 6835771--6835798 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6835761 ACTAATCAAC
6835771 AT 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 AT
6835799 TGTACAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6837940 original size:20 final size:20
Alignment explanation
Indices: 6837912--6837952 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
6837902 TGAAGGTTAG
6837912 TATACACTTTAATCTTACTT
1 TATACACTTTAATCTTACTT
*
6837932 TATATACTTTAATCTTACTT
1 TATACACTTTAATCTTACTT
6837952 T
1 T
6837953 TAGTTTCGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (20 bp):
TATACACTTTAATCTTACTT
Found at i:6839100 original size:19 final size:18
Alignment explanation
Indices: 6839072--6839149 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 18
6839062 AAATCATTAC
6839072 ATATTA-AAAAAATATGAA
1 ATATTATAAAAAATAT-AA
*
6839090 A-ATTGATAAAAACTTATAA
1 ATATT-ATAAAAA-ATATAA
*
6839109 ATATTATAAAAAATTCTAA
1 ATATTATAAAAAA-TATAA
6839128 ATATTATAAAAAATATAA
1 ATATTATAAAAAATATAA
6839146 ATAT
1 ATAT
6839150 CTAATAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
17 3 0.06
18 10 0.20
19 32 0.63
20 6 0.12
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
ATATTATAAAAAATATAA
Found at i:6839162 original size:18 final size:17
Alignment explanation
Indices: 6839052--6839164 Score: 75
Period size: 18 Copynumber: 6.2 Consensus size: 17
6839042 TTTATCAAAA
* *
6839052 AAATATAAAAAAATCATT
1 AAATATTAAAAAATTA-T
* *
6839070 ACATATTAAAAAAATAT
1 AAATATTAAAAAATTAT
6839087 GAAA-ATTGATAAAAACTTAT
1 -AAATATT-A-AAAAA-TTAT
*
6839107 AAATATTATAAAAAATTCT
1 AAATA-T-TAAAAAATTAT
*
6839126 AAATATTATAAAAAATAT
1 AAATATTA-AAAAATTAT
*
6839144 AAATATCTAATAAATTAT
1 AAATAT-TAAAAAATTAT
6839162 AAA
1 AAA
6839165 AAAAAATTAT
Statistics
Matches: 75, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
17 6 0.08
18 39 0.52
19 18 0.24
20 9 0.12
21 2 0.03
22 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (17 bp):
AAATATTAAAAAATTAT
Found at i:6839206 original size:21 final size:21
Alignment explanation
Indices: 6839182--6839259 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
6839172 TATAAAAGTA
*
6839182 ATAAAACATAT-TTAAAATTTT
1 ATAAAA-ATATATTAAAATTCT
*
6839203 ATAAAAATGTATTAAAATTCT
1 ATAAAAATATATTAAAATTCT
* *
6839224 ATAAAAAT-CA-TAAAGTT-T
1 ATAAAAATATATTAAAATTCT
*
6839242 ATAAAAA-GTATTAAAATT
1 ATAAAAATATATTAAAATT
6839260 GATATAAACT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 9 0.19
19 12 0.25
20 4 0.08
21 23 0.48
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
ATAAAAATATATTAAAATTCT
Found at i:6839267 original size:21 final size:19
Alignment explanation
Indices: 6839193--6839286 Score: 77
Period size: 19 Copynumber: 4.8 Consensus size: 19
6839183 TAAAACATAT
6839193 TTAAAATTTTATAAAAATGTA
1 TTAAAA-TTTATAAAAA-GTA
6839214 TTAAAATTCTATAAAAA-TCA
1 TTAAAATT-TATAAAAAGT-A
*
6839234 -TAAAGTTTATAAAAAGTA
1 TTAAAATTTATAAAAAGTA
* * *
6839252 TTAAAATTGATATAAACT-
1 TTAAAATTTATAAAAAGTA
*
6839270 TATAAAAATTATAAAAA
1 T-TAAAATTTATAAAAA
6839287 ATTCATAAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
18 10 0.17
19 33 0.55
20 3 0.05
21 14 0.23
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.36
Consensus pattern (19 bp):
TTAAAATTTATAAAAAGTA
Found at i:6839275 original size:38 final size:39
Alignment explanation
Indices: 6839194--6839286 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 39
6839184 AAAACATATT
*
6839194 TAAAATTTTATAAAAATGTATTAAAATTCTATAAAAATCA
1 TAAAA-TTTATAAAAATGTATTAAAATTATATAAAAATCA
* * *
6839234 TAAAGTTTATAAAAA-GTATTAAAATTGATAT-AAACTTA
1 TAAAATTTATAAAAATGTATTAAAATT-ATATAAAAATCA
*
6839272 TAAAAATTATAAAAA
1 TAAAATTTATAAAAA
6839287 ATTCATAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
38 29 0.63
39 13 0.28
40 4 0.09
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.35
Consensus pattern (39 bp):
TAAAATTTATAAAAATGTATTAAAATTATATAAAAATCA
Found at i:6839283 original size:9 final size:9
Alignment explanation
Indices: 6839074--6839297 Score: 102
Period size: 9 Copynumber: 24.1 Consensus size: 9
6839064 ATCATTACAT
6839074 ATTA-AAAA
1 ATTATAAAA
* *
6839082 AATATGAAA
1 ATTATAAAA
6839091 ATTGATAAAA
1 ATT-ATAAAA
*
6839101 ACTTATAAAT
1 A-TTATAAAA
6839111 ATTATAAAAA
1 ATTAT-AAAA
* *
6839121 ATTCTAAAT
1 ATTATAAAA
6839130 ATTATAAAA
1 ATTATAAAA
* *
6839139 AATATAAAT
1 ATTATAAAA
*
6839148 ATCTA-ATAA
1 AT-TATAAAA
6839157 ATTAT--AA
1 ATTATAAAA
6839164 A--A-AAAA
1 ATTATAAAA
6839170 ATTATAAAA
1 ATTATAAAA
* *
6839179 GTAATAAAA
1 ATTATAAAA
*
6839188 CATATTTAAAA
1 -AT-TATAAAA
*
6839199 TTTTATAAAA
1 -ATTATAAAA
6839209 ATGTATTAAAA
1 AT-TA-TAAAA
*
6839220 TTCTATAAAA
1 AT-TATAAAA
* *
6839230 ATCATAAAG
1 ATTATAAAA
*
6839239 TTTATAAAA
1 ATTATAAAA
* *
6839248 AGTATTAAA
1 ATTATAAAA
6839257 ATTGATATAAA
1 ATT-ATA-AAA
*
6839268 CTTATAAAA
1 ATTATAAAA
6839277 ATTATAAAAA
1 ATTAT-AAAA
6839287 ATTCATAAAA
1 ATT-ATAAAA
6839297 A
1 A
6839298 CTTGAACTGG
Statistics
Matches: 158, Mismatches: 39, Indels: 36
0.68 0.17 0.15
Matches are distributed among these distances:
5 1 0.01
6 3 0.02
7 3 0.02
8 6 0.04
9 69 0.44
10 53 0.34
11 23 0.15
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (9 bp):
ATTATAAAA
Found at i:6839804 original size:15 final size:16
Alignment explanation
Indices: 6839784--6839814 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6839774 GTTAATATCA
6839784 ATTTT-AATATTTTTT
1 ATTTTAAATATTTTTT
6839799 ATTTTAAATATTTTTT
1 ATTTTAAATATTTTTT
6839815 TAAGAATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTTAAATATTTTTT
Found at i:6839840 original size:18 final size:19
Alignment explanation
Indices: 6839805--6839844 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
6839795 TTTTATTTTA
6839805 AATATTTTTTTAAGAATTCT
1 AATATTTTTTT-AGAATTCT
*
6839825 AATATTTTTTT-TAATTCT
1 AATATTTTTTTAGAATTCT
6839843 AA
1 AA
6839845 ACATTTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
20 11 0.58
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (19 bp):
AATATTTTTTTAGAATTCT
Found at i:6839919 original size:17 final size:17
Alignment explanation
Indices: 6839897--6839933 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6839887 TTAGGATTTT
6839897 TTTATA-TTTTTATAATA
1 TTTATACTTTTTATAA-A
6839914 TTTATACTTTTTATAAA
1 TTTATACTTTTTATAAA
6839931 TTT
1 TTT
6839934 GATAAGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTATACTTTTTATAAA
Found at i:6840749 original size:23 final size:23
Alignment explanation
Indices: 6840705--6840749 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6840695 ACATTATTCG
* *
6840705 TGAACATGTTCGATTAAGTTAAT
1 TGAACATGTTCGATGAAATTAAT
6840728 TGAACATGTTC-ATGAATATTAA
1 TGAACATGTTCGATGAA-ATTAA
6840750 ACAAACGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAT
Found at i:6851911 original size:17 final size:16
Alignment explanation
Indices: 6851885--6851926 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
6851875 TATTTTTCAG
*
6851885 ATTTGTTATTTCTGTT
1 ATTTGTTATTACTGTT
6851901 ATTTAGTTATTACTGTT
1 ATTT-GTTATTACTGTT
6851918 AGTTTGTTA
1 A-TTTGTTA
6851927 ATTAGAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 16 0.70
18 3 0.13
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.62
Consensus pattern (16 bp):
ATTTGTTATTACTGTT
Found at i:6856395 original size:17 final size:16
Alignment explanation
Indices: 6856369--6856410 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
6856359 TATTTTCCAG
*
6856369 ATTTGTTATTTCTGTT
1 ATTTGTTATTACTGTT
6856385 ATTTAGTTATTACTGTT
1 ATTT-GTTATTACTGTT
6856402 AGTTTGTTA
1 A-TTTGTTA
6856411 ATTAGAGTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 16 0.70
18 3 0.13
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.62
Consensus pattern (16 bp):
ATTTGTTATTACTGTT
Found at i:6857171 original size:17 final size:17
Alignment explanation
Indices: 6857149--6857184 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
6857139 AACCAATATA
6857149 TTTACAACATTCATTTT
1 TTTACAACATTCATTTT
* *
6857166 TTTACAATATTTATTTT
1 TTTACAACATTCATTTT
6857183 TT
1 TT
6857185 CTTTAAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTACAACATTCATTTT
Found at i:6857851 original size:19 final size:18
Alignment explanation
Indices: 6857827--6857869 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
6857817 ATACTATATG
6857827 TAAATATAAAATAGAAAAA
1 TAAATATAAAATA-AAAAA
* *
6857846 TAAATATAAGATAAATAA
1 TAAATATAAAATAAAAAA
6857864 TAAATA
1 TAAATA
6857870 AAAGGTCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
TAAATATAAAATAAAAAA
Found at i:6861781 original size:21 final size:22
Alignment explanation
Indices: 6861755--6861805 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
6861745 TTTAAGTTAC
*
6861755 TTAATATATAATAAATAA-ATT
1 TTAATATATAATAAATAATAAT
*
6861776 TTAATATTTAATAAATAATAAT
1 TTAATATATAATAAATAATAAT
6861798 TTAATATA
1 TTAATATA
6861806 ATTGAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAATATATAATAAATAATAAT
Found at i:6869339 original size:1 final size:1
Alignment explanation
Indices: 6869335--6869369 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
6869325 TTTTGTGTTT
*
6869335 CCCCCCCCCCCCGCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
6869370 TTTAACAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.97, G:0.03, T:0.00
Consensus pattern (1 bp):
C
Found at i:6872023 original size:26 final size:24
Alignment explanation
Indices: 6871993--6872049 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
6871983 TTATATTTGT
6871993 AATTTAATCTTATTTTTAT-TTTTAAG
1 AATTTAATC-T-TTTTTATCTTTT-AG
*
6872019 AATTTGATCTTTTTTATCTTTTAG
1 AATTTAATCTTTTTTATCTTTTAG
*
6872043 ATTTTAA
1 AATTTAA
6872050 AATGCATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 14 0.52
25 5 0.19
26 8 0.30
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.61
Consensus pattern (24 bp):
AATTTAATCTTTTTTATCTTTTAG
Found at i:6877042 original size:29 final size:28
Alignment explanation
Indices: 6876949--6877086 Score: 104
Period size: 29 Copynumber: 4.8 Consensus size: 28
6876939 TTTGGTGAAA
* * *
6876949 TCGGGATTAAAAATAGAATTTTAGAAAGT
1 TCGGGGTT-AAAATGGAATTTTGGAAAGT
*
6876978 TCGGGCG-TAAAATGGTAATTTTTGGTAAA-A
1 TCGGG-GTTAAAATGG-AA-TTTTGG-AAAGT
6877008 TCGGGGTTAAAAATGGAATTTTGGAAAGT
1 TCGGGGTT-AAAATGGAATTTTGGAAAGT
*
6877037 TCGGGGGT-AAATGGTAATTTTTGG-AAGTT
1 TCGGGGTTAAAATGG-AA-TTTTGGAAAG-T
* *
6877066 TTGGGGTTAAAATGTAATTTT
1 TCGGGGTTAAAATGGAATTTT
6877087 TTGAAGTTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
27 6 0.07
28 18 0.20
29 37 0.42
30 18 0.20
31 10 0.11
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.36
Consensus pattern (28 bp):
TCGGGGTTAAAATGGAATTTTGGAAAGT
Found at i:6877077 original size:58 final size:59
Alignment explanation
Indices: 6876929--6877060 Score: 205
Period size: 59 Copynumber: 2.3 Consensus size: 59
6876919 ACCCAGGGGC
* * *
6876929 AAATGGTAA-TTTTGGTGAAATCGGGATTAAAAATAGAATTTTAGAAAGTTCGGGCGTA
1 AAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGCGTA
* *
6876987 AAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT-
1 AAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGCGTA
6877045 AAATGGTAATTTTTGG
1 AAATGGTAATTTTTGG
6877061 AAGTTTTGGG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
58 25 0.37
59 43 0.63
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (59 bp):
AAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTCGGGCGTA
Found at i:6877087 original size:29 final size:29
Alignment explanation
Indices: 6877010--6877124 Score: 119
Period size: 29 Copynumber: 3.9 Consensus size: 29
6877000 TGGTAAAATC
* *
6877010 GGGGTTAAAAATGGAA-TTTTGGAAAG-TTC
1 GGGGTT-AAAATGTAATTTTTGG-AAGTTTT
*
6877039 GGGGGT-AAATGGTAATTTTTGGAAGTTTT
1 GGGGTTAAAAT-GTAATTTTTGGAAGTTTT
*
6877068 GGGGTTAAAATGTAATTTTTTGAAGTTTT
1 GGGGTTAAAATGTAATTTTTGGAAGTTTT
* *
6877097 AGGGTTAAAATATAATTTTTGGACAGTT
1 GGGGTTAAAATGTAATTTTTGGA-AGTT
6877125 CAGGGACCTA
Statistics
Matches: 73, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
27 4 0.05
28 6 0.08
29 55 0.75
30 8 0.11
ACGTcount: A:0.30, C:0.02, G:0.28, T:0.40
Consensus pattern (29 bp):
GGGGTTAAAATGTAATTTTTGGAAGTTTT
Found at i:6877641 original size:8 final size:8
Alignment explanation
Indices: 6877606--6877644 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
6877596 AAAACCCCCA
6877606 CTCTCTTT
1 CTCTCTTT
6877614 -T-TCTTT
1 CTCTCTTT
*
6877620 CTCTCCTT
1 CTCTCTTT
6877628 CTCTCTTT
1 CTCTCTTT
6877636 CTCTCTTT
1 CTCTCTTT
6877644 C
1 C
6877645 ATGTTCGGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 5 0.19
7 2 0.07
8 20 0.74
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (8 bp):
CTCTCTTT
Found at i:6878281 original size:2 final size:2
Alignment explanation
Indices: 6878274--6878299 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6878264 TTTAAGAAAT
6878274 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
6878300 ATACATTCTG
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):
TA
Found at i:6879002 original size:18 final size:17
Alignment explanation
Indices: 6878970--6879091 Score: 138
Period size: 17 Copynumber: 7.0 Consensus size: 17
6878960 TGAACTCAAT
* *
6878970 TTTATAATAATTTTAAA
1 TTTAAAATAAATTTAAA
*
6878987 TTTGAAAACAAATTTAAA
1 TTT-AAAATAAATTTAAA
* *
6879005 CTTAAATTAAATTTAAA
1 TTTAAAATAAATTTAAA
6879022 TTTAAAAATAAATTTAAA
1 TTT-AAAATAAATTTAAA
6879040 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
*
6879057 CTTTAAAACAAATTT-AA
1 -TTTAAAATAAATTTAAA
*
6879074 TCTTAAGATAAATTTAAA
1 T-TTAAAATAAATTTAAA
6879092 ATGGGTTTGG
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
16 1 0.01
17 44 0.49
18 44 0.49
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (17 bp):
TTTAAAATAAATTTAAA
Found at i:6879018 original size:17 final size:17
Alignment explanation
Indices: 6878975--6879091 Score: 126
Period size: 18 Copynumber: 6.7 Consensus size: 17
6878965 TCAATTTTAT
* *
6878975 AATAATTTTAAATTTGAA
1 AATAAATTTAAACTT-AA
*
6878993 AACAAATTTAAACTTAA
1 AATAAATTTAAACTTAA
* *
6879010 ATTAAATTTAAATTTAAA
1 AATAAATTTAAACTT-AA
*
6879028 AATAAATTTAAATTTAA
1 AATAAATTTAAACTTAA
6879045 AATAAATTTAAACTTTAA
1 AATAAATTTAAAC-TTAA
* *
6879063 AACAAATTTAATCTTAA
1 AATAAATTTAAACTTAA
*
6879080 GATAAATTTAAA
1 AATAAATTTAAA
6879092 ATGGGTTTGG
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
17 41 0.49
18 43 0.51
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (17 bp):
AATAAATTTAAACTTAA
Found at i:6879021 original size:35 final size:33
Alignment explanation
Indices: 6878975--6879091 Score: 144
Period size: 35 Copynumber: 3.4 Consensus size: 33
6878965 TCAATTTTAT
*
6878975 AATAATTTTAAATTTGAAAACAAATTTAAACTTA
1 AATAAATTTAAATTT-AAAACAAATTTAAACTTA
* *
6879009 AATTAAATTTAAATTTAAAAATAAATTTAAATTTAA
1 AA-TAAATTTAAATTT-AAAACAAATTTAAACTT-A
*
6879045 AATAAATTTAAACTTTAAAACAAATTTAATCTTA
1 AATAAATTTAAA-TTTAAAACAAATTTAAACTTA
6879079 AGATAAATTTAAA
1 A-ATAAATTTAAA
6879092 ATGGGTTTGG
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
34 4 0.06
35 62 0.86
36 6 0.08
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (33 bp):
AATAAATTTAAATTTAAAACAAATTTAAACTTA
Found at i:6879061 original size:7 final size:6
Alignment explanation
Indices: 6878996--6879063 Score: 77
Period size: 6 Copynumber: 11.5 Consensus size: 6
6878986 ATTTGAAAAC
* **
6878996 AAATTT AAACTT AAA-TT AAATTT AAATTT AAAAAT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
*
6879043 AAA-AT AAATTT AAACTTT AAA
1 AAATTT AAATTT AAA-TTT AAA
6879064 ACAAATTTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
5 9 0.17
6 37 0.71
7 6 0.12
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (6 bp):
AAATTT
Found at i:6879531 original size:24 final size:24
Alignment explanation
Indices: 6879498--6879549 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
6879488 TTCTTTTCTA
6879498 TTTTTTAAT-AAATGATCCAATAT
1 TTTTTTAATAAAATGATCCAATAT
*
6879521 TTTTTTGAATAAAATGATCTAATAT
1 TTTTTT-AATAAAATGATCCAATAT
6879546 TTTT
1 TTTT
6879550 ACTTTTTGCG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 6 0.23
24 3 0.12
25 17 0.65
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (24 bp):
TTTTTTAATAAAATGATCCAATAT
Found at i:6880333 original size:3 final size:3
Alignment explanation
Indices: 6880325--6880392 Score: 68
Period size: 3 Copynumber: 23.3 Consensus size: 3
6880315 AGAACTTTTC
* * * *
6880325 TCT TCT TCT TCT TCT TCT TC- TCC TCC TCT TCT TCT TTT TGT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
6880372 TC- TCT GCT TCT TCT TTT TCT T
1 TCT TCT TCT TCT TCT TCT TCT T
6880393 TTACTATCCA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 4 0.07
3 51 0.93
ACGTcount: A:0.00, C:0.32, G:0.03, T:0.65
Consensus pattern (3 bp):
TCT
Done.