Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 72 of 79
Found at i:23896785 original size:31 final size:31
Alignment explanation
Indices: 23896648--23896785 Score: 113
Period size: 30 Copynumber: 4.5 Consensus size: 31
23896638 CGTGAGGGGT
* * * * *
23896648 CTAATTAAAATTTTCAAGATTTTGAGAGG-C
1 CTAATTAAAATTTTTAAAATTTTAAAAGGAA
* *
23896678 CTAA-TAAGAA-TTTTAAAATTTTATGAAGGAT
1 CTAATTAA-AATTTTTAAAATTTTA-AAAGGAA
* *
23896709 CTAATTATAATTTTTAAAATTTTGAAA-GAA
1 CTAATTAAAATTTTTAAAATTTTAAAAGGAA
* * * *
23896739 TTGATGAGAATTTTTAAAATTTTAAAAGGAA
1 CTAATTAAAATTTTTAAAATTTTAAAAGGAA
23896770 CTAATTAAAATTTTTA
1 CTAATTAAAATTTTTA
23896786 GAACTTTTGG
Statistics
Matches: 83, Mismatches: 19, Indels: 11
0.73 0.17 0.10
Matches are distributed among these distances:
29 13 0.16
30 33 0.40
31 23 0.28
32 14 0.17
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.41
Consensus pattern (31 bp):
CTAATTAAAATTTTTAAAATTTTAAAAGGAA
Found at i:23896814 original size:62 final size:62
Alignment explanation
Indices: 23896648--23896794 Score: 163
Period size: 61 Copynumber: 2.4 Consensus size: 62
23896638 CGTGAGGGGT
* * * *** * * *
23896648 CTAATTAAAATTTTCAAGATTTTGAGAGGCCTAATAAGAA-TTTTAAAATTTTATGAAGGAT
1 CTAATTAAAATTTTTAAAATTTTGAAAGAATTAATGAGAATTTTTAAAATTTTATAAAGGAA
* *
23896709 CTAATTATAATTTTTAAAATTTTGAAAGAATTGATGAGAATTTTTAAAATTTTA-AAAGGAA
1 CTAATTAAAATTTTTAAAATTTTGAAAGAATTAATGAGAATTTTTAAAATTTTATAAAGGAA
*
23896770 CTAATTAAAATTTTTAGAACTTTTG
1 CTAATTAAAATTTTTA-AAATTTTG
23896795 GGGAGCTTAA
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
61 51 0.72
62 20 0.28
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.41
Consensus pattern (62 bp):
CTAATTAAAATTTTTAAAATTTTGAAAGAATTAATGAGAATTTTTAAAATTTTATAAAGGAA
Found at i:23897476 original size:2 final size:2
Alignment explanation
Indices: 23897471--23897497 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23897461 TTAGTGCATT
23897471 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 T
23897498 TGCAATCCTC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23900744 original size:8 final size:8
Alignment explanation
Indices: 23900709--23900746 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
23900699 CAAAATATAT
*
23900709 AAATATTA
1 AAATTTTA
23900717 AAA-TTTA
1 AAATTTTA
*
23900724 AATTTTTA
1 AAATTTTA
23900732 AAATTTTA
1 AAATTTTA
23900740 AAATTTT
1 AAATTTT
23900747 TGAAAATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 5 0.19
8 21 0.81
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AAATTTTA
Found at i:23902770 original size:21 final size:21
Alignment explanation
Indices: 23902731--23902770 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
23902721 GTTAAATAAC
*
23902731 TTTAAATAAATTTTCTTTTTT
1 TTTAAATAAATATTCTTTTTT
23902752 TTTAAATAAAATATT-TTTT
1 TTTAAAT-AAATATTCTTTT
23902771 GAAATATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTAAATAAATATTCTTTTTT
Found at i:23902842 original size:25 final size:27
Alignment explanation
Indices: 23902798--23902853 Score: 73
Period size: 25 Copynumber: 2.1 Consensus size: 27
23902788 TAATAGTGAT
*
23902798 TTTAAAATTTTTTATATTT-AAATT-A
1 TTTAAAATTTTATATATTTAAAATTAA
23902823 TTTAAAATTATTATAT-TTTAAAATTAA
1 TTTAAAATT-TTATATATTTAAAATTAA
23902850 TTTA
1 TTTA
23902854 TATTTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 12 0.44
26 10 0.37
27 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTAAAATTTTATATATTTAAAATTAA
Found at i:23902844 original size:16 final size:18
Alignment explanation
Indices: 23902823--23902858 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
23902813 ATTTAAATTA
23902823 TTTAAAATT-A-TTATAT
1 TTTAAAATTAATTTATAT
23902839 TTTAAAATTAATTTATAT
1 TTTAAAATTAATTTATAT
23902857 TT
1 TT
23902859 ATATTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 1 0.06
18 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAAAATTAATTTATAT
Found at i:23912987 original size:20 final size:20
Alignment explanation
Indices: 23912964--23913002 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23912954 TTTTAAAATA
23912964 ATTTACTTT-TTTTTCTTTTT
1 ATTT-CTTTATTTTTCTTTTT
23912984 ATTTCTTTATTTTTCTTTT
1 ATTTCTTTATTTTTCTTTT
23913003 CTTCTTCGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (20 bp):
ATTTCTTTATTTTTCTTTTT
Found at i:23915187 original size:15 final size:16
Alignment explanation
Indices: 23915164--23915199 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
23915154 CAAATTAAAA
23915164 AATTATAATT-ATTTT
1 AATTATAATTAATTTT
*
23915179 AATTTTAATTAATTTT
1 AATTATAATTAATTTT
23915195 AATTA
1 AATTA
23915200 ATTATAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTATAATTAATTTT
Found at i:23915192 original size:10 final size:10
Alignment explanation
Indices: 23915177--23915207 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
23915167 TATAATTATT
23915177 TTAATTTTAA
1 TTAATTTTAA
23915187 TTAATTTTAA
1 TTAATTTTAA
*
23915197 TTAATTATAA
1 TTAATTTTAA
23915207 T
1 T
23915208 ATTAAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTAATTTTAA
Found at i:23915403 original size:16 final size:16
Alignment explanation
Indices: 23915382--23915424 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
23915372 TTCGCTGTAT
23915382 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
23915398 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
23915414 TAGAATAGAGG
1 TGGAATAGAGG
23915425 TGTACAGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.40, C:0.05, G:0.37, T:0.19
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:23915440 original size:69 final size:69
Alignment explanation
Indices: 23915359--23915497 Score: 215
Period size: 69 Copynumber: 2.0 Consensus size: 69
23915349 CAGGAAACTA
* * *
23915359 ACAGCACGTTTGGTTCGCTGTATTGGAATAGAGGCGTAATGGAATAGAGGCGTAATAGAATAGAG
1 ACAGCACATTTGGTTCGCTGTATTGGAATAGAGGCATAATGGAATAGAGGCGTAATAGAATAAAG
23915424 GTGT
66 GTGT
* * * *
23915428 ACAGCACATTTGGTTCGTTGTATTGGATTAGAGGCATAATGGAATAGAGGTGTAATGGAATAAAG
1 ACAGCACATTTGGTTCGCTGTATTGGAATAGAGGCATAATGGAATAGAGGCGTAATAGAATAAAG
23915493 GTGT
66 GTGT
23915497 A
1 A
23915498 ATAGCAAATC
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.28
Consensus pattern (69 bp):
ACAGCACATTTGGTTCGCTGTATTGGAATAGAGGCATAATGGAATAGAGGCGTAATAGAATAAAG
GTGT
Found at i:23915475 original size:16 final size:16
Alignment explanation
Indices: 23915451--23915489 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
23915441 TTCGTTGTAT
*
23915451 TGGATTAGAGGCATAA
1 TGGAATAGAGGCATAA
**
23915467 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCATAA
23915483 TGGAATA
1 TGGAATA
23915490 AAGGTGTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.03, G:0.33, T:0.26
Consensus pattern (16 bp):
TGGAATAGAGGCATAA
Found at i:23915494 original size:16 final size:16
Alignment explanation
Indices: 23915464--23915499 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
23915454 ATTAGAGGCA
*
23915464 TAATGGAATAGAGGTG
1 TAATGGAATAAAGGTG
23915480 TAATGGAATAAAGGTG
1 TAATGGAATAAAGGTG
23915496 TAAT
1 TAAT
23915500 AGCAAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.28
Consensus pattern (16 bp):
TAATGGAATAAAGGTG
Found at i:23915818 original size:91 final size:91
Alignment explanation
Indices: 23915663--23916347 Score: 1343
Period size: 91 Copynumber: 7.5 Consensus size: 91
23915653 TTATTGTTAT
23915663 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
1 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
23915728 ATATTAAATATAATTTAATAATGATA
66 ATATTAAATATAATTTAATAATGATA
23915754 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
1 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
23915819 ATATTAAATATAATTTAATAATGATA
66 ATATTAAATATAATTTAATAATGATA
23915845 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
1 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
23915910 ATATTAAATATAATTTAATAATGATA
66 ATATTAAATATAATTTAATAATGATA
23915936 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
1 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
23916001 ATATTAAATATAATTTAATAATGATA
66 ATATTAAATATAATTTAATAATGATA
23916027 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
1 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
23916092 ATATTAAATATAATTTAATAATGATA
66 ATATTAAATATAATTTAATAATGATA
23916118 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
1 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
23916183 ATATTAAATATAATTTAATAATGATA
66 ATATTAAATATAATTTAATAATGATA
23916209 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
1 TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
23916274 ATATTAAATATAATTTAATAATGATA
66 ATATTAAATATAATTTAATAATGATA
* *
23916300 TATAATTTCATAAAATTCTTAATAATAAAATCTTCTTATATGAATTTA
1 TATAATTTCATAAAATTCTTGATAAT-AAATTTTCTTATATGAATTTA
23916348 CTAAAATCAA
Statistics
Matches: 591, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
91 571 0.97
92 20 0.03
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (91 bp):
TATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTA
ATATTAAATATAATTTAATAATGATA
Found at i:23925286 original size:10 final size:10
Alignment explanation
Indices: 23925271--23925303 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
23925261 ATTTTTTTAC
23925271 AATTTCTTTG
1 AATTTCTTTG
23925281 AATTTCTTTG
1 AATTTCTTTG
23925291 AATTT-TTT-
1 AATTTCTTTG
23925299 AATTT
1 AATTT
23925304 AAGTTCTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 5 0.22
9 3 0.13
10 15 0.65
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (10 bp):
AATTTCTTTG
Found at i:23925853 original size:23 final size:23
Alignment explanation
Indices: 23925814--23925876 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
23925804 TGTACTGACT
23925814 AACAAATCAAGAACAATTTCCAG
1 AACAAATCAAGAACAATTTCCAG
23925837 CAGAC-AATCAA-AACAATTTCCAG
1 -A-ACAAATCAAGAACAATTTCCAG
*
23925860 AACAAATCAATAACAAT
1 AACAAATCAAGAACAAT
23925877 ATCAAAACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
21 2 0.06
22 7 0.19
23 18 0.50
24 7 0.19
25 2 0.06
ACGTcount: A:0.54, C:0.22, G:0.06, T:0.17
Consensus pattern (23 bp):
AACAAATCAAGAACAATTTCCAG
Found at i:23925885 original size:22 final size:22
Alignment explanation
Indices: 23925814--23925888 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 22
23925804 TGTACTGACT
*
23925814 AACAAATCAAGAACAATTTCCAGCA
1 AACAAATCAA-AACAATATCCA--A
* * *
23925839 GAC-AATCAAAACAATTTCCAG
1 AACAAATCAAAACAATATCCAA
23925860 AACAAATCAATAACAATAT-CAA
1 AACAAATCAA-AACAATATCCAA
23925882 AACAAAT
1 AACAAAT
23925889 TGCAACAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
21 2 0.05
22 15 0.35
23 18 0.42
24 6 0.14
25 2 0.05
ACGTcount: A:0.56, C:0.21, G:0.05, T:0.17
Consensus pattern (22 bp):
AACAAATCAAAACAATATCCAA
Found at i:23929518 original size:16 final size:16
Alignment explanation
Indices: 23929494--23929527 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23929484 TTCTGACCTA
*
23929494 TTCTAAACATGAGTTG
1 TTCTAAACATAAGTTG
*
23929510 TTCTGAACATAAGTTG
1 TTCTAAACATAAGTTG
23929526 TT
1 TT
23929528 TTACGGTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (16 bp):
TTCTAAACATAAGTTG
Found at i:23932504 original size:16 final size:16
Alignment explanation
Indices: 23932483--23932513 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23932473 CAAGAGCAGA
23932483 GAGGGAGAGAGAGAGG
1 GAGGGAGAGAGAGAGG
*
23932499 GAGGGAGGGAGAGAG
1 GAGGGAGAGAGAGAG
23932514 CATACCGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (16 bp):
GAGGGAGAGAGAGAGG
Found at i:23935495 original size:2 final size:2
Alignment explanation
Indices: 23935488--23935520 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23935478 CAAATTTATG
23935488 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 A
23935521 NNNNNNNNNN
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23940667 original size:14 final size:15
Alignment explanation
Indices: 23940631--23940671 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
23940621 GAATATTTAC
23940631 ATAAAAATTAAACTAA
1 ATAAAAA-TAAACTAA
*
23940647 GTAAAAATAAA-TAA
1 ATAAAAATAAACTAA
23940661 ATAAAAATAAA
1 ATAAAAATAAA
23940672 ACTTTACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 13 0.57
15 4 0.17
16 6 0.26
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (15 bp):
ATAAAAATAAACTAA
Found at i:23941559 original size:6 final size:6
Alignment explanation
Indices: 23941548--23941574 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23941538 GCTTCCCAAA
23941548 TCCCTT TCCCTT TCCCTT TCCCTT TCC
1 TCCCTT TCCCTT TCCCTT TCCCTT TCC
23941575 ATCTTTCTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (6 bp):
TCCCTT
Found at i:23945290 original size:217 final size:217
Alignment explanation
Indices: 23944933--23945366 Score: 859
Period size: 217 Copynumber: 2.0 Consensus size: 217
23944923 ATGGAGAAGG
23944933 GAGAAAAACAGAGGGAGAAGCAAAAGAGAATGGAAAATAAAAAAAAGAAGTTAAAAGAACATAAA
1 GAGAAAAACAGAGGGAGAAGCAAAAGAGAATGGAAAATAAAAAAAAGAAGTTAAAAGAACATAAA
23944998 AGAAAAAAAAGTTAAATTGCTCAAAATGAAAAAATATAGGTGCCAATTGTTTAATTTAACCTAAA
66 AGAAAAAAAAGTTAAATTGCTCAAAATGAAAAAATATAGGTGCCAATTGTTTAATTTAACCTAAA
23945063 ATTTTTGTTTGAAATGATGATTTAACATGTCAGGTAAACAAAAATGACTATTTTGACAATTTACC
131 ATTTTTGTTTGAAATGATGATTTAACATGTCAGGTAAACAAAAATGACTATTTTGACAATTTACC
*
23945128 CAAATAAAAAACATAAATAACT
196 CAAATAAAAAAAATAAATAACT
23945150 GAGAAAAACAGAGGGAGAAGCAAAAGAGAATGGAAAATAAAAAAAAGAAGTTAAAAGAACATAAA
1 GAGAAAAACAGAGGGAGAAGCAAAAGAGAATGGAAAATAAAAAAAAGAAGTTAAAAGAACATAAA
23945215 AGAAAAAAAAGTTAAATTGCTCAAAATGAAAAAATATAGGTGCCAATTGTTTAATTTAACCTAAA
66 AGAAAAAAAAGTTAAATTGCTCAAAATGAAAAAATATAGGTGCCAATTGTTTAATTTAACCTAAA
23945280 ATTTTTGTTTGAAATGATGATTTAACATGTCAGGTAAACAAAAATGACTATTTTGACAATTTACC
131 ATTTTTGTTTGAAATGATGATTTAACATGTCAGGTAAACAAAAATGACTATTTTGACAATTTACC
23945345 CAAATAAAAAAAATAAATAACT
196 CAAATAAAAAAAATAAATAACT
23945367 CTTATATAAT
Statistics
Matches: 216, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
217 216 1.00
ACGTcount: A:0.53, C:0.09, G:0.15, T:0.24
Consensus pattern (217 bp):
GAGAAAAACAGAGGGAGAAGCAAAAGAGAATGGAAAATAAAAAAAAGAAGTTAAAAGAACATAAA
AGAAAAAAAAGTTAAATTGCTCAAAATGAAAAAATATAGGTGCCAATTGTTTAATTTAACCTAAA
ATTTTTGTTTGAAATGATGATTTAACATGTCAGGTAAACAAAAATGACTATTTTGACAATTTACC
CAAATAAAAAAAATAAATAACT
Found at i:23950196 original size:44 final size:44
Alignment explanation
Indices: 23950103--23950214 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 44
23950093 CGACTTTAAT
* * * * * *
23950103 CTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCCATCTTCGAT
1 CTGCTCCACTACAA-CTTAGGGAGATAAGATCTGCAATCTTCAAC
* * * *
23950148 CTGCTCTACTACTACTTAGGGAGATAAGATCTGTAATTTTCAAC
1 CTGCTCCACTACAACTTAGGGAGATAAGATCTGCAATCTTCAAC
*
23950192 CTGCTCCACTGCAACTTAGGGAG
1 CTGCTCCACTACAACTTAGGGAG
23950215 GCAAGGCTGG
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
44 43 0.80
45 11 0.20
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (44 bp):
CTGCTCCACTACAACTTAGGGAGATAAGATCTGCAATCTTCAAC
Found at i:23951214 original size:88 final size:88
Alignment explanation
Indices: 23950173--23951214 Score: 1110
Period size: 88 Copynumber: 11.9 Consensus size: 88
23950163 TTAGGGAGAT
* * ** * *
23950173 AAGATCTG-TAATTTTCAACCTGCTCCACTGCAACTTAGGGAGGCAAGGCTGGTGTCTTCAATCT
1 AAGATCTGCT-ATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* * * *
23950237 GCTTCACTGT-TAGTATAGGAAGGT
65 GCTTCGCTGTCGA-TGTAGGAAGGC
* * * * * * * *
23950261 AAGATCTGCTATCTTTAACCTGCTCCGCTACCACCGAGGGAGGTAAGGCTAGTTTCTTCAATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* * *
23950326 CTTCACTGTC-A-GTACAAGAAGGT
66 CTTCGCTGTCGATGT--AGGAAGGC
* * * * ** * *
23950349 AAAATCTGCTATC-TCTAACCTGCTCCGCTGCCACTGAGGGAGGCAAGGCTAGTGTCTTCGATCT
1 AAGATCTGCTATCTTC-AACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCT
* * * * * * **
23950413 ACTCCACT-ACTACT-TAGGGAGAT
65 GCTTCGCTGTCGA-TGTAGGAAGGC
* * * * * * * *
23950436 AAGATCTGCAATTTTCAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTTGATCTA
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* * * **
23950501 CTTTGCTATCGGTACAGGAAGGC
66 CTTCGCTGTCGATGTAGGAAGGC
* * * * * * *
23950524 AAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTA
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* *
23950589 CTTCGCTGT-TAGTATAGGAAGGC
66 CTTCGCTGTCGA-TGTAGGAAGGC
* * * *
23950612 AAGATCTGCTATCTTCAACCTGCTCCACTACGACCTAGGGAGGCAAAGCTGGTATCTTCTATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* * ** *
23950677 CTTCACTGTCGGTACAGGAAGGT
66 CTTCGCTGTCGATGTAGGAAGGC
* * * *
23950700 AAGATCTGCTATCTTTAACCTGCTCTACTAAAACCCAGAGAGGCAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* * *
23950765 CTTCGCTCTCGATGAATGAAGGC
66 CTTCGCTGTCGATGTAGGAAGGC
* * * * *
23950788 AAGATCTGCTATCTTCAACTTGTTCCACTACAACCAAAGGAGGCAAGGCTGGTATCTTCGATTTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* *
23950853 CTTCACTGTCGGTGTAGGAAGGC
66 CTTCGCTGTCGATGTAGGAAGGC
*
23950876 AAAATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
* *
23950941 CTTTGCTGTCGATGCAGGAAGGC
66 CTTCGCTGTCGATGTAGGAAGGC
*
23950964 AAGATCTGCTATCTTCAACCTGCTACACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
*
23951029 CTTCGCTGTCGATGCAGGAAGGC
66 CTTCGCTGTCGATGTAGGAAGGC
* * * *
23951052 AAGATCTGTTATCTTCAACCTGCTCCACTACAACCGAGAGAGGCAAGGCTGATATCTTCGATCTG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
23951117 CTTCGCTGTCGATGTAGGAAGGC
66 CTTCGCTGTCGATGTAGGAAGGC
* * *
23951140 AAGATCTGTTATCTTCAACCTGCTCCACTACAACCCAGGGAGACAAGGCTGGTATCTTCGATCAG
1 AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
*
23951205 CTACGCTGTC
66 CTTCGCTGTC
23951215 TGAGGAACAT
Statistics
Matches: 821, Mismatches: 120, Indels: 26
0.85 0.12 0.03
Matches are distributed among these distances:
86 1 0.00
87 67 0.08
88 751 0.91
89 2 0.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.27
Consensus pattern (88 bp):
AAGATCTGCTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTG
CTTCGCTGTCGATGTAGGAAGGC
Found at i:23962263 original size:3 final size:3
Alignment explanation
Indices: 23962257--23962347 Score: 128
Period size: 3 Copynumber: 30.3 Consensus size: 3
23962247 GACGATGATG
* * * * * *
23962257 ATA ATA ACA ATA ACA ATA ATA ATA ATG ATG ATG ATG ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23962305 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23962348 AGAAGTAGGT
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:23962746 original size:23 final size:23
Alignment explanation
Indices: 23962720--23962763 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
23962710 TAAATATTAT
23962720 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* * *
23962743 TTTATTATTCTTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
23962764 AAATGGTAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:23965889 original size:17 final size:17
Alignment explanation
Indices: 23965867--23965899 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23965857 CATATATATC
23965867 ATTAAATATTAAACATT
1 ATTAAATATTAAACATT
23965884 ATTAAATATTAAACAT
1 ATTAAATATTAAACAT
23965900 GCATATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTAAATATTAAACATT
Found at i:23966127 original size:3 final size:3
Alignment explanation
Indices: 23966119--23966155 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
23966109 AAGATGAAAC
*
23966119 TAA TAA TAA TTAA TAG TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
23966156 CACTAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:23967241 original size:22 final size:20
Alignment explanation
Indices: 23967197--23967233 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
23967187 TGGGCCAGTC
23967197 GGGTTATTGGGCTTAAGTTT
1 GGGTTATTGGGCTTAAGTTT
23967217 GGGTT-TTGGGCTTAAGT
1 GGGTTATTGGGCTTAAGT
23967234 GGTTTGGGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.14, C:0.05, G:0.38, T:0.43
Consensus pattern (20 bp):
GGGTTATTGGGCTTAAGTTT
Found at i:23967572 original size:29 final size:29
Alignment explanation
Indices: 23967539--23967635 Score: 83
Period size: 29 Copynumber: 3.4 Consensus size: 29
23967529 AGGACAATAT
23967539 TTTGTGGCAAAATTCTAGAAAGGCAAGCC
1 TTTGTGGCAAAATTCTAGAAAGGCAAGCC
* ** * *
23967568 TTTGTGGTGAACCTAT-TA-AAGGGTAA-CC
1 TTTGTGG-CAAAAT-TCTAGAAAGGCAAGCC
* * *
23967596 TTTGTGGAAAAACTCTGGAAAGGCAAGCC
1 TTTGTGGCAAAATTCTAGAAAGGCAAGCC
23967625 TTTGTGGCAAA
1 TTTGTGGCAAA
23967636 CCTATTAAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
26 1 0.02
27 3 0.06
28 15 0.30
29 25 0.50
30 5 0.10
31 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (29 bp):
TTTGTGGCAAAATTCTAGAAAGGCAAGCC
Found at i:23967646 original size:29 final size:29
Alignment explanation
Indices: 23967557--23967718 Score: 100
Period size: 28 Copynumber: 5.7 Consensus size: 29
23967547 AAAATTCTAG
**
23967557 AAAGGCAAGCCTTTGTGGTGAACCTATTA
1 AAAGGCAAGCCTTTGTGGCAAACCTATTA
* * * * * **
23967586 AAGGGTAA-CCTTTGTGGAAAAACTCTGG
1 AAAGGCAAGCCTTTGTGGCAAACCTATTA
23967614 AAAGGCAAGCCTTTGTGGCAAACCTATTA
1 AAAGGCAAGCCTTTGTGGCAAACCTATTA
* * * * *
23967643 AAAGAC-AGGCTTTGTGGTAAAACT-TTGG
1 AAAGGCAAGCCTTTGTGGCAAACCTATT-A
* * ** *
23967671 AAATGCAACCCTTCATGGCAAACCTGTT-
1 AAAGGCAAGCCTTTGTGGCAAACCTATTA
*
23967699 AAAGG-ATGCCTTTGTGGCAA
1 AAAGGCAAGCCTTTGTGGCAA
23967719 TCTCTGGATA
Statistics
Matches: 96, Mismatches: 33, Indels: 10
0.69 0.24 0.07
Matches are distributed among these distances:
27 13 0.14
28 43 0.45
29 38 0.40
30 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (29 bp):
AAAGGCAAGCCTTTGTGGCAAACCTATTA
Found at i:23967656 original size:57 final size:57
Alignment explanation
Indices: 23967539--23967701 Score: 173
Period size: 57 Copynumber: 2.9 Consensus size: 57
23967529 AGGACAATAT
* * * ** * **
23967539 TTTGTGGCAAAATTCTAGAAAGGCAAGCCTTTGTGGTGAACCTATTAAAGGGTAACC
1 TTTGTGGAAAAACTCTGGAAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAACC
**
23967596 TTTGTGGAAAAACTCTGGAAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAGGC
1 TTTGTGGAAAAACTCTGGAAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAACC
* * * * ** *
23967653 TTTGTGGTAAAACTTTGGAAATGCAACCCTTCATGGCAAACCTGTTAAA
1 TTTGTGGAAAAACTCTGGAAAGGCAAGCCTTTGTGGCAAACCTATTAAA
23967702 GGATGCCTTT
Statistics
Matches: 89, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 89 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (57 bp):
TTTGTGGAAAAACTCTGGAAAGGCAAGCCTTTGTGGCAAACCTATTAAAAGACAACC
Found at i:23975954 original size:18 final size:19
Alignment explanation
Indices: 23975933--23975973 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
23975923 TAAATCCTTA
23975933 AAAATACC-TA-ACCCTAAC
1 AAAATACCATACA-CCTAAC
23975951 AAAA-ACCATACACCTAAC
1 AAAATACCATACACCTAAC
23975969 AAAAT
1 AAAAT
23975974 TAAAAAACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.15
18 16 0.80
19 1 0.05
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (19 bp):
AAAATACCATACACCTAAC
Found at i:23977514 original size:33 final size:33
Alignment explanation
Indices: 23977462--23977528 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
23977452 GAAGGGAGCA
*
23977462 AGGACAATGCGTCAGTTGGCAAGTAACAGGTGG
1 AGGACAATGCGTCAGTTGGCAAGTAACAGCTGG
* *
23977495 AGGACAATGTGTCATTTGGCAAGTAACAGCTGG
1 AGGACAATGCGTCAGTTGGCAAGTAACAGCTGG
23977528 A
1 A
23977529 CTAACTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.15, G:0.33, T:0.21
Consensus pattern (33 bp):
AGGACAATGCGTCAGTTGGCAAGTAACAGCTGG
Found at i:23986187 original size:20 final size:20
Alignment explanation
Indices: 23986162--23986254 Score: 85
Period size: 19 Copynumber: 4.9 Consensus size: 20
23986152 CAAAATTCTG
23986162 AAAAAAAGTAT-AAATAAAT
1 AAAAAAAGTATAAAATAAAT
23986181 AAAAAAAGTATAAAATAAAT
1 AAAAAAAGTATAAAATAAAT
23986201 AAAATAAA-TA-AAAA-AAAGT
1 AAAA-AAAGTATAAAATAAA-T
* *
23986220 ATAAATAA--ATAAAGT--AT
1 A-AAAAAAGTATAAAATAAAT
23986237 AAAAAAAGTATAAAATAA
1 AAAAAAAGTATAAAATAA
23986255 GAAACGTACT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
16 5 0.08
17 2 0.03
18 11 0.18
19 22 0.37
20 17 0.28
21 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.20
Consensus pattern (20 bp):
AAAAAAAGTATAAAATAAAT
Found at i:23986195 original size:29 final size:27
Alignment explanation
Indices: 23986163--23986251 Score: 101
Period size: 29 Copynumber: 3.1 Consensus size: 27
23986153 AAAATTCTGA
23986163 AAAAAAGTATAAATAAATAAAAAAAGTAT
1 AAAAAA-TA-AAATAAATAAAAAAAGTAT
23986192 AAAATAAATAAAATAAATAAAAAAAAGTAT
1 -AAA-AAATAAAATAAAT-AAAAAAAGTAT
*
23986222 AAATAAATAAAGT--ATAAAAAAAGTAT
1 AAA-AAATAAAATAAATAAAAAAAGTAT
23986248 AAAA
1 AAAA
23986252 TAAGAAACGT
Statistics
Matches: 56, Mismatches: 1, Indels: 9
0.85 0.02 0.14
Matches are distributed among these distances:
25 1 0.02
26 14 0.25
27 2 0.04
29 20 0.36
30 16 0.29
31 3 0.05
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (27 bp):
AAAAAATAAAATAAATAAAAAAAGTAT
Found at i:23999710 original size:27 final size:27
Alignment explanation
Indices: 23999673--23999737 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
23999663 GCAATCATAT
**
23999673 AGAGTATGCCAGCAAGGCGATCCATTC
1 AGAGTATGCCAAAAAGGCGATCCATTC
* *
23999700 AGAGTACGCCAAAAAGGTGATCCATTC
1 AGAGTATGCCAAAAAGGCGATCCATTC
*
23999727 AGCGTATGCCA
1 AGAGTATGCCA
23999738 TGGCCATGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (27 bp):
AGAGTATGCCAAAAAGGCGATCCATTC
Found at i:24009159 original size:24 final size:24
Alignment explanation
Indices: 24009073--24009158 Score: 109
Period size: 24 Copynumber: 3.6 Consensus size: 24
24009063 TTTACTGCAA
* * **
24009073 TATTGAGTGGTTTAACCACAATTT
1 TATTGAGTGGCTTGACCACAACGT
* *
24009097 TATTGAGTGGCTTGACCCCAACGC
1 TATTGAGTGGCTTGACCACAACGT
*
24009121 TATTGAGTGGCTTGGCCACAACGT
1 TATTGAGTGGCTTGACCACAACGT
24009145 TATTGAGTGGCTTG
1 TATTGAGTGGCTTG
24009159 GTCACAATGT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 53 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.34
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAACGT
Found at i:24011064 original size:13 final size:15
Alignment explanation
Indices: 24011040--24011071 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
24011030 ATCCTATATT
24011040 TATTATTAATTAA-A
1 TATTATTAATTAACA
24011054 TATTA-TAATTAACA
1 TATTATTAATTAACA
24011068 TATT
1 TATT
24011072 TTCACTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTATTAATTAACA
Found at i:24011300 original size:21 final size:21
Alignment explanation
Indices: 24011276--24011317 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
24011266 GTCACCTGCC
*
24011276 ATAAATATTTAATATAAATAT
1 ATAAATATTTAATAGAAATAT
*
24011297 ATAAATGTTTAATAGAAATAT
1 ATAAATATTTAATAGAAATAT
24011318 TTATGAGCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
ATAAATATTTAATAGAAATAT
Found at i:24016823 original size:19 final size:19
Alignment explanation
Indices: 24016795--24016839 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
24016785 GTGTGGCCAG
24016795 GCCGTGTGACACAACTTAA
1 GCCGTGTGACACAACTTAA
*
24016814 GCCGTTTGACACAACTTAA
1 GCCGTGTGACACAACTTAA
24016833 GCCGTGT
1 GCCGTGT
24016840 CCCAGCCAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (19 bp):
GCCGTGTGACACAACTTAA
Found at i:24018174 original size:21 final size:21
Alignment explanation
Indices: 24018150--24018202 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
24018140 GCATCGTATA
*
24018150 TGCAGAACAGGGGCA-CATACG
1 TGCAGAACAGGGGCACCA-AAG
*
24018171 TGCAG-TCAGGGGCACCAAAG
1 TGCAGAACAGGGGCACCAAAG
24018191 TGC-GAACAGGGG
1 TGCAGAACAGGGG
24018203 AATAGACATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.04
20 19 0.70
21 7 0.26
ACGTcount: A:0.30, C:0.23, G:0.38, T:0.09
Consensus pattern (21 bp):
TGCAGAACAGGGGCACCAAAG
Found at i:24019968 original size:20 final size:19
Alignment explanation
Indices: 24019939--24019976 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
24019929 AGCTAATAAC
24019939 GAGCTCAATGAGCTGAATT
1 GAGCTCAATGAGCTGAATT
24019958 GAGCTCGAATGAGCTGAAT
1 GAGCTC-AATGAGCTGAAT
24019977 CAAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (19 bp):
GAGCTCAATGAGCTGAATT
Found at i:24022901 original size:6 final size:6
Alignment explanation
Indices: 24022890--24022914 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24022880 AGGTTTCCAA
24022890 AAATGG AAATGG AAATGG AAATGG A
1 AAATGG AAATGG AAATGG AAATGG A
24022915 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
AAATGG
Found at i:24027616 original size:23 final size:23
Alignment explanation
Indices: 24027590--24027640 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
24027580 TATCAGATTT
24027590 CGCCATGAGGGCGTTACAGAATA
1 CGCCATGAGGGCGTTACAGAATA
* *
24027613 CGCCATGAGGGTGTTACATAATA
1 CGCCATGAGGGCGTTACAGAATA
*
24027636 TGCCA
1 CGCCA
24027641 CAAAAGGCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (23 bp):
CGCCATGAGGGCGTTACAGAATA
Found at i:24027680 original size:23 final size:23
Alignment explanation
Indices: 24027632--24027762 Score: 129
Period size: 23 Copynumber: 5.7 Consensus size: 23
24027622 GGTGTTACAT
* *
24027632 AATATGCCACAAAAGGCTTCATAG
1 AATACGCCAC-AAAGGCATCATAG
* *
24027656 AATATGCCACAAAAGCATCATAG
1 AATACGCCACAAAGGCATCATAG
* * *
24027679 AATACACCACAAAGGCTTCACAG
1 AATACGCCACAAAGGCATCATAG
* *
24027702 AATACACCATAAAGGCATCA-AG
1 AATACGCCACAAAGGCATCATAG
* *
24027724 AGTACGCAACAAAGGCATCATAG
1 AATACGCCACAAAGGCATCATAG
* *
24027747 GATACACCACAAAGGC
1 AATACGCCACAAAGGC
24027763 TTTTCTTGAG
Statistics
Matches: 89, Mismatches: 17, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
22 18 0.20
23 61 0.69
24 10 0.11
ACGTcount: A:0.45, C:0.24, G:0.16, T:0.15
Consensus pattern (23 bp):
AATACGCCACAAAGGCATCATAG
Found at i:24029201 original size:25 final size:25
Alignment explanation
Indices: 24029158--24029209 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
24029148 TTCCTTAATG
*
24029158 AAAATTTTGTCCTCAAAATTTTTCT
1 AAAATTTTGTACTCAAAATTTTTCT
* *
24029183 AAAATTTTTTACTCGAAATTTTTCT
1 AAAATTTTGTACTCAAAATTTTTCT
24029208 AA
1 AA
24029210 CTTAGGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (25 bp):
AAAATTTTGTACTCAAAATTTTTCT
Found at i:24034276 original size:29 final size:29
Alignment explanation
Indices: 24034234--24034294 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
24034224 TCGAAACCGT
*
24034234 TTTTTGAAAACAAAAATTTTGTTGTCGAC
1 TTTTTGAAAACAAAAATTTGGTTGTCGAC
* *
24034263 TTTTTGAAAGCAAAAATTTGGTTGTGGAC
1 TTTTTGAAAACAAAAATTTGGTTGTCGAC
24034292 TTT
1 TTT
24034295 AGTCATTCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (29 bp):
TTTTTGAAAACAAAAATTTGGTTGTCGAC
Found at i:24035725 original size:6 final size:6
Alignment explanation
Indices: 24035714--24035752 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
24035704 GGTTTTATCC
**
24035714 AAAATG AAAATG GGAATG AAAATG AAAATG AGAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG AA
24035753 TTCATTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:24038616 original size:28 final size:29
Alignment explanation
Indices: 24038511--24038615 Score: 119
Period size: 28 Copynumber: 3.8 Consensus size: 29
24038501 GAACACACAA
24038511 GAAAATGGAAGCCTTTGTGGCATAT-T-T
1 GAAAATGGAAGCCTTTGTGGCATATCTAT
* * *
24038538 G-AAATGGAAGCCTTTGTGGTATATCCAA
1 GAAAATGGAAGCCTTTGTGGCATATCTAT
* *
24038566 GAAAATAGAAGCCTATGTGGCA-ATCTAT
1 GAAAATGGAAGCCTTTGTGGCATATCTAT
* *
24038594 GAAAATGGAAGCTTTTATGGCA
1 GAAAATGGAAGCCTTTGTGGCA
24038616 AATCCTCTAA
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
26 22 0.35
27 1 0.02
28 23 0.37
29 17 0.27
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (29 bp):
GAAAATGGAAGCCTTTGTGGCATATCTAT
Found at i:24039646 original size:26 final size:27
Alignment explanation
Indices: 24039547--24039668 Score: 176
Period size: 27 Copynumber: 4.6 Consensus size: 27
24039537 TTGGGGAGTT
* * *
24039547 ACAAAGGCATTCCTTTCATATTCTGCC
1 ACAAAGGCTTTTCTTTCATATTATGCC
24039574 ACAAAGGCTTTTCTTTCATATTATGCC
1 ACAAAGGCTTTTCTTTCATATTATGCC
24039601 ACAAAGGCTTTTCTTTCATATTATGCC
1 ACAAAGGCTTTTCTTTCATATTATGCC
* * *
24039628 ACGAATGC-TTTCTTTCATATTACGCC
1 ACAAAGGCTTTTCTTTCATATTATGCC
24039654 ACAAAGGC-TTTCTTT
1 ACAAAGGCTTTTCTTT
24039669 ATTTGTCATG
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
26 30 0.34
27 57 0.66
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (27 bp):
ACAAAGGCTTTTCTTTCATATTATGCC
Found at i:24057084 original size:133 final size:134
Alignment explanation
Indices: 24056846--24057118 Score: 530
Period size: 133 Copynumber: 2.0 Consensus size: 134
24056836 CTTGAACTTA
24056846 TATTATTTGTTAAATCAATACAAAATAGATGAAAATTTAATGTTTGTTAACTTTGTTGACATGAC
1 TATTATTTGTTAAATCAATACAAAATAGATGAAAATTTAATGTTTGTTAACTTTGTTGACATGAC
24056911 ATATACGTAGATTCTCACACATATATCACATTAGCGATTAATTAATTGTTTTTAAAAAT-AAAAT
66 ATATACGTAGATTCTCACACATATATCACATTAGCGATTAATTAATTGTTTTTAAAAATAAAAAT
24056975 TATT
131 TATT
24056979 TATTATTTGTTAAATCAATACAAAATAGATGAAAATTTAATGTTTGTTAACTTTGTTGACATGAC
1 TATTATTTGTTAAATCAATACAAAATAGATGAAAATTTAATGTTTGTTAACTTTGTTGACATGAC
24057044 ATATACGTAGATTCTCACACATATATCACATTAGCGATTAATTAATTGTTTTTAAAAATAAAAAT
66 ATATACGTAGATTCTCACACATATATCACATTAGCGATTAATTAATTGTTTTTAAAAATAAAAAT
24057109 TATT
131 TATT
*
24057113 TTTTAT
1 TATTAT
24057119 ATTTTAATAC
Statistics
Matches: 138, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
133 124 0.90
134 14 0.10
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.41
Consensus pattern (134 bp):
TATTATTTGTTAAATCAATACAAAATAGATGAAAATTTAATGTTTGTTAACTTTGTTGACATGAC
ATATACGTAGATTCTCACACATATATCACATTAGCGATTAATTAATTGTTTTTAAAAATAAAAAT
TATT
Found at i:24061182 original size:18 final size:18
Alignment explanation
Indices: 24061161--24061204 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
24061151 AATGAAACAG
24061161 AAAGAAAGAA-AGAAAGAA
1 AAAGAAA-AAGAGAAAGAA
*
24061179 AAAGAAAAAGGGAAAGAA
1 AAAGAAAAAGAGAAAGAA
24061197 AGAAGAAA
1 A-AAGAAA
24061205 CGCAAGGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 2 0.09
18 15 0.65
19 6 0.26
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAGAGAAAGAA
Found at i:24061184 original size:22 final size:22
Alignment explanation
Indices: 24061129--24061200 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
24061119 CAAGTAATAA
24061129 AAAG-AAAA-AAAGAAAG-AAG
1 AAAGAAAAAGAAAGAAAGAAAG
*
24061148 CCAAATGAAACAGAAAGAAAGAAAG
1 --AAA-GAAAAAGAAAGAAAGAAAG
*
24061173 AAAGAAAAAGAAA-AAGGGAAAG
1 AAAGAAAAAGAAAGAA-AGAAAG
24061195 AAAGAA
1 AAAGAA
24061201 GAAACGCAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
21 5 0.12
22 21 0.49
23 6 0.14
24 8 0.19
25 3 0.07
ACGTcount: A:0.72, C:0.04, G:0.22, T:0.01
Consensus pattern (22 bp):
AAAGAAAAAGAAAGAAAGAAAG
Found at i:24063987 original size:20 final size:20
Alignment explanation
Indices: 24063949--24063987 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24063939 ACCCCAAACC
* *
24063949 CTTAAACCTTAAACTTGAAT
1 CTTAAACCCTAAACCTGAAT
*
24063969 CTTAAACCCTAAGCCTGAA
1 CTTAAACCCTAAACCTGAA
24063988 CCCTAAACTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.28
Consensus pattern (20 bp):
CTTAAACCCTAAACCTGAAT
Found at i:24074249 original size:50 final size:50
Alignment explanation
Indices: 24074132--24074367 Score: 228
Period size: 50 Copynumber: 4.7 Consensus size: 50
24074122 GATAATAACA
* * *
24074132 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-TGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACT-TCTCATCT-CGG
* * * * * *
24074181 TGCCAATGCCATATCCCAGATATGGTATTACGTGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
** * * **
24074231 TGCCCGTGCCATGTCCCAGACATGGTCTTAC-GGGAGACCTCTCATCTTAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG-GACTTCTCATCTCGG
* * * * * *
24074281 TGCCAACGCCATGTCCCAAATATGGTCTTACATGAGACATCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
24074331 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
24074368 TCTCTTTACC
Statistics
Matches: 149, Mismatches: 33, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 40 0.27
50 107 0.72
51 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATCTCGG
Found at i:24074331 original size:100 final size:99
Alignment explanation
Indices: 24074132--24074372 Score: 268
Period size: 100 Copynumber: 2.4 Consensus size: 99
24074122 GATAATAACA
* * ** * *
24074132 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTACTGCCAATGCCATATCC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGTACTGCCAACGCCATATCC
* * * **
24074197 CAGATATGGTATTACGTGGGAGTTCTCATATCGG
66 CAAATATGGTATTACATGAGACATCTCATATCGG
** * * *
24074231 TGCCCGTGCCATGTCCCAGACATGGTCTTAC-GGGAGACCTCTCATCTTAGTGCCAACGCCATGT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGG-GACCTCTCAT-GTACTGCCAACGCCATAT
* * *
24074295 CCCAAATATGGTCTTACATGAGACATCTCGTCTCGG
64 CCCAAATATGGTATTACATGAGACATCTCATATCGG
* *
24074331 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
24074373 TTACCCAAAT
Statistics
Matches: 116, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
98 2 0.02
99 35 0.30
100 77 0.66
101 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (99 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGTACTGCCAACGCCATATCC
CAAATATGGTATTACATGAGACATCTCATATCGG
Found at i:24078257 original size:14 final size:15
Alignment explanation
Indices: 24078238--24078278 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
24078228 GTGGCTAGTT
24078238 CGGTTC-ACTAGATG
1 CGGTTCAACTAGATG
*
24078252 CGGTTCAACCA-ATG
1 CGGTTCAACTAGATG
24078266 CGGTTCAACTAGA
1 CGGTTCAACTAGA
24078279 CGCTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (15 bp):
CGGTTCAACTAGATG
Found at i:24078584 original size:17 final size:16
Alignment explanation
Indices: 24078557--24078589 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
24078547 TATTTTTAAC
24078557 ATAATTTAATTATTTT
1 ATAATTTAATTATTTT
24078573 ATAATATTAATTATTTT
1 ATAAT-TTAATTATTTT
24078590 TCTACAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATAATTTAATTATTTT
Found at i:24092658 original size:40 final size:40
Alignment explanation
Indices: 24092602--24092982 Score: 478
Period size: 40 Copynumber: 9.6 Consensus size: 40
24092592 AATTATTGAA
* * * *
24092602 TGATTGCATTTATGTGCCCCTGTTTGCACTTCGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* ** * * *
24092642 TGATTGCTCTTTTGTGCCCCTGTTTATATTTTGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
24092682 TGATTGCACTTACATGCCCTTGTTT-TACTTTC-GTACTCC
1 TGATTGCACTTACGTGCCCCTGTTTGTAC-TTCGGTACCCC
* *
24092721 TGATTGCACTTACATGCCCTTGTTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
*
24092761 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACACC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
*
24092801 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCT
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
24092841 TGATTGCACTTGCGTGCCCTTATTTGTACTTCGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * *
24092881 TGTTTGCACTTACGTGCCCATATTTGTACTTCAGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
24092921 TGACTGCACTTACGTGCACCTGTTTGTACTTTGGTACCCC
1 TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
24092961 TGGTTGCACTTCCGTGCCCCTG
1 TGATTGCACTTACGTGCCCCTG
24092983 GTTATACTCC
Statistics
Matches: 297, Mismatches: 41, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
39 36 0.12
40 261 0.88
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.39
Consensus pattern (40 bp):
TGATTGCACTTACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:24092780 original size:20 final size:20
Alignment explanation
Indices: 24092602--24092982 Score: 159
Period size: 20 Copynumber: 19.1 Consensus size: 20
24092592 AATTATTGAA
* *
24092602 TGATTGCATTTATGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * *
24092622 TGTTTGCACTT-CGGTACCCT
1 TGATTGCACTTAC-GTGCCCC
* **
24092642 TGATTGCTCTTTTGTGCCCC
1 TGATTGCACTTACGTGCCCC
* ** * ** *
24092662 TGTTTATATTTTGGTACCCC
1 TGATTGCACTTACGTGCCCC
* *
24092682 TGATTGCACTTACATGCCCT
1 TGATTGCACTTACGTGCCCC
** * * *
24092702 TG-TTTTACTTTCGTACTCC
1 TGATTGCACTTACGTGCCCC
* *
24092721 TGATTGCACTTACATGCCCT
1 TGATTGCACTTACGTGCCCC
* * *
24092741 TGTTTGTACTT-CGGTACCCC
1 TGATTGCACTTAC-GTGCCCC
24092761 TGATTGCACTTACGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * * *
24092781 TGTTTGTACTT-CGGTACACC
1 TGATTGCACTTAC-GTGCCCC
24092801 TGATTGCACTTACGTGCCCC
1 TGATTGCACTTACGTGCCCC
* * * *
24092821 TGTTTGTACTT-CGGTACCCT
1 TGATTGCACTTAC-GTGCCCC
*
24092841 TGATTGCACTTGCGTG-CCC
1 TGATTGCACTTACGTGCCCC
* * *
24092860 TTATTTGTACTT-CGGTACCCC
1 TGA-TTGCACTTAC-GTGCCCC
* *
24092881 TGTTTGCACTTACGTGCCCA
1 TGATTGCACTTACGTGCCCC
* *
24092901 T-ATTTGTACTT-CAGTACCCC
1 TGA-TTGCACTTAC-GTGCCCC
* *
24092921 TGACTGCACTTACGTGCACC
1 TGATTGCACTTACGTGCCCC
* * ** *
24092941 TGTTTGTACTTTGGTACCCC
1 TGATTGCACTTACGTGCCCC
* *
24092961 TGGTTGCACTTCCGTGCCCC
1 TGATTGCACTTACGTGCCCC
24092981 TG
1 TG
24092983 GTTATACTCC
Statistics
Matches: 252, Mismatches: 92, Indels: 34
0.67 0.24 0.09
Matches are distributed among these distances:
19 21 0.08
20 221 0.88
21 10 0.04
ACGTcount: A:0.13, C:0.29, G:0.19, T:0.39
Consensus pattern (20 bp):
TGATTGCACTTACGTGCCCC
Found at i:24109695 original size:19 final size:19
Alignment explanation
Indices: 24109671--24109717 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
24109661 TTTATATTTC
*
24109671 TAAAAGAATTATAAA-AATT
1 TAAAAGAA-TATAAAGAATA
24109690 TAAAAGAATATAAAGAATA
1 TAAAAGAATATAAAGAATA
24109709 TATAAAGAA
1 TA-AAAGAA
24109718 AATTAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 6 0.24
19 13 0.52
20 6 0.24
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (19 bp):
TAAAAGAATATAAAGAATA
Found at i:24111579 original size:19 final size:19
Alignment explanation
Indices: 24111555--24111596 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
24111545 AGTAATAGCT
24111555 TAACTGCTAACAGACTTAG
1 TAACTGCTAACAGACTTAG
24111574 TAACTGCTAACAGACTTAG
1 TAACTGCTAACAGACTTAG
24111593 TAAC
1 TAAC
24111597 AGCTTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (19 bp):
TAACTGCTAACAGACTTAG
Found at i:24116193 original size:19 final size:19
Alignment explanation
Indices: 24116169--24116210 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
24116159 AGTAACAGCT
24116169 TAACTGCTAACAGACTTAG
1 TAACTGCTAACAGACTTAG
24116188 TAACTGCTAACAGACTTAG
1 TAACTGCTAACAGACTTAG
24116207 TAAC
1 TAAC
24116211 AACTTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (19 bp):
TAACTGCTAACAGACTTAG
Found at i:24122473 original size:140 final size:141
Alignment explanation
Indices: 24122220--24122487 Score: 475
Period size: 140 Copynumber: 1.9 Consensus size: 141
24122210 TTTGGCTGGG
* *
24122220 GGAGAGTGTTAGTATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGTTTCT
1 GGAGAGTGTTAGGATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGCTTCT
*
24122285 TGGTCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCTCT
66 TGATCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCTCT
24122350 CTCTGGCATGA
131 CTCTGGCATGA
* *
24122361 GGAGAGTGTTAGGATTTTGTTTTTGAGTAATCAGGAACA-TTTCTTTTGTTGTCTAAATGCTTCT
1 GGAGAGTGTTAGGATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGCTTCT
*
24122425 TGATCACTCTGCACTAACCTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCT
66 TGATCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCT
24122488 AGTGGCTAGA
Statistics
Matches: 121, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
140 85 0.70
141 36 0.30
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (141 bp):
GGAGAGTGTTAGGATTCTGTTGTTGAGTAATCAGGAACATTTTCTTTTGTTGTCTAAATGCTTCT
TGATCACTCTGCACTAAACTTTAATCTTCACTATATCTAGGTAACAAGTCAGGAGACCAACCTCT
CTCTGGCATGA
Found at i:24129458 original size:23 final size:23
Alignment explanation
Indices: 24129405--24129459 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
24129395 TTTAATAATT
*
24129405 AAAT-TAATTAAATAATTTAAGA
1 AAATCTAATTAAATAATTTAACA
* * *
24129427 AAATGTAATTAAATATTTTTACA
1 AAATCTAATTAAATAATTTAACA
*
24129450 CAATCTAATT
1 AAATCTAATT
24129460 CTAATTCTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (23 bp):
AAATCTAATTAAATAATTTAACA
Found at i:24133991 original size:32 final size:32
Alignment explanation
Indices: 24133955--24134015 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
24133945 AAGTAAACAC
24133955 ATAATTATTCATTT-AATA-TTATAAATATTCAA
1 ATAA-TATT-ATTTAAATAGTTATAAATATTCAA
*
24133987 ATAATATTATTTAAATAGTTATAATTATT
1 ATAATATTATTTAAATAGTTATAAATATT
24134016 TTTCAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 4 0.15
31 8 0.31
32 14 0.54
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (32 bp):
ATAATATTATTTAAATAGTTATAAATATTCAA
Found at i:24138404 original size:20 final size:20
Alignment explanation
Indices: 24138379--24138420 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
24138369 AAATAAACGC
**
24138379 ATAACTATTCATTTAATATT
1 ATAACTATTCAAATAATATT
24138399 ATAACTATTCAAATAATATT
1 ATAACTATTCAAATAATATT
24138419 AT
1 AT
24138421 TTAAATAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (20 bp):
ATAACTATTCAAATAATATT
Found at i:24139178 original size:5 final size:5
Alignment explanation
Indices: 24139168--24139428 Score: 389
Period size: 5 Copynumber: 52.2 Consensus size: 5
24139158 GAGTATAACT
* *
24139168 TATCA TATCA TAACGA -ATCA TAACA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATC-A TATCA TATCA TATCA TATCA TATCA TATCA TATCA
24139218 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
24139268 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
24139318 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
* * * * * * * ** *
24139368 TATCG TAACA TAGCA TAGCA TAGCA TAGCA TAGCA TAGGA TAGCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
*
24139418 AATCA TATCA T
1 TATCA TATCA T
24139429 GTCCTACCCC
Statistics
Matches: 241, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
4 1 0.00
5 239 0.99
6 1 0.00
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.36
Consensus pattern (5 bp):
TATCA
Found at i:24139771 original size:14 final size:14
Alignment explanation
Indices: 24139752--24139782 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
24139742 GTTTTAATTG
*
24139752 TAACATATTATATT
1 TAACATATCATATT
24139766 TAACATATCATATT
1 TAACATATCATATT
24139780 TAA
1 TAA
24139783 TTGTCCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (14 bp):
TAACATATCATATT
Found at i:24140127 original size:97 final size:98
Alignment explanation
Indices: 24139935--24140142 Score: 249
Period size: 97 Copynumber: 2.1 Consensus size: 98
24139925 TACAAAATCT
* * * * ** *
24139935 CACATGGTCGTGTGCTCCACACAATCAAGCCACACGAGCTATAAAAACACACACGGTTGTGTGCT
1 CACACGGTCGTGTGCTCCACACAACCAAGCCACACGAGATACAAAAACACACACGGCCGTGTACT
* *
24140000 CCACACAGCCTAGCCACATGTGATACAAAAA-A
66 CCACACAGCCTAGCCACACGGGATACAAAAATA
* * * * * *
24140032 TACACGGTTGTGTGCTCCACACAGCCTAGCCACACGGGATGCAAAAACACACACGGCCGTGTACT
1 CACACGGTCGTGTGCTCCACACAACCAAGCCACACGAGATACAAAAACACACACGGCCGTGTACT
*
24140097 CCACACAGCCTAGCCACACGGGCTGA-AAAAATA
66 CCACACAGCCTAGCCACACGGGAT-ACAAAAATA
24140130 CACACGGTCGTGT
1 CACACGGTCGTGT
24140143 AGTGCACATG
Statistics
Matches: 91, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
97 78 0.86
98 13 0.14
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.16
Consensus pattern (98 bp):
CACACGGTCGTGTGCTCCACACAACCAAGCCACACGAGATACAAAAACACACACGGCCGTGTACT
CCACACAGCCTAGCCACACGGGATACAAAAATA
Found at i:24140143 original size:49 final size:49
Alignment explanation
Indices: 24139925--24140142 Score: 242
Period size: 49 Copynumber: 4.5 Consensus size: 49
24139915 CCACACAGTC
* * * ** * * *
24139925 TACAAAATCTCACATGGTCGTGTGCTCCACACAATCAAGCCACACGAGC
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
* * * *
24139974 TATAAAAACACACACGGTTGTGTGCTCCACACAGCCTAGCCACATGTGA
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
* *
24140023 TACAAAAA-ATACACGGTTGTGTGCTCCACACAGCCTAGCCACACGGGA
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
* * * *
24140071 TGCAAAAACACACACGGCCGTGTACTCCACACAGCCTAGCCACACGGGC
1 TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
*
24140120 TGA-AAAAATACACACGGTCGTGT
1 T-ACAAAAACACACACGGTCGTGT
24140143 AGTGCACATG
Statistics
Matches: 143, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
48 44 0.31
49 99 0.69
ACGTcount: A:0.33, C:0.31, G:0.19, T:0.17
Consensus pattern (49 bp):
TACAAAAACACACACGGTCGTGTGCTCCACACAGCCTAGCCACACGGGA
Found at i:24143261 original size:29 final size:30
Alignment explanation
Indices: 24143200--24143265 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
24143190 AAAATAAACA
* * * *
24143200 TTAGTGACCGATTTGTCATTTTTCTAAATT
1 TTAGTGACCGAGTTGTAACTTTTCTAAAGT
*
24143230 TTAGTGACTGAGTTGTAACTTTT-TAAAGT
1 TTAGTGACCGAGTTGTAACTTTTCTAAAGT
24143259 TTAGTGA
1 TTAGTGA
24143266 TTGTTTTGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.26, C:0.09, G:0.18, T:0.47
Consensus pattern (30 bp):
TTAGTGACCGAGTTGTAACTTTTCTAAAGT
Found at i:24145724 original size:18 final size:18
Alignment explanation
Indices: 24145703--24145763 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
24145693 AGTTTGGAAA
24145703 ATTAATACAGTTCGCCAT
1 ATTAATACAGTTCGCCAT
* ** * *
24145721 ATTAATAAAAATCACCAA
1 ATTAATACAGTTCGCCAT
*
24145739 ATTAACACAGTTCGCCAT
1 ATTAATACAGTTCGCCAT
*
24145757 AATAATA
1 ATTAATA
24145764 TAATTCACCA
Statistics
Matches: 30, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.28
Consensus pattern (18 bp):
ATTAATACAGTTCGCCAT
Found at i:24145742 original size:36 final size:36
Alignment explanation
Indices: 24145701--24145787 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 36
24145691 ACAGTTTGGA
* *
24145701 AAATTAATACAGTTCGCCATATTAATAAAAATCACC
1 AAATTAACACAGTTCGCCATAATAATAAAAATCACC
* *
24145737 AAATTAACACAGTTCGCCATAATAATATAATTCACC
1 AAATTAACACAGTTCGCCATAATAATAAAAATCACC
* *
24145773 AAGTTAACATAGTTC
1 AAATTAACACAGTTC
24145788 ACAATATAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.29
Consensus pattern (36 bp):
AAATTAACACAGTTCGCCATAATAATAAAAATCACC
Found at i:24147913 original size:13 final size:13
Alignment explanation
Indices: 24147897--24147930 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24147887 GTACGTTTGA
24147897 TCTGTTATCTGAT
1 TCTGTTATCTGAT
* *
24147910 TCTGATATCTGTT
1 TCTGTTATCTGAT
24147923 TCTGTTAT
1 TCTGTTAT
24147931 GGACTTAGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (13 bp):
TCTGTTATCTGAT
Found at i:24151282 original size:23 final size:24
Alignment explanation
Indices: 24151252--24151307 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
24151242 ATTATTTATT
24151252 AAATAATATATT-TTA-TAATTTC
1 AAATAATATATTGTTACTAATTTC
24151274 AAATAAATATATTGTTACTAA-TT-
1 AAAT-AATATATTGTTACTAATTTC
24151297 AAATAAT-TATT
1 AAATAATATATT
24151308 AGTGTGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
21 4 0.13
22 7 0.23
23 12 0.39
24 5 0.16
25 3 0.10
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (24 bp):
AAATAATATATTGTTACTAATTTC
Found at i:24154045 original size:125 final size:125
Alignment explanation
Indices: 24153823--24154110 Score: 479
Period size: 125 Copynumber: 2.3 Consensus size: 125
24153813 AATTTATAAG
* * * * *
24153823 GAAATCGCTGCCACGTGGGCGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
24153888 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATT-TCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTGT-T
*
24153948 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAT
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
24154013 GTTTCTGAGCAAATAGTATAAACAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTGTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTGTT
* *
24154073 GAAATAGCTCCCACATGGACGCGCTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
24154111 CATGTTTGGG
Statistics
Matches: 153, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
125 152 0.99
126 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTGTT
Found at i:24156999 original size:11 final size:11
Alignment explanation
Indices: 24156985--24157082 Score: 55
Period size: 11 Copynumber: 9.3 Consensus size: 11
24156975 GAGAAATTTA
24156985 AGAGGAAATTG
1 AGAGGAAATTG
*
24156996 AGAGCAAATTG
1 AGAGGAAATTG
*
24157007 AGAGCAAATTG
1 AGAGGAAATTG
**
24157018 AGATTAAA-T-
1 AGAGGAAATTG
* *
24157027 A-TGG-ATTTG
1 AGAGGAAATTG
24157036 AGA-GAAATTTG
1 AGAGGAAA-TTG
24157047 -GAAGGAAATTG
1 AG-AGGAAATTG
* * *
24157058 AGTGCAATTTG
1 AGAGGAAATTG
24157069 AGAGGAAATTG
1 AGAGGAAATTG
24157080 AGA
1 AGA
24157083 AAAGGATTAA
Statistics
Matches: 64, Mismatches: 15, Indels: 16
0.67 0.16 0.17
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 3 0.05
11 51 0.80
12 5 0.08
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.24
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:24156999 original size:22 final size:21
Alignment explanation
Indices: 24156974--24157082 Score: 73
Period size: 22 Copynumber: 5.1 Consensus size: 21
24156964 TAGGGATTTA
24156974 AGAGAAATTTAAGAGGAAATTG
1 AGAGAAATTT-AGAGGAAATTG
* *
24156996 AGAGCAAATTGAGAGCAAATTG
1 AGAG-AAATTTAGAGGAAATTG
* * *
24157018 AGATTAAA--TA-TGG-ATTTG
1 AGA-GAAATTTAGAGGAAATTG
*
24157036 AGAGAAATTTGGAAGGAAATTG
1 AGAGAAATTTAG-AGGAAATTG
* *
24157058 AGTGCAATTTGAGAGGAAATTG
1 AGAGAAATTT-AGAGGAAATTG
24157080 AGA
1 AGA
24157083 AAAGGATTAA
Statistics
Matches: 64, Mismatches: 15, Indels: 16
0.67 0.16 0.17
Matches are distributed among these distances:
17 3 0.05
18 7 0.11
19 2 0.03
20 1 0.02
21 2 0.03
22 43 0.67
23 6 0.09
ACGTcount: A:0.44, C:0.03, G:0.28, T:0.25
Consensus pattern (21 bp):
AGAGAAATTTAGAGGAAATTG
Found at i:24157027 original size:62 final size:62
Alignment explanation
Indices: 24156961--24157082 Score: 174
Period size: 62 Copynumber: 2.0 Consensus size: 62
24156951 AAATAATTAA
24156961 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGAGCAAATTGAGATT
* * * * * *
24157023 AAATATGGATTTGAGAGAAATTTGGAAGGAAATTGAGTGCAATTTGAGAGGAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGAGCAAATTGAGA
24157083 AAAGGATTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
62 52 0.98
63 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.28, T:0.25
Consensus pattern (62 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGAGCAAATTGAGATT
Found at i:24157666 original size:19 final size:20
Alignment explanation
Indices: 24157630--24157667 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
24157620 TTTAATTTTA
24157630 AATTTAATTATAAAATATAG
1 AATTTAATTATAAAATATAG
*
24157650 AATTTAA-TATAAGATATA
1 AATTTAATTATAAAATATA
24157668 TTTATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
AATTTAATTATAAAATATAG
Found at i:24160692 original size:8 final size:7
Alignment explanation
Indices: 24160679--24160730 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 7
24160669 AAGAAATAAG
24160679 AAAAGATA
1 AAAAGA-A
24160687 AAAAGAA
1 AAAAGAA
24160694 AAAA-AA
1 AAAAGAA
24160700 AAAA-AA
1 AAAAGAA
24160706 AAAA-AA
1 AAAAGAA
*
24160712 AAAAAAA
1 AAAAGAA
*
24160719 AAAAAAA
1 AAAAGAA
24160726 AAAAG
1 AAAAG
24160731 TGCTAACAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
6 18 0.43
7 18 0.43
8 6 0.14
ACGTcount: A:0.92, C:0.00, G:0.06, T:0.02
Consensus pattern (7 bp):
AAAAGAA
Found at i:24160696 original size:1 final size:1
Alignment explanation
Indices: 24160686--24160729 Score: 79
Period size: 1 Copynumber: 44.0 Consensus size: 1
24160676 AAGAAAAGAT
*
24160686 AAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
24160730 GTGCTAACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.98, C:0.00, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:24160702 original size:13 final size:13
Alignment explanation
Indices: 24160676--24160730 Score: 74
Period size: 13 Copynumber: 4.2 Consensus size: 13
24160666 GGGAAGAAAT
* *
24160676 AAGAAAAGATAAA
1 AAGAAAAAAAAAA
24160689 AAGAAAAAAAAAA
1 AAGAAAAAAAAAA
*
24160702 AAAAAAAAAAAAA
1 AAGAAAAAAAAAA
*
24160715 AAAAAAAAAAAAA
1 AAGAAAAAAAAAA
24160728 AAG
1 AAG
24160731 TGCTAACAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.91, C:0.00, G:0.07, T:0.02
Consensus pattern (13 bp):
AAGAAAAAAAAAA
Found at i:24161195 original size:66 final size:66
Alignment explanation
Indices: 24161001--24161197 Score: 322
Period size: 66 Copynumber: 3.0 Consensus size: 66
24160991 CAAACAAAGA
* * * * *
24161001 CTATTCAAGTGTCACGGTTGGTGACCAAGAATGGAGGTCCTTATTACAAGGAGCTGAAGGAAAGG
1 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
24161066 G
66 G
*
24161067 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTGCAGGGAGCTGATGGAACGG
1 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
24161132 G
66 G
* *
24161133 CTATTCAAGTTTCACAGTCGGTGACCAAGAATGGAGGTTCTTATTACAGGGAGCTGATGGAACGG
1 CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
24161198 AACAAGACAT
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 122 1.00
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (66 bp):
CTATTCAAGTTTCACAGTTGGTGACCAAGAATGGAGGTCCTTATTACAGGGAGCTGATGGAACGG
G
Found at i:24163245 original size:88 final size:87
Alignment explanation
Indices: 24163121--24163372 Score: 375
Period size: 87 Copynumber: 2.9 Consensus size: 87
24163111 TTTAAATTCG
* *
24163121 GTGAATTCATCAAGTCCGTCTCACTAGGACCACCCAAACTCTGGAATATGAACTCAATTAAGACT
1 GTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGG-ATATGAACTCAATTAAGAGT
24163186 AATAAACTCAACCTCACATGTCA
65 AATAAACTCAACCTCACATGTCA
* * * *
24163209 GTGAATTCATCAAGTCCATCGCAATAAGACCACCCAAACTCTAGGATATAAACTC-ATTAAGAGT
1 GTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCT-GGATATGAACTCAATTAAGAGT
24163273 AATAAACTCAACCTCACATGTCA
65 AATAAACTCAACCTCACATGTCA
* *
24163296 GTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGGCTATGAA-TTAATTAAGAGT
1 GTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCT-GGATATGAACTCAATTAAGAGT
*
24163360 AA-GAACTCAACCT
65 AATAAACTCAACCT
24163373 TATGCATGTA
Statistics
Matches: 148, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
86 11 0.07
87 88 0.59
88 47 0.32
89 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.24
Consensus pattern (87 bp):
GTGAATTCATCAAGTCCGTCTCAATAGGACCACCCAAACTCTGGATATGAACTCAATTAAGAGTA
ATAAACTCAACCTCACATGTCA
Found at i:24167891 original size:41 final size:41
Alignment explanation
Indices: 24167799--24167892 Score: 127
Period size: 41 Copynumber: 2.3 Consensus size: 41
24167789 GCTAGACTTA
* * * *
24167799 AAGTCTGAATAATTTCACTGGCATTAAGCCTGTTAGACAAT
1 AAGTCTGAATTATTTAACTGGCATCAAGCCTGCTAGACAAT
*
24167840 GAGTCTGAATTATATTAAC-GGCATCAAGCCTGCTAGACAAT
1 AAGTCTGAATTAT-TTAACTGGCATCAAGCCTGCTAGACAAT
24167881 AAGTCTGAATTA
1 AAGTCTGAATTA
24167893 CATTCGATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 42 0.91
42 4 0.09
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (41 bp):
AAGTCTGAATTATTTAACTGGCATCAAGCCTGCTAGACAAT
Found at i:24173471 original size:21 final size:22
Alignment explanation
Indices: 24173439--24173485 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
24173429 TATAAAATCA
24173439 AATAAAATATATATAATT-ATAT
1 AATAAAATATATAT-ATTAATAT
24173461 AATAAAA-ATATATATTAATAT
1 AATAAAATATATATATTAATAT
24173482 AATA
1 AATA
24173486 TTTATTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 3 0.12
21 14 0.58
22 7 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAAAATATATATATTAATAT
Found at i:24174332 original size:20 final size:20
Alignment explanation
Indices: 24174303--24174346 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
24174293 CTACATATTG
*
24174303 GTATCGATACTTAAGGAGAA
1 GTATCAATACTTAAGGAGAA
*
24174323 GTATCAATACTTAGGGAGAA
1 GTATCAATACTTAAGGAGAA
24174343 GTAT
1 GTAT
24174347 TGGTACCTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (20 bp):
GTATCAATACTTAAGGAGAA
Found at i:24175972 original size:17 final size:17
Alignment explanation
Indices: 24175940--24175977 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
24175930 AAATGAAACA
*
24175940 AAAATGAAATAAGAGATT
1 AAAATCAAATAAGAGA-T
24175958 AAAATCAAA-AAGAGAT
1 AAAATCAAATAAGAGAT
24175974 AAAA
1 AAAA
24175978 GAACTGGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 6 0.32
18 8 0.42
ACGTcount: A:0.68, C:0.03, G:0.13, T:0.16
Consensus pattern (17 bp):
AAAATCAAATAAGAGAT
Found at i:24177379 original size:44 final size:44
Alignment explanation
Indices: 24177316--24177428 Score: 131
Period size: 44 Copynumber: 2.6 Consensus size: 44
24177306 GATCTGTTCT
* *
24177316 ACTACAACTTCAGAGAGATAAGATCTAT-TACTTTAATCCT-CTCC
1 ACTACAACTTCAGAGAGATAAGAT-TATCGACTTCAAT-CTACTCC
* * *
24177360 ACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCC
1 ACTACAACTTCAGAGAGATAAGATTATCGACTTCAATCTACTCC
* *
24177404 ACTGCAACCTCAGAGAGATAAGATT
1 ACTACAACTTCAGAGAGATAAGATT
24177429 TACCATTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
43 5 0.09
44 53 0.91
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (44 bp):
ACTACAACTTCAGAGAGATAAGATTATCGACTTCAATCTACTCC
Found at i:24177647 original size:175 final size:173
Alignment explanation
Indices: 24177436--24177954 Score: 736
Period size: 175 Copynumber: 3.0 Consensus size: 173
24177426 ATTTACCATT
* * * * * * *
24177436 TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCTATCTTCAATCTGTTTCACTACAAC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCCGCTATCTTTAA-CTGCTCCACTGCAAC
* * * *
24177501 CGAGGGAGGCAAGGCTTGTGTCTTCAATCCGCTTCGCTGTCAGTGCAGAAAGGCAAGATCTGCTA
65 CGAGGGAGGCAAGGCTTGTATCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTA
*
24177566 TCTTCAACCTACTCCACTGCAACCGAGGGAGGCAAGGCTGGTATC
130 TCTT-AACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATC
24177611 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCCGCTATCTTTAACCTGCTCCACTGCAAC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCCGCTATCTTTAA-CTGCTCCACTGCAAC
* *
24177676 CGAGGGAGGCAAGG-GTGATATCTTCGATCTGCTTCACTGTCA-TCGCAGGAAGGCAAGATCTGC
65 CGAGGGAGGCAAGGCTTG-TATCTTCGATCTGCTTCGCTGTCAGT-GCAGGAAGGCAAGATCTGC
* * * *
24177739 TATCTTTACTCTGCTCCACTGCAACCGAGGGATGCAAGGTTGGTATT
128 TATCTTAAC-CTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATC
*
24177786 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCCGCTATCTTTAACTTGCTCCACTGCAAT
1 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCCGCTATCTTTAAC-TGCTCCACTGCAAC
* * *
24177851 CGAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTATCAGCGCAGGAAGGCAAGATCTGCTA
65 CGAGGGAGGCAAGGCTTGTATCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTA
* *
24177916 TCTTTAACCTGCTCCACTGTAACCGAGGGAGACAAGGCT
130 TC-TTAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCT
24177955 TTGTTTTTTA
Statistics
Matches: 307, Mismatches: 30, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
174 6 0.02
175 296 0.96
176 5 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (173 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCCGCTATCTTTAACTGCTCCACTGCAACC
GAGGGAGGCAAGGCTTGTATCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGCTAT
CTTAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTATC
Found at i:24177668 original size:87 final size:87
Alignment explanation
Indices: 24177436--24177954 Score: 589
Period size: 88 Copynumber: 5.9 Consensus size: 87
24177426 ATTTACCATT
* * * * * * * *
24177436 TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGCTATCTTCAATCTGTTTCACTACAAC
1 TTCGATCTGCTCCACTACTGCTTAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAAC
* *
24177501 CGAGGGAGGCAAGGCTTGTGTC
66 CGAGGGAGGCAAGGCTGGTATC
* * ** * * * *
24177523 TTCAATCCGCTTCGCTGTCAGTGC--AGAAAGGCAAGATCTGCTATCTTCAACCTACTCCACTGC
1 TTCGATCTGC-TC-CACT-ACTGCTTAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
24177586 AACCGAGGGAGGCAAGGCTGGTATC
63 AACCGAGGGAGGCAAGGCTGGTATC
* *
24177611 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCCGCTATCTTTAACCTGCTCCACTGCAAC
1 TTCGATCTGCTCCACTACTGCTTAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAAC
* *
24177676 CGAGGGAGGCAAGGGTGATATC
66 CGAGGGAGGCAAGGCTGGTATC
* *
24177698 TTCGATCTGCTTCACTGTCATCGC--AGGAAGGCAAGATCTGCTATCTTT-ACTCTGCTCCACTG
1 TTCGATCTGCTCCACT-AC-T-GCTTAGGAAGGCAAGATCTGCTATCTTTAAC-CTGCTCCACTG
* * *
24177760 CAACCGAGGGATGCAAGGTTGGTATT
62 CAACCGAGGGAGGCAAGGCTGGTATC
* * * *
24177786 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCCGCTATCTTTAACTTGCTCCACTGCAAT
1 TTCGATCTGCTCCACTACTGCTTAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAAC
24177851 CGAGGGAGGCAAGGCTGGTATC
66 CGAGGGAGGCAAGGCTGGTATC
* * * ** *
24177873 TTCGATCTGCTTCGCTATCAGCGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGTAA
1 TTCGATCTGCTCCACTA-CTGCTTAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAA
*
24177938 CCGAGGGAGACAAGGCT
65 CCGAGGGAGGCAAGGCT
24177955 TTGTTTTTTA
Statistics
Matches: 364, Mismatches: 55, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
85 6 0.02
86 3 0.01
87 154 0.42
88 192 0.53
89 3 0.01
90 6 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (87 bp):
TTCGATCTGCTCCACTACTGCTTAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAAC
CGAGGGAGGCAAGGCTGGTATC
Found at i:24179237 original size:13 final size:13
Alignment explanation
Indices: 24179221--24179250 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24179211 TATTTTTACT
*
24179221 TTTTCCTTTTTCA
1 TTTTCCATTTTCA
24179234 TTTTCCATTTTCA
1 TTTTCCATTTTCA
24179247 TTTT
1 TTTT
24179251 TTCACTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCCATTTTCA
Found at i:24180158 original size:12 final size:12
Alignment explanation
Indices: 24180143--24180168 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24180133 TTTTCTCTTT
24180143 TTTTTATTTTGA
1 TTTTTATTTTGA
24180155 TTTTTATTTTGA
1 TTTTTATTTTGA
24180167 TT
1 TT
24180169 GATTTTTCTT
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:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:24188154 original size:115 final size:115
Alignment explanation
Indices: 24187915--24188146 Score: 410
Period size: 115 Copynumber: 2.0 Consensus size: 115
24187905 AAAATTTATT
* * *
24187915 AAACTTAAATATCTATTATTTATAATGGTGAAGTAAGTCAAATATTTATAAAACAGAAATATGAA
1 AAACTTAAATATCTATTATATATAATGGTGAACTAAGTCAAATATTTATAAAACAGAAATATAAA
*
24187980 CTCTTAAAAAATAATTAAAAATCTCCTAAATAAACTTCTAAGTAAGATAA
66 CTCTTAAAAAATAATTAAAAATCTCCTAAATAAACTTCAAAGTAAGATAA
*
24188030 AAACTTAAATATCTATTATATATAATGGTGAACTAAGTCAAATATTTATAAACCAGAAATATAAA
1 AAACTTAAATATCTATTATATATAATGGTGAACTAAGTCAAATATTTATAAAACAGAAATATAAA
*
24188095 CTCTTAAAAAATAATTAAAAATCTCCTAAATAAACTTGAAAGTAAGATAA
66 CTCTTAAAAAATAATTAAAAATCTCCTAAATAAACTTCAAAGTAAGATAA
24188145 AA
1 AA
24188147 TTCTAAATTA
Statistics
Matches: 111, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
115 111 1.00
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (115 bp):
AAACTTAAATATCTATTATATATAATGGTGAACTAAGTCAAATATTTATAAAACAGAAATATAAA
CTCTTAAAAAATAATTAAAAATCTCCTAAATAAACTTCAAAGTAAGATAA
Found at i:24196950 original size:12 final size:13
Alignment explanation
Indices: 24196933--24196982 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
24196923 ATCTAAATTC
24196933 TATTTTTTATT-A
1 TATTTTTTATTAA
24196945 TA-TTTTTATTAA
1 TATTTTTTATTAA
* **
24196957 TATTTTCTAAAAA
1 TATTTTTTATTAA
*
24196970 TATTTTTTGTTAA
1 TATTTTTTATTAA
24196983 AAATTAATTC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
11 8 0.28
12 5 0.17
13 16 0.55
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (13 bp):
TATTTTTTATTAA
Found at i:24199105 original size:33 final size:33
Alignment explanation
Indices: 24199035--24199111 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
24199025 TTTTAAAGGA
*
24199035 ATATTT-TTATCATTTTACAAAATTAAAGTTGC
1 ATATTTGTTATCATTTTACAAAATAAAAGTTGC
24199067 A-ATTTGTTATC-TTTTCACAAAATGAAAAGTTG-
1 ATATTTGTTATCATTTT-ACAAAAT-AAAAGTTGC
24199099 ATATTTGTTATCA
1 ATATTTGTTATCA
24199112 GTTAATAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
31 8 0.21
32 14 0.36
33 17 0.44
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (33 bp):
ATATTTGTTATCATTTTACAAAATAAAAGTTGC
Found at i:24200059 original size:18 final size:17
Alignment explanation
Indices: 24200038--24200071 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
24200028 TGAATATAAA
24200038 AAACAAAAGGAATATTAC
1 AAACAAAA-GAATATTAC
*
24200056 AAACCAAAGAATATTA
1 AAACAAAAGAATATTA
24200072 GTGGCGATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.12, G:0.09, T:0.18
Consensus pattern (17 bp):
AAACAAAAGAATATTAC
Found at i:24202323 original size:332 final size:332
Alignment explanation
Indices: 24201717--24202380 Score: 1328
Period size: 332 Copynumber: 2.0 Consensus size: 332
24201707 TATTATGTCT
24201717 TTTGTATTTCTATCTTTTATATTTTGCATGCATAGTGAAATTATGAAAAACAAATATTAGCTCAT
1 TTTGTATTTCTATCTTTTATATTTTGCATGCATAGTGAAATTATGAAAAACAAATATTAGCTCAT
24201782 TAATTGTCTAAGTTCAAACTGAAGATAAGTGGCATTGTAAAAATGTTTACATTGAGAGAAAGACA
66 TAATTGTCTAAGTTCAAACTGAAGATAAGTGGCATTGTAAAAATGTTTACATTGAGAGAAAGACA
24201847 ACTTACTTCAGTAGATAATCTAAATAAGTCTGTAATCCCGTAAAATAATTGAAGTGAGCATTTGA
131 ACTTACTTCAGTAGATAATCTAAATAAGTCTGTAATCCCGTAAAATAATTGAAGTGAGCATTTGA
24201912 TTCAAATAATGAGAAGGATTATTATGTCGTTTAAAATTCTAATTGGGGAGATGGTTAGTCTTGTT
196 TTCAAATAATGAGAAGGATTATTATGTCGTTTAAAATTCTAATTGGGGAGATGGTTAGTCTTGTT
24201977 CTCGGAGCAGTTAACTTCACGGGTAGAGACATAGATGTATTCATTGGTAGAATGATACATTGGAC
261 CTCGGAGCAGTTAACTTCACGGGTAGAGACATAGATGTATTCATTGGTAGAATGATACATTGGAC
24202042 TGGACTC
326 TGGACTC
24202049 TTTGTATTTCTATCTTTTATATTTTGCATGCATAGTGAAATTATGAAAAACAAATATTAGCTCAT
1 TTTGTATTTCTATCTTTTATATTTTGCATGCATAGTGAAATTATGAAAAACAAATATTAGCTCAT
24202114 TAATTGTCTAAGTTCAAACTGAAGATAAGTGGCATTGTAAAAATGTTTACATTGAGAGAAAGACA
66 TAATTGTCTAAGTTCAAACTGAAGATAAGTGGCATTGTAAAAATGTTTACATTGAGAGAAAGACA
24202179 ACTTACTTCAGTAGATAATCTAAATAAGTCTGTAATCCCGTAAAATAATTGAAGTGAGCATTTGA
131 ACTTACTTCAGTAGATAATCTAAATAAGTCTGTAATCCCGTAAAATAATTGAAGTGAGCATTTGA
24202244 TTCAAATAATGAGAAGGATTATTATGTCGTTTAAAATTCTAATTGGGGAGATGGTTAGTCTTGTT
196 TTCAAATAATGAGAAGGATTATTATGTCGTTTAAAATTCTAATTGGGGAGATGGTTAGTCTTGTT
24202309 CTCGGAGCAGTTAACTTCACGGGTAGAGACATAGATGTATTCATTGGTAGAATGATACATTGGAC
261 CTCGGAGCAGTTAACTTCACGGGTAGAGACATAGATGTATTCATTGGTAGAATGATACATTGGAC
24202374 TGGACTC
326 TGGACTC
24202381 AAGATGAATT
Statistics
Matches: 332, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
332 332 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (332 bp):
TTTGTATTTCTATCTTTTATATTTTGCATGCATAGTGAAATTATGAAAAACAAATATTAGCTCAT
TAATTGTCTAAGTTCAAACTGAAGATAAGTGGCATTGTAAAAATGTTTACATTGAGAGAAAGACA
ACTTACTTCAGTAGATAATCTAAATAAGTCTGTAATCCCGTAAAATAATTGAAGTGAGCATTTGA
TTCAAATAATGAGAAGGATTATTATGTCGTTTAAAATTCTAATTGGGGAGATGGTTAGTCTTGTT
CTCGGAGCAGTTAACTTCACGGGTAGAGACATAGATGTATTCATTGGTAGAATGATACATTGGAC
TGGACTC
Found at i:24208200 original size:8 final size:8
Alignment explanation
Indices: 24208184--24208233 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
24208174 TTTATCAATT
24208184 TAAAA-CC
1 TAAAACCC
24208191 TAAAACCC
1 TAAAACCC
*
24208199 T-AAACCT
1 TAAAACCC
24208206 TAAAACCC
1 TAAAACCC
**
24208214 TAAAAAAC
1 TAAAACCC
24208222 TAAAAACCC
1 T-AAAACCC
24208231 TAA
1 TAA
24208234 TATAACAGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
7 11 0.32
8 17 0.50
9 6 0.18
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAACCC
Found at i:24208209 original size:15 final size:14
Alignment explanation
Indices: 24208186--24208217 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
24208176 TATCAATTTA
24208186 AAACCTAAAACCCT
1 AAACCTAAAACCCT
24208200 AAACCTTAAAACCCT
1 AAACC-TAAAACCCT
24208215 AAA
1 AAA
24208218 AAACTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCTAAAACCCT
Found at i:24209761 original size:3 final size:3
Alignment explanation
Indices: 24209753--24209809 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
24209743 TATCACCATT
* *
24209753 ATA ATA ATA A-A AT- ATA ATA ATA ACA ATA ACA ATA ATA ATA A-A AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
24209797 ATA A-A ATA A-A ATA
1 ATA ATA ATA ATA ATA
24209810 TTATAACTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
2 12 0.27
3 32 0.73
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:24216962 original size:89 final size:89
Alignment explanation
Indices: 24216854--24217106 Score: 310
Period size: 89 Copynumber: 2.8 Consensus size: 89
24216844 ATTTTAATCC
* *
24216854 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTGTGCTTCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTGCAACTTCAGGGA
*
24216919 GATAAGACTCGCTATCTTCAGTCT
66 GATAAGACTCGCCATCTTCAGTCT
* * * * * * *
24216943 GCTCCTCTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTACTCCAGTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTGCAACTTCAGGGA
*
24217008 GATAAGATTCGCCATCTTCAGTCT
66 GATAAGACTCGCCATCTTCAGTCT
* * * * ** * *
24217032 GCCCCACTACAACTTCAGGGGGATAAGACTT-GTTTTCTTCAGTCTGCTCCCCTGCAACTTTAGG
1 GCTCCACTGCAACTTCAGGGAGATAGGA-TTAG-TAGCTTCAGTCTGCTCCACTGCAACTTCAGG
24217096 GAGATAAGACT
64 GAGATAAGACT
24217107 TGATATGATC
Statistics
Matches: 136, Mismatches: 26, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
89 101 0.74
90 35 0.26
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (89 bp):
GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTGCAACTTCAGGGA
GATAAGACTCGCCATCTTCAGTCT
Found at i:24217074 original size:134 final size:133
Alignment explanation
Indices: 24216846--24217101 Score: 350
Period size: 134 Copynumber: 1.9 Consensus size: 133
24216836 GATTCATCAT
* * * * ** *
24216846 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTGTGCTTCACTGCAAC
1 TTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTAGCAGCTTCAGTCTGCCCCACTACAAC
*
24216911 TTCAGGGAGATAAGACTCGCTATCTTCAGTCTGCTCCTCTGCAACTTCAGGGAGATAGGATTATT
66 TTCAGGGAGATAAGACTCGCTATCTTCAGTCTGCTCCCCTGCAACTTCAGGGAGATAGGATTATT
24216976 GGC
131 GGC
* * * *
24216979 TTTAATCTACTCCAGTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTACAA
1 TTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTAG-CAGCTTCAGTCTGCCCCACTACAA
* * * * *
24217044 CTTCAGGGGGATAAGACTTGTTTTCTTCAGTCTGCTCCCCTGCAACTTTAGGGAGATA
65 CTTCAGGGAGATAAGACTCGCTATCTTCAGTCTGCTCCCCTGCAACTTCAGGGAGATA
24217102 AGACTTGATA
Statistics
Matches: 105, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
133 35 0.33
134 70 0.67
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (133 bp):
TTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTAGCAGCTTCAGTCTGCCCCACTACAAC
TTCAGGGAGATAAGACTCGCTATCTTCAGTCTGCTCCCCTGCAACTTCAGGGAGATAGGATTATT
GGC
Found at i:24217107 original size:45 final size:44
Alignment explanation
Indices: 24216854--24217146 Score: 254
Period size: 45 Copynumber: 6.7 Consensus size: 44
24216844 ATTTTAATCC
* * *
24216854 GCTCCACTGCAACTTCAGGGAGATAGGATTAG-TAGCTTCAGTGT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-GCTATCTTCAGTCT
* *
24216898 GCTTCACTGCAACTTCAGGGAGATAAGACTCGCTATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAGTCT
* * ** ** * *
24216943 GCTCCTCTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAGTCT
* * *
24216987 ACTCCAGTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATT-GCTATCTTCAGTCT
* * * * *
24217032 GCCCCACTACAACTTCAGGGGGATAAGACTTGTTTTCTTCAGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAGTCT
* * * *
24217077 GCTCCCCTGCAACTTTAGGGAGATAAGACTTG--AT-ATGA-TCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TTGCTATCTTCAGTCT
* **
24217118 GCTCTACTGCAACTTCAAAGAGATAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT
24217147 GGGTAATTTA
Statistics
Matches: 198, Mismatches: 47, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
40 1 0.01
41 26 0.13
42 2 0.01
43 1 0.01
44 62 0.31
45 104 0.53
46 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.29
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATTGCTATCTTCAGTCT
Found at i:24217287 original size:50 final size:50
Alignment explanation
Indices: 24217231--24217828 Score: 439
Period size: 50 Copynumber: 11.9 Consensus size: 50
24217221 TACAATGTCG
* * * * * *
24217231 GGGAAGTAAGATTCGCTATTGTAGCTTCGATCTGTTCCACTACACTGCCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * *
24217281 GGGAAGTAAAATTCGCTGTTGTAACTTCAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * * *
24217331 GGGAAGCAAGATTCACTGTTGTAGCTTCAATCTATTCCACTGCACTGCTA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * *
24217381 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAACTGCAATGTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * **
24217431 GGGAAGCAAGATTCGCTATTGTAGCTTCAATCTGTTCCACTGCACCGCCA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * * * **
24217481 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTTTTAATTACAATGTTA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * * * *
24217531 GGGAAGCAAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * * ** *
24217581 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACACCGCTA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * **
24217631 GGGAAGTAAGATTCGCCGTTGT-GACTTCAATCTTTTTAATTGCAATG-TT
1 GGGAAGTAAGATTCGCTGTTGTAG-CTTCAATCTTTTCAACTGCAATGCCA
* * * * * * *
24217680 GGAAAGCAAGATTTACCGTCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-
1 GGGAAGTAAGA-TT--CG-CTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
* * * * *
24217733 GGGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGC-ATCGCCA
1 GGG-AAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAAT-GCCA
* * * * * *
24217784 GGGAAGTAAGATTCACCGTTTTGGCTTCAATCTTTTTAATTGCAA
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAA
24217829 CCTCAGGGGT
Statistics
Matches: 432, Mismatches: 105, Indels: 21
0.77 0.19 0.04
Matches are distributed among these distances:
49 13 0.03
50 369 0.85
51 5 0.01
52 2 0.00
53 34 0.08
54 9 0.02
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAACTGCAATGCCA
Found at i:24217335 original size:100 final size:100
Alignment explanation
Indices: 24217216--24217822 Score: 619
Period size: 100 Copynumber: 6.0 Consensus size: 100
24217206 TTTAGTCTAA
* * * *
24217216 TTAACTACAATGTCGGGGAAGTAAGATTCGCTATTGTAGCTTCGATCTGTTCCACTACACTGCCA
1 TTAACTACAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * **
24217281 GGGAAGTAAAATTCGCTGTTGTAACTTCAATCTTT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * *
24217316 TTAACTGCAATGTCGGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTATTCCACTGCACTGCTA
1 TTAACTACAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCACTGCCA
24217381 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
* * *
24217416 TTAACTGCAATGTCGGGGAAGCAAGATTCGCTATTGTAGCTTCAATCTGTTCCACTGCACCGCCA
1 TTAACTACAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCACTGCCA
*
24217481 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATATTT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
* ** * * * ** * * * *
24217516 TTAATTACAATGTTAGGGAAGCAAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCG
1 TTAACTACAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCACTGCCA
* * *
24217581 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTAT
66 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
** ** * * * ** * ** * *
24217616 TCCACTACACCG-CTAGGGAAGTAAGATTCGCCGTTGT-GACTTCAATCTTTTTAATTGCAATG-
1 TTAACTACAATGTC-GGGGAAGCAAGATTCACTATTGTAG-CTTCAATCTGTTCCACTGCACTGC
** * *
24217678 TTGGAAAGCAAGATTTACCGTCCGTTGTGGCTTCAATCTTT
64 CAGGGAAGTAAGA-TT--CG-CCGTTGTGGCTTCAATCTTT
* * * **
24217719 TTAATTGCAATGTCGGGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCA-TCGCC
1 TTAACTACAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCACT-GCC
* *
24217783 AGGGAAGTAAGATTCACCGTTTTGGCTTCAATCTTT
65 AGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
24217819 TTAA
1 TTAA
24217823 TTGCAACCTC
Statistics
Matches: 426, Mismatches: 71, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
99 11 0.03
100 338 0.79
101 1 0.00
102 3 0.01
103 62 0.15
104 11 0.03
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (100 bp):
TTAACTACAATGTCGGGGAAGCAAGATTCACTATTGTAGCTTCAATCTGTTCCACTGCACTGCCA
GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTT
Found at i:24217460 original size:150 final size:149
Alignment explanation
Indices: 24217281--24217828 Score: 673
Period size: 150 Copynumber: 3.6 Consensus size: 149
24217271 TACACTGCCA
* * * * * ** * * * *
24217281 GGGAAGTAAAATTCGCTGTTGTAACTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAGTAAGATTCA
* * * ** * * *
24217346 CTGTTGTAGCTTCAATCTATTCCACTGCACTGCTAGGGAAGTAAGATTCGCCGTTGTGGCTTCAA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATG-TAGGGAAGCAAGATTCGCCGTTGTGGCTTCAA
24217411 TCTTTTTAACTGCAATGTCG
130 TCTTTTTAACTGCAATGTCG
** * *
24217431 GGGAAGCAAGATTCGCTATTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAGTAAGATTCA
* * * *
24217496 CCGTTGTGGCTTCAATATTTTTAATTACAATGTTAGGGAAGCAAGATTCACTGTTGTGGCTTCAA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATG-TAGGGAAGCAAGATTCGCCGTTGTGGCTTCAA
*
24217561 TCTTTTTAATTGCAATGTCG
130 TCTTTTTAACTGCAATGTCG
* * * * *
24217581 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTATTCCACTACACCGCTAGGGAAGTAAGATTCG
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAGTAAGATTCA
* * *
24217646 CCGTTGTGACTTCAATCTTTTTAATTGCAATGTTGGAAAGCAAGATTTACCGTCCGTTGTGGCTT
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAATGTAGGGAAGCAAGA-TT--CG-CCGTTGTGGCTT
*
24217711 CAATCTTTTTAATTGCAATGTCG
127 CAATCTTTTTAACTGCAATGTCG
* * *
24217734 GGAAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCATCGCCAGGGAAGTAAGATTCA
1 GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAGTAAGATTCA
*
24217799 CCGTTTTGGCTTCAATCTTTTTAATTGCAA
66 CCGTTGTGGCTTCAATCTTTTTAATTGCAA
24217829 CCTCAGGGGT
Statistics
Matches: 346, Mismatches: 48, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
149 11 0.03
150 214 0.62
152 1 0.00
153 120 0.35
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (149 bp):
GGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCACTGCAACGCCAGGGAAGTAAGATTCA
CCGTTGTGGCTTCAATCTTTTTAATTGCAATGTAGGGAAGCAAGATTCGCCGTTGTGGCTTCAAT
CTTTTTAACTGCAATGTCG
Found at i:24217836 original size:50 final size:50
Alignment explanation
Indices: 24217305--24217828 Score: 464
Period size: 50 Copynumber: 10.4 Consensus size: 50
24217295 GCTGTTGTAA
* * *
24217305 CTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACTGTTGTAG
1 CTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTTGTGG
* ** * * *
24217355 CTTCAATCTATTCCACTGCACTG-CTAGGGAAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTTTTTAACTGCAATGTC-AGGGAAGCAAGATTCACCGTTGTGG
* * ** *
24217405 CTTCAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCGCTATTGTAG
1 CTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTTGTGG
* ** ** * * *
24217455 CTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCGCCGTTGTGG
1 CTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTTGTGG
* * * * *
24217505 CTTCAATATTTTTAATTACAATGTTAGGGAAGCAAGATTCACTGTTGTGG
1 CTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTTGTGG
* * * *
24217555 CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTGTAG
1 CTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTTGTGG
* ** * ** * * *
24217605 CTTCAATCTATTCCACTACACCG-CTAGGGAAGTAAGATTCGCCGTTGTGA
1 CTTCAATCTTTTTAACTGCAATGTC-AGGGAAGCAAGATTCACCGTTGTGG
* * * *
24217655 CTTCAATCTTTTTAATTGCAATGT-TGGAAAGCAAGATTTACCGTCCGTTGTGG
1 CTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGA-TT--C-ACCGTTGTGG
* *
24217708 CTTCAATCTTTTTAATTGCAATGTC-GGGAAAGCAAGATTCACCGTTGTAG
1 CTTCAATCTTTTTAACTGCAATGTCAGGG-AAGCAAGATTCACCGTTGTGG
* ** * * *
24217758 CTTCAATCTGTTCCACTGC-ATCGCCAGGGAAGTAAGATTCACCGTTTTGG
1 CTTCAATCTTTTTAACTGCAAT-GTCAGGGAAGCAAGATTCACCGTTGTGG
*
24217808 CTTCAATCTTTTTAATTGCAA
1 CTTCAATCTTTTTAACTGCAA
24217829 CCTCAGGGGT
Statistics
Matches: 374, Mismatches: 87, Indels: 25
0.77 0.18 0.05
Matches are distributed among these distances:
49 13 0.03
50 310 0.83
51 6 0.02
52 1 0.00
53 36 0.10
54 8 0.02
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (50 bp):
CTTCAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGTTGTGG
Found at i:24218727 original size:13 final size:13
Alignment explanation
Indices: 24218709--24218746 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
24218699 CCTCTCCTTT
24218709 TTCTTTT-TTGTTC
1 TTCTTTTCTT-TTC
24218722 TTCTTTTCTTTTC
1 TTCTTTTCTTTTC
24218735 TT-TTTTCTTTTC
1 TTCTTTTCTTTTC
24218747 GTTTCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.42
13 12 0.50
14 2 0.08
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (13 bp):
TTCTTTTCTTTTC
Found at i:24218742 original size:17 final size:17
Alignment explanation
Indices: 24218707--24218757 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
24218697 GACCTCTCCT
24218707 TTTTCTTTT-TTGTTCTTC
1 TTTTCTTTTCTT-TT-TTC
24218725 TTTTCTTTTCTTTTTTC
1 TTTTCTTTTCTTTTTTC
*
24218742 TTTTCGTTTCTTTTTT
1 TTTTCTTTTCTTTTTT
24218758 TCAAGTGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 18 0.58
18 11 0.35
19 2 0.06
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTTCTTTTCTTTTTTC
Found at i:24219210 original size:14 final size:14
Alignment explanation
Indices: 24219191--24219225 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
24219181 CCGGTAGAGG
24219191 TTTTTTGTTTTTGT-
1 TTTTTTGTTTTT-TA
24219205 TTTTTTGTTTTTTA
1 TTTTTTGTTTTTTA
24219219 TTTTTTG
1 TTTTTTG
24219226 CCTCCACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 1 0.05
14 19 0.95
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (14 bp):
TTTTTTGTTTTTTA
Found at i:24221961 original size:24 final size:25
Alignment explanation
Indices: 24221934--24221986 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
24221924 GGCTCTTTCG
24221934 TGAAATTTAATACAAATG-ATGCAA
1 TGAAATTTAATACAAATGAATGCAA
* * *
24221958 TGAAATTTAATGCAGATGAATGGAA
1 TGAAATTTAATACAAATGAATGCAA
24221983 TGAA
1 TGAA
24221987 TGCAAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (25 bp):
TGAAATTTAATACAAATGAATGCAA
Found at i:24232494 original size:42 final size:42
Alignment explanation
Indices: 24232447--24232529 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 42
24232437 ATTTTTGAGG
24232447 ATATACAATCTT-AGATATGATATATGCAATCTTAGATATGAT
1 ATATACAATCTTAAGATATGAT-TATGCAATCTTAGATATGAT
* *
24232489 ATATACAATCTTAGAAGATATGATTTTGTAATCTTAGATAT
1 ATATACAATCTT--AAGATATGATTATGCAATCTTAGATAT
24232530 TTAATTTGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
42 12 0.33
44 15 0.42
45 9 0.25
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (42 bp):
ATATACAATCTTAAGATATGATTATGCAATCTTAGATATGAT
Found at i:24232509 original size:19 final size:21
Alignment explanation
Indices: 24232447--24232503 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
24232437 ATTTTTGAGG
24232447 ATATACAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
*
24232468 ATATGCAATCTTAGATATGAT
1 ATATACAATCTTAGATATGAT
24232489 ATATACAATCTTAGA
1 ATATACAATCTTAGA
24232504 AGATATGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (21 bp):
ATATACAATCTTAGATATGAT
Found at i:24233048 original size:37 final size:36
Alignment explanation
Indices: 24233007--24233079 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
24232997 TTACAGTTCA
*
24233007 AATTAGTCTTTTT-TTCATTTTCTTTAT-TTTTTTTATT
1 AATTAGT-TTTTTATTC-TTTT-TTTATATTTATTTATT
24233044 AATTAGTTTTTTATTCTTTTTTTATATTTATTTATT
1 AATTAGTTTTTTATTCTTTTTTTATATTTATTTATT
24233080 TTTAAAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
35 5 0.15
36 18 0.55
37 10 0.30
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (36 bp):
AATTAGTTTTTTATTCTTTTTTTATATTTATTTATT
Done.