Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 13 of 205
Found at i:4015814 original size:39 final size:39
Alignment explanation
Indices: 4015755--4015869 Score: 185
Period size: 39 Copynumber: 2.9 Consensus size: 39
4015745 AATACACCAG
* *
4015755 CACATAGCCTGCTAGGCACATAGCCTGAATAATCACCGA
1 CACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCGA
* *
4015794 CACAAAGCCTGCTAGGCACATAGCCCGAATAATCATCGG
1 CACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCGA
*
4015833 CACAAAGCCTACTAGGCACATAGCCCGAATAATCACC
1 CACAAAGCCTGCTAGGCACATAGCCCGAATAATCACC
4015870 ATATTTCTAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.35, C:0.32, G:0.17, T:0.16
Consensus pattern (39 bp):
CACAAAGCCTGCTAGGCACATAGCCCGAATAATCACCGA
Found at i:4019702 original size:16 final size:15
Alignment explanation
Indices: 4019675--4019725 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
4019665 AGCTCCTAAG
*
4019675 AAAGAAAGAAAAAGA
1 AAAGAAAAAAAAAGA
*
4019690 TAAAGCTAAAAAAATA-A
1 -AAAG--AAAAAAAAAGA
4019707 AAAGAAAAAAAAAGA
1 AAAGAAAAAAAAAGA
4019722 AAAG
1 AAAG
4019726 GACATAAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
14 8 0.28
15 5 0.17
16 8 0.28
17 1 0.03
18 7 0.24
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (15 bp):
AAAGAAAAAAAAAGA
Found at i:4021060 original size:23 final size:22
Alignment explanation
Indices: 4021029--4021082 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
4021019 ATAAAGACAT
4021029 GTGGAAAATAATTATCGTGCCAA
1 GTGG-AAATAATTATCGTGCCAA
*
4021052 GTGGCAAATAATTATTGTGCCAA
1 GTGG-AAATAATTATCGTGCCAA
*
4021075 ATGGAAAT
1 GTGGAAAT
4021083 TTCTTAACTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (22 bp):
GTGGAAATAATTATCGTGCCAA
Found at i:4025089 original size:14 final size:15
Alignment explanation
Indices: 4025073--4025105 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
4025063 GAGGAGGTAT
4025073 TATAAATATTTTATTA
1 TATAAATATTTTA-TA
4025089 TATAAATATTTTATA
1 TATAAATATTTTATA
4025104 TA
1 TA
4025106 CTTTATAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATAAATATTTTATA
Found at i:4027622 original size:16 final size:15
Alignment explanation
Indices: 4027597--4027629 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
4027587 GTTCTTTTTC
4027597 AATTTCTGATGGCTG
1 AATTTCTGATGGCTG
4027612 AATTGTCTGATGGCTG
1 AATT-TCTGATGGCTG
4027628 AA
1 AA
4027630 GGCACAAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.36
Consensus pattern (15 bp):
AATTTCTGATGGCTG
Found at i:4034259 original size:44 final size:45
Alignment explanation
Indices: 4034191--4034279 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 45
4034181 TTTATGGAAG
*
4034191 AAAGTGGGAAAGGGTGCCCCCCCGG-CCCCCCCCCCCCGGTTTAC
1 AAAGGGGGAAAGGGTGCCCCCCCGGCCCCCCCCCCCCCGGTTTAC
4034235 AAAGGGGGAAAGGG-GCCCCCCCCGGCCCCCCCCCCCCCGGTTTAC
1 AAAGGGGGAAAGGGTG-CCCCCCCGGCCCCCCCCCCCCCGGTTTAC
4034280 TGTGTGCTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
43 1 0.02
44 22 0.52
45 19 0.45
ACGTcount: A:0.16, C:0.47, G:0.28, T:0.09
Consensus pattern (45 bp):
AAAGGGGGAAAGGGTGCCCCCCCGGCCCCCCCCCCCCCGGTTTAC
Found at i:4034436 original size:10 final size:11
Alignment explanation
Indices: 4034411--4034435 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4034401 ATTTTCATTG
4034411 TTTTCCCTTTT
1 TTTTCCCTTTT
4034422 TTTTCCCTTTT
1 TTTTCCCTTTT
4034433 TTT
1 TTT
4034436 CTCTCTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTCCCTTTT
Found at i:4035347 original size:20 final size:20
Alignment explanation
Indices: 4035309--4035348 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4035299 CCTTAAATTG
* *
4035309 TTTTATTTATAAGATTATTA
1 TTTTATTTATAAAACTATTA
4035329 TTTTATTTATAAAACTATTA
1 TTTTATTTATAAAACTATTA
4035349 CATTAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTATTTATAAAACTATTA
Found at i:4037730 original size:23 final size:23
Alignment explanation
Indices: 4037684--4037730 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4037674 GAAAATGAAT
*
4037684 AATTTAAAAAATAAAGAGATTAA
1 AATTTAAAAAATAAAGAGACTAA
*
4037707 AATTTAACAAATAAA-ATGACTAA
1 AATTTAAAAAATAAAGA-GACTAA
4037730 A
1 A
4037731 TCCAAAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (23 bp):
AATTTAAAAAATAAAGAGACTAA
Found at i:4053275 original size:21 final size:22
Alignment explanation
Indices: 4053236--4053310 Score: 73
Period size: 21 Copynumber: 3.4 Consensus size: 22
4053226 TTTTAAAAAA
*
4053236 TTAAAGAAATAT-ATCAATATAT
1 TTAAA-AAATATAATAAATATAT
* *
4053258 TTAAAAAATTTAA-AAATAAAT
1 TTAAAAAATATAATAAATATAT
*
4053279 TTAAAAAATATAATAACAAATAT
1 TTAAAAAATATAATAA-ATATAT
4053302 TATAAAAAA
1 T-TAAAAAA
4053311 AGTATTTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
21 23 0.53
22 8 0.19
23 5 0.12
24 7 0.16
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (22 bp):
TTAAAAAATATAATAAATATAT
Found at i:4054671 original size:18 final size:19
Alignment explanation
Indices: 4054643--4054681 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
4054633 TTTTTAAAAT
4054643 TTTTTATTTTGTAAA-TAAA
1 TTTTTATTTTG-AAATTAAA
4054662 TTTTTA-TTTGAAATTAAA
1 TTTTTATTTTGAAATTAAA
4054680 TT
1 TT
4054682 ATAATTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 3 0.16
18 10 0.53
19 6 0.32
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTATTTTGAAATTAAA
Found at i:4061728 original size:29 final size:29
Alignment explanation
Indices: 4061690--4061775 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
4061680 AGCCCCTTTA
* *
4061690 AAAATAATAAAAATTTAATTTAATTTTTT
1 AAAATTATAAAAATTAAATTTAATTTTTT
4061719 AAAATTATAAAAATAATAAATTCT-A-TTTTT
1 AAAATTATAAAAAT--TAAATT-TAATTTTTT
**
4061749 ATTATTATAAAAATTAGAATTTAATTT
1 AAAATTATAAAAATTA-AATTTAATTT
4061776 CCACCTCTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
28 3 0.06
29 18 0.38
30 19 0.40
31 6 0.13
32 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
AAAATTATAAAAATTAAATTTAATTTTTT
Found at i:4061760 original size:38 final size:37
Alignment explanation
Indices: 4061688--4061760 Score: 85
Period size: 38 Copynumber: 1.9 Consensus size: 37
4061678 TTAGCCCCTT
*
4061688 TAAAAATAATAAAAATTTAATTTAATTTTTTAAAATTA
1 TAAAAATAAT-AAAATTTAATTTAATTTTATAAAATTA
* *
4061726 TAAAAATAAT-AAATTCTATTTTTATTATTATAAAA
1 TAAAAATAATAAAATT-TAATTTAATT-TTATAAAA
4061761 ATTAGAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
36 5 0.17
37 8 0.27
38 17 0.57
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.45
Consensus pattern (37 bp):
TAAAAATAATAAAATTTAATTTAATTTTATAAAATTA
Found at i:4074276 original size:23 final size:26
Alignment explanation
Indices: 4074222--4074282 Score: 85
Period size: 23 Copynumber: 2.5 Consensus size: 26
4074212 GAACTATTAT
4074222 CGGTAAGCTCATTCCGAGCTGAAGAA
1 CGGTAAGCTCATTCCGAGCTGAAGAA
4074248 CGGTAAGCTC-TAT-CGAGCT-AA-AA
1 CGGTAAGCTCAT-TCCGAGCTGAAGAA
4074271 CGGTAAGCTCAT
1 CGGTAAGCTCAT
4074283 AAGATTTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
23 12 0.36
24 3 0.09
25 7 0.21
26 11 0.33
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (26 bp):
CGGTAAGCTCATTCCGAGCTGAAGAA
Found at i:4075772 original size:41 final size:41
Alignment explanation
Indices: 4075699--4075855 Score: 170
Period size: 41 Copynumber: 3.8 Consensus size: 41
4075689 TTTTGTAAGT
* * *
4075699 TCAGGCTTTATGCCTGGCAGGCTTTATACCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* *
4075740 TCAGGCTTTATGCCTAGCAAGCTCTGTGCCGGTGAATTATA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* * ** * *
4075781 TCAGACTTTATGTCTAGCAGGCTTTGTGCTAGTGAAATGTA
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
* * * * *
4075822 TCGGGTTTTGTGCTTAGCAGGCTTTATGCCGGTG
1 TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTG
4075856 TTTTATACAA
Statistics
Matches: 94, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 94 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (41 bp):
TCAGGCTTTATGCCTAGCAGGCTTTGTGCCGGTGAATTATA
Found at i:4076710 original size:24 final size:24
Alignment explanation
Indices: 4076678--4076797 Score: 95
Period size: 24 Copynumber: 5.1 Consensus size: 24
4076668 ATGTTGCCTA
*
4076678 TTTGTTGTATATATGCTGTTAAAT
1 TTTGGTGTATATATGCTGTTAAAT
*
4076702 TTTGGTGTA-AAAGTGCTGTTAAA-
1 TTTGGTGTATATA-TGCTGTTAAAT
* * **
4076725 TTTGGTATGTATATGCTG-TCCA-
1 TTTGGTGTATATATGCTGTTAAAT
* * *
4076747 TTTGTTGTATATAAGCTGTCCAAAT
1 TTTGGTGTATATATGCTGT-TAAAT
* *
4076772 TTTGGTGTATAAATGCTGTTTAAT
1 TTTGGTGTATATATGCTGTTAAAT
4076796 TT
1 TT
4076798 GGAATATAAA
Statistics
Matches: 72, Mismatches: 19, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
22 16 0.22
23 14 0.19
24 26 0.36
25 16 0.22
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.47
Consensus pattern (24 bp):
TTTGGTGTATATATGCTGTTAAAT
Found at i:4076797 original size:70 final size:69
Alignment explanation
Indices: 4076677--4076816 Score: 201
Period size: 70 Copynumber: 2.0 Consensus size: 69
4076667 TATGTTGCCT
* * * * *
4076677 ATTTGTTGTATATATGCTGTTAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGTATGTATATGCT
1 ATTTGTTGTATATAAGCTGTCAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGAATATAAATGCT
4076742 GTCC
66 GTCC
*
4076746 ATTTGTTGTATATAAGCTGTCCAAATTTTGGTGTATAAA-TGCTGTTTAATTTGGAATATAAATG
1 ATTTGTTGTATATAAGCTGT-CAAATTTTGGTGTA-AAAGTGCTGTTAAATTTGGAATATAAATG
4076810 CTGTCC
64 CTGTCC
4076816 A
1 A
4076817 AATAGATGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
69 19 0.30
70 41 0.65
71 3 0.05
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (69 bp):
ATTTGTTGTATATAAGCTGTCAAATTTTGGTGTAAAAGTGCTGTTAAATTTGGAATATAAATGCT
GTCC
Found at i:4076799 original size:23 final size:23
Alignment explanation
Indices: 4076677--4076813 Score: 100
Period size: 23 Copynumber: 5.9 Consensus size: 23
4076667 TATGTTGCCT
* *
4076677 ATTTGTTGTATATATGCTGTTAA
1 ATTTGGTGTATAAATGCTGTTAA
4076700 ATTTTGGTGTA-AAAGTGCTGTTAA
1 A-TTTGGTGTATAAA-TGCTGTTAA
* * * **
4076724 ATTTGGTATGTATATGCTG-TCC
1 ATTTGGTGTATAAATGCTGTTAA
* *
4076746 ATTTGTTGTATATAA-GCTGTCCAA
1 ATTTGGTGTATA-AATGCTGT-TAA
*
4076770 ATTTTGGTGTATAAATGCTGTTTA
1 A-TTTGGTGTATAAATGCTGTTAA
**
4076794 ATTTGGAATATAAATGCTGT
1 ATTTGGTGTATAAATGCTGT
4076814 CCAAATAGAT
Statistics
Matches: 87, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
22 14 0.16
23 33 0.38
24 25 0.29
25 15 0.17
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.45
Consensus pattern (23 bp):
ATTTGGTGTATAAATGCTGTTAA
Found at i:4078681 original size:37 final size:36
Alignment explanation
Indices: 4078613--4078730 Score: 144
Period size: 37 Copynumber: 3.5 Consensus size: 36
4078603 AACTATAAAC
*
4078613 GCCGAATGC--ACATAT-TCACTTATACCCACCTAT
1 GCCGAATGCATACATATATCACTTATATCCACCTAT
*
4078646 GCCGAATGCATACATATATACACTTATATCTACCTAT
1 GCCGAATGCATACATATAT-CACTTATATCCACCTAT
4078683 GCCGAATGCATACA-A-AT-A--TATATCCACCTAT
1 GCCGAATGCATACATATATCACTTATATCCACCTAT
*
4078714 GCCGAATGCCTACATAT
1 GCCGAATGCATACATAT
4078731 GCACACATAA
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
31 25 0.33
32 1 0.01
33 10 0.13
35 8 0.11
36 2 0.03
37 29 0.39
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (36 bp):
GCCGAATGCATACATATATCACTTATATCCACCTAT
Found at i:4078966 original size:41 final size:41
Alignment explanation
Indices: 4078915--4079042 Score: 220
Period size: 41 Copynumber: 3.1 Consensus size: 41
4078905 AATTCATCAT
4078915 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
* * * *
4078956 GTTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
4078997 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
4079038 ATTCA
1 ATTCA
4079043 ATTCACCAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 79 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
Found at i:4079304 original size:15 final size:17
Alignment explanation
Indices: 4079263--4079306 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
4079253 TTGTTCGATC
4079263 CACATATATATATTACA
1 CACATATATATATTACA
*
4079280 CACATATATATATT-CG
1 CACATATATATATTACA
4079296 CACAT-TATATA
1 CACATATATATA
4079307 AACACAACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 6 0.23
16 6 0.23
17 14 0.54
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.36
Consensus pattern (17 bp):
CACATATATATATTACA
Found at i:4080460 original size:13 final size:13
Alignment explanation
Indices: 4080442--4080466 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4080432 CAATCAAATG
4080442 CACACAAAATAAA
1 CACACAAAATAAA
4080455 CACACAAAATAA
1 CACACAAAATAA
4080467 TATTAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:4080790 original size:43 final size:44
Alignment explanation
Indices: 4080743--4080857 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 44
4080733 ATCACAAATC
* * *
4080743 GATGCCACTGTCCCAGACAAGGTGTTATACGAAATCA-TATAAA
1 GATGCCAATGTCCCAGACAAGGTGTTACACGAAATCACAATAAA
* * * *
4080786 GATGCCAATGTCCCAGACATGGTTTTACACGTAATCACAATACA
1 GATGCCAATGTCCCAGACAAGGTGTTACACGAAATCACAATAAA
* *
4080830 -ATGCCAATGTCCCAGACATGGTCTTACA
1 GATGCCAATGTCCCAGACAAGGTGTTACA
4080858 TGTTATAACC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 59 0.94
44 4 0.06
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (44 bp):
GATGCCAATGTCCCAGACAAGGTGTTACACGAAATCACAATAAA
Found at i:4086117 original size:28 final size:28
Alignment explanation
Indices: 4086074--4086140 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
4086064 AACACCCACC
* * **
4086074 TGATTAAACGGGCTTGCCTGAAAGGGTT
1 TGATTAAATGGACTTGCCCAAAAGGGTT
4086102 TGATTAAATGGACTTGCCCAAAAGGGTT
1 TGATTAAATGGACTTGCCCAAAAGGGTT
4086130 TGATTAAATGG
1 TGATTAAATGG
4086141 GTCGTTGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (28 bp):
TGATTAAATGGACTTGCCCAAAAGGGTT
Found at i:4100554 original size:11 final size:11
Alignment explanation
Indices: 4100540--4100564 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4100530 CAATTATCCA
4100540 TTTTTTATATT
1 TTTTTTATATT
4100551 TTTTTTATATT
1 TTTTTTATATT
4100562 TTT
1 TTT
4100565 GAGATTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTATATT
Found at i:4101555 original size:26 final size:26
Alignment explanation
Indices: 4101485--4101555 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
4101475 ACATCTCGAC
* *
4101485 TCACAGCTCGTGTGAGCAGGCCCATT
1 TCACAGCTCGTGTGAGCATGACCATT
* *
4101511 TCACAACTCGTATGAGCATGACCATT
1 TCACAGCTCGTGTGAGCATGACCATT
*
4101537 TCACAGCTTGTGTGAGCAT
1 TCACAGCTCGTGTGAGCAT
4101556 ATATAGTTAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (26 bp):
TCACAGCTCGTGTGAGCATGACCATT
Found at i:4101776 original size:13 final size:13
Alignment explanation
Indices: 4101759--4101832 Score: 85
Period size: 13 Copynumber: 5.7 Consensus size: 13
4101749 GTTAAATATG
4101759 TAAATGAAATGGT
1 TAAATGAAATGGT
* *
4101772 AAAATGAAATGTT
1 TAAATGAAATGGT
*
4101785 TAGATGAAATGGT
1 TAAATGAAATGGT
* *
4101798 TATATGAAATGAT
1 TAAATGAAATGGT
*
4101811 TACATGAAATGGT
1 TAAATGAAATGGT
*
4101824 TATATGAAA
1 TAAATGAAA
4101833 ATAGATGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.46, C:0.01, G:0.20, T:0.32
Consensus pattern (13 bp):
TAAATGAAATGGT
Found at i:4101791 original size:26 final size:26
Alignment explanation
Indices: 4101762--4101832 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
4101752 AAATATGTAA
* * * *
4101762 ATGAAATGGTAAAATGAAATGTTTAG
1 ATGAAATGGTTATATGAAATGATTAC
4101788 ATGAAATGGTTATATGAAATGATTAC
1 ATGAAATGGTTATATGAAATGATTAC
4101814 ATGAAATGGTTATATGAAA
1 ATGAAATGGTTATATGAAA
4101833 ATAGATGTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.45, C:0.01, G:0.21, T:0.32
Consensus pattern (26 bp):
ATGAAATGGTTATATGAAATGATTAC
Found at i:4103138 original size:35 final size:35
Alignment explanation
Indices: 4103099--4103186 Score: 149
Period size: 35 Copynumber: 2.5 Consensus size: 35
4103089 ATAGTGTTAC
4103099 CTGGTGTGCTGGATGGTTCTGGCTCTTATGAGCAT
1 CTGGTGTGCTGGATGGTTCTGGCTCTTATGAGCAT
* *
4103134 CTGGTGTGCTAGATGGTACTGGCTCTTATGAGCAT
1 CTGGTGTGCTGGATGGTTCTGGCTCTTATGAGCAT
*
4103169 CTGGTGTGTTGGATGGTT
1 CTGGTGTGCTGGATGGTT
4103187 AACCGTGTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.12, C:0.15, G:0.35, T:0.38
Consensus pattern (35 bp):
CTGGTGTGCTGGATGGTTCTGGCTCTTATGAGCAT
Found at i:4104958 original size:17 final size:17
Alignment explanation
Indices: 4104932--4105092 Score: 69
Period size: 18 Copynumber: 9.3 Consensus size: 17
4104922 TACGAGAATT
* *
4104932 TTTTTAAAACATGAAGA
1 TTTTTGAAACATGAAAA
* ***
4104949 TTTTTGAAACAATTATTT
1 TTTTTGAAAC-ATGAAAA
*
4104967 TTTTTGAAAACACGAAAAA
1 TTTTTG-AAACATG-AAAA
* * *
4104986 TTTTTAAAACACGAGAA
1 TTTTTGAAACATGAAAA
* *
4105003 TTTTGGAGACATGAAAA
1 TTTTTGAAACATGAAAA
* *
4105020 TTTTTAAAAACACGAAAA
1 TTTTT-GAAACATGAAAA
*
4105038 TTTTTGAAA-ATCG-GAA
1 TTTTTGAAACAT-GAAAA
**
4105054 TTTTTGAAA-ATACGAGGA
1 TTTTTGAAACAT--GAAAA
*
4105072 TTTTTGAAACACG-AAA
1 TTTTTGAAACATGAAAA
4105088 TTTTT
1 TTTTT
4105093 TTGCTGAAAA
Statistics
Matches: 108, Mismatches: 28, Indels: 17
0.71 0.18 0.11
Matches are distributed among these distances:
16 20 0.19
17 35 0.32
18 42 0.39
19 11 0.10
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.36
Consensus pattern (17 bp):
TTTTTGAAACATGAAAA
Found at i:4104989 original size:18 final size:18
Alignment explanation
Indices: 4104967--4105186 Score: 170
Period size: 18 Copynumber: 12.3 Consensus size: 18
4104957 ACAATTATTT
4104967 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACG-AAAA
*
4104986 TTTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
* * *
4105003 -TTTTGGAGACATGAAAA
1 TTTTTGAAAACACGAAAA
*
4105020 TTTTTAAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
4105038 TTTTTGAAAA-TCG-GAA
1 TTTTTGAAAACACGAAAA
* **
4105054 TTTTTGAAAATACGAGGA
1 TTTTTGAAAACACGAAAA
*
4105072 TTTTTG-AAACACGAAATTT
1 TTTTTGAAAACACGAAA--A
*
4105091 TTTTGCTGAAAACAAGAAAA
1 TTTT--TGAAAACACGAAAA
**
4105111 TTTTTGAAAA-ACGGGAA
1 TTTTTGAAAACACGAAAA
*
4105128 TTTTTGAAAACACGGGAAATT
1 TTTTTGAAAACAC--GAAA-A
4105149 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
4105167 TTTTT-AAAACAC--AAA
1 TTTTTGAAAACACGAAAA
4105182 TTTTT
1 TTTTT
4105187 TTTTGAAAAC
Statistics
Matches: 161, Mismatches: 27, Indels: 30
0.74 0.12 0.14
Matches are distributed among these distances:
15 8 0.05
16 16 0.10
17 43 0.27
18 51 0.32
19 13 0.08
20 6 0.04
21 15 0.09
22 9 0.06
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:4105093 original size:17 final size:17
Alignment explanation
Indices: 4104966--4105187 Score: 87
Period size: 17 Copynumber: 12.4 Consensus size: 17
4104956 AACAATTATT
4104966 TTTTTTGAAAACACGAAAA
1 TTTTTTG-AAACACG-AAA
* *
4104985 ATTTTTAAAACACGAGAA
1 TTTTTTGAAACACGA-AA
* * *
4105003 -TTTTGGAGACATGAAAA
1 TTTTTTGAAACACG-AAA
**
4105020 TTTTTAAAAACACGAAA
1 TTTTTTGAAACACGAAA
* *
4105037 ATTTTTGAAA-ATCGGAA
1 TTTTTTGAAACA-CGAAA
* *
4105054 -TTTTTGAAAATACGAGGA
1 TTTTTTG-AAACACGA-AA
4105072 -TTTTTGAAACACGAAA
1 TTTTTTGAAACACGAAA
*
4105088 TTTTTTTGCTGAAAACAAGAAA
1 --TTTTT--TG-AAACACGAAA
* * *
4105110 ATTTTTGAAAAACGGGAA
1 TTTTTTGAAACAC-GAAA
4105128 -TTTTTGAAAACACGGGAAA
1 TTTTTTG-AAACAC--GAAA
4105147 TTTTTTTGAAAACACGAAA
1 -TTTTTTG-AAACACGAAA
* *
4105166 ATTTTTAAAACAC-AAA
1 TTTTTTGAAACACGAAA
4105182 TTTTTT
1 TTTTTT
4105188 TTTGAAAACA
Statistics
Matches: 157, Mismatches: 28, Indels: 39
0.70 0.12 0.17
Matches are distributed among these distances:
16 16 0.10
17 54 0.34
18 42 0.27
19 17 0.11
20 4 0.03
21 15 0.10
22 9 0.06
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (17 bp):
TTTTTTGAAACACGAAA
Found at i:4105159 original size:56 final size:56
Alignment explanation
Indices: 4105052--4105175 Score: 159
Period size: 56 Copynumber: 2.2 Consensus size: 56
4105042 TGAAAATCGG
4105052 AATTTTTGAAAATACGAGGATTTTTGAAACACGAAATTTTTTTGCTGAAAACAAGAA
1 AATTTTTGAAAATACGAGGATTTTTGAAACACGAAATTTTTTT-CTGAAAACAAGAA
*
4105109 AATTTTTGAAAA-ACG-GGAATTTTTGAAAACACGGGAAA-TTTTTT-TGAAAACACGAA
1 AATTTTTGAAAATACGAGG-ATTTTTG-AAACAC--GAAATTTTTTTCTGAAAACAAGAA
4105165 AATTTTT-AAAA
1 AATTTTTGAAAA
4105176 CACAAATTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 10
0.85 0.01 0.14
Matches are distributed among these distances:
55 6 0.10
56 28 0.45
57 18 0.29
58 6 0.10
59 4 0.06
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (56 bp):
AATTTTTGAAAATACGAGGATTTTTGAAACACGAAATTTTTTTCTGAAAACAAGAA
Found at i:4105296 original size:17 final size:17
Alignment explanation
Indices: 4105272--4105321 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
4105262 TTTTATTATT
4105272 ATTTTTGAAACACGAGAA
1 ATTTTTGAAACACGA-AA
* *
4105290 A-TTTTGAAAATATGAAA
1 ATTTTTG-AAACACGAAA
4105307 ATTTTTGAAACACGA
1 ATTTTTGAAACACGA
4105322 TTAGTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (17 bp):
ATTTTTGAAACACGAAA
Found at i:4105938 original size:26 final size:26
Alignment explanation
Indices: 4105895--4105963 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 26
4105885 ACTGCTGCTA
4105895 CTGGGCTGCTGCGTCTGGGCC-GCAGGATG
1 CTGGGCTGCT--G-CTGGGCCTGCA-GATG
* *
4105924 CTGGGCTGCTGCTGGGCCTTCAGCTG
1 CTGGGCTGCTGCTGGGCCTGCAGATG
*
4105950 TTGGGCTGCTGCTG
1 CTGGGCTGCTGCTG
4105964 TTTTTTCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 23 0.64
27 3 0.08
29 10 0.28
ACGTcount: A:0.04, C:0.28, G:0.42, T:0.26
Consensus pattern (26 bp):
CTGGGCTGCTGCTGGGCCTGCAGATG
Found at i:4106012 original size:30 final size:28
Alignment explanation
Indices: 4105978--4106060 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 28
4105968 TTCTTTGGCA
*
4105978 GGCCTGCTGTTGGGCTGCTGGGAGTGGACT-
1 GGCCTGCTGTTGGGCTGCTGGAAG-GG--TG
4106008 GGCCTGCTGGTGTTGGGCTGCTGGAAGGGTG
1 GGCCTGC---TGTTGGGCTGCTGGAAGGGTG
4106039 GGCCTGCTGTTGTGGCCTGCTG
1 GGCCTGCTGTTG-GG-CTGCTG
4106061 TTTTTTTTGT
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
28 5 0.11
29 2 0.04
30 14 0.30
31 7 0.15
32 2 0.04
33 16 0.35
ACGTcount: A:0.05, C:0.20, G:0.47, T:0.28
Consensus pattern (28 bp):
GGCCTGCTGTTGGGCTGCTGGAAGGGTG
Found at i:4106204 original size:7 final size:7
Alignment explanation
Indices: 4106191--4106261 Score: 63
Period size: 7 Copynumber: 9.4 Consensus size: 7
4106181 TGTTTTTCCC
4106191 CTTTTTT
1 CTTTTTT
4106198 -TTCTTTT
1 CTT-TTTT
4106205 CTTTTTT
1 CTTTTTT
*
4106212 CTTTTTCC
1 CTTTTT-T
4106220 CTTTTTT
1 CTTTTTT
4106227 CTTTTTCT
1 CTTTTT-T
4106235 CCTTCTTTTT
1 -C-T-TTTTT
*
4106245 CTTCTTT
1 CTTTTTT
4106252 CTTTTTT
1 CTTTTTT
4106259 CTT
1 CTT
4106262 CTTCTTCGGC
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
6 2 0.04
7 33 0.62
8 10 0.19
9 2 0.04
10 2 0.04
11 4 0.08
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (7 bp):
CTTTTTT
Found at i:4106210 original size:6 final size:6
Alignment explanation
Indices: 4106195--4106267 Score: 58
Period size: 6 Copynumber: 11.3 Consensus size: 6
4106185 TTTCCCCTTT
**
4106195 TTTTTC -TTTTC TTTTTTC TTTTTCCC TTTTTTC TTTTTC TCCTTC TTTTTC
1 TTTTTC TTTTTC -TTTTTC TTTTT--C -TTTTTC TTTTTC TTTTTC TTTTTC
*
4106246 TTCTTTC TTTTTTC TTCTTC TT
1 TT-TTTC -TTTTTC TTTTTC TT
4106268 CGGCAGCACC
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
5 5 0.09
6 28 0.51
7 14 0.25
8 3 0.05
9 5 0.09
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:4106243 original size:26 final size:26
Alignment explanation
Indices: 4106214--4106267 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
4106204 TCTTTTTTCT
*
4106214 TTTTCCCTTTTTTC-TTTTTCTCCTTC
1 TTTT-CCTTCTTTCTTTTTTCTCCTTC
* *
4106240 TTTTTCTTCTTTCTTTTTTCTTCTTC
1 TTTTCCTTCTTTCTTTTTTCTCCTTC
4106266 TT
1 TT
4106268 CGGCAGCACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTTCCTTCTTTCTTTTTTCTCCTTC
Found at i:4106420 original size:20 final size:20
Alignment explanation
Indices: 4106396--4106440 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
4106386 TGCTCTTTCT
4106396 CTTTTTTCTCT-TTTGCTTG
1 CTTTTTTCTCTCTTTGCTTG
* *
4106415 CTTTTTTCTTTCTTTGTTTG
1 CTTTTTTCTCTCTTTGCTTG
4106435 CTTTTT
1 CTTTTT
4106441 ATGTTTAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.00, C:0.18, G:0.09, T:0.73
Consensus pattern (20 bp):
CTTTTTTCTCTCTTTGCTTG
Found at i:4106484 original size:17 final size:17
Alignment explanation
Indices: 4106464--4106497 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4106454 GACGGTGGAA
*
4106464 CGACGATGGTGGTGGCG
1 CGACGATCGTGGTGGCG
*
4106481 CGACGGTCGTGGTGGCG
1 CGACGATCGTGGTGGCG
4106498 GTGGGGGCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.21, G:0.53, T:0.18
Consensus pattern (17 bp):
CGACGATCGTGGTGGCG
Found at i:4106794 original size:30 final size:29
Alignment explanation
Indices: 4106747--4106981 Score: 260
Period size: 30 Copynumber: 8.0 Consensus size: 29
4106737 TAAACTCAGT
* *
4106747 AAAATTTTTGGGGTTAAAATGTAATTTTG
1 AAAAGTTTAGGGGTTAAAATGTAATTTTG
*
4106776 ATAAAGTTTAGAGGTTAAAATGTAATTTAT-
1 A-AAAGTTTAGGGGTTAAAATGTAATTT-TG
*
4106806 AAAAGTTTA-GGGTTGAAATGTAATTTTG
1 AAAAGTTTAGGGGTTAAAATGTAATTTTG
* **
4106834 AAAAATTTAGGGGTTGGAATGTAATTTT-
1 AAAAGTTTAGGGGTTAAAATGTAATTTTG
* * *
4106862 AAAATGGTTTAGGGATTGAATTGTAATTTTG
1 AAAA--GTTTAGGGGTTAAAATGTAATTTTG
* *
4106893 AAAAATTTAGGGGTTGAAATGTAATTTTG
1 AAAAGTTTAGGGGTTAAAATGTAATTTTG
*
4106922 AAAAAGTTTAGGGGTTAAAATGTAATTTTAA
1 -AAAAGTTTAGGGGTTAAAATGTAATTTT-G
*
4106953 AAAAGTTTAGGGGTCAAAATGTAAATTTT
1 AAAAGTTTAGGGGTTAAAATGT-AATTTT
4106982 TTAATTAATT
Statistics
Matches: 178, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
27 1 0.01
28 27 0.15
29 48 0.27
30 91 0.51
31 11 0.06
ACGTcount: A:0.38, C:0.00, G:0.22, T:0.39
Consensus pattern (29 bp):
AAAAGTTTAGGGGTTAAAATGTAATTTTG
Found at i:4106838 original size:29 final size:29
Alignment explanation
Indices: 4106757--4106964 Score: 246
Period size: 29 Copynumber: 7.1 Consensus size: 29
4106747 AAAATTTTTG
* *
4106757 GGGTTAAAATGTAATTTTGATAAAGTTTA
1 GGGTTGAAATGTAATTTTGAAAAAGTTTA
*
4106786 GAGGTTAAAATGTAA-TTT-ATAAAAGTTTA
1 G-GGTTGAAATGTAATTTTGA-AAAAGTTTA
4106815 GGGTTGAAATGTAATTTTGAAAAA-TTTA
1 GGGTTGAAATGTAATTTTGAAAAAGTTTA
* *
4106843 GGGGTTGGAATGTAATTTT-AAAATGGTTTA
1 -GGGTTGAAATGTAATTTTGAAAA-AGTTTA
*
4106873 GGGATTGAATTGTAATTTTGAAAAA-TTTA
1 GGG-TTGAAATGTAATTTTGAAAAAGTTTA
4106902 GGGGTTGAAATGTAATTTTGAAAAAGTTTA
1 -GGGTTGAAATGTAATTTTGAAAAAGTTTA
* *
4106932 GGGGTTAAAATGTAATTTTAAAAAAGTTTA
1 -GGGTTGAAATGTAATTTTGAAAAAGTTTA
4106962 GGG
1 GGG
4106965 GTCAAAATGT
Statistics
Matches: 158, Mismatches: 10, Indels: 22
0.83 0.05 0.12
Matches are distributed among these distances:
28 21 0.13
29 67 0.42
30 66 0.42
31 4 0.03
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (29 bp):
GGGTTGAAATGTAATTTTGAAAAAGTTTA
Found at i:4106892 original size:59 final size:56
Alignment explanation
Indices: 4106757--4106981 Score: 270
Period size: 59 Copynumber: 3.8 Consensus size: 56
4106747 AAAATTTTTG
* * * *
4106757 GGGTTAAAATGTAATTTTGATAAAGTTTAGAGGTTAAAATGTAATTTATAAAAGTTTA
1 GGGTTGAAATGTAATTTTGA-AAAATTTAGGGGTTGAAATGTAATTT-TAAAAGTTTA
*
4106815 GGGTTGAAATGTAATTTTGAAAAATTTAGGGGTTGGAATGTAATTTTAAAATGGTTTA
1 GGGTTGAAATGTAATTTTGAAAAATTTAGGGGTTGAAATGTAATTTTAAAA--GTTTA
*
4106873 GGGATTGAATTGTAATTTTGAAAAATTTAGGGGTTGAAATGTAATTTTGAAAAAGTTTA
1 GGG-TTGAAATGTAATTTTGAAAAATTTAGGGGTTGAAATGTAATTTT--AAAAGTTTA
* * **
4106932 GGGGTTAAAATGTAATTTTAAAAAAGTTTAGGGGTCAAAATGTAAATTTT
1 -GGGTTGAAATGTAATTTTGAAAAA-TTTAGGGGTTGAAATGT-AATTTT
4106982 TTAATTAATT
Statistics
Matches: 147, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
56 5 0.03
57 22 0.15
58 27 0.18
59 65 0.44
60 18 0.12
61 10 0.07
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.39
Consensus pattern (56 bp):
GGGTTGAAATGTAATTTTGAAAAATTTAGGGGTTGAAATGTAATTTTAAAAGTTTA
Found at i:4107962 original size:42 final size:41
Alignment explanation
Indices: 4107913--4108056 Score: 166
Period size: 42 Copynumber: 3.4 Consensus size: 41
4107903 AAAGCCAGCT
*
4107913 ATGGTCTTACACGAATCTCATATCGATACCAATGTCTCAAAC
1 ATGGTCTTACACGAATCTCATA-CGATGCCAATGTCTCAAAC
* * * *
4107955 ATAGTCTTACACTAATCTTATACAGATGCCAATGT-TCTAGAC
1 ATGGTCTTACACGAATCTCATAC-GATGCCAATGTCTC-AAAC
*
4107997 ATGGTCTTACACGAATCTCATAACGATGCCAATGTC-CAAGGC
1 ATGGTCTTACACGAATCTCAT-ACGATGCCAATGTCTCAA-AC
4108039 ATGGTCTTACACGTAATC
1 ATGGTCTTACACG-AATC
4108057 ACATCTCAGT
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
41 4 0.05
42 76 0.88
43 6 0.07
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (41 bp):
ATGGTCTTACACGAATCTCATACGATGCCAATGTCTCAAAC
Found at i:4113382 original size:52 final size:51
Alignment explanation
Indices: 4113304--4113407 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 51
4113294 ATGTGTTGGA
*
4113304 CGTTCTTGTAGATGACTGACGCATCTGTTTTACTCTTTCAGCAGCATCAAG
1 CGTTCTTGTAGATGACTGAAGCATCTGTTTTACTCTTTCAGCAGCATCAAG
*
4113355 NCGTTCTTGTAGATGACTGAAGCATCTGTTTTACTCTTTGAGCAGCATCAAG
1 -CGTTCTTGTAGATGACTGAAGCATCTGTTTTACTCTTTCAGCAGCATCAAG
4113407 C
1 C
4113408 TTCCTTTCTG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 1 0.02
52 49 0.98
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (51 bp):
CGTTCTTGTAGATGACTGAAGCATCTGTTTTACTCTTTCAGCAGCATCAAG
Found at i:4119367 original size:27 final size:26
Alignment explanation
Indices: 4119336--4119396 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
4119326 AAATTAGAAC
*
4119336 AAAATATATTTA-TAAACATATTTTATA
1 AAAATATATTAATTAAA-ATATTTTA-A
4119363 AAAAT-TAATTAATTAAAATATTTTAA
1 AAAATAT-ATTAATTAAAATATTTTAA
*
4119389 ATAATATA
1 AAAATATA
4119397 ACTCAAAGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
26 7 0.24
27 18 0.62
28 4 0.14
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
AAAATATATTAATTAAAATATTTTAA
Found at i:4122574 original size:29 final size:31
Alignment explanation
Indices: 4122542--4122602 Score: 99
Period size: 30 Copynumber: 2.0 Consensus size: 31
4122532 TCCCCTATTT
*
4122542 ACTTTT-CCCTAAAATTTTTACTCC-CTCCC
1 ACTTTTCCCCTAAAACTTTTACTCCTCTCCC
4122571 ACTTTTCCCCTAAAACTTTTACTCCTCTCCC
1 ACTTTTCCCCTAAAACTTTTACTCCTCTCCC
4122602 A
1 A
4122603 TCCCAACCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 6 0.21
30 17 0.59
31 6 0.21
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (31 bp):
ACTTTTCCCCTAAAACTTTTACTCCTCTCCC
Found at i:4122608 original size:127 final size:126
Alignment explanation
Indices: 4122350--4122598 Score: 353
Period size: 127 Copynumber: 2.0 Consensus size: 126
4122340 CCCTTCTATA
* * *
4122350 CCCCAAACCAATTTTCTCCCAATTTTTTTTTGAATATTTTCTTCCCAAAATTTACTTCCCTATTT
1 CCCCAAACCAATTTTCTCCCAATTTTTTTTTGAATATTTTCTCCCCAAAAGTTACTCCCCTATTT
* * **
4122415 ACTTTTCCTCCAATATTTTTACTCCCTCTCACTTTCCTCACAAATTTTTTTACTCCTCTAC
66 ACTTTTCCTCCAAAATTTTTACTCCCTCCCACTTTCCTCACAAATACTTTTACTCCTCTAC
* *
4122476 CCCCAAACCCATTTTCTCCCTATCTTTTTTTTGAATATTTTCTCCCCAAAAGTTACTCCCCTATT
1 CCCCAAACCAATTTTCTCCCAAT-TTTTTTTTGAATATTTTCTCCCCAAAAGTTACTCCCCTATT
*
4122541 TACTTTTCC-CTAAAATTTTTACTCCCTCCCACTTTTCC-C-CTAAA-ACTTTTACTCCTCT
65 TACTTTTCCTCCAAAATTTTTACTCCCTCCCAC-TTTCCTCAC-AAATACTTTTACTCCTCT
4122599 CCCATCCCAA
Statistics
Matches: 110, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
125 13 0.12
126 45 0.41
127 52 0.47
ACGTcount: A:0.22, C:0.33, G:0.01, T:0.44
Consensus pattern (126 bp):
CCCCAAACCAATTTTCTCCCAATTTTTTTTTGAATATTTTCTCCCCAAAAGTTACTCCCCTATTT
ACTTTTCCTCCAAAATTTTTACTCCCTCCCACTTTCCTCACAAATACTTTTACTCCTCTAC
Found at i:4126667 original size:14 final size:14
Alignment explanation
Indices: 4126648--4126675 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4126638 TCTTTAAAAA
4126648 GAATTAACTTATTT
1 GAATTAACTTATTT
4126662 GAATTAACTTATTT
1 GAATTAACTTATTT
4126676 TTAAAGGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
GAATTAACTTATTT
Found at i:4128976 original size:80 final size:80
Alignment explanation
Indices: 4128843--4129004 Score: 306
Period size: 80 Copynumber: 2.0 Consensus size: 80
4128833 ATTAACTTTA
* *
4128843 ATTCTCTGTAATTGATCAAGTGGGTGATATTGGTTTATATGGTTGAATTTGATTTATGAATATGT
1 ATTCTCTATAATTGATCAAGTGGGTGATATTAGTTTATATGGTTGAATTTGATTTATGAATATGT
4128908 ACCTTGAAATAAAAT
66 ACCTTGAAATAAAAT
4128923 ATTCTCTATAATTGATCAAGTGGGTGATATTAGTTTATATGGTTGAATTTGATTTATGAATATGT
1 ATTCTCTATAATTGATCAAGTGGGTGATATTAGTTTATATGGTTGAATTTGATTTATGAATATGT
4128988 ACCTTGAAATAAAAT
66 ACCTTGAAATAAAAT
4129003 AT
1 AT
4129005 ATCATCGACT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.43
Consensus pattern (80 bp):
ATTCTCTATAATTGATCAAGTGGGTGATATTAGTTTATATGGTTGAATTTGATTTATGAATATGT
ACCTTGAAATAAAAT
Found at i:4129592 original size:56 final size:56
Alignment explanation
Indices: 4129506--4129617 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
4129496 TTTAAACGGT
4129506 CATAACATCTATGTAATGATGCTGAATGGAATGATAAATATATATATATACATGTA
1 CATAACATCTATGTAATGATGCTGAATGGAATGATAAATATATATATATACATGTA
*
4129562 CATAACGTCTATGTAATGATGCTGAATGGAATGATAAATATATATATATACATGTA
1 CATAACATCTATGTAATGATGCTGAATGGAATGATAAATATATATATATACATGTA
4129618 TGTATGTGGT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.34
Consensus pattern (56 bp):
CATAACATCTATGTAATGATGCTGAATGGAATGATAAATATATATATATACATGTA
Found at i:4129820 original size:56 final size:56
Alignment explanation
Indices: 4129729--4129851 Score: 176
Period size: 55 Copynumber: 2.2 Consensus size: 56
4129719 GAGATTGGCG
* * *
4129729 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATAGCA
* *
4129786 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
*
4129841 CTGAGTGTGCG
1 CTAAGTGTGCG
4129852 GACTTAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 23 0.38
56 22 0.37
57 15 0.25
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATAGCA
Found at i:4129838 original size:27 final size:28
Alignment explanation
Indices: 4129729--4129851 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
4129719 GAGATTGGCG
* * * *
4129729 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
4129758 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
4129786 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
4129814 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
4129841 CTGAGTGTGCG
1 CTAAGTGTGCG
4129852 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.28
28 48 0.55
29 15 0.17
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:4129862 original size:27 final size:27
Alignment explanation
Indices: 4129754--4129864 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
4129744 TAAATTGTAC
* * *
4129754 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
4129782 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
4129810 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
4129837 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
4129864 A
1 A
4129865 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:4131638 original size:272 final size:272
Alignment explanation
Indices: 4131152--4131697 Score: 1038
Period size: 272 Copynumber: 2.0 Consensus size: 272
4131142 TTAACTAATA
* *
4131152 AACTGTACTAATTGGCCCAACCAAAAATTTTACAAAAATTCTACCATATAGGTATATGAGTCTAG
1 AACTGTACTAATTGGCCCAACCAAAAATTCTACAAAAATTCTACCATATAGGTATATGAGTATAG
*
4131217 TTCCAGGGAAAATTTACGGAACTGGATTTCGAGTTTCAGAACTCAAGATATGATTTTTAAAGCGA
66 TTCCAGGGAAAATTTACGAAACTGGATTTCGAGTTTCAGAACTCAAGATATGATTTTTAAAGCGA
4131282 CTAGTACGCAGATTGGCAGCTTGTCTGGGAAATGTCAAATAAGTGGTTTGAAGTCTGTTAACACC
131 CTAGTACGCAGATTGGCAGCTTGTCTGGGAAATGTCAAATAAGTGGTTTGAAGTCTGTTAACACC
*
4131347 TCGTGTTCGACTTCGGCGACGGTCTCGGGTTCGGGGTGTTACAGTAAGGGTAAACATGTTCTCAA
196 TCGTGTTCGACTCCGGCGACGGTCTCGGGTTCGGGGTGTTACAGTAAGGGTAAACATGTTCTCAA
4131412 AACTAATTGAAG
261 AACTAATTGAAG
* *
4131424 AACTGTACTAATTGGCCCGACTAAAAATTCTACAAAAATTCTACCATATAGGTATATGAGTATAG
1 AACTGTACTAATTGGCCCAACCAAAAATTCTACAAAAATTCTACCATATAGGTATATGAGTATAG
4131489 TTCCAGGGAAAATTTACGAAACTGGATTTCGAGTTTCAGAACTCAAGATATGATTTTTAAAGCGA
66 TTCCAGGGAAAATTTACGAAACTGGATTTCGAGTTTCAGAACTCAAGATATGATTTTTAAAGCGA
4131554 CTAGTACGCAGATTGGCAGCTTGTCTGGGAAATGTCAAATAAGTGGTTTGAAGTCTGTTAACACC
131 CTAGTACGCAGATTGGCAGCTTGTCTGGGAAATGTCAAATAAGTGGTTTGAAGTCTGTTAACACC
4131619 TCGTGTTCGACTCCGGCGACGGTCTCGGGTTCGGGGTGTTACAGTAAGGGTAAACATGTTCTCAA
196 TCGTGTTCGACTCCGGCGACGGTCTCGGGTTCGGGGTGTTACAGTAAGGGTAAACATGTTCTCAA
4131684 AACTAATTGAAG
261 AACTAATTGAAG
4131696 AA
1 AA
4131698 GGTTCTTCTC
Statistics
Matches: 268, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
272 268 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (272 bp):
AACTGTACTAATTGGCCCAACCAAAAATTCTACAAAAATTCTACCATATAGGTATATGAGTATAG
TTCCAGGGAAAATTTACGAAACTGGATTTCGAGTTTCAGAACTCAAGATATGATTTTTAAAGCGA
CTAGTACGCAGATTGGCAGCTTGTCTGGGAAATGTCAAATAAGTGGTTTGAAGTCTGTTAACACC
TCGTGTTCGACTCCGGCGACGGTCTCGGGTTCGGGGTGTTACAGTAAGGGTAAACATGTTCTCAA
AACTAATTGAAG
Found at i:4136808 original size:24 final size:24
Alignment explanation
Indices: 4136780--4136859 Score: 142
Period size: 24 Copynumber: 3.3 Consensus size: 24
4136770 AGTCTTGTTT
4136780 CCACCTTCTTGTGTCCTACTCTTG
1 CCACCTTCTTGTGTCCTACTCTTG
*
4136804 CCACCTTCTTGTGTCTTACTCTTG
1 CCACCTTCTTGTGTCCTACTCTTG
*
4136828 CCACCTTCTTGTGTCGTACTCTTG
1 CCACCTTCTTGTGTCCTACTCTTG
4136852 CCACCTTC
1 CCACCTTC
4136860 CTGTTCTCTG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.09, C:0.38, G:0.12, T:0.41
Consensus pattern (24 bp):
CCACCTTCTTGTGTCCTACTCTTG
Found at i:4142614 original size:6 final size:5
Alignment explanation
Indices: 4142569--4142594 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4142559 ATAACGTATC
4142569 AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT A
4142595 TAACTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:4149467 original size:5 final size:5
Alignment explanation
Indices: 4149457--4149482 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4149447 AAAGGGTAAT
4149457 GGAGA GGAGA GGAGA GGAGA GGAGA G
1 GGAGA GGAGA GGAGA GGAGA GGAGA G
4149483 AAGTAGAGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (5 bp):
GGAGA
Found at i:4151031 original size:22 final size:22
Alignment explanation
Indices: 4151005--4151064 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
4150995 GAATAAACAA
*
4151005 GGGCACATAAGTGC-TATGTTAG
1 GGGCACA-AAGTGCATATGTCAG
*
4151027 GGGCACCAGAGTGCATATGTCAG
1 GGGCA-CAAAGTGCATATGTCAG
*
4151050 GGGCACCGAAGTGCA
1 GGGCA-CAAAGTGCA
4151065 AATTATAGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 10 0.31
23 22 0.69
ACGTcount: A:0.27, C:0.20, G:0.35, T:0.18
Consensus pattern (22 bp):
GGGCACAAAGTGCATATGTCAG
Found at i:4151051 original size:23 final size:23
Alignment explanation
Indices: 4151013--4151064 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
4151003 AAGGGCACAT
*
4151013 AAGTGC-TATGTTAGGGGCACC-
1 AAGTGCATATGTCAGGGGCACCG
4151034 AGAGTGCATATGTCAGGGGCACCG
1 A-AGTGCATATGTCAGGGGCACCG
4151058 AAGTGCA
1 AAGTGCA
4151065 AATTATAGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 1 0.04
22 5 0.19
23 20 0.74
24 1 0.04
ACGTcount: A:0.27, C:0.19, G:0.35, T:0.19
Consensus pattern (23 bp):
AAGTGCATATGTCAGGGGCACCG
Found at i:4153095 original size:25 final size:25
Alignment explanation
Indices: 4153067--4153181 Score: 92
Period size: 25 Copynumber: 4.6 Consensus size: 25
4153057 CACCACAGCA
*
4153067 CTTATGAGCGTCCCGATAATTGGCT
1 CTTATGAGCTTCCCGATAATTGGCT
* * *
4153092 CTTATGAGCTTCTCGTTATTTGGCT
1 CTTATGAGCTTCCCGATAATTGGCT
*
4153117 CTTCA-GAGCTTCCTGATAATTGGCT
1 CTT-ATGAGCTTCCCGATAATTGGCT
* * *
4153142 -TGCAAGAGCTTCCCG-TTATATGGCT
1 CT-TATGAGCTTCCCGATAAT-TGGCT
**
4153167 CACATGAGCTTCCCG
1 CTTATGAGCTTCCCG
4153182 TTACATGGCT
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
24 5 0.07
25 66 0.92
26 1 0.01
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (25 bp):
CTTATGAGCTTCCCGATAATTGGCT
Found at i:4153176 original size:50 final size:51
Alignment explanation
Indices: 4153070--4153181 Score: 131
Period size: 50 Copynumber: 2.2 Consensus size: 51
4153060 CACAGCACTT
* * * * * *
4153070 ATGAGCGTCCCGATAATTGGCTCTTATGAGCTTCTCGTTATTTGGCTCTTC
1 ATGAGCTTCCCGATAATTGGCTCTCAAGAGCTTCCCGTTATATGGCTCTAC
*
4153121 A-GAGCTTCCTGATAATTGGCT-TGCAAGAGCTTCCCGTTATATGGCTC-AC
1 ATGAGCTTCCCGATAATTGGCTCT-CAAGAGCTTCCCGTTATATGGCTCTAC
4153170 ATGAGCTTCCCG
1 ATGAGCTTCCCG
4153182 TTACATGGCT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
49 3 0.06
50 47 0.92
51 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (51 bp):
ATGAGCTTCCCGATAATTGGCTCTCAAGAGCTTCCCGTTATATGGCTCTAC
Found at i:4153182 original size:25 final size:25
Alignment explanation
Indices: 4153095--4153192 Score: 83
Period size: 25 Copynumber: 3.9 Consensus size: 25
4153085 ATTGGCTCTT
* * *
4153095 ATGAGCTTCTCGTTATTTGGCTCTTC
1 ATGAGCTTCCCGTTATATGGCTC-AC
* * **
4153121 A-GAGCTTCCTGATA-ATTGGCTTGC
1 ATGAGCTTCCCGTTATA-TGGCTCAC
*
4153145 AAGAGCTTCCCGTTATATGGCTCAC
1 ATGAGCTTCCCGTTATATGGCTCAC
*
4153170 ATGAGCTTCCCGTTACATGGCTC
1 ATGAGCTTCCCGTTATATGGCTC
4153193 GAAAGAGATT
Statistics
Matches: 57, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
24 2 0.04
25 53 0.93
26 2 0.04
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATGGCTCAC
Found at i:4153199 original size:50 final size:50
Alignment explanation
Indices: 4153072--4153199 Score: 125
Period size: 50 Copynumber: 2.6 Consensus size: 50
4153062 CAGCACTTAT
* ** * * * *
4153072 GAGCGTCCCGATAATTGGCTCTTATGAGCTTCTCGTTATTTGGCTCTTCA
1 GAGCTTCCCGATAATTGGCTCGAAAGAGCTTCCCGTTATATGGCTCTACA
* * *
4153122 GAGCTTCCTGATAATTGGCTTGCAAGAGCTTCCCGTTATATGGCTC-ACA
1 GAGCTTCCCGATAATTGGCTCGAAAGAGCTTCCCGTTATATGGCTCTACA
*
4153171 TGAGCTTCCCGTTACA-TGGCTCGAAAGAG
1 -GAGCTTCCCGATA-ATTGGCTCGAAAGAG
4153200 ATTTTCGATT
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
49 2 0.03
50 60 0.95
51 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (50 bp):
GAGCTTCCCGATAATTGGCTCGAAAGAGCTTCCCGTTATATGGCTCTACA
Found at i:4154364 original size:83 final size:87
Alignment explanation
Indices: 4154208--4154365 Score: 191
Period size: 83 Copynumber: 1.9 Consensus size: 87
4154198 CACGGTCGTG
* * * * * *
4154208 TGTCCCCTGTATTTTATAAATTTGCACAAGTCAGTATACTCAAAATTGTTCACACGGCCTAGCAC
1 TGTCCCCTGCATCTTATAAATTTGCACAAATCAGAATACTCAAAATTATTCACACGGCATAGCAC
*
4154273 ACGTGCGTGTGGCTTGGGCGTA
66 AAGTGCGTGTGGCTTGGGCGTA
* *
4154295 TGTCCCCTGCATCTTATAAA-TTGCA-AAATC-GAATGCTC-AAATTATTCACACGGCATGGCAC
1 TGTCCCCTGCATCTTATAAATTTGCACAAATCAGAATACTCAAAATTATTCACACGGCATAGCAC
4154356 ATAG-GCGTGT
66 A-AGTGCGTGT
4154366 AACCCAAGCC
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
83 27 0.44
84 7 0.11
85 4 0.07
86 5 0.08
87 18 0.30
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (87 bp):
TGTCCCCTGCATCTTATAAATTTGCACAAATCAGAATACTCAAAATTATTCACACGGCATAGCAC
AAGTGCGTGTGGCTTGGGCGTA
Found at i:4159153 original size:23 final size:23
Alignment explanation
Indices: 4159127--4159197 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 23
4159117 CTATCAGGAT
4159127 GCTCTGAAGAGCTATAACGGGAA
1 GCTCTGAAGAGCTATAACGGGAA
* *
4159150 GCTC-GCAAGAACCATATAACAGGAA
1 GCTCTG-AAG-AGC-TATAACGGGAA
4159175 GCTCATG-AGAGCTAATAACGGGA
1 GCTC-TGAAGAGCT-ATAACGGGA
4159198 CGCTGTTTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
22 1 0.03
23 8 0.21
24 12 0.32
25 16 0.42
27 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.15
Consensus pattern (23 bp):
GCTCTGAAGAGCTATAACGGGAA
Found at i:4161815 original size:37 final size:37
Alignment explanation
Indices: 4161774--4161854 Score: 89
Period size: 37 Copynumber: 2.2 Consensus size: 37
4161764 TATAAACCAT
* *
4161774 TTATTACTAAATA-ATTATAAATTA-TAATATATATTTA
1 TTATTACTAAATATATTATAAAATATTAA-AAATA-TTA
4161811 TTATT--TAAATATTATTATAAAATATTAAAAATATTA
1 TTATTACTAAATA-TATTATAAAATATTAAAAATATTA
4161847 TTATTACT
1 TTATTACT
4161855 GTTAAAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
35 6 0.16
36 8 0.22
37 19 0.51
38 4 0.11
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.49
Consensus pattern (37 bp):
TTATTACTAAATATATTATAAAATATTAAAAATATTA
Found at i:4161880 original size:18 final size:18
Alignment explanation
Indices: 4161857--4161891 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4161847 TTATTACTGT
* *
4161857 TAAAATTTATTATTAAAA
1 TAAAATGTAATATTAAAA
4161875 TAAAATGTAATATTAAA
1 TAAAATGTAATATTAAA
4161892 TAATTTTATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
TAAAATGTAATATTAAAA
Found at i:4161891 original size:31 final size:30
Alignment explanation
Indices: 4161856--4161933 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 30
4161846 ATTATTACTG
4161856 TTAAAATTTATTATTAAAATAA-AATGTAATA
1 TTAAAATTTATTATTAAAATAATAAT-T-ATA
* *
4161887 TTAAATAATT-TTATTGAAATAATTAATTATA
1 TTAAA-ATTTATTATTAAAATAA-TAATTATA
4161918 TTAATAATTTATTATT
1 TTAA-AATTTATTATT
4161934 TTATTAAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
31 26 0.67
32 10 0.26
33 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (30 bp):
TTAAAATTTATTATTAAAATAATAATTATA
Found at i:4171040 original size:31 final size:30
Alignment explanation
Indices: 4171001--4171063 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 30
4170991 GTATTTTTTT
* *
4171001 AAAAATTTGGTCCTTATTTGAGCACTTTAA
1 AAAAATTTGGCCCTTATTTGACCACTTTAA
*
4171031 AAAAGATTTGGCCCTTATTTGACCATTTTAA
1 AAAA-ATTTGGCCCTTATTTGACCACTTTAA
4171062 AA
1 AA
4171064 TGTTTAACCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 4 0.14
31 25 0.86
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (30 bp):
AAAAATTTGGCCCTTATTTGACCACTTTAA
Found at i:4175126 original size:18 final size:20
Alignment explanation
Indices: 4175079--4175128 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
4175069 ATACTTTTTG
**
4175079 AATTTGATATTTTTAATCTG
1 AATTTGATATTTTTAATCAA
*
4175099 AATGTGATATTTTT-AT-AA
1 AATTTGATATTTTTAATCAA
4175117 AATTTGATATTT
1 AATTTGATATTT
4175129 GAAAATCCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 11 0.42
19 2 0.08
20 13 0.50
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (20 bp):
AATTTGATATTTTTAATCAA
Found at i:4177012 original size:29 final size:29
Alignment explanation
Indices: 4176974--4177040 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
4176964 AAATATCTTT
* *
4176974 TAATTATTATA-ATTATTATAATTTTTTAA
1 TAATTTTTATATATTATTAT-ATTTTTAAA
* *
4177003 TAATTTTTATATGTTTTTATATTTTTAAA
1 TAATTTTTATATATTATTATATTTTTAAA
*
4177032 TAAATTTTA
1 TAATTTTTA
4177041 ATTTTTCTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 26 0.81
30 6 0.19
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (29 bp):
TAATTTTTATATATTATTATATTTTTAAA
Found at i:4177019 original size:20 final size:19
Alignment explanation
Indices: 4176980--4177029 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
4176970 CTTTTAATTA
*
4176980 TTATAATTATTATAATTTT
1 TTATAATTTTTATAATTTT
4176999 TTAATAATTTTTAT-ATGTTT
1 TT-ATAATTTTTATAAT-TTT
4177019 TTAT-ATTTTTA
1 TTATAATTTTTA
4177030 AATAAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 7 0.25
19 6 0.21
20 15 0.54
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTATAATTTTTATAATTTT
Found at i:4177097 original size:19 final size:21
Alignment explanation
Indices: 4177075--4177117 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
4177065 GTTTTTTTCA
*
4177075 TTTTAAATAGTT-TT-ATAAT
1 TTTTAAATAATTCTTAATAAT
4177094 TTTTAAATAATTCTTAATAAT
1 TTTTAAATAATTCTTAATAAT
4177115 TTT
1 TTT
4177118 GGTCAGTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 2 0.10
21 8 0.38
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTTAAATAATTCTTAATAAT
Found at i:4180446 original size:27 final size:27
Alignment explanation
Indices: 4180416--4180469 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
4180406 AAACGATAAC
4180416 TTCAATCAGATCTTTCACCTACGCGTT
1 TTCAATCAGATCTTTCACCTACGCGTT
* *
4180443 TTCAATCCGATCTTTCACCTATGCGTT
1 TTCAATCAGATCTTTCACCTACGCGTT
4180470 GAAAAATAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.20, C:0.30, G:0.11, T:0.39
Consensus pattern (27 bp):
TTCAATCAGATCTTTCACCTACGCGTT
Found at i:4185047 original size:72 final size:72
Alignment explanation
Indices: 4184930--4185076 Score: 276
Period size: 72 Copynumber: 2.0 Consensus size: 72
4184920 AGTTCGGAAG
*
4184930 ATGAAGTCGAAGAGACGCCAAGCCACGGCATTGCCAAAAGAAAGGCTACTGAGGTTGAGTTCCTT
1 ATGAAGTCGAAGAGACGCCAAGCCACGACATTGCCAAAAGAAAGGCTACTGAGGTTGAGTTCCTT
4184995 GGGGAGA
66 GGGGAGA
*
4185002 ATGAAGTCGAAGAGACGCCAAGCCATGACATTGCCAAAAGAAAGGCTACTGAGGTTGAGTTCCTT
1 ATGAAGTCGAAGAGACGCCAAGCCACGACATTGCCAAAAGAAAGGCTACTGAGGTTGAGTTCCTT
4185067 GGGGAGA
66 GGGGAGA
4185074 ATG
1 ATG
4185077 GTTCCACTGT
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (72 bp):
ATGAAGTCGAAGAGACGCCAAGCCACGACATTGCCAAAAGAAAGGCTACTGAGGTTGAGTTCCTT
GGGGAGA
Found at i:4189390 original size:13 final size:13
Alignment explanation
Indices: 4189373--4189406 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
4189363 CTATTCATGG
4189373 GTATTGTTCACGAA
1 GTATTGTTCAC-AA
4189387 -TATTGTTCACAA
1 GTATTGTTCACAA
4189399 GTATTGTT
1 GTATTGTT
4189407 TTTGGTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 17 0.89
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (13 bp):
GTATTGTTCACAA
Found at i:4192563 original size:24 final size:24
Alignment explanation
Indices: 4192522--4192600 Score: 113
Period size: 24 Copynumber: 3.2 Consensus size: 24
4192512 GCTTATCCAG
*
4192522 GCTTAATAACAGAAAGCACAAGCGA
1 GCTTAA-ATCAGAAAGCACAAGCGA
4192547 GCTTAAATCAGAAAGCACAAGCGA
1 GCTTAAATCAGAAAGCACAAGCGA
* **
4192571 GCTTAAATCAGAAAGCTCGTGCGA
1 GCTTAAATCAGAAAGCACAAGCGA
4192595 GCTTAA
1 GCTTAA
4192601 CGGATAACTC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
24 44 0.88
25 6 0.12
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (24 bp):
GCTTAAATCAGAAAGCACAAGCGA
Found at i:4193234 original size:26 final size:27
Alignment explanation
Indices: 4193205--4193280 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 27
4193195 AACCTGACAC
*
4193205 TTGGCGGCACCAAAGGTGCCAAA-TAA
1 TTGGCGGCACCAATGGTGCCAAAGTAA
* * *
4193231 TTGGTGGCACCATTGGTGCCAAAGTCA
1 TTGGCGGCACCAATGGTGCCAAAGTAA
*
4193258 TTGGCGGTACC-ATGGTGCCAAAG
1 TTGGCGGCACCAATGGTGCCAAAG
4193281 GAAAAAATGT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 31 0.74
27 11 0.26
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.21
Consensus pattern (27 bp):
TTGGCGGCACCAATGGTGCCAAAGTAA
Found at i:4193378 original size:19 final size:19
Alignment explanation
Indices: 4193351--4193420 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
4193341 TCAACTCATT
*
4193351 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
4193370 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
4193388 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
4193407 TTTTAATTTAATAA
1 TTTTAATTTAATAA
4193421 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:4193401 original size:37 final size:37
Alignment explanation
Indices: 4193356--4193426 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
4193346 TCATTTTTTT
4193356 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
4193393 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
4193427 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:4193774 original size:20 final size:19
Alignment explanation
Indices: 4193735--4193775 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4193725 ACTTAATAGT
* *
4193735 TTATTAAATTAAAATAGAG
1 TTATTAAATAAAAAAAGAG
4193754 TTATTAAATAAAAAAATGAG
1 TTATTAAATAAAAAAA-GAG
4193774 TT
1 TT
4193776 GAAGGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (19 bp):
TTATTAAATAAAAAAAGAG
Found at i:4194027 original size:37 final size:37
Alignment explanation
Indices: 4193985--4194055 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
4193975 AGTATTACTT
4193985 AATAGTTTATTAAATTAAAATAGAGTTACTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTACTAAATGAG
*
4194022 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTACTAAAT
4194056 AAAAAAAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.49, C:0.01, G:0.11, T:0.38
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTACTAAATGAG
Found at i:4194060 original size:19 final size:19
Alignment explanation
Indices: 4193991--4194059 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
4193981 ACTTAATAGT
4193991 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * * *
4194010 TTACTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
4194028 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
4194047 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
4194060 AAAAGAGTTG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
18 19 0.46
19 22 0.54
ACGTcount: A:0.52, C:0.01, G:0.10, T:0.36
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:4194245 original size:27 final size:27
Alignment explanation
Indices: 4194212--4194305 Score: 133
Period size: 27 Copynumber: 3.6 Consensus size: 27
4194202 GTTTTTTTTG
4194212 ATATATTTTGGTAAATAAAAAAAGTTT
1 ATATATTTTGGTAAATAAAAAAAGTTT
*
4194239 ATATATTTTGGT--A-AAAAAAAGTTC
1 ATATATTTTGGTAAATAAAAAAAGTTT
*
4194263 AAATATTTTGGTAAATAAAAAAAGTTGT
1 ATATATTTTGGTAAATAAAAAAAGTT-T
4194291 A-ATATTTTGGTAAAT
1 ATATATTTTGGTAAAT
4194306 TTTTATTTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
24 21 0.35
25 1 0.02
26 1 0.02
27 36 0.60
28 1 0.02
ACGTcount: A:0.47, C:0.01, G:0.13, T:0.39
Consensus pattern (27 bp):
ATATATTTTGGTAAATAAAAAAAGTTT
Found at i:4194440 original size:5 final size:5
Alignment explanation
Indices: 4194411--4194449 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
4194401 TGAATTTAGC
* *
4194411 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
4194450 CCTCTTAGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:4202128 original size:36 final size:36
Alignment explanation
Indices: 4202087--4202211 Score: 232
Period size: 36 Copynumber: 3.5 Consensus size: 36
4202077 GGTAGCTTTA
4202087 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
4202123 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
4202159 GCTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
4202195 GCTATACTTATCTGATC
1 GCTACACTTATCTGATC
4202212 GCTACACTTA
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 88 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:4202220 original size:17 final size:17
Alignment explanation
Indices: 4202195--4202228 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4202185 AGTGATAAGT
*
4202195 GCTATACTTATCTGATC
1 GCTACACTTATCTGATC
4202212 GCTACACTTATCTGATC
1 GCTACACTTATCTGATC
4202229 AAAGTAGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (17 bp):
GCTACACTTATCTGATC
Found at i:4202302 original size:45 final size:44
Alignment explanation
Indices: 4202232--4202317 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 44
4202222 TCTGATCAAA
*
4202232 GTAGCCTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAATG
1 GTAGCCTTAGCTACACTTATCTGATC-AGGGAC-AAGTGATAAATG
4202278 GTAGCC-TAGCTACACTTATCTGATCAGGGACAAGTGATAA
1 GTAGCCTTAGCTACACTTATCTGATCAGGGACAAGTGATAA
4202318 GTGATCATAC
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
43 9 0.23
44 5 0.13
45 19 0.49
46 6 0.15
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
GTAGCCTTAGCTACACTTATCTGATCAGGGACAAGTGATAAATG
Found at i:4207914 original size:24 final size:24
Alignment explanation
Indices: 4207886--4207983 Score: 92
Period size: 24 Copynumber: 4.0 Consensus size: 24
4207876 TCCAAGCCAA
*
4207886 ATAACAGAAAGCTCATGTGAGCTT
1 ATAACAGAAAGCTCATGCGAGCTT
* * *
4207910 ATAACGGAAAGCTTAT-CCAGGCTT
1 ATAACAGAAAGCTCATGCGA-GCTT
* **
4207934 AATAACAGGAAGCTCATAAGAGCTT
1 -ATAACAGAAAGCTCATGCGAGCTT
4207959 A-AATCAGAAAGCTCATGCGAGCTT
1 ATAA-CAGAAAGCTCATGCGAGCTT
4207983 A
1 A
4207984 ACGGGTAACT
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
23 3 0.05
24 37 0.64
25 17 0.29
26 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (24 bp):
ATAACAGAAAGCTCATGCGAGCTT
Found at i:4208200 original size:24 final size:23
Alignment explanation
Indices: 4208173--4208223 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
4208163 GTATCAGAAA
*
4208173 GCTCAAGAGAGCTTATATCGGGAT
1 GCTCAAGAGAGC-TATATCGGGAC
* * *
4208197 GCTCATGTGATCTATATCGGGAC
1 GCTCAAGAGAGCTATATCGGGAC
4208220 GCTC
1 GCTC
4208224 TTGCAAGCTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (23 bp):
GCTCAAGAGAGCTATATCGGGAC
Found at i:4211649 original size:25 final size:24
Alignment explanation
Indices: 4211602--4211657 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
4211592 TTTCATGTCA
4211602 ATAAATAATTTAAAATTATAAAAAT
1 ATAAA-AATTTAAAATTATAAAAAT
*
4211627 ATAAAAATTT-AAATTATAAAAAA
1 ATAAAAATTTAAAATTATAAAAAT
4211650 ATATAAAA
1 ATA-AAAA
4211658 GGTTTAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 15 0.52
24 9 0.31
25 5 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
ATAAAAATTTAAAATTATAAAAAT
Found at i:4226951 original size:33 final size:34
Alignment explanation
Indices: 4226904--4226994 Score: 114
Period size: 33 Copynumber: 2.7 Consensus size: 34
4226894 TGTGACAATG
*
4226904 TAACTTAAAAAGCATATCATACAGAAT-CAAAAA
1 TAACTTAAAAAGCATACCATACAGAATCCAAAAA
* * **
4226937 TAACATAAAAAGCATACCAGACAG-ATCCAAAGG
1 TAACTTAAAAAGCATACCATACAGAATCCAAAAA
*
4226970 TAACTTAAAAAGTATACCATACAGA
1 TAACTTAAAAAGCATACCATACAGA
4226995 TGCAACCAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
32 2 0.04
33 46 0.96
ACGTcount: A:0.54, C:0.18, G:0.10, T:0.19
Consensus pattern (34 bp):
TAACTTAAAAAGCATACCATACAGAATCCAAAAA
Found at i:4231979 original size:12 final size:13
Alignment explanation
Indices: 4231939--4231985 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
4231929 TATATGATTT
*
4231939 AACAATTATCCCC
1 AACAATTATCCAC
4231952 AACAATT-TGCCAC
1 AACAATTAT-CCAC
4231965 AACAATTAT-CAC
1 AACAATTATCCAC
*
4231977 AACAGTTAT
1 AACAATTAT
4231986 TTTAAGTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 12 0.40
13 17 0.57
14 1 0.03
ACGTcount: A:0.43, C:0.28, G:0.04, T:0.26
Consensus pattern (13 bp):
AACAATTATCCAC
Found at i:4233988 original size:19 final size:20
Alignment explanation
Indices: 4233941--4233988 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 20
4233931 TTGTCATTTT
4233941 TTAAAATTT-TAAATATTAA
1 TTAAAATTTATAAATATTAA
* *
4233960 ATAAAA--TATAAA-ATTAG
1 TTAAAATTTATAAATATTAA
4233977 TTAAAATTTATA
1 TTAAAATTTATA
4233989 TGTTATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
17 10 0.43
18 4 0.17
19 9 0.39
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
TTAAAATTTATAAATATTAA
Found at i:4236386 original size:42 final size:42
Alignment explanation
Indices: 4236316--4236399 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
4236306 TGCTGAGTTA
* *
4236316 GGTAAAGATGAGAAATTTGAGGCAGATGGTGGTCAGGAACCG
1 GGTAAAGATGAGAAATTTGAGGCAGATGGTAGCCAGGAACCG
* * * *
4236358 GGTAAAGTTGAGAATTTTGGGGCTGATGGTAGCCAGGAACCG
1 GGTAAAGATGAGAAATTTGAGGCAGATGGTAGCCAGGAACCG
4236400 CCTACTAAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.30, C:0.11, G:0.38, T:0.21
Consensus pattern (42 bp):
GGTAAAGATGAGAAATTTGAGGCAGATGGTAGCCAGGAACCG
Found at i:4255832 original size:77 final size:78
Alignment explanation
Indices: 4255722--4255871 Score: 248
Period size: 77 Copynumber: 1.9 Consensus size: 78
4255712 TCTAACTTCT
*
4255722 TAATAAAAGGATATATTTATTTTTTAAAATACAAATAATTGAGTCAAACTTAAAATCTTGTATAT
1 TAATAAAAGGATATATTTATTTTTTAAAATACAAATAATTGAATCAAACTTAAAATCTTGTATAT
4255787 ATATATTTGATGA
66 ATATATTTGATGA
* * * *
4255800 TAAT-AAATGATATATTTATTTTTTAAAATACAAATGATTGAATTAAACTTAAAATTTTGTATAT
1 TAATAAAAGGATATATTTATTTTTTAAAATACAAATAATTGAATCAAACTTAAAATCTTGTATAT
4255864 ATATATTT
66 ATATATTT
4255872 TTGGTACAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
77 63 0.94
78 4 0.06
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (78 bp):
TAATAAAAGGATATATTTATTTTTTAAAATACAAATAATTGAATCAAACTTAAAATCTTGTATAT
ATATATTTGATGA
Found at i:4264990 original size:14 final size:14
Alignment explanation
Indices: 4264971--4265002 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
4264961 GGTAGCCATT
*
4264971 AAATCCATTAATTA
1 AAATCCATTAACTA
4264985 AAATCCATTAACTA
1 AAATCCATTAACTA
4264999 AAAT
1 AAAT
4265003 AACATGTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATCCATTAACTA
Found at i:4268589 original size:31 final size:31
Alignment explanation
Indices: 4268551--4268613 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
4268541 TAACTAGTGA
4268551 TAGATTCTTAAGGATATAGCATATTCTTTAC
1 TAGATTCTTAAGGATATAGCATATTCTTTAC
4268582 TAGATTCTTAAGGATATAGCATATTCTTTAC
1 TAGATTCTTAAGGATATAGCATATTCTTTAC
4268613 T
1 T
4268614 CTTGGTTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.43
Consensus pattern (31 bp):
TAGATTCTTAAGGATATAGCATATTCTTTAC
Found at i:4269296 original size:19 final size:19
Alignment explanation
Indices: 4269274--4269313 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
4269264 TTATTTACTG
4269274 ATAGCTCAGTTATGTGTAT
1 ATAGCTCAGTTATGTGTAT
4269293 ATAGCTCAGTTATGTGTAT
1 ATAGCTCAGTTATGTGTAT
4269312 AT
1 AT
4269314 GTTGTTCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (19 bp):
ATAGCTCAGTTATGTGTAT
Found at i:4272028 original size:21 final size:22
Alignment explanation
Indices: 4272004--4272046 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4271994 AATAATAGTT
*
4272004 ACCATTGGT-TATTATATTTTA
1 ACCATTCGTCTATTATATTTTA
*
4272025 ACCATTCGTCTATTATTTTTTA
1 ACCATTCGTCTATTATATTTTA
4272047 TTGAGGGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.26, C:0.14, G:0.07, T:0.53
Consensus pattern (22 bp):
ACCATTCGTCTATTATATTTTA
Found at i:4283817 original size:3 final size:3
Alignment explanation
Indices: 4283809--4283843 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
4283799 ATACGTTAAA
4283809 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4283844 GAAACACGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4287217 original size:26 final size:26
Alignment explanation
Indices: 4287188--4287245 Score: 116
Period size: 26 Copynumber: 2.2 Consensus size: 26
4287178 TTTAGATCAC
4287188 TTCGGTGATCAATGTAACCTCCGAGA
1 TTCGGTGATCAATGTAACCTCCGAGA
4287214 TTCGGTGATCAATGTAACCTCCGAGA
1 TTCGGTGATCAATGTAACCTCCGAGA
4287240 TTCGGT
1 TTCGGT
4287246 CAAAACTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (26 bp):
TTCGGTGATCAATGTAACCTCCGAGA
Found at i:4291619 original size:15 final size:15
Alignment explanation
Indices: 4291599--4291633 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
4291589 TAATTTTATA
4291599 ATAAAAATATATTTT
1 ATAAAAATATATTTT
4291614 ATAAAAATATATTTT
1 ATAAAAATATATTTT
4291629 ATAAA
1 ATAAA
4291634 TGAGTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATAAAAATATATTTT
Found at i:4293365 original size:414 final size:414
Alignment explanation
Indices: 4292595--4293421 Score: 1636
Period size: 414 Copynumber: 2.0 Consensus size: 414
4292585 ATGTTATAAT
4292595 TTGGGGATGTACAATGCAGTTAACTCTTTATAAATTTATTATGTAATTGTTATAAAACAAAAAAG
1 TTGGGGATGTACAATGCAGTTAACTCTTTATAAATTTATTATGTAATTGTTATAAAACAAAAAAG
4292660 TAACTATAGTAAAAACAAGAGACAAAAGGAAATATATGGGACACAAAATAAGAAAATAGTTCTTT
66 TAACTATAGTAAAAACAAGAGACAAAAGGAAATATATGGGACACAAAATAAGAAAATAGTTCTTT
4292725 TTATTGTTTAATCTACAAGTGTCTTTAATGCCATTATTTACCGGCATTCTAATAAAGCATATCCC
131 TTATTGTTTAATCTACAAGTGTCTTTAATGCCATTATTTACCGGCATTCTAATAAAGCATATCCC
4292790 ATTAGTTATAAAATTAACGAGATAATAATTACCTTTATGTAAACGAAACCTTTTGAGTTACTTCC
196 ATTAGTTATAAAATTAACGAGATAATAATTACCTTTATGTAAACGAAACCTTTTGAGTTACTTCC
4292855 TTTATTTCATAGAGTGTTATGGACGTTCATAATGAATAATGAGATGTAATGTGGTAGTTTATTAA
261 TTTATTTCATAGAGTGTTATGGACGTTCATAATGAATAATGAGATGTAATGTGGTAGTTTATTAA
4292920 GAGGTTGAGAGTTTTGATTCCCATCTATGGGAATGGAACACATATCATTATCAGCTCGAGCACCC
326 GAGGTTGAGAGTTTTGATTCCCATCTATGGGAATGGAACACATATCATTATCAGCTCGAGCACCC
4292985 ACAGTAAAAAGGATTAGTCACACA
391 ACAGTAAAAAGGATTAGTCACACA
*
4293009 TTGGGGATGTACAGTGCAGTTAACTCTTTATAAATTTATTATGTAATTGTTATAAAACAAAAAAG
1 TTGGGGATGTACAATGCAGTTAACTCTTTATAAATTTATTATGTAATTGTTATAAAACAAAAAAG
4293074 TAACTATAGTAAAAACAAGAGACAAAAGGAAATATATGGGACACAAAATAAGAAAATAGTTCTTT
66 TAACTATAGTAAAAACAAGAGACAAAAGGAAATATATGGGACACAAAATAAGAAAATAGTTCTTT
4293139 TTATTGTTTAATCTACAAGTGTCTTTAATGCCATTATTTACCGGCATTCTAATAAAGCATATCCC
131 TTATTGTTTAATCTACAAGTGTCTTTAATGCCATTATTTACCGGCATTCTAATAAAGCATATCCC
4293204 ATTAGTTATAAAATTAACGAGATAATAATTACCTTTATGTAAACGAAACCTTTTGAGTTACTTCC
196 ATTAGTTATAAAATTAACGAGATAATAATTACCTTTATGTAAACGAAACCTTTTGAGTTACTTCC
*
4293269 TTTATTTCATAGAGTGTTATGGACGTTCATAATGAATAATGAGATGTAATGTGGTAGTTTCTTAA
261 TTTATTTCATAGAGTGTTATGGACGTTCATAATGAATAATGAGATGTAATGTGGTAGTTTATTAA
4293334 GAGGTTGAGAGTTTTGATTCCCATCTATGGGAATGGAACACATATCATTATCAGCTCGAGCACCC
326 GAGGTTGAGAGTTTTGATTCCCATCTATGGGAATGGAACACATATCATTATCAGCTCGAGCACCC
4293399 ACAGTAAAAAGGATTAGTCACAC
391 ACAGTAAAAAGGATTAGTCACAC
4293422 TTATCGACGA
Statistics
Matches: 411, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
414 411 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (414 bp):
TTGGGGATGTACAATGCAGTTAACTCTTTATAAATTTATTATGTAATTGTTATAAAACAAAAAAG
TAACTATAGTAAAAACAAGAGACAAAAGGAAATATATGGGACACAAAATAAGAAAATAGTTCTTT
TTATTGTTTAATCTACAAGTGTCTTTAATGCCATTATTTACCGGCATTCTAATAAAGCATATCCC
ATTAGTTATAAAATTAACGAGATAATAATTACCTTTATGTAAACGAAACCTTTTGAGTTACTTCC
TTTATTTCATAGAGTGTTATGGACGTTCATAATGAATAATGAGATGTAATGTGGTAGTTTATTAA
GAGGTTGAGAGTTTTGATTCCCATCTATGGGAATGGAACACATATCATTATCAGCTCGAGCACCC
ACAGTAAAAAGGATTAGTCACACA
Found at i:4298563 original size:18 final size:18
Alignment explanation
Indices: 4298540--4298575 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4298530 TTAATAATTT
*
4298540 TTTTATATTTTATATTCA
1 TTTTATAGTTTATATTCA
*
4298558 TTTTATAGTTTATGTTCA
1 TTTTATAGTTTATATTCA
4298576 GAGTTTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.64
Consensus pattern (18 bp):
TTTTATAGTTTATATTCA
Found at i:4302299 original size:29 final size:28
Alignment explanation
Indices: 4302267--4302353 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
4302257 TCATAAGAAC
4302267 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
4302296 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
4302320 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
4302350 ATTT
1 ATTT
4302354 CAAATTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:4302349 original size:54 final size:53
Alignment explanation
Indices: 4302279--4302474 Score: 160
Period size: 54 Copynumber: 3.8 Consensus size: 53
4302269 TTTATGAAAT
*
4302279 TATATTTAATAATAATTATTTTAAATTGTATTAAATCATATATTTTAATTAAAA
1 TATATTTAATATTAATTATTTTAAATTGTATTAAAT-ATATATTTTAATTAAAA
* * * * *
4302333 TATATTTAATATTAATTATTTCAAA-T-T-TT-CATTTA-ATTTGAA-TAAAT
1 TATATTTAATATTAATTATTTTAAATTGTATTAAATATATATTTTAATTAAAA
** * * *
4302380 TATATAAGAATATGAATTA-TTAAGAATTTTATTAAATTATATATTTTAATTAAAA
1 TATAT-TTAATATTAATTATTTTA-AATTGTATTAAA-TATATATTTTAATTAAAA
4302435 TATATTTAAT-TATAATTATGTTTAAATATG-ATTAAA-ATAT
1 TATATTTAATAT-TAATTAT-TTTAAAT-TGTATTAAATATAT
4302475 TTATTACTGA
Statistics
Matches: 110, Mismatches: 19, Indels: 27
0.71 0.12 0.17
Matches are distributed among these distances:
47 12 0.11
48 18 0.16
49 3 0.03
50 3 0.03
51 4 0.04
52 2 0.02
53 9 0.08
54 37 0.34
55 18 0.16
56 4 0.04
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (53 bp):
TATATTTAATATTAATTATTTTAAATTGTATTAAATATATATTTTAATTAAAA
Found at i:4302433 original size:18 final size:18
Alignment explanation
Indices: 4302405--4302453 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
4302395 ATTATTAAGA
4302405 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
4302422 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
4302438 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
4302454 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:4302439 original size:16 final size:16
Alignment explanation
Indices: 4302405--4302459 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
4302395 ATTATTAAGA
4302405 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
4302422 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
4302438 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
4302452 ATGTTTAA
1 AT-TTTAA
4302460 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:4302669 original size:44 final size:45
Alignment explanation
Indices: 4302604--4302694 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
4302594 ACCTCTATTC
* * *
4302604 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
4302648 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
4302693 CA
1 CA
4302695 CCTCTAATAC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:4302696 original size:16 final size:16
Alignment explanation
Indices: 4302675--4302743 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
4302665 GATTAGCTAT
4302675 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4302691 TACACCTCTAATACCAA
1 TACACCTCTAAT-CCAA
4302708 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4302724 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
4302740 TACA
1 TACA
4302744 ACGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:4302717 original size:33 final size:32
Alignment explanation
Indices: 4302675--4302743 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
4302665 GATTAGCTAT
4302675 TACACCTCTAATCCAATACACCTCTAATACCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
4302708 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
4302740 TACA
1 TACA
4302744 ACGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:4303428 original size:10 final size:10
Alignment explanation
Indices: 4303413--4303439 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
4303403 TGGTTTATTA
4303413 ATTGTTAAGC
1 ATTGTTAAGC
4303423 ATTGTTAAGC
1 ATTGTTAAGC
4303433 ATTGTTA
1 ATTGTTA
4303440 TAGATGCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (10 bp):
ATTGTTAAGC
Found at i:4304005 original size:15 final size:14
Alignment explanation
Indices: 4303981--4304016 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
4303971 CCGTGATTCA
4303981 TTTTATCATTTTAT
1 TTTTATCATTTTAT
4303995 TTTTCATCATTTTAT
1 TTTT-ATCATTTTAT
4304010 TGTTTAT
1 T-TTTAT
4304017 TCCCTCCGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 13 0.65
16 3 0.15
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTTATCATTTTAT
Found at i:4306700 original size:26 final size:26
Alignment explanation
Indices: 4306683--4306753 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 26
4306673 ATCAAATTAT
*
4306683 ATATTTTGATTAAATTATATTTAATA
1 ATATTTTGATTAAATTATAATTAATA
* *
4306709 ATATTTTTATTAAATTATATTTAATA
1 ATATTTTGATTAAATTATAATTAATA
4306735 ATAATTATT--TTAAATTATA
1 AT-ATT-TTGATTAAATTATA
4306754 TTTTTATAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
26 37 0.88
27 3 0.07
28 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (26 bp):
ATATTTTGATTAAATTATAATTAATA
Found at i:4306703 original size:16 final size:15
Alignment explanation
Indices: 4306668--4306813 Score: 59
Period size: 16 Copynumber: 9.3 Consensus size: 15
4306658 AATACTAAGA
*
4306668 ATTTTATCAAATTATAT
1 ATTTTATTAAA-T-TAT
4306685 ATTTTGATTAAATTAT
1 ATTTT-ATTAAATTAT
*
4306701 A-TTTAAT-AA-TAT
1 ATTTTATTAAATTAT
4306713 -TTTTATTAAATTAT
1 ATTTTATTAAATTAT
* *
4306727 ATTTAATAATAATTAT
1 ATTTTATTA-AATTAT
* * *
4306743 -TTTAAATTATATTTTT
1 ATTT-TATTA-AATTAT
**
4306759 ATAGTATTATATATTAT
1 ATTTTATTA-A-ATTAT
*
4306776 GATTTTAGTAAATTCATAT
1 -ATTTTATTAAA-T--TAT
4306795 ATTTTATTAAATTAT
1 ATTTTATTAAATTAT
4306810 ATTT
1 ATTT
4306814 AATAATAATT
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
12 8 0.08
13 4 0.04
14 5 0.05
15 19 0.19
16 26 0.26
17 13 0.13
18 21 0.21
19 3 0.03
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTTTATTAAATTAT
Found at i:4306745 original size:73 final size:76
Alignment explanation
Indices: 4306571--4306795 Score: 249
Period size: 73 Copynumber: 3.1 Consensus size: 76
4306561 TAAAGTAGAT
4306571 TATAAATTATATTTAATAATAATTA-TTT-TAAATTATATTTTATAGTATTATATATTATGATTT
1 TATAAATTATATTTAATAATAATTATTTTATAAATTATATTTTATAGTATTATATATTATGATTT
*
4306634 TAGTAAATTCA
66 TAATAAATTCA
* * **
4306645 TAT-AATAATATTTAATACTAAGAATTTTATCAAATTATATATTT-T-G-ATTA-A-ATTAT-A-
1 TATAAATTATATTTAATAATAATTATTTTAT-AAATTATAT-TTTATAGTATTATATATTATGAT
**
4306702 TTTAATAATATTTT
64 TTTAATAA-ATTCA
4306716 TATTAAATTATATTTAATAATAATTA-TTT-TAAATTATATTTTTATAGTATTATATATTATGAT
1 TA-TAAATTATATTTAATAATAATTATTTTATAAATTATA-TTTTATAGTATTATATATTATGAT
*
4306779 TTTAGTAAATTCA
64 TTTAATAAATTCA
4306792 TATA
1 TATA
4306796 TTTTATTAAA
Statistics
Matches: 122, Mismatches: 14, Indels: 29
0.74 0.08 0.18
Matches are distributed among these distances:
70 18 0.15
71 9 0.07
72 10 0.08
73 39 0.32
74 11 0.09
75 9 0.07
76 16 0.13
77 10 0.08
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (76 bp):
TATAAATTATATTTAATAATAATTATTTTATAAATTATATTTTATAGTATTATATATTATGATTT
TAATAAATTCA
Found at i:4306754 original size:26 final size:27
Alignment explanation
Indices: 4306691--4306825 Score: 125
Period size: 26 Copynumber: 5.0 Consensus size: 27
4306681 ATATATTTTG
*
4306691 ATTAAATTATATTTAATAAT-ATTTTT
1 ATTAAATTATATTTAATAATAATTATT
4306717 ATTAAATTATATTTAATAATAATTATT
1 ATTAAATTATATTTAATAATAATTATT
* *
4306744 -TTAAATTATATTTTTATAGT-ATTATAT
1 ATTAAATTATA-TTTAATAATAATTAT-T
* * * * *
4306771 ATTATGATTTTAGTAAATTCATATATT-TT
1 ATTA-AATTATATTTAA-TAATA-ATTATT
4306800 ATTAAATTATATTTAATAATAATTAT
1 ATTAAATTATATTTAATAATAATTAT
4306826 GTTAAAATAT
Statistics
Matches: 85, Mismatches: 15, Indels: 17
0.73 0.13 0.15
Matches are distributed among these distances:
26 38 0.45
27 18 0.21
28 13 0.15
29 12 0.14
30 1 0.01
31 3 0.04
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (27 bp):
ATTAAATTATATTTAATAATAATTATT
Done.