Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold505
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: 423124
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
File 3 of 3
Found at i:308067 original size:207 final size:208
Alignment explanation
Indices: 307697--308071 Score: 515
Period size: 207 Copynumber: 1.8 Consensus size: 208
307687 CATCTCTTTC
* * *
307697 TAAGCCCAATGTCACTGGTCTTAAATAAGCACATTAGCACCCTTATCATCTTAAAATCTAATATC
1 TAAGCCCAATGTCACTGGCCCTAAATAAGCACATTAGCAACCTTATCATCTTAAAATCTAATATC
* * * *
307762 ACTGGCCTTGAATTAGCATATTGGCACCCCTACCATCTTTAAGTCCAAGATCGCTGGTCTTGAAT
66 ACTGACCTTGAATTAGCATATTGACACCCCTACCAACTTTAAGTCCAAGATCGCTGGCCTTGAAT
* *
307827 CAGCACATTGGCACTCTCATCATCTTTAAGTCCAATGTTGCTAGCCCAGAACCAGCACATTGGCA
131 CAGCACATTGGCACTCTCACCATCTTCAAGTCCAATGTTGCTAGCCCAGAACCAGCACATTGGCA
307892 CCTTTGTCATCTT
196 CCTTTGTCATCTT
* * * *
307905 TAAGCCCAATGTCATTGGCCCTAAATCAA-CACATTAGCAACC-T-TCATTTTTATATCTAAATA
1 TAAGCCCAATGTCACTGGCCCTAAAT-AAGCACATTAGCAACCTTATCATCTTAAAATCT-AATA
* ** *
307967 TCGCTGACCTTGAATTAGCATATTGACACCTTTATCAACTTTAAGTCCAATG-TCGCTGGCCTTG
64 TCACTGACCTTGAATTAGCATATTGACACCCCTACCAACTTTAAGTCCAA-GATCGCTGGCCTTG
* * *
308031 AATCAGCATATTGGCACTTTTACCATCTTCAAGTCCAATGT
128 AATCAGCACATTGGCACTCTCACCATCTTCAAGTCCAATGT
308072 CATTGGCTTT
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
206 11 0.08
207 95 0.66
208 36 0.25
209 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (208 bp):
TAAGCCCAATGTCACTGGCCCTAAATAAGCACATTAGCAACCTTATCATCTTAAAATCTAATATC
ACTGACCTTGAATTAGCATATTGACACCCCTACCAACTTTAAGTCCAAGATCGCTGGCCTTGAAT
CAGCACATTGGCACTCTCACCATCTTCAAGTCCAATGTTGCTAGCCCAGAACCAGCACATTGGCA
CCTTTGTCATCTT
Found at i:308912 original size:20 final size:20
Alignment explanation
Indices: 308889--308975 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
308879 TTATATAATT
308889 TGTATCAA-ACAATAAGTGAA
1 TGTATCAATAC-ATAAGTGAA
*
308909 TGTATCAATTCATAAGTGAA
1 TGTATCAATACATAAGTGAA
*
308929 TGTATCGATACAATAAGTGAA
1 TGTATCAATAC-ATAAGTGAA
*
308950 TGTATCAATTCATAAGTGAA
1 TGTATCAATACATAAGTGAA
308970 TGTATC
1 TGTATC
308976 GATAGACATT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
20 41 0.68
21 19 0.32
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.32
Consensus pattern (20 bp):
TGTATCAATACATAAGTGAA
Found at i:308945 original size:41 final size:41
Alignment explanation
Indices: 308889--308979 Score: 166
Period size: 41 Copynumber: 2.2 Consensus size: 41
308879 TTATATAATT
*
308889 TGTATC-AAACAATAAGTGAATGTATCAATTCATAAGTGAA
1 TGTATCGATACAATAAGTGAATGTATCAATTCATAAGTGAA
308929 TGTATCGATACAATAAGTGAATGTATCAATTCATAAGTGAA
1 TGTATCGATACAATAAGTGAATGTATCAATTCATAAGTGAA
308970 TGTATCGATA
1 TGTATCGATA
308980 GACATTTGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 6 0.12
41 43 0.88
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (41 bp):
TGTATCGATACAATAAGTGAATGTATCAATTCATAAGTGAA
Found at i:310717 original size:13 final size:13
Alignment explanation
Indices: 310699--310725 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
310689 ACATTATGCT
310699 TTGTATCGATACA
1 TTGTATCGATACA
310712 TTGTATCGATACA
1 TTGTATCGATACA
310725 T
1 T
310726 GAGATTGGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:319581 original size:33 final size:34
Alignment explanation
Indices: 319539--319605 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
319529 TCACTATTTT
*
319539 TATCGATACATG-GTACAA-TGCATCGATACATTG
1 TATCGATACATGAGGA-AATTGCATCGATACATTG
*
319572 TATCGATACATGAGGAAATTGTATCGATACATTG
1 TATCGATACATGAGGAAATTGCATCGATACATTG
319606 CTTGTAACGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 14 0.47
34 16 0.53
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (34 bp):
TATCGATACATGAGGAAATTGCATCGATACATTG
Found at i:323685 original size:26 final size:25
Alignment explanation
Indices: 323655--323729 Score: 73
Period size: 27 Copynumber: 2.9 Consensus size: 25
323645 TTAGATTTTA
323655 ATTAATTAATCTTTCTATATT-TATATT
1 ATTAATTAAT-TTT-TAT-TTATATATT
323682 -TTAATTAATTTTTATTTATATATT
1 ATTAATTAATTTTTATTTATATATT
* *
323706 ATTATTTAAAAATTTTATTTATAT
1 ATTAATT--AATTTTTATTTATAT
323730 CAACATAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
23 2 0.05
24 9 0.21
25 8 0.19
26 9 0.21
27 14 0.33
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (25 bp):
ATTAATTAATTTTTATTTATATATT
Found at i:323704 original size:30 final size:29
Alignment explanation
Indices: 323644--323729 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 29
323634 ATGAGCTTTC
* ** * *
323644 ATTAGATTTTAATTAATTAATCTTTCTAT
1 ATTATATTTTAATTAATTTTTATTTATAT
323673 ATTTATATTTTAATTAATTTTTATTTATAT
1 A-TTATATTTTAATTAATTTTTATTTATAT
*
323703 ATTAT-TATTTAA--AAATTTTATTTATAT
1 ATTATAT-TTTAATTAATTTTTATTTATAT
323730 CAACATAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 14 0.29
28 1 0.02
29 10 0.20
30 24 0.49
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (29 bp):
ATTATATTTTAATTAATTTTTATTTATAT
Found at i:323712 original size:14 final size:13
Alignment explanation
Indices: 323676--323729 Score: 58
Period size: 14 Copynumber: 4.2 Consensus size: 13
323666 TTTCTATATT
*
323676 TATATTTTAATTA
1 TATATTTTATTTA
323689 -AT-TTTTATTTA
1 TATATTTTATTTA
323700 TATATTATTATTTA
1 TATATT-TTATTTA
* *
323714 AAAATTTTATTTA
1 TATATTTTATTTA
323727 TAT
1 TAT
323730 CAACATAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
11 8 0.24
12 4 0.12
13 10 0.30
14 11 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATATTTTATTTA
Found at i:324717 original size:12 final size:12
Alignment explanation
Indices: 324700--324724 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
324690 AATCTTTTAT
324700 TAATAATATAGA
1 TAATAATATAGA
324712 TAATAATATAGA
1 TAATAATATAGA
324724 T
1 T
324725 TTTATCATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (12 bp):
TAATAATATAGA
Found at i:324799 original size:13 final size:13
Alignment explanation
Indices: 324781--324811 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
324771 TTTTTTTTTA
324781 AATATTCATATTT
1 AATATTCATATTT
*
324794 AATATTTATATTT
1 AATATTCATATTT
324807 AATAT
1 AATAT
324812 ATATTTGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (13 bp):
AATATTCATATTT
Found at i:325746 original size:16 final size:16
Alignment explanation
Indices: 325702--325748 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
325692 ATAATTTATC
*
325702 AAAATTTATATAAAAT
1 AAAATTTATATAAATT
*
325718 AAATTATTA-ATAAATT
1 AAAAT-TTATATAAATT
325734 AAAATTTATATAAAT
1 AAAATTTATATAAAT
325749 ATATAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 3 0.12
16 20 0.77
17 3 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAAATTTATATAAATT
Found at i:325997 original size:20 final size:19
Alignment explanation
Indices: 325972--326030 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
325962 ATTTAGATAT
325972 AAATATAAATATAATTTTTA
1 AAATATAAATAT-ATTTTTA
*
325992 AGATATATAAA-ATTTTTTTA
1 A-A-ATATAAATATATTTTTA
*
326012 AAATTTAAATATATTTTTA
1 AAATATAAATATATTTTTA
326031 TCGAATCATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 6 0.18
19 9 0.27
20 8 0.24
21 3 0.09
22 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
AAATATAAATATATTTTTA
Found at i:332928 original size:20 final size:21
Alignment explanation
Indices: 332889--332929 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
332879 TCCAAATATT
*
332889 TTTTTTTGTTTTCTTGTTTCA
1 TTTTTTTCTTTTCTTGTTTCA
*
332910 TTTTTTTCTTTT-TTTTTTCA
1 TTTTTTTCTTTTCTTGTTTCA
332930 AAGAATCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.80
Consensus pattern (21 bp):
TTTTTTTCTTTTCTTGTTTCA
Found at i:340468 original size:2 final size:2
Alignment explanation
Indices: 340461--340495 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
340451 GATTTTCAAA
*
340461 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
340496 AATAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:340899 original size:11 final size:11
Alignment explanation
Indices: 340883--340923 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
340873 ATTTCATATT
340883 TTTTTTCTTTC
1 TTTTTTCTTTC
340894 TTTTTTCTTCATC
1 TTTTTTCTT--TC
*
340907 TTCTTTCTTTC
1 TTTTTTCTTTC
340918 TTTTTT
1 TTTTTT
340924 ACCTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:340937 original size:24 final size:22
Alignment explanation
Indices: 340883--340937 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
340873 ATTTCATATT
**
340883 TTTTTTCTTTCTTTTTTCTTCA
1 TTTTTTCTTTCTTTTTTCTAAA
340905 TCTTCTTTCTTTCTTTTTTACCTAAA
1 T-TT-TTTCTTTCTTTTTT--CTAAA
340931 TTTTTTC
1 TTTTTTC
340938 AACCCATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 2 0.07
24 18 0.67
25 2 0.07
26 4 0.15
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTCTTTCTTTTTTCTAAA
Found at i:341314 original size:1 final size:1
Alignment explanation
Indices: 341310--341340 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
341300 TGGAAAGCCC
341310 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
341341 CGATCCCTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:342125 original size:45 final size:48
Alignment explanation
Indices: 342024--342129 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 48
342014 AATGTGCCAT
* *
342024 TTCAAGGTCAGCGACATCGGGCTAAGGGAAAAGTGGACCAATGTGCTGA
1 TTCAAGGCCAGCGACATCGGGCTAA-GGAAAAGTGGACCAATATGCTGA
* * * *
342073 CTCAAGGCCAGCGACATTGGGCTTA-GAAAGGT-G-CCAATATGCTGA
1 TTCAAGGCCAGCGACATCGGGCTAAGGAAAAGTGGACCAATATGCTGA
342118 TTCAAGGCCAGC
1 TTCAAGGCCAGC
342130 AATATCGGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 22 0.44
46 1 0.02
47 6 0.12
49 21 0.42
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.19
Consensus pattern (48 bp):
TTCAAGGCCAGCGACATCGGGCTAAGGAAAAGTGGACCAATATGCTGA
Found at i:342218 original size:32 final size:32
Alignment explanation
Indices: 342162--343145 Score: 1327
Period size: 32 Copynumber: 31.8 Consensus size: 32
342152 AAAATGGTGA
* ** **
342162 TTTGAAAAGGGTTGCCACTAACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
342194 TTTTAAATGGGTTGCCCCCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
342226 TTTGAAAAGGGTCGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
342258 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
342290 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
342322 TTTGAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
342354 TTTGAAATGGG-TGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
342385 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
342417 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
342449 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
342481 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * **
342513 TTTGGAAT--GATGCCACTAAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
342541 TTTGAAATGGATTGCCACCGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
342571 TTTGAAA--GGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
342599 TTTGAAA--GGATGCCACCAACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
342629 TTTGAAA--AGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
342657 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
342689 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
342721 TTTGGAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
342753 TTTGAAATGGG-TGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
342784 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
342816 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
342848 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
342880 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * **
342912 TTTGGAAT--GATGCCACTAAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
342940 TTTGAAATAGATTGCCACCGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
342970 TTTGAAA--GGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
342998 TTTGAAA--GGATGCCACCAACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
343028 TTTGAAA--AGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
343056 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
343088 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
343120 TTTGGAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
343146 GATTTAAAAG
Statistics
Matches: 864, Mismatches: 70, Indels: 37
0.89 0.07 0.04
Matches are distributed among these distances:
28 126 0.15
29 6 0.01
30 130 0.15
31 75 0.09
32 527 0.61
ACGTcount: A:0.18, C:0.19, G:0.33, T:0.30
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:342989 original size:399 final size:398
Alignment explanation
Indices: 342251--343136 Score: 1729
Period size: 399 Copynumber: 2.2 Consensus size: 398
342241 CACCGACTTG
342251 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
*
342316 GTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTTGTGT
66 GTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTTGTGT
342381 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTG
131 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTG
342446 GGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
196 GGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACCGACTTGTGTGG
*
342511 GCTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATGGATTGCCACCGACTTGTGGGCTTTGA
260 GCTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATAGATTGCCACCGACTTGTGGGCTTTGA
342576 AAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGACTTTGAAAAGATG
325 AAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGACTTTGAAAAGATG
342641 CCACTGACT
390 CCACTGACT
342650 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
342715 GTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTTGTGT
66 GTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTTGTGT
342780 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTG
131 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTG
342845 GGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
196 GGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACCGACTTGTGTGG
342910 GCTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATAGATTGCCACCGACTTGTGGGCTTTGA
260 GCTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATAGATTGCCACCGACTTGTGGGCTTTGA
342975 AAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGACTTTGAAAAGATG
325 AAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGACTTTGAAAAGATG
343040 CCACTGACT
390 CCACTGACT
343049 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
343114 GTGGGCTTTGGAATGGG-TGCCAC
66 GTGGGCTTTGGAATGGGTTGCCAC
343137 AGAGTTGTGG
Statistics
Matches: 485, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
398 6 0.01
399 479 0.99
ACGTcount: A:0.18, C:0.19, G:0.33, T:0.30
Consensus pattern (398 bp):
TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
GTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTTGTGT
GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTG
GGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGTTGCCACCGACTTGTGTGGG
CTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATAGATTGCCACCGACTTGTGGGCTTTGAA
AGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGACTTTGAAAAGATGC
CACTGACT
Found at i:343162 original size:27 final size:27
Alignment explanation
Indices: 343128--343974 Score: 1415
Period size: 27 Copynumber: 31.0 Consensus size: 27
343118 GCTTTGGAAT
* *
343128 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
343155 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
343182 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
343209 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
343236 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
343264 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
343291 GAGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
343318 GGGTGCCACGGAGTTGTGGACCTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
343345 GGGTGCCACGGAGTTGTGAACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
343372 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
343400 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
343427 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
343454 GGGATGCCACGGAGTTGTGAACTTCAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
343482 GGGATGCCACGGAGTTGTGGACTTCAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
343510 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
343537 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
343564 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
* *
343592 GGATGCCACGGAGCTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
343619 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
343647 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
343674 GGGGGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
343701 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
343729 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
343756 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
343783 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
343810 GGGGGCCACGGAGTTGTGGACTTAAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
*
343838 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
343865 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** *
343892 GAATGCCACGGAGTTGTGGACTTGAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
343919 GGGTGCCACGAAGTTGGGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
343946 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
343974 G
1 G
343975 AAAATGTGAA
Statistics
Matches: 772, Mismatches: 40, Indels: 15
0.93 0.05 0.02
Matches are distributed among these distances:
27 559 0.72
28 213 0.28
ACGTcount: A:0.28, C:0.15, G:0.36, T:0.22
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:343298 original size:82 final size:81
Alignment explanation
Indices: 343128--343974 Score: 1415
Period size: 82 Copynumber: 10.3 Consensus size: 81
343118 GCTTTGGAAT
* * *
343128 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
343193 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
*
343209 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
343274 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
343291 GAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACCTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
343356 AGTTGTGAACTTAAAA
66 AGTTGTGGACTTAAAA
343372 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
343437 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* * *
343454 GGGATGCCACGGAGTTGTGAACTTCAAAGGGATGCCACGGAGTTGTGGACTTCAAAGGGTGCCAC
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
343519 GGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
*
343537 GGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
343602 GAGCTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
343619 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGGGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
343684 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
343701 GGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
343766 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
343783 GGGTGCCACGGAGTTGTGGACTTAAAAGGGGGCCACGGAGTTGTGGACTTAAAAAGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACG
343848 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* ** * *
343865 GGGTGCCACAGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTGAAAGGGTGCCACGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
343930 AGTTGGGGACTTAAAA
66 AGTTGTGGACTTAAAA
343946 GGGTGCCACGGAGTTGTGGACTTTAAAAG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAG
343975 AAAATGTGAA
Statistics
Matches: 724, Mismatches: 36, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
81 169 0.23
82 475 0.66
83 80 0.11
ACGTcount: A:0.28, C:0.15, G:0.36, T:0.22
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:343318 original size:109 final size:108
Alignment explanation
Indices: 343128--343974 Score: 1415
Period size: 109 Copynumber: 7.8 Consensus size: 108
343118 GCTTTGGAAT
* * *
343128 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
343193 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
343236 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGTGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
343301 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACCTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
343345 GGGTGCCACGGAGTTGTGAACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
343410 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
343454 GGGATGCCACGGAGTTGTGAACTTCAAAGGGATGCCACGGAGTTGTGGACTTCAAAGGGTGCCAC
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
343519 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
343564 GGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGCTGTGGACTTAAAAGGGATGCCAC
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCAC
343629 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
343674 GGGGGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
343739 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
343783 GGGTGCCACGGAGTTGTGGACTTAAAAGGGGGCCACGGAGTTGTGGACTTAAAAAGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACG
*
343848 GAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
** * * *
343892 GAATGCCACGGAGTTGTGGACTTGAAAGGGTGCCACGAAGTTGGGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
343957 AGTTGTGGACTTTAAAAG
66 AGTTGTGGAC-TTAAAAG
343975 AAAATGTGAA
Statistics
Matches: 701, Mismatches: 31, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
108 71 0.10
109 419 0.60
110 211 0.30
ACGTcount: A:0.28, C:0.15, G:0.36, T:0.22
Consensus pattern (108 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:344005 original size:46 final size:46
Alignment explanation
Indices: 343938--344026 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
343928 GAAGTTGGGG
*
343938 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAAAATGTGA
1 ACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAAAATGTGA
343984 ACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAAAATG
1 ACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAAAATG
344027 CCACTGAGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (46 bp):
ACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAAAATGTGA
Found at i:344030 original size:30 final size:31
Alignment explanation
Indices: 343994--344051 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
343984 ACTTAAAAGG
*
343994 ATGCCACGGAGTTGTGGACTTT-AAAAGAAA
1 ATGCCACGGAGTCGTGGACTTTGAAAAGAAA
*
344024 ATGCCACTGAGTCGTGGACTTTGAAAAG
1 ATGCCACGGAGTCGTGGACTTTGAAAAG
344052 GTCACAGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (31 bp):
ATGCCACGGAGTCGTGGACTTTGAAAAGAAA
Found at i:351450 original size:2 final size:2
Alignment explanation
Indices: 351443--351479 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
351433 GATTTTCAAA
*
351443 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
351480 AATAAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:351879 original size:11 final size:11
Alignment explanation
Indices: 351863--351903 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
351853 TTTCATATTT
351863 TTTTTTCTTTC
1 TTTTTTCTTTC
351874 TTTTTTCTTCATC
1 TTTTTTCTT--TC
*
351887 TTCTTTCTTTC
1 TTTTTTCTTTC
351898 TTTTTT
1 TTTTTT
351904 ACCTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:351917 original size:24 final size:22
Alignment explanation
Indices: 351863--351917 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
351853 TTTCATATTT
**
351863 TTTTTTCTTTCTTTTTTCTTCA
1 TTTTTTCTTTCTTTTTTCTAAA
351885 TCTTCTTTCTTTCTTTTTTACCTAAA
1 T-TT-TTTCTTTCTTTTTT--CTAAA
351911 TTTTTTC
1 TTTTTTC
351918 AACCCATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 2 0.07
24 18 0.67
25 2 0.07
26 4 0.15
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTCTTTCTTTTTTCTAAA
Found at i:352284 original size:23 final size:22
Alignment explanation
Indices: 352258--352302 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
352248 CCACTCAATC
352258 GGAAAACCCACTTTGGTTTTTTT
1 GGAAAACCC-CTTTGGTTTTTTT
* **
352281 GGAAAGCCCCTTTTTTTTTTTT
1 GGAAAACCCCTTTGGTTTTTTT
352303 TTTTCGATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (22 bp):
GGAAAACCCCTTTGGTTTTTTT
Found at i:356278 original size:20 final size:20
Alignment explanation
Indices: 356255--356292 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
356245 TACATGTATG
*
356255 AATGTATCGATACATTCTTT
1 AATGGATCGATACATTCTTT
356275 AATGGATCGATACATTCT
1 AATGGATCGATACATTCT
356293 ATCTTTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (20 bp):
AATGGATCGATACATTCTTT
Found at i:360172 original size:38 final size:38
Alignment explanation
Indices: 360129--360201 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
360119 ATAAAAAATA
*
360129 AAAAAT-A-AAAGCAAAAATAAAATTAAAGAATATTATTT
1 AAAAATGAGAAAG-AAAAAT-AAATTAAAGAAAATTATTT
*
360167 AAAAATGAGCAAGAAAAATAAATTAAAGAAAATTA
1 AAAAATGAGAAAGAAAAATAAATTAAAGAAAATTA
360202 AAGAATTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 21 0.68
39 7 0.23
40 3 0.10
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (38 bp):
AAAAATGAGAAAGAAAAATAAATTAAAGAAAATTATTT
Found at i:362196 original size:19 final size:19
Alignment explanation
Indices: 362149--362207 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
362139 TTTATTTTAA
*
362149 TTTAATTATAAAATATATAATT
1 TTTAA-TATAAAA-ATA-ATTT
*
362171 ATTAATATAAAAATAATTT
1 TTTAATATAAAAATAATTT
*
362190 TTTAATAAAATAAATAAT
1 TTTAATATAA-AAATAAT
362208 ATATTAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 11 0.34
20 10 0.31
21 7 0.22
22 4 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TTTAATATAAAAATAATTT
Found at i:362214 original size:20 final size:19
Alignment explanation
Indices: 362156--362214 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
362146 TAATTTAATT
*
362156 ATAAAATATATAATTATTA
1 ATAAAATAAATAATTATTA
* *
362175 ATATAA-AAATAATTTTTTA
1 ATAAAATAAATAA-TTATTA
362194 ATAAAATAAATAATATATTA
1 ATAAAATAAATAAT-TATTA
362214 A
1 A
362215 AATTTACAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 5 0.16
19 16 0.50
20 11 0.34
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAAATAAATAATTATTA
Found at i:362287 original size:23 final size:22
Alignment explanation
Indices: 362235--362288 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
362225 CTAAATTTAA
* * *
362235 TTTAATTTTAAAATTTAATTTT
1 TTTAATTATAAAAATTAATATT
362257 TTTAAATTATAATAAATTAATATT
1 TTT-AATTATAA-AAATTAATATT
362281 TTTAATTA
1 TTTAATTA
362289 CAAACTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.11
23 12 0.44
24 12 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTAATTATAAAAATTAATATT
Found at i:362768 original size:29 final size:31
Alignment explanation
Indices: 362714--362772 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
362704 TTTATTCAAA
*
362714 GATCAAATTATTTATTTGATTAAATAAATTT
1 GATCAAATTATTTATTTAATTAAATAAATTT
362745 GATCTAAATT-TTT-TTTAATT-AATAAATT
1 GATC-AAATTATTTATTTAATTAAATAAATT
362773 ATATTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 8 0.31
30 6 0.23
31 7 0.27
32 5 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (31 bp):
GATCAAATTATTTATTTAATTAAATAAATTT
Found at i:363753 original size:2 final size:2
Alignment explanation
Indices: 363746--363773 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
363736 TCACTAAATT
363746 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
363774 CTAAATAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:364587 original size:2 final size:2
Alignment explanation
Indices: 364580--364615 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
364570 CAAAGCTTAC
364580 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
364616 TTTCCCTCCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:365755 original size:21 final size:19
Alignment explanation
Indices: 365732--365838 Score: 92
Period size: 21 Copynumber: 5.3 Consensus size: 19
365722 TCAGCGACAA
365732 GAAAACGCAGGGCTTCGAA-
1 GAAAACGCAGGGCTTC-AAG
365751 GAGAAACGCAGGGCTTCAAGG
1 GA-AAACGCAGGGCTTCAA-G
365772 CGAAAACGC-GAGGCTTCAAG
1 -GAAAACGCAG-GGCTTCAAG
*
365792 GAAAAGTCGCAAGGCTTCAAG
1 GAAAA--CGCAGGGCTTCAAG
* *
365813 GAAAAGTCGAAAGGCTTCAAG
1 GAAAA--CGCAGGGCTTCAAG
365834 GAAAA
1 GAAAA
365839 ACCCCAAGAA
Statistics
Matches: 78, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
19 9 0.12
20 16 0.21
21 51 0.65
22 2 0.03
ACGTcount: A:0.39, C:0.19, G:0.31, T:0.11
Consensus pattern (19 bp):
GAAAACGCAGGGCTTCAAG
Found at i:365759 original size:20 final size:19
Alignment explanation
Indices: 365730--365767 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
365720 TCTCAGCGAC
365730 AAGAAAACGCAGGGCTTCG
1 AAGAAAACGCAGGGCTTCG
365749 AAGAGAAACGCAGGGCTTC
1 AAGA-AAACGCAGGGCTTC
365768 AAGGCGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.37, C:0.21, G:0.32, T:0.11
Consensus pattern (19 bp):
AAGAAAACGCAGGGCTTCG
Found at i:366076 original size:45 final size:45
Alignment explanation
Indices: 366012--366099 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
366002 GCGACTGGTT
366012 TAAGCATTTGGAGTTTATATTTCATTATGCCTATATATATATATA
1 TAAGCATTTGGAGTTTATATTTCATTATGCCTATATATATATATA
*
366057 TAAGCATTTGGAGTTTATATTTCATTATGCTTATATATATATA
1 TAAGCATTTGGAGTTTATATTTCATTATGCCTATATATATATA
366100 ATGTTCTTGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (45 bp):
TAAGCATTTGGAGTTTATATTTCATTATGCCTATATATATATATA
Found at i:368011 original size:25 final size:23
Alignment explanation
Indices: 367959--368025 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 23
367949 TCGATCTATC
*
367959 AAATGATTTTTTTAAAAAAAATTT
1 AAAT-ATTTTTTTAAAAAAAATTG
367983 AAATATTTTTTCTAAAAACTAAA-TG
1 AAATATTTTTT-TAAAAA--AAATTG
*
368008 AAATTACTTTTTTAAAAA
1 AAA-TATTTTTTTAAAAA
368026 GGTATCATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
23 7 0.19
24 10 0.27
25 10 0.27
26 10 0.27
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.43
Consensus pattern (23 bp):
AAATATTTTTTTAAAAAAAATTG
Found at i:368968 original size:20 final size:20
Alignment explanation
Indices: 368943--368982 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
368933 TTAATATAAC
368943 AAGTGAATGTATCGACACAT
1 AAGTGAATGTATCGACACAT
*
368963 AAGTGAATGTATCGATACAT
1 AAGTGAATGTATCGACACAT
368983 GTCTGAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (20 bp):
AAGTGAATGTATCGACACAT
Found at i:368989 original size:20 final size:20
Alignment explanation
Indices: 368946--369002 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
368936 ATATAACAAG
* *
368946 TGAATGTATCGACACATAAG
1 TGAATGTATCGATACATAAC
**
368966 TGAATGTATCGATACATGTC
1 TGAATGTATCGATACATAAC
368986 TGAAATGTATCGATACA
1 TG-AATGTATCGATACA
369003 GGGCCATGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (20 bp):
TGAATGTATCGATACATAAC
Found at i:369141 original size:50 final size:50
Alignment explanation
Indices: 369039--369174 Score: 202
Period size: 50 Copynumber: 2.7 Consensus size: 50
369029 TCTAGAAGGA
* *
369039 AAATGTATCGATACATTCTTTATTGTATCGATACATTCTGGGTTTGATCC
1 AAATGTATCGATATATTCTTTATTGTATCGATACATTCTGGGTTTGACCC
* * *
369089 AAATATATCGATATATT-TTTATTGTATTGATACATTTTGGGTTTTGACCC
1 AAATGTATCGATATATTCTTTATTGTATCGATACATTCTGGG-TTTGACCC
*
369139 AAATGTATCGATATATTCTTTAATGTATCGATACAT
1 AAATGTATCGATATATTCTTTATTGTATCGATACAT
369175 CTAGTTAAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
49 22 0.29
50 38 0.50
51 16 0.21
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.44
Consensus pattern (50 bp):
AAATGTATCGATATATTCTTTATTGTATCGATACATTCTGGGTTTGACCC
Found at i:377198 original size:21 final size:21
Alignment explanation
Indices: 377135--377198 Score: 51
Period size: 25 Copynumber: 2.9 Consensus size: 21
377125 CTAAATATAT
*
377135 GAAA-TAAAAAATAAAAACAAA
1 GAAATTAAAAATTAAAAA-AAA
*
377156 -AAATTAAATATTAAAAACAAAAAA
1 GAAATTAAAAATT---AA-AAAAAA
377180 GAAATTAAAAATTAAAAAA
1 GAAATTAAAAATTAAAAAA
377199 TAGACGAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
20 3 0.09
21 10 0.29
22 2 0.06
24 5 0.15
25 14 0.41
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (21 bp):
GAAATTAAAAATTAAAAAAAA
Found at i:377485 original size:4 final size:4
Alignment explanation
Indices: 377471--377504 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
377461 GGTTACTTAG
377471 ATAA A-AA ATAA ATAA ATAA ATAA ATAAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA AT
377505 TTATTTAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.11
4 21 0.75
5 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:378873 original size:26 final size:25
Alignment explanation
Indices: 378828--378879 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
378818 TTGAAATTTG
* *
378828 ATTTAATTTAATTTTAAAATAATTAA
1 ATTTAATATAATTATAAAAT-ATTAA
*
378854 ATTTAATATAATTATCAAATATTAA
1 ATTTAATATAATTATAAAATATTAA
378879 A
1 A
378880 AAATTTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
ATTTAATATAATTATAAAATATTAA
Found at i:380419 original size:460 final size:451
Alignment explanation
Indices: 379372--380897 Score: 1698
Period size: 456 Copynumber: 3.4 Consensus size: 451
379362 AATCGGTCAA
* * ** * *
379372 CTTTCAA-TTGTTTGCTAAATCTCTTAGCTATTTGCACATCCACTTC-AAAATC----ATGTTAG
1 CTTTCAAGTT-TTTGATAAATCTCGTAGCTATTTGCGGATCCAATTCAAAAATCATAAATGCTAG
*
379431 ATTTTTTATTAATATTTTCACTCTGAATCAAACAAAGGTGTTCATGAGTGGAAGGTTTTGGTTTA
65 ATGTTTTATTAATATTTTCACTCTGAATCAAACAAAGGTGTTCATGAGTGGAAGGTTTTGGTTTA
* * * *
379496 TTTTAGCACTGTTGTAGGTGTCCCCAAAACATACACAAAAAAGCTCATAAATATATGTATTTTTT
130 TTTTAGCACTCTTGTAGATGTCCCAAAAACATACAGAAAAAAGCTCAT-AATATATGTATTTTTT
* * ** *
379561 CCACTATGTAGTTCCTTTTGATGATGGCAGTCGACGATTCCAAGTTGAAGGAACTTTGATGGTGG
194 CCCCTCTGTAGTTCCACTTGATGATGGCAGTCGAC-A-TCCAAGTTGAAGGAACTTCGATGGTGG
* * * * * ** *
379626 GGAATGGAACTGAGCACTCCCTAGCTCAAGATTTTGTTCCAGGCTAC-AGTCTGCCTTGTCCTTC
257 GGAATGGAACTGGGCACTCCATAGATCAAGGTTTTGTTCCAGGCTCCGA-TC-G-CTCATCCTTT
* * * **
379690 TTCTGAATTAGGTAATCGTCGTTAACGATTTTTTCTATGAAGTTCATTTTGGTTTCTTTTTCTAT
319 TTCTG-ATTAGGTAATCTTGGTTAAGGA-TTTTTCTATGAAGTTCATTTTAATTTCTTTTTCTAT
* *
379755 CCTCCACGACCAACTGGATC--TTTTTATTAATTATTTGGATAATTAAACCAGTTCAGTTGGTAA
382 CCTCCACAACCAACTGGATCATTTTTTATTAATTATTTGGATAATTAAACCAGTTCAATTGGTAA
*
379818 TTTCG
447 TTTTG
* *
379823 CTTTCAAGTTTTTGATAAATTTCGTAGCTATCTGCGGATCCAATTCAAAAATCATAAATGCTAGA
1 CTTTCAAGTTTTTGATAAATCTCGTAGCTATTTGCGGATCCAATTCAAAAATCATAAATGCTAGA
* * * * *
379888 TGTTTTATTAGTGTTTTCACTCTGAATCAAACAAAGGCGTTCGTGAGTGGAAGGTTTTGGTTTAG
66 TGTTTTATTAATATTTTCACTCTGAATCAAACAAAGGTGTTCATGAGTGGAAGGTTTTGGTTTAT
* *
379953 TTTAGCACTCTTTTAGATGTCCCAAAAACATACAGAAAAAGGCTCATCAATATATGTATTTTTTC
131 TTTAGCACTCTTGTAGATGTCCCAAAAACATACAGAAAAAAGCTCAT-AATATATGTATTTTTTC
* * *
380018 CCCTCTGTAGTTCCCCCTAATGATGGCAGTCGACTAGTCCAAGTTGAAGGAACTTCGATGGTGGG
195 CCCTCTGTAGTTCCACTTGATGATGGCAGTCGAC-A-TCCAAGTTGAAGGAACTTCGATGGTGGG
380083 GAATGGAACTGGGCACTCCATAGATCAAGGTTTTGTTCCAGGCTCCGATCGGGCTCAT-CTTTTG
258 GAATGGAACTGGGCACTCCATAGATCAAGGTTTTGTTCCAGGCTCCGATC--GCTCATCCTTTT-
* *
380147 TATGATTTAGGTAATCTTGGTTAAGGATTTTTCTATTAAGTTCATTTTAATTTCTTTTTCTATCC
320 TCTGA-TTAGGTAATCTTGGTTAAGGATTTTTCTATGAAGTTCATTTTAATTTCTTTTTCTATCC
* *
380212 TCCACAACCAAGTGGATCCTATTTTTTAATTAATTATTTGGATGATTAAACCAGTTCAATTGGTA
384 TCCACAACCAACTGGAT-C-ATTTTTT-ATTAATTATTTGGATAATTAAACCAGTTCAATTGGTA
380277 ATTTTG
446 ATTTTG
* *
380283 CTTTCAAGTTTTTGATAAATCTCGTGGCCATTTGCGGATCCAATTCAAAAATCATAAATGCTAGA
1 CTTTCAAGTTTTTGATAAATCTCGTAGCTATTTGCGGATCCAATTCAAAAATCATAAATGCTAGA
* * * * * * **
380348 TGTTTTATTAGTGTTTTCACTCTGAATCAAACAAAGGTGGTCATGAATGGAAAGTTCTGGTGGAT
66 TGTTTTATTAATATTTTCACTCTGAATCAAACAAAGGTGTTCATGAGTGGAAGGTTTTGGTTTAT
* * *
380413 TTTAGCACACTCTTGTAGATGTCCGAAAAACATACAGAAAAAAGCCCATATATATGTGTATTTTT
131 TTTAG--CACTCTTGTAGATGTCCCAAAAACATACAGAAAAAAGCTCATA-ATATATGTA--TTT
* *
380478 TTTTCCCTCTGTA-TTTCACTTCGATGATGGCAGTCG--A--CAA-TT-------C--C-ATGGT
191 TTTCCCCTCTGTAGTTCCACTT-GATGATGGCAGTCGACATCCAAGTTGAAGGAACTTCGATGGT
* * * * * * * *
380527 GGGGACTGGAACTCGACAC-CACACAGGTCAAGGTTTTACTT-C-TGCTCCG--C-CCCATCCTT
255 GGGGAATGGAACTGGGCACTC-CATAGATCAAGGTTTT-GTTCCAGGCTCCGATCGCTCATCCTT
* * *
380586 TTTCTGGAGT-GGTAATATTGGTTATTGG-TTTTTCTATGAAGTTCATTTTAATTTCTTTTTCTA
318 TTTCT-GATTAGGTAATCTTGGTTA-AGGATTTTTCTATGAAGTTCATTTTAATTTCTTTTTCTA
* *
380649 TCCTCCACAACAAACTGGA--ATTTTTT-TTAATTATTTAGATAATTAAACCAGTTCAATTGGTA
381 TCCTCCACAACCAACTGGATCATTTTTTATTAATTATTTGGATAATTAAACCAGTTCAATTGGTA
380711 ATTTTG
446 ATTTTG
* * * *
380717 CTTTCAA-TTGTTTGCTAAATCTCTTAGCTATTTGCAGATCCACTTC-AAAATC----ATGCTAG
1 CTTTCAAGTT-TTTGATAAATCTCGTAGCTATTTGCGGATCCAATTCAAAAATCATAAATGCTAG
380776 ATGTTTTATTAATATTTTCACTCTGAATCAAACAAAGGTGTTCATGAGTGGAAGGTTTTGGTTTA
65 ATGTTTTATTAATATTTTCACTCTGAATCAAACAAAGGTGTTCATGAGTGGAAGGTTTTGGTTTA
* * * * *
380841 TTTTAGCACTGTTGTAAATGTCCAAAAAAACATTCAGAAAAAAGCCCATATATATAT
130 TTTTAGCACTCTTGTAGATGTCC-CAAAAACATACAGAAAAAAGCTCATA-ATATAT
380898 ATATATATAT
Statistics
Matches: 937, Mismatches: 110, Indels: 79
0.83 0.10 0.07
Matches are distributed among these distances:
427 15 0.02
428 30 0.03
429 70 0.07
433 8 0.01
434 77 0.08
436 7 0.01
440 64 0.07
441 9 0.01
442 7 0.01
444 1 0.00
446 7 0.01
447 36 0.04
448 3 0.00
450 1 0.00
451 36 0.04
452 8 0.01
455 55 0.06
456 248 0.26
457 4 0.00
458 3 0.00
459 5 0.01
460 162 0.17
461 2 0.00
462 46 0.05
463 5 0.01
464 28 0.03
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (451 bp):
CTTTCAAGTTTTTGATAAATCTCGTAGCTATTTGCGGATCCAATTCAAAAATCATAAATGCTAGA
TGTTTTATTAATATTTTCACTCTGAATCAAACAAAGGTGTTCATGAGTGGAAGGTTTTGGTTTAT
TTTAGCACTCTTGTAGATGTCCCAAAAACATACAGAAAAAAGCTCATAATATATGTATTTTTTCC
CCTCTGTAGTTCCACTTGATGATGGCAGTCGACATCCAAGTTGAAGGAACTTCGATGGTGGGGAA
TGGAACTGGGCACTCCATAGATCAAGGTTTTGTTCCAGGCTCCGATCGCTCATCCTTTTTCTGAT
TAGGTAATCTTGGTTAAGGATTTTTCTATGAAGTTCATTTTAATTTCTTTTTCTATCCTCCACAA
CCAACTGGATCATTTTTTATTAATTATTTGGATAATTAAACCAGTTCAATTGGTAATTTTG
Found at i:380893 original size:2 final size:2
Alignment explanation
Indices: 380888--380923 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
380878 AAAAAAGCCC
380888 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
380924 TTTTCCCCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:382850 original size:21 final size:21
Alignment explanation
Indices: 382823--382889 Score: 107
Period size: 21 Copynumber: 3.2 Consensus size: 21
382813 TATCTCTGCC
*
382823 AGGAGAAAACGCAAGGCTTCA
1 AGGAGAAAACGCGAGGCTTCA
* *
382844 GGGAGAAAACGCGAGCCTTCA
1 AGGAGAAAACGCGAGGCTTCA
382865 AGGAGAAAACGCGAGGCTTCA
1 AGGAGAAAACGCGAGGCTTCA
382886 AGGA
1 AGGA
382890 AAAGTCACAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.39, C:0.19, G:0.33, T:0.09
Consensus pattern (21 bp):
AGGAGAAAACGCGAGGCTTCA
Found at i:382902 original size:21 final size:21
Alignment explanation
Indices: 382878--382955 Score: 147
Period size: 21 Copynumber: 3.7 Consensus size: 21
382868 AGAAAACGCG
382878 AGGCTTCAAGGAAAAGTCACA
1 AGGCTTCAAGGAAAAGTCACA
*
382899 AGGCTTCAAGGAAAAGTAACA
1 AGGCTTCAAGGAAAAGTCACA
382920 AGGCTTCAAGGAAAAGTCACA
1 AGGCTTCAAGGAAAAGTCACA
382941 AGGCTTCAAGGAAAA
1 AGGCTTCAAGGAAAA
382956 ACCCCAAGAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (21 bp):
AGGCTTCAAGGAAAAGTCACA
Found at i:382906 original size:42 final size:41
Alignment explanation
Indices: 382823--382957 Score: 148
Period size: 42 Copynumber: 3.2 Consensus size: 41
382813 TATCTCTGCC
* * * * *
382823 AGGAGAAAACGCAAGGCTTCAGGGAGAAA-ACGCGAGCCTTCA
1 AGGA-AAAACGCAAGGCTTCAAGGA-AAAGTCACAAGGCTTCA
*
382865 AGGAGAAAACGCGAGGCTTCAAGGAAAAGTCACAAGGCTTCA
1 AGGA-AAAACGCAAGGCTTCAAGGAAAAGTCACAAGGCTTCA
*
382907 AGGAAAAGTA-ACAAGGCTTCAAGGAAAAGTCACAAGGCTTCA
1 AGGAAAA--ACGCAAGGCTTCAAGGAAAAGTCACAAGGCTTCA
382949 AGGAAAAAC
1 AGGAAAAAC
382958 CCCAAGAAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
40 1 0.01
41 6 0.07
42 73 0.90
43 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.27, T:0.11
Consensus pattern (41 bp):
AGGAAAAACGCAAGGCTTCAAGGAAAAGTCACAAGGCTTCA
Found at i:382963 original size:21 final size:21
Alignment explanation
Indices: 382834--382956 Score: 124
Period size: 21 Copynumber: 5.9 Consensus size: 21
382824 GGAGAAAACG
* *
382834 CAAGGCTTCAGGGAGAAAA-CG
1 CAAGGCTTCAAGGA-AAAATCA
* * *
382855 CGAGCCTTCAAGGAGAAAA-CG
1 CAAGGCTTCAAGGA-AAAATCA
* *
382876 CGAGGCTTCAAGGAAAAGTCA
1 CAAGGCTTCAAGGAAAAATCA
* *
382897 CAAGGCTTCAAGGAAAAGTAA
1 CAAGGCTTCAAGGAAAAATCA
*
382918 CAAGGCTTCAAGGAAAAGTCA
1 CAAGGCTTCAAGGAAAAATCA
382939 CAAGGCTTCAAGGAAAAA
1 CAAGGCTTCAAGGAAAAA
382957 CCCCAAGAAA
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
20 3 0.03
21 88 0.97
ACGTcount: A:0.42, C:0.19, G:0.27, T:0.12
Consensus pattern (21 bp):
CAAGGCTTCAAGGAAAAATCA
Found at i:383166 original size:2 final size:2
Alignment explanation
Indices: 383159--383197 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
383149 TCATTGTGCT
383159 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
383198 TATGTTCTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:386463 original size:13 final size:14
Alignment explanation
Indices: 386447--386488 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
386437 TAATACTTAA
386447 TAAATTTAAAT-TT
1 TAAATTTAAATCTT
**
386460 TAAATTTTTATCTT
1 TAAATTTAAATCTT
386474 TAAA-TTAAATCTT
1 TAAATTTAAATCTT
386487 TA
1 TA
386489 TTTTATATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (14 bp):
TAAATTTAAATCTT
Found at i:388707 original size:4 final size:4
Alignment explanation
Indices: 388700--388730 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
388690 TATATATATA
388700 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
388731 TTATTTTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:389558 original size:345 final size:352
Alignment explanation
Indices: 388799--389558 Score: 783
Period size: 345 Copynumber: 2.2 Consensus size: 352
388789 CGCTACATAG
* * * *
388799 CTCAAGGTTTTGTTCCAAG-TTCCGGTCTGCCACGTCCTTTTTCTGAATTAAGTTATCTTGGTTA
1 CTCAAGGTTTTGTTTC-AGTTTCCGGTCTGCC-CGTCCTTCTTCTGAATTAAGTAATTTTGGTTA
* * * * *
388863 AGGATTTTTCTATGAAGTTCATTTTATTTTCTTTTTTCTTTCCCCCACAACCAATTGGATTTTTT
64 AGGATTTTTCAATGAAATTCATTTTATTTTCTTTTTTCTATCCCCCACAAACAACTGGATTTTTT
**
388928 GTTCTAATTATTTGGCTTTCAATTTTTTTGATAAATGAAAGGTACTGACTTATTGTAACACTCTT
129 GTTCTAATTATTTGGCTTTCAATTTGATTGATAAATGAAAGGTACTGACTTATTGTAACACTCTT
* * * * * *
388993 GTAGATGTCCGAAACACGTACAGAACAAAGCTTAAATGTATATGTATATATATTTTATATATATA
194 GTAGATATCCAAAACACATACAGAACAAAGCTCAAATATATATATATATATATTTTATATATATA
* * * *
389058 TACACAAATTCCCTTTGTAGTTCCGTTTGATGATAGCAGTCGACAACACCGAGTTGAAAGAGATT
259 T----AAATTCCCTCTGTAGTTCCGTTTGATCATAGCAGTCGACAACACCAAGTTGAAAGAAATT
* * ** *
389123 TGATTGTGGAGAACGAAACTGAGGACTGCACAG
320 TGATGGTGGAGAACGAAACTGAGCACAACACAA
* * * * * * * *
389156 TTCAAGGTTTTG-ATCAATGTTCCGATCTACCCAGTCTTTCTTTTGAATTATGTAATTTTGGTTA
1 CTCAAGGTTTTGTTTCAGT-TTCCGGTCTGCCC-GTCCTTCTTCTGAATTAAGTAATTTTGGTTA
*
389220 AGGATTTTTCAATGAAATTCATTTTATTTTC-TTTTTCTATCCTCCACAAACAACTGGATTTTTT
64 AGGATTTTTCAATGAAATTCATTTTATTTTCTTTTTTCTATCCCCCACAAACAACTGGATTTTTT
* * * * ** ** * *
389284 GTTTTGATTATTTGGCTTTCAA-TTGATTGATAAGTGGAAGGTTTTGGTTTATTTTAGCACTCTT
129 GTTCTAATTATTTGGCTTTCAATTTGATTGATAAATGAAAGGTACTGACTTATTGTAACACTCTT
* *
389348 GTCGATATCCAAAACACATACAGAACAAAGCTCATATATATATATATATATATTTT-T-T-T-T-
194 GTAGATATCCAAAACACATACAGAACAAAGCTCAAATATATATATATATATATTTTATATATATA
** * *
389408 T-TTTTCCCTCTGTAGTTCC-TTCTGA-CATTGGCAGTCGACAAC-CTCAAGTTGGAAGAAATTT
259 TAAATTCCCTCTGTAGTTCCGTT-TGATCA-TAGCAGTCGACAACAC-CAAGTTGAAAGAAATTT
* * * *
389469 GGTGGTGGGGAATGGAACT-AGACACAACACAA
321 GATGGTGGAGAACGAAACTGAG-CACAACACAA
* * *
389501 CTCGAGGTTTTGTTTCAGTTTCTGGTCTGCCCTGTCCTTCTTCTGAATTAGGTAATTT
1 CTCAAGGTTTTGTTTCAGTTTCCGGTCTGCCC-GTCCTTCTTCTGAATTAAGTAATTT
389559 GACAGTGGAG
Statistics
Matches: 329, Mismatches: 66, Indels: 28
0.78 0.16 0.07
Matches are distributed among these distances:
344 6 0.02
345 107 0.33
346 4 0.01
350 1 0.00
351 1 0.00
352 1 0.00
353 1 0.00
354 1 0.00
355 81 0.25
356 51 0.16
357 75 0.23
ACGTcount: A:0.27, C:0.16, G:0.17, T:0.40
Consensus pattern (352 bp):
CTCAAGGTTTTGTTTCAGTTTCCGGTCTGCCCGTCCTTCTTCTGAATTAAGTAATTTTGGTTAAG
GATTTTTCAATGAAATTCATTTTATTTTCTTTTTTCTATCCCCCACAAACAACTGGATTTTTTGT
TCTAATTATTTGGCTTTCAATTTGATTGATAAATGAAAGGTACTGACTTATTGTAACACTCTTGT
AGATATCCAAAACACATACAGAACAAAGCTCAAATATATATATATATATATTTTATATATATATA
AATTCCCTCTGTAGTTCCGTTTGATCATAGCAGTCGACAACACCAAGTTGAAAGAAATTTGATGG
TGGAGAACGAAACTGAGCACAACACAA
Found at i:389977 original size:2 final size:2
Alignment explanation
Indices: 389972--390003 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
389962 AGAAAAGCTC
*
389972 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
390004 TCTCTGTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:390841 original size:21 final size:21
Alignment explanation
Indices: 390815--390914 Score: 119
Period size: 21 Copynumber: 4.6 Consensus size: 21
390805 GACAAAAATG
**
390815 CAAGGCTTCGTGGAGAAATCA
1 CAAGGCTTCAAGGAGAAATCA
* *
390836 CGAGGCTTCAAGGAGAAGTCA
1 CAAGGCTTCAAGGAGAAATCA
*
390857 CAAGGCTTGCTTCAAGGAGAAGTCA
1 CAA-G---GCTTCAAGGAGAAATCA
390882 CAAGGCTTCAAGGAGAAATCA
1 CAAGGCTTCAAGGAGAAATCA
390903 CAAGGCTTCAAG
1 CAAGGCTTCAAG
390915 CCTAGAACGA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
21 47 0.68
22 1 0.01
24 1 0.01
25 20 0.29
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.17
Consensus pattern (21 bp):
CAAGGCTTCAAGGAGAAATCA
Found at i:390874 original size:25 final size:25
Alignment explanation
Indices: 390840--390910 Score: 105
Period size: 25 Copynumber: 3.0 Consensus size: 25
390830 AAATCACGAG
390840 GCTTCAAGGAGAAGTCACAAGGCTT
1 GCTTCAAGGAGAAGTCACAAGGCTT
390865 GCTTCAAGGAGAAGTCACAA-G---
1 GCTTCAAGGAGAAGTCACAAGGCTT
*
390886 GCTTCAAGGAGAAATCACAAGGCTT
1 GCTTCAAGGAGAAGTCACAAGGCTT
390911 CAAGCCTAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
21 19 0.46
22 1 0.02
24 1 0.02
25 20 0.49
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (25 bp):
GCTTCAAGGAGAAGTCACAAGGCTT
Found at i:391750 original size:96 final size:94
Alignment explanation
Indices: 391640--391831 Score: 357
Period size: 96 Copynumber: 2.0 Consensus size: 94
391630 TATCACATAT
391640 TTCATGTGTAAATATTTATTGTTTTATTTGCCTTAAAAATAAGTAATTATATATTTTTAAAAAAA
1 TTCATGTGTAAATATTTATTGTTTTATTTGCCTTAAAAATAAGTAATTATATATTTTT--AAAAA
391705 TTAAAATTAATAAATTCATTAATATATAAAA
64 TTAAAATTAATAAATTCATTAATATATAAAA
*
391736 TTCATGTGTAAATATTTATTGTTTTATTTGCCTTAAAAATAAGTAATTATATATTTTTTAAAATT
1 TTCATGTGTAAATATTTATTGTTTTATTTGCCTTAAAAATAAGTAATTATATATTTTTAAAAATT
391801 AAAATTAATAAATTCATTAATATATAAAA
66 AAAATTAATAAATTCATTAATATATAAAA
391830 TT
1 TT
391832 TGTTCAATGT
Statistics
Matches: 95, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
94 37 0.39
96 58 0.61
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.46
Consensus pattern (94 bp):
TTCATGTGTAAATATTTATTGTTTTATTTGCCTTAAAAATAAGTAATTATATATTTTTAAAAATT
AAAATTAATAAATTCATTAATATATAAAA
Found at i:392859 original size:21 final size:22
Alignment explanation
Indices: 392837--392885 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
392827 TTTTTTGTTT
*
392837 AATATATATTTTTTATAAATTAA
1 AATATA-ATTTTATATAAATTAA
*
392860 AAT-TAATTTTATATATATTAA
1 AATATAATTTTATATAAATTAA
392881 AATAT
1 AATAT
392886 TAACTGTACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 17 0.74
22 3 0.13
23 3 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATATAATTTTATATAAATTAA
Found at i:403401 original size:3 final size:3
Alignment explanation
Indices: 403393--403418 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
403383 CAATTTTTAT
403393 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
403419 TTGAAAAGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:405548 original size:38 final size:38
Alignment explanation
Indices: 405479--405551 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
405469 TCATGTACGT
* * * *
405479 TTACATAAAAGATGAGCAATAACTGATTTTAACATAGC
1 TTACATAAAAAATAAGCAATAACAGACTTTAACATAGC
*
405517 TTACATAAAAAATAAGCAATAAGAGACTTTAACAT
1 TTACATAAAAAATAAGCAATAACAGACTTTAACAT
405552 GATTAACTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.27
Consensus pattern (38 bp):
TTACATAAAAAATAAGCAATAACAGACTTTAACATAGC
Found at i:408626 original size:40 final size:41
Alignment explanation
Indices: 408551--408633 Score: 159
Period size: 40 Copynumber: 2.0 Consensus size: 41
408541 GTAATACACG
408551 ATAAGAGATAGTTAAAACTCCCCAGAAGGAATTTCATGACA
1 ATAAGAGATAGTTAAAACTCCCCAGAAGGAATTTCATGACA
408592 ATAAGAGATAGTTAAAACT-CCCAGAAGGAATTTCATGACA
1 ATAAGAGATAGTTAAAACTCCCCAGAAGGAATTTCATGACA
408632 AT
1 AT
408634 CTGTCAAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 23 0.55
41 19 0.45
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.23
Consensus pattern (41 bp):
ATAAGAGATAGTTAAAACTCCCCAGAAGGAATTTCATGACA
Found at i:410663 original size:2 final size:2
Alignment explanation
Indices: 410656--410685 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
410646 CCTTTCCTTT
410656 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
410686 AGAAACTACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:414820 original size:2 final size:2
Alignment explanation
Indices: 414813--414849 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
414803 GAAAAGGAAA
414813 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
414850 CAGAACCTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:415316 original size:16 final size:16
Alignment explanation
Indices: 415295--415330 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
415285 TATTATTTTG
415295 ATATTAATATATATTA
1 ATATTAATATATATTA
* *
415311 ATATTAATATGTTTTA
1 ATATTAATATATATTA
415327 ATAT
1 ATAT
415331 ATATTTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATATTAATATATATTA
Found at i:415334 original size:26 final size:24
Alignment explanation
Indices: 415298--415398 Score: 91
Period size: 26 Copynumber: 4.1 Consensus size: 24
415288 TATTTTGATA
*
415298 TTAATATATATTAATATTAATATGTT
1 TTAATATATATTAATAAT-ATAT-TT
*
415324 TTAATATATATTTATAATATATTT
1 TTAATATATATTAATAATATATTT
* *
415348 TTAA-AT-TATTTAATAAGATTATAT
1 TTAATATATA-TTAATAATA-TATTT
*
415372 TAAATATATATGTAA-AATATATTT
1 TTAATATATAT-TAATAATATATTT
415396 TTA
1 TTA
415399 TTTTATATAT
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
22 2 0.03
23 9 0.15
24 19 0.31
25 10 0.16
26 21 0.34
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (24 bp):
TTAATATATATTAATAATATATTT
Found at i:418168 original size:45 final size:48
Alignment explanation
Indices: 418117--418212 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 48
418107 TGTATGTATA
*
418117 TTATATTTATAT-ATTTT-ATCGTGTT-ATAA-TTATATTTAATATATT
1 TTATATTTATATAATTTTAAT-GTGTTAATAATTTATATTTAATAGATT
*
418162 TTATATTTATATAAATTTTAATGTGTTAATAATTTATATTTTATAGATT
1 TTATATTTATAT-AATTTTAATGTGTTAATAATTTATATTTAATAGATT
418211 TT
1 TT
418213 GAGATTTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
45 12 0.27
47 10 0.23
48 6 0.14
49 16 0.36
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.59
Consensus pattern (48 bp):
TTATATTTATATAATTTTAATGTGTTAATAATTTATATTTAATAGATT
Found at i:418175 original size:30 final size:29
Alignment explanation
Indices: 418116--418172 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
418106 TTGTATGTAT
*
418116 ATTATATTTATATATTTTATCGTGTTATA
1 ATTATATTTATATATTTTATCATGTTATA
418145 ATTATATTTAATATATTTTAT-AT-TTATA
1 ATTATATTT-ATATATTTTATCATGTTATA
418173 TAAATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 5 0.19
29 10 0.38
30 11 0.42
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (29 bp):
ATTATATTTATATATTTTATCATGTTATA
Found at i:418392 original size:26 final size:25
Alignment explanation
Indices: 418363--418414 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
418353 TAATTAAAAA
* *
418363 ATAAAAAATTAATTATATATTTAAAT
1 ATAAAAAATAAAATATAT-TTTAAAT
**
418389 ATAATTAATAAAATATATTTTAAAT
1 ATAAAAAATAAAATATATTTTAAAT
418414 A
1 A
418415 AATATTGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
ATAAAAAATAAAATATATTTTAAAT
Found at i:419448 original size:2 final size:2
Alignment explanation
Indices: 419433--419473 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
419423 CATAATTTTT
* *
419433 TA TA TG TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
419474 CATACACAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:422823 original size:3 final size:3
Alignment explanation
Indices: 422815--422847 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
422805 TAAAATACAA
422815 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
422848 GTTGTTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:422927 original size:12 final size:13
Alignment explanation
Indices: 422889--422925 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
422879 ATTAATAGGC
* *
422889 AAAAAAAGGAAAA
1 AAAAAAAAGAAAG
422902 AAAAAAAAGAAAG
1 AAAAAAAAGAAAG
422915 AAAAAAAAGAA
1 AAAAAAAAGAA
422926 GACCCAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAG
Done.