Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 34 of 349
Found at i:9418270 original size:30 final size:30
Alignment explanation
Indices: 9418216--9418273 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9418206 CACGGCCATG
* *
9418216 ACACACGGGCGTGTGGCCTACCCGTGTGTC
1 ACACACGGGCATGTGGACTACCCGTGTGTC
* *
9418246 ACACACGGGCATGTGGATTGCCCGTGTG
1 ACACACGGGCATGTGGACTACCCGTGTG
9418274 GAACTGCCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.34, T:0.21
Consensus pattern (30 bp):
ACACACGGGCATGTGGACTACCCGTGTGTC
Found at i:9420340 original size:11 final size:11
Alignment explanation
Indices: 9420320--9420358 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
9420310 AAATAGAACT
*
9420320 AAAAATAAAAG
1 AAAAAGAAAAG
9420331 AAAAAGAAAAAG
1 AAAAAG-AAAAG
9420343 AAAAAGAAAAG
1 AAAAAGAAAAG
9420354 CAAAA
1 -AAAA
9420359 TAAAGTAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 10 0.40
12 15 0.60
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:9420358 original size:6 final size:6
Alignment explanation
Indices: 9420326--9420352 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9420316 AACTAAAAAT
9420326 AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAA
9420353 GCAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:9420358 original size:12 final size:11
Alignment explanation
Indices: 9420320--9420358 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
9420310 AAATAGAACT
*
9420320 AAAAATAAAAG
1 AAAAAGAAAAG
9420331 AAAAAGAAAAAG
1 AAAAAG-AAAAG
9420343 AAAAAGAAAAG
1 AAAAAGAAAAG
*
9420354 CAAAA
1 AAAAA
9420359 TAAAGTAGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 14 0.56
12 11 0.44
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.03
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:9421629 original size:28 final size:27
Alignment explanation
Indices: 9421598--9421652 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
9421588 TTTATTATTT
* *
9421598 TTCAATAGCAATTAATCAATCAGTAATA
1 TTCAATAACAATCAATCAATCAG-AATA
* *
9421626 TTCATTAACAATCAGTCAATCAGAATA
1 TTCAATAACAATCAATCAATCAGAATA
9421653 ATTATTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.31
Consensus pattern (27 bp):
TTCAATAACAATCAATCAATCAGAATA
Found at i:9421681 original size:18 final size:18
Alignment explanation
Indices: 9421614--9421808 Score: 104
Period size: 18 Copynumber: 10.3 Consensus size: 18
9421604 AGCAATTAAT
*
9421614 CAATCAGTAATATTCATTAA
1 CAATCAGT--TATTCAGTAA
* *
9421634 CAATCAGTCAATCAG-AA
1 CAATCAGTTATTCAGTAA
* * *
9421651 TAATTATTTATTCAGTAA
1 CAATCAGTTATTCAGTAA
* *
9421669 CAGTCAGTTATTCGGTAA
1 CAATCAGTTATTCAGTAA
* *
9421687 CAATCAATTATTCAATAA
1 CAATCAGTTATTCAGTAA
*
9421705 TAATCAGTTATTCAGTATCAA
1 CAATCAGTTATTCAG--T-AA
* *
9421726 TCAATTGATTGGTTATCCAGTAA
1 -CAA-TCA---GTTATTCAGTAA
* *
9421749 CAGTCAATTATTCAGTAA
1 CAATCAGTTATTCAGTAA
* * *
9421767 AAATCAGATATACAGTAA
1 CAATCAGTTATTCAGTAA
* *
9421785 CAATTAAATTATTCAGTAA
1 CAA-TCAGTTATTCAGTAA
9421804 CAATC
1 CAATC
9421809 GATCTTTCTA
Statistics
Matches: 127, Mismatches: 38, Indels: 22
0.68 0.20 0.12
Matches are distributed among these distances:
17 12 0.09
18 71 0.56
19 14 0.11
20 9 0.07
21 4 0.03
22 4 0.03
23 4 0.03
24 1 0.01
26 8 0.06
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.34
Consensus pattern (18 bp):
CAATCAGTTATTCAGTAA
Found at i:9429315 original size:27 final size:27
Alignment explanation
Indices: 9429285--9429462 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
9429275 ATATTGAGCC
* * *
9429285 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
9429312 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
9429339 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
9429367 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
9429394 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
9429421 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
9429448 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9429463 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:9429378 original size:55 final size:55
Alignment explanation
Indices: 9429285--9429462 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
9429275 ATATTGAGCC
* * *
9429285 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
9429339 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
9429394 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
9429448 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
9429463 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:9429424 original size:82 final size:81
Alignment explanation
Indices: 9429306--9429461 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
9429296 TGCTATACAA
* * *
9429306 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
9429371 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
9429388 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
9429452 CACTTAGTGC
65 CACTTAGTGC
9429462 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:9434860 original size:26 final size:26
Alignment explanation
Indices: 9434801--9434863 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
9434791 TCACATATAT
9434801 TCATAAAT-CAATTCAATATAATCAA
1 TCATAAATCCAATTCAATATAATCAA
* *
9434826 T-ATTCAATCCAATTCAA-ATAATCATC
1 TCA-TAAATCCAATTCAATATAATCA-A
9434852 TCATAAATCCAA
1 TCATAAATCCAA
9434864 CAATTTAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
24 1 0.03
25 12 0.39
26 17 0.55
27 1 0.03
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.32
Consensus pattern (26 bp):
TCATAAATCCAATTCAATATAATCAA
Found at i:9435442 original size:35 final size:31
Alignment explanation
Indices: 9435378--9435446 Score: 84
Period size: 35 Copynumber: 2.1 Consensus size: 31
9435368 TATTTATCAT
* *
9435378 ATAAATATCTTATAATATAATTATTTATTTA
1 ATAAATATCTTATAATATAAATATCTATTTA
9435409 ATAAATATCTTTTATAAATAATAAATATCTATTTA
1 ATAAATATC--TTAT-AAT-ATAAATATCTATTTA
9435444 ATA
1 ATA
9435447 TCAAATACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 9 0.28
33 4 0.12
34 3 0.09
35 16 0.50
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (31 bp):
ATAAATATCTTATAATATAAATATCTATTTA
Found at i:9438433 original size:16 final size:17
Alignment explanation
Indices: 9438409--9438442 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9438399 TAGTAACAAG
*
9438409 ATCTGCCTTAGGT-TTT
1 ATCTCCCTTAGGTATTT
9438425 ATCTCCCTTAGGTATTT
1 ATCTCCCTTAGGTATTT
9438442 A
1 A
9438443 GGGGATTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.18, C:0.21, G:0.15, T:0.47
Consensus pattern (17 bp):
ATCTCCCTTAGGTATTT
Found at i:9440849 original size:7 final size:7
Alignment explanation
Indices: 9440839--9440866 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
9440829 AAGATAAAAG
9440839 TAAATAA
1 TAAATAA
9440846 TAAATAA
1 TAAATAA
9440853 TAAATAA
1 TAAATAA
9440860 TAAATAA
1 TAAATAA
9440867 AAGTCTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TAAATAA
Found at i:9456152 original size:16 final size:16
Alignment explanation
Indices: 9456101--9456169 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 16
9456091 CACTTTAATA
*
9456101 TTAAATTAATATAATAC
1 TTAAATTAATAT-ATAT
9456118 TTAAGTATTAGAT-TATAT
1 TTAA--ATTA-ATATATAT
9456136 TTAATATTAA-ATATA-
1 TTAA-ATTAATATATAT
9456151 TTAAATTAATATAATAT
1 TTAAATTAATAT-ATAT
9456168 TT
1 TT
9456170 TACCTACAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
14 5 0.11
15 6 0.14
16 8 0.18
17 11 0.25
18 7 0.16
19 5 0.11
20 2 0.05
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (16 bp):
TTAAATTAATATATAT
Found at i:9458781 original size:20 final size:20
Alignment explanation
Indices: 9458740--9458782 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9458730 ATTCGACCAA
*
9458740 TTTTGGGTCTCAGTCTCGAT
1 TTTTGGGTCTCAGTCTCAAT
* *
9458760 TTTTGGGTCTCGGTTTCAAT
1 TTTTGGGTCTCAGTCTCAAT
9458780 TTT
1 TTT
9458783 CAATCTCAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.09, C:0.16, G:0.23, T:0.51
Consensus pattern (20 bp):
TTTTGGGTCTCAGTCTCAAT
Found at i:9459847 original size:22 final size:22
Alignment explanation
Indices: 9459819--9459864 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
9459809 TTGGAATTGT
9459819 AGACACCATAATAATCTTTCTA
1 AGACACCATAATAATCTTTCTA
9459841 AGACACCATAATAATCTTTCTA
1 AGACACCATAATAATCTTTCTA
9459863 AG
1 AG
9459865 TATTTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (22 bp):
AGACACCATAATAATCTTTCTA
Found at i:9461163 original size:22 final size:22
Alignment explanation
Indices: 9461139--9461182 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
9461129 TATGAAGTAA
*
9461139 TTTACAAATTTATACTATTTTAT
1 TTTACAAAATTATA-TATTTTAT
*
9461162 TTTCCAAAATTATATATTTTA
1 TTTACAAAATTATATATTTTA
9461183 GCATGTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTACAAAATTATATATTTTAT
Found at i:9464323 original size:24 final size:24
Alignment explanation
Indices: 9464296--9464347 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9464286 TTATTAAGTC
*
9464296 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
9464320 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
9464344 AAAT
1 AAAT
9464348 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:9476761 original size:23 final size:23
Alignment explanation
Indices: 9476735--9476779 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
9476725 TAGGTATGTG
*
9476735 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
9476758 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
9476780 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:9477985 original size:31 final size:29
Alignment explanation
Indices: 9477950--9478014 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
9477940 AAAATCATAT
*
9477950 ATGAACTATGGTTTAATGTATAATTGTATAC
1 ATGAACTATGATTT--TGTATAATTGTATAC
* * *
9477981 ATGAACTTTGATTTTGTGTAATTTTATAC
1 ATGAACTATGATTTTGTATAATTGTATAC
9478010 ATGAA
1 ATGAA
9478015 ATTTTGATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 18 0.60
31 12 0.40
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (29 bp):
ATGAACTATGATTTTGTATAATTGTATAC
Found at i:9478432 original size:12 final size:12
Alignment explanation
Indices: 9478392--9478425 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
9478382 TTATCTACAA
*
9478392 TACAAATATAAG
1 TACAAATATAAC
9478404 TACAAA-ATAAC
1 TACAAATATAAC
9478415 TACAAATATAA
1 TACAAATATAA
9478426 TTCCAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.24
Consensus pattern (12 bp):
TACAAATATAAC
Found at i:9478925 original size:21 final size:20
Alignment explanation
Indices: 9478873--9478927 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
9478863 ATTTTTTAAC
*
9478873 AAAAATTGTAAAAAAAAATA
1 AAAAATTGTATAAAAAAATA
*
9478893 AAAAATCT-TATAAATAAATA
1 AAAAAT-TGTATAAAAAAATA
9478913 AACAAATTGTATAAA
1 AA-AAATTGTATAAA
9478928 GACCCAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (20 bp):
AAAAATTGTATAAAAAAATA
Found at i:9483271 original size:3 final size:3
Alignment explanation
Indices: 9483199--9483262 Score: 85
Period size: 3 Copynumber: 21.3 Consensus size: 3
9483189 GTACTTTTGC
*
9483199 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
9483247 TAC TAT TAT TAG TAT T
1 TAT TAT TAT TAT TAT T
9483263 GGTATTATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 1 0.02
3 52 0.98
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9491917 original size:46 final size:44
Alignment explanation
Indices: 9491850--9492178 Score: 220
Period size: 44 Copynumber: 7.6 Consensus size: 44
9491840 ATAATACAGG
*
9491850 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* *
9491896 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-T-AGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAG--A
* * * * * *
9491940 TCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG-----GA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * *
9491979 TCTTATCTCTCTGA-AGTTACAGTAGAGA-AGATC--ACA-TCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGA-ACAGATCAAAGATTCAGA
*
9492020 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAG-A-TTCAGA
* * ** ****
9492066 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
* * * *
9492110 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGA--CACTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCA-GA
*
9492153 TCCTATCTCCCTGA-AGTTACAGTGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGA
9492179 GTGGATTAAA
Statistics
Matches: 225, Mismatches: 41, Indels: 37
0.74 0.14 0.12
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 23 0.10
40 1 0.00
41 28 0.12
42 5 0.02
43 25 0.11
44 70 0.31
45 1 0.00
46 70 0.31
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGATCAAAGATTCAGA
Found at i:9491967 original size:44 final size:46
Alignment explanation
Indices: 9491853--9492179 Score: 189
Period size: 46 Copynumber: 7.5 Consensus size: 46
9491843 ATACAGGTCT
* * * *
9491853 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
*
9491899 TATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGT-A-ATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAAT-GTCAGATCC
* * * * *
9491943 TATCTCCTTGAGATTACAATGGAGCGGAT--TA-AA-G---GATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* * * * * *
9491982 TATCTCTCTGA-AGTTACAGTAGAGAAGATC--A-CA--TCAGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* * * *
9492023 TATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
* ** * *
9492069 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G--AGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAG-AATGTCAGATCC
* * *
9492113 TATCTCCCTGAGATTACAGCGGAGCAGATC---GAA-GACACTATCC
1 TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCA-GATCC
9492156 TATCTCCCTGA-AGTTACAGTGGAG
1 TATCTCCCTGAGA-TTACAGTGGAG
9492180 TGGATTAAAA
Statistics
Matches: 222, Mismatches: 40, Indels: 41
0.73 0.13 0.14
Matches are distributed among these distances:
38 1 0.00
39 26 0.12
40 3 0.01
41 28 0.13
42 5 0.02
43 25 0.11
44 62 0.28
45 3 0.01
46 68 0.31
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (46 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATCAAAGAATGTCAGATCC
Found at i:9492199 original size:87 final size:88
Alignment explanation
Indices: 9492020--9492230 Score: 212
Period size: 87 Copynumber: 2.4 Consensus size: 88
9492010 TCACATCAGG
* * * * * *
9492020 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAA--TCAGATCCTATCTCCCTGAAGTTA
* **
9492085 CAGTGGAGCAGATTGAAGCCAGAGA
64 CAGTGGAGCAGATTAAAGAAAGAGA
*
9492110 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-CACTATCCTATCTCCCTGAAGTTAC
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAATCA-GATCCTATCTCCCTGAAGTTAC
** *
9492173 AGTGGAGTGGATTAAAATAAAG-GA
65 AGTGGAGCAGATT-AAAGAAAGAGA
* * * *
9492197 TCTTATCTCTCTGAGGTTACAGCAGAGTAGATCG
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCG
9492231 CATCAAGTCT
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
86 2 0.02
87 62 0.61
88 4 0.04
89 1 0.01
90 33 0.32
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (88 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAATCAGATCCTATCTCCCTGAAGTTACA
GTGGAGCAGATTAAAGAAAGAGA
Found at i:9493825 original size:3 final size:3
Alignment explanation
Indices: 9493753--9493816 Score: 85
Period size: 3 Copynumber: 21.3 Consensus size: 3
9493743 GTACTTTTGC
*
9493753 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
9493801 TAC TAT TAT TAG TAT T
1 TAT TAT TAT TAT TAT T
9493817 GGTATTATTG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 1 0.02
3 52 0.98
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9494026 original size:36 final size:36
Alignment explanation
Indices: 9493947--9494026 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
9493937 AATTTGTTTA
* *
9493947 ATATATATACGTATACTCATATTTCTTTTTATATAT
1 ATATATATACATATACTCATATTTATTTTTATATAT
* *
9493983 ATCTATATACATATACAT-ATTTTTATTTTTATA-AGT
1 ATATATATACATATAC-TCATATTTATTTTTATATA-T
9494019 ATATATAT
1 ATATATAT
9494027 TTATATGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 1 0.03
36 35 0.95
37 1 0.03
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (36 bp):
ATATATATACATATACTCATATTTATTTTTATATAT
Found at i:9494371 original size:2 final size:2
Alignment explanation
Indices: 9494361--9494391 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9494351 ATTTTTTGTC
*
9494361 TA TA CA 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 T
9494392 CCCCTTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9513907 original size:23 final size:23
Alignment explanation
Indices: 9513856--9513913 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
9513846 CTTTTAATGT
*
9513856 TATATTTTTAAAAAAATAAAATA
1 TATATTTTTAAATAAATAAAATA
* * * *
9513879 TGTATTTTTAAATATATTAATTA
1 TATATTTTTAAATAAATAAAATA
9513902 TATA-TTTTAAAT
1 TATATTTTTAAAT
9513914 TAATTTCCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
22 8 0.28
23 21 0.72
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TATATTTTTAAATAAATAAAATA
Found at i:9523868 original size:51 final size:51
Alignment explanation
Indices: 9523775--9523884 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 51
9523765 AATTAATTTT
* **
9523775 AATAAAATAATGAAGAAGTGAGCTATAAGAGTATTTCATAGTCAATGTGGA
1 AATAAAATAATGAAGAAGTGAGCTATAAGAATATTTCATAGTCAACATGGA
*
9523826 AATAAAATAATTGAA-AAGTGTA-CTATGAGAATATTCTC-TAGTCAACATGGA
1 AATAAAATAA-TGAAGAAGTG-AGCTATAAGAATATT-TCATAGTCAACATGGA
*
9523877 ATTAAAAT
1 AATAAAAT
9523885 TAACTTTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
51 44 0.86
52 7 0.14
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.29
Consensus pattern (51 bp):
AATAAAATAATGAAGAAGTGAGCTATAAGAATATTTCATAGTCAACATGGA
Found at i:9525481 original size:4 final size:4
Alignment explanation
Indices: 9525474--9525498 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
9525464 TTTTAAAATT
9525474 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
9525499 GGAACAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:9539488 original size:12 final size:12
Alignment explanation
Indices: 9539467--9539500 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
9539457 ATATATTTTT
*
9539467 AAAATTATATAA
1 AAAATAATATAA
9539479 AAAATAATATAA
1 AAAATAATATAA
*
9539491 AAATTAATAT
1 AAAATAATAT
9539501 GGGCTGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:9541455 original size:22 final size:22
Alignment explanation
Indices: 9541425--9541467 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9541415 TCTAATTATG
* *
9541425 AAATTTAAATATTAAAATAAAA
1 AAATATAAATATCAAAATAAAA
*
9541447 AAATATAAATATCAAAGTAAA
1 AAATATAAATATCAAAATAAA
9541468 CTATAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (22 bp):
AAATATAAATATCAAAATAAAA
Found at i:9545845 original size:2 final size:2
Alignment explanation
Indices: 9545838--9545871 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
9545828 ATTAATGATC
* *
9545838 TA TA TA TA TA TA CA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9545872 ATTCCACTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9547503 original size:20 final size:19
Alignment explanation
Indices: 9547460--9547503 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
9547450 ACAATTAAAG
*
9547460 AAAA-CAAATAATAAATAA
1 AAAAGCAAATAAAAAATAA
9547478 ATAAAGCAAATAAAAAATGAA
1 A-AAAGCAAATAAAAAAT-AA
9547499 AAAAG
1 AAAAG
9547504 TCTTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.05
19 3 0.14
20 15 0.68
21 3 0.14
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.14
Consensus pattern (19 bp):
AAAAGCAAATAAAAAATAA
Found at i:9557747 original size:7 final size:7
Alignment explanation
Indices: 9557735--9557760 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9557725 GTTATAAAGT
9557735 TTTATTC
1 TTTATTC
9557742 TTTATTC
1 TTTATTC
9557749 TTTATTC
1 TTTATTC
9557756 TTTAT
1 TTTAT
9557761 ATACATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTATTC
Found at i:9567327 original size:108 final size:108
Alignment explanation
Indices: 9567213--9567418 Score: 344
Period size: 108 Copynumber: 1.9 Consensus size: 108
9567203 GTTGGACTGA
*
9567213 TAGATCACGACATGAGAATGTGTAAGTCCATGTGGCT-AAGACTCAT-GACAATATATGATTGTA
1 TAGATCACGACATGAGAATGTGTAAGTCCATGTGGCTGAA-ACCCATAG-CAATATATGATTGTA
*
9567276 TGAATGTTCATGGTGAAGCCTGCGATAATGTGTAGATTGAATTGG
64 TGAATGTTCATGGTGAAGCCTGCAATAATGTGTAGATTGAATTGG
*
9567321 TAGATCACGACATGAGAATGTGTAAGTCCATGTGGTTGAAACCCATAGCAATATATGATTGTATG
1 TAGATCACGACATGAGAATGTGTAAGTCCATGTGGCTGAAACCCATAGCAATATATGATTGTATG
*
9567386 AATGTTCATGGTGAAGCCTTCAATAATGTGTAG
66 AATGTTCATGGTGAAGCCTGCAATAATGTGTAG
9567419 GTCAAACTAG
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
108 89 0.97
109 3 0.03
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.31
Consensus pattern (108 bp):
TAGATCACGACATGAGAATGTGTAAGTCCATGTGGCTGAAACCCATAGCAATATATGATTGTATG
AATGTTCATGGTGAAGCCTGCAATAATGTGTAGATTGAATTGG
Found at i:9567434 original size:108 final size:108
Alignment explanation
Indices: 9567214--9567443 Score: 338
Period size: 108 Copynumber: 2.1 Consensus size: 108
9567204 TTGGACTGAT
*
9567214 AGATCACGACATGAGAATGTGTAAGTCCATGTGGCTAAGACTCATGACAATATATGATTGTATGA
1 AGATCACGACATGAGAATGTGTAAGTCCATGTGGCTAAGACCCATGACAATATATGATTGTATGA
* ** * * *
9567279 ATGTTCATGGTGAAGCCTGCGATAATGTGTAGATTGAATTGGT
66 ATGTTCATGGTGAAGCCTGCAATAATGTGTAGATCAAACTAGA
*
9567322 AGATCACGACATGAGAATGTGTAAGTCCATGTGGTTGAA-ACCCAT-AGCAATATATGATTGTAT
1 AGATCACGACATGAGAATGTGTAAGTCCATGTGGCT-AAGACCCATGA-CAATATATGATTGTAT
* *
9567385 GAATGTTCATGGTGAAGCCTTCAATAATGTGTAGGTCAAACTAGA
64 GAATGTTCATGGTGAAGCCTGCAATAATGTGTAGATCAAACTAGA
9567430 AGATCACGACATGA
1 AGATCACGACATGA
9567444 AATTATGTGC
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
107 1 0.01
108 107 0.97
109 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.29
Consensus pattern (108 bp):
AGATCACGACATGAGAATGTGTAAGTCCATGTGGCTAAGACCCATGACAATATATGATTGTATGA
ATGTTCATGGTGAAGCCTGCAATAATGTGTAGATCAAACTAGA
Found at i:9567564 original size:29 final size:29
Alignment explanation
Indices: 9567527--9567589 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
9567517 ATTCTGTATG
*
9567527 TTTGCTTGTGCAGCGTGATTTGCTAAGAT
1 TTTGTTTGTGCAGCGTGATTTGCTAAGAT
*
9567556 TTTGTTTGTGTAGCGTGATTTGCTAAGAT
1 TTTGTTTGTGCAGCGTGATTTGCTAAGAT
9567585 TTTGT
1 TTTGT
9567590 GGCAAGTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.16, C:0.10, G:0.27, T:0.48
Consensus pattern (29 bp):
TTTGTTTGTGCAGCGTGATTTGCTAAGAT
Found at i:9571087 original size:35 final size:36
Alignment explanation
Indices: 9571004--9571076 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
9570994 CACACGAACC
9571004 TAACCATAAACGACAGTAAAAAAGGTGTTAAAGAGA
1 TAACCATAAACGACAGTAAAAAAGGTGTTAAAGAGA
9571040 TAACCATAAACGACAGTAAAAAAGGTGTTAAAGAGA
1 TAACCATAAACGACAGTAAAAAAGGTGTTAAAGAGA
9571076 T
1 T
9571077 TACAACAACG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.52, C:0.11, G:0.19, T:0.18
Consensus pattern (36 bp):
TAACCATAAACGACAGTAAAAAAGGTGTTAAAGAGA
Found at i:9574041 original size:6 final size:6
Alignment explanation
Indices: 9574023--9574079 Score: 78
Period size: 6 Copynumber: 9.5 Consensus size: 6
9574013 TAAGTCTAAG
* * * *
9574023 AAAATA ATAATA AACATA AACATA AAAATA AAAATA AAAATA GAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
9574071 AAAATA AAA
1 AAAATA AAA
9574080 CAAATAAACT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:9575748 original size:5 final size:5
Alignment explanation
Indices: 9575738--9575853 Score: 55
Period size: 5 Copynumber: 23.2 Consensus size: 5
9575728 GAAGCAGAAT
* **
9575738 AATAA AATAA AATAA AAT-A AAGAA AATAA TAATTTT AATAA GAAT-A
1 AATAA AATAA AATAA AATAA AATAA AATAA -AA-TAA AATAA -AATAA
* * * * *
9575784 AATAG AA-AA TATAA AATAA CAA-AC AA-AA GATAA TAATAA GA-AA AATAA
1 AATAA AATAA AATAA AATAA -AATAA AATAA AATAA -AATAA AATAA AATAA
*
9575832 AGTAA AATAA AATAAA AATAA A
1 AATAA AATAA AAT-AA AATAA A
9575854 GAATTAAAAA
Statistics
Matches: 82, Mismatches: 18, Indels: 22
0.67 0.15 0.18
Matches are distributed among these distances:
4 15 0.18
5 48 0.59
6 18 0.22
7 1 0.01
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:9586880 original size:33 final size:33
Alignment explanation
Indices: 9586838--9586918 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
9586828 TGTGGCCATG
*
9586838 TGGG-CCACACAGGCTACGAAAAATTGGGCGTA
1 TGGGCCCACACAGGCAACGAAAAATTGGGCGTA
* * ** * *
9586870 TGGGCCCACACAGACAAGGCCAATTTGGGCGTG
1 TGGGCCCACACAGGCAACGAAAAATTGGGCGTA
9586903 TGGGCCCACACAGGCA
1 TGGGCCCACACAGGCA
9586919 TGTAGGCCCA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 4 0.10
33 36 0.90
ACGTcount: A:0.27, C:0.27, G:0.32, T:0.14
Consensus pattern (33 bp):
TGGGCCCACACAGGCAACGAAAAATTGGGCGTA
Found at i:9597166 original size:20 final size:21
Alignment explanation
Indices: 9597121--9597185 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
9597111 AATGATGATG
* *
9597121 TTAATGATATTTTATGATTA-T
1 TTAATGAGATATTAT-ATTATT
*
9597142 TTAATTAGATA-TATATTATT
1 TTAATGAGATATTATATTATT
*
9597162 TTAATGAGATATTTTATTATT
1 TTAATGAGATATTATATTATT
9597183 TTA
1 TTA
9597186 CTATTATTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.11
20 14 0.38
21 19 0.51
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (21 bp):
TTAATGAGATATTATATTATT
Found at i:9597178 original size:18 final size:20
Alignment explanation
Indices: 9597137--9597185 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
9597127 ATATTTTATG
*
9597137 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
*
9597156 ATTATTTTAATGAGATATTTT
1 ATTATTTTAATGAGATA-TAT
9597177 ATTATTTTA
1 ATTATTTTA
9597186 CTATTATTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 4 0.15
20 11 0.42
21 11 0.42
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:9597192 original size:11 final size:11
Alignment explanation
Indices: 9597175--9597213 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
9597165 ATGAGATATT
9597175 TTATTATTTTA
1 TTATTATTTTA
* *
9597186 CTATTATTTCA
1 TTATTATTTTA
9597197 TTATTATTTTA
1 TTATTATTTTA
9597208 TTATTA
1 TTATTA
9597214 ATTATTTAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:9599477 original size:23 final size:22
Alignment explanation
Indices: 9599366--9599478 Score: 86
Period size: 23 Copynumber: 4.8 Consensus size: 22
9599356 CTCGATATAT
9599366 GGCTCTTCGTGAGCTTCCCGATA
1 GGCTCTTC-TGAGCTTCCCGATA
* *
9599389 GGCTTTTTATGAGCTTCCCGATA
1 GGC-TCTTCTGAGCTTCCCGATA
*
9599412 GTGCTCCTT-TGAACTTCCCGATATA
1 G-GCT-CTTCTGAGCTTCCCG--ATA
* *
9599437 TGACT-ATCTGGAGCTTCCCGATA
1 -GGCTCTTCT-GAGCTTCCCGATA
9599460 GGCTCTTCGTGAGCTTCCC
1 GGCTCTTC-TGAGCTTCCC
9599479 AATATGGTTC
Statistics
Matches: 71, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
22 3 0.04
23 44 0.62
24 9 0.13
25 14 0.20
26 1 0.01
ACGTcount: A:0.16, C:0.28, G:0.22, T:0.34
Consensus pattern (22 bp):
GGCTCTTCTGAGCTTCCCGATA
Found at i:9599477 original size:48 final size:48
Alignment explanation
Indices: 9599366--9599483 Score: 120
Period size: 48 Copynumber: 2.5 Consensus size: 48
9599356 CTCGATATAT
* * * *
9599366 GGCTCTTCGTGAGCTTCCCG--ATAGGCTTTTTATGAGCTTCCCGATA
1 GGCTCTTCGTGAGCTTCCCGATATAGACTATCTAGGAGCTTCCCGATA
*
9599412 GTGCTCCTT--TGAACTTCCCGATATATGACTATCT-GGAGCTTCCCGATA
1 G-GCT-CTTCGTGAGCTTCCCGATATA-GACTATCTAGGAGCTTCCCGATA
*
9599460 GGCTCTTCGTGAGCTTCCCAATAT
1 GGCTCTTCGTGAGCTTCCCGATAT
9599484 GGTTCTTTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
46 14 0.24
47 6 0.10
48 33 0.57
49 5 0.09
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (48 bp):
GGCTCTTCGTGAGCTTCCCGATATAGACTATCTAGGAGCTTCCCGATA
Found at i:9615492 original size:27 final size:27
Alignment explanation
Indices: 9615454--9615509 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
9615444 ATTTAAGACT
9615454 TGATGGTTGTGGGGGCATACCCAAAGC
1 TGATGGTTGTGGGGGCATACCCAAAGC
9615481 TGATGGTTGTGGGGGCATACCCAAAGC
1 TGATGGTTGTGGGGGCATACCCAAAGC
9615508 TG
1 TG
9615510 TTCTATGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.18, G:0.38, T:0.23
Consensus pattern (27 bp):
TGATGGTTGTGGGGGCATACCCAAAGC
Found at i:9621594 original size:27 final size:28
Alignment explanation
Indices: 9621528--9621619 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 28
9621518 CGTACATACT
*
9621528 ATATATATACATATAATATAGTTATTAAGA
1 ATATATATACA-AT-ATATAGATATTAAGA
* *
9621558 AAATACATACAATATATA-ATATTAAGA
1 ATATATATACAATATATAGATATTAAGA
* *
9621585 ATATATATACAATACATATGGTATTAAGA
1 ATATATATACAATATATA-GATATTAAGA
9621614 A-ATATA
1 ATATATA
9621620 GTATTATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 23 0.43
28 10 0.19
29 11 0.21
30 9 0.17
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (28 bp):
ATATATATACAATATATAGATATTAAGA
Found at i:9621767 original size:12 final size:12
Alignment explanation
Indices: 9621735--9621761 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9621725 AATAAAAGCG
9621735 TATAAACAACAA
1 TATAAACAACAA
9621747 TATAAACAACAA
1 TATAAACAACAA
9621759 TAT
1 TAT
9621762 GTACAAGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.15, G:0.00, T:0.22
Consensus pattern (12 bp):
TATAAACAACAA
Found at i:9622151 original size:3 final size:3
Alignment explanation
Indices: 9622143--9622169 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9622133 ATACTAGTAC
9622143 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
9622170 ATATATGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9622242 original size:13 final size:13
Alignment explanation
Indices: 9622226--9622264 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 13
9622216 GATATAATAT
9622226 AATAATATATAAA
1 AATAATATATAAA
9622239 AATAATAGTGATAAA
1 AATAATA-T-ATAAA
9622254 AATAATATATA
1 AATAATATATA
9622265 TATCATGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.42
14 2 0.08
15 12 0.50
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (13 bp):
AATAATATATAAA
Found at i:9624107 original size:15 final size:15
Alignment explanation
Indices: 9624083--9624115 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
9624073 TTGATTTTTG
*
9624083 AAAAATATAAATTGA
1 AAAAACATAAATTGA
9624098 AAAAACATAAATTGA
1 AAAAACATAAATTGA
9624113 AAA
1 AAA
9624116 TACCTCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (15 bp):
AAAAACATAAATTGA
Found at i:9624337 original size:89 final size:86
Alignment explanation
Indices: 9624186--9624437 Score: 323
Period size: 89 Copynumber: 2.9 Consensus size: 86
9624176 TTGAAAAGCG
* * *
9624186 GAAATTGAAAATACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 GAAATTGAAAATACCTCAGCATGTCC-TGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTT
*
9624250 TGAAAAACATAAATTGGAGAAAACA
65 TGAAAAACAGAAATT--A-AAAACA
*
9624275 GAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
1 GAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
*
9624340 GAAAAACAGAAATTAAAAATA
66 GAAAAACAGAAATTAAAAACA
* *
9624361 GAAATTGAAAAAACCT-AGGCATGTGAGCTGAGGCTCAACTCACCTCTCGC-GATATGAGTTGA-
1 GAAATTGAAAATACCTCA-GCATGT--CCTGAGGCTCAACTCACCTCTCGCAG-TATGAGTTGAT
*
9624423 TTTTGACAAACAGAA
62 TTTTGAAAAACAGAA
9624438 GTTGAAATTA
Statistics
Matches: 148, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
85 1 0.01
86 25 0.17
87 16 0.11
88 33 0.22
89 71 0.48
90 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (86 bp):
GAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
GAAAAACAGAAATTAAAAACA
Found at i:9624363 original size:13 final size:14
Alignment explanation
Indices: 9624338--9624372 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
9624328 GAGTTGATTT
9624338 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
9624352 TT-AAAAATAGAAA
1 TTGAAAAACAGAAA
9624365 TTGAAAAA
1 TTGAAAAA
9624373 ACCTAGGCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:9624518 original size:72 final size:73
Alignment explanation
Indices: 9624388--9624893 Score: 404
Period size: 75 Copynumber: 6.8 Consensus size: 73
9624378 GGCATGTGAG
* * **
9624388 CTGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTGACAAACAG-AAGTTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAAGTAAAAATTACCTC
9624452 AGCGTGTC
66 AGCGTGTC
* * * *
9624460 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCAAAAACGGAGA-TCAAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAAGTAAAAATTACCTC
9624524 AGCGTGTC
66 AGCGTGTC
* * * *
9624532 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGATAGAAATTGAAAA-TAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTG---ATTTTGAAAAACAGAAAGTAAAAATTAC
**
9624596 CTCAATGTGTC
63 CTCAGCGTGTC
* * * * *
9624607 TTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTG--AAACAGAAA-TAAAAATTATCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGAAAAACAGAAAGTAAAAATTACCT
9624669 CAGCGTGTC
65 CAGCGTGTC
** * * * *
9624678 CCAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACA-ATAATTGAAAA-TA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTGAAAAACAGA-AAGTAAAAATTA
*
9624741 CCTCAGCGTGCC
62 CCTCAGCGTGTC
* * * * * * *
9624753 CCGAGGCTCAATTCACCTATAGCAATATGAATTGATTTTTGAAAACATAAATTGAAAAACAGAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG-AAA-A-ACA--G---AA-AGTAA
* *
9624818 TCGAAAATACCTCAGCATGTC
56 ---AAATTACCTCAGCGTGTC
* *
9624839 CTGAGGCTCAACTCACCCCTCGCAGTATGAGTTGAATTTTG--AAACAGAAA-TAAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGAAAAACAGAAAGTAAAA
9624894 CATCAGAATA
Statistics
Matches: 348, Mismatches: 58, Indels: 57
0.75 0.13 0.12
Matches are distributed among these distances:
70 6 0.02
71 47 0.14
72 97 0.28
73 18 0.05
74 5 0.01
75 104 0.30
76 14 0.04
79 1 0.00
81 3 0.01
82 4 0.01
83 1 0.00
85 3 0.01
86 44 0.13
87 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (73 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAAGTAAAAATTACCTC
AGCGTGTC
Found at i:9624617 original size:75 final size:72
Alignment explanation
Indices: 9624388--9624810 Score: 453
Period size: 72 Copynumber: 5.8 Consensus size: 72
9624378 GGCATGTGAG
* * *
9624388 CTGAGGCTCAACTCACCTCTCGCGATATGAGTTG-ATTTTGACAAACAGAAGTTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAAATACCTC
9624452 AGCGTGTC
65 AGCGTGTC
* * * *
9624460 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTCAAAAACGGAGA-TCAAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTT-GAAAACAGAAATTGAAAA-TACCT
9624523 CAGCGTGTC
64 CAGCGTGTC
*
9624532 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGAAAGATAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAA-ACAGAAATTGAAAATACC
**
9624597 TCAATGTGTC
63 TCAGCGTGTC
* * * * * *
9624607 TTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTG-AAACAGAAA-TAAAAATTATCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAA-TACCTC
9624670 AGCGTGTC
65 AGCGTGTC
** * *
9624678 CCAAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACA-ATAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGA-AAACAGA-AATTGAAAATAC
*
9624742 CTCAGCGTGCC
62 CTCAGCGTGTC
* * * * * * *
9624753 CCGAGGCTCAATTCACCTATAGCAATATGAATTGATTTTTGAAAACATAAATTGAAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAA
9624811 ACAGAAATCG
Statistics
Matches: 296, Mismatches: 40, Indels: 30
0.81 0.11 0.08
Matches are distributed among these distances:
70 5 0.02
71 49 0.17
72 108 0.36
73 20 0.07
74 4 0.01
75 100 0.34
76 10 0.03
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (72 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTC
Found at i:9624793 original size:146 final size:145
Alignment explanation
Indices: 9624393--9624796 Score: 501
Period size: 146 Copynumber: 2.8 Consensus size: 145
9624383 GTGAGCTGAG
* * *
9624393 GCTCAACTCACCTCTCGCGATATGAGTTGA--TTTTGACAAACAGAAGTTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCG
* ** * * *
9624456 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCAAAAACGGAGATCAAAATTAC
66 TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT-TGAAACAGAAATAAAAATTAC
** *
9624521 CTCAGCGTGTCCTGAG
130 CTCAGCGTGTCCCAAA
* *
9624537 GCTCAACTCACCTCTCGCAATATGAGTTGATTATTTTGA-AAGATAGAAATTGAAAATACCTCAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGACAA-ACAGAAATTGAAAATACCTCAG
* * * * * *
9624601 TGTGTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGAATTTTGAAACAGAAATAAAAATTA
64 CGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAACAGAAATAAAAATTA
*
9624666 TCTCAGCGTGTCCCAAA
129 CCTCAGCGTGTCCCAAA
9624683 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACA-ATAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGACAAACAGA-AATTGAAAATACCTCAG
* * * * *
9624747 CGTGCCCCGAGGCTCAATTCACCTATAGCAATATGAATTGATTTTTGAAA
64 CGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAA
9624797 ACATAAATTG
Statistics
Matches: 220, Mismatches: 33, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
144 29 0.13
145 1 0.00
146 123 0.56
147 67 0.30
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (145 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGACAAACAGAAATTGAAAATACCTCAGCG
TGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAACAGAAATAAAAATTACC
TCAGCGTGTCCCAAA
Found at i:9637307 original size:51 final size:56
Alignment explanation
Indices: 9637222--9637325 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 56
9637212 AATAACAATG
*
9637222 TTAAAAAAACAACTATTAATATTACATAAATATACACACATA-TACATATATATATT
1 TTAAAAAAACAACTAATAATATTA-ATAAATATACACACATACTACATATATATATT
** *
9637278 TTAAAAAAAC-A-TAATAATATT-A-AAATATACGTACATACTATATATATA
1 TTAAAAAAACAACTAATAATATTAATAAATATACACACATACTACATATATA
9637326 CATATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
51 13 0.30
52 10 0.23
54 9 0.21
55 1 0.02
56 10 0.23
ACGTcount: A:0.55, C:0.11, G:0.01, T:0.34
Consensus pattern (56 bp):
TTAAAAAAACAACTAATAATATTAATAAATATACACACATACTACATATATATATT
Found at i:9637383 original size:27 final size:28
Alignment explanation
Indices: 9637317--9637408 Score: 98
Period size: 27 Copynumber: 3.2 Consensus size: 28
9637307 CGTACATACT
*
9637317 ATATATATACATATAATATAGTTATTAAGA
1 ATATATATACA-AT-ATATAGATATTAAGA
* *
9637347 AAATACATACAATATATA-ATATTAAGA
1 ATATATATACAATATATAGATATTAAGA
* *
9637374 ATATATATACAATACATATGGTATTAAGA
1 ATATATATACAATATATA-GATATTAAGA
9637403 A-ATATA
1 ATATATA
9637409 GTATTATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
27 23 0.43
28 10 0.19
29 11 0.21
30 9 0.17
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (28 bp):
ATATATATACAATATATAGATATTAAGA
Found at i:9637802 original size:21 final size:21
Alignment explanation
Indices: 9637778--9637824 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
9637768 AGTATTAGAA
*
9637778 AAAAATATACTTGAT-ATATAT
1 AAAAATATACTTAATAATA-AT
9637799 AAAAATATACTTAATAATAAT
1 AAAAATATACTTAATAATAAT
9637820 AAAAA
1 AAAAA
9637825 ATTATTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAAATATACTTAATAATAAT
Found at i:9637862 original size:21 final size:20
Alignment explanation
Indices: 9637822--9637864 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
9637812 ATAATAATAA
9637822 AAAATTATTATTAAGGAATT
1 AAAATTATTATTAAGGAATT
*
9637842 AAAA-TATCTATTATGGAAATT
1 AAAATTAT-TATTAAGG-AATT
9637863 AA
1 AA
9637865 TTAGTGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 11 0.55
21 6 0.30
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.37
Consensus pattern (20 bp):
AAAATTATTATTAAGGAATT
Found at i:9642773 original size:17 final size:17
Alignment explanation
Indices: 9642751--9642783 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9642741 CATCTCGCAT
*
9642751 TTTATTTCTTTTATTAC
1 TTTATTTATTTTATTAC
9642768 TTTATTTATTTTATTA
1 TTTATTTATTTTATTA
9642784 TTAATATCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTATTTTATTAC
Found at i:9660327 original size:2 final size:2
Alignment explanation
Indices: 9660320--9660971 Score: 417
Period size: 2 Copynumber: 336.0 Consensus size: 2
9660310 ACTCAACTAA
* * *
9660320 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG GG GG AG GG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * *
9660362 AG A- AG -G AG GG AG GG AG AG AG GG AG AG GG AG GG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9660402 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * *
9660444 AG AG AG GG AG AG AG AG TG AG AG AG GG AG GG AA AG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * *
9660486 GG AG GG AG GG AG AG AG AG AG GG AG AG AG AG AG GG AG GG GG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * *
9660528 AG AG GG AG GG AG GG AG AG AG AG GG AG GG AG -G AG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * *
9660569 AG GG AG GG AG AG -G AG AG AG AG AG GG AG GG AG GG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * *
9660610 AG AG AG AG AG AG GG GG AG GG AG AG AG AG AG GG AG GG AG -G AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * *
9660651 AG AG AG -G GG AG AG GG AG AG GG AG GG GG AG AG AG AG GG AG GG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * *
9660692 A- AG AG AG AG AG GG AG GG AG AG AG -G GG GG AG AG GG AG GG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * *
9660732 GG AG GG A- AG -G AG GG AG AG AG GG AG GG AG -G AG GG AG GG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * *
9660771 AG AG AG AG AG A- AG AG AG GG AG GG TG GG AG AG AG AG AG -G AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * *
9660811 GG AG AG -G AG GG AG GG AG AG GG AG AG AG AG GG AG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * *
9660852 AG -G AG GG AG -G GG AG GG AG -G GG GG AG AG GG TG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
9660891 AG -G AG AG AG AG AG AG AG AG -G AG AG AG AG AG -G GG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* * * * * * *
9660930 AG AG AG AG GG AG AG GG GG AG AG GG AG GG AG GG AG GG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9660972 TGATCTAGAT
Statistics
Matches: 486, Mismatches: 144, Indels: 40
0.73 0.21 0.06
Matches are distributed among these distances:
1 20 0.04
2 466 0.96
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9662302 original size:5 final size:6
Alignment explanation
Indices: 9662286--9662310 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9662276 AATAAAAATG
9662286 ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT A
9662311 CTTATATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
ATTTTT
Found at i:9664709 original size:22 final size:23
Alignment explanation
Indices: 9664684--9664735 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
9664674 AATTTCATCC
9664684 TCAATATAC-AAGCCAAAA-CATA
1 TCAA-ATACTAAGCCAAAATCATA
*
9664706 TCAAATCCTAAGCCAAAATCATA
1 TCAAATACTAAGCCAAAATCATA
*
9664729 CCAAATA
1 TCAAATA
9664736 TGAGTTTCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 3 0.12
22 13 0.52
23 9 0.36
ACGTcount: A:0.52, C:0.25, G:0.04, T:0.19
Consensus pattern (23 bp):
TCAAATACTAAGCCAAAATCATA
Found at i:9665535 original size:30 final size:29
Alignment explanation
Indices: 9665501--9665559 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
9665491 TACATGTAAT
9665501 CAAATATCGATG-CCATTGTCCCAGACATGG
1 CAAATA-CGATGTCCA-TGTCCCAGACATGG
*
9665531 CAAATACGATGTCGATGTCCCAGACATGG
1 CAAATACGATGTCCATGTCCCAGACATGG
9665560 TCTTACACGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (29 bp):
CAAATACGATGTCCATGTCCCAGACATGG
Found at i:9673793 original size:24 final size:24
Alignment explanation
Indices: 9673757--9673810 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
9673747 TCTTTTTAAA
* * *
9673757 ATATATAGTATTTATTAGTATAAT
1 ATATTTAGAATTTATTAGCATAAT
9673781 ATATTTAGAATTTATTAGCATAAT
1 ATATTTAGAATTTATTAGCATAAT
9673805 ATATTT
1 ATATTT
9673811 GACATTGATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (24 bp):
ATATTTAGAATTTATTAGCATAAT
Found at i:9681123 original size:40 final size:40
Alignment explanation
Indices: 9681078--9681171 Score: 152
Period size: 40 Copynumber: 2.4 Consensus size: 40
9681068 CGGTTTTTGT
9681078 TGGCACTTAGTGTGCGATACGACATAGCTCCAGCTATATA
1 TGGCACTTAGTGTGCGATACGACATAGCTCCAGCTATATA
* * *
9681118 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATACGACATAGCTCCAGCTATATA
*
9681158 TGGCACTTAATGTG
1 TGGCACTTAGTGTG
9681172 GAATTTGAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATACGACATAGCTCCAGCTATATA
Found at i:9681185 original size:40 final size:40
Alignment explanation
Indices: 9681101--9681236 Score: 166
Period size: 40 Copynumber: 3.4 Consensus size: 40
9681091 GCGATACGAC
* * * * *
9681101 ATAGCTCCAGCTATATATGGCACTTAGTGTGCG-ATTCGAC
1 ATAGCTTCGGCTATATATGGCACTTAATGTG-GAATTTGAG
9681141 ATAGCTTCGGCTATATATGGCACTTAATGTGGAATTTGAG
1 ATAGCTTCGGCTATATATGGCACTTAATGTGGAATTTGAG
* * *
9681181 ATAGCTTCGGCTATGTACGACACACTTAATGTGGAATTTGAG
1 ATAGCTTCGGCTATATATG--GCACTTAATGTGGAATTTGAG
9681223 ATAGCTTCGGCTAT
1 ATAGCTTCGGCTAT
9681237 GTACGACACT
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 50 0.59
42 34 0.40
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (40 bp):
ATAGCTTCGGCTATATATGGCACTTAATGTGGAATTTGAG
Found at i:9681216 original size:42 final size:42
Alignment explanation
Indices: 9681161--9681245 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
9681151 CTATATATGG
9681161 CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
1 CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
9681203 CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
1 CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
9681245 C
1 C
9681246 TTAGTGTGCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
CACTTAATGTGGAATTTGAGATAGCTTCGGCTATGTACGACA
Found at i:9685225 original size:23 final size:25
Alignment explanation
Indices: 9685194--9685265 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 25
9685184 TGAGTTGCCA
* **
9685194 TATATCAGGAAGTTCA-AGCGAGCC
1 TATATCAGGAAGCTCACAAAGAGCC
9685218 -ATATCAGGAAGCTCACAAAGAGCC
1 TATATCAGGAAGCTCACAAAGAGCC
* *
9685242 TATATCAGGATGCTCATAAAGAGC
1 TATATCAGGAAGCTCACAAAGAGC
9685266 TGCGGTATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 14 0.34
24 6 0.15
25 21 0.51
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (25 bp):
TATATCAGGAAGCTCACAAAGAGCC
Found at i:9685351 original size:64 final size:64
Alignment explanation
Indices: 9685242--9685369 Score: 157
Period size: 64 Copynumber: 2.0 Consensus size: 64
9685232 ACAAAGAGCC
* * * * * * * * * * *
9685242 TATATCAGGATGCTCATAAAGAGCTGCGGTATGTTCGCAATACATGTAGGATCAATACTGATCA
1 TATAACAGGACGCTCACAAAGAGCTGCAGTATATCCGCAACACATGCAGAACCAATACCGATCA
9685306 TATAACAGGACGCTCACAAAGAGCTGCAGTATATCCGCAACACATGCAGAACCAATACCGATCA
1 TATAACAGGACGCTCACAAAGAGCTGCAGTATATCCGCAACACATGCAGAACCAATACCGATCA
9685370 AGGTGCTCAC
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
64 53 1.00
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.22
Consensus pattern (64 bp):
TATAACAGGACGCTCACAAAGAGCTGCAGTATATCCGCAACACATGCAGAACCAATACCGATCA
Found at i:9686873 original size:5 final size:6
Alignment explanation
Indices: 9686858--9686898 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
9686848 ATTATATGTT
*
9686858 TTTTTA TTTTTA TTTTTA TTTTTAGA TTTTTA TTGTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
9686899 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 25 0.81
8 6 0.19
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:9686886 original size:20 final size:21
Alignment explanation
Indices: 9686863--9686912 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
9686853 ATGTTTTTTT
* *
9686863 ATTTTTATTTTTATTT-TTAG
1 ATTTTTATTGTTATTTATTAA
9686883 ATTTTTATTGTTATTTATTAA
1 ATTTTTATTGTTATTTATTAA
9686904 ATTATTTAT
1 ATT-TTTAT
9686913 AATTTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 15 0.58
21 6 0.23
22 5 0.19
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (21 bp):
ATTTTTATTGTTATTTATTAA
Found at i:9689383 original size:46 final size:46
Alignment explanation
Indices: 9689333--9689432 Score: 146
Period size: 46 Copynumber: 2.2 Consensus size: 46
9689323 AGCCGGATCG
*
9689333 GTAAGCTCCAATGGGCTAAAATAGAAAGCTCTTACAAGCTGAATCA
1 GTAAGCTCCAATGAGCTAAAATAGAAAGCTCTTACAAGCTGAATCA
** * **
9689379 GTAAGCTATAATGAGCTAAAATAGTAAGCTCTTACGTGCTGAATCA
1 GTAAGCTCCAATGAGCTAAAATAGAAAGCTCTTACAAGCTGAATCA
9689425 GTAAGCTC
1 GTAAGCTC
9689433 ATACGAGCTG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (46 bp):
GTAAGCTCCAATGAGCTAAAATAGAAAGCTCTTACAAGCTGAATCA
Found at i:9689384 original size:23 final size:23
Alignment explanation
Indices: 9689358--9689442 Score: 91
Period size: 23 Copynumber: 3.7 Consensus size: 23
9689348 CTAAAATAGA
*
9689358 AAGCTCTTACAAGCTGAATCAGT
1 AAGCTCTTACGAGCTGAATCAGT
* * * *
9689381 AAGCTATAATGAGCTAAAAT-AGT
1 AAGCTCTTACGAGCT-GAATCAGT
*
9689404 AAGCTCTTACGTGCTGAATCAGT
1 AAGCTCTTACGAGCTGAATCAGT
*
9689427 AAGCTCATACGAGCTG
1 AAGCTCTTACGAGCTG
9689443 TGGTGAGTCC
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
22 3 0.06
23 42 0.88
24 3 0.06
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (23 bp):
AAGCTCTTACGAGCTGAATCAGT
Found at i:9702004 original size:25 final size:25
Alignment explanation
Indices: 9701976--9702024 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
9701966 AGGGATCACA
9701976 CGATAGGTACACTTGCCTACCCTCG
1 CGATAGGTACACTTGCCTACCCTCG
9702001 CGATAGGTACACTTGCCTACCCTC
1 CGATAGGTACACTTGCCTACCCTC
9702025 ATGATAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.20, C:0.37, G:0.18, T:0.24
Consensus pattern (25 bp):
CGATAGGTACACTTGCCTACCCTCG
Found at i:9702030 original size:25 final size:25
Alignment explanation
Indices: 9701974--9702030 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
9701964 TTAGGGATCA
9701974 CACGATAGGTACACTTGCCTACCCT
1 CACGATAGGTACACTTGCCTACCCT
*
9701999 CGCGATAGGTACACTTGCCTACCCT
1 CACGATAGGTACACTTGCCTACCCT
*
9702024 CATGATA
1 CACGATA
9702031 ATAGTTAGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (25 bp):
CACGATAGGTACACTTGCCTACCCT
Found at i:9727479 original size:44 final size:43
Alignment explanation
Indices: 9727431--9727531 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
9727421 ATCGGCAATG
**
9727431 GAGCAGATTGAAGCCCCAAGCCTTATCTTTCTGAGGTAGCAAGA
1 GAGCAGATTGAAG-AACAAGCCTTATCTTTCTGAGGTAGCAAGA
* ** * *
9727475 GAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTGGCAAGA
1 GAGCAGATTGAAGAACAAGCCTTATCTTTCTGAGGTAGCAAGA
*
9727518 AAGCAGATTGAAGA
1 GAGCAGATTGAAGA
9727532 TTGAAGATCT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
43 36 0.75
44 12 0.25
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (43 bp):
GAGCAGATTGAAGAACAAGCCTTATCTTTCTGAGGTAGCAAGA
Found at i:9727506 original size:43 final size:45
Alignment explanation
Indices: 9727452--9727555 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 45
9727442 AGCCCCAAGC
* *
9727452 CTTATCTTTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATG-AG-T
1 CTTATCTTTCTGAGGTAGCAAGAAAGCAGATTGAAGAATGAAGAT
* *
9727495 CTTATCTTTCTGAGGTGGCAAGAAAGCAGATTGAAGATTGAAGAT
1 CTTATCTTTCTGAGGTAGCAAGAAAGCAGATTGAAGAATGAAGAT
**
9727540 CTTATCTCCCTGAGGT
1 CTTATCTTTCTGAGGT
9727556 TACAACGGAG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 36 0.68
44 2 0.04
45 15 0.28
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (45 bp):
CTTATCTTTCTGAGGTAGCAAGAAAGCAGATTGAAGAATGAAGAT
Found at i:9727537 original size:180 final size:177
Alignment explanation
Indices: 9727125--9727799 Score: 704
Period size: 176 Copynumber: 3.8 Consensus size: 177
9727115 GGGTTACAAT
** * * * * *
9727125 AGAGCAGGTTGAAGAATTGAGTCTTATCTCCCTAAGGTTGCAATGAAGCAGACTGAA-AATCACA
1 AGAGCAGGTTGAAGAA-TGAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA-A
* ** * *
9727189 GAT-TTA-CCCCCT-AAGTAACA--GTAGAGTAGATCGAATATGGCGAATCTTATCTCCATGTAT
64 GATCTTATCTCCCTGAAGTTGCAGCGGAGAGT-GATCGAAGATGGC-AATCTTATCTCCATGTAT
* *
9727249 CGGTAATGGAGCAAATTT-A---A-AA-CCTTATCTCTCTGAGGTAGCAAG
127 CGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAGCAAG
* * *
9727294 AGAGCAGGTTGAAGAGTAAGTCTTATC-TTCTTGAGGTAGTAAGGAAGCAGACT-AAGAATTGAA
1 AGAGCAGGTTGAAGAATGAGTCTTATCTTTC-TGAGGTAGCAAGGAAGCAGACTGAAG-ATTGAA
* * * * *
9727357 GATTTTATCTCCCTAAAGTTGCAGCGGAGCAGATTATTGAAGATGGCAAGTCTTATCTCTATGTA
64 GATCTTATCTCCCTGAAGTTGCAGCGGAG-AG-TGATCGAAGATGGCAA-TCTTATCTCCATGTA
* * *
9727422 TCGGCAATGGAGCAGATTGAAGCCCCAAGCCTTATCTTTCTGAGGTAGCAAG
126 TCGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAGCAAG
* * *
9727474 AGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTGGCAAGAAAGCAGATTGAAGATTGAAGA
1 AGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGA
* * * * * *
9727539 TCTTATCTCCCTGAGGTTACAACGGAGTG-GATCGAAAATGGTGAATCTTATCTCCATGTATCGG
66 TCTTATCTCCCTGAAGTTGCAGCGGAGAGTGATCGAAGATGG-CAATCTTATCTCCATGTATCGG
** * *
9727603 CAATATAGCAGATTTTA-CCACTAGCCTTATCTCTCTGAGGTAGCAAG
130 CAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAGCAAG
* * *
9727650 AGAGCAGGTTGAAGAATGAGTTTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAAA
1 AGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGA
* * *
9727715 TCTTATTTCCCTGAAGTTGCAGC--AGAGCTGATCGAAGAAGGCAAATCTTATATCCATGTA-CA
66 TCTTATCTCCCTGAAGTTGCAGCGGAGAG-TGATCGAAGATGGC-AATCTTATCTCCATGTATC-
9727777 GGCAATGGAGCAGATTTAAGCCA
128 GGCAATGGAGCAGATTTAAGCCA
9727800 GTCCTATTTC
Statistics
Matches: 416, Mismatches: 65, Indels: 42
0.80 0.12 0.08
Matches are distributed among these distances:
167 3 0.01
168 32 0.08
169 21 0.05
170 5 0.01
171 6 0.01
173 5 0.01
174 45 0.11
175 3 0.01
176 147 0.35
177 43 0.10
178 2 0.00
179 3 0.01
180 95 0.23
181 6 0.01
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (177 bp):
AGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGA
TCTTATCTCCCTGAAGTTGCAGCGGAGAGTGATCGAAGATGGCAATCTTATCTCCATGTATCGGC
AATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAGGTAGCAAG
Found at i:9733419 original size:27 final size:27
Alignment explanation
Indices: 9733386--9733454 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
9733376 GTCATACATA
* *
9733386 TCATAGGGGTATATCAGTCATTTTACC
1 TCATAGGGGTATAACAGTCACTTTACC
9733413 TCATAGGGGTATAACAGTCACTTTACC
1 TCATAGGGGTATAACAGTCACTTTACC
9733440 TCATAGGGGTATAAC
1 TCATAGGGGTATAAC
9733455 GATCATTCCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (27 bp):
TCATAGGGGTATAACAGTCACTTTACC
Found at i:9734045 original size:20 final size:20
Alignment explanation
Indices: 9734020--9734060 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
9734010 TTAACACTTA
9734020 ATTCCCAACTAATAATTATT
1 ATTCCCAACTAATAATTATT
9734040 ATTCCCAACTAATAATTATT
1 ATTCCCAACTAATAATTATT
9734060 A
1 A
9734061 CCTGCCTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTCCCAACTAATAATTATT
Found at i:9739404 original size:375 final size:375
Alignment explanation
Indices: 9738714--9739464 Score: 1502
Period size: 375 Copynumber: 2.0 Consensus size: 375
9738704 GATTCGGTTC
9738714 TCTAATGATCCGCACCTCAAACATGCCCCAATCCTTATTCAGAATTTGCCCTGATGGCGTCTCCC
1 TCTAATGATCCGCACCTCAAACATGCCCCAATCCTTATTCAGAATTTGCCCTGATGGCGTCTCCC
9738779 ACAATCCGTACAGGGCTGTGGTCCAAAAGCAGTAACAGAGGGCCCAACTCTGACTGGCCCATCAA
66 ACAATCCGTACAGGGCTGTGGTCCAAAAGCAGTAACAGAGGGCCCAACTCTGACTGGCCCATCAA
9738844 CTCTGGCCTTTTTCTTAGGCCTCTGAAATGAACTTGAGGGCTTCGAATACCTCTTGTTCCTACCC
131 CTCTGGCCTTTTTCTTAGGCCTCTGAAATGAACTTGAGGGCTTCGAATACCTCTTGTTCCTACCC
9738909 TTTTCCTTCTCACAGTTCTAGCACTCAATGCGTTTCACATCCTCGACGATCTTCGCCTTATCAAC
196 TTTTCCTTCTCACAGTTCTAGCACTCAATGCGTTTCACATCCTCGACGATCTTCGCCTTATCAAC
9738974 CAAAGTAGCAAAATCTTGCTCCCTCTGTAGAGCTATCAGAATCCTTAAATTATCCTAAAGGCCAT
261 CAAAGTAGCAAAATCTTGCTCCCTCTGTAGAGCTATCAGAATCCTTAAATTATCCTAAAGGCCAT
9739039 CATCGAAACAAACACAACGCTCATATTTAGTTGCCACCATCCCAGGTGCA
326 CATCGAAACAAACACAACGCTCATATTTAGTTGCCACCATCCCAGGTGCA
9739089 TCTAATGATCCGCACCTCAAACATGCCCCAATCCTTATTCAGAATTTGCCCTGATGGCGTCTCCC
1 TCTAATGATCCGCACCTCAAACATGCCCCAATCCTTATTCAGAATTTGCCCTGATGGCGTCTCCC
9739154 ACAATCCGTACAGGGCTGTGGTCCAAAAGCAGTAACAGAGGGCCCAACTCTGACTGGCCCATCAA
66 ACAATCCGTACAGGGCTGTGGTCCAAAAGCAGTAACAGAGGGCCCAACTCTGACTGGCCCATCAA
9739219 CTCTGGCCTTTTTCTTAGGCCTCTGAAATGAACTTGAGGGCTTCGAATACCTCTTGTTCCTACCC
131 CTCTGGCCTTTTTCTTAGGCCTCTGAAATGAACTTGAGGGCTTCGAATACCTCTTGTTCCTACCC
9739284 TTTTCCTTCTCACAGTTCTAGCACTCAATGCGTTTCACATCCTCGACGATCTTCGCCTTATCAAC
196 TTTTCCTTCTCACAGTTCTAGCACTCAATGCGTTTCACATCCTCGACGATCTTCGCCTTATCAAC
9739349 CAAAGTAGCAAAATCTTGCTCCCTCTGTAGAGCTATCAGAATCCTTAAATTATCCTAAAGGCCAT
261 CAAAGTAGCAAAATCTTGCTCCCTCTGTAGAGCTATCAGAATCCTTAAATTATCCTAAAGGCCAT
9739414 CATCGAAACAAACACAACGCTCATATTTAGTTGCCACCATCCCAGGTGCA
326 CATCGAAACAAACACAACGCTCATATTTAGTTGCCACCATCCCAGGTGCA
9739464 T
1 T
9739465 AGCGGCTTAA
Statistics
Matches: 376, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
375 376 1.00
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (375 bp):
TCTAATGATCCGCACCTCAAACATGCCCCAATCCTTATTCAGAATTTGCCCTGATGGCGTCTCCC
ACAATCCGTACAGGGCTGTGGTCCAAAAGCAGTAACAGAGGGCCCAACTCTGACTGGCCCATCAA
CTCTGGCCTTTTTCTTAGGCCTCTGAAATGAACTTGAGGGCTTCGAATACCTCTTGTTCCTACCC
TTTTCCTTCTCACAGTTCTAGCACTCAATGCGTTTCACATCCTCGACGATCTTCGCCTTATCAAC
CAAAGTAGCAAAATCTTGCTCCCTCTGTAGAGCTATCAGAATCCTTAAATTATCCTAAAGGCCAT
CATCGAAACAAACACAACGCTCATATTTAGTTGCCACCATCCCAGGTGCA
Found at i:9745260 original size:23 final size:23
Alignment explanation
Indices: 9745229--9745340 Score: 80
Period size: 23 Copynumber: 4.9 Consensus size: 23
9745219 TAAGCTTTAT
* *
9745229 TGAGTTGAATTGGTAAGCTCCAA
1 TGAGCTGAATTAGTAAGCTCCAA
* * **
9745252 TAAGCTGAAATAGTAAGCTCTTA
1 TGAGCTGAATTAGTAAGCTCCAA
* **
9745275 CGAGCTGAATCCGTAAGCTCCAA
1 TGAGCTGAATTAGTAAGCTCCAA
** * **
9745298 TGAGCTGAAACAATAAGCTCTTA
1 TGAGCTGAATTAGTAAGCTCCAA
* *
9745321 CGAGCTGAATCAGTAAGCTC
1 TGAGCTGAATTAGTAAGCTC
9745341 ATAGAGCTGT
Statistics
Matches: 67, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (23 bp):
TGAGCTGAATTAGTAAGCTCCAA
Found at i:9745261 original size:46 final size:46
Alignment explanation
Indices: 9745208--9745340 Score: 169
Period size: 46 Copynumber: 2.9 Consensus size: 46
9745198 AACTCTAATG
* * * **
9745208 AGCTGAAACGGTAAGCT-TTATTGAGTTGAATTGGTAAGCTCCAATA
1 AGCTGAAACAGTAAGCTCTTA-CGAGCTGAATCCGTAAGCTCCAATA
* *
9745254 AGCTGAAATAGTAAGCTCTTACGAGCTGAATCCGTAAGCTCCAATG
1 AGCTGAAACAGTAAGCTCTTACGAGCTGAATCCGTAAGCTCCAATA
* *
9745300 AGCTGAAACAATAAGCTCTTACGAGCTGAATCAGTAAGCTC
1 AGCTGAAACAGTAAGCTCTTACGAGCTGAATCCGTAAGCTC
9745341 ATAGAGCTGT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
46 73 0.96
47 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (46 bp):
AGCTGAAACAGTAAGCTCTTACGAGCTGAATCCGTAAGCTCCAATA
Found at i:9750966 original size:32 final size:30
Alignment explanation
Indices: 9750908--9751005 Score: 89
Period size: 30 Copynumber: 3.3 Consensus size: 30
9750898 TAAGATTATT
9750908 TTTATATTAATT--TTAATATTTA-AAATACAA
1 TTTATATTAATTACTTAA-ATTTATAAAT--AA
*
9750938 TTTATA-TATTTTACTTAAATTTATAAATAA
1 TTTATATTA-ATTACTTAAATTTATAAATAA
* *
9750968 TTTATATTAATTACTTAAAATTATTTAA-AA
1 TTTATATTAATTACTTAAATTTA-TAAATAA
9750998 TTTATATT
1 TTTATATT
9751006 TCATATACAT
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
29 2 0.03
30 38 0.66
31 10 0.17
32 8 0.14
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (30 bp):
TTTATATTAATTACTTAAATTTATAAATAA
Found at i:9754992 original size:131 final size:131
Alignment explanation
Indices: 9754751--9754999 Score: 410
Period size: 131 Copynumber: 1.9 Consensus size: 131
9754741 TAATCATTCA
* *
9754751 AAAATTCTTCAAAACGAAGACGAGATTCGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
**
9754816 TGGGTTGCAATATCGTGTTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
66 TGGGTTGCAATATCGCATTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
9754881 T
131 T
*
9754882 AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCTTGCCCTAACGTGT
1 AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
* * *
9754947 TGGGTTGCAATTTCGCATTTGCTC-AAAGTAATCGAGTATCCCTTCAAAATTTC
66 TGGGTTGCAATATCGCATTTGCTCGAAA-TAATCGAATATCACTTCAAAATTTC
9755000 CTTTCATATC
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
130 3 0.03
131 106 0.97
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (131 bp):
AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
TGGGTTGCAATATCGCATTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTTT
T
Found at i:9766229 original size:177 final size:175
Alignment explanation
Indices: 9765596--9766259 Score: 748
Period size: 180 Copynumber: 3.7 Consensus size: 175
9765586 ATTCACCATT
** * * *
9765596 TTCAA-TCTACAGTCTGCTTTTTTGCTACCTCAAGAAAATAAGACTCCCTTTTTAACCTGCTCTC
1 TTCAATTCT-CAGTCTGCTTCCTTGCTACCTCAGGAAAATAAGACT-CATTTTCAACCTGCTCTC
* * * *
9765660 TTGCCACCTCAGAGAAATAAGGC-TAGTGGTAAAATCTACTCCATTGCCGATACATGAAGATAGG
64 TTGCTACCTCAGAGAAATAAGGCATAGT-GTAAAATCTGCTCCATTGCCGATACATGGAGATAAG
* * * *
9765724 ATTCACCATTCTCGATCTGTTCCGCTGCAACTTCAGTGAGATAAAATC
128 ATTCACCATCCTCAATCTGTTCCGCTGCAACCTCAGGGAGATAAAATC
* * *
9765772 TTCAATTCTCATTCTGCTTCCTTGCTACCTCAGGAAAATAAAACTCGTTCTTCAACCTGCTCTCT
1 TTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAAATAAGACTCATT-TTCAACCTGCTCTCT
* * * * * *
9765837 TACTACGTCAGAGAAATAAGGCTTGGTGGTAAAATCTGCTCCATTGTCGATACATGGAAATAAGA
65 TGCTACCTCAGAGAAATAAGGCATAGT-GTAAAATCTGCTCCATTGCCGATACATGGAGATAAGA
* * ** *
9765902 TTCACCATCTGTAAAGATCTACTCCGCTGCAATCTCAGGGAGATAAAATC
129 TTCACCATC-CT-CA-ATCTGTTCCGCTGCAACCTCAGGGAGATAAAATC
* * *
9765952 TTCAATTCTCAGTCTGCTTCTTTGCTACCTCAGGAAGATAAGACTCATCTTTCAACTTGCTCTCT
1 TTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAAATAAGACTCAT-TTTCAACCTGCTCTCT
* *
9766017 TGCTACCTCAGAGAGATAAGGCTAATAG-CTAAAATCTGCTCCATTGCCGATACATGGAGATAAG
65 TGCTACCTCAGAGAAATAAGGC--ATAGTGTAAAATCTGCTCCATTGCCGATACATGGAGATAAG
* ** * * *
9766081 ATTCGCCATCCTCAATCTGTTCCGCAACTACCT-AGGGAAATAAGATC
128 ATTCACCATCCTCAATCTGTTCCGCTGCAACCTCAGGGAGATAAAATC
* * *
9766128 TGT-AA-TCTTCGGTCTGCTTCCTTGCTACCTCAGGAAGATAATACTACAATTTTCAACCTGCTC
1 T-TCAATTC-TCAGTCTGCTTCCTTGCTACCTCAGGAAAATAAGACT-C-ATTTTCAACCTGCTC
*
9766191 TCTTGCTACCTCAGAGAGATAAGGTCAATAGT-TAAAATCTGCTCCATTGCCGATACATGGAGAT
62 TCTTGCTACCTCAGAGAAATAAGG-C-ATAGTGTAAAATCTGCTCCATTGCCGATACATGGAGAT
9766255 AAGAT
125 AAGAT
9766260 CTGTAAATTC
Statistics
Matches: 419, Mismatches: 54, Indels: 29
0.83 0.11 0.06
Matches are distributed among these distances:
175 5 0.01
176 118 0.28
177 140 0.33
178 5 0.01
179 1 0.00
180 147 0.35
181 1 0.00
182 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (175 bp):
TTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAAATAAGACTCATTTTCAACCTGCTCTCTT
GCTACCTCAGAGAAATAAGGCATAGTGTAAAATCTGCTCCATTGCCGATACATGGAGATAAGATT
CACCATCCTCAATCTGTTCCGCTGCAACCTCAGGGAGATAAAATC
Found at i:9766259 original size:357 final size:355
Alignment explanation
Indices: 9765596--9766259 Score: 874
Period size: 357 Copynumber: 1.9 Consensus size: 355
9765586 ATTCACCATT
* *
9765596 TTCAATCTACAGTCTGCTTTTTTGCTACCTCAAGAAAATAAGACTCCCTTTTTAACCTGCTCTCT
1 TTCAATCTACAGTCTGCTTCTTTGCTACCTCAAGAAAATAAGACTCCCTTTTCAACCTGCTCTCT
* * *
9765661 TGCCACCTCAGAGAAATAAGGCTAGTGGTAAAATCTACTCCATTGCCGATACATGAAGATAGGAT
66 TGCCACCTCAGAGAAATAAGGCTAATGCTAAAATCTACTCCATTGCCGATACATGAAGATAAGAT
* * ** * * * *
9765726 TCACCATTCTCGATCTGTTCCGCTGCAACTTCAGTGAGATAAAATCTTCAATTCTCATTCTGCTT
131 TCACCATCCTCAATCTGTTCCGCAACAACCTCAGGGAAATAAAATCTTCAATTCTCAGTCTGCTT
* *
9765791 CCTTGCTACCTCAGGAAAATAAAACTCGTTCTTCAACCTGCTCTCTTACTACGTCAGAGAAATAA
196 CCTTGCTACCTCAGGAAAATAAAACTCATTCTTCAACCTGCTCTCTTACTACCTCAGAGAAATAA
* * *
9765856 GGCTTGGTGGTAAAATCTGCTCCATTGTCGATACATGGAAATAAGATTCACCATCTGTAAAGATC
261 GGCATAGT-GTAAAATCTGCTCCATTGCCGATACATGGAAATAAGATTCACCATCTGTAAAGATC
9765921 TACTCCGCTGCAATCTCAGGGAGATAAAATC
325 TACTCCGCTGCAATCTCAGGGAGATAAAATC
* * * *
9765952 TTCAATTCT-CAGTCTGCTTCTTTGCTACCTCAGGAAGATAAGACT-CATCTTTCAACTTGCTCT
1 TTCAA-TCTACAGTCTGCTTCTTTGCTACCTCAAGAAAATAAGACTCCCT-TTTCAACCTGCTCT
* * * *
9766015 CTTGCTACCTCAGAGAGATAAGGCTAATAGCTAAAATCTGCTCCATTGCCGATACATGGAGATAA
64 CTTGCCACCTCAGAGAAATAAGGCTAAT-GCTAAAATCTACTCCATTGCCGATACATGAAGATAA
* * * *
9766080 GATTCGCCATCCTCAATCTGTTCCGCAACTACCT-AGGGAAATAAGATCTGT-AA-TCTTCGGTC
128 GATTCACCATCCTCAATCTGTTCCGCAACAACCTCAGGGAAATAAAATCT-TCAATTC-TCAGTC
* * *
9766142 TGCTTCCTTGCTACCTCAGGAAGATAATACTACAATT-TTCAACCTGCTCTCTTGCTACCTCAGA
191 TGCTTCCTTGCTACCTCAGGAAAATAAAACT-C-ATTCTTCAACCTGCTCTCTTACTACCTCAGA
* *
9766206 GAGATAAGGTCAATAGT-TAAAATCTGCTCCATTGCCGATACATGGAGATAAGAT
254 GAAATAAGG-C-ATAGTGTAAAATCTGCTCCATTGCCGATACATGGAAATAAGAT
9766260 CTGTAAATTC
Statistics
Matches: 264, Mismatches: 35, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
355 4 0.02
356 122 0.46
357 132 0.50
358 3 0.01
359 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (355 bp):
TTCAATCTACAGTCTGCTTCTTTGCTACCTCAAGAAAATAAGACTCCCTTTTCAACCTGCTCTCT
TGCCACCTCAGAGAAATAAGGCTAATGCTAAAATCTACTCCATTGCCGATACATGAAGATAAGAT
TCACCATCCTCAATCTGTTCCGCAACAACCTCAGGGAAATAAAATCTTCAATTCTCAGTCTGCTT
CCTTGCTACCTCAGGAAAATAAAACTCATTCTTCAACCTGCTCTCTTACTACCTCAGAGAAATAA
GGCATAGTGTAAAATCTGCTCCATTGCCGATACATGGAAATAAGATTCACCATCTGTAAAGATCT
ACTCCGCTGCAATCTCAGGGAGATAAAATC
Found at i:9766871 original size:64 final size:64
Alignment explanation
Indices: 9766768--9767086 Score: 548
Period size: 64 Copynumber: 5.0 Consensus size: 64
9766758 TGTATCATGT
* * *
9766768 TTATGCCAAATAATTAGGATGTTATGATCAAAATAAATCAAATGCTCCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
* * *
9766832 TTATGTCAACTAATTAGAATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
9766896 TTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
*
9766960 TTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
1 TTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
* * *
9767024 TTATGTCAAATAATTAGGATGTTGTGATTAAAATGAATCAAATGCACCTAATTAGATGTGATG
1 TTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATG
9767087 AATGATATAT
Statistics
Matches: 241, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 241 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (64 bp):
TTATGTCAAATAATTAGGATGTTATGATCAAAATGAATCAAATGCACCTAACTAGATGTGATGC
Found at i:9767133 original size:15 final size:16
Alignment explanation
Indices: 9767113--9767143 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
9767103 AAAAAATGAA
9767113 AATGATCTTTT-TTTT
1 AATGATCTTTTCTTTT
9767128 AATGATCTTTTCTTTT
1 AATGATCTTTTCTTTT
9767144 TTCTTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (16 bp):
AATGATCTTTTCTTTT
Found at i:9768219 original size:20 final size:20
Alignment explanation
Indices: 9768194--9768236 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9768184 TCTTTTTCAA
9768194 TTTCTTTGATTGATTCTTTC
1 TTTCTTTGATTGATTCTTTC
** *
9768214 TTTCTTTTTTTGATTTTTTC
1 TTTCTTTGATTGATTCTTTC
9768234 TTT
1 TTT
9768237 TTATTTATCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.74
Consensus pattern (20 bp):
TTTCTTTGATTGATTCTTTC
Found at i:9768937 original size:10 final size:9
Alignment explanation
Indices: 9768918--9768956 Score: 69
Period size: 9 Copynumber: 4.2 Consensus size: 9
9768908 ATTAGCAACC
9768918 TTTTTGTTT
1 TTTTTGTTT
9768927 TTTTTGTTTT
1 TTTTTG-TTT
9768937 TTTTTGTTT
1 TTTTTGTTT
9768946 TTTTTGTTT
1 TTTTTGTTT
9768955 TT
1 TT
9768957 GGAATTTGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 20 0.69
10 9 0.31
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:9768942 original size:19 final size:19
Alignment explanation
Indices: 9768918--9768956 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9768908 ATTAGCAACC
9768918 TTTTTGTTTTTTTTGTTTT
1 TTTTTGTTTTTTTTGTTTT
9768937 TTTTTGTTTTTTTTGTTTT
1 TTTTTGTTTTTTTTGTTTT
9768956 T
1 T
9768957 GGAATTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (19 bp):
TTTTTGTTTTTTTTGTTTT
Found at i:9779765 original size:44 final size:44
Alignment explanation
Indices: 9779689--9780223 Score: 698
Period size: 44 Copynumber: 12.2 Consensus size: 44
9779679 GGCGAATCCT
* * *
9779689 GCAGATTTGGTATCTCTGTATTGGCGGAGAGCAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
9779733 GTAGATTTGGCATCTCTGTATCGACAGGGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* **
9779777 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATTAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
9779821 GC-GTATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAG-ATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
9779865 GCAGATTTGGCGTCTCTAT-TTCGGCAGAGAGCAGATC-AAGGATA
1 GCAGATTTGGCATCTCTGTATT-GGCAGAGAGCAGATCGAA-GATA
* *
9779909 GCAGATTTGGTATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
9779953 GCAGATTTGACGTCTCTGTATTGGCGGAGAGCAGATCGAGGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
9779997 GCAGATTTGGCGTCTCTCTATTGGCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
9780041 GCAGATTTGGCATCTCTGTGTTGACATAGAACAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* *
9780085 GCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAAATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * *
9780129 GCAGATTTGGCATCTCTGTGTTGACAGAGAGTAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
* * * *
9780173 ACAGATTTGGCATCTCTGTATGGGCAGAGAGCAGATCAAAAATA
1 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
*
9780217 ACAGATT
1 GCAGATT
9780224 GGTGTTCCCG
Statistics
Matches: 430, Mismatches: 55, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
43 5 0.01
44 420 0.98
45 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.26
Consensus pattern (44 bp):
GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGATA
Found at i:9783282 original size:131 final size:131
Alignment explanation
Indices: 9783106--9783354 Score: 428
Period size: 131 Copynumber: 1.9 Consensus size: 131
9783096 TAATCATTCA
* *
9783106 AAAATTCTTCAAAACGAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGT
1 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACATGT
* *
9783171 TGGGTTGCAATTTCGTGTTTGCTCGAAA-TAATCGAATATCACTTCAAAATTTCACTCATGTCTT
66 TGGGTTGCAATTTCATGTTTGCTC-AAAGTAACCGAATATCACTTCAAAATTTCACTCATGTCTT
9783235 TT
130 TT
9783237 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACATGT
1 AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACATGT
* *
9783302 TGGGTTGCAATTTCATGTTTGCTCAAAGTAACCGAGTATCCCTTCAAAATTTC
66 TGGGTTGCAATTTCATGTTTGCTCAAAGTAACCGAATATCACTTCAAAATTTC
9783355 CTTTCATATC
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
130 3 0.03
131 108 0.97
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (131 bp):
AAAATTCTTCAAAACAAAGACGAGATTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACATGT
TGGGTTGCAATTTCATGTTTGCTCAAAGTAACCGAATATCACTTCAAAATTTCACTCATGTCTTT
T
Found at i:9783747 original size:130 final size:130
Alignment explanation
Indices: 9783512--9783750 Score: 311
Period size: 130 Copynumber: 1.8 Consensus size: 130
9783502 AAAATACTTA
* *
9783512 AAAACGAAGGCGATGTTCAATATTTCGCGATTTGAGAATTGTGCCCTATCGTGCTGGGTTGCGCT
1 AAAACGAAGGCGATGTTCAATATTTCGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
* * * * *
9783577 TTTTCATTGGTTCGAAACAATTGAACATCCCTTTGGAATTTCACTCACATTTCCTAAAATCTTTC
66 TTTTCATTGGTCCAAAACAATCGAACATCCCTTCGAAATTTCACTCACATTTCCTAAAATCTTTC
* * * * *
9783642 AAAATGAAGGCGATGTTCGATGTTTGGCGATTTGAGAATCGAGCCCTATCGTGTTGGGTTGCGCT
1 AAAACGAAGGCGATGTTCAATATTTCGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
* * *
9783707 TTCTT-ATTTGTCCAAAATAATCGAATATCTCC-TCGAAATTTCAC
66 TT-TTCATTGGTCCAAAACAATCGAACATC-CCTTCGAAATTTCAC
9783751 ACGTATTTTA
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
130 88 0.96
131 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (130 bp):
AAAACGAAGGCGATGTTCAATATTTCGCGATTTGAGAATCGAGCCCTATCGTGCTGGGTTGCGCT
TTTTCATTGGTCCAAAACAATCGAACATCCCTTCGAAATTTCACTCACATTTCCTAAAATCTTTC
Found at i:9784609 original size:31 final size:30
Alignment explanation
Indices: 9784574--9784666 Score: 82
Period size: 31 Copynumber: 3.1 Consensus size: 30
9784564 AGTATAAATG
9784574 TGAAAATATGAATGATTAAAGGGTATGGAAA
1 TGAAAAT-TGAATGATTAAAGGGTATGGAAA
** * *
9784605 TGAAAACTTGACCGATTATAGGGTAT-GATA
1 TGAAAA-TTGAATGATTAAAGGGTATGGAAA
* * *
9784635 TGCAAATGTGAATGA-TACAGGGTATGAAAA
1 TGAAAAT-TGAATGATTAAAGGGTATGGAAA
9784665 TG
1 TG
9784667 TAATAGTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
29 10 0.20
30 17 0.35
31 21 0.43
32 1 0.02
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.27
Consensus pattern (30 bp):
TGAAAATTGAATGATTAAAGGGTATGGAAA
Found at i:9791666 original size:18 final size:18
Alignment explanation
Indices: 9791640--9791694 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
9791630 CTTGGCCTAT
9791640 TGCAGTAACAGTAAACAG
1 TGCAGTAACAGTAAACAG
* *
9791658 TGCAATAACAGCAAACAG
1 TGCAGTAACAGTAAACAG
* *
9791676 TGCTGTAACAGTAAGCAG
1 TGCAGTAACAGTAAACAG
9791694 T
1 T
9791695 ATGCAAGTCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:9795099 original size:21 final size:21
Alignment explanation
Indices: 9795069--9795108 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
9795059 ATTGCTTTTA
*
9795069 ATGTCACGACACAGCCTTATG
1 ATGTCACGACACACCCTTATG
*
9795090 ATGTCGCGACACACCCTTA
1 ATGTCACGACACACCCTTA
9795109 AAGACACCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.23
Consensus pattern (21 bp):
ATGTCACGACACACCCTTATG
Found at i:9795613 original size:131 final size:131
Alignment explanation
Indices: 9795451--9795715 Score: 512
Period size: 131 Copynumber: 2.0 Consensus size: 131
9795441 TGTGATCAAA
*
9795451 CTCTGTGAGGATTCTACATTCATTTCCAATACAAACCAAACTTCTTCTAAACTTTATACTCTTGA
1 CTCTATGAGGATTCTACATTCATTTCCAATACAAACCAAACTTCTTCTAAACTTTATACTCTTGA
9795516 ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
66 ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
9795581 C
131 C
*
9795582 CTCTATGAGGATTCTACTTTCATTTCCAATACAAACCAAACTTCTTCTAAACTTTATACTCTTGA
1 CTCTATGAGGATTCTACATTCATTTCCAATACAAACCAAACTTCTTCTAAACTTTATACTCTTGA
9795647 ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
66 ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
9795712 C
131 C
9795713 CTC
1 CTC
9795716 CTGTAGGGGA
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 132 1.00
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.42
Consensus pattern (131 bp):
CTCTATGAGGATTCTACATTCATTTCCAATACAAACCAAACTTCTTCTAAACTTTATACTCTTGA
ATTATTATTTATGTTTATTCTTTCTATCAAGCTTATATTGTTTATGAGATCCATGAGGAACTAAT
C
Found at i:9798426 original size:50 final size:50
Alignment explanation
Indices: 9798339--9798440 Score: 136
Period size: 50 Copynumber: 2.0 Consensus size: 50
9798329 CATGGTTTGA
* *
9798339 ATTTTGTCATTGTTTAAGTAATGAAAGCGTATGAA-TTTATACCTTAGAT
1 ATTTTATCATTGTTTAAGTAATGAAAGCGTATGAATTTTATACATTAGAT
* *
9798388 ATTTTATCATTGTTTGAAGTAATGAAAGTGTA-GAAATTTTATAGATTAGAT
1 ATTTTATCATTGTTT-AAGTAATGAAAGCGTATG-AATTTTATACATTAGAT
9798439 AT
1 AT
9798441 AAAGTATTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
49 15 0.33
50 17 0.37
51 14 0.30
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (50 bp):
ATTTTATCATTGTTTAAGTAATGAAAGCGTATGAATTTTATACATTAGAT
Found at i:9800133 original size:20 final size:20
Alignment explanation
Indices: 9800110--9800163 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 20
9800100 GTTCAAAAAA
9800110 TTATACATTTTTTAATTA-AT
1 TTATA-ATTTTTTAATTATAT
*
9800130 TTAT-ATTTTTTAA-AATAT
1 TTATAATTTTTTAATTATAT
*
9800148 TTTTAATTTTTTAATT
1 TTATAATTTTTTAATT
9800164 TATGTCCATC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 1 0.04
18 14 0.50
19 9 0.32
20 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATAATTTTTTAATTATAT
Found at i:9800941 original size:14 final size:15
Alignment explanation
Indices: 9800917--9800950 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
9800907 TTTATATATT
9800917 TTTATAAATTTTGAA
1 TTTATAAATTTTGAA
9800932 TTTA-AAATTTTGAA
1 TTTATAAATTTTGAA
*
9800946 GTTAT
1 TTTAT
9800951 TTGTTGGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (15 bp):
TTTATAAATTTTGAA
Found at i:9801420 original size:12 final size:12
Alignment explanation
Indices: 9801405--9801430 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9801395 AAAATAATTA
9801405 TTTTATTATAAT
1 TTTTATTATAAT
9801417 TTTTATTATAAT
1 TTTTATTATAAT
9801429 TT
1 TT
9801431 AATTTCTACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTATTATAAT
Found at i:9803111 original size:25 final size:26
Alignment explanation
Indices: 9803066--9803115 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
9803056 CAAAGTGGCA
9803066 GGCAAAAAATATAAAAGAATTGAGCG
1 GGCAAAAAATATAAAAGAATTGAGCG
9803092 GGCAAAAAATATAAAA-AATTGAGC
1 GGCAAAAAATATAAAAGAATTGAGC
9803116 ATCCATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.56, C:0.08, G:0.20, T:0.16
Consensus pattern (26 bp):
GGCAAAAAATATAAAAGAATTGAGCG
Found at i:9812746 original size:15 final size:15
Alignment explanation
Indices: 9812726--9812756 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9812716 TTTCATAATT
9812726 TTTTTTAAATTTTTA
1 TTTTTTAAATTTTTA
9812741 TTTTTTAAATTTTTA
1 TTTTTTAAATTTTTA
9812756 T
1 T
9812757 AAATTACGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTTTAAATTTTTA
Found at i:9813371 original size:31 final size:31
Alignment explanation
Indices: 9813336--9813419 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
9813326 TTTAACAACC
*
9813336 CAATGACTTAAATAAAAACTTTTGAATAGTT
1 CAATGACTTAAATAAAAACTTTTCAATAGTT
* *
9813367 CAATGACTTAAATGAAAACTTATCAATAGTT
1 CAATGACTTAAATAAAAACTTTTCAATAGTT
* * *
9813398 CAGTGA-TTAAATTATAACTTTT
1 CAATGACTTAAATAAAAACTTTT
9813420 TTTAGTTAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 13 0.28
31 33 0.72
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.37
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTTCAATAGTT
Found at i:9817159 original size:2 final size:2
Alignment explanation
Indices: 9817152--9817225 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
9817142 AAACACCCTC
9817152 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9817194 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9817226 TTCTTGGCTC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9822444 original size:21 final size:21
Alignment explanation
Indices: 9822418--9822457 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
9822408 CAATCTATTA
9822418 TGTTTGTAGGTTTATAAAAAT
1 TGTTTGTAGGTTTATAAAAAT
9822439 TGTTTGTAGGTTTATAAAA
1 TGTTTGTAGGTTTATAAAA
9822458 TATGTATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (21 bp):
TGTTTGTAGGTTTATAAAAAT
Found at i:9826834 original size:750 final size:744
Alignment explanation
Indices: 9824699--9827685 Score: 5551
Period size: 744 Copynumber: 4.0 Consensus size: 744
9824689 AGTTTCGTTA
9824699 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
1 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
*
9824764 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
66 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAAATAT
9824829 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
131 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
9824894 AGACTAATATGTCGTCATCATATCTAAGGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
196 AGACTAATATGTCGTCATCATATCTAAGGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
* *
9824959 CTAAAAGGTAAAGATATAGATGCGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
261 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
9825024 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
326 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
* *
9825089 CTGAGTGGATAATGGACAATGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGCTCA
391 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
9825154 AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
456 AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
* *
9825219 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAATAATATCCTCTCATCGGTATTACATGATAG
521 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAATGATATCCTCTCATCGGCATTACATGATAG
*
9825284 TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAGTTACTATTTGAT
586 TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
9825349 AGTAGTTGACTTATTATAGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTGGG
651 AGTAGTTGACTTATTATAGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTGGG
9825414 AGAACAAATTTATCCTAAAAAGATTAAGG
716 AGAACAAATTTATCCTAAAAAGATTAAGG
* *
9825443 ATACCTTTGTATGTTGTCCTCAACGATTTTGTATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
1 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
*
9825508 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCTTAATACAAAAATAT
66 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAAATAT
9825573 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
131 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
* *
9825638 AGACTAATATGTCGTCATCATATCTAATGAGAGATACCTTGTTTTAGGTATCAAAGTGATAACTA
196 AGACTAATATGTCGTCATCATATCTAAGGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
9825703 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
261 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
*
9825768 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTATGGCATACTTTAATC
326 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
* *
9825833 CTGAGTGGATAATGGACAACGTATGCCCAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTTA
391 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
*
9825898 AATAAATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
456 AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
9825963 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAATGATATCCTCTCATCGGCATTACATGATAG
521 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAATGATATCCTCTCATCGGCATTACATGATAG
*
9826028 TTGATAAGTAAAACATGGCCATCGGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
586 TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
*
9826093 AGTAATTGACTTATTATAGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTGGG
651 AGTAGTTGACTTATTATAGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTGGG
*
9826158 AGAACAAATTTATCCTAAATAGATTAAGG
716 AGAACAAATTTATCCTAAAAAGATTAAGG
* *
9826187 ATATCTTTGTATGTTGTCCTTAACGATTTTGCATGCAAAGCAAAATGAAAGAAAGTATTGGCTCA
1 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
* *
9826252 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTATGTAGTCGAATCGTAATACAAAAATAT
66 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAAATAT
*
9826317 GGATTATATTAGTAGATAATCTAAACATGTTCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
131 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
*
9826382 AGACTAATATGCCGTCATCATATCTAAGGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
196 AGACTAATATGTCGTCATCATATCTAAGGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
* *
9826447 CTAAAAGGTAAAGGTAAAGATATATATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCTA
261 CT---A---AAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCA
9826512 AGTAGAATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACT
320 AGTAGAATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACT
*
9826577 TTTATCCTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTG
385 TTAATCCTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTG
9826642 AGTTCAAATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCAT
450 AGTTCAAATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCAT
*
9826707 CATTCTACAATAGTGGAATTCATAGCCAAATAAAGGGTAAATGATATCCTCTCATCGGCATTACA
515 CATTCTACAATAGTGGAATTCATAGCCCAATAAAGGGTAAATGATATCCTCTCATCGGCATTACA
*
9826772 TGATAGTTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGGTAAATGATTAAATTACTA
580 TGATAGTTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTA
*
9826837 TTTGATAGTAGTTGACTTATTATGGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTAT
645 TTTGATAGTAGTTGACTTATTATAGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTAT
*
9826902 ATTGGGAGAACAAATTTATCCTAAAGAGATTAAGG
710 ATTGGGAGAACAAATTTATCCTAAAAAGATTAAGG
9826937 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
1 ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
*
9827002 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAATTAT
66 TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAAATAT
9827067 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
131 GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
*
9827132 AGACTAATATGTCGTCATCATATCTAAAGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
196 AGACTAATATGTCGTCATCATATCTAAGGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
9827197 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
261 CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
9827262 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
326 ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
*
9827327 CTGAGTGGATAATAGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
391 CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
9827392 AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
456 AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
* *
9827457 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAACGATATCCTCTCATAGGCATTACATGATAG
521 ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAATGATATCCTCTCATCGGCATTACATGATAG
*
9827522 TTGATAAGTAAAACATGGCCATTAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
586 TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
* *
9827587 AGTAGTTGACTTATTATCGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTTGG
651 AGTAGTTGACTTATTATAGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTGGG
9827652 AGAACAAATTTATCCTAAAAAGATTAAGG
716 AGAACAAATTTATCCTAAAAAGATTAAGG
9827681 ATATC
1 ATATC
9827686 CTATGAGGGT
Statistics
Matches: 2173, Mismatches: 64, Indels: 12
0.97 0.03 0.01
Matches are distributed among these distances:
744 1449 0.67
747 2 0.00
750 722 0.33
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (744 bp):
ATATCTTTGTATGTTGTCCTCAACGATTTTGCATGCAAAGCAAAATGAAAGAAAATATTGGCTCA
TTAGTTATCTAACGTTTAACTAAAATTAAGTAGTATTACGTGGTCGAATCGTAATACAAAAATAT
GGATTATATTAGTAGATAATCTAAACATGTCCTTAGTCTAATCAAGATCGAGAAAATAAATTGAA
AGACTAATATGTCGTCATCATATCTAAGGAGAGATACCTTGTTTTGGGTATCAAAGTGATAACTA
CTAAAAGGTAAAGATATAAATGTGATTGATTTGACTAGTAGTACATTAAATATGAGCCAAGTAGA
ATAGATTCTAGATCCATTTATGGATTTATTCACTTGTGACGTTCATAGTGTGGCATACTTTAATC
CTGAGTGGATAATGGACAACGTATGCACAACTATCTACTTTAGTGTAAATGAAAGCCTGAGTTCA
AATAGATAAGGAACCTAAAGTTGGTATGTTGGATATATGACTTCTGCAGTATGTAGCATCATTCT
ACAATAGTGGAATTCATAGCCCAATAAAGGGTAAATGATATCCTCTCATCGGCATTACATGATAG
TTGATAAGTAAAACATGGCCATCAGTCATTTGTCTTTGTGATAAATGATTAAATTACTATTTGAT
AGTAGTTGACTTATTATAGAAGAAGATGTAGTAGTTACCATGAGATAAAATAGAATTATATTGGG
AGAACAAATTTATCCTAAAAAGATTAAGG
Found at i:9832103 original size:9 final size:9
Alignment explanation
Indices: 9832089--9832116 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
9832079 TGATTTGGCA
9832089 TGTAGAAGT
1 TGTAGAAGT
9832098 TGTAGAAGT
1 TGTAGAAGT
9832107 TGTAGAAGT
1 TGTAGAAGT
9832116 T
1 T
9832117 AACTTTGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (9 bp):
TGTAGAAGT
Found at i:9833268 original size:47 final size:49
Alignment explanation
Indices: 9833157--9833269 Score: 142
Period size: 49 Copynumber: 2.3 Consensus size: 49
9833147 AGGTGGAAGA
* *
9833157 ATGTGGCAATTTATTTGCAAAACTGGTGGCTTTGTCCATAAATATTATT
1 ATGTGGCAGTTTATCTGCAAAACTGGTGGCTTTGTCCATAAATATTATT
* * *
9833206 ATGTGGCAGTATATCTGCAAAAGTGGTTGC-TTGTCCAT-AAT-TTGATT
1 ATGTGGCAGTTTATCTGCAAAACTGGTGGCTTTGTCCATAAATATT-ATT
*
9833253 ATGTGACAGTTTATCTG
1 ATGTGGCAGTTTATCTG
9833270 TATTACCATG
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
46 2 0.04
47 21 0.38
48 8 0.14
49 25 0.45
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.40
Consensus pattern (49 bp):
ATGTGGCAGTTTATCTGCAAAACTGGTGGCTTTGTCCATAAATATTATT
Found at i:9836779 original size:11 final size:11
Alignment explanation
Indices: 9836763--9836787 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9836753 ATCTTTATTA
9836763 TTTAGAACTTG
1 TTTAGAACTTG
9836774 TTTAGAACTTG
1 TTTAGAACTTG
9836785 TTT
1 TTT
9836788 TCAAAGTGCA
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:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (11 bp):
TTTAGAACTTG
Found at i:9847170 original size:45 final size:45
Alignment explanation
Indices: 9847106--9847195 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
9847096 TTTACCATTG
9847106 CAAGACAATCCATTGTTTGACGAGATTAACAATAATAACCCAGAT
1 CAAGACAATCCATTGTTTGACGAGATTAACAATAATAACCCAGAT
* *
9847151 CAAGATAATCCATTGTTTGATGAGATTAACAATAATAACCCAGAT
1 CAAGACAATCCATTGTTTGACGAGATTAACAATAATAACCCAGAT
9847196 GGCTTACCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (45 bp):
CAAGACAATCCATTGTTTGACGAGATTAACAATAATAACCCAGAT
Found at i:9848953 original size:29 final size:30
Alignment explanation
Indices: 9848899--9848987 Score: 128
Period size: 29 Copynumber: 2.9 Consensus size: 30
9848889 GTACTAAAAA
9848899 GGTTTGTGTATATATATATAATATATATGCGTG
1 GGTTT-TG-ATATATATAT-ATATATATGCGTG
9848932 GGTTTTGATATATATATA-ATATATGCGTG
1 GGTTTTGATATATATATATATATATGCGTG
9848961 GGTTTTGAT-TATATAATATATATATGC
1 GGTTTTGATATATAT-ATATATATATGC
9848988 ATATATGGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
28 5 0.09
29 23 0.43
30 9 0.17
31 10 0.19
32 2 0.04
33 5 0.09
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.46
Consensus pattern (30 bp):
GGTTTTGATATATATATATATATATGCGTG
Done.