Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 252 of 292
Found at i:73178862 original size:27 final size:28
Alignment explanation
Indices: 73178805--73178874 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
73178795 AAATTTGTAC
**
73178805 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
73178833 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
73178860 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
73178875 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:73178883 original size:27 final size:27
Alignment explanation
Indices: 73178805--73178886 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
73178795 AAATTTGTAC
* *
73178805 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
73178833 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
73178860 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
73178887 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:73181165 original size:12 final size:12
Alignment explanation
Indices: 73181148--73181177 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
73181138 GGACTACGTA
73181148 CGCTCTGGCCGG
1 CGCTCTGGCCGG
73181160 CGCTCTGGCCGG
1 CGCTCTGGCCGG
73181172 CGCTCT
1 CGCTCT
73181178 AGTCTCTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.43, G:0.37, T:0.20
Consensus pattern (12 bp):
CGCTCTGGCCGG
Found at i:73185328 original size:14 final size:15
Alignment explanation
Indices: 73185300--73185331 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
73185290 TTTTTATTTC
*
73185300 AAAATGTCACAAAAA
1 AAAATGTAACAAAAA
73185315 AAAATGTAACAAAAA
1 AAAATGTAACAAAAA
73185330 AA
1 AA
73185332 TTTAACAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.09, G:0.06, T:0.12
Consensus pattern (15 bp):
AAAATGTAACAAAAA
Found at i:73187403 original size:13 final size:14
Alignment explanation
Indices: 73187387--73187416 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
73187377 TGTCATATAA
73187387 AAATTTTATGT-TT
1 AAATTTTATGTGTT
73187400 AAATTTTATGTGTT
1 AAATTTTATGTGTT
73187414 AAA
1 AAA
73187417 ATAGGGCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (14 bp):
AAATTTTATGTGTT
Found at i:73187551 original size:15 final size:15
Alignment explanation
Indices: 73187531--73187580 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
73187521 TATATCAAAC
*
73187531 AAATTTTATAAACTT
1 AAATTTTATAAATTT
*
73187546 AAA-TTTA-ATATTT
1 AAATTTTATAAATTT
73187559 AAATTTT-TAATATTT
1 AAATTTTATAA-ATTT
73187574 AAATTTT
1 AAATTTT
73187581 CAACACTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 7 0.24
14 8 0.28
15 14 0.48
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
AAATTTTATAAATTT
Found at i:73188125 original size:11 final size:9
Alignment explanation
Indices: 73188096--73188211 Score: 51
Period size: 10 Copynumber: 12.3 Consensus size: 9
73188086 ATTATGGCTA
73188096 TTATAATTT
1 TTATAATTT
73188105 TTATATATTT
1 TTATA-ATTT
73188115 GTCTATAA-TT
1 -T-TATAATTT
73188125 TTA-AATTTTT
1 TTATAA--TTT
73188135 TTCATAATATT
1 TT-ATAAT-TT
*
73188146 TTATAATAT
1 TTATAATTT
* *
73188155 ATA-AAATT
1 TTATAATTT
*
73188163 TTA-CATTT
1 TTATAATTT
*
73188171 TTCTAAATTT
1 TTAT-AATTT
73188181 ATTATAATTT
1 -TTATAATTT
* *
73188191 ATAAAATTT
1 TTATAATTT
*
73188200 TAATAATTT
1 TTATAATTT
73188209 TTA
1 TTA
73188212 GGATTAAATA
Statistics
Matches: 79, Mismatches: 16, Indels: 24
0.66 0.13 0.20
Matches are distributed among these distances:
7 2 0.03
8 12 0.15
9 24 0.30
10 25 0.32
11 10 0.13
12 6 0.08
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (9 bp):
TTATAATTT
Found at i:73188163 original size:17 final size:17
Alignment explanation
Indices: 73188138--73188208 Score: 61
Period size: 18 Copynumber: 4.0 Consensus size: 17
73188128 AATTTTTTTC
* *
73188138 ATAATATTTTATAATAT
1 ATAAAATTTTATAATTT
* *
73188155 ATAAAATTTTACATTTTT
1 ATAAAATTTTATA-ATTT
* *
73188173 CTAAATTTATTATAATTT
1 ATAAAATT-TTATAATTT
73188191 ATAAAATTTTAATAATTT
1 ATAAAATTTT-ATAATTT
73188209 TTAGGATTAA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
17 13 0.32
18 24 0.59
19 4 0.10
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
ATAAAATTTTATAATTT
Found at i:73188165 original size:38 final size:36
Alignment explanation
Indices: 73188121--73188202 Score: 103
Period size: 36 Copynumber: 2.2 Consensus size: 36
73188111 ATTTGTCTAT
*
73188121 AATTTTAAATTTTTTTCATAATATT-TTATAATATATAA
1 AATTTTAAATTTTTCT-A-AAT-TTATTATAATATATAA
* *
73188159 AATTTTACATTTTTCTAAATTTATTATAATTTATAA
1 AATTTTAAATTTTTCTAAATTTATTATAATATATAA
73188195 AATTTTAA
1 AATTTTAA
73188203 TAATTTTTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 2 0.05
36 22 0.56
37 1 0.03
38 14 0.36
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (36 bp):
AATTTTAAATTTTTCTAAATTTATTATAATATATAA
Found at i:73188195 original size:18 final size:18
Alignment explanation
Indices: 73188138--73188208 Score: 58
Period size: 17 Copynumber: 4.0 Consensus size: 18
73188128 AATTTTTTTC
* *
73188138 ATAATATTTT-ATAATAT
1 ATAAAATTTTAATAATTT
*
73188155 ATAAAATTTTACAT-TTTT
1 ATAAAATTTTA-ATAATTT
* *
73188173 CT-AAATTTATTATAATTT
1 ATAAAATTT-TAATAATTT
73188191 ATAAAATTTTAATAATTT
1 ATAAAATTTTAATAATTT
73188209 TTAGGATTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
17 17 0.41
18 16 0.39
19 8 0.20
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
ATAAAATTTTAATAATTT
Found at i:73189605 original size:12 final size:12
Alignment explanation
Indices: 73189588--73189615 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
73189578 ATACAAACAT
73189588 AAAAAAAAAACC
1 AAAAAAAAAACC
73189600 AAAAAAAAAACC
1 AAAAAAAAAACC
73189612 AAAA
1 AAAA
73189616 CTGTGCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAACC
Found at i:73191651 original size:5 final size:5
Alignment explanation
Indices: 73191641--73191674 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
73191631 GAAGTTCCGA
73191641 CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CTTC
1 CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CTTC
73191675 TTTCTCACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (5 bp):
CTTCC
Found at i:73199510 original size:15 final size:15
Alignment explanation
Indices: 73199490--73199519 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
73199480 TTTAATCCTT
*
73199490 TATAAATTATAAAAA
1 TATAAACTATAAAAA
73199505 TATAAACTATAAAAA
1 TATAAACTATAAAAA
73199520 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:73202291 original size:22 final size:22
Alignment explanation
Indices: 73202240--73202293 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
73202230 TGAGGCAAAG
*
73202240 CCTCCAATACGTGGACAAGCCA
1 CCTCCAGTACGTGGACAAGCCA
73202262 CCTCCAGTACGTGGACAAGCCA
1 CCTCCAGTACGTGGACAAGCCA
* *
73202284 CTTTCAGTAC
1 CCTCCAGTAC
73202294 TTCCTCCGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.28, C:0.35, G:0.19, T:0.19
Consensus pattern (22 bp):
CCTCCAGTACGTGGACAAGCCA
Found at i:73203946 original size:26 final size:26
Alignment explanation
Indices: 73203909--73204018 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
73203899 CATGAAATTC
73203909 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
73203935 GTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
73203961 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
73203987 TTATCATGGAACATTTACCTAATCTA
1 TTATCATGAAACATTTACCTAACCCA
73204013 TTATCA
1 TTATCA
73204019 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:73205843 original size:3 final size:3
Alignment explanation
Indices: 73205835--73206022 Score: 77
Period size: 3 Copynumber: 60.7 Consensus size: 3
73205825 ATCTAATCAA
*
73205835 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TA- TAT TAGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * *
73205880 GTA- TAT TCT TAT TAT ATACGT GTAT ATAT ATACT TA- TAT ATAA CAC
1 -TAT TAT TAT TAT TAT -TA--T -TAT -TAT -TA-T TAT TAT -TAT TAT
* * * *
73205926 TAT TTT TAAT TAC T-T TAT TTT TAA TAT TAT TAT TA- TAT TAT GT-T
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * * *
73205970 TAT TTT TTT GTAT T-T CAT TAT TAT T-T CTAG TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
73206015 TAT TAT TA
1 TAT TAT TA
73206023 ATAGTGTATA
Statistics
Matches: 142, Mismatches: 24, Indels: 38
0.70 0.12 0.19
Matches are distributed among these distances:
2 12 0.08
3 105 0.74
4 19 0.13
5 3 0.02
6 3 0.02
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:73206067 original size:150 final size:150
Alignment explanation
Indices: 73205836--73206262 Score: 571
Period size: 150 Copynumber: 2.9 Consensus size: 150
73205826 TCTAATCAAT
*
73205836 ATTATTATTATTATTATTATTATTATTATTATTACTATATTAGTGTATATTCTTATTATATAC--
1 ATTATTATTATTAGTATTATTATTATTATTATTA-T-TATTAGTGTATATTCTTATTATATACGT
73205899 GTGTATATATATACTTATATATAACACTATTTTTAATTACTTTATTTTTAATATTATTATTATAT
64 GTGTATATATATACTTATATATAACACTATTTTTAATTACTTTA-TTTTAATATTATTATTATAT
*
73205964 TATGTTTA-TTTTTTTGTATTTC
128 TATATTTACTTTTTTTGTATTTC
*
73205986 ATTATTATT-TCTAGTATTATTATTATTATTATTATTAATAGTGTATATTCTTATTATATACGTG
1 ATTATTATTAT-TAGTATTATTATTATTATTATTATTATTAGTGTATATTCTTATTATATACGTG
* *
73206050 TGTATATATATAGTTATATATAACACTATTTTTAATTACTTTATTTTAATATCATTATTATATTA
65 TGTATATATATACTTATATATAACACTATTTTTAATTACTTTATTTTAATATTATTATTATATTA
73206115 TATTTACTTTTTTTGTATTTC
130 TATTTACTTTTTTTGTATTTC
** * * * * * *
73206136 ATTGCTATTGTTAGTATTATTATCATTATTA-TA-TATTAGTGTATATTTTTATTATACATGTAT
1 ATTATTATTATTAGTATTATTATTATTATTATTATTATTAGTGTATATTCTTATTATATACGTGT
* * * ** * *
73206199 ATGTATATATATTTATATATAGTATTATTTTTTTATTACTTTATTTTAATATCT-TTATTATATT
66 GTATATATATACTTATATATAACACTA-TTTTTAATTACTTTATTTTAATAT-TATTATTATATT
73206263 TGCTTTTTGT
Statistics
Matches: 249, Mismatches: 21, Indels: 15
0.87 0.07 0.05
Matches are distributed among these distances:
148 71 0.29
149 63 0.25
150 114 0.46
151 1 0.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (150 bp):
ATTATTATTATTAGTATTATTATTATTATTATTATTATTAGTGTATATTCTTATTATATACGTGT
GTATATATATACTTATATATAACACTATTTTTAATTACTTTATTTTAATATTATTATTATATTAT
ATTTACTTTTTTTGTATTTC
Found at i:73206312 original size:21 final size:21
Alignment explanation
Indices: 73206279--73206345 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 21
73206269 TTGTATTTCA
73206279 ATATTATTATTATATATTAGTGT
1 ATATT-TT-TTATATATTAGTGT
*
73206302 ATATTTTTTATATA-T-GTAT
1 ATATTTTTTATATATTAGTGT
*
73206321 ATATTTTTAATATATATA-TGT
1 ATATTTTTTATATAT-TAGTGT
73206342 ATAT
1 ATAT
73206346 ATTTATGTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
19 16 0.42
20 1 0.03
21 14 0.37
22 2 0.05
23 5 0.13
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (21 bp):
ATATTTTTTATATATTAGTGT
Found at i:73206319 original size:17 final size:17
Alignment explanation
Indices: 73206299--73206339 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
73206289 TATATATTAG
73206299 TGTATAT-TTTTTATATA
1 TGTATATATTTTTA-ATA
73206316 TGTATATATTTTTAATA
1 TGTATATATTTTTAATA
*
73206333 TATATAT
1 TGTATAT
73206340 GTATATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (17 bp):
TGTATATATTTTTAATA
Found at i:73206323 original size:19 final size:21
Alignment explanation
Indices: 73206283--73206349 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 21
73206273 ATTTCAATAT
*
73206283 TATTATTATATAT-TA-GTGTA
1 TATT-TTATATATATATGTATA
73206303 TATTTT-T-TATATATGTATA
1 TATTTTATATATATATGTATA
73206322 TATTTTTAATATATATATGTATA
1 TA-TTTT-ATATATATATGTATA
73206345 TATTT
1 TATTT
73206350 ATGTAGTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 3 0.08
18 3 0.08
19 8 0.20
20 8 0.20
22 4 0.10
23 14 0.35
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (21 bp):
TATTTTATATATATATGTATA
Found at i:73206433 original size:15 final size:13
Alignment explanation
Indices: 73206377--73206441 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
73206367 GTAGTTTTTT
*
73206377 TTTTAATATGTATA
1 TTTT-ATATATATA
* * *
73206391 TATTATGTAAATA
1 TTTTATATATATA
73206404 TTTTA-ATACTATA
1 TTTTATATA-TATA
73206417 TTATGTATATATATA
1 TT-T-TATATATATA
73206432 TTTTATATAT
1 TTTTATATAT
73206442 GTTATGTACA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
12 2 0.05
13 22 0.55
14 5 0.12
15 8 0.20
16 3 0.08
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (13 bp):
TTTTATATATATA
Found at i:73206440 original size:24 final size:22
Alignment explanation
Indices: 73206387--73206524 Score: 65
Period size: 22 Copynumber: 6.2 Consensus size: 22
73206377 TTTTAATATG
73206387 TATATATTATGTAAATATTTTAA
1 TATATATTATGTAAATATTTT-A
73206410 TACTATATTATGTATATATATATTTTA
1 TA-TATATTATG--TA-A-ATATTTTA
* *
73206437 TATATGTTATGTACAT-TTTT-
1 TATATATTATGTAAATATTTTA
* * *
73206457 TTTA-AATAT-TATAT-TTTTA
1 TATATATTATGTAAATATTTTA
* *
73206476 TATATTATGATGTATATATTTTA
1 TATA-TATTATGTAAATATTTTA
* *
73206499 -ATATCATTA-GTTATATATTTTT
1 TATAT-ATTATG-TAAATATTTTA
73206521 TATA
1 TATA
73206525 CTATCTTATG
Statistics
Matches: 91, Mismatches: 11, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
18 8 0.09
19 6 0.07
20 3 0.03
21 9 0.10
22 23 0.25
23 10 0.11
24 11 0.12
26 10 0.11
27 4 0.04
28 7 0.08
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (22 bp):
TATATATTATGTAAATATTTTA
Found at i:73206659 original size:2 final size:2
Alignment explanation
Indices: 73206652--73206695 Score: 70
Period size: 2 Copynumber: 21.5 Consensus size: 2
73206642 ATTGTTGCTA
*
73206652 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT
73206695 A
1 A
73206696 AGATTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 37 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:73206860 original size:24 final size:25
Alignment explanation
Indices: 73206803--73206865 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
73206793 ATAAATTATG
* *
73206803 TATACAT-TTTTTAAATACTATATTA
1 TATACATATTATT-AATACCATATTA
*
73206828 TATATATA-TATTAATACCATATTA
1 TATACATATTATTAATACCATATTA
*
73206852 TGTACATATTATTA
1 TATACATATTATTA
73206866 TTATATCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 17 0.55
25 14 0.45
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (25 bp):
TATACATATTATTAATACCATATTA
Found at i:73210302 original size:39 final size:39
Alignment explanation
Indices: 73210235--73210348 Score: 165
Period size: 39 Copynumber: 2.9 Consensus size: 39
73210225 CAGTGATGTT
* * *
73210235 TATCCGGACTTAGGGTCTGCAAGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
*
73210274 TATCCGGACTTAAGGTCCGCAGGTTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
73210313 TAACAGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAA
73210349 ATATGTCCTG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:73211388 original size:16 final size:15
Alignment explanation
Indices: 73211367--73211401 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
73211357 TTACACTAAG
*
73211367 TTTTTATGGTTTTAGT
1 TTTTTATAG-TTTAGT
73211383 TTTTTATAGTTTAGT
1 TTTTTATAGTTTAGT
73211398 TTTT
1 TTTT
73211402 AAATAAAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (15 bp):
TTTTTATAGTTTAGT
Found at i:73222618 original size:76 final size:75
Alignment explanation
Indices: 73222444--73223015 Score: 670
Period size: 76 Copynumber: 7.3 Consensus size: 75
73222434 TTTCTGTTTC
*
73222444 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
73222509 T-TTCTTTCAA
66 TGTT-TTTCAA
* * *
73222519 AAAAATCAACTCATATTGCGAGAGATGAGTTAAGCCTCAAGACATGCTGAGGTAATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTT
*
73222584 CTGTCTTTCAA
65 CTGTTTTTCAA
*
73222595 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTT
73222660 CTGTTTTTCAA
65 CTGTTTTTCAA
* *
73222671 AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGTCTCAAGACACGCTGAGGTAATTTT-AATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTT
** *
73222735 CTGTTCATAAA
65 CTGTTTTTCAA
* * *
73222746 AAAAATCAACTCATCTTGCGAG-GGTGAGTTGAGCCTC-CGCTCACATGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGCTGAGGTATTTTCAAT
73222809 TTCTGTTTTTCAA
63 TTCTGTTTTTCAA
* * * *
73222822 TTTCTGTTCGTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTA
1 -----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTA
* *
73222887 -TTTCAATTTCTGTTTTTTATGTTTC
55 TTTTCAATTTCTGTTTTTCA-----A
*
73222912 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGAACACGCTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACGCTGAGGTATTTTCAATTT
73222976 CTGTTTTTTCAAA
65 CTG-TTTTTC-AA
73222989 AAAAATCAAGCTCATATTGCGAGAGGT
1 AAAAATCAA-CTCATATTGCGAGAGGT
73223016 CATACGCTGA
Statistics
Matches: 433, Mismatches: 35, Indels: 55
0.83 0.07 0.11
Matches are distributed among these distances:
73 1 0.00
74 13 0.03
75 88 0.20
76 170 0.39
77 10 0.02
78 19 0.04
79 48 0.11
80 12 0.03
81 5 0.01
82 1 0.00
85 18 0.04
86 13 0.03
87 19 0.04
88 15 0.03
89 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (75 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAA
Found at i:73222736 original size:151 final size:149
Alignment explanation
Indices: 73222444--73223015 Score: 668
Period size: 151 Copynumber: 3.7 Consensus size: 149
73222434 TTTCTGTTTC
*
73222444 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACACGTTGAGGTATTTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCACACGCTGAGGTATTTTCAATTT
* *
73222508 CT-TTCTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTAAGCCTCAAGACATGCTGAGGT
65 CTGTT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGT
*
73222572 AATTTTCAATTTCTGTCTTTCAA
129 AATTTT-AATTTCTGT-TTTAAA
*
73222595 AAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAG-ACACGCTGAGGTAATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGCACACGCTGAGGT-ATTTTCAATT
* * *
73222659 TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGTCTCAAGACACGCTGAGGT
64 TCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGT
*
73222724 AATTTTAATTTCTGTTCATAAA
129 AATTTTAATTTCTGTT-TTAAA
* * *
73222746 AAAAATCAACTCATCTTGCGAG-GGTGAGTTGAGCCTCCGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--CACACGCTGAGGTATTTTCAATT
* * *
73222810 TCTGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGA
64 TCTGTTTTTCAA-----------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
* **
73222875 CATGCTGAGGT-ATTTCAATTTCTGTTTTTTATGTTTC
118 CATGCTGAGGTAATTTTAATTTCTG--TTTTA----AA
* *
73222912 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAATTTC
73222977 TGTTTTTTCAAAAAAAATCAAGCTCATATTGCGAGAGGT
66 TG-TTTTTC-AAAAAAATCAA-CTCATATTGCGAGAGGT
73223016 CATACGCTGA
Statistics
Matches: 365, Mismatches: 29, Indels: 48
0.83 0.07 0.11
Matches are distributed among these distances:
149 1 0.00
150 16 0.04
151 105 0.29
152 84 0.23
153 2 0.01
156 8 0.02
157 16 0.04
161 12 0.03
162 49 0.13
163 2 0.01
165 25 0.07
166 27 0.07
167 18 0.05
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (149 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTAA
TTTTAATTTCTGTTTTAAA
Found at i:73222820 original size:14 final size:14
Alignment explanation
Indices: 73222801--73222829 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
73222791 TGCTGAGGTA
73222801 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
73222815 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
73222829 T
1 T
73222830 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:73222848 original size:162 final size:162
Alignment explanation
Indices: 73222672--73222983 Score: 423
Period size: 162 Copynumber: 1.9 Consensus size: 162
73222662 GTTTTTCAAA
* * *
73222672 AAAATCAACTCATATTGCGAGAGGTAAGTTGAGTCTCAAGACACGCTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAAGACACGCTGAGGT-ATTTCAATTTCT
* ** *
73222737 G-TTCA-TAAAAAAAATCAACTCATCTTGCGAG-GGTGAGTTGAGCCTCCGCTCACATGCTGAGG
65 GTTTCAGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CG-GAACACGCTGAGG
73222799 TATTTTCAATTTCTGTTTTTCAATTTCTGTTCGTC
128 TATTTTCAATTTCTGTTTTTCAATTTCTGTTCGTC
* * *
73222834 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTCAATTTCTG
1 AAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAAGACACGCTGAGGTATTTCAATTTCTG
* ***
73222899 TTTTTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGG
66 --TTTCA-GTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGG
73222964 TATTTTCAATTTCTGTTTTT
128 TATTTTCAATTTCTGTTTTT
73222984 TCAAAAAAAA
Statistics
Matches: 130, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
161 12 0.09
162 47 0.36
164 3 0.02
165 30 0.23
166 24 0.18
167 14 0.11
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (162 bp):
AAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAAGACACGCTGAGGTATTTCAATTTCTG
TTTCAGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTAT
TTTCAATTTCTGTTTTTCAATTTCTGTTCGTC
Found at i:73222888 original size:86 final size:81
Alignment explanation
Indices: 73222746--73222984 Score: 308
Period size: 79 Copynumber: 2.9 Consensus size: 81
73222736 TGTTCATAAA
* *
73222746 AAAAATCAACTCATCTTGCGAG-GGTGAGTTGAGCCTCCGCTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CG--GACATGCTGAGGTATTTTCAATT
*
73222810 TCTGTTTTTCAATTTCTGTTCGTC
63 TCTGTTTTT---TTTATGTT--TC
*
73222834 -AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTA-TTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACATGCTGAGGTATTTTCAATTTC
73222897 TG--TTTTTTATGTTTC
65 TGTTTTTTTTATGTTTC
*
73222912 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-ACATGCTGAGGTATTTTCAATTTC
73222977 TGTTTTTT
65 TGTTTTTT
73222985 CAAAAAAAAT
Statistics
Matches: 138, Mismatches: 6, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
78 4 0.03
79 48 0.35
80 19 0.14
82 4 0.03
83 3 0.02
85 12 0.09
86 13 0.09
87 20 0.14
88 15 0.11
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (81 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACATGCTGAGGTATTTTCAATTTCT
GTTTTTTTTATGTTTC
Found at i:73224529 original size:3 final size:3
Alignment explanation
Indices: 73224523--73225036 Score: 159
Period size: 3 Copynumber: 168.3 Consensus size: 3
73224513 TAATCTAATC
73224523 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
**
73224571 ATT ATT ATT ATT ATT ATT ATAT ACGTGT ATAT ATAT ACTT A-T ATAT AAC
1 ATT ATT ATT ATT ATT ATT AT-T A--T-T AT-T AT-T A-TT ATT AT-T ATT
* * * * *
73224620 ACT ATT TTT AATT ACT -TT ATT TTT AAT ATT ATT ATT A-T ATT ATGT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
* * * *
73224665 -TT ATT -TT TTT TTGT ATT -TC ATT ATT ATT -TCT AGT ATT ATT ATT
1 ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
*
73224708 ATT ATT ATT AGTGT A-T ATT CTT ATT ATAT ACGTGT ATAT ATAT AGTT
1 ATT ATT ATT A-T-T ATT ATT ATT ATT AT-T A--T-T AT-T AT-T A-TT
** * * * *
73224755 A-T ATAT AAC ACT ATT -TT -TT AATT ACT -TT ATT -TT AAT ATC ATT
1 ATT AT-T ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
* * * ** * *
73224797 ATT A-T ATT A-T ATTT ACTT TTT TTGT ATT -TC ATT GCT ATT GTT AGT
1 ATT ATT ATT ATT A-TT A-TT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
* * *
73224842 ATT ATT ATC ATT ATT ATAT ATT AGTGT A-T ATT TTT ATT ATAC ATGT
1 ATT ATT ATT ATT ATT AT-T ATT A-T-T ATT ATT ATT ATT AT-T AT-T
* * *
73224888 A-T ATGT A-T ATAT ATT -TAT ATAT AGT ATT ATT -TT TTT ATT ACT -TT
1 ATT AT-T ATT AT-T ATT AT-T AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
73224932 ATT -TT AAT ATCT -TT ATT A-T ATT -TG CTT -TT -TGT ATT -TC AAT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
73224972 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
73225020 ATT ATT ATT ATAT ATT A
1 ATT ATT ATT AT-T ATT A
73225037 GTGTATATTT
Statistics
Matches: 387, Mismatches: 68, Indels: 112
0.68 0.12 0.20
Matches are distributed among these distances:
2 46 0.12
3 268 0.69
4 61 0.16
5 6 0.02
6 6 0.02
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:73224731 original size:19 final size:21
Alignment explanation
Indices: 73224704--73224759 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 21
73224694 CTAGTATTAT
73224704 TATTATTATTAT-TA-GTGTA
1 TATTATTATTATATACGTGTA
*
73224723 TATTCTTATTATATACGTGTA
1 TATTATTATTATATACGTGTA
73224744 TA-TATATAGTTATATA
1 TATTAT-TA-TTATATA
73224760 TAACACTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 11 0.35
20 4 0.13
21 9 0.29
22 7 0.23
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.54
Consensus pattern (21 bp):
TATTATTATTATATACGTGTA
Found at i:73224928 original size:149 final size:145
Alignment explanation
Indices: 73224540--73225021 Score: 483
Period size: 144 Copynumber: 3.3 Consensus size: 145
73224530 TTATTATTAT
* *** *
73224540 TATTATTATTATTATTATTATTATTATTATTA-T-TATTATTATTATTATTATATACGTGTATAT
1 TATT-TTAGTATTATTA-TATTATTATTATTAGTGTA-TATTATTATTA-TATACGTGTATAT--
* *
73224603 ATATACTTATATATAACACTA-TTTTTAATTACTTTATTTTTAATATTATTATTATATTATGTTT
60 ATATACTTATATATAACACTATTTTTTAATTACTTTA-TTTTAATATCATTATTATATTATATTT
* *
73224667 ATTTTTTTTTGTATTTCATTAT
124 ATCTTTTTTTGTATTTCATTAC
*
73224689 TATTTCTAGTATTA-T-TATTATTATTATTAGTGTATATTCTTATTATATACGTGTATATATATA
1 TATTT-TAGTATTATTATATTATTATTATTAGTGTATATTATTATTATATACGTGTATATATATA
*
73224752 GTTATATATAACACTATTTTTTAATTACTTTATTTTAATATCATTATTATATTATATTTA-CTTT
65 CTTATATATAACACTATTTTTTAATTACTTTATTTTAATATCATTATTATATTATATTTATCTTT
*
73224816 TTTTGTATTTCATTGC
130 TTTTGTATTTCATTAC
* * * *
73224832 TATTGTTAGTATTATTATCATTATTATATATTAGTGTATATTTTTATTATACATGTATATGTATA
1 TATT-TTAGTATTATTAT-ATTATTAT-TATTAGTGTATATTATTATTATATACGTGTA--TATA
* ** * * *
73224897 TATATTTATATATAGTATTATTTTTTTATTACTTTATTTTAATATC----TT-TATTATATTT-G
61 TATACTTATATATAACACTATTTTTTAATTACTTTATTTTAATATCATTATTATATTATATTTAT
* *
73224956 C--TTTTTGTATTTCAATAT
126 CTTTTTTTGTATTTCATTAC
*
73224974 TATTATTATTATTATTATTATTATTATTATTA-T-TATTATTATTATTAT
1 TATT-TTAGTATTATTA-TATTATTATTATTAGTGTA-TATTATTATTAT
73225022 TATTATTATA
Statistics
Matches: 292, Mismatches: 27, Indels: 37
0.82 0.08 0.10
Matches are distributed among these distances:
139 2 0.01
140 12 0.04
141 5 0.02
142 37 0.13
143 30 0.10
144 59 0.20
145 18 0.06
146 31 0.11
147 38 0.13
148 4 0.01
149 56 0.19
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (145 bp):
TATTTTAGTATTATTATATTATTATTATTAGTGTATATTATTATTATATACGTGTATATATATAC
TTATATATAACACTATTTTTTAATTACTTTATTTTAATATCATTATTATATTATATTTATCTTTT
TTTGTATTTCATTAC
Found at i:73225071 original size:17 final size:18
Alignment explanation
Indices: 73225040--73225077 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
73225030 TATATTAGTG
*
73225040 TATATTTTTATATATGTA
1 TATATTTTTATATATATA
73225058 TATATTTTTA-ATATATA
1 TATATTTTTATATATATA
73225075 TAT
1 TAT
73225078 GTATATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TATATTTTTATATATATA
Found at i:73225140 original size:11 final size:11
Alignment explanation
Indices: 73225124--73225180 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
73225114 TTATTTCTAA
73225124 TATGTATATAT
1 TATGTATATAT
*
73225135 TATGTAAATAT
1 TATGTATATAT
* *
73225146 TTTAATACTATAT
1 TAT-GTA-TATAT
73225159 TATGTATATAT
1 TATGTATATAT
* *
73225170 TTTTTATATAT
1 TATGTATATAT
73225181 GTTATGTACA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
11 26 0.72
12 4 0.11
13 6 0.17
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (11 bp):
TATGTATATAT
Found at i:73225158 original size:24 final size:23
Alignment explanation
Indices: 73225128--73225208 Score: 81
Period size: 24 Copynumber: 3.3 Consensus size: 23
73225118 TTCTAATATG
73225128 TATATATTATGTAAATATTTTAA
1 TATATATTATGTAAATATTTTAA
* *
73225151 TACTATATTATGTATATATTTTTTA
1 TA-TATATTATGTAAATA-TTTTAA
* * *
73225176 TATATGTTATGTACATTTTTTAAA
1 TATATATTATGTAAATATTTT-AA
73225200 TATTATATT
1 TA-TATATT
73225209 TTTATATATT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
23 6 0.13
24 29 0.62
25 12 0.26
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (23 bp):
TATATATTATGTAAATATTTTAA
Found at i:73225179 original size:22 final size:22
Alignment explanation
Indices: 73225128--73225280 Score: 90
Period size: 22 Copynumber: 6.9 Consensus size: 22
73225118 TTCTAATATG
* *
73225128 TATATATTATGTAAATATTTTAA
1 TATATATTATGTATATATTTT-T
73225151 TACTATATTATGTATATATTTTT
1 TA-TATATTATGTATATATTTTT
*
73225174 TATATATGTTATG--TACATTTTT
1 TATATA--TTATGTATATATTTTT
*
73225196 TA-A-A-TAT-TATAT-TTTTA
1 TATATATTATGTATATATTTTT
*
73225213 TATATTATGATGTATATA-TTTT
1 TATA-TATTATGTATATATTTTT
*
73225235 AATATCATTA-GTTATATATTTTT
1 TATAT-ATTATG-TATATATTTTT
*
73225258 TATACTATCTTATGTATGTATTT
1 TATA-TA--TTATGTATATATTT
73225281 CTAATACTAT
Statistics
Matches: 101, Mismatches: 11, Indels: 34
0.69 0.08 0.23
Matches are distributed among these distances:
17 9 0.09
18 3 0.03
20 2 0.02
21 5 0.05
22 34 0.34
23 12 0.12
24 24 0.24
25 11 0.11
26 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (22 bp):
TATATATTATGTATATATTTTT
Found at i:73225180 original size:48 final size:46
Alignment explanation
Indices: 73225128--73225301 Score: 143
Period size: 48 Copynumber: 3.8 Consensus size: 46
73225118 TTCTAATATG
*
73225128 TATATATTATGTAAATATTTTAATACTATATTATGTATATATTTTTTA
1 TATATATTATGTATATATTTTAATA-TATA-TATGTATATATTTTTTA
* * *
73225176 TATATGTTATGTACAT-TTTT--TA-A-ATAT-TATAT-TTTTATA
1 TATATATTATGTATATATTTTAATATATATATGTATATATTTTTTA
*
73225215 TAT-TATGATGTATATATTTTAATATCAT-TA-GTTATATATTTTTTA
1 TATATATTATGTATATATTTTAATAT-ATATATG-TATATATTTTTTA
* *
73225260 TACTATCTTATGTATGTATTTCTAATACTATATATTGTATAT
1 TA-TATATTATGTATATATTT-TAATA-TATATA-TGTATAT
73225302 TTCTAATACC
Statistics
Matches: 100, Mismatches: 10, Indels: 30
0.71 0.07 0.21
Matches are distributed among these distances:
38 9 0.09
39 13 0.13
40 5 0.05
41 5 0.05
42 1 0.01
43 4 0.04
44 5 0.05
45 10 0.10
46 1 0.01
47 17 0.17
48 21 0.21
49 3 0.03
50 5 0.05
51 1 0.01
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (46 bp):
TATATATTATGTATATATTTTAATATATATATGTATATATTTTTTA
Found at i:73225234 original size:24 final size:21
Alignment explanation
Indices: 73225203--73225261 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 21
73225193 TTTTAAATAT
73225203 TATATTTTTATATATTATGATGTA
1 TATATTTTTATATATTA-G-T-TA
*
73225227 TATATTTTAATATCATTAGTTA
1 TATATTTTTATAT-ATTAGTTA
73225249 TATATTTTT-TATA
1 TATATTTTTATATA
73225262 CTATCTTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 3 0.09
22 10 0.31
23 1 0.03
24 13 0.41
25 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (21 bp):
TATATTTTTATATATTAGTTA
Found at i:73228156 original size:12 final size:12
Alignment explanation
Indices: 73228141--73228202 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
73228131 ATTTATAAGT
73228141 TTATTATATATA
1 TTATTATATATA
73228153 TTATTATATATA
1 TTATTATATATA
* *
73228165 TTCTTA-ATGT-
1 TTATTATATATA
* *
73228175 TTAAGTAAATATA
1 TT-ATTATATATA
73228188 -TATTATATATA
1 TTATTATATATA
73228199 TTAT
1 TTAT
73228203 ATTATATAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
10 2 0.05
11 13 0.33
12 24 0.62
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (12 bp):
TTATTATATATA
Found at i:73230164 original size:47 final size:47
Alignment explanation
Indices: 73230012--73230188 Score: 202
Period size: 47 Copynumber: 3.8 Consensus size: 47
73230002 TGTAACCCGC
* * * *
73230012 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
*
73230058 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCTGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-AGTTCACAT
* * *
73230108 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
*
73230152 CCATAAGTGAACTCGGATTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
73230189 TGTTCAACCA
Statistics
Matches: 111, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
43 3 0.03
44 6 0.05
45 1 0.01
46 35 0.32
47 55 0.50
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:73230180 original size:94 final size:93
Alignment explanation
Indices: 73230020--73230190 Score: 270
Period size: 94 Copynumber: 1.8 Consensus size: 93
73230010 GCCCATAAGT
* * *
73230020 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
73230085 CGAGTTCTGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
73230113 GAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCGGATTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCGGACTCAACTCA
73230178 ACGAGTTCGGATG
65 ACGAGTTCGGATG
73230191 TTCAACCATC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 27 0.39
94 43 0.61
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:73231546 original size:32 final size:31
Alignment explanation
Indices: 73231484--73231542 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
73231474 TACAACTCTC
*
73231484 CCCCCTTTAAGGATTTTTGTCCTCGAAATCT
1 CCCCCTTTAAGGATTTTTGTCCTCAAAATCT
73231515 CCCCCTTTAAGGATTTTTGTCCTCAAAA
1 CCCCCTTTAAGGATTTTTGTCCTCAAAA
73231543 ATCTTACCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (31 bp):
CCCCCTTTAAGGATTTTTGTCCTCAAAATCT
Found at i:73237780 original size:47 final size:47
Alignment explanation
Indices: 73237621--73237795 Score: 171
Period size: 47 Copynumber: 3.7 Consensus size: 47
73237611 TGTAACCCGC
* * * ** *
73237621 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-GGCCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACAGTTCACAT
*
73237667 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCTGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTC-G--GAC-AGTTCACAT
* * * * *
73237717 -C-TCA-CGAACCCGGACTCAACTCAACGAGTTCGGACATTTCACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACAGTTCACAT
73237761 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCG
73237796 AATGTTCAAC
Statistics
Matches: 104, Mismatches: 16, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
43 3 0.03
44 6 0.06
45 1 0.01
46 35 0.34
47 50 0.48
48 2 0.02
49 3 0.03
50 3 0.03
51 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (47 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACAGTTCACAT
Found at i:73239373 original size:24 final size:24
Alignment explanation
Indices: 73239346--73239392 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
73239336 ATTGAAATGG
73239346 ATTG-ATTTAGTATCTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
73239370 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
73239393 GATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.02, G:0.15, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:73239414 original size:21 final size:21
Alignment explanation
Indices: 73239363--73239416 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
73239353 TAGTATCTGA
* *
73239363 TGAATTTATTGA-ATTTATAT
1 TGAATATATTGATATATATAT
*
73239383 TGATTGA-ATTGATATATATAT
1 TGAAT-ATATTGATATATATAT
73239404 TGAATATATTGAT
1 TGAATATATTGAT
73239417 TTTTTGAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (21 bp):
TGAATATATTGATATATATAT
Found at i:73239639 original size:37 final size:40
Alignment explanation
Indices: 73239550--73239657 Score: 123
Period size: 37 Copynumber: 2.7 Consensus size: 40
73239540 ACTTCAAGTT
** *
73239550 GATGAGACACTGGGTATCAATTTACTACTTCGGATTAATTC
1 GATGAGACACTGGGTGCCAATTTA-TACTTCAGATTAATTC
* *
73239591 GATGAGGCACTGGGTGCCAA-TT-TACTTCAGTTTAA-TC
1 GATGAGACACTGGGTGCCAATTTATACTTCAGATTAATTC
*
73239628 GATGAGACACTGGGTGCCAAATTATTACTT
1 GATGAGACACTGGGTGCCAATTTA-TACTT
73239658 TGAATTATCC
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
37 21 0.36
38 13 0.22
40 7 0.12
41 17 0.29
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (40 bp):
GATGAGACACTGGGTGCCAATTTATACTTCAGATTAATTC
Found at i:73239875 original size:24 final size:24
Alignment explanation
Indices: 73239828--73239875 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
73239818 GAAATATGCA
*
73239828 CATGAAATGCATGAATTATGTGTT
1 CATGAAATGCATAAATTATGTGTT
*
73239852 CATGAAATGGATAATATTAT-TGTT
1 CATGAAATGCATAA-ATTATGTGTT
73239876 AATTGATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (24 bp):
CATGAAATGCATAAATTATGTGTT
Found at i:73241724 original size:126 final size:126
Alignment explanation
Indices: 73241499--73241742 Score: 425
Period size: 126 Copynumber: 1.9 Consensus size: 126
73241489 GTTTTAGCCT
* *
73241499 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAGCCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAAAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
73241564 CTTCGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
* * *
73241625 TAAGAGGATATTTGAATATTCAAGACAAATAAAAAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAAAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
73241690 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAG
73241743 AAGATCAATG
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 111 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAAAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACCGAACATTACCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:73241875 original size:13 final size:12
Alignment explanation
Indices: 73241843--73241892 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
73241833 AACCATATAT
73241843 AAATAA-TAA-A
1 AAATAATTAATA
73241853 AAATAA-TAATA
1 AAATAATTAATA
*
73241864 ATAGTAATTAATA
1 A-AATAATTAATA
73241877 GAAATAATTAATA
1 -AAATAATTAATA
73241890 AAA
1 AAA
73241893 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:73242218 original size:14 final size:14
Alignment explanation
Indices: 73242199--73242229 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
73242189 ATATATTTAC
*
73242199 ATAATAAATATATA
1 ATAATAAATAAATA
73242213 ATAATAAATAAATA
1 ATAATAAATAAATA
73242227 ATA
1 ATA
73242230 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:73242230 original size:19 final size:18
Alignment explanation
Indices: 73242201--73242237 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
73242191 ATATTTACAT
73242201 AATAAATATATAATAATA
1 AATAAATATATAATAATA
73242219 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
73242238 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:73243113 original size:133 final size:133
Alignment explanation
Indices: 73242884--73243617 Score: 1078
Period size: 133 Copynumber: 5.5 Consensus size: 133
73242874 ATCTACTTTA
** *
73242884 CTCCTGCTCAGTAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAA
1 CTCCTGCTCAGCGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAA
* ** * * * * *
73242949 GGCTGATGATTGGAATCTGCTCCATTACCGATACATGGAGATAAGATTCATCAAAATTTAATCTA
64 GGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTG
**
73243014 CTTTG
129 CTCCG
* *
73243019 CTCCTGCTCAGCGAAGATAAGATCTAGTATATAGCCTGCTCCACTCCTGCTCAATGAAGATAAGG
1 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
* * * *
73243084 CTGGTGGCTGAAATCTGTTACATTGCCGATACATGGAGATAAGATTCACCAAAACTTGATTTGCT
66 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
73243149 CCG
131 CCG
73243152 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
1 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
* *
73243217 CTGGTGGCTGAAATCTGCTCCATTCCCGATACATAGAGATAAGATTCACCAAAATTTGATCTGCT
66 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
73243282 CCG
131 CCG
* *
73243285 CTCCTGCTCAACAAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
1 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
* *
73243350 CTGGTGGCTGAAATCTGCTCCATTGCCGACACATGGAGATAAGACTT-GCCAAAATTTGATCTGC
66 CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGA-TTCACCAAAATTTGATCTGC
* *
73243414 TTCA
130 TCCG
* * * *
73243418 CTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTAGTCTGCTCCACTTCTGCTTAGTGAAGATAA
1 CTCCTGCTCAGCGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAA
* *
73243483 -GCTGGTGGCTGAAATCTACTCCATTGCCGATACATGGAGATAAGATTCACCAAAAGTTGATCTG
64 GGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTG
73243547 CTCCG
129 CTCCG
* * *
73243552 CTCCTGCTCAGCGAAGATAAGATTTAGTATTTAGCCTGCTCCACTCCTGCTTAGTG-GGATAAGG
1 CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
73243616 CT
66 CT
73243618 TGCCGAAATC
Statistics
Matches: 542, Mismatches: 52, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
131 5 0.01
132 28 0.05
133 363 0.67
134 89 0.16
135 57 0.11
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (133 bp):
CTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGG
CTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCAAAATTTGATCTGCT
CCG
Found at i:73243199 original size:43 final size:43
Alignment explanation
Indices: 73243145--73243348 Score: 126
Period size: 43 Copynumber: 4.7 Consensus size: 43
73243135 AAACTTGATT
*
73243145 TGCTCCGCTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCC
1 TGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCC
* * * * ** **
73243188 TGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGGTGGCTGAAATC
1 TGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGT--ATTTAGCC
* * * ** * ** *
73243232 TGCTCCATTCCCGATACATAG-AGATAAGATTCACCAAAATTT-GATC
1 TGCTCCACTCCTGCT-CAGCGAAGATAAGA-T--CTAGTATTTAG-CC
* * *
73243278 TGCTCCGCTCCTGCTCAACAAAGATAAGATCTAGTATTTAGCC
1 TGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCC
*
73243321 TGCTCCACTCCTGCTCAGTGAAGATAAG
1 TGCTCCACTCCTGCTCAGCGAAGATAAG
73243349 GCTGGTGGCT
Statistics
Matches: 113, Mismatches: 38, Indels: 20
0.66 0.22 0.12
Matches are distributed among these distances:
42 4 0.04
43 57 0.50
44 23 0.20
45 6 0.05
46 22 0.19
48 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (43 bp):
TGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCC
Found at i:73244926 original size:13 final size:13
Alignment explanation
Indices: 73244908--73244955 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
73244898 TATTTTTCTC
73244908 TTCTTTTTCCTTT
1 TTCTTTTTCCTTT
*
73244921 TTCTTTTTTCTCTT
1 TTCTTTTTCCT-TT
*
73244935 TCCTTTTTCTCTTT
1 TTCTTTTTC-CTTT
73244949 TT-TTTTT
1 TTCTTTTT
73244956 GAAAGTGAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 15 0.52
14 12 0.41
15 2 0.07
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTCTTTTTCCTTT
Found at i:73244928 original size:25 final size:27
Alignment explanation
Indices: 73244888--73244955 Score: 97
Period size: 25 Copynumber: 2.6 Consensus size: 27
73244878 TTTCTTTTCA
73244888 TTCTCTTTTTTATTTTTCTC-TT-CTTT
1 TTCTCTTTTTT-TTTTTCTCTTTCCTTT
73244914 TTC-CTTTTTCTTTTTTCTCTTTCCTTT
1 TTCTCTTTTT-TTTTTTCTCTTTCCTTT
73244941 TTCTCTTTTTTTTTT
1 TTCTCTTTTTTTTTT
73244956 GAAAGTGAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
25 14 0.37
26 6 0.16
27 12 0.32
28 6 0.16
ACGTcount: A:0.01, C:0.21, G:0.00, T:0.78
Consensus pattern (27 bp):
TTCTCTTTTTTTTTTTCTCTTTCCTTT
Found at i:73244936 original size:20 final size:21
Alignment explanation
Indices: 73244908--73244950 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
73244898 TATTTTTCTC
*
73244908 TTCTTTTTCCTTTTTCT-TTT
1 TTCTCTTTCCTTTTTCTCTTT
73244928 TTCTCTTTCCTTTTTCTCTTT
1 TTCTCTTTCCTTTTTCTCTTT
73244949 TT
1 TT
73244951 TTTTTGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (21 bp):
TTCTCTTTCCTTTTTCTCTTT
Found at i:73246942 original size:49 final size:49
Alignment explanation
Indices: 73246872--73246990 Score: 136
Period size: 47 Copynumber: 2.5 Consensus size: 49
73246862 CTTTACATAA
* * * *
73246872 TGATGCCATAGCCCAGCTATGGTGTCTTACAC-GTAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTGTCTTACACAGT-AGCACATATCACAC
* * *
73246921 TGATGTCATATCCCAGATAT-G-GTCTTATACAGTAGCATATATCACAC
1 TGATGCCATATCCCAGATATGGTGTCTTACACAGTAGCACATATCACAC
*
73246968 CGATGCCATATCCCAGATATGGT
1 TGATGCCATATCCCAGATATGGT
73246991 CTTATACAGA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
47 37 0.64
48 4 0.07
49 17 0.29
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (49 bp):
TGATGCCATATCCCAGATATGGTGTCTTACACAGTAGCACATATCACAC
Found at i:73247015 original size:7 final size:7
Alignment explanation
Indices: 73247003--73247031 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
73246993 TATACAGAAA
73247003 TCACTTG
1 TCACTTG
73247010 TCACTTG
1 TCACTTG
73247017 TCACTTG
1 TCACTTG
73247024 TCACTTG
1 TCACTTG
73247031 T
1 T
73247032 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:73247065 original size:31 final size:31
Alignment explanation
Indices: 73247030--73247207 Score: 232
Period size: 31 Copynumber: 5.7 Consensus size: 31
73247020 CTTGTCACTT
*
73247030 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
**** *
73247061 GTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
**
73247092 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
73247123 GTAGCCAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCAAAGCTACCACTTTTCACTGATCAG
* *
73247154 GTAGCTGAAA-CTACCACTTTTCACTGGTCAG
1 GTAGC-CAAAGCTACCACTTTTCACTGATCAG
**
73247185 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCAAAGCTACCACTTTTCA
73247208 GTTGTCATTT
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
30 2 0.02
31 125 0.96
32 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCAAAGCTACCACTTTTCACTGATCAG
Found at i:73247127 original size:62 final size:62
Alignment explanation
Indices: 73247030--73247207 Score: 257
Period size: 62 Copynumber: 2.9 Consensus size: 62
73247020 CTTGTCACTT
* * ** *
73247030 GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCTGGTGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTGATCAG
* **
73247092 GTAGCCGGAGCTACCACTTTTCACTGATCAGGTAGCCAAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTGATCAG
* * *
73247154 GTAGCTGAAACTACCACTTTTCACTGGTCAGGTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCA
73247208 GTTGTCATTT
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 102 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (62 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCTGAAGCTACCACTTTTCACTGATCAG
Found at i:73247189 original size:93 final size:93
Alignment explanation
Indices: 73247030--73247207 Score: 284
Period size: 93 Copynumber: 1.9 Consensus size: 93
73247020 CTTGTCACTT
*** *
73247030 GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCTGGTGCTACCATTTTTCACTGATCAGGTA
1 GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCTGAAACTACCACTTTTCACTGATCAGGTA
*
73247095 GCCGGAGCTACCACTTTTCACTGATCAG
66 GCCGAAGCTACCACTTTTCACTGATCAG
* *
73247123 GTAGCCAAAGCTACCACTTTTCACTGATCAGGTAGCTGAAACTACCACTTTTCACTGGTCAGGTA
1 GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCTGAAACTACCACTTTTCACTGATCAGGTA
*
73247188 GCTGAAGCTACCACTTTTCA
66 GCCGAAGCTACCACTTTTCA
73247208 GTTGTCATTT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (93 bp):
GTAGCCAAAGCTACCACTATTCACTGATCAGGTAGCTGAAACTACCACTTTTCACTGATCAGGTA
GCCGAAGCTACCACTTTTCACTGATCAG
Found at i:73247291 original size:50 final size:50
Alignment explanation
Indices: 73247185--73247361 Score: 248
Period size: 50 Copynumber: 3.5 Consensus size: 50
73247175 CACTGGTCAG
* * * *
73247185 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
73247236 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
73247286 GTAGCCGAAGTTATTACTTATCACTTTTATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
73247336 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
73247362 GTTTCCATGG
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
50 88 0.79
51 24 0.21
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:73250851 original size:21 final size:21
Alignment explanation
Indices: 73250825--73250869 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
73250815 GCTGGCTCAT
*
73250825 CATGTTGTTT-TGTGACTCCAG
1 CATGTT-TTTCTGGGACTCCAG
73250846 CATGTTTTTCTGGGACTCCAG
1 CATGTTTTTCTGGGACTCCAG
73250867 CAT
1 CAT
73250870 TTGATCCCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (21 bp):
CATGTTTTTCTGGGACTCCAG
Found at i:73254514 original size:126 final size:126
Alignment explanation
Indices: 73254354--73254597 Score: 407
Period size: 126 Copynumber: 1.9 Consensus size: 126
73254344 GTTTTAGCCT
* * *
73254354 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAGCCCAGTATGTTAGGGCACAATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAAGGCACAATT
*
73254419 CTTCGAATTCTTTAAATACCGAACATTAACTTTATTTTGAAAATTTTTGAGAGCGAACTGG
66 CTTCGAATTCTTTAAATACCGAACATTAACTTTATTTTGAAAAATTTTGAGAGCGAACTGG
* * *
73254480 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAATCGAAACCCAGTACGTTAAGGCACGATT
1 TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAAGGCACAATT
**
73254545 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 CTTCGAATTCTTTAAATACCGAACATTAACTTTATTTTGAAAAATTTTGAGAG
73254598 AAGATCAATG
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.29
Consensus pattern (126 bp):
TAAGAGGATATTCGAATATTCAAAACAAACAAAGAAAGCGAAACCCAGTACGTTAAGGCACAATT
CTTCGAATTCTTTAAATACCGAACATTAACTTTATTTTGAAAAATTTTGAGAGCGAACTGG
Found at i:73254730 original size:13 final size:12
Alignment explanation
Indices: 73254698--73254747 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
73254688 AACCATATAT
73254698 AAATAA-TAA-A
1 AAATAATTAATA
73254708 AAATAA-TAATA
1 AAATAATTAATA
*
73254719 ATAGTAATTAATA
1 A-AATAATTAATA
73254732 GAAATAATTAATA
1 -AAATAATTAATA
73254745 AAA
1 AAA
73254748 CAACAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 9 0.26
11 2 0.06
12 7 0.21
13 15 0.44
14 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATAATTAATA
Found at i:73255076 original size:14 final size:14
Alignment explanation
Indices: 73255057--73255088 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
73255047 ATATATTTAC
*
73255057 ATAATAAATATATA
1 ATAATAAATAAATA
73255071 ATAATAAATAAATA
1 ATAATAAATAAATA
73255085 ATAA
1 ATAA
73255089 AATAATATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:73256140 original size:19 final size:22
Alignment explanation
Indices: 73256101--73256140 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
73256091 AGAAACCCAA
73256101 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
73256123 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
73256141 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:73256239 original size:27 final size:28
Alignment explanation
Indices: 73256202--73256341 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
73256192 AGCATGGCTG
* *
73256202 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
73256228 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
73256256 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
73256283 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
73256310 CCAGAT-CAGATATTTATGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
73256337 CCAGA
1 CCAGA
73256342 ACGCTTCCTC
Statistics
Matches: 105, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
26 5 0.05
27 83 0.79
28 17 0.16
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:73257996 original size:26 final size:26
Alignment explanation
Indices: 73257960--73258095 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
73257950 CATGATATTC
73257960 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
73257986 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
73258012 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
73258038 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
73258064 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
73258090 TTATCA
1 TTATCA
73258096 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:73262193 original size:19 final size:19
Alignment explanation
Indices: 73262157--73262208 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
73262147 ATTTAAAAGA
* * *
73262157 CTAAAAAGTTCTAGAAATT
1 CTAAAAAATTATAAAAATT
*
73262176 GTAAAAAATTATAAAAATT
1 CTAAAAAATTATAAAAATT
*
73262195 CTTAAAAATTATAA
1 CTAAAAAATTATAA
73262209 TTCTTTTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (19 bp):
CTAAAAAATTATAAAAATT
Found at i:73266234 original size:26 final size:26
Alignment explanation
Indices: 73266198--73266252 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
73266188 TGTTACTATA
73266198 TTGTATCTTGCTATTTTAGCCATTGT
1 TTGTATCTTGCTATTTTAGCCATTGT
73266224 TTGTATCTTGCTATTTTAGCCATTGT
1 TTGTATCTTGCTATTTTAGCCATTGT
73266250 TTG
1 TTG
73266253 ACAGGGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.15, C:0.15, G:0.16, T:0.55
Consensus pattern (26 bp):
TTGTATCTTGCTATTTTAGCCATTGT
Found at i:73266413 original size:13 final size:13
Alignment explanation
Indices: 73266395--73266419 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73266385 AGAGTAAAAT
73266395 TTTTGTTGTTTGG
1 TTTTGTTGTTTGG
73266408 TTTTGTTGTTTG
1 TTTTGTTGTTTG
73266420 AGATCTCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.28, T:0.72
Consensus pattern (13 bp):
TTTTGTTGTTTGG
Found at i:73278040 original size:17 final size:17
Alignment explanation
Indices: 73278020--73278053 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
73278010 AGGTTTAGGT
73278020 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
73278037 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
73278054 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:73278394 original size:2 final size:2
Alignment explanation
Indices: 73278387--73278414 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
73278377 TTCATTTTCA
73278387 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
73278415 AAAAGACGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:73279476 original size:20 final size:18
Alignment explanation
Indices: 73279435--73279478 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
73279425 TCATAAAATG
* *
73279435 AAAATTCAATGTAATCCT
1 AAAATTCAAAGTAATCCC
73279453 AAAATTCAAGAGTCAATCCC
1 AAAATTCAA-AGT-AATCCC
73279473 AAAATT
1 AAAATT
73279479 TTACATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 2 0.09
20 11 0.50
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (18 bp):
AAAATTCAAAGTAATCCC
Found at i:73292318 original size:23 final size:23
Alignment explanation
Indices: 73292292--73292335 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
73292282 TTTAGTCCCT
73292292 ATACTT-TAATTTTATAAATTTTA
1 ATACTTAT-ATTTTATAAATTTTA
*
73292315 ATACTTATATTTTTTAAATTT
1 ATACTTATATTTTATAAATTT
73292336 GTCAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
ATACTTATATTTTATAAATTTTA
Found at i:73293503 original size:10 final size:10
Alignment explanation
Indices: 73293488--73293553 Score: 80
Period size: 10 Copynumber: 6.4 Consensus size: 10
73293478 TCCTCCTATC
73293488 CAAATTCTCT
1 CAAATTCTCT
73293498 CAAATTCTCT
1 CAAATTCTCT
73293508 CAAATTCT-T
1 CAAATTCTCT
73293517 CCAAAAATTCTCT
1 -C--AAATTCTCT
*
73293530 CATATTCTCT
1 CAAATTCTCT
*
73293540 CAAATTTTCT
1 CAAATTCTCT
73293550 CAAA
1 CAAA
73293554 GCTATCTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
9 1 0.02
10 39 0.80
12 8 0.16
13 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:73293526 original size:32 final size:32
Alignment explanation
Indices: 73293489--73293553 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 32
73293479 CCTCCTATCC
73293489 AAATTCTCTCAAATTCTCTCAAATTCTTC-CAA
1 AAATTCTCTCAAATTCTCTCAAATT-TTCTCAA
*
73293521 AAATTCTCTCATATTCTCTCAAATTTTCTCAA
1 AAATTCTCTCAAATTCTCTCAAATTTTCTCAA
73293553 A
1 A
73293554 GCTATCTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 3 0.10
32 28 0.90
ACGTcount: A:0.34, C:0.26, G:0.00, T:0.40
Consensus pattern (32 bp):
AAATTCTCTCAAATTCTCTCAAATTTTCTCAA
Found at i:73293543 original size:22 final size:22
Alignment explanation
Indices: 73293488--73293543 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
73293478 TCCTCCTATC
73293488 CAAATTCTCTC--AAATTCTCT
1 CAAATTCTCTCAAAAATTCTCT
73293508 CAAATTCT-TCCAAAAATTCTCT
1 CAAATTCTCT-CAAAAATTCTCT
*
73293530 CATATTCTCTCAAA
1 CAAATTCTCTCAAA
73293544 TTTTCTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.29
22 20 0.65
23 1 0.03
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.38
Consensus pattern (22 bp):
CAAATTCTCTCAAAAATTCTCT
Found at i:73293796 original size:25 final size:25
Alignment explanation
Indices: 73293720--73293796 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 25
73293710 TTTCAATAGT
* *
73293720 ATTTAATATTTTTTTAATTTATGCA
1 ATTTAATATTTTTTTCATTTATACA
*
73293745 ATTTTAAT-TAATTTTTCA---ATACA
1 A-TTTAATAT-TTTTTTCATTTATACA
73293768 ATTTAATATTTTTTTCATTTATACA
1 ATTTAATATTTTTTTCATTTATACA
73293793 ATTT
1 ATTT
73293797 TAATTTTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
22 13 0.31
23 6 0.14
25 11 0.26
26 12 0.29
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.58
Consensus pattern (25 bp):
ATTTAATATTTTTTTCATTTATACA
Found at i:73293825 original size:50 final size:48
Alignment explanation
Indices: 73293704--73293801 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
73293694 AGTGATAATT
* ** *
73293704 TTAATATTTCAATAGTATTTAATATTTTTTTAATTTATGCAATTTTAA
1 TTAATTTTTCAATACAATTTAATATTTTTTTAATTTATACAATTTTAA
*
73293752 TTAATTTTTCAATACAATTTAATATTTTTTTCATTTATACAATTTTAA
1 TTAATTTTTCAATACAATTTAATATTTTTTTAATTTATACAATTTTAA
73293800 TT
1 TT
73293802 TTAATTTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (48 bp):
TTAATTTTTCAATACAATTTAATATTTTTTTAATTTATACAATTTTAA
Found at i:73294759 original size:7 final size:7
Alignment explanation
Indices: 73294747--73294806 Score: 93
Period size: 7 Copynumber: 8.6 Consensus size: 7
73294737 ACTCGTTTCT
73294747 TATTTAG
1 TATTTAG
*
73294754 TATTTAA
1 TATTTAG
73294761 TATTTAG
1 TATTTAG
*
73294768 TATTTGG
1 TATTTAG
73294775 TATTTAG
1 TATTTAG
73294782 TATTTAG
1 TATTTAG
73294789 TATTTAG
1 TATTTAG
*
73294796 TATCTAG
1 TATTTAG
73294803 TATT
1 TATT
73294807 ATTTATACAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.28, C:0.02, G:0.13, T:0.57
Consensus pattern (7 bp):
TATTTAG
Found at i:73295366 original size:28 final size:29
Alignment explanation
Indices: 73295302--73295373 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 29
73295292 GGATAACGAC
* *
73295302 CCGGGCCCATCAACAATGCCCATACAATCA
1 CCGGGCCCATCAA-TATGCCCACACAATCA
* * *
73295332 GCTGGCCCATCAATA-GCCCACACAGTCA
1 CCGGGCCCATCAATATGCCCACACAATCA
*
73295360 CCGGGCCCAACAAT
1 CCGGGCCCATCAAT
73295374 TTAACCGACG
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
28 22 0.65
29 1 0.03
30 11 0.32
ACGTcount: A:0.31, C:0.40, G:0.17, T:0.12
Consensus pattern (29 bp):
CCGGGCCCATCAATATGCCCACACAATCA
Found at i:73295464 original size:18 final size:18
Alignment explanation
Indices: 73295423--73295457 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
73295413 GCCAGGTGCG
73295423 TATCCTAACCCTTATATA
1 TATCCTAACCCTTATATA
73295441 TATCCTAACCCTTATAT
1 TATCCTAACCCTTATAT
73295458 GCTTCCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (18 bp):
TATCCTAACCCTTATATA
Found at i:73295907 original size:29 final size:29
Alignment explanation
Indices: 73295874--73295964 Score: 93
Period size: 29 Copynumber: 3.2 Consensus size: 29
73295864 TATTCTTTCA
73295874 TTTAATAAAATAAAAGTTGTTTTTAGTAT
1 TTTAATAAAATAAAAGTTGTTTTTAGTAT
* * *
73295903 TTTAAT----TATAATTTACTCTTTTA-TAT
1 TTTAATAAAATAAAAGTT-GT-TTTTAGTAT
73295929 TTGTAATAAAATAAAAGTTGTTTTTAGTAT
1 TT-TAATAAAATAAAAGTTGTTTTTAGTAT
73295959 TTTAAT
1 TTTAAT
73295965 TATAATTTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
25 6 0.12
26 6 0.12
27 9 0.19
29 15 0.31
30 6 0.12
31 6 0.12
ACGTcount: A:0.37, C:0.02, G:0.08, T:0.53
Consensus pattern (29 bp):
TTTAATAAAATAAAAGTTGTTTTTAGTAT
Found at i:73295924 original size:27 final size:27
Alignment explanation
Indices: 73295894--73295991 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
73295884 TAAAAGTTGT
73295894 TTTTAGTATTT-TAATTATAATTTACTC
1 TTTTA-TATTTGTAATTATAATTTACTC
* * *
73295921 TTTTATATTTGTAATAAAATAAAAGTT-GT-
1 TTTTATATTTGTAAT----TATAATTTACTC
73295950 TTTTAGTATTT-TAATTATAATTTACTC
1 TTTTA-TATTTGTAATTATAATTTACTC
73295977 TTTTATATTTGTAAT
1 TTTTATATTTGTAAT
73295992 AAAATAAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
25 6 0.11
26 11 0.20
27 18 0.32
29 9 0.16
30 6 0.11
31 6 0.11
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (27 bp):
TTTTATATTTGTAATTATAATTTACTC
Found at i:73295941 original size:56 final size:56
Alignment explanation
Indices: 73295876--73296008 Score: 266
Period size: 56 Copynumber: 2.4 Consensus size: 56
73295866 TTCTTTCATT
73295876 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
73295932 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
1 TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
73295988 TAATAAAATAAAAGTTGTTTT
1 TAATAAAATAAAAGTTGTTTT
73296009 GAATAAGGAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 77 1.00
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.52
Consensus pattern (56 bp):
TAATAAAATAAAAGTTGTTTTTAGTATTTTAATTATAATTTACTCTTTTATATTTG
Found at i:73299322 original size:126 final size:126
Alignment explanation
Indices: 73299095--73299472 Score: 454
Period size: 126 Copynumber: 3.0 Consensus size: 126
73299085 GGAACTACTG
* * * * * *
73299095 TAGAAAAAGAGCGTCCATGTGGGAGCTTTTCTCAGTAATTTTTCTGAAAGTGCATACTGCATGAA
1 TAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAA
* * * * * *
73299160 GCGTTTTTGACATTATTTGTTCAGAAAGGTCATCTCACAATTATTTTTTCAGATACCACTG
66 GCGTTTTTGACACTATTTCTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACCACTA
** * * * *
73299221 TATCAAAAGAGCGTCTACGTGAGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCTGCTTAAA
1 TAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAA
** * *
73299286 GTATTTTTTACACTACTTT-TTCAGAAACGTCTTCTCAAAAGTATTTTTTCAGATACCACTA
66 GCGTTTTTGACACTA-TTTCTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACCACTA
* * *
73299347 TAGAAAAAAAACGTCCACGTGGGAGCATTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAA
1 TAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAA
* * * * *
73299412 GCGTTTTGGATACTATTTCTTCAGAAACTTCTTCTTAAAATT-TTTTTTCCAGATACTACTA
66 GCGTTTTTGACACTATTTCTTCAGAAACGTCTTCTCAAAATTATTTTTT-CAGATACCACTA
73299473 AATAAAAAAA
Statistics
Matches: 210, Mismatches: 39, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
125 9 0.04
126 198 0.94
127 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.37
Consensus pattern (126 bp):
TAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTGAA
GCGTTTTTGACACTATTTCTTCAGAAACGTCTTCTCAAAATTATTTTTTCAGATACCACTA
Found at i:73299689 original size:16 final size:18
Alignment explanation
Indices: 73299649--73299693 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
73299639 TTTAATTAAT
*
73299649 TAAACCCTTACAAAAACCA
1 TAAA-CCTTAAAAAAACCA
73299668 TAAACCTTAAAAAAACC-
1 TAAACCTTAAAAAAACCA
73299685 T-AACCTTAA
1 TAAACCTTAA
73299694 CCCTAACCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 8 0.32
17 1 0.04
18 12 0.48
19 4 0.16
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (18 bp):
TAAACCTTAAAAAAACCA
Found at i:73299700 original size:6 final size:6
Alignment explanation
Indices: 73299683--73299731 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
73299673 CTTAAAAAAA
*
73299683 CCTAAC CTTAAC CCTAA- CC-AAC CCTAAC CC--AC CCTAAC CCTAAC
1 CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC
73299727 CCTAA
1 CCTAA
73299732 AAAACCCTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
4 6 0.16
5 4 0.11
6 27 0.73
ACGTcount: A:0.35, C:0.49, G:0.00, T:0.16
Consensus pattern (6 bp):
CCTAAC
Found at i:73299705 original size:16 final size:17
Alignment explanation
Indices: 73299681--73299731 Score: 70
Period size: 16 Copynumber: 3.1 Consensus size: 17
73299671 ACCTTAAAAA
*
73299681 AACCTAACCTTAACCCT
1 AACCTAACCCTAACCCT
73299698 AACC-AACCCTAACCC-
1 AACCTAACCCTAACCCT
*
73299713 ACCCTAACCCTAACCCT
1 AACCTAACCCTAACCCT
73299730 AA
1 AA
73299732 AAAACCCTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 3 0.10
16 21 0.72
17 5 0.17
ACGTcount: A:0.37, C:0.47, G:0.00, T:0.16
Consensus pattern (17 bp):
AACCTAACCCTAACCCT
Found at i:73299707 original size:10 final size:10
Alignment explanation
Indices: 73299692--73299741 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
73299682 ACCTAACCTT
73299692 AACCCTAACC
1 AACCCTAACC
73299702 AACCCTAACC
1 AACCCTAACC
*
73299712 CACCCTAACCC
1 AACCCTAA-CC
**
73299723 TAACCCTAAAA
1 -AACCCTAACC
73299734 AACCCTAA
1 AACCCTAA
73299742 TCCCAACAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
10 25 0.74
11 2 0.06
12 7 0.21
ACGTcount: A:0.42, C:0.46, G:0.00, T:0.12
Consensus pattern (10 bp):
AACCCTAACC
Found at i:73299719 original size:32 final size:33
Alignment explanation
Indices: 73299683--73299746 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
73299673 CTTAAAAAAA
* **
73299683 CCTAACCTTAACCCTAACCAACCCTAA-CCCAC
1 CCTAACCCTAACCCTAAAAAACCCTAATCCCAC
73299715 CCTAACCCTAACCCTAAAAAACCCTAATCCCA
1 CCTAACCCTAACCCTAAAAAACCCTAATCCCA
73299747 ACAGATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 24 0.86
33 4 0.14
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.16
Consensus pattern (33 bp):
CCTAACCCTAACCCTAAAAAACCCTAATCCCAC
Found at i:73312495 original size:37 final size:37
Alignment explanation
Indices: 73312392--73312497 Score: 104
Period size: 39 Copynumber: 2.8 Consensus size: 37
73312382 TCCAACCAAA
* * ***
73312392 CAAACCAAAGTGGCGGCCAACGCCTCATCGGATAGTT
1 CAAAGCAAAGTGGCGACCAACGCCTCATCGGATAAAC
* * * * *
73312429 CGAAGCAATAAATGACGACCAACGTCTCATCGGTTAAAC
1 CAAAGC-A-AAGTGGCGACCAACGCCTCATCGGATAAAC
73312468 CAAAGCAAAGTGGCGACCAACGCCTCATCG
1 CAAAGCAAAGTGGCGACCAACGCCTCATCG
73312498 AATCTATCTG
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
37 24 0.45
38 2 0.04
39 27 0.51
ACGTcount: A:0.34, C:0.29, G:0.22, T:0.15
Consensus pattern (37 bp):
CAAAGCAAAGTGGCGACCAACGCCTCATCGGATAAAC
Found at i:73313414 original size:22 final size:21
Alignment explanation
Indices: 73313389--73313447 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
73313379 AAACCCTAAT
*
73313389 TTCTCCTTTTTCTTTTCTTTTC
1 TTCT-CTTTTTCTTTTCGTTTC
73313411 TTCT-TTCTTTCTATTTCGTTTC
1 TTCTCTT-TTTCT-TTTCGTTTC
*
73313433 TTCTCTGTTTCTTTT
1 TTCTCTTTTTCTTTT
73313448 TCTTGTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
20 2 0.06
21 8 0.25
22 21 0.66
23 1 0.03
ACGTcount: A:0.02, C:0.24, G:0.03, T:0.71
Consensus pattern (21 bp):
TTCTCTTTTTCTTTTCGTTTC
Found at i:73313450 original size:14 final size:15
Alignment explanation
Indices: 73313411--73313455 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
73313401 TTTTCTTTTC
*
73313411 TTCTTTCTT-TCTAT
1 TTCTTTCTTCTCTGT
73313425 TTCGTTTCTTCTCTGT
1 TTC-TTTCTTCTCTGT
73313441 TTCTTT-TTCT-TGT
1 TTCTTTCTTCTCTGT
73313454 TT
1 TT
73313456 TTCTTTCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.18
14 7 0.25
15 9 0.32
16 7 0.25
ACGTcount: A:0.02, C:0.20, G:0.07, T:0.71
Consensus pattern (15 bp):
TTCTTTCTTCTCTGT
Found at i:73313635 original size:3 final size:3
Alignment explanation
Indices: 73313627--73313691 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
73313617 CAATTAATTG
73313627 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
73313675 ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA AT
73313692 GAGTAAATAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:73313955 original size:20 final size:22
Alignment explanation
Indices: 73313901--73313946 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
73313891 ACTTCTAATT
73313901 AAAAATAAATTCACGTAATTAA
1 AAAAATAAATTCACGTAATTAA
73313923 AAAAATAAATTCACGTAATTAA
1 AAAAATAAATTCACGTAATTAA
73313945 AA
1 AA
73313947 TCTAATTCAA
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:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (22 bp):
AAAAATAAATTCACGTAATTAA
Found at i:73318560 original size:18 final size:18
Alignment explanation
Indices: 73318537--73318572 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
73318527 ATGAAGCGGT
73318537 AAAATGGTTCTTTCTTTA
1 AAAATGGTTCTTTCTTTA
73318555 AAAATGGTTCTTTCTTTA
1 AAAATGGTTCTTTCTTTA
73318573 CAATTGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (18 bp):
AAAATGGTTCTTTCTTTA
Found at i:73318629 original size:40 final size:40
Alignment explanation
Indices: 73318585--73318664 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
73318575 ATTGTGTTTA
73318585 CTCTTTTATTAGGAGCTCTTATCCTTTCATTGTTATTCTG
1 CTCTTTTATTAGGAGCTCTTATCCTTTCATTGTTATTCTG
73318625 CTCTTTTATTAGGAGCTCTTATCCTTTCATTGTTATTCTG
1 CTCTTTTATTAGGAGCTCTTATCCTTTCATTGTTATTCTG
73318665 TGTTGTGTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.15, C:0.20, G:0.12, T:0.53
Consensus pattern (40 bp):
CTCTTTTATTAGGAGCTCTTATCCTTTCATTGTTATTCTG
Found at i:73325063 original size:22 final size:22
Alignment explanation
Indices: 73325035--73325080 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
73325025 AAATATATCG
73325035 AAATTCGTAGTGTTTTAAGTTT
1 AAATTCGTAGTGTTTTAAGTTT
73325057 AAATTCGTAGTGTTTTAAGTTT
1 AAATTCGTAGTGTTTTAAGTTT
73325079 AA
1 AA
73325081 CTACTTTATG
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:0.30, C:0.04, G:0.17, T:0.48
Consensus pattern (22 bp):
AAATTCGTAGTGTTTTAAGTTT
Found at i:73327178 original size:2 final size:2
Alignment explanation
Indices: 73327165--73327209 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
73327155 TGCATTATTA
*
73327165 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73327207 AT A
1 AT A
73327210 CACACATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:73332302 original size:16 final size:18
Alignment explanation
Indices: 73332274--73332307 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
73332264 TGACATATAT
73332274 TTTTATATA-TTTTAAAA
1 TTTTATATATTTTTAAAA
73332291 TTTTAT-TATTTTTAAAA
1 TTTTATATATTTTTAAAA
73332308 ATTAAACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTATATATTTTTAAAA
Found at i:73339103 original size:32 final size:32
Alignment explanation
Indices: 73339062--73339127 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
73339052 CTTAACAAAC
73339062 ATATTTTCCAAATGCATGATTTCAATATCTAT
1 ATATTTTCCAAATGCATGATTTCAATATCTAT
73339094 ATATTTTCCAAATGCATGATTTCAATATCTAT
1 ATATTTTCCAAATGCATGATTTCAATATCTAT
73339126 AT
1 AT
73339128 GCATGTGATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (32 bp):
ATATTTTCCAAATGCATGATTTCAATATCTAT
Found at i:73342012 original size:28 final size:28
Alignment explanation
Indices: 73341979--73342035 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
73341969 ATTTCTGAAA
73341979 ATTATAAATTTAATTTAAATTATTAATG
1 ATTATAAATTTAATTTAAATTATTAATG
73342007 ATTATAAATTTAATTTAAATTATTAATG
1 ATTATAAATTTAATTTAAATTATTAATG
73342035 A
1 A
73342036 AAAACCTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (28 bp):
ATTATAAATTTAATTTAAATTATTAATG
Found at i:73349147 original size:6 final size:6
Alignment explanation
Indices: 73349136--73349169 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
73349126 GGATTGCAAG
*
73349136 TTTTCA TTTTCA TTTTCA TTTTCA TTTCCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
73349170 TGGAAACCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTCA
Found at i:73349185 original size:51 final size:51
Alignment explanation
Indices: 73349128--73349230 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
73349118 CCTCTATAGG
73349128 ATTGCAAGTTTTCATTTTCATTTTCATTTTCATTTCCATTTTTGGAAACCT
1 ATTGCAAGTTTTCATTTTCATTTTCATTTTCATTTCCATTTTTGGAAACCT
73349179 ATTGCAAGTTTTCATTTTCATTTTCATTTTCATTTCCATTTTTGGAAACCT
1 ATTGCAAGTTTTCATTTTCATTTTCATTTTCATTTCCATTTTTGGAAACCT
73349230 A
1 A
73349231 CATTCATTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.52
Consensus pattern (51 bp):
ATTGCAAGTTTTCATTTTCATTTTCATTTTCATTTCCATTTTTGGAAACCT
Found at i:73349198 original size:6 final size:6
Alignment explanation
Indices: 73349187--73349220 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
73349177 CTATTGCAAG
*
73349187 TTTTCA TTTTCA TTTTCA TTTTCA TTTCCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
73349221 TGGAAACCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.18, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTCA
Found at i:73350633 original size:25 final size:27
Alignment explanation
Indices: 73350588--73350663 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 27
73350578 ACAACTCTTA
*
73350588 TGAGCGTCCCGA-T-ATATGGCTCTAAG
1 TGAGCTTCCCGATTAATA-GGCTCTAAG
**
73350614 -GAGCTTCCCGATTAA-AGGCTCTTTG
1 TGAGCTTCCCGATTAATAGGCTCTAAG
* *
73350639 TGAGCTTCCTGATTAATTGGCTCTA
1 TGAGCTTCCCGATTAATAGGCTCTA
73350664 TAACACCCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
25 17 0.43
26 16 0.40
27 7 0.17
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (27 bp):
TGAGCTTCCCGATTAATAGGCTCTAAG
Found at i:73351395 original size:46 final size:46
Alignment explanation
Indices: 73351335--73351516 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
73351325 TTTGACGTGA
* * * * * *
73351335 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
73351381 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
73351427 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
73351473 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
73351517 AGAGCACACT
Statistics
Matches: 126, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 3 0.02
46 123 0.98
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:73354272 original size:25 final size:24
Alignment explanation
Indices: 73354210--73354289 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 24
73354200 TTCTCGATAT
* *
73354210 TGGCTCGT-ATGAGCTTTCTGTTAA
1 TGGCTC-TCATGAGCTTCCCGTTAA
*
73354234 TGGCTCTCAGGAGCTTCCCGTTACA
1 TGGCTCTCATGAGCTTCCCGTTA-A
*
73354259 TGGCT-TACATGAGCTTCCCATTATA
1 TGGCTCT-CATGAGCTTCCCGTTA-A
73354284 TGGCTC
1 TGGCTC
73354290 GAAAGAGCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
23 1 0.02
24 19 0.41
25 26 0.57
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (24 bp):
TGGCTCTCATGAGCTTCCCGTTAA
Found at i:73356273 original size:8 final size:8
Alignment explanation
Indices: 73356260--73356288 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
73356250 TTTTGTTTAG
73356260 TATATTAT
1 TATATTAT
73356268 TATATTAT
1 TATATTAT
73356276 TATATTAT
1 TATATTAT
73356284 TATAT
1 TATAT
73356289 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:73360657 original size:8 final size:8
Alignment explanation
Indices: 73360644--73360672 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
73360634 TTATGTTTAG
73360644 TATATTAT
1 TATATTAT
73360652 TATATTAT
1 TATATTAT
73360660 TATATTAT
1 TATATTAT
73360668 TATAT
1 TATAT
73360673 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:73360705 original size:5 final size:5
Alignment explanation
Indices: 73360695--73360735 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
73360685 TTATGTTTTA
73360695 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
73360736 AAACTAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:73361994 original size:101 final size:102
Alignment explanation
Indices: 73361832--73362032 Score: 341
Period size: 101 Copynumber: 2.0 Consensus size: 102
73361822 GCTCCCAAAA
*
73361832 TTTTTGAAAAAGTTTCATTTCTCTCTTAAAGTTTTTTAAAAAATTTAATTACACCCATCAAGTTT
1 TTTTTGAAAAAGTTTCACTTCTCTCTTAAAGTTTTTTAAAAAATTTAATTACACCCATCAAGTTT
73361897 TATAAATTTTCATTATACCTTTTAATTTGTTTTAAAT
66 TATAAATTTTCATTATACCTTTTAATTTGTTTTAAAT
* ** *
73361934 TTTTTGAAAAAGTTTCACTTCTC-CTTAAAGTTTTTTAAAAAATTTAGTTAGGCCCTTCAAGTTT
1 TTTTTGAAAAAGTTTCACTTCTCTCTTAAAGTTTTTTAAAAAATTTAATTACACCCATCAAGTTT
*
73361998 TTTAAATTTTCATTATACCTTTTAATTTGTTTTAA
66 TATAAATTTTCATTATACCTTTTAATTTGTTTTAA
73362033 TAATTTTAAT
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
101 71 0.76
102 22 0.24
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (102 bp):
TTTTTGAAAAAGTTTCACTTCTCTCTTAAAGTTTTTTAAAAAATTTAATTACACCCATCAAGTTT
TATAAATTTTCATTATACCTTTTAATTTGTTTTAAAT
Found at i:73366803 original size:18 final size:18
Alignment explanation
Indices: 73366777--73366811 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
73366767 GAATTATTCG
*
73366777 AATCGAGTTAATCGAATT
1 AATCAAGTTAATCGAATT
73366795 AATCAAGTTAATCGAAT
1 AATCAAGTTAATCGAAT
73366812 CAGCTCGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (18 bp):
AATCAAGTTAATCGAATT
Found at i:73367201 original size:12 final size:12
Alignment explanation
Indices: 73367184--73367216 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
73367174 TATTTTTTAG
73367184 TTATTTACTCAC
1 TTATTTACTCAC
*
73367196 TTATTTATTCAC
1 TTATTTACTCAC
73367208 TTATTTACT
1 TTATTTACT
73367217 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:73368528 original size:17 final size:18
Alignment explanation
Indices: 73368506--73368545 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
73368496 TTTTTTAAAT
73368506 AATTTTAATG-ATTTTTA
1 AATTTTAATGAATTTTTA
**
73368523 AATTTTTTTGAATTTTTA
1 AATTTTAATGAATTTTTA
73368541 AATTT
1 AATTT
73368546 AAAAAGACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
AATTTTAATGAATTTTTA
Done.