Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 42 of 141
Found at i:12704537 original size:217 final size:215
Alignment explanation
Indices: 12704032--12704800 Score: 938
Period size: 217 Copynumber: 3.6 Consensus size: 215
12704022 TAACAGATCG
*
12704032 AGTCTTAT-CTCCCTGAAGTTGCAGTG-GAACAGACT-AAG-TAGGCAAATCTTATCTCCCTGAA
1 AGTCTTATCCT-CCTGAAGTTGCAGTGAG-GCAGACTGAAGAT-GGCAAATCTTATCTCCCTGAA
* * ** * *
12704093 GATGCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTTGCTGAAGTTGTAGTGAACGGATTAAAA
63 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGAGCGGATTAAAA
*
12704158 CCTTAGATCTTATCTCTCTAAAGATTGCAGAGAGCAG-T--C--CTA-TC---TC-CCTGAAGTT
128 CCTTAGATCTTATCTCTCTGAAG-TTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCTGAAGTT
12704213 GCAGTGGAGCAGACTAAGTAAGCA
192 GCAGTGGAGCAGACTAAGTAAGCA
* * * * *
12704237 GGCCTTATCCTCCTAAAGTTGCAGTGAGGCAGATTGAAGATGGCAAATCTTATCTCCCTAAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
* * * *
12704302 GCAGTGGAGCAAATTAAAGCCGACAATCCTATCTACCTGAAGTTGCAGTAGAGCGGGTTAAAACC
66 GCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGT-GAGCGGATTAAAACC
12704367 TTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTTCCTGAAGTTGC
130 TTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATC-TCCTGAAGTTGC
* * *
12704432 AGTGAAGCAGACTAATTGAGCA
194 AGTGGAGCAGACTAAGTAAGCA
* **
12704454 AGTCTTATCCTCCTGAAGTTGCAGCGAGGCAGACTGAAGATGGCAAATCTTATCTCATTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
* * * * * * *
12704519 GTAGTGAAACAGATTAAAGCCGATAATCCCATCTCCCTGAAGTTACAGTGGAGCGGATCAAAACT
66 GCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGT-GAGCGGATTAAAACC
*
12704584 TTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGTATCTAGTCTTATCTCCCT-AAGGTTG
130 TTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCT-CCTGAA-GTTG
12704648 CAGTGGAGCAGACTAAGTAAGCA
193 CAGTGGAGCAGACTAAGTAAGCA
* * ** * ** *
12704671 GGTCTTATCATTTTCAAGTTGCAGTGAGGCAGACTGAAGATCACATCTAGTCTTATCTCCCTGAA
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCA---AATCTTATCTCCCTGAA
* * *
12704736 GTTGCAGTGGAGTAGATTAAAGCCGATAATCATATCTCCCTGAAGTTGCAGTGGAGTGGATTAAA
63 GTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGT-GAGCGGATTAAA
12704801 GCACTAAATT
Statistics
Matches: 480, Mismatches: 63, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
205 25 0.05
206 84 0.17
207 35 0.07
209 1 0.00
211 3 0.01
212 2 0.00
215 2 0.00
216 3 0.01
217 255 0.53
220 70 0.15
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (215 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTGAGCGGATTAAAACCT
TAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCTGAAGTTGCAG
TGGAGCAGACTAAGTAAGCA
Found at i:12709278 original size:6 final size:6
Alignment explanation
Indices: 12709267--12709296 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
12709257 CAAAGACATT
*
12709267 GAAATA GAAATA GAAATA GAAATA AAAATA
1 GAAATA GAAATA GAAATA GAAATA GAAATA
12709297 TAATTTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (6 bp):
GAAATA
Found at i:12709612 original size:27 final size:27
Alignment explanation
Indices: 12709582--12709638 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
12709572 TGGACTGGCA
*
12709582 GCACTAGTCACGCCTGTCAGATAGGCG
1 GCACTAGTCACGCCTGCCAGATAGGCG
* ** *
12709609 GCACTGGTTGCGCCTGCCAGGTAGGCG
1 GCACTAGTCACGCCTGCCAGATAGGCG
12709636 GCA
1 GCA
12709639 TTGGAATGAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.30, G:0.35, T:0.18
Consensus pattern (27 bp):
GCACTAGTCACGCCTGCCAGATAGGCG
Found at i:12709836 original size:9 final size:10
Alignment explanation
Indices: 12709812--12709891 Score: 62
Period size: 9 Copynumber: 8.0 Consensus size: 10
12709802 GGAAGAATAG
12709812 AGAGAAAGAAA
1 AGAG-AAGAAA
12709823 AGAG-AGAAA
1 AGAGAAGAAA
*
12709832 TGAGAAGAAA
1 AGAGAAGAAA
*
12709842 AGAAGAAGAAG
1 AG-AGAAGAAA
12709853 A-AGAAGAAGA
1 AGAGAAGAA-A
12709863 AGAAGAAGAAGA
1 AG-AGAAGAA-A
12709875 AGA-AAG-AA
1 AGAGAAGAAA
12709883 AGA-AAGAAA
1 AGAGAAGAAA
12709892 GAAAAAAGGT
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
8 7 0.12
9 18 0.31
10 10 0.17
11 13 0.22
12 11 0.19
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (10 bp):
AGAGAAGAAA
Found at i:12709847 original size:3 final size:3
Alignment explanation
Indices: 12709834--12709878 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
12709824 GAGAGAAATG
12709834 AGA AGA A-A AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
12709879 AGAAAGAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:12710180 original size:34 final size:33
Alignment explanation
Indices: 12710137--12710251 Score: 104
Period size: 34 Copynumber: 3.3 Consensus size: 33
12710127 GTATTTGGTG
12710137 ATTTTTTAGTAATGTAAAATTATTTTGTTAAAT
1 ATTTTTTAGTAATGTAAAATTATTTTGTTAAAT
* * * ***
12710170 ATTTTGTTAGTAATTTATTATAAGTTGTTGTGTTTTGT
1 ATTTT-TTAGTAATGTA--A-AA-TTATTTTGTTAAAT
*
12710208 GAGTTTTTAGTAATGTAAAATTATTTTGTTAAAT
1 -ATTTTTTAGTAATGTAAAATTATTTTGTTAAAT
12710242 ATTTTGTTAG
1 ATTTT-TTAG
12710252 CGATTTATTA
Statistics
Matches: 61, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
33 9 0.15
34 23 0.38
35 2 0.03
36 2 0.03
37 2 0.03
38 19 0.31
39 4 0.07
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (33 bp):
ATTTTTTAGTAATGTAAAATTATTTTGTTAAAT
Found at i:12710225 original size:72 final size:72
Alignment explanation
Indices: 12710134--12710298 Score: 294
Period size: 72 Copynumber: 2.3 Consensus size: 72
12710124 TTAGTATTTG
* * *
12710134 GTGATTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGTAATTTATTATAAGTTGTT
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGCAATTTATTATAAATTGTT
12710199 GTGTTTT
66 GTGTTTT
*
12710206 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGCGATTTATTATAAATTGTT
1 GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGCAATTTATTATAAATTGTT
12710271 GTGTTTT
66 GTGTTTT
12710278 GTGAGTTTTTAGTAATGTAAA
1 GTGAGTTTTTAGTAATGTAAA
12710299 TTTTTAAAAA
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 89 1.00
ACGTcount: A:0.28, C:0.01, G:0.17, T:0.54
Consensus pattern (72 bp):
GTGAGTTTTTAGTAATGTAAAATTATTTTGTTAAATATTTTGTTAGCAATTTATTATAAATTGTT
GTGTTTT
Found at i:12710519 original size:207 final size:206
Alignment explanation
Indices: 12710273--12710701 Score: 558
Period size: 208 Copynumber: 2.1 Consensus size: 206
12710263 AAATTGTTGT
* * *
12710273 GTTTTGTGA-GTTTTTAGTAATGTAAATTTTTAAAAAATAATTTTATAGTTATTTTGTTAGTAGT
1 GTTTTGTGATTTTTTTAGTAATGTAAATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAAT
*
12710337 TTATGATTAGG-T-TATAAATTGTT-A-G-T-GTTT-TGTCTTTTGTTATTTTTTAGTAATGTAA
66 TTATGATTAGGTTATATAAATTGTTAAGGTTAGTTTATGT-TTTTGTGATTTTTTAGTAATG---
* * *
12710395 TTTATTTTTAAAAAAAT-GTTATAATTATTTATTTTGTTAGTAATTTATGGGATTA-GGT-TATA
127 --TATTTTAAAAAAAATAATT-T-A-TAGTTATTTTGTTAGTAATTTAT--GATTATGGTATATA
12710457 AATTATTAGTGTTTAGTTTAGG
185 AATTATTAGTGTTTAGTTTAGG
12710479 GTTTTGTGATTTTTTTAGTAATGT-AATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAA
1 GTTTTGTGATTTTTTTAGTAATGTAAATTTT-AAAAAAATAATTTTATAGTTATTTTGTTAGTAA
12710543 TTTATGATTAGGTTATATAAATTGTTAAGGTTTAGTTTAGTGTTTTTGTGATTTTTTAGTAATGT
65 TTTATGATTAGGTTATATAAATTGTTAAGG-TTAGTTTA-TGTTTTTGTGATTTTTTAGTAATGT
* *
12710608 ATTTTAAAAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTATGTTATATAAATTGTTA
128 ATTTTAAAAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTATGGTATATAAATTATTA
*
12710673 GTGTTTAGTTTAGT
193 GTGTTTAGTTTAGG
12710687 GTTTTGTGATTTTTT
1 GTTTTGTGATTTTTT
12710702 AATTTAATTT
Statistics
Matches: 199, Mismatches: 10, Indels: 26
0.85 0.04 0.11
Matches are distributed among these distances:
206 20 0.10
207 58 0.29
208 62 0.31
209 12 0.06
210 16 0.08
211 3 0.02
213 1 0.01
214 4 0.02
215 20 0.10
216 3 0.02
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (206 bp):
GTTTTGTGATTTTTTTAGTAATGTAAATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAAT
TTATGATTAGGTTATATAAATTGTTAAGGTTAGTTTATGTTTTTGTGATTTTTTAGTAATGTATT
TTAAAAAAAATAATTTATAGTTATTTTGTTAGTAATTTATGATTATGGTATATAAATTATTAGTG
TTTAGTTTAGG
Found at i:12710542 original size:105 final size:104
Alignment explanation
Indices: 12710273--12710702 Score: 528
Period size: 103 Copynumber: 4.2 Consensus size: 104
12710263 AAATTGTTGT
* * *
12710273 GTTTTGTGAGTTTTTAGTAATGTAAATTTT-TAAAAAATAATTTTATAGTTATTTTGTTAGTAGT
1 GTTTTGTGATTTTTTAGTAATGTAAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAAT
*
12710337 TTATGATTAGGT-TATAAATTGTTAGTG--T--TTT-GT
66 TTATGATTAGGTATATAAATTGTTAGTGTTTAGTTTAGG
* * * * * *
12710370 CTTTTGTTATTTTTTAGTAATGTAATTTATTTTTAAAAAAAT-GTTATAATTATTTATTTTGTTA
1 GTTTTGTGATTTTTTAGTAATGTAA---ATTTTAAAAAAAATAATT-TTA-TAGTTATTTTGTTA
*
12710434 GTAATTTATGGGATTAGGT-TATAAATTATTAGTGTTTAGTTTAGG
61 GTAATTTAT--GATTAGGTATATAAATTGTTAGTGTTTAGTTTAGG
12710479 GTTTTGTGATTTTTTTAGTAATGT-AATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAA
1 GTTTTGTGA-TTTTTTAGTAATGTAAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAA
12710543 TTTATGATTAGGTTATATAAATTGTTAAG-GTTTAGTTTAGTG
65 TTTATGATTAGG-TATATAAATTGTT-AGTGTTTAGTTTAG-G
*
12710585 TTTTTGTGATTTTTTAGTAATGT--ATTTTAAAAAAAATAA-TTTATAGTTATTTTGTTAGTAAT
1 GTTTTGTGATTTTTTAGTAATGTAAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAAT
* *
12710647 TTATGATTATGTTATATAAATTGTTAGTGTTTAGTTTAGT
66 TTATGATTA-GGTATATAAATTGTTAGTGTTTAGTTTAGG
12710687 GTTTTGTGATTTTTTA
1 GTTTTGTGATTTTTTA
12710703 ATTTAATTTA
Statistics
Matches: 291, Mismatches: 21, Indels: 37
0.83 0.06 0.11
Matches are distributed among these distances:
97 22 0.08
100 7 0.02
101 9 0.03
102 38 0.13
103 63 0.22
104 40 0.14
105 57 0.20
106 27 0.09
107 2 0.01
108 3 0.01
109 9 0.03
110 14 0.05
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (104 bp):
GTTTTGTGATTTTTTAGTAATGTAAATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGTAAT
TTATGATTAGGTATATAAATTGTTAGTGTTTAGTTTAGG
Found at i:12710702 original size:207 final size:201
Alignment explanation
Indices: 12710271--12710702 Score: 554
Period size: 207 Copynumber: 2.1 Consensus size: 201
12710261 ATAAATTGTT
* * *
12710271 GTGTTTTGTGAGTTTTTAGTAATGTAAATTTTTAAAAAATAATTTTATAGTTATTTTGTTAGTAG
1 GTGTTTTGTGATTTTTTAGTAATGTAAATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAA
*
12710336 TTTATGATTAGGTTATAAATTGTTAGTGTTTTGTCTTTTGTTATTTTTTAGTAATGTAATTTATT
66 TTTATGATTAGGTTATAAATTGTTAGTGTTTTGTCTTTTGTGATTTTTTAGTAATG----TTATT
* * *
12710401 TTTAAAAAAATGTTATAATTATTTATTTTGTTAGTAATTTATGGGATTAGGTTATAAATTATTAG
127 TTAAAAAAAATATTATAATTAGTTATTTTGTTAGTAATTTAT-GGATTAGGTTATAAATTATTAG
12710466 TGTTTAGTTTA
191 TGTTTAGTTTA
*
12710477 GGGTTTTGTGATTTTTTTAGTAATGT-AATTTTAAAAAAAATAATTTTATAGTTATTTTGTTAGT
1 GTGTTTTGTGA-TTTTTTAGTAATGTAAATTTT-AAAAAAATAATTTTATAGTTATTTTGTTAGT
12710541 AATTTATGATTAGGTTATATAAATTGTTAAGGTTTAGTTTAGTGT-TTTTGTGATTTTTTAGTAA
64 AATTTATGATTAGG-T-TATAAATTGTT-A-G--T-GTTT--TGTCTTTTGTGATTTTTTAGTAA
*
12710605 TG-TATTTTAAAAAAAATAATT-T-A-TAGTTATTTTGTTAGTAATTTAT-GATTATGTTATATA
120 TGTTATTTTAAAAAAAAT-ATTATAATTAGTTATTTTGTTAGTAATTTATGGATTA-GGT-TATA
*
12710665 AATTGTTAGTGTTTAGTTTA
182 AATTATTAGTGTTTAGTTTA
12710685 GTGTTTTGTGATTTTTTA
1 GTGTTTTGTGATTTTTTA
12710703 ATTTAATTTA
Statistics
Matches: 201, Mismatches: 11, Indels: 27
0.84 0.05 0.11
Matches are distributed among these distances:
206 21 0.10
207 65 0.32
208 56 0.28
209 12 0.06
210 16 0.08
211 3 0.01
213 1 0.00
214 4 0.02
215 20 0.10
216 3 0.01
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (201 bp):
GTGTTTTGTGATTTTTTAGTAATGTAAATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAA
TTTATGATTAGGTTATAAATTGTTAGTGTTTTGTCTTTTGTGATTTTTTAGTAATGTTATTTTAA
AAAAAATATTATAATTAGTTATTTTGTTAGTAATTTATGGATTAGGTTATAAATTATTAGTGTTT
AGTTTA
Found at i:12711764 original size:28 final size:28
Alignment explanation
Indices: 12711725--12711816 Score: 161
Period size: 28 Copynumber: 3.4 Consensus size: 28
12711715 AATAAAAATA
12711725 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTTATTT
12711753 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTTATTT
*
12711781 ACCAATATATTATAA--TTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTTATTT
12711807 ACCAAAATAT
1 ACCAAAATAT
12711817 ACCCAAAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
26 20 0.32
28 42 0.68
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (28 bp):
ACCAAAATATTATAACTTTTTTTTATTT
Found at i:12711904 original size:27 final size:26
Alignment explanation
Indices: 12711874--12711949 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 26
12711864 CACCCTGGTC
12711874 GTGCCAAGGTGATTGGCGGCACCAAAG
1 GTGCCAA-GTGATTGGCGGCACCAAAG
* * *
12711901 GTGCCAAAGTTATTGGTGGCACCAATG
1 GTGCC-AAGTGATTGGCGGCACCAAAG
*
12711928 GTGCCATACTGATTGGCGGCAC
1 GTGCCA-AGTGATTGGCGGCAC
12711950 TACTCGTGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.02
27 38 0.93
28 2 0.05
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.21
Consensus pattern (26 bp):
GTGCCAAGTGATTGGCGGCACCAAAG
Found at i:12712124 original size:19 final size:21
Alignment explanation
Indices: 12712086--12712124 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
12712076 AATAATTGAT
*
12712086 TATATTGTTGTTATTGTTTTG
1 TATATTGTTGTTATTATTTTG
12712107 TATATT-TTG-TATTATTTT
1 TATATTGTTGTTATTATTTT
12712125 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.69
Consensus pattern (21 bp):
TATATTGTTGTTATTATTTTG
Found at i:12712188 original size:3 final size:3
Alignment explanation
Indices: 12712180--12712235 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
12712170 TTTTAGTTAG
*
12712180 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
12712228 TAG TAT TA
1 TAT TAT TA
12712236 AGATGTTATG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:12713086 original size:15 final size:18
Alignment explanation
Indices: 12713058--12713102 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
12713048 TTGATATGGT
* *
12713058 TGGTGGTGAAGAAGAAAG
1 TGGTGGCGAAGAAGAAGG
12713076 TGGTGGCGAAGAAGAAGG
1 TGGTGGCGAAGAAGAAGG
12713094 TGGTGGCGA
1 TGGTGGCGA
12713103 TCATTGGGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.31, C:0.04, G:0.49, T:0.16
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:12716537 original size:7 final size:7
Alignment explanation
Indices: 12716525--12716549 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12716515 CAAAAAAATA
12716525 TAGGGTT
1 TAGGGTT
12716532 TAGGGTT
1 TAGGGTT
12716539 TAGGGTT
1 TAGGGTT
12716546 TAGG
1 TAGG
12716550 CAATATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.40
Consensus pattern (7 bp):
TAGGGTT
Found at i:12717946 original size:160 final size:160
Alignment explanation
Indices: 12717497--12717960 Score: 401
Period size: 160 Copynumber: 2.9 Consensus size: 160
12717487 GCAAGTTGAA
* * * * * * *
12717497 AAAAAAGTTAGTAAAAAAATCTTACTTCGGCCATTTATTCTTATTTTTTTCTCCGCATTTTATTC
1 AAAAAATTTAGT-AATAACTCTTACTTCCGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
* *
12717562 CTTTAAAAAATATCATAATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAA
65 TTTTAAAAAATATCATAATTTGT-ATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAA
* * *
12717627 TTTATTAATTTAGTGTGTTATTTAAATTAATT
129 TTTATTAATTTAATGTATTATCTAAATTAATT
*** * * * * * * * **
12717659 ---TGGTGTAAGAAAATAACCCTTA-TCCCTGCCCTTTGCTCGTATTATTTTC-CCGGTTTTTAT
1 AAAAAAT-TTAG-TAATAACTCTTACTTCC-GCCATTTGTTCGTATTTTTTTCTCCGCATTTTAT
* * * * * **
12717719 TACTTTCAATAAAAATAT-ATTATTTTTGTATTTTATTATTTTATATTATTTCAGTACATTTTGT
63 TA-TTT-TA-AAAAATATCA-TA-ATTTGTATTTTATAATTTTACATTATTTCAGTGCATAATGT
*
12717783 TTGAAATATT-TT-GTATTAAT-TATT-TCTAAATT-ATT
123 TTGAAAT-TTATTAAT-TTAATGTATTATCTAAATTAATT
12717818 AAAAAATTTAGTAATACACTCTTACTTCCGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAATTTAGTAATA-ACTCTTACTTCCGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
* * *
12717883 TTTTAAAAAATATCATAAACTTAGTCTTTTGTAATTTTACATTATTTCAGTGCATAATGTTTGAA
65 TTTTAAAAAATATCAT-AA-TTTGTATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAA
12717948 ATTTATTAATTTA
128 ATTTATTAATTTA
12717961 GTGTGTTGAA
Statistics
Matches: 226, Mismatches: 55, Indels: 44
0.70 0.17 0.14
Matches are distributed among these distances:
159 26 0.12
160 88 0.39
161 38 0.17
162 68 0.30
163 6 0.03
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (160 bp):
AAAAAATTTAGTAATAACTCTTACTTCCGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTAT
TTTAAAAAATATCATAATTTGTATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
TATTAATTTAATGTATTATCTAAATTAATT
Found at i:12718063 original size:27 final size:27
Alignment explanation
Indices: 12718024--12718079 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
12718014 TTAGCCACAT
* *
12718024 ATTGGTGCTGCCTTTTTATTCCTCTCC
1 ATTGGTGCCGCCTTTTTATTCCCCTCC
12718051 ATTGGTGCCGCCTTTTTATTCCCCTCC
1 ATTGGTGCCGCCTTTTTATTCCCCTCC
12718078 AT
1 AT
12718080 CACCCTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.09, C:0.32, G:0.14, T:0.45
Consensus pattern (27 bp):
ATTGGTGCCGCCTTTTTATTCCCCTCC
Found at i:12718850 original size:18 final size:18
Alignment explanation
Indices: 12718829--12718883 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
12718819 CCTTCCCTCT
12718829 TCTTCCTCTTTTTTTTTC
1 TCTTCCTCTTTTTTTTTC
**
12718847 TCTT-CTCCTTTCCTTTTC
1 TCTTCCT-CTTTTTTTTTC
*
12718865 T-TTCCTTCTTTTTCTTTC
1 TCTTCC-TCTTTTTTTTTC
12718883 T
1 T
12718884 TTTTTCTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 4 0.14
18 24 0.83
19 1 0.03
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
TCTTCCTCTTTTTTTTTC
Found at i:12718873 original size:42 final size:41
Alignment explanation
Indices: 12718835--12718992 Score: 163
Period size: 42 Copynumber: 4.0 Consensus size: 41
12718825 CTCTTCTTCC
*
12718835 TCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTT
1 TCTTTTTTTTTCTCTTCTCATTTCC-TTTCTTTCCTTCTTTT
*
12718877 TCTTTCTTTTT-TCTTCTCATTTCC--TC-TT-CTTCTTCTT
1 TCTTTTTTTTTCTCTTCTCATTTCCTTTCTTTCCTTCTT-TT
* *
12718914 TCTTTTTTTTCCCCCTTCTCATTTCCTTTCTTTCCTTCTTTT
1 TCTTTTTTTT-TCTCTTCTCATTTCCTTTCTTTCCTTCTTTT
* *
12718956 TCTTTCTTTCTT-TCTT-TC-TTT-CTTTCTTTCTTTCTTT
1 TCTTT-TTTTTTCTCTTCTCATTTCCTTTCTTTCCTTCTTT
12718993 CTTTCTTTCT
Statistics
Matches: 99, Mismatches: 9, Indels: 20
0.77 0.07 0.16
Matches are distributed among these distances:
36 6 0.06
37 13 0.13
38 17 0.17
39 15 0.15
40 2 0.02
41 17 0.17
42 19 0.19
43 10 0.10
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (41 bp):
TCTTTTTTTTTCTCTTCTCATTTCCTTTCTTTCCTTCTTTT
Found at i:12718882 original size:4 final size:4
Alignment explanation
Indices: 12718861--12719009 Score: 123
Period size: 4 Copynumber: 37.0 Consensus size: 4
12718851 CTCCTTTCCT
*
12718861 TTTC TTTC CTTC -TT- TTTC TTTC TTT- TTTC TTCTC ATTTCC TCTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTT-C T-TTC
* *** *
12718906 -TTC -TTC TTTC TTTTT TTTC CCCC TTCTC ATTTCC TTTC TTTC CTTC
1 TTTC TTTC TTTC -TTTC TTTC TTTC TT-TC -TTT-C TTTC TTTC TTTC
12718952 -TT- TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
12718998 TTTC TTTC TTTC
1 TTTC TTTC TTTC
12719010 CCTCTCCTTC
Statistics
Matches: 121, Mismatches: 10, Indels: 28
0.76 0.06 0.18
Matches are distributed among these distances:
3 17 0.14
4 83 0.69
5 13 0.11
6 8 0.07
ACGTcount: A:0.01, C:0.29, G:0.00, T:0.70
Consensus pattern (4 bp):
TTTC
Found at i:12718920 original size:75 final size:74
Alignment explanation
Indices: 12718797--12718996 Score: 212
Period size: 79 Copynumber: 2.6 Consensus size: 74
12718787 TAAAAATTAC
* * * * * *
12718797 CTTTTTTTTTCTTTTTTTCCTTC-CTTCCCTCTTCTTCCTCTTT-TTTTTTCTCTTCTCCTTTCC
1 CTTTTTCTTTC-TTTTTT-CTTCTCTTTCCTCTTCTTCTTCTTTCTTTTTCCCCTTCTCATTTCC
12718860 TTTTCTTTCCTT
64 -TTTCTTTCCTT
12718872 CTTTTTCTTTCTTTTTTCTTCTCATTTCCTCTTCTTCTTCTTTCTTTTTTTTCCCCCTTCTCATT
1 CTTTTTCTTTCTTTTTTCTTCTC-TTTCCTCTTCTTCTTCTTTC---TTTTT-CCCCTTCTCATT
12718937 TCCTTTCTTTCCTT
61 TCCTTTCTTTCCTT
12718951 CTTTTTCTTTCTTTCTTTCTT-TCTTT-CT-TTCTTTCTTTCTTTCTTT
1 CTTTTTCTTTCTTT-TTTCTTCTCTTTCCTCTTC-TTC-TTCTTTCTTT
12718997 CTTTCTTTCT
Statistics
Matches: 109, Mismatches: 6, Indels: 20
0.81 0.04 0.15
Matches are distributed among these distances:
73 4 0.04
74 7 0.06
75 30 0.28
76 3 0.03
77 5 0.05
78 10 0.09
79 32 0.29
80 18 0.17
ACGTcount: A:0.01, C:0.30, G:0.00, T:0.69
Consensus pattern (74 bp):
CTTTTTCTTTCTTTTTTCTTCTCTTTCCTCTTCTTCTTCTTTCTTTTTCCCCTTCTCATTTCCTT
TCTTTCCTT
Found at i:12718923 original size:46 final size:46
Alignment explanation
Indices: 12718835--12718924 Score: 114
Period size: 46 Copynumber: 2.0 Consensus size: 46
12718825 CTCTTCTTCC
*
12718835 TCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTT
1 TCTTTTTTCTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTT
*
12718881 TCTTTTTTCTTCTCATT-TCCTCTT-CTTCTTCTTT-CTTTTTTTTC
1 TCTTTTTTCTTCTC-TTCTCCT-TTCCTT-TTCTTTCCTTCTTTTTC
12718925 CCCCTTCTCA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
46 29 0.74
47 10 0.26
ACGTcount: A:0.01, C:0.28, G:0.00, T:0.71
Consensus pattern (46 bp):
TCTTTTTTCTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTT
Found at i:12718932 original size:39 final size:37
Alignment explanation
Indices: 12718848--12718961 Score: 113
Period size: 41 Copynumber: 2.9 Consensus size: 37
12718838 TTTTTTTTCT
* ***
12718848 CTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTT
1 CTTCTCATTTCC-TTTCTTTCCTTCTTTTTCTTTC---CCC
*
12718889 CTTCTCATTTCCTCTTCTTCTTCTTTCTTTTT-TTTCCCC
1 CTTCTCATTTCCT-TTC-T-TTCCTTCTTTTTCTTTCCCC
12718928 CTTCTCATTTCCTTTCTTTCCTTCTTTTTCTTTC
1 CTTCTCATTTCCTTTCTTTCCTTCTTTTTCTTTC
12718962 TTTCTTTCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
36 11 0.17
37 5 0.08
38 3 0.05
39 13 0.21
40 1 0.02
41 14 0.22
42 5 0.08
43 11 0.17
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (37 bp):
CTTCTCATTTCCTTTCTTTCCTTCTTTTTCTTTCCCC
Found at i:12719091 original size:27 final size:27
Alignment explanation
Indices: 12719053--12719131 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
12719043 TATTATAACA
**
12719053 TTGGTGCCGCCAATGTCTTTGGCACCT
1 TTGGTGCCGCCAATCACTTTGGCACCT
*
12719080 TTGGTGCAGCCAATCACTTTGGCACCT
1 TTGGTGCCGCCAATCACTTTGGCACCT
* *
12719107 TTAGTGCCGCCAATCACCTTGGCAC
1 TTGGTGCCGCCAATCACTTTGGCAC
12719132 GACTAGGGTG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.16, C:0.32, G:0.23, T:0.29
Consensus pattern (27 bp):
TTGGTGCCGCCAATCACTTTGGCACCT
Found at i:12719215 original size:23 final size:26
Alignment explanation
Indices: 12719189--12719247 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
12719179 TTTTTTCGGT
12719189 ATATTTTGGT-AA-AAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAGTTATA
12719212 ATATTTTGGTAAATAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAGTTATA
12719238 ATATTTTGGT
1 ATATTTTGGT
12719248 TATTTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
23 10 0.30
24 2 0.06
25 6 0.18
26 15 0.45
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (26 bp):
ATATTTTGGTAAATAAAAAAGTTATA
Found at i:12721789 original size:23 final size:24
Alignment explanation
Indices: 12721737--12721789 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
12721727 CCATTAAACA
*
12721737 GGAAGTTCCAGATAGCCATGTATCG
1 GGAAGTTCCAGAGAGCCA-GTATCG
* *
12721762 AGAAGTTCCAGCGAGCCA-TATCG
1 GGAAGTTCCAGAGAGCCAGTATCG
12721785 GGAAG
1 GGAAG
12721790 CTCTGGAGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
23 9 0.38
25 15 0.62
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (24 bp):
GGAAGTTCCAGAGAGCCAGTATCG
Found at i:12721832 original size:26 final size:26
Alignment explanation
Indices: 12721796--12721855 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
12721786 GAAGCTCTGG
12721796 AGAGCCATTAATCAGG-AAGCTCACAA
1 AGAGCCATTAATC-GGAAAGCTCACAA
* *
12721822 AGAGCCTTTAATCGGAAAGCTCACGA
1 AGAGCCATTAATCGGAAAGCTCACAA
12721848 AGAGCCAT
1 AGAGCCAT
12721856 ATATCGGGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
AGAGCCATTAATCGGAAAGCTCACAA
Found at i:12721861 original size:26 final size:26
Alignment explanation
Indices: 12721796--12721862 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 26
12721786 GAAGCTCTGG
*
12721796 AGAGCCAT-TAATCAGGAAGCTCACAA
1 AGAGCCATATAATC-GGAAGCTCACGA
*
12721822 AGAGCC-TTTAATCGGAAAGCTCACGA
1 AGAGCCATATAATCGG-AAGCTCACGA
12721848 AGAGCCATAT-ATCGG
1 AGAGCCATATAATCGG
12721863 GACACTCATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 3 0.08
26 31 0.86
27 2 0.06
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
AGAGCCATATAATCGGAAGCTCACGA
Found at i:12722889 original size:13 final size:13
Alignment explanation
Indices: 12722873--12722900 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12722863 TTTTATTTTA
12722873 TTATTTTTCATCT
1 TTATTTTTCATCT
12722886 TTATTTTTCATCT
1 TTATTTTTCATCT
12722899 TT
1 TT
12722901 CCAATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTTTCATCT
Found at i:12723530 original size:33 final size:33
Alignment explanation
Indices: 12723505--12723599 Score: 147
Period size: 33 Copynumber: 2.9 Consensus size: 33
12723495 TCCACCTCAG
*
12723505 TACTCCACTCCTTCCGGCCAATATCCACCGCCA
1 TACTCCACTCCTTCCGGCCCATATCCACCGCCA
* *
12723538 TACTCCACTCCTCCCGGCCCGTATCCACCGCCA
1 TACTCCACTCCTTCCGGCCCATATCCACCGCCA
12723571 TACTCCACT-CTTCTCGGCCCATATCCACC
1 TACTCCACTCCTTC-CGGCCCATATCCACC
12723600 ACTGTACTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
32 3 0.05
33 53 0.95
ACGTcount: A:0.18, C:0.51, G:0.09, T:0.22
Consensus pattern (33 bp):
TACTCCACTCCTTCCGGCCCATATCCACCGCCA
Found at i:12723917 original size:78 final size:76
Alignment explanation
Indices: 12723816--12724045 Score: 313
Period size: 76 Copynumber: 3.0 Consensus size: 76
12723806 AACTTCATAC
* * *
12723816 TTATATAATGACTTTTTTTCCATTTGAGTTCTTAATTTTATGGGTTTTTTTTTGCAATTTAAATA
1 TTATGTAATGAC-TTTTTTCCATTTCAGTTATTAATTTTATGGG-TTTTTTTTGCAATTTAAATA
12723881 GTCAACTTTGTAT
64 GTCAACTTTGTAT
* *
12723894 TTGTGTAATGACTTTTTTGCCATTTTAGTTATTAATTTTATGGGTTTTTTTT-CAATTTAAATAG
1 TTATGTAATGACTTTTTT-CCATTTCAGTTATTAATTTTATGGGTTTTTTTTGCAATTTAAATAG
12723958 TCAACTTTGTAT
65 TCAACTTTGTAT
* * * *
12723970 TTATGTAATGAATTTTTCTCTATTTCAGTTATTAATTTTA--GGATTTTTTTGCAATTTAAATAA
1 TTATGTAATGACTTTTT-TCCATTTCAGTTATTAATTTTATGGGTTTTTTTTGCAATTTAAATAG
*
12724033 TAAACTTTGTAT
65 TCAACTTTGTAT
12724045 T
1 T
12724046 ATTTACGTAA
Statistics
Matches: 138, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
74 9 0.07
75 23 0.17
76 58 0.42
77 15 0.11
78 33 0.24
ACGTcount: A:0.26, C:0.08, G:0.11, T:0.55
Consensus pattern (76 bp):
TTATGTAATGACTTTTTTCCATTTCAGTTATTAATTTTATGGGTTTTTTTTGCAATTTAAATAGT
CAACTTTGTAT
Found at i:12726432 original size:42 final size:42
Alignment explanation
Indices: 12726377--12726571 Score: 209
Period size: 43 Copynumber: 4.6 Consensus size: 42
12726367 AGATTCCCCT
* * *
12726377 AGGGGTTTCTAAGTGCTGATTCCCCGAATTATTGATTCT-AA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTGAA
*
12726418 AGGTGGTTGCTAAGTGCTGATTCCACCTTA-TATTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTATTA-TTGATTGTGAA
* * * * *
12726462 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATAT-AA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTGAA
*
12726503 AGGTGGTGGCTAAGTGCTGATTCCACCGTATCT-TTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCC-CCGTAT-TATTGATTGTGAA
*
12726547 AGGGGTTGCTATGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
12726572 ATATCACTAA
Statistics
Matches: 127, Mismatches: 18, Indels: 17
0.78 0.11 0.10
Matches are distributed among these distances:
41 8 0.06
42 50 0.39
43 59 0.46
44 10 0.08
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (42 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGATTGTGAA
Found at i:12726520 original size:85 final size:84
Alignment explanation
Indices: 12726377--12726613 Score: 330
Period size: 85 Copynumber: 2.8 Consensus size: 84
12726367 AGATTCCCCT
* * * * * *
12726377 AGGGGTTTCTAAGTGCTGATTCCCCGAATTATTGATTCTAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
*
12726442 ACCTTATATTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
*
12726462 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTGGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TAAAGGTGGTTGCTAAGTGCTGATTCC
*
12726527 ACCGTATCTTTGATTGTGAA
65 ACCGTATATTTGATTGTGAA
* * * * *
12726547 AGGGGTTGCTATGTGCTGATTCCCCATATCACTAAATTTAAGGTGGTTGCTAAGTGTTGAATCCA
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
12726612 CC
66 CC
12726614 AAGTAACGGA
Statistics
Matches: 136, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
84 26 0.19
85 110 0.81
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (84 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATTCCA
CCGTATATTTGATTGTGAA
Found at i:12729617 original size:27 final size:27
Alignment explanation
Indices: 12729579--12729634 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
12729569 TGGTGCCGCT
*
12729579 TATCAGGTAGGAGTCACCAGTGGCGCC
1 TATCAGGTAGGAGTCACCAGTGGCACC
*
12729606 TATCAGGTAGGAGTCACTAGTGGCACC
1 TATCAGGTAGGAGTCACCAGTGGCACC
12729633 TA
1 TA
12729635 CCACACAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.21
Consensus pattern (27 bp):
TATCAGGTAGGAGTCACCAGTGGCACC
Found at i:12730182 original size:15 final size:13
Alignment explanation
Indices: 12730164--12730206 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 13
12730154 ATAATAAGTG
12730164 AAAAACAATATATTC
1 AAAAA-AAT-TATTC
12730179 AAAAAAATTATGTC
1 AAAAAAATTAT-TC
12730193 AAAAAAAATTATTC
1 -AAAAAAATTATTC
12730207 TAAAGGACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.12
14 7 0.27
15 16 0.62
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.28
Consensus pattern (13 bp):
AAAAAAATTATTC
Found at i:12736706 original size:11 final size:12
Alignment explanation
Indices: 12736690--12736718 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
12736680 AGACACCGAT
12736690 CTTCCCTTT-CC
1 CTTCCCTTTCCC
12736701 CTTCCCTTTCCC
1 CTTCCCTTTCCC
12736713 CTTCCC
1 CTTCCC
12736719 CTATCCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (12 bp):
CTTCCCTTTCCC
Found at i:12739539 original size:3 final size:3
Alignment explanation
Indices: 12739531--12739558 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12739521 ATAGCTTCTC
12739531 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
12739559 CATTTGCAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:12746070 original size:20 final size:19
Alignment explanation
Indices: 12746026--12746072 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
12746016 CTGAAAAGAA
12746026 AGGAAGAAGAAAAAGATAG
1 AGGAAGAAGAAAAAGATAG
* *
12746045 AAGAAG-AGAGAAAAGAATTG
1 AGGAAGAAGA-AAAAG-ATAG
12746065 AGGAAGAA
1 AGGAAGAA
12746073 AAGAGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 3 0.14
19 10 0.45
20 8 0.36
21 1 0.05
ACGTcount: A:0.62, C:0.00, G:0.32, T:0.06
Consensus pattern (19 bp):
AGGAAGAAGAAAAAGATAG
Found at i:12752324 original size:29 final size:29
Alignment explanation
Indices: 12752260--12752324 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
12752250 AATTTCAATC
*
12752260 CAAAA-ATTCAATTTAATCATTCATTAATA
1 CAAAACATTCAA-TTAATCATACATTAATA
*
12752289 GATAAACATTCAA-TAATCATACTATTAATA
1 CA-AAACATTCAATTAATCATAC-ATTAATA
12752319 CAAAAC
1 CAAAAC
12752325 GAGACTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
29 13 0.43
30 11 0.37
31 6 0.20
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (29 bp):
CAAAACATTCAATTAATCATACATTAATA
Found at i:12754782 original size:20 final size:20
Alignment explanation
Indices: 12754741--12754797 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
12754731 AACACACCAA
* *
12754741 AGAG-CATCGAAATGCTAAC
1 AGAGACATCGAAGTGCAAAC
*
12754760 AGAGGCA-CTGAAGTGCAAAC
1 AGAGACATC-GAAGTGCAAAC
12754780 AGAGACATCGAAGTGCAA
1 AGAGACATCGAAGTGCAA
12754798 TCCTGTACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 5 0.16
20 26 0.81
21 1 0.03
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.12
Consensus pattern (20 bp):
AGAGACATCGAAGTGCAAAC
Found at i:12757774 original size:14 final size:14
Alignment explanation
Indices: 12757748--12757777 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
12757738 GTATTCAACC
12757748 AAGGGAAGAAAAAT
1 AAGGGAAGAAAAAT
12757762 AAGGAGAAGAAAAAT
1 AAGG-GAAGAAAAAT
12757777 A
1 A
12757778 TTTCTTCACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.07
Consensus pattern (14 bp):
AAGGGAAGAAAAAT
Found at i:12763474 original size:24 final size:24
Alignment explanation
Indices: 12763447--12763509 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
12763437 GATATCTATT
12763447 ATATTATGATCTGGTCCCGGTGTA
1 ATATTATGATCTGGTCCCGGTGTA
12763471 ATATTATGATCTGGTCCCGGTGTA
1 ATATTATGATCTGGTCCCGGTGTA
12763495 ATATTATGATCTGGT
1 ATATTATGATCTGGT
12763510 ATGAGTTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (24 bp):
ATATTATGATCTGGTCCCGGTGTA
Found at i:12768047 original size:18 final size:18
Alignment explanation
Indices: 12768020--12768061 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
12768010 TTAGTTTCTT
*
12768020 TTGTGCATGATTGCTTTC
1 TTGTGAATGATTGCTTTC
*
12768038 TTGTGAATGATTGTTTTC
1 TTGTGAATGATTGCTTTC
12768056 TTGTGA
1 TTGTGA
12768062 TTTTTAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.10, G:0.24, T:0.52
Consensus pattern (18 bp):
TTGTGAATGATTGCTTTC
Found at i:12773194 original size:24 final size:24
Alignment explanation
Indices: 12773152--12773203 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
12773142 AATCAAATTC
** *
12773152 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
12773176 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
12773200 AAAT
1 AAAT
12773204 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:12777557 original size:24 final size:24
Alignment explanation
Indices: 12777542--12777593 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12777532 AATCAAAGTC
12777542 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
12777566 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
12777590 AAAT
1 AAAT
12777594 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:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:12785094 original size:30 final size:30
Alignment explanation
Indices: 12785054--12785110 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
12785044 TGAAGAGCCA
12785054 TCAAGATTGAGCATAGAGAGTAAACAACCT
1 TCAAGATTGAGCATAGAGAGTAAACAACCT
*
12785084 TCAAGGTTGAGCATAGAGAGTAAACAA
1 TCAAGATTGAGCATAGAGAGTAAACAA
12785111 AAGGTGGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.19
Consensus pattern (30 bp):
TCAAGATTGAGCATAGAGAGTAAACAACCT
Found at i:12791487 original size:7 final size:7
Alignment explanation
Indices: 12791475--12791506 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
12791465 TAAGAGATAA
12791475 AATTTTT
1 AATTTTT
12791482 AATTTTT
1 AATTTTT
12791489 AATTTTT
1 AATTTTT
12791496 AATTTTT
1 AATTTTT
12791503 AATT
1 AATT
12791507 AGAAAATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
AATTTTT
Found at i:12797127 original size:15 final size:15
Alignment explanation
Indices: 12797097--12797134 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
12797087 GACTCTATTT
*
12797097 TAATTA-TATTAGGA
1 TAATTATTATTAAGA
12797111 TAATTATTATTAAGA
1 TAATTATTATTAAGA
12797126 TAATTATTA
1 TAATTATTA
12797135 AGGATTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (15 bp):
TAATTATTATTAAGA
Found at i:12803537 original size:12 final size:12
Alignment explanation
Indices: 12803520--12803566 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
12803510 TTATTTTTTT
12803520 TTACTTTATTTA
1 TTACTTTATTTA
12803532 TTACTTTATTTTA
1 TTACTTTA-TTTA
*
12803545 TT-TTATTATTTA
1 TTACT-TTATTTA
12803557 TTAC-TTATTT
1 TTACTTTATTT
12803567 GGATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 6 0.20
12 15 0.50
13 9 0.30
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:12803544 original size:17 final size:17
Alignment explanation
Indices: 12803508--12803558 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
12803498 GCAACCCAAT
12803508 TTTTATTTT-TT-TTTA
1 TTTTATTTTATTATTTA
*
12803523 CTTTA-TTTATTACTTTA
1 TTTTATTTTATTA-TTTA
12803540 TTTTATTTTATTATTTA
1 TTTTATTTTATTATTTA
12803557 TT
1 TT
12803559 ACTTATTTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
14 3 0.10
15 6 0.20
17 14 0.47
18 7 0.23
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTTATTATTTA
Found at i:12803553 original size:25 final size:26
Alignment explanation
Indices: 12803509--12803566 Score: 84
Period size: 27 Copynumber: 2.3 Consensus size: 26
12803499 CAACCCAATT
*
12803509 TTTATTTTTTTTTACTTTATTTATTAC
1 TTTATTTTATTTTAC-TTATTTATTAC
12803536 TTTATTTTATTTTA-TTATTTATTAC
1 TTTATTTTATTTTACTTATTTATTAC
12803561 -TTATTT
1 TTTATTT
12803567 GGATATTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 6 0.20
25 11 0.37
27 13 0.43
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (26 bp):
TTTATTTTATTTTACTTATTTATTAC
Found at i:12803760 original size:22 final size:22
Alignment explanation
Indices: 12803713--12803776 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
12803703 ACCCAGAATG
* *
12803713 CCTGCAGCCAAACTACCCTATT
1 CCTGCAGCCAAACCACCCTATC
*
12803735 CCTGCAG-CTAACCACCCTTATC
1 CCTGCAGCCAAACCACCC-TATC
*
12803757 CCTGCACCCAAGCACCACCC
1 CCTGCAGCCAA--ACCACCC
12803777 CTCAGCACAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
21 8 0.24
22 16 0.48
23 2 0.06
25 7 0.21
ACGTcount: A:0.25, C:0.48, G:0.09, T:0.17
Consensus pattern (22 bp):
CCTGCAGCCAAACCACCCTATC
Found at i:12805480 original size:15 final size:15
Alignment explanation
Indices: 12805455--12805489 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
12805445 GACTCTATTT
*
12805455 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
12805469 TAATTAATATTAAGA
1 TAATTAATATTAAGA
12805484 TAATTA
1 TAATTA
12805490 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:12806843 original size:37 final size:37
Alignment explanation
Indices: 12806793--12806866 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
12806783 AGAACTAAGC
12806793 ATATTGAGATTATACATCATTTCATTAGAGATAATGT
1 ATATTGAGATTATACATCATTTCATTAGAGATAATGT
12806830 ATATTGAGATTATACATCATTTCATTAGAGATAATGT
1 ATATTGAGATTATACATCATTTCATTAGAGATAATGT
12806867 CCAAAAAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.41
Consensus pattern (37 bp):
ATATTGAGATTATACATCATTTCATTAGAGATAATGT
Found at i:12809401 original size:20 final size:20
Alignment explanation
Indices: 12809363--12809400 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12809353 CCTTAAAGTA
12809363 AAAATGAATGTCAAATTTTG
1 AAAATGAATGTCAAATTTTG
*
12809383 AAAATGTATGTC-AATTTT
1 AAAATGAATGTCAAATTTT
12809401 TATTTTGGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.39
Consensus pattern (20 bp):
AAAATGAATGTCAAATTTTG
Found at i:12810333 original size:41 final size:40
Alignment explanation
Indices: 12810288--12810380 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
12810278 AAATAGATTT
12810288 TTAGCGGCG-TTTGGACAAAAAATGCCACTAAAAATCT-AGCA
1 TTAGCGGCGCTTT--ACAAAAAATGCCACTAAAAAT-TGAGCA
* ** *
12810329 TTAGCGGTGCTTTACGTAAAATGCCGCTAAAAATTGAGCA
1 TTAGCGGCGCTTTACAAAAAATGCCACTAAAAATTGAGCA
12810369 TTAGCGGCGCTT
1 TTAGCGGCGCTT
12810381 CTAGGAAAGC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 1 0.02
40 33 0.73
41 8 0.18
42 3 0.07
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (40 bp):
TTAGCGGCGCTTTACAAAAAATGCCACTAAAAATTGAGCA
Found at i:12810530 original size:41 final size:41
Alignment explanation
Indices: 12810473--12810593 Score: 161
Period size: 41 Copynumber: 3.0 Consensus size: 41
12810463 TTCTGACATT
* * *
12810473 TCGGGGCTTTAGCGGCGTTTCTGAAAAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
* *
12810514 TCGGGTCTTTAGCGGCGTTTTTAAAAAAGCACCGCTAATGT
1 TCGGGTCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
* * * *
12810555 TCGTGTCTTTAACGGCATTTTTAAAAAAGCGTCGCTAAT
1 TCGGGTCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAAT
12810594 CCAGAATTGA
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGC
Found at i:12813668 original size:23 final size:23
Alignment explanation
Indices: 12813633--12813690 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
12813623 TTTATCGCTG
**
12813633 TAATTGAGGTGTATAAACGTTGT
1 TAATTGATATGTATAAACGTTGT
*
12813656 TAATTGATATGTATAAATGTTGT
1 TAATTGATATGTATAAACGTTGT
12813679 TAATTGATATGT
1 TAATTGATATGT
12813691 TTAAGTGCTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.45
Consensus pattern (23 bp):
TAATTGATATGTATAAACGTTGT
Found at i:12813706 original size:23 final size:23
Alignment explanation
Indices: 12813680--12813882 Score: 184
Period size: 23 Copynumber: 8.9 Consensus size: 23
12813670 AAATGTTGTT
*
12813680 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGTA
*
12813703 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGTA
*
12813726 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGTA
*
12813749 AATTGAAGTGTTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGTA
*
12813772 AATTG-AGATGTTTTA-TCGCTGT-
1 AATTGAAG-TGTTTAAGT-GCTGTA
* * * * *
12813794 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGTA
* *
12813817 AATTGATA-TGTTAAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGTA
* *
12813840 AATTGAAGTGTTTAAATGCTTTA
1 AATTGAAGTGTTTAAGTGCTGTA
*
12813863 AATTGAAGTGTTAAAGTGCT
1 AATTGAAGTGTTTAAGTGCT
12813883 AATTTCCATT
Statistics
Matches: 147, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
22 21 0.14
23 125 0.85
24 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.39
Consensus pattern (23 bp):
AATTGAAGTGTTTAAGTGCTGTA
Found at i:12813708 original size:46 final size:46
Alignment explanation
Indices: 12813657--12813882 Score: 228
Period size: 46 Copynumber: 4.9 Consensus size: 46
12813647 AAACGTTGTT
* *
12813657 AATTGATA-TGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCA
1 AATTGA-AGTGTATAAATGCTGTAAATTGATATGTTTAAGTGCTGCA
*
12813703 AATTGAAGTGTTTAAATGCTGTAAATTGA-AGTGTTTAAGTGCTGCA
1 AATTGAAGTGTATAAATGCTGTAAATTGATA-TGTTTAAGTGCTGCA
* ** * * * *
12813749 AATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTTA-TCGCTG-T
1 AATTGAAGTGTATAAATGCTGTAAATTGATATGTTTAAGT-GCTGCA
* * * *
12813794 AATTGAGGTGTATAAATGTTGTTAATTGATATGTTAAAGTGCTGCA
1 AATTGAAGTGTATAAATGCTGTAAATTGATATGTTTAAGTGCTGCA
* * *
12813840 AATTGAAGTGTTTAAATGCTTTAAATTGA-AGTGTTAAAGTGCT
1 AATTGAAGTGTATAAATGCTGTAAATTGATA-TGTTTAAGTGCT
12813883 AATTTCCATT
Statistics
Matches: 149, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
45 36 0.24
46 112 0.75
47 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.40
Consensus pattern (46 bp):
AATTGAAGTGTATAAATGCTGTAAATTGATATGTTTAAGTGCTGCA
Found at i:12813866 original size:91 final size:91
Alignment explanation
Indices: 12813703--12813868 Score: 235
Period size: 91 Copynumber: 1.8 Consensus size: 91
12813693 AAGTGCTGCA
* * **
12813703 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGC
1 AATTGAAGTGTATAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGC
12813768 TGGAAATTGAGATGTTTTATCGCTGT
66 TGGAAATTGAGATGTTTTATCGCTGT
* * *
12813794 AATTGAGGTGTATAAATGTTGTTAATTGATA-TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG
1 AATTGAAGTGTATAAATGCTGTAAATTGA-AGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATG
**
12813858 CTTTAAATTGA
65 CTGGAAATTGA
12813869 AGTGTTAAAG
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
91 64 0.98
92 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.40
Consensus pattern (91 bp):
AATTGAAGTGTATAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGC
TGGAAATTGAGATGTTTTATCGCTGT
Found at i:12814852 original size:43 final size:43
Alignment explanation
Indices: 12814800--12815029 Score: 334
Period size: 43 Copynumber: 5.3 Consensus size: 43
12814790 GTTTTTGGAG
* * * *
12814800 AAAGTGCCGCTAAAGGTTTTGTTCTTTAGCAGCGTTTGTGGTA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTA
12814843 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTA
* * *
12814886 AAAGCGCCGCTAAAGGTCATGGTTTTTAGCGGCGTTTGTGATA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTA
* * *
12814929 AAAGCGTCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTA
* * * *
12814972 AAAGCGCCACTAAAGGTCCTGGTCTTTAGCGACGTTTGTGGGA
1 AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTA
12815015 AAAGCGCCGCTAAAG
1 AAAGCGCCGCTAAAG
12815030 TTAGCGACGC
Statistics
Matches: 171, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 171 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGTA
Found at i:12816799 original size:122 final size:123
Alignment explanation
Indices: 12816582--12816859 Score: 479
Period size: 122 Copynumber: 2.3 Consensus size: 123
12816572 TTATTTCGAG
* *
12816582 TTGACGTTTCT-AGTCAAATATTATAAAGTCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
12816646 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAAT-TTTTTT
65 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATATTTTTT
12816704 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
12816769 AAATCGTGCCCTCGTTGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
66 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAAT-ATTTTTT
*
12816828 TTTACGTTTCTGAGCAAATAGTATAAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
12816860 ACCCTCGTGG
Statistics
Matches: 148, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
122 109 0.74
123 2 0.01
124 37 0.25
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (123 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGTGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATATTTTTT
Found at i:12824536 original size:53 final size:52
Alignment explanation
Indices: 12824457--12824562 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 52
12824447 GTTCAGATGA
*
12824457 TGAAGAAATCCACGATTTAGAGCATACTCACCTCCAGCCCACATGCATAATG
1 TGAAGAAATCCACGATTCAGAGCATACTCACCTCCAGCCCACATGCATAATG
*
12824509 TGAAGAAAATCCACGATTCAGAGCATACTCACCTCTAGCCCACATGCATAATG
1 TGAAG-AAATCCACGATTCAGAGCATACTCACCTCCAGCCCACATGCATAATG
12824562 T
1 T
12824563 CGATCTGTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 5 0.10
53 46 0.90
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (52 bp):
TGAAGAAATCCACGATTCAGAGCATACTCACCTCCAGCCCACATGCATAATG
Found at i:12826828 original size:30 final size:29
Alignment explanation
Indices: 12826792--12827139 Score: 507
Period size: 30 Copynumber: 11.8 Consensus size: 29
12826782 TTGTTAATGG
12826792 TTAGGGTTTTTAATTAAATTAGGTTAGGAT
1 TTAGGGTTTTTAATTAAATTAGGTTAGG-T
12826822 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTA-GGT
* * * * *
12826852 TTACGATTTTTAATTAAATCAAGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGT
12826881 TTAGGGTTTTTAATTAAATTAGGTTAGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGT
*
12826910 TTAGGGTTTTTAATTAAATTAGGTTTGGGT
1 TTAGGGTTTTTAATTAAATTAGG-TTAGGT
* *
12826940 TTAGGGGTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGT
12826969 TTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTA-GGT
*
12826999 TTATGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTA-GGT
* *
12827029 TTAGGGTTTTTTATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGT
* *
12827058 TTAGAGTTTTTAATTAAATTAGGTGAGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGT
* *
12827087 TTACGATTTTTAATTAAATTAGGTTAGTGT
1 TTAGGGTTTTTAATTAAATTAGGTTAG-GT
12827117 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGG
12827140 ATTTTTAGTA
Statistics
Matches: 284, Mismatches: 30, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
29 128 0.45
30 154 0.54
31 2 0.01
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.47
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGT
Found at i:12826899 original size:59 final size:59
Alignment explanation
Indices: 12826792--12827139 Score: 513
Period size: 59 Copynumber: 5.9 Consensus size: 59
12826782 TTGTTAATGG
*
12826792 TTAGGGTTTTTAATTAAATTAGGTTAGGATTTAGGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGG-GTTAGGGTTTTTAATTAAATTAGGTTAGGGT
* * * *
12826852 TTACGATTTTTAATTAAATCAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTA-GGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
* *
12826910 TTAGGGTTTTTAATTAAATTAGGTTTGGGTTTAGGGGTTTTAATTAAATTAGGTTAGGG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGT
*
12826969 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTATGGTTTTTAATTAAATTAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGT
* * *
12827029 TTAGGGTTTTTTATTAAATTAGGTTAGGGTTAGAGTTTTTAATTAAATTAGGTGA-GGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
* * *
12827087 TTACGATTTTTAATTAAATTAGGTTAGTGTTTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAG-GGTTAGGGTTTTTAATTAAATTAGG
12827140 ATTTTTAGTA
Statistics
Matches: 261, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
58 54 0.21
59 153 0.59
60 54 0.21
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.47
Consensus pattern (59 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGT
Found at i:12829092 original size:25 final size:25
Alignment explanation
Indices: 12829042--12829097 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
12829032 CTTTTATAAC
*
12829042 AAATAATAAATTAATAATTATCTAA
1 AAATAATAAATTAATAAATATCTAA
*
12829067 AAATACATAAA-TAA-AAATATCT-T
1 AAATA-ATAAATTAATAAATATCTAA
12829090 AAATAATA
1 AAATAATA
12829098 TTTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 3 0.11
23 5 0.18
24 7 0.25
25 8 0.29
26 5 0.18
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAATAAATTAATAAATATCTAA
Found at i:12829237 original size:30 final size:31
Alignment explanation
Indices: 12829188--12829253 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 31
12829178 GCCATTGATG
*
12829188 AAAATATAAAAAAATTTAAAATTATTTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
12829219 AAAATATAAAAAAA-TTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTTAAA
12829249 AAAAT
1 AAAAT
12829254 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 20 0.59
31 14 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (31 bp):
AAAATATAAAAAAATTTAAAATTATTTTAAA
Found at i:12829322 original size:30 final size:30
Alignment explanation
Indices: 12829286--12829344 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
12829276 TTAATATGGA
* *
12829286 TTTGAGAGATTTTTGGAAGGAAATTGAGAG
1 TTTGAGAAAATTTTGGAAGGAAATTGAGAG
12829316 TTTGAGAAAATTTTGGAAGGAAATTGAGA
1 TTTGAGAAAATTTTGGAAGGAAATTGAGA
12829345 TAGGATTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.31, T:0.32
Consensus pattern (30 bp):
TTTGAGAAAATTTTGGAAGGAAATTGAGAG
Found at i:12830106 original size:22 final size:21
Alignment explanation
Indices: 12830064--12830106 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
12830054 TTAATTAAAT
*
12830064 AAATTATTTATAAAAATAAAA
1 AAATTATTTATAAAAACAAAA
12830085 AAATATATTT-TAGAAAACAAAA
1 AAAT-TATTTATA-AAAACAAAA
12830107 GAAAATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
AAATTATTTATAAAAACAAAA
Found at i:12834715 original size:30 final size:31
Alignment explanation
Indices: 12834670--12834729 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
12834660 GGAGGTGGGA
*
12834670 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
12834701 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
12834730 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:12834957 original size:9 final size:9
Alignment explanation
Indices: 12834943--12834970 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
12834933 TATAGTTTGA
12834943 TATTCGAAT
1 TATTCGAAT
12834952 TATTCGAAT
1 TATTCGAAT
12834961 TATTCGAAT
1 TATTCGAAT
12834970 T
1 T
12834971 CGAAAACTCA
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:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12835041 original size:9 final size:9
Alignment explanation
Indices: 12835024--12835065 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
12835014 TTGAGTCAAT
*
12835024 TCGAATAAC
1 TCGATTAAC
12835033 TCGATTAAC
1 TCGATTAAC
12835042 TCGATTAAC
1 TCGATTAAC
**
12835051 TCGAACAAC
1 TCGATTAAC
12835060 TCGATT
1 TCGATT
12835066 CGTTTAACTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.29
Consensus pattern (9 bp):
TCGATTAAC
Found at i:12835200 original size:958 final size:941
Alignment explanation
Indices: 12832955--12834835 Score: 2406
Period size: 953 Copynumber: 2.0 Consensus size: 941
12832945 TGAGCATTCG
** * ** * ** **
12832955 ATCGAATCGAAAATTTTCG-AGTTAATCGAGTTTTCGAATCTCATTTTATCATCCTAACTTTATT
1 ATCGAATC-AAAATTTTCGAAG-TAATAAAGGTTTCGAATCTCAGGTAAAAATCCTAACAATATT
* * * *
12833019 TGAAGTTTTCTCGAATCGAGTCGAGTGAGATGGAATTCGAATCGAATCG---AATATATTTGTTC
64 T-AAG-TTTCTCGAATC-AGTCGAATGAGATCGAATTC-AATCGAATCGAACAATATACTCGTTC
* * ** * * * *
12833081 GAGTTAAATTTTAAAAAATAATTTTGGGTCATTGTAACCATTGTCACCCATCGTAATAAAATTTG
125 GACTGAAATTCGAAAAAATAAATTTGAGTCATTGTAACCATTGTCACACATCG-AATAAAATCTG
* * ** * * * *
12833146 TCCACCTTAATCAAATTTTTTATTAACTTTCATCACTTCATAATTTATTTATTAATTTTTTATAT
189 -CGAAC-TAATCAAATTTCGTATTAAC-TTCATAAATTCAGAATTTATTTATTAATTTTTTATAG
* * * * ** *** * * * * * *
12833211 ATTGGTTAGCTTCTTTGCTTGCTTAGTTGTTTCAATTATCTTCATATTCTTGTCACTATGTATTT
251 AATGGTTAGCTCCTTCGCATGCTTAGCGGCACCAATAATCTTAAAAGTCTTCTCACTATGTA-TA
* *
12833276 TAGAATTAAAAAATATATTAAATGTAAAAATATGATTTTTTAATAAAAGTTATTTTAAAAATAAA
315 AAAAATTAAAAAATATATTAAATGTAAAAATATGATTTTTTAATAAAAGTTATTTTAAAAATAAA
*
12833341 ATGTGAAATTGATACCAATATAAAATTTTAACACGAATATTTTATGGAATAATTAATAATACAAT
380 ATGTGAAATTAATACCAATATAAAATTTTAACACGAATATTTTATGGAATAATTAATAATACAAT
12833406 TTTAATATAAATATTCAATATGCTTAAACAATTCAATAATATAAATAATATAAAATGTGAAATTT
445 TTTAATATAAATATTCAATATGCTTAAACAATTCAATAATATAAATAATATAAAATGTGAAATTT
* *
12833471 AATTTAATAATATAAATAGTAGATATAAATAAAATTATTACTATTTATGTTTAGTATTTTTTTTG
510 AATATAATAATATAAATAGTAGATATAAATAAAATTATTACTATTTATGTTTAGTATTTTTTTTA
*
12833536 GATAATTTTGATTTTTTATTTGAGAGTAAAGGGTGAGAAGTAAAAGTTTAGGGGAAAAATAAAAA
575 GATAATTTGGATTTTTTATTTGAGAGTAAAGGGTGAGAAGTAAAAGTTTAGGGGAAAAATAAAAA
* *
12833601 GTTTTGGGGAATAAAAGTTTGAGGGTAAGTAAATAGGGGGAGTAAAATTTTGGAGGGAAAATATT
640 GTTTTGGGGAATAAAAGTTTGAGGGAAAGTAAATAGGGGGAGTAAAATTTTGAAGGGAAAATATT
**
12833666 AAAAAAAATTGGAGGGGGGAAGGTTTGGGATAGGTGGGAGGTGGGAGGGGAAGGGAATAAAAATT
705 AAAAAAAATTGGAGGGGGGAAGGTTTGGGATAAATGGGAGGTGGGAGGGGAAGGGAATAAAAATT
12833731 TTAGGGGAAAAGTGGGAGGGAGTAAAAATTTTGGGGGAAAATAAAAGGTTTTGAGGGTTTTTGGG
770 TTAGGGGAAAAGTGGGAGGGAGTAAAAATTTTGGGGGAAAATAAAAGGTTTTGAGGGTTTTTGGG
12833796 AGTAAAATTTTGAGAAAAAATAAATGGGAGAGTAAAATTTTGGTGGAAAATAGATTTTGGGTAGA
835 AGTAAAATTTTGAGAAAAAATAAATGGGAGAGTAAAATTTTGGTGGAAAATAGATTTTGGGTAGA
* * *
12833861 TTGGGGGGTTGAGAGGTAGGAGTGAGCATTCGATCGAATCGA
900 TTGGGGGGTTGAGAGGGAGGAGTAAGCATTCGAGCGAATCGA
* ** * ** * ** **
12833903 ATCGAATCGAAAATTTTCGAATTAATCGAGTTTTCGAATCTCATTTTATCATCCTAACTTTATTT
1 ATCGAATC-AAAATTTTCGAAGTAATAAAGGTTTCGAATCTCAGGTAAAAATCCTAACAATATTT
* * * *
12833968 GAAGTTTTCTCGAATCGAGTCGAGTGAGATGGAATTCGAATCGAATCGAATCGAATATATTTGTT
65 -AAG-TTTCTCGAATC-AGTCGAATGAGATCGAATTC-AATCGAATCGAA-C-AATATACTCGTT
* * ** * * * * *
12834033 CGAGTTAAATTTTAAAAAATAATTTTGGGTCCTTGTAACCATTGTCACCCATCGTAATAAAATTT
124 CGACTGAAATTCGAAAAAATAAATTTGAGTCATTGTAACCATTGTCACACATCG-AATAAAATCT
* * ** * * *
12834098 GGCTACCTTAATCAAATTTTTTATTAACTTTCATCACTTCATAATTTATTTATTAATTTTTTATA
188 -GCGAAC-TAATCAAATTTCGTATTAAC-TTCATAAATTCAGAATTTATTTATTAATTTTTTATA
* * * * * ** *** * * * * *
12834163 TACTGGTTAGCTTCTTTGCTTGCTTAGTTGTTTCAATTATCTTCAGATTCTTGTCACTATGTATT
250 GAATGGTTAGCTCCTTCGCATGCTTAGCGGCACCAATAATCTTAAAAGTCTTCTCACTATGTA-T
** *
12834228 TTAGAATTAAAAAATATATTAAATGTAAAAATATGATTTTTTTTAATAAAAGTTATTTTAAAAAT
314 AAAAAATTAAAAAATATATTAAATGTAAAAATATGA--TTTTTTAATAAAAGTTATTTTAAAAAT
* *
12834293 AAAATGTGAAATTAATACCAATATAAAATTTTAACACGAATATTTTATGGCATAATTAATAATTC
377 AAAATGTGAAATTAATACCAATATAAAATTTTAACACGAATATTTTATGGAATAATTAATAATAC
*
12834358 AATTTTAATATAAATATTCAATATGAC-TAAACAATTCACTAATATAAATAATATAAAATGTGAA
442 AATTTTAATATAAATATTCAATATG-CTTAAACAATTCAATAATATAAATAATATAAAATGTGAA
12834422 ATTTAATA-ATATAATATAAATAGTAGATATAAATAAAATTATTACTATTTATGTTTAGTGATTT
506 ATTTAATATA-ATAATATAAATAGTAGATATAAATAAAATTATTACTATTTATGTTTAGT-ATTT
*
12834486 TTTTTAGATAATTTGGTTTTTTTTATTTGAGAGTAAAGGGTGAGAAGTAAAAGTTTAGGGGAAAA
569 TTTTTAGATAATTTGG-ATTTTTTATTTGAGAGTAAAGGGTGAGAAGTAAAAGTTTAGGGGAAAA
12834551 ATAAAAAGTTTTGGGGAATAAAAGTTTGAGGGAAAGTAAATAGGGGGGAGTAAAATTTTGAAGGG
633 ATAAAAAGTTTTGGGGAATAAAAGTTTGAGGGAAAGTAAATA-GGGGGAGTAAAATTTTGAAGGG
* *
12834616 AAAATATTAAAAAAAATTGGAGGGGGGAGGGTTTGGGATAAATGGGAGGTGGGATGGGAAGGGAA
697 AAAATATTAAAAAAAATTGGAGGGGGGAAGGTTTGGGATAAATGGGAGGTGGGAGGGGAAGGGAA
*
12834681 TAAAAGTTTTAGGGGAAAAGTGGGAGGGAGTAAAAATTTTGGGGGAAAATAAAAGGTTTTGAGGG
762 TAAAAATTTTAGGGGAAAAGTGGGAGGGAGTAAAAATTTTGGGGGAAAATAAAAGGTTTTGAGGG
* *
12834746 TTTTTGGGAGTAAAATTTTGAGAAAAAATAAATGGGAGAGTAAAATTTTGGTGGGAAATGGATTT
827 TTTTTGGGAGTAAAATTTTGAGAAAAAATAAATGGGAGAGTAAAATTTTGGTGGAAAATAGATTT
12834811 TGGGTAGATTGGGGGGTTGAGAGGG
892 TGGGTAGATTGGGGGGTTGAGAGGG
12834836 GAGGGGAGTA
Statistics
Matches: 896, Mismatches: 23, Indels: 18
0.96 0.02 0.02
Matches are distributed among these distances:
948 110 0.12
949 1 0.00
953 237 0.26
954 2 0.00
955 206 0.23
956 19 0.02
957 88 0.10
958 233 0.26
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.36
Consensus pattern (941 bp):
ATCGAATCAAAATTTTCGAAGTAATAAAGGTTTCGAATCTCAGGTAAAAATCCTAACAATATTTA
AGTTTCTCGAATCAGTCGAATGAGATCGAATTCAATCGAATCGAACAATATACTCGTTCGACTGA
AATTCGAAAAAATAAATTTGAGTCATTGTAACCATTGTCACACATCGAATAAAATCTGCGAACTA
ATCAAATTTCGTATTAACTTCATAAATTCAGAATTTATTTATTAATTTTTTATAGAATGGTTAGC
TCCTTCGCATGCTTAGCGGCACCAATAATCTTAAAAGTCTTCTCACTATGTATAAAAAATTAAAA
AATATATTAAATGTAAAAATATGATTTTTTAATAAAAGTTATTTTAAAAATAAAATGTGAAATTA
ATACCAATATAAAATTTTAACACGAATATTTTATGGAATAATTAATAATACAATTTTAATATAAA
TATTCAATATGCTTAAACAATTCAATAATATAAATAATATAAAATGTGAAATTTAATATAATAAT
ATAAATAGTAGATATAAATAAAATTATTACTATTTATGTTTAGTATTTTTTTTAGATAATTTGGA
TTTTTTATTTGAGAGTAAAGGGTGAGAAGTAAAAGTTTAGGGGAAAAATAAAAAGTTTTGGGGAA
TAAAAGTTTGAGGGAAAGTAAATAGGGGGAGTAAAATTTTGAAGGGAAAATATTAAAAAAAATTG
GAGGGGGGAAGGTTTGGGATAAATGGGAGGTGGGAGGGGAAGGGAATAAAAATTTTAGGGGAAAA
GTGGGAGGGAGTAAAAATTTTGGGGGAAAATAAAAGGTTTTGAGGGTTTTTGGGAGTAAAATTTT
GAGAAAAAATAAATGGGAGAGTAAAATTTTGGTGGAAAATAGATTTTGGGTAGATTGGGGGGTTG
AGAGGGAGGAGTAAGCATTCGAGCGAATCGA
Found at i:12835226 original size:22 final size:22
Alignment explanation
Indices: 12835183--12835232 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
12835173 TTCTGATAGT
*
12835183 AAAAAAATTGAAAAAAATGAAA
1 AAAAAAACTGAAAAAAATGAAA
12835205 CAAAAAAACT-AAACAAAA-GAAA
1 -AAAAAAACTGAAA-AAAATGAAA
12835227 AAAAAA
1 AAAAAA
12835233 TCGATTTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 7 0.28
23 12 0.48
ACGTcount: A:0.80, C:0.06, G:0.06, T:0.08
Consensus pattern (22 bp):
AAAAAAACTGAAAAAAATGAAA
Found at i:12836832 original size:16 final size:16
Alignment explanation
Indices: 12836811--12837022 Score: 406
Period size: 16 Copynumber: 13.2 Consensus size: 16
12836801 TTTGGTTCGC
12836811 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12836827 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12836843 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12836859 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12836875 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12836891 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12836907 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12836923 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12836939 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12836955 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
12836971 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
12836987 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
*
12837003 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
12837019 TGTA
1 TGTA
12837023 ATAGCAAATC
Statistics
Matches: 195, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
16 195 1.00
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:12837062 original size:45 final size:41
Alignment explanation
Indices: 12837003--12837112 Score: 125
Period size: 45 Copynumber: 2.6 Consensus size: 41
12836993 GGAATAGAGG
*
12837003 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* ***
12837045 GAATGTAATGGAATAGAGGTGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
12837088 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
12837113 TAATGGAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
39 21 0.36
40 2 0.03
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.34
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:12837275 original size:16 final size:16
Alignment explanation
Indices: 12837238--12837279 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12837228 TTAATCATAT
*
12837238 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
12837254 TT-AAATATATTATAA
1 TTAAAATATATTATAA
12837269 TTAAAATATAT
1 TTAAAATATAT
12837280 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:12837286 original size:14 final size:15
Alignment explanation
Indices: 12837247--12837288 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
12837237 TTTAAACATA
*
12837247 ATTATTATTAAATAT
1 ATTATAATTAAATAT
12837262 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
12837276 A-TATAATTTAATA
1 ATTATAATTAAATA
12837289 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:12843192 original size:27 final size:27
Alignment explanation
Indices: 12843162--12843237 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
12843152 CGCCAATGGT
*
12843162 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAATGGTGCCAAAACC
* **
12843189 ATTGGTGGCACCAATGGTGCCAATGCC
1 ATTGGCGGCACCAATGGTGCCAAAACC
12843216 ATTGGCGGCACCAATGGTGCCA
1 ATTGGCGGCACCAATGGTGCCA
12843238 TATTGTTTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.26, C:0.28, G:0.29, T:0.17
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAACC
Found at i:12843248 original size:27 final size:25
Alignment explanation
Indices: 12843153--12843237 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 25
12843143 CCTTGGTCAC
*
12843153 GCCAATGGTATTGGCGGCACCAAAGGT
1 GCCAAT-G-ATTGGCGGCACCAATGGT
** *
12843180 GCCAAAACCATTGGTGGCACCAATGGT
1 GCC--AATGATTGGCGGCACCAATGGT
12843207 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATG--ATTGGCGGCACCAATGGT
12843234 GCCA
1 GCCA
12843238 TATTGTTTGG
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
25 2 0.04
27 43 0.91
29 2 0.04
ACGTcount: A:0.26, C:0.27, G:0.29, T:0.18
Consensus pattern (25 bp):
GCCAATGATTGGCGGCACCAATGGT
Found at i:12843422 original size:19 final size:21
Alignment explanation
Indices: 12843384--12843422 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
12843374 AAATTTTGAT
*
12843384 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
12843405 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
12843423 TTGTTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:12843504 original size:3 final size:3
Alignment explanation
Indices: 12843498--12843535 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
12843488 ATTATTATTA
12843498 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
12843536 AGTATTAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:12846890 original size:22 final size:24
Alignment explanation
Indices: 12846851--12846999 Score: 71
Period size: 23 Copynumber: 6.2 Consensus size: 24
12846841 AAAATTACCT
12846851 TTTTTTTTTCCTTCCTTC-CCTCTTC
1 TTTTTTTTT-CTTCCTTCTCCT-TTC
12846876 TTTTTTTTTC-T-CTTCTCCTTTCC
1 TTTTTTTTTCTTCCTTCTCCTTT-C
* * *
12846899 TTTTCTTTCCTT--TT-TTCTTTC
1 TTTTTTTTTCTTCCTTCTCCTTTC
* * * *
12846920 TTTTTTCTTCTCTCTTTTTTCTTCTC
1 TTTTTTTTTCT-TCCTTCTCCTT-TC
* *
12846946 TTTTCCTTTTCTTTCCTTCTTTCTTTC
1 TTTT-TTTTTC-TTCCTTC-TCCTTTC
*
12846973 TTTTTTCTTC-TCCTT-TCCTTTTC
1 TTTTTTTTTCTTCCTTCTCC-TTTC
12846996 TTTT
1 TTTT
12847000 CTTCTTTTTC
Statistics
Matches: 99, Mismatches: 13, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
21 9 0.09
22 14 0.14
23 23 0.23
24 9 0.09
25 14 0.14
26 10 0.10
27 14 0.14
28 6 0.06
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTTTTTTCTTCCTTCTCCTTTC
Found at i:12846894 original size:28 final size:28
Alignment explanation
Indices: 12846849--12847040 Score: 108
Period size: 28 Copynumber: 6.6 Consensus size: 28
12846839 ATAAAATTAC
* *
12846849 CTTTTTTTTT-TCCT-TCCTTCCCTCTT
1 CTTTTTTTTTCTCTTCTCCTTTCCTCTT
*
12846875 CTTTTTTTTTCTCTTCTCCTTTCCTTTT
1 CTTTTTTTTTCTCTTCTCCTTTCCTCTT
** *
12846903 CTTTCCTTTTTTCT-TTCTTTTTTCTTCTCT
1 CTTT--TTTTTTCTCTTCTCCTTTCCTCT-T
* * *
12846933 CTTTTTTCTTCTCTTTTCCTTTTCTTTCCTT
1 CTTTTTTTTTCTCTTCTCC-TTTC-CT-CTT
* *
12846964 CTTTCTTTCTTTTTTCTTCTCCTTTCCTTTT
1 C-TT-TTT-TTTTCTCTTCTCCTTTCCTCTT
* *
12846995 CTTTTCTTCTTTTTCTT-T-CTTTCCTCTC
1 CTTTT-TT-TTTCTCTTCTCCTTTCCTCTT
12847023 CTTTCTTTCTTTCT-TTCT
1 CTTT-TTT-TTTCTCTTCT
12847041 TTCTTTTTGT
Statistics
Matches: 131, Mismatches: 19, Indels: 30
0.73 0.11 0.17
Matches are distributed among these distances:
26 10 0.08
27 5 0.04
28 41 0.31
29 18 0.14
30 28 0.21
31 7 0.05
32 5 0.04
33 7 0.05
34 10 0.08
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (28 bp):
CTTTTTTTTTCTCTTCTCCTTTCCTCTT
Found at i:12846919 original size:4 final size:4
Alignment explanation
Indices: 12846900--12847046 Score: 106
Period size: 4 Copynumber: 34.8 Consensus size: 4
12846890 CTCCTTTCCT
*
12846900 TTTC TTTCC TTT- TTTC TTTC TTT- TTTC -TTC TCTC TTT- TTTC TTCTC
1 TTTC TTT-C TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC
*
12846946 TTTTCC TTTTC TTTC CTTC TTTC TTTC TTT- TTTC TTCTCC TTTCC TTTTC
1 -TTT-C -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTT-C -TTTC
* *
12846996 TTTTC TTCTT TTTC TTTC TTTCC TCTCC TTTC TTTC TTTC TTTC TTTC
1 -TTTC TT-TC TTTC TTTC TTT-C T-TTC TTTC TTTC TTTC TTTC TTTC
12847044 TTT
1 TTT
12847047 TTGTTTTTGA
Statistics
Matches: 120, Mismatches: 8, Indels: 30
0.76 0.05 0.19
Matches are distributed among these distances:
3 15 0.12
4 66 0.55
5 25 0.21
6 14 0.12
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTC
Found at i:12846969 original size:53 final size:53
Alignment explanation
Indices: 12846871--12847048 Score: 193
Period size: 53 Copynumber: 3.2 Consensus size: 53
12846861 CTTCCTTCCC
* * * *
12846871 TCTTCTTTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTTTTTCTTTCTTTTT
1 TCTTCTCTCTTTTT-TCTTCTCTTTTCCTTTTCTTTCCTTCTTTCTTTCTTTTT
12846925 TCTTCTCTCTTTTTTCTTCTCTTTTCCTTTTCTTTCCTTCTTTCTTTCTTTTT
1 TCTTCTCTCTTTTTTCTTCTCTTTTCCTTTTCTTTCCTTCTTTCTTTCTTTTT
*
12846978 TCTTCTC-CTTTCCTTTTCTTTTCTTCTTTTTC-TTTCTTTCCTCTCCTTTCTTTCTTTCTT
1 TCTTCTCTC-TT--TTTTC--TTC-TCTTTTCCTTTTCTTTCCT-T-CTTTCTTTCTTT-TT
12847038 TCTT-TCT-TTTT
1 TCTTCTCTCTTTT
12847049 GTTTTTGATA
Statistics
Matches: 109, Mismatches: 5, Indels: 18
0.83 0.04 0.14
Matches are distributed among these distances:
52 1 0.01
53 46 0.42
54 12 0.11
55 5 0.05
56 2 0.02
57 13 0.12
58 10 0.09
59 14 0.13
60 6 0.06
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (53 bp):
TCTTCTCTCTTTTTTCTTCTCTTTTCCTTTTCTTTCCTTCTTTCTTTCTTTTT
Found at i:12846990 original size:39 final size:39
Alignment explanation
Indices: 12846927--12847046 Score: 158
Period size: 39 Copynumber: 3.2 Consensus size: 39
12846917 TTCTTTTTTC
* *
12846927 TTCTCTCTTTTTTCTTCTCTTTTCCTTTTCTTTCCTTCT
1 TTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTCT
*
12846966 TTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTTCTTC-
1 TTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTCT
* *
12847004 TT-TTTCTTTCTTTCCTCTCCTTT-C-TTTCTTTCTTTCT
1 TTCTTTCTTT-TTTCTTCTCCTTTCCTTTTCTTTCCTTCT
12847041 TTCTTT
1 TTCTTT
12847047 TTGTTTTTGA
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
36 10 0.14
37 10 0.14
38 17 0.24
39 35 0.49
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (39 bp):
TTCTTTCTTTTTTCTTCTCCTTTCCTTTTCTTTCCTTCT
Found at i:12847095 original size:27 final size:26
Alignment explanation
Indices: 12847051--12847125 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 26
12847041 TTCTTTTTGT
12847051 TTTTGATATATTTTGGTAAATAAAAAAA
1 TTTT-ATATATTTTGGTAAAT-AAAAAA
12847079 TTATT-TATATTTTGGTAAATAAAAAA
1 TT-TTATATATTTTGGTAAATAAAAAA
12847105 TTTTATAATATTTTGGTAAAT
1 TTTTAT-ATATTTTGGTAAAT
12847126 TTTTATTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
25 2 0.05
26 9 0.20
27 29 0.66
28 2 0.05
29 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (26 bp):
TTTTATATATTTTGGTAAATAAAAAA
Found at i:12859027 original size:19 final size:19
Alignment explanation
Indices: 12858988--12859028 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
12858978 TGATTTATTC
*
12858988 TAAGATTTATCTACTTAAA
1 TAAGATTTATCTACCTAAA
*
12859007 TAAGATTTATCTACCTCAA
1 TAAGATTTATCTACCTAAA
12859026 TAA
1 TAA
12859029 CTTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (19 bp):
TAAGATTTATCTACCTAAA
Found at i:12868181 original size:19 final size:20
Alignment explanation
Indices: 12868158--12868209 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
12868148 CAAAAATTAC
* *
12868158 AAAAAATCAAAGTAATTTTT
1 AAAATATCAAAATAATTTTT
* *
12868178 AAAATTTGAAAATAATTTTT
1 AAAATATCAAAATAATTTTT
12868198 -AAAT-TCAAAATA
1 AAAATATCAAAATA
12868210 TTAAAAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 7 0.26
19 4 0.15
20 16 0.59
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (20 bp):
AAAATATCAAAATAATTTTT
Found at i:12868628 original size:14 final size:14
Alignment explanation
Indices: 12868609--12868637 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12868599 TATGATTTGT
12868609 TACTTAAATTTAGA
1 TACTTAAATTTAGA
12868623 TACTTAAATTTAGA
1 TACTTAAATTTAGA
12868637 T
1 T
12868638 TTAATGTGTA
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:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (14 bp):
TACTTAAATTTAGA
Found at i:12868865 original size:31 final size:31
Alignment explanation
Indices: 12868842--12868912 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 31
12868832 TATTGAATTC
12868842 TTTTT-ATATGT-TTTTTAATATTATTAAAA
1 TTTTTAATATGTGTTTTTAATATTATTAAAA
* *
12868871 TTTTTAATATGTGTTTTTATAAATTTATTTAAA
1 TTTTTAATATGTGTTTTTA-ATA-TTATTAAAA
12868904 TATTTTAAT
1 T-TTTTAAT
12868913 TAACTAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 5 0.14
30 6 0.17
31 6 0.17
32 2 0.06
33 9 0.26
34 7 0.20
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (31 bp):
TTTTTAATATGTGTTTTTAATATTATTAAAA
Found at i:12870164 original size:41 final size:41
Alignment explanation
Indices: 12870119--12870200 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
12870109 ATTTTATGAG
12870119 ATAGATCCCTTCCTGATATGAACTTCCTCTCGTGGACCAAC
1 ATAGATCCCTTCCTGATATGAACTTCCTCTCGTGGACCAAC
12870160 ATAGATCCCTTCCTGATATGAACTTCCTCTCGTGGACCAAC
1 ATAGATCCCTTCCTGATATGAACTTCCTCTCGTGGACCAAC
12870201 TGATTTCGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (41 bp):
ATAGATCCCTTCCTGATATGAACTTCCTCTCGTGGACCAAC
Found at i:12875703 original size:12 final size:12
Alignment explanation
Indices: 12875682--12875723 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
12875672 TAGGTTCCAA
*
12875682 AAATGGAAATGG
1 AAATGAAAATGG
*
12875694 AAATGAAAAT-T
1 AAATGAAAATGG
12875705 ATAATGAAAATGG
1 A-AATGAAAATGG
12875718 AAATGA
1 AAATGA
12875724 TCCATTTGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.21, T:0.21
Consensus pattern (12 bp):
AAATGAAAATGG
Found at i:12875939 original size:26 final size:26
Alignment explanation
Indices: 12875872--12875944 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
12875862 TATTTTCTCG
12875872 AAATTTAACCAGGGGTAAAATCGTCAA
1 AAATTT-ACCAGGGGTAAAATCGTCAA
* *
12875899 AAATTTACCAAGGGTAAAATCGTTAA
1 AAATTTACCAGGGGTAAAATCGTCAA
* **
12875925 AATTTTACTGGGGGTAAAAT
1 AAATTTACCAGGGGTAAAAT
12875945 AGGGATGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 34 0.85
27 6 0.15
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.27
Consensus pattern (26 bp):
AAATTTACCAGGGGTAAAATCGTCAA
Found at i:12887575 original size:17 final size:17
Alignment explanation
Indices: 12887555--12887588 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
12887545 ATAAACATCG
*
12887555 CCACTACTCACACATTT
1 CCACAACTCACACATTT
12887572 CCACAACTCACACATTT
1 CCACAACTCACACATTT
12887589 GATTTAGCTC
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:0.32, C:0.41, G:0.00, T:0.26
Consensus pattern (17 bp):
CCACAACTCACACATTT
Found at i:12887601 original size:18 final size:18
Alignment explanation
Indices: 12887578--12887640 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
12887568 ATTTCCACAA
*
12887578 CTCACACATTTGATTTAG
1 CTCACACATTTGACTTAG
*
12887596 CTCACACA-TTAACTTAG
1 CTCACACATTTGACTTAG
* *
12887613 CTTACACATTTGACATAG
1 CTCACACATTTGACTTAG
*
12887631 CTCGCACATT
1 CTCACACATT
12887641 AACTTATTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
17 14 0.38
18 23 0.62
ACGTcount: A:0.30, C:0.27, G:0.10, T:0.33
Consensus pattern (18 bp):
CTCACACATTTGACTTAG
Found at i:12888005 original size:36 final size:36
Alignment explanation
Indices: 12887927--12888007 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
12887917 TCATACCTCT
* *
12887927 ACAAAGCCATTATTTCATTTCAAATAACATTCGTCC
1 ACAAAGCCAATATTTCATTTCAAACAACATTCGTCC
** **
12887963 GTAAAGCCAATATTTCATTTGTAACAACATCTC-TCC
1 ACAAAGCCAATATTTCATTTCAAACAACAT-TCGTCC
12887999 ACAAAGCCA
1 ACAAAGCCA
12888008 CCTTGAAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
36 34 0.94
37 2 0.06
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (36 bp):
ACAAAGCCAATATTTCATTTCAAACAACATTCGTCC
Found at i:12890409 original size:20 final size:20
Alignment explanation
Indices: 12890386--12890424 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
12890376 TGGGTCAATA
12890386 ACTAAATTGTAAT-AAATTAG
1 ACTAAATTG-AATGAAATTAG
12890406 ACTAAATTGAATGAAATTA
1 ACTAAATTGAATGAAATTA
12890425 AAAACTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.51, C:0.05, G:0.10, T:0.33
Consensus pattern (20 bp):
ACTAAATTGAATGAAATTAG
Found at i:12890948 original size:28 final size:28
Alignment explanation
Indices: 12890908--12890965 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
12890898 AGATATTACA
12890908 ACTGACCTGCCACGCTTGCAGAAACCGC
1 ACTGACCTGCCACGCTTGCAGAAACCGC
12890936 ACTGACCTGCCACGCTTGCAGAAACCGC
1 ACTGACCTGCCACGCTTGCAGAAACCGC
12890964 AC
1 AC
12890966 ATACTTATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.40, G:0.21, T:0.14
Consensus pattern (28 bp):
ACTGACCTGCCACGCTTGCAGAAACCGC
Found at i:12892459 original size:45 final size:45
Alignment explanation
Indices: 12892395--12892570 Score: 230
Period size: 45 Copynumber: 3.9 Consensus size: 45
12892385 TACTACGTAT
* *
12892395 ACCGGGTATCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCC
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * *
12892440 ACCGGGTATCATTGATTATAAAGGTGGTTGTTGTGTGCTGATTCT
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * *
12892485 ATCGGGTA-CTATTGATTATGAAGGTGGTTGCTATGTGCTAATTCC
1 ACCGGGTATC-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
* * *
12892530 ACCGAGTATCATTGACTATAAGGGTGG-TGCTATGTGCTGAT
1 ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGAT
12892571 CAACCGTGTA
Statistics
Matches: 116, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
44 14 0.12
45 101 0.87
46 1 0.01
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.37
Consensus pattern (45 bp):
ACCGGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCC
Found at i:12896820 original size:32 final size:32
Alignment explanation
Indices: 12896778--12896863 Score: 118
Period size: 32 Copynumber: 2.7 Consensus size: 32
12896768 CGGCTATGTA
*
12896778 ATGGGCCACACGAGCTAGGCTAGATTAGGCGT
1 ATGGGCCACACGGGCTAGGCTAGATTAGGCGT
* * *
12896810 GTGGGCCACACGGGCTAGGCCAGATTGGGCGT
1 ATGGGCCACACGGGCTAGGCTAGATTAGGCGT
* *
12896842 ATGGGCTACACGGGCAAGGCTA
1 ATGGGCCACACGGGCTAGGCTA
12896864 ATCTGGACTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.22, C:0.23, G:0.38, T:0.16
Consensus pattern (32 bp):
ATGGGCCACACGGGCTAGGCTAGATTAGGCGT
Found at i:12899026 original size:25 final size:26
Alignment explanation
Indices: 12898985--12899035 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
12898975 GTTGTAAATA
*
12898985 AAAATAATATATCTAGA-AATTTTCT
1 AAAATAATATATCTAGAGAATCTTCT
* *
12899010 AAAATAATTTATGTAGAGAATCTTCT
1 AAAATAATATATCTAGAGAATCTTCT
12899036 CTCTACAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (26 bp):
AAAATAATATATCTAGAGAATCTTCT
Found at i:12899204 original size:30 final size:30
Alignment explanation
Indices: 12899170--12899265 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
12899160 TATCTAGATA
*
12899170 AATATTAAATTAAATTTAATATCTCAAATT
1 AATATTGAATTAAATTTAATATCTCAAATT
* * * * *
12899200 AATATTGAATT-AA-TAAAAACCTTTCTAGATA
1 AATATTGAATTAAATTTAATA--TCTC-AAATT
*
12899231 AATATTGAATTAAATTTAATATCTCATATT
1 AATATTGAATTAAATTTAATATCTCAAATT
12899261 AATAT
1 AATAT
12899266 CGAGATAAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
28 4 0.08
29 2 0.04
30 21 0.42
31 17 0.34
32 2 0.04
33 4 0.08
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (30 bp):
AATATTGAATTAAATTTAATATCTCAAATT
Found at i:12901520 original size:20 final size:19
Alignment explanation
Indices: 12901480--12901517 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
12901470 ATCATAATTA
12901480 AACCTGATTAATTTAAGTT
1 AACCTGATTAATTTAAGTT
12901499 AACCTTGATTAA-TTAAGTT
1 AACC-TGATTAATTTAAGTT
12901518 TAATTAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (19 bp):
AACCTGATTAATTTAAGTT
Found at i:12903968 original size:59 final size:61
Alignment explanation
Indices: 12903896--12904012 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 61
12903886 ATCACTTTAA
** *
12903896 TATTAAATTAATATAATATTTA-TT-AAGATAAATATTAGACTAAATTTAATATTAAATCT
1 TATTAAAAAAATATAATATTTACTTGAAGATAAATATTAAACTAAATTTAATATTAAATCT
* *
12903955 TATTAAAAAAATATAATATTTATCTTGTAGATAAATATTAAATTAAATTTAATATTAA
1 TATTAAAAAAATATAATATTTA-CTTGAAGATAAATATTAAACTAAATTTAATATTAA
12904013 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 20 0.40
61 2 0.04
62 28 0.56
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (61 bp):
TATTAAAAAAATATAATATTTACTTGAAGATAAATATTAAACTAAATTTAATATTAAATCT
Found at i:12904006 original size:62 final size:59
Alignment explanation
Indices: 12903896--12904096 Score: 163
Period size: 62 Copynumber: 3.2 Consensus size: 59
12903886 ATCACTTTAA
** *
12903896 TATTAAATTAATATAATATTTATTAAGATAAATATTAGACTAAATTTAATATTAAATCT
1 TATTAAAAAAATATAATATTTATTAAGATAAATATTAAACTAAATTTAATATTAAATCT
* * *
12903955 TATTAAAAAAATATAATATTTATCTTGTAGATAAATATTAAATTAAATTTAATATTAAGATAAT
1 TATTAAAAAAATATAATATTTA--TT-AAGATAAATATTAAACTAAATTTAATATTAA-AT-CT
* * * * * *
12904019 CACTTTAATATTAAATTAATAAAATACTATTAAGATAAGTATTAAATTAAATTTAATATTAAA-C
1 TA--TTAA-A--AAAAT-ATAATAT-TTATTAAGATAAATATTAAACTAAATTTAATATTAAATC
12904083 -
59 T
*
12904083 TATTAAAATAATAT
1 TATTAAAAAAATAT
12904097 TATCTTTGAA
Statistics
Matches: 114, Mismatches: 16, Indels: 25
0.74 0.10 0.16
Matches are distributed among these distances:
58 2 0.02
59 23 0.20
61 3 0.03
62 32 0.28
63 2 0.02
64 3 0.03
66 4 0.04
67 2 0.02
68 29 0.25
69 6 0.05
70 6 0.05
71 2 0.02
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (59 bp):
TATTAAAAAAATATAATATTTATTAAGATAAATATTAAACTAAATTTAATATTAAATCT
Found at i:12904011 original size:12 final size:12
Alignment explanation
Indices: 12903986--12904098 Score: 55
Period size: 12 Copynumber: 9.8 Consensus size: 12
12903976 ATCTTGTAGA
12903986 TAAATATTAAAT
1 TAAATATTAAAT
12903998 TAAAT-TTAATAT
1 TAAATATTAA-AT
* * *
12904010 TAAGATAATCACT
1 TAA-ATATTAAAT
*
12904023 TTAATATTAAAT
1 TAAATATTAAAT
12904035 T-AATA--AAA-
1 TAAATATTAAAT
*
12904043 T-ACTATTAAGA-
1 TAAATATTAA-AT
*
12904054 TAAGTATTAAAT
1 TAAATATTAAAT
12904066 TAAAT-TTAATAT
1 TAAATATTAA-AT
*
12904078 TAAACTATTAAAA
1 TAAA-TATTAAAT
12904091 T-AATATTA
1 TAAATATTA
12904099 TCTTTGAAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
8 4 0.05
9 3 0.04
10 2 0.03
11 20 0.25
12 36 0.46
13 8 0.10
14 6 0.08
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:12904038 original size:20 final size:18
Alignment explanation
Indices: 12903988--12904097 Score: 68
Period size: 20 Copynumber: 5.9 Consensus size: 18
12903978 CTTGTAGATA
12903988 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
12904005 AATATTAAGA-TAATCACTTT
1 AATATTAA-ATTAAT-A-TTT
**
12904025 AATATTAAATTAATAAAAT
1 AATATTAAATTAAT-ATTT
*
12904044 ACTATTAAGA-TAAGTA-TT
1 AATATTAA-ATTAA-TATTT
*
12904062 AA-ATTAAATTTAATATTA
1 AATATTAAA-TTAATATTT
*
12904080 AACTATTAAAATAATATT
1 AA-TATTAAATTAATATT
12904098 ATCTTTGAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
16 1 0.01
17 18 0.25
18 9 0.12
19 21 0.29
20 24 0.33
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:12904085 original size:37 final size:36
Alignment explanation
Indices: 12903988--12904098 Score: 113
Period size: 37 Copynumber: 3.0 Consensus size: 36
12903978 CTTGTAGATA
*
12903988 AATATTAAATTAA-ATTTAA-TATTAAGATAATCACTTT
1 AATATTAAATTAATATTAAACTATTAAGATAAT-A--TT
*
12904025 AATATTAAATTAATA-AAATACTATTAAGATAAGTATT
1 AATATTAAATTAATATTAA-ACTATTAAGATAA-TATT
*
12904062 AA-ATTAAATTTAATATTAAACTATTAAAATAATATT
1 AATATTAAA-TTAATATTAAACTATTAAGATAATATT
12904098 A
1 A
12904099 TCTTTGAAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
36 11 0.17
37 36 0.56
38 4 0.06
39 12 0.19
40 1 0.02
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (36 bp):
AATATTAAATTAATATTAAACTATTAAGATAATATT
Found at i:12905725 original size:18 final size:18
Alignment explanation
Indices: 12905710--12905751 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
12905700 GGAAAATATG
12905710 AAAGATAAAAAAAATACA
1 AAAGATAAAAAAAATACA
12905728 AAAGATAAAAAAAAAATACA
1 AAAGAT--AAAAAAAATACA
12905748 AAAG
1 AAAG
12905752 TCATAATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 6 0.27
20 16 0.73
ACGTcount: A:0.79, C:0.05, G:0.07, T:0.10
Consensus pattern (18 bp):
AAAGATAAAAAAAATACA
Found at i:12911530 original size:19 final size:19
Alignment explanation
Indices: 12911492--12911531 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12911482 GAAGACCAAT
* *
12911492 ATTAATTTTAATTAATTTG
1 ATTAATTTAAATTAACTTG
*
12911511 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTAACTTG
12911530 AT
1 AT
12911532 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTAACTTG
Found at i:12912368 original size:23 final size:23
Alignment explanation
Indices: 12912337--12912391 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
12912327 ATCACAAGCG
*
12912337 AATT-ATTCACAAACGGATTCAA
1 AATTAATTCAAAAACGGATTCAA
*
12912359 AATTAATTCAAAAACGGATTCAG
1 AATTAATTCAAAAACGGATTCAA
12912382 AATTAATTCA
1 AATTAATTCA
12912392 TCTTGGGTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 4 0.13
23 26 0.87
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.29
Consensus pattern (23 bp):
AATTAATTCAAAAACGGATTCAA
Found at i:12914891 original size:12 final size:12
Alignment explanation
Indices: 12914874--12914900 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
12914864 TTGAATAAGC
12914874 TTAGTCTTAGAA
1 TTAGTCTTAGAA
12914886 TTAGTCTTAGAA
1 TTAGTCTTAGAA
12914898 TTA
1 TTA
12914901 ACATTTAGAA
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:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (12 bp):
TTAGTCTTAGAA
Found at i:12918131 original size:20 final size:20
Alignment explanation
Indices: 12918098--12918150 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
12918088 CAGACATAAA
* *
12918098 TTAAAAAGTTTAAAAAAATT
1 TTAAAAAATATAAAAAAATT
* **
12918118 TTAAAATATATAAATTAATT
1 TTAAAAAATATAAAAAAATT
12918138 TTAAAAAATATAA
1 TTAAAAAATATAA
12918151 TTTTGGGGGG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TTAAAAAATATAAAAAAATT
Found at i:12924093 original size:23 final size:23
Alignment explanation
Indices: 12924039--12924086 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
12924029 CTGGATGTAG
* * *
12924039 ATATCACTGATGAGGATCAAGCT
1 ATATCATTGACGAGGATCAAACT
12924062 ATATCATTGACGAGGATCAAACT
1 ATATCATTGACGAGGATCAAACT
12924085 AT
1 AT
12924087 GTTATTGCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (23 bp):
ATATCATTGACGAGGATCAAACT
Found at i:12925713 original size:46 final size:46
Alignment explanation
Indices: 12925646--12925789 Score: 180
Period size: 46 Copynumber: 3.1 Consensus size: 46
12925636 TTGTTGTTTG
* * * *
12925646 GGTTCAACCCTAACGGGTGAACAGGCACTATTATCTGATTCGTGTA
1 GGTTCAACCTTAACGGGTGAACAGACACTATTATCAGATTCATGTA
* *
12925692 GGTTCAACTTTAATGGGTGAACAGACACTATTATCAGATTCATGTA
1 GGTTCAACCTTAACGGGTGAACAGACACTATTATCAGATTCATGTA
* * * *
12925738 GGTTCAACCTTAACGGGTGACCAGACAATATGATTCATCATTCATGTA
1 GGTTCAACCTTAACGGGTGAACAGACACTATTA-TCA-GATTCATGTA
12925786 GGTT
1 GGTT
12925790 TAACTCAAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 68 0.81
47 3 0.04
48 13 0.15
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (46 bp):
GGTTCAACCTTAACGGGTGAACAGACACTATTATCAGATTCATGTA
Found at i:12925817 original size:94 final size:92
Alignment explanation
Indices: 12925646--12925818 Score: 213
Period size: 94 Copynumber: 1.9 Consensus size: 92
12925636 TTGTTGTTTG
* * * * * ** *
12925646 GGTTCAACCCTAACGGGTGAACAGGCACTATTATCTGATTCGTGTAGGTTCAACTTTAATGGGTG
1 GGTTCAACCCTAACGGGTGAACAGACAATATGATCTCATTCATGTAGGTTCAACTCAAATAGGTG
12925711 AACAGACACTATTATCAGATTCATGTA
66 AACAGACACTATTATCAGATTCATGTA
* * *
12925738 GGTTCAACCTTAACGGGTGACCAGACAATATGATTCATCATTCATGTAGGTTTAACTCAAATAGG
1 GGTTCAACCCTAACGGGTGAACAGACAATATGA-TC-TCATTCATGTAGGTTCAACTCAAATAGG
12925803 T-AACCAGACACTATTA
64 TGAA-CAGACACTATTA
12925819 CTTTCACCTG
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
92 28 0.42
93 4 0.06
94 35 0.52
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (92 bp):
GGTTCAACCCTAACGGGTGAACAGACAATATGATCTCATTCATGTAGGTTCAACTCAAATAGGTG
AACAGACACTATTATCAGATTCATGTA
Done.