Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006932.1 Hibiscus syriacus cultivar Beakdansim tig00017792_pilon, whole genome shotgun sequence
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: 664293
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:5805 original size:3 final size:3
Alignment explanation
Indices: 5797--5822 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5787 GAAACACTGT
5797 TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TC
5823 GTCTTCTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
TCC
Found at i:9546 original size:29 final size:29
Alignment explanation
Indices: 9504--9623 Score: 222
Period size: 29 Copynumber: 4.1 Consensus size: 29
9494 TTCTACAGTA
9504 ACCTTGGAGGTCGCCATGGCATCCGGGCG
1 ACCTTGGAGGTCGCCATGGCATCCGGGCG
9533 ACCTTGGAGGTCGCCATGGCATCCGGGCG
1 ACCTTGGAGGTCGCCATGGCATCCGGGCG
*
9562 ACCTTGGAGGTCGCCATGGCATCCGGACG
1 ACCTTGGAGGTCGCCATGGCATCCGGGCG
*
9591 ACCTTGGAGGTCGCCATGGCATCCGAGCG
1 ACCTTGGAGGTCGCCATGGCATCCGGGCG
9620 ACCT
1 ACCT
9624 GTGTGGTATT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 88 1.00
ACGTcount: A:0.16, C:0.32, G:0.35, T:0.17
Consensus pattern (29 bp):
ACCTTGGAGGTCGCCATGGCATCCGGGCG
Found at i:9728 original size:25 final size:25
Alignment explanation
Indices: 9698--9773 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
9688 TGGGGGAGTT
9698 GTGGGATGCATGCTGTGCATGGGAC
1 GTGGGATGCATGCTGTGCATGGGAC
* **
9723 GTGGGAATGCATG--G-G---GAGTT
1 GTGGG-ATGCATGCTGTGCATGGGAC
9743 GTGGGATGCATGCTGTGCATGGGAC
1 GTGGGATGCATGCTGTGCATGGGAC
9768 GTGGGA
1 GTGGGA
9774 ACTGTGCATG
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
19 7 0.18
20 7 0.18
21 1 0.03
22 1 0.03
23 1 0.03
24 1 0.03
25 13 0.34
26 7 0.18
ACGTcount: A:0.17, C:0.12, G:0.47, T:0.24
Consensus pattern (25 bp):
GTGGGATGCATGCTGTGCATGGGAC
Found at i:9744 original size:45 final size:46
Alignment explanation
Indices: 9683--9774 Score: 177
Period size: 45 Copynumber: 2.0 Consensus size: 46
9673 GTATTGGAGC
9683 ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
1 ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
9729 ATGCAT-GGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
1 ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
9774 A
1 A
9775 CTGTGCATGG
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 40 0.87
46 6 0.13
ACGTcount: A:0.18, C:0.11, G:0.47, T:0.24
Consensus pattern (46 bp):
ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
Found at i:10307 original size:21 final size:21
Alignment explanation
Indices: 10282--10325 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
10272 AATCTAGTTA
10282 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
10303 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
10324 AT
1 AT
10326 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:10335 original size:28 final size:30
Alignment explanation
Indices: 10302--10364 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
10292 TAGTATAAAT
*
10302 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
10330 TATTAGTTTATTAGTTTAAGTTATATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
10360 TATTA
1 TATTA
10365 TATAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (30 bp):
TATTAGTTTATTAGTTTAAGTTATATATTA
Found at i:10911 original size:20 final size:21
Alignment explanation
Indices: 10867--10911 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
10857 AAATATTGTG
**
10867 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
10888 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
10908 TTTA
1 TTTA
10912 CATTGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:11197 original size:26 final size:25
Alignment explanation
Indices: 11168--11226 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
11158 AAATCATATT
*
11168 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
11194 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
11220 ATTATTA
1 ATTATTA
11227 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:14130 original size:26 final size:25
Alignment explanation
Indices: 14104--14740 Score: 449
Period size: 26 Copynumber: 25.7 Consensus size: 25
14094 GATGATTTAG
*
14104 TAATGATTTGATAATAATCATTATAG
1 TAATGATTT-ATAATAATCATTATAA
14130 TAATGATTTGATAATAATCATTATAA
1 TAATGATTT-ATAATAATCATTATAA
14156 TAATGATTTAGTAATAATCATTATAA
1 TAATGATTTA-TAATAATCATTATAA
* *
14182 AAATGA-TT-TAATAATGATT-T-A
1 TAATGATTTATAATAATCATTATAA
* * * *
14203 -AAT-ATTTAATGATTTGATGATT-TAG
1 TAATGATTT-AT-A-ATAATCATTATAA
* *
14228 TAATGATTGATAATAATCATTATAG
1 TAATGATTTATAATAATCATTATAA
14253 TAATGATTTGATAATAATCATTATAA
1 TAATGATTT-ATAATAATCATTATAA
14279 TAATGATTTAGTAATAATCATTATAA
1 TAATGATTTA-TAATAATCATTATAA
* *
14305 AAATGA-TT-TAATAATGATT-T-A
1 TAATGATTTATAATAATCATTATAA
* * * *
14326 -AAT-ATTTAATGATTTGATGATT-TAG
1 TAATGATTT-AT-A-ATAATCATTATAA
*
14351 TAATGATTTGATAATAATCATTATAG
1 TAATGATTT-ATAATAATCATTATAA
*
14377 TAATGATTGATAATAATCATTATAA
1 TAATGATTTATAATAATCATTATAA
14402 TAATGATTTAGTAATAATCATTATAA
1 TAATGATTTA-TAATAATCATTATAA
* *
14428 AAATGA-TT-TAATAATGATT-T-A
1 TAATGATTTATAATAATCATTATAA
* * * *
14449 -AAT-ATTTAATGATTTGATGATT-TAG
1 TAATGATTT-AT-A-ATAATCATTATAA
*
14474 TAATGATTTGATAATAATCATTATAG
1 TAATGATTT-ATAATAATCATTATAA
14500 TAATGATTTGATAATAATCATTATAA
1 TAATGATTT-ATAATAATCATTATAA
14526 TAATGATTTAGTAATAATCATTATAA
1 TAATGATTTA-TAATAATCATTATAA
14552 TAATGATTTAGTAATAATCATTATAA
1 TAATGATTTA-TAATAATCATTATAA
* *
14578 AAATGA-TT-TAATAATGATT-T-A
1 TAATGATTTATAATAATCATTATAA
* * * *
14599 -AAT-ATTTAATGATTTGATGATT-TAG
1 TAATGATTT-AT-A-ATAATCATTATAA
14624 TAATGATTTGATAATAATCATTATAA
1 TAATGATTT-ATAATAATCATTATAA
* *
14650 TAATGATTTTATAATAATTATT-TAG
1 TAATGA-TTTATAATAATCATTATAA
* * *
14675 TTATTATTTAGTAATTAT--TTATAA
1 TAATGATTTA-TAATAATCATTATAA
* *
14699 TAATGATTTAATACTAATGATT-TAA
1 TAATGATTT-ATAATAATCATTATAA
*
14724 TAATTA-TTACTAATAAT
1 TAATGATTTA-TAATAAT
14741 TATAGAATAC
Statistics
Matches: 507, Mismatches: 56, Indels: 98
0.77 0.08 0.15
Matches are distributed among these distances:
19 4 0.01
20 20 0.04
21 4 0.01
22 8 0.02
23 47 0.09
24 64 0.13
25 86 0.17
26 250 0.49
27 24 0.05
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (25 bp):
TAATGATTTATAATAATCATTATAA
Found at i:14277 original size:123 final size:124
Alignment explanation
Indices: 14048--14667 Score: 998
Period size: 123 Copynumber: 5.0 Consensus size: 124
14038 ATGTATTTAT
14048 TAATCATTAT-AAAATGA-TTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
14111 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
14170 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGA-
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
14234 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
14293 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
14358 TTGATAATAATCATTATAGTAATGA-TTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
14416 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
14481 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
* *
14540 TAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAAT-A----ATGATTTA-
1 TAATCATTATAAAAATGA-TT--TAATAATGATT-T--AAAT-ATTTAATGATTTGATGATTTAG
* * * *
14599 -AAT-ATTTAATGATTTGATGATT-TAGTAATGATTTGATAATAATCATTATAATAATGATTTTA
59 TAATGATTTGAT-A-ATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGA-TTTA
14661 -TAA
121 GTAA
14664 TAAT
1 TAAT
14668 TATTTAGTTA
Statistics
Matches: 478, Mismatches: 6, Indels: 26
0.94 0.01 0.05
Matches are distributed among these distances:
122 10 0.02
123 259 0.54
124 166 0.35
125 12 0.03
126 8 0.02
127 10 0.02
128 1 0.00
130 5 0.01
131 7 0.01
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (124 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
Found at i:14284 original size:149 final size:144
Alignment explanation
Indices: 14101--14592 Score: 452
Period size: 149 Copynumber: 3.3 Consensus size: 144
14091 TTTGATGATT
* *
14101 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTT-ATAATAATCATTATAAAAATGA-TT-
* * *
14166 GTAATAATCATTATAAAAATGATTTAAT-A-ATGATTTA-AAT-ATTTAATGATTTGATGATT-T
63 -TAATAATCATT-T--AAAT-ATTTAATGATATGATTTAGAATGATTTAAT-A-ATAATCATTAT
14226 AGTAATGATTGATAATAATCATTA
121 AGTAATGATTGATAATAATCATTA
14250 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTA-TAATAATCATTATAAAAATGATTTA
* *
14315 ATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAA
65 ATAATCATTTAAATATTTAATGA--T-ATGATTTAG-AATGATTTAATAATAATCATTATAGTAA
14380 TGATTGATAATAATCATTA
126 TGATTGATAATAATCATTA
* * *
14399 TAATAATGATTT-AGTAATAATCATTATAAAAATGA-TT-TAATAATGATT-T--AAAT-ATTTA
1 TAGTAATGATTTGA-TAATAATCATTATAATAATGATTTATAATAATCATTATAAAAATGATTTA
* * * * *
14457 ATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATT
65 AT-A----ATCATTTA--AAT-ATTTAATGAT-ATGATT-TAG-AATGATTTAATAATAATCATT
* *
14522 ATAATAATGATTTAGTAATAATCATTA
119 ATAGTAATGATTGA-TAATAATCATTA
* *
14549 TAATAATGATTT-AGTAATAATCATTATAAAAATGATTTAATAAT
1 TAGTAATGATTTGA-TAATAATCATTATAATAATGATTT-ATAAT
14593 GATTTAAATA
Statistics
Matches: 303, Mismatches: 16, Indels: 44
0.83 0.04 0.12
Matches are distributed among these distances:
142 14 0.05
143 10 0.03
145 2 0.01
146 20 0.07
147 16 0.05
148 18 0.06
149 157 0.52
150 60 0.20
151 2 0.01
153 4 0.01
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (144 bp):
TAGTAATGATTTGATAATAATCATTATAATAATGATTTATAATAATCATTATAAAAATGATTTAA
TAATCATTTAAATATTTAATGATATGATTTAGAATGATTTAATAATAATCATTATAGTAATGATT
GATAATAATCATTA
Found at i:14501 original size:247 final size:247
Alignment explanation
Indices: 14048--14667 Score: 996
Period size: 247 Copynumber: 2.5 Consensus size: 247
14038 ATGTATTTAT
14048 TAATCATTAT-AAAATGA-TTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
14111 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCA
14176 TTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTGATAA
131 TTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTGATAA
14241 TAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
196 TAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
14293 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
14358 TTGATAATAATCATTATAGTAATGA-TTGATAATAATCATTATAATAATGATTTAGTAATAATCA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCA
14422 TTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATA
131 TTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGA-TTGATA
14487 ATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
195 ATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
* *
14540 TAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAAT-A----ATGATTTA-
1 TAATCATTATAAAAATGA-TT--TAATAATGATT-T--AAAT-ATTTAATGATTTGATGATTTAG
* * * *
14599 -AAT-ATTTAATGATTTGATGATT-TAGTAATGATTTGATAATAATCATTATAATAATGATTTTA
59 TAATGATTTGAT-A-ATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGA-TTTA
14661 -TAATAAT
121 GTAATAAT
14668 TATTTAGTTA
Statistics
Matches: 355, Mismatches: 6, Indels: 25
0.92 0.02 0.06
Matches are distributed among these distances:
245 10 0.03
246 110 0.31
247 160 0.45
248 40 0.11
249 12 0.03
250 10 0.03
251 1 0.00
253 5 0.01
254 7 0.02
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (247 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCA
TTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTGATAA
TAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
Found at i:14718 original size:14 final size:14
Alignment explanation
Indices: 14104--14727 Score: 203
Period size: 12 Copynumber: 46.1 Consensus size: 14
14094 GATGATTTAG
*
14104 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
14118 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
14130 TAATGATTTGATAA
1 TAATGATTTAATAA
*
14144 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
14156 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
14170 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
14182 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
14193 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
14209 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
14228 TAATGA-TTGATAA
1 TAATGATTTAATAA
* *
14241 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
14253 TAATGATTTGATAA
1 TAATGATTTAATAA
*
14267 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
14279 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
14293 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
14305 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
14316 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
14332 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
14351 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
14365 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
14377 TAATGA-TTGATAA
1 TAATGATTTAATAA
*
14390 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
14402 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
14416 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
14428 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
14439 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
14455 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
14474 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
14488 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
14500 TAATGATTTGATAA
1 TAATGATTTAATAA
*
14514 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
14526 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
14540 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
14552 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
14566 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
14578 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
14589 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
14605 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
14624 TAATGATTTGATAA
1 TAATGATTTAATAA
*
14638 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
14650 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
14664 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
14676 T-ATTATTTAGTAA
1 TAATGATTTAATAA
14689 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
14699 TAATGATTTAATAC
1 TAATGATTTAATAA
14713 TAATGATTTAATAA
1 TAATGATTTAATAA
14727 T
1 T
14728 TATTACTAAT
Statistics
Matches: 469, Mismatches: 80, Indels: 122
0.70 0.12 0.18
Matches are distributed among these distances:
10 4 0.01
11 46 0.10
12 134 0.29
13 66 0.14
14 120 0.26
15 9 0.02
16 43 0.09
18 6 0.01
19 33 0.07
20 8 0.02
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:14750 original size:38 final size:38
Alignment explanation
Indices: 14680--14753 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
14670 TTTAGTTATT
* **
14680 ATTTAGTAATTATTTATAATAATGATTTAATACTAATG
1 ATTTAATAATTATTTATAATAATGATAGAATACTAATG
*
14718 ATTTAATAATTA-TTACTAATAATTATAGAATACTAA
1 ATTTAATAATTATTTA-TAATAATGATAGAATACTAA
14754 CAAATGAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.10
38 28 0.90
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (38 bp):
ATTTAATAATTATTTATAATAATGATAGAATACTAATG
Found at i:14760 original size:150 final size:149
Alignment explanation
Indices: 14228--14741 Score: 541
Period size: 150 Copynumber: 3.5 Consensus size: 149
14218 GATGATTTAG
* * * * *
14228 TAATGATTGA-TAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTA
1 TAATGATTTAGTAATAAT-ATTATAATAATGATTTAATAATAATCATTATAAAAATGATTTAATA
* * * * * *
14292 ATAATCATT--ATA-AAAATGATTTAATAATGATTTA--AAT-ATTTAATGATTTGATGATT-TA
65 ATAAT--TTAAATATCAAATGA-TT--TGATGATTTAGTAATGATTTGAT-A-ATAATCATTATA
* *
14350 GTAATGATTTGATAATAATCATTATAG
123 ATAATGATTTGATAATAATCATTATAA
* *
14377 TAATGATTGA-TAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAATA
1 TAATGATTTAGTAATAAT-ATTATAATAATGATTTAATAATAATCATTATAAAAATGATTTAATA
* ** *
14441 ATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGA
65 ATAATTTAAATATCAAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAATAATGA
14506 TTTGATAATAATCATTATAA
130 TTTGATAATAATCATTATAA
*
14526 TAATGATTTAGTAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAATA
1 TAATGATTTAGTAATAAT-ATTATAATAATGATTTAATAATAATCATTATAAAAATGATTTAATA
* **
14591 ATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAATAATGA
65 ATAATTTAAATATCAAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAATAATGA
* * *
14656 TTTTATAATAATTATT-TAG
130 TTTGATAATAATCATTATAA
* * * * * * * *
14675 TTATTATTTAGTAATTAT-TTATAATAATGATTTAATACTAATGATT-TAATAATTA-TTACTAA
1 TAATGATTTAGTAATAATATTATAATAATGATTTAATAATAATCATTATAAAAATGATTTAATAA
14737 TAATT
66 TAATT
14742 ATAGAATACT
Statistics
Matches: 328, Mismatches: 29, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
145 10 0.03
146 7 0.02
147 36 0.11
148 6 0.02
149 126 0.38
150 143 0.44
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.45
Consensus pattern (149 bp):
TAATGATTTAGTAATAATATTATAATAATGATTTAATAATAATCATTATAAAAATGATTTAATAA
TAATTTAAATATCAAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAATAATGAT
TTGATAATAATCATTATAA
Found at i:14960 original size:17 final size:17
Alignment explanation
Indices: 14935--14967 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14925 ACTAAATATT
*
14935 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
14952 TAATGATTTGATACTA
1 TAATGATTTGATACTA
14968 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:14960 original size:25 final size:23
Alignment explanation
Indices: 14881--14960 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 23
14871 GATTTATTGT
14881 TAATATTTAATTATTTGATAC--
1 TAATATTTAATTATTTGATACTA
* *
14902 TAATGATTTAAAATAGTTGATTTACTA
1 TAAT-ATTT-AATTATTTGA--TACTA
14929 -AATATTTAATTATTTGATACTA
1 TAATATTTAATTATTTGATACTA
14951 GTAATGATTT
1 -TAAT-ATTT
14961 GATACTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
21 4 0.09
22 9 0.20
23 8 0.17
24 11 0.24
25 11 0.24
26 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (23 bp):
TAATATTTAATTATTTGATACTA
Found at i:17137 original size:15 final size:14
Alignment explanation
Indices: 17114--17144 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
17104 TACAACACTA
17114 AACTTTAATATAAT
1 AACTTTAATATAAT
17128 AACTTATAATATAAT
1 AACTT-TAATATAAT
17143 AA
1 AA
17145 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:17152 original size:16 final size:16
Alignment explanation
Indices: 17119--17165 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
17109 CACTAAACTT
*
17119 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
17134 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
17150 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
17166 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:17286 original size:32 final size:34
Alignment explanation
Indices: 17206--17287 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
17196 CTAAACCCTT
*
17206 AAAC-AACTAATAAAATATTCTTTTATATAACTA
1 AAACTAACTAATAAACTATTCTTTTATATAACTA
17239 AAACTAACTAATAAACTATT-TTTTCATTATAA-T-
1 AAACTAACTAATAAACTATTCTTTT-A-TATAACTA
*
17272 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
17288 TACTAACTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 11 0.25
33 12 0.27
34 16 0.36
35 5 0.11
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (34 bp):
AAACTAACTAATAAACTATTCTTTTATATAACTA
Found at i:17403 original size:44 final size:44
Alignment explanation
Indices: 17327--17460 Score: 138
Period size: 44 Copynumber: 3.1 Consensus size: 44
17317 TCAACAAACA
*
17327 AATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTT
1 AATATAAC-TAACTA-TTAAC-AAAACAAACTAATTAAATAATTTTT
* *
17374 TATATAACTAACTATTAACAAAACAAACTAATT-AATTATTTTT
1 AATATAACTAACTATTAACAAAACAAACTAATTAAATAATTTTT
17417 AACTAT-A-TAACTA-T--C-AAACATATACTAATTAAATAATTTTT
1 AA-TATAACTAACTATTAACAAAACA-A-ACTAATTAAATAATTTTT
17458 AAT
1 AAT
17461 TTATGTATAC
Statistics
Matches: 78, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
38 5 0.06
39 2 0.03
40 8 0.10
41 12 0.15
42 6 0.08
43 11 0.14
44 16 0.21
45 5 0.06
46 6 0.08
47 7 0.09
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (44 bp):
AATATAACTAACTATTAACAAAACAAACTAATTAAATAATTTTT
Found at i:17485 original size:41 final size:39
Alignment explanation
Indices: 17398--17485 Score: 88
Period size: 41 Copynumber: 2.2 Consensus size: 39
17388 TTAACAAAAC
*
17398 AAACTAATTAATTATTTTTAACTATATAACTATCAAACAT
1 AAACTAATTAATAATTTTTAACTATATAACTAT-AAACAT
* * * *
17438 ATACTAATTAAATAATTTTTAATTTATGTATACTAT-AACTT
1 AAACTAATT-AATAATTTTTAA-CTATATA-ACTATAAACAT
17479 AAACTAA
1 AAACTAA
17486 CAATCATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
40 8 0.21
41 21 0.54
42 5 0.13
43 5 0.13
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (39 bp):
AAACTAATTAATAATTTTTAACTATATAACTATAAACAT
Found at i:18044 original size:29 final size:30
Alignment explanation
Indices: 18001--18077 Score: 122
Period size: 29 Copynumber: 2.6 Consensus size: 30
17991 TAGGACTACA
18001 TGGGACTACATGGCGACCTACAAGGTCGCC
1 TGGGACTACATGGCGACCTACAAGGTCGCC
18031 -GGGACTACATGGCGACCTACAAGGTCGCC
1 TGGGACTACATGGCGACCTACAAGGTCGCC
* *
18060 TAGG-CTGCATGGCGACCT
1 TGGGACTACATGGCGACCT
18078 CTCCATTGGC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
29 42 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.30, G:0.31, T:0.17
Consensus pattern (30 bp):
TGGGACTACATGGCGACCTACAAGGTCGCC
Found at i:18128 original size:28 final size:28
Alignment explanation
Indices: 18096--18152 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
18086 GCTCGTATGA
* * *
18096 CTCGTCTAAGCCTGCATGGCGACCTCTC
1 CTCGTATAAGACTGCATAGCGACCTCTC
18124 CTCGTATAAGACTGCATAGCGACCTCTC
1 CTCGTATAAGACTGCATAGCGACCTCTC
18152 C
1 C
18153 ATTGGCTCGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.19, C:0.37, G:0.19, T:0.25
Consensus pattern (28 bp):
CTCGTATAAGACTGCATAGCGACCTCTC
Found at i:18169 original size:9 final size:9
Alignment explanation
Indices: 18155--18194 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
18145 ACCTCTCCAT
18155 TGGCTCGTA
1 TGGCTCGTA
18164 TGGCTCGTATA
1 TGGCTCG--TA
*
18175 TGGCTTGTA
1 TGGCTCGTA
18184 TGGCTCGTA
1 TGGCTCGTA
18193 TG
1 TG
18195 TCACCCAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.12, C:0.17, G:0.33, T:0.38
Consensus pattern (9 bp):
TGGCTCGTA
Found at i:18184 original size:20 final size:20
Alignment explanation
Indices: 18155--18193 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
18145 ACCTCTCCAT
18155 TGGCTCGTATGGCTCGTATA
1 TGGCTCGTATGGCTCGTATA
*
18175 TGGCTTGTATGGCTCGTAT
1 TGGCTCGTATGGCTCGTAT
18194 GTCACCCAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.31, T:0.38
Consensus pattern (20 bp):
TGGCTCGTATGGCTCGTATA
Found at i:18207 original size:21 final size:21
Alignment explanation
Indices: 18181--18227 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
18171 TATATGGCTT
18181 GTATGGCTCGTATGTCACCCA
1 GTATGGCTCGTATGTCACCCA
*
18202 GTATGGCTCGTATGTCACCCC
1 GTATGGCTCGTATGTCACCCA
18223 GTATG
1 GTATG
18228 TCGCCTGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.30
Consensus pattern (21 bp):
GTATGGCTCGTATGTCACCCA
Found at i:18270 original size:29 final size:29
Alignment explanation
Indices: 18228--18309 Score: 155
Period size: 29 Copynumber: 2.8 Consensus size: 29
18218 ACCCCGTATG
*
18228 TCGCCTGGATTGCATGGCGTCCTACAAGA
1 TCGCATGGATTGCATGGCGTCCTACAAGA
18257 TCGCATGGATTGCATGGCGTCCTACAAGA
1 TCGCATGGATTGCATGGCGTCCTACAAGA
18286 TCGCATGGATTGCATGGCGTCCTA
1 TCGCATGGATTGCATGGCGTCCTA
18310 TGGCCATCAC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.26
Consensus pattern (29 bp):
TCGCATGGATTGCATGGCGTCCTACAAGA
Found at i:18605 original size:2 final size:2
Alignment explanation
Indices: 18598--18628 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18588 CTAAAAGTGA
18598 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18629 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18633 original size:2 final size:2
Alignment explanation
Indices: 18628--18665 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
18618 ATATATATAT
18628 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
18666 GGGATATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21757 original size:241 final size:241
Alignment explanation
Indices: 21333--21814 Score: 939
Period size: 241 Copynumber: 2.0 Consensus size: 241
21323 CATACTAGGT
21333 AGCGCTTATATAATGTAATATGTAACGCTTATATTTACCTATTTTATAAGTAAATCGGTATATTT
1 AGCGCTTATATAATGTAATATGTAACGCTTATATTTACCTATTTTATAAGTAAATCGGTATATTT
21398 ATACCGATAACATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTAT
66 ATACCGATAACATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTAT
*
21463 AAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTT
131 AAAAAAGAATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTT
21528 CATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTGCACAA
196 CATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTGCACAA
21574 AGCGCTTATATAATGTAATATGTAACGCTTATATTTACCTATTTTATAAGTAAATCGGTATATTT
1 AGCGCTTATATAATGTAATATGTAACGCTTATATTTACCTATTTTATAAGTAAATCGGTATATTT
*
21639 ATACCGATAACATTGCAAATTTACCTATTATATTATATTATATTGAAAGTGTCCATACTTTTTAT
66 ATACCGATAACATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTAT
21704 -AAAAAGAATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTT
131 AAAAAAGAATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTT
21768 CATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTGCACAA
196 CATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTGCACAA
21814 A
1 A
21815 AAATTATTTG
Statistics
Matches: 239, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
240 110 0.46
241 129 0.54
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (241 bp):
AGCGCTTATATAATGTAATATGTAACGCTTATATTTACCTATTTTATAAGTAAATCGGTATATTT
ATACCGATAACATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTAT
AAAAAAGAATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTT
CATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTGCACAA
Found at i:22060 original size:23 final size:23
Alignment explanation
Indices: 22025--22097 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
22015 ATACTTTACA
* *
22025 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
22048 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
22071 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
22094 ATAT
1 ATAT
22098 TTATTACCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:22490 original size:434 final size:428
Alignment explanation
Indices: 21674--22711 Score: 1891
Period size: 434 Copynumber: 2.4 Consensus size: 428
21664 TATTATATTA
*
21674 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
21739 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
21804 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTT
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTAT--AA-AATATTTAGAATTTTTAATTT
21869 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
193 AATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
*
21934 CTTAAAACTCACTTAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACT
258 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACT
* *
21999 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGCTACCTA
323 TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCAATTACATTATATAAACGATACCTA
22064 TTACATTATATAAGCGCTACCTATTACATCATATTTATTACC
388 TTACATTATATAAGCGCTACCTATTACATCATATTT-TTACC
22106 TATTACCTATTATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTAT
1 TA-T---TA-TATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTAT
22171 GTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATA
61 GTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATA
*
22236 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTTATAATTTTTAAT
126 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTTAGAATTTTTAAT
22301 TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
191 TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
* * *
22366 ATCTTAAAACTCACTCAAAGGATAACCTTAAATTAATTTTTTCCACAGTGAAAAAAGTATGGACA
256 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACA
22431 CTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCAATTACATTATATAAACGATACC
321 CTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCAATTACATTATATAAACGATACC
22496 TATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
386 TATTACATTATATAAGCGCTACCTATTACATCATATTTTTACC
22539 TATTATATTG-AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
1 TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
*
22603 TTATGTTTCAA-TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
66 TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
22667 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
131 ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
22712 ATATTTAGAA
Statistics
Matches: 591, Mismatches: 10, Indels: 16
0.96 0.02 0.03
Matches are distributed among these distances:
426 97 0.16
427 65 0.11
428 5 0.01
429 2 0.00
432 3 0.01
433 8 0.01
434 245 0.41
435 2 0.00
436 2 0.00
437 162 0.27
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (428 bp):
TATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAAT
TTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTC
ATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTTAGAATTTTTAATTTAAT
AATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTT
ATAAAAAGGATAGATACTTTACAATATAACCACTACCAATTACATTATATAAACGATACCTATTA
CATTATATAAGCGCTACCTATTACATCATATTTTTACC
Found at i:22495 original size:23 final size:23
Alignment explanation
Indices: 22469--22531 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
22459 ATATAACCAC
*
22469 TACCAATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
22492 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
22515 TACCTATTACATCATAT
1 TACCTATTACATTATAT
22532 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:23001 original size:39 final size:39
Alignment explanation
Indices: 22947--23033 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
22937 TCAAGTTGTA
*
22947 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
22986 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
23025 GATTTTGAT
1 GATTTTGAT
23034 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:23327 original size:18 final size:18
Alignment explanation
Indices: 23304--23340 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23294 CGAAATATAT
23304 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
23322 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
23340 A
1 A
23341 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:23774 original size:25 final size:25
Alignment explanation
Indices: 23727--23776 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
23717 ATTATTTTTC
* *
23727 CAAATAATGTACCCATAATAATGTT
1 CAAATAATGTACCCACAACAATGTT
*
23752 CAAATAATGTACCTACAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
23777 TAATTGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:24086 original size:23 final size:23
Alignment explanation
Indices: 24060--24122 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
24050 ATATAACCAC
*
24060 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAACGA
* *
24083 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
24106 TACCTATTACATCATAT
1 TACCTATTACATTATAT
24123 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:24521 original size:25 final size:25
Alignment explanation
Indices: 24464--24529 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
24454 CACTCAAAAG
*
24464 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
24489 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
24514 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
24530 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:27524 original size:183 final size:183
Alignment explanation
Indices: 26999--27491 Score: 853
Period size: 183 Copynumber: 2.7 Consensus size: 183
26989 TTAAAATTAC
* *
26999 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* * * * *
27064 ATTAGAAAGTGTCGACATAGGTTGTAGACCTATTCGCTCATAAAATCGGTATATATATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* *
27129 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
27182 CGACACTTTTTTAAATCGTATCGATACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
* *
27247 ATTAAAAAGTGTCGATAAAGGTTGTAGACCTATTCACGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
27312 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
27365 CGACACTTTTTGACAAT-GTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
1 CGACACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAA
27429 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
65 TATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
27492 ATAGCATTGC
Statistics
Matches: 293, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
183 290 0.99
184 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:27911 original size:23 final size:23
Alignment explanation
Indices: 27882--27944 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
27872 ATATAACCAC
27882 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
27905 TATCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
27928 TACCTATTACATCATAT
1 TACCTATTACATTATAT
27945 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:29916 original size:198 final size:198
Alignment explanation
Indices: 29578--30345 Score: 1412
Period size: 198 Copynumber: 3.9 Consensus size: 198
29568 TTTAAATTAG
* *
29578 TATCGACACAAACTAAAAAGTGTCAACACATTATTTAGACATATTCTCTCATAAAATCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
29643 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
*
29708 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGTACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
29773 AAA
196 AAA
*
29776 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
29841 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
*
29906 GATACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
131 GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
29971 AAA
196 AAA
29974 TATCGACAGC-AACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACA-CAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
30038 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTCGGAT
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
* *
30103 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
130 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCA
30168 AAAA
195 AAAA
30172 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
30237 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
*
30302 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCT
129 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCT
30346 ATTGGCCATA
Statistics
Matches: 555, Mismatches: 11, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
197 1 0.00
198 401 0.72
199 94 0.17
200 59 0.11
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (198 bp):
TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCAA
AAA
Found at i:30513 original size:19 final size:19
Alignment explanation
Indices: 30467--30515 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
30457 TTATATTCAC
*
30467 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
30486 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
30505 ATACAAAATTA
1 ATACAAAATTA
30516 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:32352 original size:32 final size:32
Alignment explanation
Indices: 32310--32370 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
32300 TTAATATCAC
*
32310 CCCTTAACACCCCAACTTCTTTCACCACTTCA
1 CCCTCAACACCCCAACTTCTTTCACCACTTCA
* *
32342 CCCTCAACACCTCTACTTCTTTCACCACT
1 CCCTCAACACCCCAACTTCTTTCACCACT
32371 CCATCTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.30
Consensus pattern (32 bp):
CCCTCAACACCCCAACTTCTTTCACCACTTCA
Found at i:32429 original size:21 final size:21
Alignment explanation
Indices: 32404--32447 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
32394 CCCCTTATGC
32404 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
32425 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
32446 CT
1 CT
32448 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:34673 original size:17 final size:18
Alignment explanation
Indices: 34651--34693 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
34641 ATATATCCAG
34651 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
34668 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
34688 TATCAT
1 TATCAT
34694 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:34711 original size:20 final size:19
Alignment explanation
Indices: 34656--34702 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
34646 TCCAGTATCA
34656 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
34675 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
34696 TTTTACC
1 TTTTACC
34703 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:35048 original size:181 final size:180
Alignment explanation
Indices: 34623--35092 Score: 694
Period size: 181 Copynumber: 2.6 Consensus size: 180
34613 CGTACTTACG
* * *
34623 AAAGTATCGACACTTTCAATATATCCAGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTT-ATACCGGTTT
* *
34688 TATCATATTTTTACCTGTTATATCGTTGTGGATCGAT--ATTTTTTTAAAGTATCGACACATTAT
65 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
*
34751 AGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
*
34802 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGTAACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTAT-ACCGGTTT
* * *
34867 TATCATATTTTTACCCGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
65 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** *
34932 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * * *
34984 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCTATA-CGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTT-TATACCGGTTT
* * *
35048 TGTCATAGTTTTACCTGTTATATCGTTTTGGATCGACACATTTTT
65 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
35093 ATTTGGATCG
Statistics
Matches: 262, Mismatches: 24, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
178 1 0.00
179 93 0.35
181 116 0.44
182 50 0.19
183 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (180 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTATACCGGTTTT
ATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATA
GGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:35609 original size:228 final size:227
Alignment explanation
Indices: 35162--35649 Score: 881
Period size: 228 Copynumber: 2.1 Consensus size: 227
35152 ACTTTTATAC
35162 GTAT-GACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCATTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCATTTT
35226 TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCACTTACACAAAAAATT
66 TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCACTTACACAAAAAATT
*
35291 ATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAATA
131 ATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGA
*
35356 TAATAATAAATATGTTTTCCACAGTGAAATAA
196 TAATAATAAATATATTTTCCACAGTGAAATAA
35388 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTC-ATTT
* * *
35453 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTATACACAAAAT
65 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCACTTACACAAAAAAT
35518 TATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
130 TATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
35583 GATAATAATAAATATATTTT-CACAGTGAAATAA
194 GATAATAATAAATATATTTTCCACAGTGAAATAA
* *
35616 GTATGTACACTTTTATAAAAAGGATATATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
35650 ACAATATAAC
Statistics
Matches: 252, Mismatches: 7, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
226 4 0.02
227 55 0.22
228 120 0.48
229 73 0.29
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.45
Consensus pattern (227 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCATTTT
TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCACTTACACAAAAAATT
ATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGA
TAATAATAAATATATTTTCCACAGTGAAATAA
Found at i:36056 original size:2 final size:2
Alignment explanation
Indices: 36049--36088 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
36039 AGACATATGA
36049 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
36089 GGGGGGGAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:37063 original size:28 final size:28
Alignment explanation
Indices: 37032--37090 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
37022 AAGCTAGCTT
*
37032 GGACTGGATTCATTTATTACGCTTGGGA
1 GGACTGGATTCATTTATTACACTTGGGA
*
37060 GGACTGGATTCATTTATTACATTTGGGA
1 GGACTGGATTCATTTATTACACTTGGGA
37088 GGA
1 GGA
37091 ACAAAATCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.36
Consensus pattern (28 bp):
GGACTGGATTCATTTATTACACTTGGGA
Found at i:38984 original size:29 final size:29
Alignment explanation
Indices: 38952--39049 Score: 81
Period size: 29 Copynumber: 3.3 Consensus size: 29
38942 TTAAATTGGC
38952 CCTTAAACTTTTGAATATTTTAATTTTAT
1 CCTTAAACTTTTGAATATTTTAATTTTAT
* *** *
38981 CCTTAAATTATTTCTCTAATTTTAA-ATTAGT
1 CCTTAAACT-TTTGAAT-ATTTTAATTTTA-T
** *
39012 TATTAAACTTTTGAATATTCTAATTTTAT
1 CCTTAAACTTTTGAATATTTTAATTTTAT
*
39041 CCCTAAACT
1 CCTTAAACT
39050 ATGACCCTCT
Statistics
Matches: 49, Mismatches: 16, Indels: 8
0.67 0.22 0.11
Matches are distributed among these distances:
29 21 0.43
30 14 0.29
31 14 0.29
ACGTcount: A:0.33, C:0.13, G:0.03, T:0.51
Consensus pattern (29 bp):
CCTTAAACTTTTGAATATTTTAATTTTAT
Found at i:41806 original size:6 final size:6
Alignment explanation
Indices: 41795--41820 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
41785 CACAGATAAG
41795 AAATCA AAATCA AAATCA AAATCA AA
1 AAATCA AAATCA AAATCA AAATCA AA
41821 GAATTATTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATCA
Found at i:42024 original size:50 final size:51
Alignment explanation
Indices: 41971--42067 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
41961 AAGTAAGGTT
* *
41971 TTTTTGATCTGGG-TTTTTGTTTTTAA-TTCATTTGTTTCATGTAAAAGGC
1 TTTTTGATCTGGGTTTTTTGTTTTTAATTTCATTTGTTCCATGCAAAAGGC
42020 TTTTTGATCTGGGTTTTTTGTTTTTAATTTCATTTGTTCCATGCAAAA
1 TTTTTGATCTGGGTTTTTTGTTTTTAATTTCATTTGTTCCATGCAAAA
42068 TGATGCTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 13 0.30
50 13 0.30
51 18 0.41
ACGTcount: A:0.19, C:0.09, G:0.16, T:0.56
Consensus pattern (51 bp):
TTTTTGATCTGGGTTTTTTGTTTTTAATTTCATTTGTTCCATGCAAAAGGC
Found at i:45278 original size:96 final size:96
Alignment explanation
Indices: 45158--45345 Score: 306
Period size: 96 Copynumber: 2.0 Consensus size: 96
45148 CATAGCGAAT
* **
45158 TTGGAGTACCTTGCGATGTTGGAGCAGT-TCTTAGACTTGAAAGAAAATCCAGAAGAGAACTTAG
1 TTGGAGTACATTGCGAACTTGGAGCAGTAT-TTAGACTTGAAAGAAAATCCAGAAGAGAACTTAG
*
45222 AGGAGCAGATGTTGCAGCAAGAATCAGAAAAC
65 AGGAGCAGAAGTTGCAGCAAGAATCAGAAAAC
* *
45254 TTGGAGTACATTGCGAACTTGGAGCAGTATTTTGGCTTGAAAGAAAATCCAGAAGAGAACTTAGA
1 TTGGAGTACATTGCGAACTTGGAGCAGTATTTAGACTTGAAAGAAAATCCAGAAGAGAACTTAGA
45319 GGAGCAGAAGTTGCAGCAAGAATCAGA
66 GGAGCAGAAGTTGCAGCAAGAATCAGA
45346 GCAGCAGAAC
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
96 84 0.99
97 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.22
Consensus pattern (96 bp):
TTGGAGTACATTGCGAACTTGGAGCAGTATTTAGACTTGAAAGAAAATCCAGAAGAGAACTTAGA
GGAGCAGAAGTTGCAGCAAGAATCAGAAAAC
Found at i:45393 original size:72 final size:72
Alignment explanation
Indices: 45289--45780 Score: 849
Period size: 72 Copynumber: 6.8 Consensus size: 72
45279 AGTATTTTGG
* *
45289 CTTGAAAGAAAATCCAGAAGAGAACTTAGAGGAGCAGAAGTTGCAGCAAGAATCAGAGCAGCAGA
1 CTTGAAAGAAAATCCAGAAGAGAACTTAGAGGAGCAGAAGTTGCAGCAAGAATCAGAACATCAGA
45354 ACTTAAA
66 ACTTAAA
*
45361 CTTGACAGAAAATCCAGAAGAGAACTTAGAGGAGCAGAAGTTGCAGCAAGAATCAGAACATCAGA
1 CTTGAAAGAAAATCCAGAAGAGAACTTAGAGGAGCAGAAGTTGCAGCAAGAATCAGAACATCAGA
45426 ACTTAAA
66 ACTTAAA
* *
45433 CTTGAAAGAAAATCCAGAAGAGAAGTTAGAGGAGCTGAAGTTGCAGCAAGAATCAGAACATCAGA
1 CTTGAAAGAAAATCCAGAAGAGAACTTAGAGGAGCAGAAGTTGCAGCAAGAATCAGAACATCAGA
45498 ACTTAAA
66 ACTTAAA
* *
45505 CTTGAAAGAAAATCCAGAAGAGAACTTAGAGGAGCAGAAGGTGCAGCAAGAATCAGATCATCAGA
1 CTTGAAAGAAAATCCAGAAGAGAACTTAGAGGAGCAGAAGTTGCAGCAAGAATCAGAACATCAGA
45570 ACTTAAA
66 ACTTAAA
* * *
45577 CTTGACAGAAAATCTAGAAGATAACTTAGAGGAGCAGAAGTTGCAGCAAGAATCAGAACATCAGA
1 CTTGAAAGAAAATCCAGAAGAGAACTTAGAGGAGCAGAAGTTGCAGCAAGAATCAGAACATCAGA
45642 ACTTAAA
66 ACTTAAA
** *
45649 CTTGTCAGAAAATCCAGAAGAGAACTTAGAGGAGCAGAAGATGCAGCAAGAATCAGAACATCAGA
1 CTTGAAAGAAAATCCAGAAGAGAACTTAGAGGAGCAGAAGTTGCAGCAAGAATCAGAACATCAGA
45714 ACTTAAA
66 ACTTAAA
* *
45721 CTTGAAAGAAAATCCAGAAGAGAACTTAGAGGAGAAAAAGTTGCAGCAAGAATCAGAACA
1 CTTGAAAGAAAATCCAGAAGAGAACTTAGAGGAGCAGAAGTTGCAGCAAGAATCAGAACA
45781 ACAACCAAAA
Statistics
Matches: 396, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 396 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (72 bp):
CTTGAAAGAAAATCCAGAAGAGAACTTAGAGGAGCAGAAGTTGCAGCAAGAATCAGAACATCAGA
ACTTAAA
Found at i:51068 original size:107 final size:108
Alignment explanation
Indices: 50957--51230 Score: 453
Period size: 107 Copynumber: 2.6 Consensus size: 108
50947 TAAGCAATAT
*
50957 TGGTAGTATCGATACTACATTGTCAGTATCGATACTTCCATTACCTTTGGTATCGATACCCCTTT
1 TGGTAGTATCGATACTACATTGTGAGTATCGATACTTCCATTACCTTTGGTATCGATACCCCTTT
* *
51022 AGG-TATCTGTACCATTTTTGCATACTGGAATTTGAGCAATGG
66 AGGCTATCGGTACCATTTTTGCATACTGGAATTTGAGCAATGC
*
51064 TGGTAGTATCGATACTACATTGTGAGTATCGATACTTCCATTACCTTTGGCATCGATA-CCCTTT
1 TGGTAGTATCGATACTACATTGTGAGTATCGATACTTCCATTACCTTTGGTATCGATACCCCTTT
* *
51128 TGGCTATCGGTACCATTTTTGCATTCTGGAATTTGAGCAATGC
66 AGGCTATCGGTACCATTTTTGCATACTGGAATTTGAGCAATGC
* * *
51171 TGGTAGTATCGATACTACCTTGTGAGTATTGATACTTCCATTACCTTTGGTATCGGTACC
1 TGGTAGTATCGATACTACATTGTGAGTATCGATACTTCCATTACCTTTGGTATCGATACC
51231 ATATGAATAA
Statistics
Matches: 155, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
106 8 0.05
107 146 0.94
108 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (108 bp):
TGGTAGTATCGATACTACATTGTGAGTATCGATACTTCCATTACCTTTGGTATCGATACCCCTTT
AGGCTATCGGTACCATTTTTGCATACTGGAATTTGAGCAATGC
Found at i:51141 original size:18 final size:17
Alignment explanation
Indices: 51109--51151 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
51099 TTCCATTACC
*
51109 TTTGGCATCGATACCCT
1 TTTGGCATCGATACCAT
*
51126 TTTGGCTATCGGTACCAT
1 TTTGGC-ATCGATACCAT
*
51144 TTTTGCAT
1 TTTGGCAT
51152 TCTGGAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (17 bp):
TTTGGCATCGATACCAT
Found at i:53389 original size:64 final size:63
Alignment explanation
Indices: 53321--53499 Score: 209
Period size: 64 Copynumber: 2.8 Consensus size: 63
53311 TGGAACACTT
* * * ** **
53321 AGTGCATCGGTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAGTCTG
1 AGTGCATCGATGCA-TAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAA-AACCCA
* *
53385 AGTGCATCGATGCAT-TGCTTGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAAAACCCA
1 AGTGCATCGATGCATAAG--TGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
*
53449 AGTGCATCGATGCATAGAGAGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCATA-AGTGTGCATCGATGCATGAAATGCATTCGATGTT
53500 CAATTTATTC
Statistics
Matches: 99, Mismatches: 11, Indels: 10
0.82 0.09 0.08
Matches are distributed among these distances:
62 1 0.01
64 95 0.96
65 2 0.02
66 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (63 bp):
AGTGCATCGATGCATAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:53518 original size:64 final size:65
Alignment explanation
Indices: 53341--53527 Score: 204
Period size: 64 Copynumber: 2.9 Consensus size: 65
53331 TGCACCAAGT
* * * * * **
53341 GTGCATCGATGCATAAAATGCATTCGATGTTTGAAAATAGTC--TGAGTGCATCGATGCATTGCT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAATATACTCAATG-GTGCATCGATGCATAGAG
*
53404 T
65 A
* * *
53405 GTGCATCGATGCATGAAATGCATTCGATGTTTTAATAAAACCCAA--GTGCATCGATGCATAGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAAT-ATACTCAATGGTGCATCGATGCATAGAG
53468 A
65 A
* *
53469 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCAATGGTGCATCGATGCAT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAATATACTCAATGGTGCATCGATGCAT
53528 GGATTGATGC
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
62 4 0.04
63 5 0.05
64 91 0.88
65 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAATATACTCAATGGTGCATCGATGCATAGAGA
Found at i:62149 original size:19 final size:19
Alignment explanation
Indices: 62125--62176 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
62115 TAAAATTCAG
62125 GTGCATCGATGCATAGAGA
1 GTGCATCGATGCATAGAGA
62144 GTGCATCGATGCATAGAGA
1 GTGCATCGATGCATAGAGA
62163 GTGCATCGATGCAT
1 GTGCATCGATGCAT
62177 GAAATGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (19 bp):
GTGCATCGATGCATAGAGA
Found at i:67384 original size:45 final size:45
Alignment explanation
Indices: 67315--67489 Score: 278
Period size: 45 Copynumber: 3.9 Consensus size: 45
67305 TCGTTGCCGG
* * *
67315 TCGACAATAAAACTCTGATCGAAGTACCCAAGGATAGCAAGCATA
1 TCGACAATGAAACTCTGGTCGAAGTACCCAAGGAGAGCAAGCATA
* *
67360 TCAACAATGAAACTCTGGTTGAAGTACCCAAGGAGAGCAAGCATA
1 TCGACAATGAAACTCTGGTCGAAGTACCCAAGGAGAGCAAGCATA
*
67405 TCGACAATGAAACTCTGGTCGAAGTACCCAAGGAGAGCAAGCGTA
1 TCGACAATGAAACTCTGGTCGAAGTACCCAAGGAGAGCAAGCATA
* *
67450 TCGACAATGAAACTCTAGTCGAAGTAACCAAGGAGAGCAA
1 TCGACAATGAAACTCTGGTCGAAGTACCCAAGGAGAGCAA
67490 ACACAATACC
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 120 1.00
ACGTcount: A:0.40, C:0.21, G:0.22, T:0.17
Consensus pattern (45 bp):
TCGACAATGAAACTCTGGTCGAAGTACCCAAGGAGAGCAAGCATA
Found at i:73736 original size:89 final size:88
Alignment explanation
Indices: 73584--73817 Score: 369
Period size: 89 Copynumber: 2.6 Consensus size: 88
73574 GGTAAGACCT
* * *
73584 TACGGACCTAAGGATACCCTTGGGTAGGCCCATAGGCCCCAAGGTATATCCTTAGGTTGGTTCCC
1 TACGGATCTAAGGATACCCTTGGGTAGGCCCATAGG-CCCAAGGAATATCCTTAGGTTAGTTCCC
*
73649 TTTGCTGTGTGCTTAGGGTAACTC
65 TTTGCTGTGTGCTTAGGGTAACCC
* *
73673 TACGGATCTAAGGATACCCTTGGATAGGCCCATAGGCTCCAAGGCATATCCTTAGGTTAGTTCCC
1 TACGGATCTAAGGATACCCTTGGGTAGGCCCATAGGC-CCAAGGAATATCCTTAGGTTAGTTCCC
73738 TTTGCTGTGTGCTTAGGGTAACCC
65 TTTGCTGTGTGCTTAGGGTAACCC
**
73762 TACGGATCTAAGGATACCCTTGGGTAGGCTTATAGGCCCAAAGGAATATCCTTAGG
1 TACGGATCTAAGGATACCCTTGGGTAGGCCCATAGGCCC-AAGGAATATCCTTAGG
73818 CTGGCTCTTT
Statistics
Matches: 134, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
88 3 0.02
89 131 0.98
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (88 bp):
TACGGATCTAAGGATACCCTTGGGTAGGCCCATAGGCCCAAGGAATATCCTTAGGTTAGTTCCCT
TTGCTGTGTGCTTAGGGTAACCC
Found at i:76394 original size:15 final size:14
Alignment explanation
Indices: 76353--76398 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
76343 TTACTACACA
*
76353 TTTTTTCTTATCTT
1 TTTTTTCTTTTCTT
**
76367 TTTTTTCACTTCTT
1 TTTTTTCTTTTCTT
76381 TTTTTTCTTTTTCTT
1 TTTTTTC-TTTTCTT
76396 TTT
1 TTT
76399 AAGCTGCTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTTCTTTTCTT
Found at i:78466 original size:26 final size:28
Alignment explanation
Indices: 78414--78471 Score: 86
Period size: 26 Copynumber: 2.1 Consensus size: 28
78404 TCTTCGAGTT
78414 TTTGTACTTCTTGTCAACGCCTAGGCAA
1 TTTGTACTTCTTGTCAACGCCTAGGCAA
78442 TTTGTA-TTCTTGT-AACGCCGT-GGCAA
1 TTTGTACTTCTTGTCAACGCC-TAGGCAA
78468 TTTG
1 TTTG
78472 ATCCACTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 15 0.52
27 8 0.28
28 6 0.21
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (28 bp):
TTTGTACTTCTTGTCAACGCCTAGGCAA
Found at i:90434 original size:2 final size:2
Alignment explanation
Indices: 90427--90483 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
90417 ACTCTACATA
90427 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
90469 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
90484 ATAAAAAATC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90814 original size:2 final size:2
Alignment explanation
Indices: 90807--90835 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
90797 CATCCATTTC
90807 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90836 ATCCAACTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:94195 original size:22 final size:22
Alignment explanation
Indices: 94167--94231 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
94157 AGTCGAGGGT
* *
94167 TACATAGGTCCTTCGGGACATA
1 TACATAGGTCATTCGGGACAAA
94189 TACATAGGTCATTCGGGACAAA
1 TACATAGGTCATTCGGGACAAA
*
94211 TTCATAGGTCATTCGGGACAA
1 TACATAGGTCATTCGGGACAA
94232 TTTCACATGC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (22 bp):
TACATAGGTCATTCGGGACAAA
Found at i:101006 original size:22 final size:22
Alignment explanation
Indices: 100895--100996 Score: 150
Period size: 22 Copynumber: 4.6 Consensus size: 22
100885 AGTCAAGGGT
*
100895 TACATAGGTCCTTCGGGACATA
1 TACAGAGGTCCTTCGGGACATA
100917 TACAGAGGTCCTTCGGGACATA
1 TACAGAGGTCCTTCGGGACATA
100939 TACAGAGGTCCTTCGGGACATA
1 TACAGAGGTCCTTCGGGACATA
* * *
100961 TACAGAGGTCTTTCAGGACAAA
1 TACAGAGGTCCTTCGGGACATA
* *
100983 TTCATAGGTCCTTC
1 TACAGAGGTCCTTC
100997 AAGACAAATT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 73 1.00
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (22 bp):
TACAGAGGTCCTTCGGGACATA
Found at i:101491 original size:23 final size:23
Alignment explanation
Indices: 101465--101509 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
101455 GTTTTAAAAG
*
101465 TATTGATGTAAAG-GTAAATTTTA
1 TATTAATG-AAAGTGTAAATTTTA
*
101488 TATTAATGAAAGTTTAAATTTT
1 TATTAATGAAAGTGTAAATTTT
101510 TACTGTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (23 bp):
TATTAATGAAAGTGTAAATTTTA
Found at i:104884 original size:49 final size:50
Alignment explanation
Indices: 104823--104940 Score: 159
Period size: 49 Copynumber: 2.4 Consensus size: 50
104813 GGAAAGCGTA
* *
104823 CCCCTGCACCGCGCTATATGCTGATTTGGCGCCACGTGGGTATAGCGC-C
1 CCCCTGCACCGCGCTATACGCTGATCTGGCGCCACGTGGGTATAGCGCGC
* * * *
104872 CTCCTGCCCCGCGATATACGGTGATCTGGCGCCACGTGGGTATAGCGCGC
1 CCCCTGCACCGCGCTATACGCTGATCTGGCGCCACGTGGGTATAGCGCGC
104922 CCCCTG-ATCCGCGCTATAC
1 CCCCTGCA-CCGCGCTATAC
104941 ATGGATATCT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 42 0.72
50 16 0.28
ACGTcount: A:0.14, C:0.36, G:0.28, T:0.21
Consensus pattern (50 bp):
CCCCTGCACCGCGCTATACGCTGATCTGGCGCCACGTGGGTATAGCGCGC
Found at i:105104 original size:12 final size:10
Alignment explanation
Indices: 105063--105103 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
105053 TTTATCATAC
105063 CAAATTCTCT
1 CAAATTCTCT
105073 CAAATTCTCT
1 CAAATTCTCT
105083 -AAATTTCTCT
1 CAAA-TTCTCT
*
105093 CAAATACTCT
1 CAAATTCTCT
105103 C
1 C
105104 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:105421 original size:111 final size:111
Alignment explanation
Indices: 105227--105448 Score: 399
Period size: 111 Copynumber: 2.0 Consensus size: 111
105217 TGAAAATCAT
*
105227 ATATCTCTACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * *
105292 TATTTAGTTGATTTATTTAATGCATGATTATTATATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
*
105338 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
105403 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
105449 TTTTTGTAAT
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACAGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:107344 original size:3 final size:3
Alignment explanation
Indices: 107336--107370 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
107326 ACCTGCTCAG
* *
107336 GAC GAC GAC GAC GAC GAC GAC GAT GAC GAT GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GA
107371 TGATGGTGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.34, C:0.26, G:0.34, T:0.06
Consensus pattern (3 bp):
GAC
Found at i:107371 original size:6 final size:6
Alignment explanation
Indices: 107336--107398 Score: 63
Period size: 6 Copynumber: 10.5 Consensus size: 6
107326 ACCTGCTCAG
* * * * * *
107336 GACGAC GACGAC GACGAC GACGAT GACGAT GACGAT GATGGT GACGAC
1 GACGAT GACGAT GACGAT GACGAT GACGAT GACGAT GACGAT GACGAT
*
107384 GACGAT GATGAT GAC
1 GACGAT GACGAT GAC
107399 AGCGAGGAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.35, T:0.13
Consensus pattern (6 bp):
GACGAT
Found at i:107375 original size:15 final size:15
Alignment explanation
Indices: 107336--107394 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
107326 ACCTGCTCAG
* *
107336 GACGACGACGACGAC
1 GACGACGATGATGAC
* *
107351 GACGACGATGACGAT
1 GACGACGATGATGAC
* *
107366 GACGATGATGGTGAC
1 GACGACGATGATGAC
107381 GACGACGATGATGA
1 GACGACGATGATGA
107395 TGACAGCGAG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.36, T:0.12
Consensus pattern (15 bp):
GACGACGATGATGAC
Found at i:130174 original size:67 final size:67
Alignment explanation
Indices: 130062--130210 Score: 280
Period size: 67 Copynumber: 2.2 Consensus size: 67
130052 AGAGAAGGTT
130062 AATTTCCCTTTTCTCATTGCACTTGGTCAGCTAAAGCATAAAAGTGTTAATTTTGCAAATTTTGG
1 AATTTCCCTTTTCTCATTGCACTTGGTCAGCTAAAGCATAAAAGTGTTAATTTTGCAAATTTTGG
130127 TC
66 TC
* *
130129 AATTTCCCTTTTCTCATTGCACTTGGTCAGCTAAAGCATAGAAGTGTTAATTTTGCTAATTTTGG
1 AATTTCCCTTTTCTCATTGCACTTGGTCAGCTAAAGCATAAAAGTGTTAATTTTGCAAATTTTGG
130194 TC
66 TC
130196 AATTTCCCTTTTCTC
1 AATTTCCCTTTTCTC
130211 CTTTTTTGTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 80 1.00
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.42
Consensus pattern (67 bp):
AATTTCCCTTTTCTCATTGCACTTGGTCAGCTAAAGCATAAAAGTGTTAATTTTGCAAATTTTGG
TC
Found at i:140679 original size:23 final size:23
Alignment explanation
Indices: 140588--140671 Score: 150
Period size: 23 Copynumber: 3.7 Consensus size: 23
140578 CATTATTATA
140588 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
140611 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
140634 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
140657 CGGCACTTCGGTGCA
1 TGGCACTACGGTGCA
140672 TTTATACGAG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.25
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:140786 original size:2 final size:2
Alignment explanation
Indices: 140779--140804 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
140769 AACAAATACA
140779 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
140805 GATGGATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:140976 original size:33 final size:37
Alignment explanation
Indices: 140939--141012 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 37
140929 AAATAATTTG
140939 ATGATAATGAT-AGAAA-TA-ATGATAATA-ATATAT
1 ATGATAATGATAAGAAAGTAGATGATAATATATATAT
* * *
140972 ATGATAATGCTAAGAAAGTAGATGATGATATATGTAT
1 ATGATAATGATAAGAAAGTAGATGATAATATATATAT
141009 ATGA
1 ATGA
141013 GTGTATTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 10 0.29
34 5 0.15
35 2 0.06
36 8 0.24
37 9 0.26
ACGTcount: A:0.49, C:0.01, G:0.18, T:0.32
Consensus pattern (37 bp):
ATGATAATGATAAGAAAGTAGATGATAATATATATAT
Found at i:141592 original size:43 final size:46
Alignment explanation
Indices: 141531--141622 Score: 145
Period size: 46 Copynumber: 2.1 Consensus size: 46
141521 AATTTCTTAT
141531 ATTTTAGAATTTAATTTAAA-TA-T-TTTTTATTAACACCATCATA
1 ATTTTAGAATTTAATTTAAATTATTATTTTTATTAACACCATCATA
* *
141574 ATTTTATAATTTAATTTAAATTATTATTTTTATTAATACCATCATA
1 ATTTTAGAATTTAATTTAAATTATTATTTTTATTAACACCATCATA
141620 ATT
1 ATT
141623 GTTTAACTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 19 0.43
44 2 0.05
45 1 0.02
46 22 0.50
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (46 bp):
ATTTTAGAATTTAATTTAAATTATTATTTTTATTAACACCATCATA
Found at i:142329 original size:25 final size:24
Alignment explanation
Indices: 142288--142361 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 24
142278 ATTATGCGGC
*
142288 TCCAAAATCAAAA-GAAAACAAAAA
1 TCCAAAA-AAAAATGAAAACAAAAA
* *
142312 TCCTAGAAAAAAATGAAAA-ACTAAA
1 TCC-AAAAAAAAATGAAAACA-AAAA
*
142337 TCCAAAAAAAAATTATAAACAAAAA
1 TCCAAAAAAAAATGA-AAACAAAAA
142362 AATTAAAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
24 18 0.46
25 20 0.51
26 1 0.03
ACGTcount: A:0.69, C:0.14, G:0.04, T:0.14
Consensus pattern (24 bp):
TCCAAAAAAAAATGAAAACAAAAA
Found at i:144873 original size:12 final size:12
Alignment explanation
Indices: 144848--144917 Score: 70
Period size: 12 Copynumber: 5.8 Consensus size: 12
144838 ACGAAGATAT
* *
144848 CAGAAATCAAAA
1 CAGAATTCAGAA
144860 CAGAATTCAGAA
1 CAGAATTCAGAA
*
144872 CAG-ATATCAAAA
1 CAGAAT-TCAGAA
* *
144884 CAGAATCCAGAT
1 CAGAATTCAGAA
*
144896 CAGAAATCAGAA
1 CAGAATTCAGAA
144908 CAGAATTCAG
1 CAGAATTCAG
144918 GTCATTTATC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.91
13 2 0.04
ACGTcount: A:0.53, C:0.19, G:0.14, T:0.14
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:144875 original size:24 final size:24
Alignment explanation
Indices: 144848--144917 Score: 104
Period size: 24 Copynumber: 2.9 Consensus size: 24
144838 ACGAAGATAT
144848 CAGAAATCAAAACAGAATTCAGAA
1 CAGAAATCAAAACAGAATTCAGAA
* * *
144872 CAGATATCAAAACAGAATCCAGAT
1 CAGAAATCAAAACAGAATTCAGAA
*
144896 CAGAAATCAGAACAGAATTCAG
1 CAGAAATCAAAACAGAATTCAG
144918 GTCATTTATC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.53, C:0.19, G:0.14, T:0.14
Consensus pattern (24 bp):
CAGAAATCAAAACAGAATTCAGAA
Found at i:144952 original size:24 final size:24
Alignment explanation
Indices: 144847--144954 Score: 85
Period size: 24 Copynumber: 4.5 Consensus size: 24
144837 AACGAAGATA
*
144847 TCAGAAATCAAAACAGAATTC-AG
1 TCAGAAATCAGAACAGAATTCAAG
* * * *
144870 AACAGATATCAAAACAGAA-TCCAG
1 -TCAGAAATCAGAACAGAATTCAAG
*
144894 ATCAGAAATCAGAACAGAATTCAGG
1 -TCAGAAATCAGAACAGAATTCAAG
***
144919 TCATTTATCAGAACAGAATTCAAG
1 TCAGAAATCAGAACAGAATTCAAG
**
144943 TTGGAAATCAGA
1 TCAGAAATCAGA
144955 TAAAATATTT
Statistics
Matches: 66, Mismatches: 16, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
23 2 0.03
24 61 0.92
25 3 0.05
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:145872 original size:18 final size:18
Alignment explanation
Indices: 145851--145886 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
145841 CTTCCATCCG
*
145851 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
145869 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
145887 GTCATTTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:147199 original size:24 final size:20
Alignment explanation
Indices: 147171--147216 Score: 56
Period size: 24 Copynumber: 2.1 Consensus size: 20
147161 GGTCAACAGT
147171 GGTCAACGACGGTCGACGATCAAC
1 GGTCAACG--GGTCGA-G-TCAAC
147195 GGTCAACGGGTCGAGTCAAC
1 GGTCAACGGGTCGAGTCAAC
147215 GG
1 GG
147217 GTCGGGTCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.32
21 1 0.05
22 6 0.27
24 8 0.36
ACGTcount: A:0.26, C:0.26, G:0.35, T:0.13
Consensus pattern (20 bp):
GGTCAACGGGTCGAGTCAAC
Found at i:147214 original size:13 final size:13
Alignment explanation
Indices: 147196--147220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
147186 ACGATCAACG
147196 GTCAACGGGTCGA
1 GTCAACGGGTCGA
147209 GTCAACGGGTCG
1 GTCAACGGGTCG
147221 GGTCGGGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GTCAACGGGTCGA
Found at i:147224 original size:5 final size:5
Alignment explanation
Indices: 147214--147292 Score: 77
Period size: 5 Copynumber: 14.0 Consensus size: 5
147204 GTCGAGTCAA
147214 CGGGT CGGGT CGGGT AAACGGGT CGGGT CGGGT CAACGGGT CGGGT CGGGT
1 CGGGT CGGGT CGGGT ---CGGGT CGGGT CGGGT ---CGGGT CGGGT CGGGT
147265 CGGGT CGGGT CAACGGGT CGGGT CGGGT
1 CGGGT CGGGT ---CGGGT CGGGT CGGGT
147293 TGTGACCGGT
Statistics
Matches: 65, Mismatches: 0, Indels: 18
0.78 0.00 0.22
Matches are distributed among these distances:
5 50 0.77
8 15 0.23
ACGTcount: A:0.09, C:0.20, G:0.53, T:0.18
Consensus pattern (5 bp):
CGGGT
Found at i:147240 original size:23 final size:22
Alignment explanation
Indices: 147214--147292 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 22
147204 GTCGAGTCAA
147214 CGGGTCGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCGGGT-AACGGGT
147237 CGGGTCGGGTCAACGGGT--CGGGT
1 CGGGTCGGGT---CGGGTAACGGGT
147260 CGGGTCGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCGGGT-AACGGGT
147283 CGGGTCGGGT
1 CGGGTCGGGT
147293 TGTGACCGGT
Statistics
Matches: 50, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
20 5 0.10
23 40 0.80
26 5 0.10
ACGTcount: A:0.09, C:0.20, G:0.53, T:0.18
Consensus pattern (22 bp):
CGGGTCGGGTCGGGTAACGGGT
Found at i:147263 original size:28 final size:28
Alignment explanation
Indices: 147232--147292 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
147222 GTCGGGTAAA
147232 CGGGTCGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCGGGTCGGGTCAACGGGTCGGGT
147260 CGGGTCGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCGGGTCGGGTCAACGGGTCGGGT
147288 CGGGT
1 CGGGT
147293 TGTGACCGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.07, C:0.21, G:0.54, T:0.18
Consensus pattern (28 bp):
CGGGTCGGGTCGGGTCAACGGGTCGGGT
Found at i:147292 original size:18 final size:18
Alignment explanation
Indices: 147201--147265 Score: 112
Period size: 18 Copynumber: 3.6 Consensus size: 18
147191 CAACGGTCAA
*
147201 CGGGTCGAGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
*
147219 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
147237 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
147255 CGGGTCGGGTC
1 CGGGTCGGGTC
147266 GGGTCGGGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.12, C:0.22, G:0.49, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:147303 original size:28 final size:28
Alignment explanation
Indices: 147232--147305 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
147222 GTCGGGTAAA
* *
147232 CGGGTCGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCGGGACCGGTCAACGGGTCGGGT
* *
147260 CGGGTCGGGTCGGGTCAACGGGTCGGGT
1 CGGGTCGGGACCGGTCAACGGGTCGGGT
* *
147288 CGGGTTGTGACCGGTCAA
1 CGGGTCGGGACCGGTCAA
147306 ACCGGTCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.09, C:0.22, G:0.50, T:0.19
Consensus pattern (28 bp):
CGGGTCGGGACCGGTCAACGGGTCGGGT
Found at i:152388 original size:12 final size:12
Alignment explanation
Indices: 152371--152413 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
152361 ATTAAATTTT
152371 TTAAAAATTAAA
1 TTAAAAATTAAA
*
152383 TTAAAAAGTAAA
1 TTAAAAATTAAA
* **
152395 TTAATAATTTTA
1 TTAAAAATTAAA
152407 TTAAAAA
1 TTAAAAA
152414 AATATTTACA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
TTAAAAATTAAA
Found at i:156491 original size:46 final size:46
Alignment explanation
Indices: 156439--156806 Score: 325
Period size: 46 Copynumber: 8.1 Consensus size: 46
156429 CATTTGTAGC
* * * *
156439 ATCATTTCATGCCAATTATGCATTGCTATGCATTTTCATTTATGTT
1 ATCATTTCATACCAATTATGCATTGTTATACATTTTCATTTATGAT
* * *
156485 ATCATTTCATACCAATTATGCATTGTTATGA-ATTTTTATCTATGAC
1 ATCATTTCATACCAATTATGCATTGTTAT-ACATTTTCATTTATGAT
* * * * *
156531 ATCATTTCCTACCAATTATGTATTGTTATACATATTCATTTTTGGT
1 ATCATTTCATACCAATTATGCATTGTTATACATTTTCATTTATGAT
* * * * *
156577 ATCATTTCCTACCAATTATGTATTGTTATTCATTTTTATTTATGGT
1 ATCATTTCATACCAATTATGCATTGTTATACATTTTCATTTATGAT
* * * * *
156623 ATCCTTTCATATCAATTATGTATTGTTATTCATTTTTATTTATGAT
1 ATCATTTCATACCAATTATGCATTGTTATACATTTTCATTTATGAT
* *
156669 ATCATTTCATACCAATTATGCATTGTTATACA-TTTCATATATGAC
1 ATCATTTCATACCAATTATGCATTGTTATACATTTTCATTTATGAT
* ** ** *
156714 ATCCTTTCATGTC-ATTAATGCACCGTTATACA-TTTCATATATG-T
1 ATCATTTCATACCAATT-ATGCATTGTTATACATTTTCATTTATGAT
* * * * * * * *
156758 CATCCTTTCATGCCGATAATGCATCGTTATGCA-TTTCATATATGGT
1 -ATCATTTCATACCAATTATGCATTGTTATACATTTTCATTTATGAT
156804 ATC
1 ATC
156807 CTCTCATGTC
Statistics
Matches: 276, Mismatches: 40, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
44 3 0.01
45 84 0.30
46 189 0.68
ACGTcount: A:0.27, C:0.17, G:0.09, T:0.47
Consensus pattern (46 bp):
ATCATTTCATACCAATTATGCATTGTTATACATTTTCATTTATGAT
Found at i:156667 original size:138 final size:137
Alignment explanation
Indices: 156439--156706 Score: 383
Period size: 138 Copynumber: 1.9 Consensus size: 137
156429 CATTTGTAGC
* *
156439 ATCATTTCATGCCAATTATGCATTGCTATGCATTTTCATTTATGTTATCATTTCATACCAATTAT
1 ATCATTTCATACCAATTATGCATTGCTATGCATTTTCATTTATGGTATCATTTCATACCAATTAT
* *
156504 GCATTGTTATGAATTTTTATCTATGACATCATTTCCTACCAATTATGTATTGTTATACATATTCA
66 GCATTGTTATGAATTTTTATCTATGACATCATTTCATACCAATTATGCATTGTTATACAT-TTCA
156569 TTTTTGGT
130 TTTTTGGT
* * * * * * *
156577 ATCATTTCCTACCAATTATGTATTGTTATTCATTTTTATTTATGGTATCCTTTCATATCAATTAT
1 ATCATTTCATACCAATTATGCATTGCTATGCATTTTCATTTATGGTATCATTTCATACCAATTAT
* ** * *
156642 GTATTGTTATTCATTTTTATTTATGATATCATTTCATACCAATTATGCATTGTTATACATTTCAT
66 GCATTGTTATGAATTTTTATCTATGACATCATTTCATACCAATTATGCATTGTTATACATTTCAT
156707 ATATGACATC
Statistics
Matches: 114, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
137 5 0.04
138 109 0.96
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (137 bp):
ATCATTTCATACCAATTATGCATTGCTATGCATTTTCATTTATGGTATCATTTCATACCAATTAT
GCATTGTTATGAATTTTTATCTATGACATCATTTCATACCAATTATGCATTGTTATACATTTCAT
TTTTGGT
Found at i:156711 original size:23 final size:23
Alignment explanation
Indices: 156685--156801 Score: 84
Period size: 23 Copynumber: 5.2 Consensus size: 23
156675 TCATACCAAT
*
156685 TATGCATTGTTATACATTTCATA
1 TATGCATCGTTATACATTTCATA
* *
156708 TATGACATCCTT-T-CATGTCAT-
1 TATG-CATCGTTATACATTTCATA
*
156729 TAATGCACCGTTATACATTTCATA
1 T-ATGCATCGTTATACATTTCATA
* **
156753 TATGTCATCCTT-T-CATGCCGATA
1 TATG-CATCGTTATACATTTC-ATA
*
156776 -ATGCATCGTTATGCATTTCATA
1 TATGCATCGTTATACATTTCATA
156798 TATG
1 TATG
156802 GTATCCTCTC
Statistics
Matches: 71, Mismatches: 13, Indels: 20
0.68 0.12 0.19
Matches are distributed among these distances:
21 12 0.17
22 22 0.31
23 26 0.37
24 11 0.15
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (23 bp):
TATGCATCGTTATACATTTCATA
Found at i:156735 original size:45 final size:46
Alignment explanation
Indices: 156623--156859 Score: 216
Period size: 45 Copynumber: 5.2 Consensus size: 46
156613 TATTTATGGT
* * * * * * *
156623 ATCCTTTCATATCAATT-ATGTATTGTTATTCATTTTTATTTATGAT
1 ATCCTTTCATGTCAATTAATGCATCGTTATACA-TTTCATATATGAC
* ** *
156669 ATCATTTCATACCAATT-ATGCATTGTTATACATTTCATATATGAC
1 ATCCTTTCATGTCAATTAATGCATCGTTATACATTTCATATATGAC
* *
156714 ATCCTTTCATGTC-ATTAATGCACCGTTATACATTTCATATATGTC
1 ATCCTTTCATGTCAATTAATGCATCGTTATACATTTCATATATGAC
* * * **
156759 ATCCTTTCATGCCGA-TAATGCATCGTTATGCATTTCATATATGGT
1 ATCCTTTCATGTCAATTAATGCATCGTTATACATTTCATATATGAC
* * * *
156804 ATCCTCTCATGTCGA-TAATGCA-CAGTTATGCATTTCATATATGGC
1 ATCCTTTCATGTCAATTAATGCATC-GTTATACATTTCATATATGAC
156849 ATCCTTTCATG
1 ATCCTTTCATG
156860 CCTTAATTCA
Statistics
Matches: 166, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
44 4 0.02
45 133 0.80
46 29 0.17
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (46 bp):
ATCCTTTCATGTCAATTAATGCATCGTTATACATTTCATATATGAC
Found at i:156793 original size:90 final size:90
Alignment explanation
Indices: 156686--156861 Score: 264
Period size: 90 Copynumber: 2.0 Consensus size: 90
156676 CATACCAATT
* * *
156686 ATGCATTGTTATACATTTCATATATGACATCCTTTCATGTC-ATTAATGCACCGTTATACATTTC
1 ATGCATCGTTATACATTTCATATATGACATCCTCTCATGTCGA-TAATGCACAGTTATACATTTC
*
156750 ATATATGTCATCCTTTCATGCCGATA
65 ATATATGGCATCCTTTCATGCCGATA
* ** *
156776 ATGCATCGTTATGCATTTCATATATGGTATCCTCTCATGTCGATAATGCACAGTTATGCATTTCA
1 ATGCATCGTTATACATTTCATATATGACATCCTCTCATGTCGATAATGCACAGTTATACATTTCA
156841 TATATGGCATCCTTTCATGCC
66 TATATGGCATCCTTTCATGCC
156862 TTAATTCATC
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
90 76 0.99
91 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (90 bp):
ATGCATCGTTATACATTTCATATATGACATCCTCTCATGTCGATAATGCACAGTTATACATTTCA
TATATGGCATCCTTTCATGCCGATA
Found at i:156961 original size:32 final size:32
Alignment explanation
Indices: 156920--156980 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
156910 TCATCTATGA
*
156920 ATAACATATTTAATACTCTAAAACATATAATG
1 ATAACATATTTAATACTATAAAACATATAATG
156952 ATAACATATTTAATACTATAAAACATATA
1 ATAACATATTTAATACTATAAAACATATA
156981 TTAATTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (32 bp):
ATAACATATTTAATACTATAAAACATATAATG
Found at i:156978 original size:19 final size:19
Alignment explanation
Indices: 156922--156985 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
156912 ATCTATGAAT
*
156922 AACATATTTAATACTCTAA
1 AACATATTTAATACTATAA
*
156941 AACATA--TAAT--GAT--
1 AACATATTTAATACTATAA
156954 AACATATTTAATACTATAA
1 AACATATTTAATACTATAA
156973 AACATATATTAAT
1 AACATAT-TTAAT
156986 TTAAATCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 13
0.69 0.06 0.25
Matches are distributed among these distances:
13 6 0.17
15 5 0.14
17 6 0.17
19 13 0.37
20 5 0.14
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.36
Consensus pattern (19 bp):
AACATATTTAATACTATAA
Found at i:157390 original size:20 final size:19
Alignment explanation
Indices: 157339--157402 Score: 110
Period size: 19 Copynumber: 3.3 Consensus size: 19
157329 ATTGTGGTAC
157339 CGATACTCCCTCTCAGTAT
1 CGATACTCCCTCTCAGTAT
157358 CGATACTCCCTCTCAGTAT
1 CGATACTCCCTCTCAGTAT
*
157377 CGATACTCCCCTCTTAGTAT
1 CGATACT-CCCTCTCAGTAT
157397 CGATAC
1 CGATAC
157403 CAATTGTATC
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 26 0.60
20 17 0.40
ACGTcount: A:0.22, C:0.36, G:0.11, T:0.31
Consensus pattern (19 bp):
CGATACTCCCTCTCAGTAT
Found at i:158323 original size:18 final size:18
Alignment explanation
Indices: 158300--158346 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
158290 CATTTGGGTC
*
158300 GGGTTTTGGGTTCTGGTT
1 GGGTTTTAGGTTCTGGTT
*
158318 GGGTTTTATGTTCTGGTT
1 GGGTTTTAGGTTCTGGTT
*
158336 GAGTTTTAGGT
1 GGGTTTTAGGT
158347 ATGAGACTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.06, C:0.04, G:0.38, T:0.51
Consensus pattern (18 bp):
GGGTTTTAGGTTCTGGTT
Found at i:158650 original size:95 final size:95
Alignment explanation
Indices: 158487--158683 Score: 254
Period size: 95 Copynumber: 2.1 Consensus size: 95
158477 CAAGTTACGG
* **
158487 GTTCTTCTCATCATGATCTTTCTACAGGAAATGTTAGTCCCTCGAGTGAGACGTTACTGATTCAA
1 GTTCTTCTCATCATGATCTCTCTACAGGAAACATTAGTCCCTCGAGTGAGACGTTACTGATTCAA
* *
158552 AATGCCGTGAATCGAG-AAAAGGTTGAATAA
66 AATGCCATGAATCGAGCAAAA-GTTGAACAA
* * ** * * *
158582 GTTCTTCTCATTATGAAT-TCTCTACAGGAAACATTGGTCCCTCTTGTGAGGCGTTGCTGATTCG
1 GTTCTTCTCATCATG-ATCTCTCTACAGGAAACATTAGTCCCTCGAGTGAGACGTTACTGATTCA
158646 AAATGCCATGAATCGAGCAAAAGTTGAACAA
65 AAATGCCATGAATCGAGCAAAAGTTGAACAA
158677 GTTCTTC
1 GTTCTTC
158684 ATTACGAACT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
95 82 0.93
96 6 0.07
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (95 bp):
GTTCTTCTCATCATGATCTCTCTACAGGAAACATTAGTCCCTCGAGTGAGACGTTACTGATTCAA
AATGCCATGAATCGAGCAAAAGTTGAACAA
Found at i:159079 original size:38 final size:35
Alignment explanation
Indices: 158976--159083 Score: 101
Period size: 36 Copynumber: 2.9 Consensus size: 35
158966 ATCTCAGATT
* *
158976 AGATGAAA-TTTGTTTCGAGGGAAAACTATTTCAAGTG
1 AGAT-AAAGTTTGTTTC-AAGG-AAACAATTTCAAGTG
* *
159013 AGATAAAGTTTGTTTTAAGAAAATCAATTTCAAGTG
1 AGATAAAGTTTGTTTCAAGGAAA-CAATTTCAAGTG
*
159049 AGATAAACTTTTTGTTTCAAGTGAAACAATTTCAA
1 AGATAAA--GTTTGTTTCAAG-GAAACAATTTCAA
159084 ATTTTATATT
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
35 3 0.05
36 23 0.39
37 11 0.19
38 19 0.32
39 3 0.05
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (35 bp):
AGATAAAGTTTGTTTCAAGGAAACAATTTCAAGTG
Found at i:159499 original size:74 final size:75
Alignment explanation
Indices: 159107--159610 Score: 578
Period size: 73 Copynumber: 6.8 Consensus size: 75
159097 AAGAAAACTT
* * * * * *
159107 TCTCAAGCGAGATGAAA-TTTGTTTTAAGAAAAACAATCTCGAGTAAAATAAATTTTTTTGTTTC
1 TCTCAAGCGAGA-CAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAA-ATTTATGTTTC
159171 GAGT-AAAAACTG
64 GAGTGAAAAA-TG
* * *
159183 TTTAAAGTGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATGTTTCGA
1 TCTCAAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATGTTTCGA
**
159248 GTGAAATTTG
66 GTGAAAAATG
* * *
159258 TCTCAAGCGAGAC--AGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCTGGTTCGG
1 TCTCAAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATGTTTCGA
*
159321 GTGAAAATTG
66 GTGAAAAATG
* * *
159331 TCTCAAGCGAGAC--AGTTT-TTATTAAGAAAAACATTCTCATGTGAGAAAAAATTTATGTTTCG
1 TCTCAAGCGAGACAAAGTTTGTT-TTAAGAAAAACAATCTCAAGTGAGATAAAATTTATGTTTCG
*
159393 AGTGAAAACTG
65 AGTGAAAAATG
* * *
159404 TCTCAAGCGAGA-AACAATTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAAATTT-TGTTTCG
1 TCTCAAGCGAGACAA-AGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATGTTTCG
* *
159467 AATGAAAAATA
65 AGTGAAAAATG
* ** *
159478 TCTCAAGTGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGA-AATTTTTTTGTTTCGA
1 TCTCAAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATGTTTCGA
159542 GTGAAAAATG
66 GTGAAAAATG
* * * * * **
159552 TCTTAAGCAAGGCAAAGTTTGTTTTAAGAAAAACTATATTGAGTGAGATAAAATTTATG
1 TCTCAAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATG
159611 ATATTTTCTT
Statistics
Matches: 365, Mismatches: 53, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
72 2 0.01
73 136 0.37
74 112 0.31
75 69 0.19
76 46 0.13
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (75 bp):
TCTCAAGCGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATGTTTCGA
GTGAAAAATG
Found at i:159538 original size:148 final size:147
Alignment explanation
Indices: 159099--159607 Score: 605
Period size: 148 Copynumber: 3.4 Consensus size: 147
159089 ATATTTCAAA
* * * * *
159099 GAAAACTTTCTCAAGCGAGATGAAATTTGTTTTAAGAAAAACAATCTCGAGTAAAATAAATTTTT
1 GAAAACTGTCTCAAGCGAGA-AAAATTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAA--ATT
* *
159164 TTGTTTCGAGT-AAAAACTGTTTAAAGTGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTG
63 TTGTTTCGAGTGAAAAA-TGTCTCAAGTGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTG
159228 AGATAAAATTTATGTTTCGAGT
127 AGA-AAAATTTATGTTTCGAGT
** * * *
159250 GAAATTTGTCTCAAGCGAG-ACAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTCT
1 GAAAACTGTCTCAAGCGAGAAAAATTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAATTT-T
* * * * * *
159314 GGTTCGGGTGAAAATTGTCTCAAGCGAGAC--AGTTT-TTATTAAGAAAAACATTCTCATGTGAG
65 GTTTCGAGTGAAAAATGTCTCAAGTGAGACAAAGTTTGTT-TTAAGAAAAACAATCTCAAGTGAG
159376 AAAAAATTTATGTTTCGAGT
129 -AAAAATTTATGTTTCGAGT
*
159396 GAAAACTGTCTCAAGCGAGAAACAATTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAAATTTT
1 GAAAACTGTCTCAAGCGAGAAA-AATTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAATTTT
* *
159461 GTTTCGAATGAAAAATATCTCAAGTGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGA
65 GTTTCGAGTGAAAAATGTCTCAAGTGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGA
** *
159526 AATTTTTTTGTTTCGAGT
130 AAAATTTATGTTTCGAGT
* * * * * * * *
159544 GAAAAATGTCTTAAGCAAGGCAAAGTTTGTTTTAAGAAAAACTATATTGAGTGAGATAAAATTT
1 GAAAACTGTCTCAAGCGA-GAAAAATTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAATTT
159608 ATGATATTTT
Statistics
Matches: 306, Mismatches: 42, Indels: 23
0.82 0.11 0.06
Matches are distributed among these distances:
145 2 0.01
146 62 0.20
147 30 0.10
148 127 0.42
149 67 0.22
150 2 0.01
151 16 0.05
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (147 bp):
GAAAACTGTCTCAAGCGAGAAAAATTTGTTTTAAGAAAAACAATCTCGAGTGAGATAAAATTTTG
TTTCGAGTGAAAAATGTCTCAAGTGAGACAAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGAA
AAATTTATGTTTCGAGT
Found at i:166613 original size:16 final size:16
Alignment explanation
Indices: 166576--166615 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
166566 GGTACCTTTA
166576 TAAATTTTTAAAAATT
1 TAAATTTTTAAAAATT
*
166592 T-CATTTTTAAAAATT
1 TAAATTTTTAAAAATT
166607 TAAATTTTT
1 TAAATTTTT
166616 TTATTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TAAATTTTTAAAAATT
Found at i:167054 original size:16 final size:16
Alignment explanation
Indices: 167030--167079 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
167020 CCGGTTTCGA
167030 TTTTAAAAAAACCGGT
1 TTTTAAAAAAACCGGT
*
167046 TTTTTAAAAAACCGG-
1 TTTTAAAAAAACCGGT
* *
167061 TTATAAAAAAACCGAT
1 TTTTAAAAAAACCGGT
167077 TTT
1 TTT
167080 AATATTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (16 bp):
TTTTAAAAAAACCGGT
Found at i:167069 original size:15 final size:16
Alignment explanation
Indices: 167033--167074 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
167023 GTTTCGATTT
*
167033 TAAAAAAACCGGTTTT
1 TAAAAAAACCGGTTTA
*
167049 TTAAAAAACCGG-TTA
1 TAAAAAAACCGGTTTA
167064 TAAAAAAACCG
1 TAAAAAAACCG
167075 ATTTTAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.24
Consensus pattern (16 bp):
TAAAAAAACCGGTTTA
Found at i:167550 original size:21 final size:21
Alignment explanation
Indices: 167524--167580 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
167514 TTTTACACTT
167524 AGGGAACCGATTCCCTATGAG
1 AGGGAACCGATTCCCTATGAG
167545 AGGGAACCGATTCCCTATGAG
1 AGGGAACCGATTCCCTATGAG
*
167566 AGGGTACCGATTCCC
1 AGGGAACCGATTCCC
167581 CCACGCTCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (21 bp):
AGGGAACCGATTCCCTATGAG
Found at i:167798 original size:13 final size:13
Alignment explanation
Indices: 167777--167831 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
167767 AAGTTCGATA
*
167777 AATTCAAATACTT
1 AATTGAAATACTT
167790 AATTGAAATACTT
1 AATTGAAATACTT
* *
167803 AATT-AACTCAACAT
1 AATTGAAAT--ACTT
167817 AATTGAAATACTT
1 AATTGAAATACTT
167830 AA
1 AA
167832 ATACTTCCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.49, C:0.13, G:0.04, T:0.35
Consensus pattern (13 bp):
AATTGAAATACTT
Found at i:167913 original size:32 final size:33
Alignment explanation
Indices: 167817--167915 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
167807 AACTCAACAT
* * *
167817 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
167850 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
167883 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
167915 A
1 A
167916 TTGAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:167934 original size:21 final size:21
Alignment explanation
Indices: 167910--167951 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
167900 ACTTCAAGTT
167910 CGATAATTGAAACAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
*
167931 CGATAATTGAAATAAAGTTTA
1 CGATAATTGAAACAAAGTTTA
167952 AAAATAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.31
Consensus pattern (21 bp):
CGATAATTGAAACAAAGTTTA
Found at i:170243 original size:23 final size:24
Alignment explanation
Indices: 170215--170267 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
170205 TTAAACCCAT
** *
170215 ACCGGTTTTTTTCCCGG-ATAAAA
1 ACCGGTTTTTTAACCGGTAAAAAA
170238 ACCGGTTTTTTAACCGGTAAAAAA
1 ACCGGTTTTTTAACCGGTAAAAAA
170262 ACCGGT
1 ACCGGT
170268 CTAGGTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (24 bp):
ACCGGTTTTTTAACCGGTAAAAAA
Found at i:171418 original size:20 final size:20
Alignment explanation
Indices: 171384--171463 Score: 110
Period size: 20 Copynumber: 4.1 Consensus size: 20
171374 TAATTCAATT
*
171384 TTCAAATTT-GCAACTCGAA
1 TTCAGATTTCGCAACTCGAA
*
171403 TTCGGATTTCGCAACTCGAA
1 TTCAGATTTCGCAACTCGAA
*
171423 TTTAGATTTCGCAACTCGAA
1 TTCAGATTTCGCAACTCGAA
*
171443 TTCAGATTTTGCAACTC-AA
1 TTCAGATTTCGCAACTCGAA
171462 TT
1 TT
171464 TTATCAAGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 11 0.20
20 43 0.80
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (20 bp):
TTCAGATTTCGCAACTCGAA
Found at i:172154 original size:42 final size:40
Alignment explanation
Indices: 172098--172214 Score: 137
Period size: 42 Copynumber: 2.9 Consensus size: 40
172088 CGAAAACTGA
* * *
172098 ATTCGAGTTACGAATTTGAAAACTGAGTTGCGAATTTGGC
1 ATTCGTGTTGCGAATTCGAAAACTGAGTTGCGAATTTGGC
* *
172138 AAATTCTTGTTGCGAATTCGAAAACTGTGTTGCGAATTTGGC
1 --ATTCGTGTTGCGAATTCGAAAACTGAGTTGCGAATTTGGC
* * *
172180 TTTCGTGTTGCGAATTCGAAATC-GAGTTGTGAATT
1 ATTCGTGTTGCGAATTCGAAAACTGAGTTGCGAATT
172215 CGTTGGTTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
39 10 0.15
40 20 0.31
42 35 0.54
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (40 bp):
ATTCGTGTTGCGAATTCGAAAACTGAGTTGCGAATTTGGC
Found at i:172170 original size:20 final size:20
Alignment explanation
Indices: 172108--172175 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
172098 ATTCGAGTTA
* *
172108 CGAATTTGAAAACTGAGTTG
1 CGAATTCGAAAACTGTGTTG
* *
172128 CGAATTTGGCAAATTCT-TGTTG
1 CGAA-TTCG-AAA-ACTGTGTTG
172150 CGAATTCGAAAACTGTGTTG
1 CGAATTCGAAAACTGTGTTG
172170 CGAATT
1 CGAATT
172176 TGGCTTTCGT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
19 2 0.05
20 18 0.46
21 6 0.15
22 11 0.28
23 2 0.05
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (20 bp):
CGAATTCGAAAACTGTGTTG
Found at i:175963 original size:60 final size:58
Alignment explanation
Indices: 175811--175972 Score: 155
Period size: 59 Copynumber: 2.7 Consensus size: 58
175801 TTGACTCTAA
* * * ** * *
175811 AAATTAGAATGTTGAAAAATTTAAGGATGAATTTTGAATAAGAGACATAGTTTGGGAT
1 AAATTAGAATATTCAAAAGTTTAAGGACCAATTTTGAATAAGAGACAAAGTTTGAGAT
* * * * *
175869 AAGATTAGAACATTCAAAAGTTTATGGACTAATTTTGAATGAGAGACAAAGTTTATAGAT
1 AA-ATTAGAATATTCAAAAGTTTAAGGACCAATTTTGAATAAGAGACAAAGTTT-GAGAT
* *
175929 GAAATTAGAATTTTCAAAAGTTTAAGAACCAATTTAT-AATAAGA
1 -AAATTAGAATATTCAAAAGTTTAAGGACCAATTT-TGAATAAGA
175973 TCATACTTTG
Statistics
Matches: 83, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
58 2 0.02
59 42 0.51
60 36 0.43
61 3 0.04
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (58 bp):
AAATTAGAATATTCAAAAGTTTAAGGACCAATTTTGAATAAGAGACAAAGTTTGAGAT
Found at i:176686 original size:15 final size:14
Alignment explanation
Indices: 176665--176701 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
176655 GTGAAATTCT
176665 AAATATTTAAATAA
1 AAATATTTAAATAA
*
176679 AAATTATTTATATAA
1 AAA-TATTTAAATAA
176694 AAATATTT
1 AAATATTT
176702 TTGATAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATATTTAAATAA
Done.