Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 67 of 91
Found at i:15099774 original size:29 final size:29
Alignment explanation
Indices: 15099716--15099776 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
15099706 AGAATGCAAG
* *
15099716 AAAATAAAAGTCAGTGGTTAATGTGCAAT
1 AAAATAAAAGTCAGTAGTTAATGTGAAAT
*
15099745 AAAATAAAAGTTAGTAGTTAACT-TGAAAT
1 AAAATAAAAGTCAGTAGTTAA-TGTGAAAT
15099774 AAA
1 AAA
15099777 TAACATAGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (29 bp):
AAAATAAAAGTCAGTAGTTAATGTGAAAT
Found at i:15102264 original size:166 final size:163
Alignment explanation
Indices: 15102008--15102618 Score: 545
Period size: 161 Copynumber: 3.7 Consensus size: 163
15101998 TCTCTTTTGG
* * * ** *
15102008 GGAATTATTCATTC-CAACAACTCTAATATCTTTTGGGATGAGACACTATGACATGGCAGAGATT
1 GGAACTATTCA-TCACAACAACTCTCATACCTGATGGGATGAGACACTATGACATGACAGAGATT
* * *
15102072 TCCTACAAAAGGTGAAAACACTTCTTGTGAAAATAGTCTTTTTTTGTAGAGATTCTCTACATATT
65 CCCTACAAAAGGTGAAAGCGCTTCTTGTGAAAA-AGTCTTTTTTT-TAGAGATTCTCTACATATT
* *
15102137 CTAGAAACATATATGTACAAATAATGTTCTCCTTCAA
128 CTAGAAACATATATGTACATATAAAGTTC-CCTTCAA
* * * ** *
15102174 GGAACTATTTATCCCAACAACTCTCATGCCTGATGGGATGAGACACTATGACATGGTAAAGATTC
1 GGAACTATTCATCACAACAACTCTCATACCTGATGGGATGAGACACTATGACATGACAGAGATTC
* **
15102239 CCTCCAAAAGGTGAAAGCGCTTCTTGTG-AAAAG--AATTTTTTAGAGATTCTCTACATATTCTA
66 CCTACAAAAGGTGAAAGCGCTTCTTGTGAAAAAGTCTTTTTTTTAGAGATTCTCTACATATTCTA
* * * ***
15102301 GGAACATATTTGTGCATATAAAGTTCCTCTTTGT
131 GAAACATATATGTACATATAAAGTTCC-CTTCAA
* ** * * * *
15102335 TGAACTATTCATCACAATTACTCTCATACCCGATGGGATGAGATACTGTGACATGATAGAGATTC
1 GGAACTATTCATCACAACAACTCTCATACCTGATGGGATGAGACACTATGACATGACAGAGATTC
* * *
15102400 CCTATAAAAGGTGAAAGCATTTATTGTCAAAAGAGTTTCTTGTGAAAAAGTCTTTTTTTCCAAAG
66 CCTACAAAAGGTGAAAGC-------G-C--------TTCTTGTGAAAAAGTCTTTTTTT-TAGAG
* *
15102465 ATTCTCTACATATTCTAGAAACATATTTGT-GATATAAAGTTCCCTTTTCAA
114 ATTCTCTACATATTCTAGAAACATATATGTACATATAAAGTTCCC--TTCAA
* * * *
15102516 --AACTATTCATCACAACAACTCCCATGCCTGATTGGATGAGACACTATGACATGACAGAGAATC
1 GGAACTATTCATCACAACAACTCTCATACCTGATGGGATGAGACACTATGACATGACAGAGATTC
* * *
15102579 CCTGCAAAAGGTGAAAGTGCTTCTTGTGAAAGAG-CTTTTT
66 CCTACAAAAGGTGAAAGCGCTTCTTGTGAAAAAGTCTTTTT
15102619 CTCTATTTTT
Statistics
Matches: 362, Mismatches: 59, Indels: 52
0.77 0.12 0.11
Matches are distributed among these distances:
160 1 0.00
161 116 0.32
162 11 0.03
163 13 0.04
164 2 0.01
165 5 0.01
166 77 0.21
168 1 0.00
169 1 0.00
171 1 0.00
172 1 0.00
177 8 0.02
178 5 0.01
179 69 0.19
180 17 0.05
181 34 0.09
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (163 bp):
GGAACTATTCATCACAACAACTCTCATACCTGATGGGATGAGACACTATGACATGACAGAGATTC
CCTACAAAAGGTGAAAGCGCTTCTTGTGAAAAAGTCTTTTTTTTAGAGATTCTCTACATATTCTA
GAAACATATATGTACATATAAAGTTCCCTTCAA
Found at i:15104064 original size:2 final size:2
Alignment explanation
Indices: 15104051--15104228 Score: 81
Period size: 2 Copynumber: 90.0 Consensus size: 2
15104041 AATAATAACA
*
15104051 AT AT AT -T A- AT AT AT AT AT AT AT AT AT AA AGT AT AT AT -T A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * * * *
15104090 AT AT A- AT AT CT AT AA ACT AT AT AT -T TT AT AT TT AT AGT -T TT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT
* * * *
15104131 AT AT ACT GT AT AT AA ACT AT GT A- AT GT AT AT AT GA- ACT AT AT
1 AT AT A-T AT AT AT AT A-T AT AT AT AT AT AT AT AT -AT A-T AT AT
* * *
15104173 AT AA ACT AT AT GGT TT AT -T A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT A-T AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15104215 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
15104229 TAATAAACTA
Statistics
Matches: 133, Mismatches: 23, Indels: 40
0.68 0.12 0.20
Matches are distributed among these distances:
1 11 0.08
2 113 0.85
3 9 0.07
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15104105 original size:26 final size:27
Alignment explanation
Indices: 15104063--15104339 Score: 94
Period size: 26 Copynumber: 10.0 Consensus size: 27
15104053 ATATTAATAT
*
15104063 ATATATATATATATAAAGTATATATTA
1 ATATATATATATATAAACTATATATTA
* *
15104090 ATATA-ATATCTATAAACTATATATTTT
1 ATATATATATATATAAACTATATA-TTA
* * * * *
15104117 ATATTTATAGTTTTATATACTGTATATAA
1 ATATATATA--TATATAAACTATATATTA
* *
15104146 ACTATGTAATGTATATATGAACTATATA-TA
1 A-TA--T-ATATATATATAAACTATATATTA
* * *
15104176 A-ACTATATGGTTTATTAA-TATATATATA
1 ATA-TATAT-ATATATAAACTATATAT-TA
*
15104204 TATATATATATATATATA-TATATATTA
1 -ATATATATATATATAAACTATATATTA
* * * * *
15104231 ATAAACTATAAAGTATATAGTTTATA-TA
1 ATATA-TATATA-TATAAACTATATATTA
15104259 AT-TATAT-TA-ATAAACTATATAGTT-
1 ATATATATATATATAAACTATATA-TTA
*
15104283 -TAT-TA-GTATATAAACTATATATTATAA
1 ATATATATATATATAAACTATATA-T-T-A
*
15104310 AGTTTATTAGTATATATAAACTATATATTA
1 A-TATA-TA-TATATATAAACTATATATTA
15104340 TAAAGTTCAT
Statistics
Matches: 184, Mismatches: 36, Indels: 57
0.66 0.13 0.21
Matches are distributed among these distances:
23 14 0.08
24 14 0.08
25 3 0.02
26 32 0.17
27 26 0.14
28 28 0.15
29 15 0.08
30 18 0.10
31 14 0.08
32 2 0.01
33 18 0.10
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (27 bp):
ATATATATATATATAAACTATATATTA
Found at i:15104266 original size:37 final size:38
Alignment explanation
Indices: 15104206--15104341 Score: 120
Period size: 37 Copynumber: 3.6 Consensus size: 38
15104196 TATATATATA
15104206 TATATATATATATATATATATATTAATAAACTATAAAG
1 TATATATATATATATATATATATTAATAAACTATAAAG
* *
15104244 TATATAGTTTATATA-AT-TATATTAATAAACTATATAG
1 TATATA-TATATATATATATATATTAATAAACTATAAAG
* * * * *
15104281 TTTAT-TAGTATATAAACTATATATT-ATAAAGTTTATTAG
1 TATATATA-TATATATA-TATATATTAATAAACTATA-AAG
*
15104320 TATATATAAACTATATAT-TATA
1 TATATATATA-TATATATATATA
15104342 AAGTTCATTA
Statistics
Matches: 81, Mismatches: 9, Indels: 16
0.76 0.08 0.15
Matches are distributed among these distances:
35 1 0.01
36 6 0.07
37 24 0.30
38 21 0.26
39 22 0.27
40 7 0.09
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (38 bp):
TATATATATATATATATATATATTAATAAACTATAAAG
Found at i:15104292 original size:15 final size:15
Alignment explanation
Indices: 15104274--15104325 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
15104264 ATTAATAAAC
15104274 TATATAGTTTATTAG
1 TATATAGTTTATTAG
*** *
15104289 TATATAAACTATATAT
1 TATATAGTTTAT-TAG
*
15104305 TATAAAGTTTATTAG
1 TATATAGTTTATTAG
15104320 TATATA
1 TATATA
15104326 TAAACTATAT
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (15 bp):
TATATAGTTTATTAG
Found at i:15104373 original size:18 final size:19
Alignment explanation
Indices: 15104300--15104376 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 19
15104290 ATATAAACTA
15104300 TATATTATAAAGTTTATTAG
1 TATA-TATAAAGTTTATTAG
*
15104320 TATATATAAA--CTA-TA-
1 TATATATAAAGTTTATTAG
*
15104335 TAT-TATAAAGTTCATTAG
1 TATATATAAAGTTTATTAG
*
15104353 TATATATAAATTTTA-TAG
1 TATATATAAAGTTTATTAG
15104371 TATATA
1 TATATA
15104377 GTTCATTAGT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
14 6 0.13
15 3 0.06
16 3 0.06
17 4 0.09
18 12 0.26
19 15 0.32
20 4 0.09
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (19 bp):
TATATATAAAGTTTATTAG
Found at i:15104449 original size:18 final size:18
Alignment explanation
Indices: 15104423--15104850 Score: 228
Period size: 18 Copynumber: 24.4 Consensus size: 18
15104413 TATAGTTCAT
*
15104423 TAGTATATATAAATTATA
1 TAGTATATATAAACTATA
* **
15104441 TATTATATAGTTCACTAATA
1 TAGTATATA-TAAACT-ATA
15104461 TA-TATATATAAACTATA
1 TAGTATATATAAACTATA
* * *
15104478 TA-TAAACTATATATTATA
1 TAGTATA-TATAAACTATA
15104496 TAGTTCATTAGTATATATAAACTATA
1 TAG-----TA-TAT--ATAAACTATA
* *
15104522 TGGTATATATAAATTATA
1 TAGTATATATAAACTATA
* **
15104540 CA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
*
15104555 TAATATATATAAACTATA
1 TAGTATATATAAACTATA
15104573 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* *
15104591 TGGTACATATAAACTATA
1 TAGTATATATAAACTATA
**
15104609 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
15104624 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* * *
15104642 TGGAATATA-AAATTATA
1 TAGTATATATAAACTATA
* **
15104659 -AAT-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
*
15104674 TAGTATATTTAAACTATA
1 TAGTATATATAAACTATA
15104692 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
* *
15104710 TGGTATATACAAACTATA
1 TAGTATATATAAACTATA
**
15104728 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
15104743 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
15104761 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
*
15104779 TAGTATATAGT--TC-AT-
1 TAGTATATA-TAAACTATA
15104794 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
**
15104812 TA-T-TAT-T-AGTTCAT-
1 TAGTATATATAAACT-ATA
15104826 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
15104844 TAGTATA
1 TAGTATA
15104851 AATTAATAAT
Statistics
Matches: 311, Mismatches: 55, Indels: 88
0.69 0.12 0.19
Matches are distributed among these distances:
14 5 0.02
15 32 0.10
16 35 0.11
17 52 0.17
18 153 0.49
19 10 0.03
20 8 0.03
21 2 0.01
24 3 0.01
25 1 0.00
26 10 0.03
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:15104479 original size:11 final size:11
Alignment explanation
Indices: 15104463--15104491 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
15104453 CACTAATATA
15104463 TATATATAAAC
1 TATATATAAAC
15104474 TATATATAAAC
1 TATATATAAAC
15104485 TATATAT
1 TATATAT
15104492 TATATAGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (11 bp):
TATATATAAAC
Found at i:15104550 original size:51 final size:50
Alignment explanation
Indices: 15104423--15104591 Score: 234
Period size: 51 Copynumber: 3.4 Consensus size: 50
15104413 TATAGTTCAT
* * *
15104423 TAGTATATATAAATTATATATTATATAGTTCACTA-ATATATATA-TATA
1 TAGTATATATAAACTATATATTATATAGTTCATTATATATATAAACTATA
* *
15104471 AACTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
1 TAGTATATATAAACTATATATTATATAGTTCATTA-TATATATAAACTATA
* * *
15104522 TGGTATATATAAATTATACATTATATAGTTCATTAATATATATAAACTATA
1 TAGTATATATAAACTATATATTATATAGTTCATT-ATATATATAAACTATA
15104573 TAGTATATATAAACTATAT
1 TAGTATATATAAACTATAT
15104592 GGTACATATA
Statistics
Matches: 104, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
48 31 0.30
50 8 0.08
51 64 0.62
52 1 0.01
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (50 bp):
TAGTATATATAAACTATATATTATATAGTTCATTATATATATAAACTATA
Found at i:15104580 original size:69 final size:69
Alignment explanation
Indices: 15104504--15104850 Score: 331
Period size: 69 Copynumber: 5.1 Consensus size: 69
15104494 TATAGTTCAT
* * *
15104504 TAGTATATATAAACTATATGGTATATATAAATTATACATTATATAGTTCATTAATATATATAAAC
1 TAGTATATATAAACTATATAGTATATATAAATTATATATTATATAGTTCATTAGTATATATAAAC
15104569 TATA
66 TATA
* * *
15104573 TAGTATATATAAACTATATGGTACATATAAACTATATATTATATAGTTCATTAGTATATATAAAC
1 TAGTATATATAAACTATATAGTATATATAAATTATATATTATATAGTTCATTAGTATATATAAAC
15104638 TATA
66 TATA
* * * * * ** **
15104642 TGGAATATA-AAATTATAAATTATATAGTTCATTAGTATATT-TA-AACT-ATATAGTATATATA
1 TAGTATATATAAACTATATAGTATATA-TAAATTA-TATATTATATAGTTCAT-TAGTATATATA
15104703 AACTATA
63 AACTATA
* * * ** **
15104710 TGGTATATACAAACTATATATTATATAGTTCATTAGTATA-TATA-AACT-ATATAGTATATATA
1 TAGTATATATAAACTATATAGTATATA-TAAATTA-TATATTATATAGTTCAT-TAGTATATATA
15104772 AACTATA
63 AACTATA
* *
15104779 TAGTATATAGT--TC-AT-TAGTATATATAAACTATATATTAT-TAGTTCATTAGTATATATAAA
1 TAGTATATA-TAAACTATATAGTATATATAAATTATATATTATATAGTTCATTAGTATATATAAA
15104839 CTATA
65 CTATA
15104844 TAGTATA
1 TAGTATA
15104851 AATTAATAAT
Statistics
Matches: 241, Mismatches: 28, Indels: 22
0.83 0.10 0.08
Matches are distributed among these distances:
64 4 0.02
65 34 0.14
66 10 0.04
67 4 0.02
68 42 0.17
69 141 0.59
70 6 0.02
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (69 bp):
TAGTATATATAAACTATATAGTATATATAAATTATATATTATATAGTTCATTAGTATATATAAAC
TATA
Found at i:15104628 original size:51 final size:51
Alignment explanation
Indices: 15104573--15104850 Score: 257
Period size: 51 Copynumber: 5.5 Consensus size: 51
15104563 ATAAACTATA
* *
15104573 TAGTATATATAAACTATATGGTACATATAAACTATATATTATATAGTTCAT
1 TAGTATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCAT
* * * *
15104624 TAGTATATATAAACTATATGGAATATA-AAATTATAAATTATATAGTTCAT
1 TAGTATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCAT
* ** *** *
15104674 TAGTATATTTAAACTATATAGTATATATAAACTATATGGTATATA-CAAAC
1 TAGTATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCAT
* * * ** *
15104724 TA-TATATTATATAGT-TCATTAGTATATATAAACTATATAGTATATA-TAAAC
1 TAGTATA-TATAAACTAT-A-TAGTATATATAAACTATATATTATATAGTTCAT
* *
15104775 TA-TATAGTATATAGT-TCATTAGTATATATAAACTATATATTAT-TAGTTCAT
1 TAGTATA-TATAAACTAT-A-TAGTATATATAAACTATATATTATATAGTTCAT
15104826 TAGTATATATAAACTATATAGTATA
1 TAGTATATATAAACTATATAGTATA
15104851 AATTAATAAT
Statistics
Matches: 193, Mismatches: 27, Indels: 15
0.82 0.11 0.06
Matches are distributed among these distances:
49 5 0.03
50 63 0.33
51 120 0.62
52 5 0.03
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.42
Consensus pattern (51 bp):
TAGTATATATAAACTATATAGTATATATAAACTATATATTATATAGTTCAT
Found at i:15104680 original size:50 final size:51
Alignment explanation
Indices: 15104573--15104709 Score: 206
Period size: 50 Copynumber: 2.7 Consensus size: 51
15104563 ATAAACTATA
*
15104573 TAGTATATATAAACTATATGGTACATATAAACTATATATTATATAGTTCAT
1 TAGTATATATAAACTATATGGTACATATAAACTATAAATTATATAGTTCAT
*
15104624 TAGTATATATAAACTATATGG-A-ATATAAAATTATAAATTATATAGTTCAT
1 TAGTATATATAAACTATATGGTACATAT-AAACTATAAATTATATAGTTCAT
* * *
15104674 TAGTATATTTAAACTATATAGTATATATAAACTATA
1 TAGTATATATAAACTATATGGTACATATAAACTATA
15104710 TGGTATATAC
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
49 4 0.05
50 41 0.53
51 29 0.37
52 4 0.05
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (51 bp):
TAGTATATATAAACTATATGGTACATATAAACTATAAATTATATAGTTCAT
Found at i:15104689 original size:170 final size:168
Alignment explanation
Indices: 15104350--15104814 Score: 537
Period size: 170 Copynumber: 2.7 Consensus size: 168
15104340 TAAAGTTCAT
* * * * *
15104350 TAGTATATATAAATTTTATAGTATATAGTTCATTAGTCTATATATACTATATACTATATAGTATA
1 TAGTATATATAAATTATATAGTATATAGTTCATTAATATATATATACTATATAGTATATA-TAAA
* * * * *
15104415 -TAGTTCATTAGTATATATAAATTATATATTATATAGTTCACTAATATATATATA-TAAACTATA
65 CTA--T-A-TAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA-TATA
*
15104478 TATAAACTATATATTATATAGTTCATTAGTATATATAAACTATA
125 TATAAACTATAAATTATATAGTTCATTAGTATATATAAACTATA
* * * *
15104522 TGGTATATATAAATTATACATTATATAGTTCATTAATATATATAAACTATATAGTATATATAAAC
1 TAGTATATATAAATTATATAGTATATAGTTCATTAATATATATATACTATATAGTATATATAAAC
* *
15104587 TATATGGTACATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATATGGA-ATATA
66 TATATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATAT--ATATAT-
* *
15104651 AAATTATAAATTATATAGTTCATTAGTATATTTAAACTATA
128 AAACTATAAATTATATAGTTCATTAGTATATATAAACTATA
* * *** * *
15104692 TAGTATATATAAACTATATGGTATATA-CAAACT-ATATATTATATAGT-TCATTAGTATATATA
1 TAGTATATATAAATTATATAGTATATAGTTCATTAATATA-TATATACTAT-A-TAGTATATATA
*
15104754 AACTATATAGTATATATAAACTATATAGTATATAGTTCATTAGTATATATAAACTATATAT
63 AACTATATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAT
15104815 TATTAGTTCA
Statistics
Matches: 251, Mismatches: 33, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
168 48 0.19
169 17 0.07
170 129 0.51
171 3 0.01
172 54 0.22
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (168 bp):
TAGTATATATAAATTATATAGTATATAGTTCATTAATATATATATACTATATAGTATATATAAAC
TATATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAAACTATATATATATAAA
CTATAAATTATATAGTTCATTAGTATATATAAACTATA
Found at i:15104827 original size:32 final size:33
Alignment explanation
Indices: 15104231--15104850 Score: 313
Period size: 33 Copynumber: 18.5 Consensus size: 33
15104221 ATATATATTA
* * *
15104231 ATAAACTATAAAGTATATAGTTTATATAAT-TAT
1 ATAAACTATATAGTATATAGTTCAT-TAGTATAT
* * *
15104264 ATTAA-TA-A-ACTATATAGTTTATTAG--TAT
1 ATAAACTATATAGTATATAGTTCATTAGTATAT
* * *
15104292 ATAAACTATATATTATAAAGTTTATTAGTATAT
1 ATAAACTATATAGTATATAGTTCATTAGTATAT
* *
15104325 ATAAACTATATATTATAAAGTTCATTAGTATAT
1 ATAAACTATATAGTATATAGTTCATTAGTATAT
* *
15104358 ATAAATTTTATAGTATATAGTTCATTAGTCTATATAT
1 ATAAACTATATAGTATATAGTTCATTAG----TATAT
15104395 ACTATATACTATATAGTATATAGTTCATTAGTATAT
1 A-TA-A-ACTATATAGTATATAGTTCATTAGTATAT
* * *
15104431 ATAAATTATATATTATATAGTTCACTAATATATATAT
1 ATAAACTATATAGTATATAGTTCA-T--TA-GTATAT
*
15104468 ATAAACTATATA-TAAACTA-TAT-ATTA-TATAGT
1 ATAAACTATATAGTATA-TAGT-TCATTAGTATA-T
* * ** *
15104500 -T-CATTAGTATA-TATA-AACT-ATATGGTATAT
1 ATAAACTA-TATAGTATATAGTTCAT-TAGTATAT
* * * *
15104530 ATAAATTATACATTATATAGTTCATTAATATAT
1 ATAAACTATATAGTATATAGTTCATTAGTATAT
* * *
15104563 ATAAACTATATAGTATATA-TAAACTATATGGTACAT
1 ATAAACTATATAGTATATAGT--TC-AT-TAGTATAT
*
15104599 ATAAACTATATATTATATAGTTCATTAGTATAT
1 ATAAACTATATAGTATATAGTTCATTAGTATAT
* * ** *
15104632 ATAAACTATATGGAATATA--AAATTA-TAAATT
1 ATAAACTATATAGTATATAGTTCATTAGTATA-T
* *
15104663 ATATAGT-TCATTAGTATAT--TTAAACTATATAGTATAT
1 ATAAACTAT-A-TAGTATATAGTT---C-AT-TAGTATAT
* *** *
15104700 ATAAACTATATGGTATATA-CAAACTA-TATATT
1 ATAAACTATATAGTATATAGTTCATTAGTATA-T
* * *
15104732 ATATAGT-TCATTAGTATATA-TAAACTATATAGTATAT
1 ATAAACTAT-A-TAGTATATAGT--TC-AT-TAGTATAT
15104769 ATAAACTATATAGTATATAGTTCATTAGTATAT
1 ATAAACTATATAGTATATAGTTCATTAGTATAT
*
15104802 ATAAACTATATATTAT-TAGTTCATTAGTATAT
1 ATAAACTATATAGTATATAGTTCATTAGTATAT
15104834 ATAAACTATATAGTATA
1 ATAAACTATATAGTATA
15104851 AATTAATAAT
Statistics
Matches: 460, Mismatches: 71, Indels: 112
0.72 0.11 0.17
Matches are distributed among these distances:
28 7 0.02
29 8 0.02
30 23 0.05
31 52 0.11
32 58 0.13
33 161 0.35
34 9 0.02
35 8 0.02
36 55 0.12
37 45 0.10
38 11 0.02
39 1 0.00
40 22 0.05
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.43
Consensus pattern (33 bp):
ATAAACTATATAGTATATAGTTCATTAGTATAT
Found at i:15105028 original size:16 final size:15
Alignment explanation
Indices: 15105009--15105039 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
15104999 AAATGATTAA
15105009 TAATTTAAATATAATT
1 TAATTTAAA-ATAATT
15105025 TAATTTAAAATAATT
1 TAATTTAAAATAATT
15105040 ATATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATTTAAAATAATT
Found at i:15105344 original size:2 final size:2
Alignment explanation
Indices: 15105337--15105364 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15105327 ATTATAACTG
15105337 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
15105365 TTTAAAATGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15106615 original size:18 final size:18
Alignment explanation
Indices: 15106592--15106661 Score: 122
Period size: 18 Copynumber: 3.9 Consensus size: 18
15106582 AATTTATTCT
15106592 AACTATATAGTATATATA
1 AACTATATAGTATATATA
*
15106610 AACTATATGGTATATATA
1 AACTATATAGTATATATA
15106628 AACTATATAGTATATATA
1 AACTATATAGTATATATA
*
15106646 AACTATATATTATATA
1 AACTATATAGTATATA
15106662 ATTCATTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (18 bp):
AACTATATAGTATATATA
Found at i:15106838 original size:14 final size:14
Alignment explanation
Indices: 15106806--15106838 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15106796 TTGAAGATTT
*
15106806 ATAACATAAGAATC
1 ATAATATAAGAATC
15106820 ATAATATAAGAATC
1 ATAATATAAGAATC
15106834 ATAAT
1 ATAAT
15106839 TAATATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (14 bp):
ATAATATAAGAATC
Found at i:15108008 original size:17 final size:14
Alignment explanation
Indices: 15107976--15108004 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15107966 TGTCTCATTT
15107976 TATTATTATTTTAA
1 TATTATTATTTTAA
15107990 TATTATTA-TTTAA
1 TATTATTATTTTAA
15108003 TA
1 TA
15108005 AATAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTATTATTTTAA
Found at i:15109512 original size:28 final size:27
Alignment explanation
Indices: 15109481--15109539 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
15109471 TAATTCTTTC
*
15109481 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATA-TTATTA
** *
15109509 TTTTCCTAATATTTATATATATTATTT
1 TTTTCAAAATATTTATATATATTATTA
15109536 TTTT
1 TTTT
15109540 ATTAATGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.63
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATATTATTA
Found at i:15110079 original size:15 final size:17
Alignment explanation
Indices: 15110048--15110079 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
15110038 TTTTCTGAAT
15110048 AAATGCATGCGAATTAG
1 AAATGCATGCGAATTAG
15110065 AAAT-CATGC-AATTAG
1 AAATGCATGCGAATTAG
15110080 GTTAACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (17 bp):
AAATGCATGCGAATTAG
Found at i:15113976 original size:7 final size:7
Alignment explanation
Indices: 15113964--15114028 Score: 62
Period size: 7 Copynumber: 9.1 Consensus size: 7
15113954 CTTGAAGAAG
15113964 AGAAAAA
1 AGAAAAA
15113971 AGAAAAAAA
1 AG--AAAAA
*
15113980 AGGAAAA
1 AGAAAAA
15113987 AGAAAAA
1 AGAAAAA
15113994 AGAAAAA
1 AGAAAAA
15114001 A-AAAGAA
1 AGAAA-AA
**
15114008 AGAAGGA
1 AGAAAAA
15114015 A-AAAAA
1 AGAAAAA
15114021 AGAAAAA
1 AGAAAAA
15114028 A
1 A
15114029 TTGAATCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
6 7 0.15
7 31 0.66
8 2 0.04
9 7 0.15
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:15113987 original size:17 final size:16
Alignment explanation
Indices: 15113965--15114028 Score: 62
Period size: 18 Copynumber: 3.9 Consensus size: 16
15113955 TTGAAGAAGA
15113965 GAAAAAAGAAAAAAAAG
1 GAAAAAA-AAAAAAAAG
*
15113982 G--AAAAAGAAAAAA-
1 GAAAAAAAAAAAAAAG
15113995 GAAAAAAAAAGAAAGAAG
1 GAAAAAAAAA-AAA-AAG
15114013 GAAAAAAAAGAAAAAA
1 GAAAAAAAA-AAAAAA
15114029 TTGAATCAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
13 1 0.03
14 7 0.18
15 10 0.26
16 3 0.08
17 5 0.13
18 12 0.31
19 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
GAAAAAAAAAAAAAAG
Found at i:15113993 original size:23 final size:24
Alignment explanation
Indices: 15113964--15114028 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 24
15113954 CTTGAAGAAG
*
15113964 AGAAAAAAGAAAAAAAAGGAAA-A
1 AGAAAAAAGAAAAAAAAAGAAAGA
15113987 AGAAAAAAGAAAAAAAAAGAAAGA
1 AGAAAAAAGAAAAAAAAAGAAAGA
*
15114011 AGGAAAAAA-AAGAAAAAA
1 A-GAAAAAAGAAAAAAAAA
15114029 TTGAATCAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 21 0.55
24 10 0.26
25 7 0.18
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (24 bp):
AGAAAAAAGAAAAAAAAAGAAAGA
Found at i:15113994 original size:14 final size:12
Alignment explanation
Indices: 15113973--15114028 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 12
15113963 GAGAAAAAAG
*
15113973 AAAAAAAAGGAA
1 AAAAAAAAAGAA
15113985 AAAGAAAAAAGAAA
1 AAA-AAAAAAG-AA
15113999 AAAAAAGAAAGAA
1 AAAAAA-AAAGAA
*
15114012 GGAAAAAAAAGAA
1 -AAAAAAAAAGAA
15114025 AAAA
1 AAAA
15114029 TTGAATCAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 6 0.16
13 17 0.46
14 14 0.38
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:15114528 original size:32 final size:32
Alignment explanation
Indices: 15114479--15114545 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
15114469 AGAGTCTGGA
* * * *
15114479 AACAAGAAGTATTTCTACGAGATGAGCATAAC
1 AACAAGAAATATCTCTACCAGATAAGCATAAC
15114511 AACAAGAAATATCTCTACCAGATAAGCATAAC
1 AACAAGAAATATCTCTACCAGATAAGCATAAC
15114543 AAC
1 AAC
15114546 CATTTCTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (32 bp):
AACAAGAAATATCTCTACCAGATAAGCATAAC
Found at i:15119426 original size:35 final size:35
Alignment explanation
Indices: 15119381--15119480 Score: 103
Period size: 37 Copynumber: 2.8 Consensus size: 35
15119371 ATAGTAATTT
15119381 ATCTCACTTGAGATTGTTTTTCTTAAAATA-AACTG
1 ATCTCACTTGAGATTGTTTTTCTTAAAA-ACAACTG
* * ** * * *
15119416 ATCTCGCTTGAGATAGTTTCACTCGAAACAACAATTT
1 ATCTCACTTGAGATTGTTTTTCT-TAAA-AACAACTG
15119453 ATCTCACTTGAGATTGTTTTTCTTAAAA
1 ATCTCACTTGAGATTGTTTTTCTTAAAA
15119481 CAAGATTTGT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
35 20 0.40
36 7 0.14
37 23 0.46
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (35 bp):
ATCTCACTTGAGATTGTTTTTCTTAAAAACAACTG
Found at i:15119463 original size:37 final size:36
Alignment explanation
Indices: 15119416--15119525 Score: 105
Period size: 37 Copynumber: 3.0 Consensus size: 36
15119406 AAATAAACTG
*
15119416 ATCTCGCTTGAGATAGTTTCACTCGAAACAACAATTT
1 ATCTCGCTTGAGATAGTTTCACTAGAAACAA-AATTT
* * ** *
15119453 ATCTCACTTGAGATTGTTTTTCTTA-AAACAAGATTT
1 ATCTCGCTTGAGATAGTTTCAC-TAGAAACAAAATTT
* * *
15119489 GTCTCGCTTGAGACAGTTTCACTAGAAATAGAAATTT
1 ATCTCGCTTGAGATAGTTTCACTAGAAACA-AAATTT
15119526 CCATCACTCG
Statistics
Matches: 56, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
35 2 0.04
36 24 0.43
37 29 0.52
38 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (36 bp):
ATCTCGCTTGAGATAGTTTCACTAGAAACAAAATTT
Found at i:15119760 original size:123 final size:121
Alignment explanation
Indices: 15119541--15119989 Score: 538
Period size: 123 Copynumber: 3.7 Consensus size: 121
15119531 ACTCGATGGG
* **
15119541 CCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGGGGAAGTTCATA
1 CCAACATTTCCAGAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
*
15119605 ATGAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCCCAAAAGGAGATGGATCAGCA
65 ATAAGAAGAACTTGTTCAACCTTTTGCTCGATTCTAT-CCAAAA-GAGATGGATCAGCA
* * *
15119664 CCAACATTTACAGAAGTGTTCATAATGAGAAGAACTAATCTGAAGAAGGAAGAAGAAGTTCATAA
1 CCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
*
15119729 TAAGAAGAACTTGTTCAACCTTTTGCTCGATTCTAT-C-AAAGA-AAGAGAT-AG-A
66 TAAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCCAAAAGAGATG-GATCAGCA
* * * * * *
15119781 TCAAAATTTCCAGAAGTGTTCATAATGAGAAGAAATCATCTAAAGAA-GAAGAATAAGTTCATAA
1 CCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* * **
15119845 TAAGAAGAATTTGTTCAACCTTTTGCAT-GACTCTATCACAAAAAGAGATATATCAGCA
66 TAAGAAGAACTTGTTCAACCTTTTGC-TCGATTCTATC-C-AAAAGAGATGGATCAGCA
* * * * *
15119903 TCATCATTTCCAGAAAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGG-AGAAGAAATTTATA
1 CCAACATTTCCAG-AAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
* *
15119967 ATGAGAAGAATTTGTTCAACCTT
65 ATAAGAAGAACTTGTTCAACCTT
15119990 GCCTTAATTC
Statistics
Matches: 284, Mismatches: 30, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
116 48 0.17
117 43 0.15
118 5 0.02
119 5 0.02
120 10 0.04
121 4 0.01
122 39 0.14
123 129 0.45
124 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (121 bp):
CCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
TAAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCCAAAAGAGATGGATCAGCA
Found at i:15119976 original size:239 final size:239
Alignment explanation
Indices: 15119559--15119989 Score: 623
Period size: 239 Copynumber: 1.8 Consensus size: 239
15119549 TCCAGAGGAA
* * * ** *
15119559 GTTCATAATGAGAAGAACTCATCTGAAGAGGAAGGGGAAGTTCATAATGAGAAGAACTTGTTCAA
1 GTTCATAATGAGAAGAAATCATCTAAAGAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
* * * * *
15119624 CCTTTTGCTCGATTCTATCCCAAAAGGAGATGGATCAGCACCAACATTTACAGAAGTGTTCATAA
66 CCTTTTGCTCGACTCTATCACAAAAAGAGATAGATCAGCACCAACATTTACAGAAGAGTTCATAA
* *
15119689 TGAGAAGAACTAATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTG
131 TAAGAAGAACTAATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCAACCTTTTG
15119754 CTCGATTCTATCAAAGAAAGAGATAGATCAAAATTTCCAGAAGT
196 CTCGATTCTATCAAAGAAAGAGATAGATCAAAATTTCCAGAAGT
* *
15119798 GTTCATAATGAGAAGAAATCATCTAAAGAAGAAGAATAAGTTCATAATAAGAAGAATTTGTTCAA
1 GTTCATAATGAGAAGAAATCATCTAAAGAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
* * * *
15119863 CCTTTTGCAT-GACTCTATCACAAAAAGAGATATATCAGCATCATCATTTCCAGAAAGAGTTCAT
66 CCTTTTGC-TCGACTCTATCACAAAAAGAGATAGATCAGCACCAACATTTACAG-AAGAGTTCAT
* * * *
15119927 AATAAGAAGAACTCATCTGAAGAAGG-AGAAGAAATTTATAATGAGAAGAATTTGTTCAACCTT
129 AATAAGAAGAACTAATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCAACCTT
15119990 GCCTTAATTC
Statistics
Matches: 167, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
239 133 0.80
240 34 0.20
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (239 bp):
GTTCATAATGAGAAGAAATCATCTAAAGAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
CCTTTTGCTCGACTCTATCACAAAAAGAGATAGATCAGCACCAACATTTACAGAAGAGTTCATAA
TAAGAAGAACTAATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAACTTGTTCAACCTTTTG
CTCGATTCTATCAAAGAAAGAGATAGATCAAAATTTCCAGAAGT
Found at i:15120734 original size:22 final size:22
Alignment explanation
Indices: 15120708--15120750 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
15120698 TGACCGGTCT
*
15120708 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCATTGACCC
15120730 GACCCGACCCGACCATTGACC
1 GACCCGACCCGACCATTGACC
15120751 GTTGACCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.49, G:0.21, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCATTGACCC
Found at i:15122670 original size:3 final size:3
Alignment explanation
Indices: 15122662--15122694 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
15122652 TTTTATCTCA
*
15122662 TAT TAT TAT TAT TAT TAT T-T TAA TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
15122695 TAATAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15122690 original size:14 final size:13
Alignment explanation
Indices: 15122662--15122699 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
15122652 TTTTATCTCA
*
15122662 TATTA-TTATTAT
1 TATTATTTAATAT
15122674 TATTATTTTAATAT
1 TATTA-TTTAATAT
15122688 TATTATTTAATA
1 TATTATTTAATA
15122700 AATAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 5 0.22
13 7 0.30
14 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TATTATTTAATAT
Found at i:15123380 original size:22 final size:22
Alignment explanation
Indices: 15123335--15123380 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
15123325 ATAGTGACCA
* * *
15123335 GTGGTCGGAATAGTGATCGACG
1 GTGGTCGAAATAGTAACCGACG
*
15123357 GTGGTCGAAATAGTAACCGGCG
1 GTGGTCGAAATAGTAACCGACG
15123379 GT
1 GT
15123381 AACCAGCCGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.15, G:0.39, T:0.22
Consensus pattern (22 bp):
GTGGTCGAAATAGTAACCGACG
Found at i:15134137 original size:137 final size:138
Alignment explanation
Indices: 15133882--15134163 Score: 381
Period size: 137 Copynumber: 2.1 Consensus size: 138
15133872 GTCAAAGGTG
* *
15133882 CATTTCGATATACAATCATGTATAAAAGTTATCGATCGATTTTGTTTAATGCATAACGATGTATT
1 CATTTCGATATACAATCATGTATAAAAGTTATCGAGCGATTTTGTTTAATGCATAACGATGCATT
* * * * * *
15133947 TTTGTATCAGTATTGTGTGTACTTTTGGCACTAGATGTGTAATCATCGTATTCACAATGAGTTTC
66 TTTGTATCAATAATATATGTACTTTTGACACTAGATGTGTAATCATCGAATTCACAATGAGTTTC
15134012 TGAATTAC
131 TGAATTAC
* *
15134020 CATTTCGATATGCAATCATGTATAAAAGTTATCGAGCGA-TTTGTTTAATGCATAACGGTGCATT
1 CATTTCGATATACAATCATGTATAAAAGTTATCGAGCGATTTTGTTTAATGCATAACGATGCATT
* * * *
15134084 TTTTTATCAATAATATATGTACTTTTGACACT--ATGTGTGCATCCATGGAATTCATAATGAGTT
66 TTTGTATCAATAATATATGTACTTTTGACACTAGATGTGT-AAT-CATCGAATTCACAATGAGTT
* *
15134147 TGTGAATTTC
129 TCTGAATTAC
15134157 CATTTCG
1 CATTTCG
15134164 GCACTTCGGT
Statistics
Matches: 126, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
135 6 0.05
136 2 0.02
137 81 0.64
138 37 0.29
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (138 bp):
CATTTCGATATACAATCATGTATAAAAGTTATCGAGCGATTTTGTTTAATGCATAACGATGCATT
TTTGTATCAATAATATATGTACTTTTGACACTAGATGTGTAATCATCGAATTCACAATGAGTTTC
TGAATTAC
Found at i:15139127 original size:19 final size:20
Alignment explanation
Indices: 15139103--15139140 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
15139093 AATTGAATCC
*
15139103 AATATATAAT-TTAAAATTG
1 AATATAAAATCTTAAAATTG
15139122 AATATAAAATCTTAAAATT
1 AATATAAAATCTTAAAATT
15139141 CATTAACACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (20 bp):
AATATAAAATCTTAAAATTG
Found at i:15153878 original size:37 final size:38
Alignment explanation
Indices: 15153818--15153989 Score: 140
Period size: 37 Copynumber: 4.8 Consensus size: 38
15153808 TATTTCTCTC
* *
15153818 AAAACAAAATGTTGTCTCACTTGAGACATTTTTATCTT-
1 AAAAC-AAATTTTGTTTCACTTGAGACATTTTTATCTTA
*
15153856 AAAACAAATTTTGTTTCACTTGAGACA-TTTT-CCTTCA
1 AAAACAAATTTTGTTTCACTTGAGACATTTTTATCTT-A
* * *
15153893 GAACACAAA-----TTTCA----A-A-GTTGTTTTTCTTA
1 -AAAACAAATTTTGTTTCACTTGAGACATT-TTTATCTTA
*
15153922 AAAACAAATTTTGTCTCACTTGAGACATTTTTATCTT-
1 AAAACAAATTTTGTTTCACTTGAGACATTTTTATCTTA
15153959 AAAACAAATTTTGTTTCACTTGAGACATTTT
1 AAAACAAATTTTGTTTCACTTGAGACATTTT
15153990 CCTTCGGAAC
Statistics
Matches: 106, Mismatches: 11, Indels: 35
0.70 0.07 0.23
Matches are distributed among these distances:
28 9 0.08
29 5 0.05
30 3 0.03
33 9 0.08
35 3 0.03
36 4 0.04
37 51 0.48
38 20 0.19
39 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (38 bp):
AAAACAAATTTTGTTTCACTTGAGACATTTTTATCTTA
Found at i:15153946 original size:103 final size:103
Alignment explanation
Indices: 15153803--15154087 Score: 462
Period size: 103 Copynumber: 2.7 Consensus size: 103
15153793 TGCCTTCTTG
* *
15153803 GTTGTTATTTCTCTCAAAACAAAATGTTGTCTCACTTGAGACATTTTTATCTTAAAACAAATTTT
1 GTTGTT-TTTCT-TAAAAAC-AAATTTTGTCTCACTTGAGACATTTTTATCTTAAAACAAATTTT
15153868 GTTTCACTTGAGACATTTTCCTTCAGAACACAAATTTCAAA
63 GTTTCACTTGAGACATTTTCCTTCAGAACACAAATTTCAAA
15153909 GTTGTTTTTCTTAAAAACAAATTTTGTCTCACTTGAGACATTTTTATCTTAAAACAAATTTTGTT
1 GTTGTTTTTCTTAAAAACAAATTTTGTCTCACTTGAGACATTTTTATCTTAAAACAAATTTTGTT
*
15153974 TCACTTGAGACATTTTCCTTCGGAACACAAATTTCAAA
66 TCACTTGAGACATTTTCCTTCAGAACACAAATTTCAAA
* * * *
15154012 GTTGTTTTTCTTAAAAAAAAAAATTTGTCTCGCTTGAGACATTTTTCTCTTAAAACAAATTTTGT
1 GTTGTTTTTCTT-AAAAACAAATTTTGTCTCACTTGAGACATTTTTATCTTAAAACAAATTTTGT
*
15154077 TTCGCTTGAGA
65 TTCACTTGAGA
15154088 TATATTTCTC
Statistics
Matches: 170, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
103 95 0.56
104 64 0.38
105 5 0.03
106 6 0.04
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (103 bp):
GTTGTTTTTCTTAAAAACAAATTTTGTCTCACTTGAGACATTTTTATCTTAAAACAAATTTTGTT
TCACTTGAGACATTTTCCTTCAGAACACAAATTTCAAA
Found at i:15154076 original size:37 final size:37
Alignment explanation
Indices: 15154026--15154128 Score: 118
Period size: 37 Copynumber: 2.8 Consensus size: 37
15154016 TTTTTCTTAA
* *
15154026 AAAAAAAAATTTGTCTCGCTTGAGACATTTTTCTCTT
1 AAAACAAAATTTGTCTCGCTTGAGACATTTTTCTCTC
* * * *
15154063 AAAACAAATTTTGTTTCGCTTGAGATATATTTCTCTC
1 AAAACAAAATTTGTCTCGCTTGAGACATTTTTCTCTC
* *
15154100 AAAACAAGCA-TCGTCTCGCTTGAGACATT
1 AAAACAA-AATTTGTCTCGCTTGAGACATT
15154129 CTCCAAAAAT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (37 bp):
AAAACAAAATTTGTCTCGCTTGAGACATTTTTCTCTC
Found at i:15154260 original size:36 final size:36
Alignment explanation
Indices: 15154149--15154275 Score: 134
Period size: 36 Copynumber: 3.5 Consensus size: 36
15154139 TTTGGAATAT
* *
15154149 TTAAAACAAA-ATTGATCTCACC-TGAGATAGTTTTCC
1 TTAAAACAAATTTTG-TCTC-CCTTGAGATAGTTTCCC
* * *
15154185 -AAAGAACAAATTTTGTCTCCCTTGAGATAATTTCTC
1 TTAA-AACAAATTTTGTCTCCCTTGAGATAGTTTCCC
*
15154221 TTAAAACAAATTTTGTCTCCTTTGAGATAGTTTCCC
1 TTAAAACAAATTTTGTCTCCCTTGAGATAGTTTCCC
* *
15154257 TTAAAACAGACTTTGTCTC
1 TTAAAACAAATTTTGTCTC
15154276 GCTTAAGACA
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
35 4 0.05
36 67 0.88
37 5 0.07
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (36 bp):
TTAAAACAAATTTTGTCTCCCTTGAGATAGTTTCCC
Found at i:15154413 original size:74 final size:75
Alignment explanation
Indices: 15154256--15154413 Score: 187
Period size: 74 Copynumber: 2.1 Consensus size: 75
15154246 GATAGTTTCC
* * * *
15154256 CTTAAAACAGACTTTGTCTCGCTTAAGACATTTTTTTCTCACAACAAGACATTTCGTTTCATTAC
1 CTTAAAACAGACTTTGTCTCGCTTAAGACA-TTTTTACTCAAAACAAGACATTTCATTTCATCAC
15154321 AAATTACTTTT
65 AAATTACTTTT
* * *
15154332 CTCAAAACATATTTTGTCTCGCTTAAGACA-TTTTACTCAAAACAAGA-ATATTCATTTCACTCA
1 CTTAAAACAGACTTTGTCTCGCTTAAGACATTTTTACTCAAAACAAGACAT-TTCATTTCA-TCA
**
15154395 -AAATTGTTTTT
64 CAAATTACTTTT
15154406 CTTAAAAC
1 CTTAAAAC
15154414 CAAAATTTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
73 2 0.03
74 39 0.56
75 2 0.03
76 27 0.39
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (75 bp):
CTTAAAACAGACTTTGTCTCGCTTAAGACATTTTTACTCAAAACAAGACATTTCATTTCATCACA
AATTACTTTT
Found at i:15154626 original size:51 final size:53
Alignment explanation
Indices: 15154507--15154694 Score: 177
Period size: 51 Copynumber: 3.6 Consensus size: 53
15154497 AGACTTTTAA
* * *
15154507 AAACTAAGCCTGATTTTCAGGGGTTTCTCGATGTTTTCAAATGAACTTAAAAG
1 AAACTAAGCCTAATTTTAAGGGGTTTCTTGATGTTTTCAAATGAACTTAAAAG
** * * * * *
15154560 AGGCTAAACCTAATTTT-AGGGGTTTCTTAATGTTTT-AAATGAATTTCAAAT
1 AAACTAAGCCTAATTTTAAGGGGTTTCTTGATGTTTTCAAATGAACTTAAAAG
* * * * **
15154611 AAATTAAGCCTAATTTTAAGGGATTTCTTGATATTTTCAAATG-AGTT-TTAG
1 AAACTAAGCCTAATTTTAAGGGGTTTCTTGATGTTTTCAAATGAACTTAAAAG
* * *
15154662 AAACTAAACCTGATTTTCAGGGGTTTCTTGATG
1 AAACTAAGCCTAATTTTAAGGGGTTTCTTGATG
15154695 ATGATTTTGA
Statistics
Matches: 107, Mismatches: 26, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
51 53 0.50
52 36 0.34
53 18 0.17
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.39
Consensus pattern (53 bp):
AAACTAAGCCTAATTTTAAGGGGTTTCTTGATGTTTTCAAATGAACTTAAAAG
Found at i:15154882 original size:20 final size:20
Alignment explanation
Indices: 15154857--15154911 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
15154847 GAGCAAGATG
15154857 ATAAGTCCTTCGGGCTATCC
1 ATAAGTCCTTCGGGCTATCC
15154877 ATAAGTCCTTCGGGCTATCC
1 ATAAGTCCTTCGGGCTATCC
*
15154897 ATAAGACCTTCGGGC
1 ATAAGTCCTTCGGGC
15154912 AGGATGTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (20 bp):
ATAAGTCCTTCGGGCTATCC
Found at i:15161169 original size:23 final size:23
Alignment explanation
Indices: 15161143--15161187 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
15161133 ATATAATATA
15161143 AATAT-TTTATATCTTTTATTAAG
1 AATATATTTATATCTTTT-TTAAG
*
15161166 AATATATTTTTATCTTTTTTAA
1 AATATATTTATATCTTTTTTAA
15161188 TGCATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
AATATATTTATATCTTTTTTAAG
Found at i:15167576 original size:22 final size:21
Alignment explanation
Indices: 15167534--15167578 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 21
15167524 AATATAAGGA
15167534 ATTGAAGTGTTATGTTGGAAAT
1 ATTGAAGTGTTA-GTTGGAAAT
15167556 ATTGAAGTTGTTA-TTGAGAAAT
1 ATTGAAG-TGTTAGTTG-GAAAT
15167578 A
1 A
15167579 AAATGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 3 0.14
22 13 0.62
23 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (21 bp):
ATTGAAGTGTTAGTTGGAAAT
Found at i:15170886 original size:54 final size:54
Alignment explanation
Indices: 15170828--15171175 Score: 491
Period size: 54 Copynumber: 6.4 Consensus size: 54
15170818 CTAAGTGTAC
* * * *
15170828 TATAGGCACTATGTGTACAACCCATGGAATTCATCACATGTTGATGAACGACCG
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* * *
15170882 TATAGGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAATGAACG
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* * * *
15170936 TATATGCACTATGTGTGCAACTCACGAAATTCATCATATATTGATGAACGACCA
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* *
15170990 TATAGGTACTATGTGTGCAACCCAC-ATAATTCATCATATGTTGATGAATGACCG
1 TATAGGCACTATGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACGACCG
* * *
15171044 TATAGGCACTATGTGTGCAACCCACGAAATTCATCACATGTTGATAAACGACTG
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
* * * *
15171098 TATAGGCACTATGTGTGTAACCCACGAAATTCATCATATGTTTATAAACGACCA
1 TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
*
15171152 TATAGGCACTAAGTGTGCAACCCA
1 TATAGGCACTATGTGTGCAACCCA
15171176 TTTTCAATGC
Statistics
Matches: 262, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
53 1 0.00
54 260 0.99
55 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (54 bp):
TATAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACGACCG
Found at i:15171255 original size:61 final size:62
Alignment explanation
Indices: 15171181--15171299 Score: 231
Period size: 62 Copynumber: 1.9 Consensus size: 62
15171171 ACCCATTTTC
15171181 AATGCCTAACGGTGCA-TTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAAAAGTTA
1 AATGCCTAACGGTGCACTTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAAAAGTTA
15171242 AATGCCTAACGGTGCACTTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAAAA
1 AATGCCTAACGGTGCACTTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAAAA
15171300 TGATGTATTC
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 16 0.28
62 41 0.72
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (62 bp):
AATGCCTAACGGTGCACTTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGAAAAGTTA
Found at i:15171941 original size:51 final size:51
Alignment explanation
Indices: 15171876--15171978 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
15171866 CAGCAATAGT
* * *
15171876 AGGACAATCCTGTTTATTTTGAAAATTGCTGGCATGTAATCAGAATTAAGA
1 AGGACAATCATGTTTATTTTAAAAATTGCTGACATGTAATCAGAATTAAGA
15171927 AGGACAATCATGTTTATTTTAAAAATTGCTGACATGTAATCAGAATTAAGA
1 AGGACAATCATGTTTATTTTAAAAATTGCTGACATGTAATCAGAATTAAGA
15171978 A
1 A
15171979 AAATGCACTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (51 bp):
AGGACAATCATGTTTATTTTAAAAATTGCTGACATGTAATCAGAATTAAGA
Found at i:15177341 original size:13 final size:13
Alignment explanation
Indices: 15177323--15177379 Score: 96
Period size: 13 Copynumber: 4.4 Consensus size: 13
15177313 GTCATAAATC
15177323 TATGATGCGCATT
1 TATGATGCGCATT
15177336 TATGATGCGCATT
1 TATGATGCGCATT
*
15177349 TATGATGCACATT
1 TATGATGCGCATT
15177362 TATGATGCGCATT
1 TATGATGCGCATT
*
15177375 AATGA
1 TATGA
15177380 CGTTCTTTGA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 41 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (13 bp):
TATGATGCGCATT
Found at i:15177631 original size:2 final size:2
Alignment explanation
Indices: 15177624--15177708 Score: 170
Period size: 2 Copynumber: 42.5 Consensus size: 2
15177614 TTTCGGAAAT
15177624 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15177666 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15177708 T
1 T
15177709 TGTAGATTGA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15183634 original size:15 final size:15
Alignment explanation
Indices: 15183614--15183655 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
15183604 ATGCTTTCTT
*
15183614 TTTTCTTCTTTCACG
1 TTTTCTTCTTACACG
*
15183629 TTTTCTTCTTAGACG
1 TTTTCTTCTTACACG
*
15183644 TTGTCTTCTTAC
1 TTTTCTTCTTAC
15183656 CCCATGAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.10, C:0.24, G:0.10, T:0.57
Consensus pattern (15 bp):
TTTTCTTCTTACACG
Found at i:15187401 original size:20 final size:20
Alignment explanation
Indices: 15187376--15187415 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15187366 GTTTATGAAA
15187376 TCAAAATTTACTAAATTCAC
1 TCAAAATTTACTAAATTCAC
* *
15187396 TCAAAATTTCCTAGATTCAC
1 TCAAAATTTACTAAATTCAC
15187416 ACAATTAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.35
Consensus pattern (20 bp):
TCAAAATTTACTAAATTCAC
Found at i:15190506 original size:53 final size:53
Alignment explanation
Indices: 15190426--15190579 Score: 236
Period size: 53 Copynumber: 2.9 Consensus size: 53
15190416 CTTCGACTAG
* * *
15190426 CGGGTTCACTCCCACTTGCTTCAGGGAGTAGAACTCGAACAGTTTTCTGCCTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATTTTCTGCCTA
* * *
15190479 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAAATCGAATAATCTTCTGCCTA
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATTTTCTGCCTA
* *
15190532 CGGGTTCGCTCCCTCTTGCTTTAGAGAGTAGAACTCGAACAATTTTCT
1 CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATTTTCT
15190580 TGTGTGATTC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 90 1.00
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.31
Consensus pattern (53 bp):
CGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATTTTCTGCCTA
Found at i:15190797 original size:42 final size:41
Alignment explanation
Indices: 15190684--15190805 Score: 163
Period size: 42 Copynumber: 2.9 Consensus size: 41
15190674 TGGATGACCT
* * *** *
15190684 GAAGGATTTATCATCTTGCTCGAAAGACTCAAAAATGACCC
1 GAAGGATTTATCATCATGCTCGAAAGACTTACTGATGGCCC
*
15190725 GAATGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCC
1 GAAGGATTT-ATCATCATGCTCGAAAGACTTACTGATGGCCC
15190767 GAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGG
1 GAAGGATTT-ATCATCATGCTCGAAAGACTTACTGATGG
15190806 ATTTGCTTCA
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 8 0.11
42 63 0.89
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (41 bp):
GAAGGATTTATCATCATGCTCGAAAGACTTACTGATGGCCC
Found at i:15191110 original size:42 final size:41
Alignment explanation
Indices: 15191049--15191149 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 41
15191039 AGGTCCTATG
* * ** *
15191049 GATGGCCCGAAGGACTTATCATCTTGCTTTAAAGGCTTACA
1 GATGACCCGAAGGACTTATCATCATGCTCAAAAGACTTACA
* * *
15191090 GATTACCCGAAGGATTTTATCATCATGCTCAAAAGACTTACT
1 GATGACCCGAAGGA-CTTATCATCATGCTCAAAAGACTTACA
*
15191132 GATGGCCCGAAGGACTTA
1 GATGACCCGAAGGACTTA
15191150 AATTGTTTAC
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
41 15 0.31
42 33 0.69
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (41 bp):
GATGACCCGAAGGACTTATCATCATGCTCAAAAGACTTACA
Found at i:15199670 original size:27 final size:29
Alignment explanation
Indices: 15199616--15199674 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 29
15199606 TCAGTAAAAC
15199616 TAATTACAAGGCCATAAATTTAAATTCTAAT
1 TAATTACAAGGCCATAAATTT--ATTCTAAT
15199647 TAATTACAAGGCCATAAA-TT-TTCTAAT
1 TAATTACAAGGCCATAAATTTATTCTAAT
15199674 T
1 T
15199675 TTAATCAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 8 0.29
30 2 0.07
31 18 0.64
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (29 bp):
TAATTACAAGGCCATAAATTTATTCTAAT
Found at i:15201255 original size:20 final size:19
Alignment explanation
Indices: 15201168--15201261 Score: 57
Period size: 20 Copynumber: 4.8 Consensus size: 19
15201158 TAAACAGTAT
* *
15201168 TAATA-ATATTACTAATAA
1 TAATATATATTAATAATTA
* **
15201186 TAATTATAATTTTAATTGTTA
1 TAA-TAT-ATATTAATAATTA
* *
15201207 TAATA-ATAATAATAGTTA
1 TAATATATATTAATAATTA
*
15201225 TATTATAATATTAATAATTA
1 TAATAT-ATATTAATAATTA
*
15201245 TAATATTATATTTATAA
1 TAATA-TATATTAATAA
15201262 CCGGACAAAA
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
18 17 0.30
19 2 0.04
20 26 0.46
21 12 0.21
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (19 bp):
TAATATATATTAATAATTA
Found at i:15204715 original size:101 final size:100
Alignment explanation
Indices: 15204610--15204897 Score: 233
Period size: 102 Copynumber: 2.8 Consensus size: 100
15204600 CGATAGAATA
*
15204610 TTTTTATAGTGCCAACCGTTTACGTGATATGATTGAAACCTTTATTATTACAAAACTATAAGATA
1 TTTTTATAGTGTCAACCGTTTACGTGATATG-TTGAAACCTTTATTATTA-AAAACTATAAGATA
* * * *
15204675 TAACATA-TTTAAATTTATAATAAT-ATAGGTAGCACCT
64 AAAAAAAGTTT-AATTTATAACAATAAT-GGTAGCACCT
* ** * * * ** * * *** *
15204712 TTTTTATATTGTCAAATGTGTAAGTCATATGTATGAAACCAGTGTAATTATGGACATGTAAGATA
1 TTTTTATAGTGTCAACCGTTTACGTGATATGT-TGAAACCTTTATTATTAAAAAC-TATAAGATA
* *
15204777 AAAAAAAGTTTTATTTATAACAATAATGGTAGCATC-
64 AAAAAAAGTTTAATTTATAACAATAATGGTAGCACCT
* * *
15204813 TTTTTATAGTATCAACCGTTTACGTGATATGTTTCAAACCTTTATTATTAACAAACTATAAGA-G
1 TTTTTATAGTGTCAACCGTTTACGTGATATG-TTGAAACCTTTATTATTAA-AAACTATAAGATA
* *
15204877 AAAAGAGGTTTAAATTTATAA
64 AAAAAAAGTTT-AATTTATAA
15204898 AAATTCAGGT
Statistics
Matches: 138, Mismatches: 41, Indels: 15
0.71 0.21 0.08
Matches are distributed among these distances:
100 9 0.07
101 53 0.38
102 71 0.51
103 5 0.04
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.38
Consensus pattern (100 bp):
TTTTTATAGTGTCAACCGTTTACGTGATATGTTGAAACCTTTATTATTAAAAACTATAAGATAAA
AAAAAGTTTAATTTATAACAATAATGGTAGCACCT
Found at i:15204831 original size:203 final size:201
Alignment explanation
Indices: 15204530--15205429 Score: 639
Period size: 203 Copynumber: 4.4 Consensus size: 201
15204520 GTCAACCTTA
* * *** *
15204530 TAAGTTATATGTGCGAAACCTA-TTTCATTAATG-ACATGTAA-A-AGAAATGGAGTTTTATTTA
1 TAAGTTATATGTGTGAAACC-AGTTTAATT-ATGAACATGTAAGATA-AAACAAAGTTATATTTA
* * * * *
15204591 TAACAAT--ATCGATAGAATATTTTTATAGTGCCAACCGTTTACGTGATATGATTGAAACCTTTA
63 TAACAATACAT-GGTAGCATCTTTTTATAGTGTCAACCGTTTACGTGATATGTTTGAAACCTTTA
* * ** *
15204654 TTATT-ACAAAACTATAAGATATAACATATTTAAATTTATAATAATATAGGTAGCACCTTTTTTA
127 TTATTAAC-AAACTATAAGAAAAAACAGGTTTAAATTTATAAAAATATAGGTAGC-CC-TTTTTA
15204718 TATTGTCAAATGTG
189 TATTGT-AAATGTG
* * * * * *
15204732 TAAGTCATATGTATGAAACCAGTGTAATTATGGACATGTAAGATAAAAAAAAGTTTTATTTATAA
1 TAAGTTATATGTGTGAAACCAGTTTAATTATGAACATGTAAGATAAAACAAAGTTATATTTATAA
* *
15204797 CAATA-ATGGTAGCATCTTTTTATAGTATCAACCGTTTACGTGATATGTTTCAAACCTTTATTAT
66 CAATACATGGTAGCATCTTTTTATAGTGTCAACCGTTTACGTGATATGTTTGAAACCTTTATTAT
* *
15204861 TAACAAACTATAAGAGAAAAGAGGTTTAAATTTATAAAAAT-TCAGGTTTAG-CCTTTTTATATT
131 TAACAAACTATAAGAAAAAACAGGTTTAAATTTATAAAAATAT-AGG--TAGCCCTTTTTATATT
* *
15204924 GGAAACCGTG
193 GTAAA-TGTG
* * * * **
15204934 TGAGTTATATGTGCGAAA-CATGTTTAATTATGAACATGTATGACAAAACATGGTTATATTTATA
1 TAAGTTATATGTGTGAAACCA-GTTTAATTATGAACATGTAAGATAAAACAAAGTTATATTTATA
* * * * * * *
15204998 AAAATACATGTGGT-GCCT-TTTTTAAAGTGTCAATCATTTACGTGATATGTTTGGAACCTTTTT
65 ACAATACA--TGGTAGCATCTTTTTATAGTGTCAACCGTTTACGTGATATGTTTGAAACCTTTAT
* * * * * * *
15205061 TATTAATACACTGTTAGAAAAAACAGGTATAAATTTATAACAATACAGGTAGCGCCTTTTTATAT
128 TATTAACAAACTATAAGAAAAAACAGGTTTAAATTTATAAAAATATAGGTAGC-CCTTTTTATAT
* *
15205126 TGTTAATCGTT
192 TGTAAAT-GTG
* ** * * *
15205137 TAAGTTATATGTGTCAAACCTTTTTCATTATGAACTTGTAAGACT-AAACAAGGTTATATTTATA
1 TAAGTTATATGTGTGAAACCAGTTTAATTATGAACATGTAAGA-TAAAACAAAGTTATATTTATA
* * * * * * *
15205201 ACAATACAT-GTAGCGTCCTTTTTTTAACTGTCAACCGTTTACATGATAAGTTTGAAACTTTTTT
65 ACAATACATGGTAGCAT-CTTTTTAT-AGTGTCAACCGTTTACGTGATATGTTTGAAACCTTTAT
* * *** * * * * * * *
15205265 TATTAAGAAACTTTAATCGAAAACAAGTTAAAATGTATAACAATACAAGTAGCGCCTTCTTATAT
128 TATTAACAAACTATAAGAAAAAACAGGTTTAAATTTATAAAAATATAGGTAGC-CCTTTTTATAT
*
15205330 TCTCAACAAT-T-
192 TGT--A-AATGTG
* ** ** *** ** * * *
15205341 TAAGTTATATGTCTGAAACCTTTTTTGTTATGGTTAAATAAGACAAAACAAGGTTATATTTTTAA
1 TAAGTTATATGTGTGAAACCAGTTTAATTATGAACATGTAAGATAAAACAAAGTTATATTTATAA
* *
15205406 CAATATA-GGTAGCACCTTTTTATA
66 CAATACATGGTAGCATCTTTTTATA
15205430 TTATTGTAAA
Statistics
Matches: 560, Mismatches: 109, Indels: 58
0.77 0.15 0.08
Matches are distributed among these distances:
200 2 0.00
201 16 0.03
202 100 0.18
203 274 0.49
204 157 0.28
205 8 0.01
207 3 0.01
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (201 bp):
TAAGTTATATGTGTGAAACCAGTTTAATTATGAACATGTAAGATAAAACAAAGTTATATTTATAA
CAATACATGGTAGCATCTTTTTATAGTGTCAACCGTTTACGTGATATGTTTGAAACCTTTATTAT
TAACAAACTATAAGAAAAAACAGGTTTAAATTTATAAAAATATAGGTAGCCCTTTTTATATTGTA
AATGTG
Found at i:15205198 original size:101 final size:100
Alignment explanation
Indices: 15204610--15205431 Score: 430
Period size: 101 Copynumber: 8.1 Consensus size: 100
15204600 CGATAGAATA
* * * * * ** *
15204610 TTTTTATAGTGCCAACCGTTTACGTGATATGATTGAAACCTTTATTATTACAAAAC-TATAAGAT
1 TTTTTATATTGTCAACCGTTTAAGTGATATGTTTGAAACCTTTTTTATTA-TGAACTTGTAAGA-
* * * * * *
15204674 ATAACATA-TTTAAATTTATAATAATATAGGTAGCACC
64 AAAACA-AGGTTATATTTATAACAATACAGGTAGCGCC
** * * * ** * * * *
15204711 TTTTTTATATTGTCAAATGTGTAAGTCATATGTATGAAACCAGTGTAATTATGGACATGTAAGAT
1 -TTTTTATATTGTCAACCGTTTAAGTGATATGTTTGAAACCTTTTTTATTATGAACTTGTAAGA-
* * * **
15204776 AAAAAAAAGTTTTATTTATAACAATA-ATGGTAGCATC
64 AAAACAAGGTTATATTTATAACAATACA-GGTAGCGCC
* * * * * ** *
15204813 TTTTTATAGTATCAACCGTTTACGTGATATGTTTCAAACCTTTATTATTAACAAAC-TATAAGAG
1 TTTTTATATTGTCAACCGTTTAAGTGATATGTTTGAAACCTTTTTTATT-ATGAACTTGTAAGA-
* * * * ***
15204877 AAAA-GAGGTTTAAATTTATAAAAATTCAGGTTTAGCC
64 AAAACAAGG-TTATATTTATAACAATACAGGTAGCGCC
** * * * ** * * * * *
15204914 TTTTTATATTGGAAACCGTGTGAGTTATATGTGCGAAACATGTTTAATTATGAACATGTATGACA
1 TTTTTATATTGTCAACCGTTTAAGTGATATGTTTGAAACCTTTTTTATTATGAACTTGTAAGA-A
* * * * *
15204979 AAACATGGTTATATTTATAAAAATACATGTGGTGCC
65 AAACAAGGTTATATTTATAACAATACAGGTAGCGCC
* * * * * * *
15205015 TTTTTTAAAGTGTCAATCATTTACGTGATATGTTTGGAACCTTTTTTATTAAT-ACAC-TGTTAG
1 -TTTTTATATTGTCAACCGTTTAAGTGATATGTTTGAAACCTTTTTTATT-ATGA-ACTTGTAAG
*
15205078 AAAAA-ACAGGTATAAATTTATAACAATACAGGTAGCGCC
63 AAAAACA-AGGT-TATATTTATAACAATACAGGTAGCGCC
* * * * * * *
15205117 TTTTTATATTGTTAATCGTTTAAGTTATATGTGTCAAACCTTTTTCATTATGAACTTGTAAGACT
1 TTTTTATATTGTCAACCGTTTAAGTGATATGTTTGAAACCTTTTTTATTATGAACTTGTAAGA-A
*
15205182 AAACAAGGTTATATTTATAACAATACATGTAGCGTCC
65 AAACAAGGTTATATTTATAACAATACAGGTAGCG-CC
* * * * *
15205219 TTTTTTTAACTGTCAACCGTTTACA-TGATAAGTTTGAAACTTTTTTTATTAAGAAACTT-TAAT
1 TTTTTAT-ATTGTCAACCGTTTA-AGTGATATGTTTGAAACCTTTTTTATTATG-AACTTGTAA-
* * *
15205282 CG-AAAACAA-GTTAAAATGTATAACAATACAAGTAGCGCC
62 -GAAAAACAAGGTT-ATATTTATAACAATACAGGTAGCGCC
* * ** * * * * *
15205321 TTCTTATATTCTCAACAATTTAAGTTATATGTCTGAAACCTTTTTTGTTATG--GTTAAATAAGA
1 TTTTTATATTGTCAACCGTTTAAGTGATATGTTTGAAACCTTTTTTATTATGAACTT--GTAAGA
* * *
15205384 CAAAACAAGGTTATATTTTTAACAATATAGGTAGCACC
64 -AAAACAAGGTTATATTTATAACAATACAGGTAGCGCC
15205422 TTTTTATATT
1 TTTTTATATT
15205432 ATTGTAAATT
Statistics
Matches: 535, Mismatches: 154, Indels: 63
0.71 0.20 0.08
Matches are distributed among these distances:
98 2 0.00
99 1 0.00
100 12 0.02
101 280 0.52
102 165 0.31
103 68 0.13
104 6 0.01
105 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.39
Consensus pattern (100 bp):
TTTTTATATTGTCAACCGTTTAAGTGATATGTTTGAAACCTTTTTTATTATGAACTTGTAAGAAA
AACAAGGTTATATTTATAACAATACAGGTAGCGCC
Found at i:15205289 original size:103 final size:100
Alignment explanation
Indices: 15204978--15205322 Score: 304
Period size: 103 Copynumber: 3.4 Consensus size: 100
15204968 CATGTATGAC
* * * * * * * * *
15204978 AAAACATGGTTATATTTATAAAAATACATGTGGTGCCTTTTTTAAAGTGTCAATCATTTACGTGA
1 AAAACAAGGTTAAATTTATAACAATACATGTAGCGCCTTTTTTTAACTGTCAATCGTTTACATGA
* * *
15205043 TATGTTTGGAACCTTTTTTATTAATACACTGTT-AG
66 TATGTTTGAAACCTTTTTTATTAAGAAACT-TTAAG
* * * * *
15205078 AAAAAACAGGTATAAATTTATAACAATACAGGTAGCGCCTTTTTAT-ATTGTTAATCGTTTA-AG
1 AAAACA-AGGT-TAAATTTATAACAATACATGTAGCGCCTTTTTTTAACTGTCAATCGTTTACA-
* * * * *
15205141 TTATATGTGTCAAACCTTTTTCATTATG-AACTTGTAAG
63 TGATATGTTTGAAACCTTTTTTATTAAGAAACTT-TAAG
* *
15205179 ACTAAACAAGGTTATATTTATAACAATACATGTAGCGTCCTTTTTTTAACTGTCAACCGTTTACA
1 A--AAACAAGGTTAAATTTATAACAATACATGTAGCG-CCTTTTTTTAACTGTCAATCGTTTACA
* *
15205244 TGATAAGTTTGAAACTTTTTTTATTAAGAAACTTTAATCG
63 TGATATGTTTGAAACCTTTTTTATTAAGAAACTTTAA--G
* *
15205284 AAAACAA-GTTAAAATGTATAACAATACAAGTAGCGCCTT
1 AAAACAAGGTT-AAATTTATAACAATACATGTAGCGCCTT
15205323 CTTATATTCT
Statistics
Matches: 193, Mismatches: 38, Indels: 26
0.75 0.15 0.10
Matches are distributed among these distances:
99 1 0.01
100 9 0.05
101 62 0.32
102 46 0.24
103 67 0.35
104 6 0.03
105 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (100 bp):
AAAACAAGGTTAAATTTATAACAATACATGTAGCGCCTTTTTTTAACTGTCAATCGTTTACATGA
TATGTTTGAAACCTTTTTTATTAAGAAACTTTAAG
Found at i:15205345 original size:204 final size:203
Alignment explanation
Indices: 15204936--15205410 Score: 516
Period size: 204 Copynumber: 2.3 Consensus size: 203
15204926 AAACCGTGTG
* * * * * *
15204936 AGTTATATGTG-CGAAACATGTTTAATTATGAACATGTATGACAAAACATGGTTATATTTATAAA
1 AGTTATATGTGTC-AAACCTTTTTAATTATGAACTTGTAAGACAAAACAAGGTTATATTTATAAC
* * * * *
15205000 AATACATGTGGTGCCTTTTTTAAAGTGTCAATCATTTACGTGATATGTTTGGAACCTTTTTTATT
65 AATACATGTGGTGCCTTTTTTAAACTGTCAACCATTTACATGATAAGTTTGAAACCTTTTTTATT
* * * * * * *
15205065 AATACACTGTTAGAAAAAACAGGTATAAATTTATAACAATACAGGTAGCGCCTTTTTATATTGTT
130 AAGAAACTGTTAGAAAAAACAGGTATAAATGTATAACAATACAAGTAGCGCCTTCTTATATTCTC
*
15205130 AATCGTTTA
195 AATCATTTA
* *
15205139 AGTTATATGTGTCAAACCTTTTTCATTATGAACTTGTAAGACTAAACAAGGTTATATTTATAACA
1 AGTTATATGTGTCAAACCTTTTTAATTATGAACTTGTAAGACAAAACAAGGTTATATTTATAACA
* * *
15205204 ATACATGTAGCGT-CCTTTTTTTAACTGTCAACCGTTTACATGATAAGTTTGAAACTTTTTTTAT
66 ATACATGT-G-GTGCCTTTTTTAAACTGTCAACCATTTACATGATAAGTTTGAAACCTTTTTTAT
* *
15205268 TAAGAAACT-TTA-ATCGAAAACAAGT-TAAAATGTATAACAATACAAGTAGCGCCTTCTTATAT
129 TAAGAAACTGTTAGA--AAAAACAGGTAT-AAATGTATAACAATACAAGTAGCGCCTTCTTATAT
15205330 TCTCAA-CAATTTA
191 TCTCAATC-ATTTA
* * ** * * *
15205343 AGTTATATGTCTGAAACCTTTTTTGTTATG--GTTAAATAAGACAAAACAAGGTTATATTTTTAA
1 AGTTATATGTGTCAAACCTTTTTAATTATGAACTT--GTAAGACAAAACAAGGTTATATTTATAA
15205406 CAATA
64 CAATA
15205411 TAGGTAGCAC
Statistics
Matches: 229, Mismatches: 34, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
202 3 0.01
203 68 0.30
204 156 0.68
205 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (203 bp):
AGTTATATGTGTCAAACCTTTTTAATTATGAACTTGTAAGACAAAACAAGGTTATATTTATAACA
ATACATGTGGTGCCTTTTTTAAACTGTCAACCATTTACATGATAAGTTTGAAACCTTTTTTATTA
AGAAACTGTTAGAAAAAACAGGTATAAATGTATAACAATACAAGTAGCGCCTTCTTATATTCTCA
ATCATTTA
Found at i:15207004 original size:21 final size:21
Alignment explanation
Indices: 15206978--15207025 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
15206968 ATTTACCGTG
*
15206978 ATTGCGGCCGTCGCGGGCGCT
1 ATTGCGGCCGTCACGGGCGCT
*
15206999 ATTGCGGTCGTCACGGGCGCT
1 ATTGCGGCCGTCACGGGCGCT
15207020 ATTGCG
1 ATTGCG
15207026 CACGCTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.08, C:0.29, G:0.40, T:0.23
Consensus pattern (21 bp):
ATTGCGGCCGTCACGGGCGCT
Found at i:15208911 original size:22 final size:21
Alignment explanation
Indices: 15208885--15208945 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
15208875 TAAATGTTAC
*
15208885 TTTATCTTCTATATAATCCCGA
1 TTTATCTTCTAGATAATCCC-A
* *
15208907 TTTATCTACTAGATAATCTCA
1 TTTATCTTCTAGATAATCCCA
*
15208928 TCTTATCTTCTGGATAAT
1 T-TTATCTTCTAGATAAT
15208946 GTTGATCTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 2 0.06
22 31 0.94
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.46
Consensus pattern (21 bp):
TTTATCTTCTAGATAATCCCA
Found at i:15211216 original size:22 final size:22
Alignment explanation
Indices: 15211191--15211263 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
15211181 TACTGAAGTG
15211191 GGTATCGGTACCATAGAAGAAA
1 GGTATCGGTACCATAGAAGAAA
* * **
15211213 GGTATTGATA-C-T-GAAG-TG
1 GGTATCGGTACCATAGAAGAAA
15211231 GGTATCGGTACCATAGAAGAAA
1 GGTATCGGTACCATAGAAGAAA
*
15211253 AGTATCGGTAC
1 GGTATCGGTAC
15211264 AGTAGGAAGA
Statistics
Matches: 38, Mismatches: 9, Indels: 8
0.69 0.16 0.15
Matches are distributed among these distances:
18 8 0.21
19 5 0.13
20 2 0.05
21 5 0.13
22 18 0.47
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.23
Consensus pattern (22 bp):
GGTATCGGTACCATAGAAGAAA
Found at i:15211228 original size:40 final size:40
Alignment explanation
Indices: 15211168--15211257 Score: 162
Period size: 40 Copynumber: 2.2 Consensus size: 40
15211158 CCAGAAGGTC
*
15211168 AGAATGGTATTGATACTGAAGTGGGTATCGGTACCATAGA
1 AGAAAGGTATTGATACTGAAGTGGGTATCGGTACCATAGA
15211208 AGAAAGGTATTGATACTGAAGTGGGTATCGGTACCATAGA
1 AGAAAGGTATTGATACTGAAGTGGGTATCGGTACCATAGA
*
15211248 AGAAAAGTAT
1 AGAAAGGTAT
15211258 CGGTACAGTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.37, C:0.09, G:0.29, T:0.26
Consensus pattern (40 bp):
AGAAAGGTATTGATACTGAAGTGGGTATCGGTACCATAGA
Found at i:15217461 original size:20 final size:20
Alignment explanation
Indices: 15217420--15217463 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
15217410 AAACATTATC
15217420 GATACTGATTGAAGTAGTATT
1 GATACTGATTGAAG-AGTATT
15217441 GATACTGATGTGAAG-GTATT
1 GATACTGAT-TGAAGAGTATT
15217461 GAT
1 GAT
15217464 GCCAATAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 9 0.41
22 5 0.23
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.36
Consensus pattern (20 bp):
GATACTGATTGAAGAGTATT
Found at i:15218106 original size:28 final size:27
Alignment explanation
Indices: 15218075--15218128 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
15218065 TGTGATATAT
* *
15218075 TATGTAAAGGTTTTCTATGTGAAAATGA
1 TATGTAAAGATGTT-TATGTGAAAATGA
*
15218103 TATGTAAATATGTTTATGTGAAAATG
1 TATGTAAAGATGTTTATGTGAAAATG
15218129 TTCCACGTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (27 bp):
TATGTAAAGATGTTTATGTGAAAATGA
Found at i:15218129 original size:14 final size:14
Alignment explanation
Indices: 15218090--15218130 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
15218080 AAAGGTTTTC
*
15218090 TATGTGAAAATG-A
1 TATGTGAAAATGTT
15218103 TATGT-AAATATGTT
1 TATGTGAAA-ATGTT
15218117 TATGTGAAAATGTT
1 TATGTGAAAATGTT
15218131 CCACGTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 3 0.12
13 8 0.33
14 10 0.42
15 3 0.12
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (14 bp):
TATGTGAAAATGTT
Found at i:15218307 original size:23 final size:23
Alignment explanation
Indices: 15218281--15218406 Score: 119
Period size: 23 Copynumber: 5.4 Consensus size: 23
15218271 GTTCTACACA
* *
15218281 GTCCTTCAGGACAAATCTATGTG
1 GTCCTTCGGGACAAATCTACGTG
* *
15218304 GTCC-TCTGGGACAATTCTACGCG
1 GTCCTTC-GGGACAAATCTACGTG
*
15218327 GTCCTTCGGGACAATTCTACGTG
1 GTCCTTCGGGACAAATCTACGTG
* * **
15218350 GTCCTTTGGGACAAATTCTTCGCA
1 GTCCTTCGGGACAAA-TCTACGTG
*
15218374 GTCCTTCGGGAAAAATTCTACGTG
1 GTCCTTCGGGACAAA-TCTACGTG
*
15218398 GTACTTCGG
1 GTCCTTCGG
15218407 TGCAATTTAT
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
22 2 0.02
23 48 0.57
24 34 0.40
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.30
Consensus pattern (23 bp):
GTCCTTCGGGACAAATCTACGTG
Found at i:15218339 original size:46 final size:47
Alignment explanation
Indices: 15218272--15218399 Score: 168
Period size: 46 Copynumber: 2.7 Consensus size: 47
15218262 GAGTTAAGGG
* * *
15218272 TTCTACACAGTCCTTCAGGACAAATCTATGTGGTCCTCTGGGAC-AA
1 TTCTACGCAGTCCTTCGGGACAAATCTACGTGGTCCTCTGGGACAAA
* * *
15218318 TTCTACGCGGTCCTTCGGGACAATTCTACGTGGTCCTTTGGGACAAA
1 TTCTACGCAGTCCTTCGGGACAAATCTACGTGGTCCTCTGGGACAAA
* *
15218365 TTCTTCGCAGTCCTTCGGGAAAAATTCTACGTGGT
1 TTCTACGCAGTCCTTCGGGACAAA-TCTACGTGGT
15218400 ACTTCGGTGC
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
46 38 0.54
47 22 0.31
48 10 0.14
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (47 bp):
TTCTACGCAGTCCTTCGGGACAAATCTACGTGGTCCTCTGGGACAAA
Found at i:15227078 original size:14 final size:14
Alignment explanation
Indices: 15227039--15227093 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
15227029 CGTTCGGTAA
*
15227039 TATGTTCGTTCATT
1 TATGTTCGTTTATT
*
15227053 TACGTTCGTTTATT
1 TATGTTCGTTTATT
*
15227067 TATGTTCATTTATGT
1 TATGTTCGTTTAT-T
15227082 T-TGTTCGTTTAT
1 TATGTTCGTTTAT
15227094 ATTCGTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 33 0.94
15 2 0.06
ACGTcount: A:0.15, C:0.11, G:0.15, T:0.60
Consensus pattern (14 bp):
TATGTTCGTTTATT
Found at i:15227092 original size:24 final size:24
Alignment explanation
Indices: 15227046--15227144 Score: 90
Period size: 24 Copynumber: 4.1 Consensus size: 24
15227036 TAATATGTTC
* **
15227046 GTTCATTTACGTTCGTTTATTTAT
1 GTTCATTTATGTTCGTTCGTTTAT
*
15227070 GTTCATTTATGTTTGTTCGTTTAT
1 GTTCATTTATGTTCGTTCGTTTAT
* * *
15227094 ATTCGTTTATGTTCATTCGTTTAT
1 GTTCATTTATGTTCGTTCGTTTAT
* * * * *
15227118 GCTCGTTTATGTGCATTCATTTAT
1 GTTCATTTATGTTCGTTCGTTTAT
15227142 GTT
1 GTT
15227145 TAGCCCAATC
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (24 bp):
GTTCATTTATGTTCGTTCGTTTAT
Found at i:15227111 original size:14 final size:14
Alignment explanation
Indices: 15227094--15227144 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
15227084 GTTCGTTTAT
15227094 ATTCGTTTATGTTC
1 ATTCGTTTATGTTC
15227108 ATTCGTTTATG--C
1 ATTCGTTTATGTTC
*
15227120 --TCGTTTATGTGC
1 ATTCGTTTATGTTC
*
15227132 ATTCATTTATGTT
1 ATTCGTTTATGTT
15227145 TAGCCCAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
10 9 0.29
12 2 0.06
14 20 0.65
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.55
Consensus pattern (14 bp):
ATTCGTTTATGTTC
Found at i:15227325 original size:24 final size:24
Alignment explanation
Indices: 15227298--15227344 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
15227288 ATCTATTTTA
*
15227298 ATTTATGTTTATTTACGTTCGTTC
1 ATTTATGTTCATTTACGTTCGTTC
*
15227322 ATTTATGTTCGTTTACGTTCGTT
1 ATTTATGTTCATTTACGTTCGTT
15227345 TATTGTGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.13, G:0.15, T:0.57
Consensus pattern (24 bp):
ATTTATGTTCATTTACGTTCGTTC
Found at i:15227385 original size:14 final size:14
Alignment explanation
Indices: 15227366--15227392 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15227356 CTTACATCCA
15227366 TTCATTTATGTTCG
1 TTCATTTATGTTCG
15227380 TTCATTTATGTTC
1 TTCATTTATGTTC
15227393 TTTTATCATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.59
Consensus pattern (14 bp):
TTCATTTATGTTCG
Found at i:15227695 original size:37 final size:39
Alignment explanation
Indices: 15227633--15227737 Score: 178
Period size: 39 Copynumber: 2.7 Consensus size: 39
15227623 TATACATATG
15227633 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACA
1 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACA
*
15227672 TTTTGAAAACATATATATAATATATAGTTTTTGAAAATA
1 TTTTGAAAACATATATATAATATATAGTTTTTGAAAACA
*
15227711 TATTGAAAAC--ATATATAATATATAGTT
1 TTTTGAAAACATATATATAATATATAGTT
15227738 ATATATTTCA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
37 17 0.27
39 47 0.73
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (39 bp):
TTTTGAAAACATATATATAATATATAGTTTTTGAAAACA
Found at i:15229331 original size:18 final size:18
Alignment explanation
Indices: 15229308--15229344 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
15229298 TTTTAAAACA
15229308 CACTTAAAACACACACTT
1 CACTTAAAACACACACTT
15229326 CACTTAAAACACACACTT
1 CACTTAAAACACACACTT
15229344 C
1 C
15229345 TCCCCCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (18 bp):
CACTTAAAACACACACTT
Found at i:15231637 original size:21 final size:21
Alignment explanation
Indices: 15231582--15231645 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
15231572 GATTCCCCTG
15231582 TGGGGGGAATCGGTTCCTCTTCA
1 TGGGGGGAATCGGTTCC-C-TCA
**
15231605 AAGGGGGAATCGGTTCCCTCA
1 TGGGGGGAATCGGTTCCCTCA
* *
15231626 TGGGGGGGATCGATTCCCTC
1 TGGGGGGAATCGGTTCCCTC
15231646 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 19 0.54
22 1 0.03
23 15 0.43
ACGTcount: A:0.16, C:0.23, G:0.36, T:0.25
Consensus pattern (21 bp):
TGGGGGGAATCGGTTCCCTCA
Found at i:15238538 original size:26 final size:24
Alignment explanation
Indices: 15238488--15238538 Score: 57
Period size: 26 Copynumber: 2.0 Consensus size: 24
15238478 TTAACACTTC
* *
15238488 TTTTTTATTTTCTCTTTTAACATT
1 TTTTTTATTTTCTCTTCTAAAATT
*
15238512 TTTTTATATTTTTTTCTTCTAAAATT
1 TTTTT-TA-TTTTCTCTTCTAAAATT
15238538 T
1 T
15238539 AATATTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 5 0.23
25 2 0.09
26 15 0.68
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTTTATTTTCTCTTCTAAAATT
Found at i:15238590 original size:12 final size:12
Alignment explanation
Indices: 15238573--15238599 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15238563 TTTTTTCTTT
15238573 TAACATTTTTTA
1 TAACATTTTTTA
15238585 TAACATTTTTTA
1 TAACATTTTTTA
15238597 TAA
1 TAA
15238600 AAAATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (12 bp):
TAACATTTTTTA
Found at i:15239531 original size:2 final size:2
Alignment explanation
Indices: 15239454--15239513 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
15239444 AGATAATGAA
15239454 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
15239496 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
15239514 TACACACGTG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15239547 original size:27 final size:25
Alignment explanation
Indices: 15239501--15239553 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
15239491 TATATATATA
* *
15239501 TATATATATATATTACACACGTGTT
1 TATATACATATATTACACACGGGTT
15239526 TATATACATATATTACATACACGGGTT
1 TATATACATATATTAC--ACACGGGTT
15239553 T
1 T
15239554 TGGTACAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 15 0.62
27 9 0.38
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (25 bp):
TATATACATATATTACACACGGGTT
Found at i:15240074 original size:60 final size:60
Alignment explanation
Indices: 15239981--15240129 Score: 181
Period size: 60 Copynumber: 2.5 Consensus size: 60
15239971 CTAATACTTC
* * * *
15239981 AACTTTTAAACATTCTAATTTTATTCCCAAACTATAACTCTCGTTCTAAATTGATATCTA
1 AACTTTTAAACATTCCAATTTCATTCCCAAACTATAACCCTCATTCTAAATTGATATCTA
* * * ** *
15240041 AACTTTAAAACATTCCAAATTCATTCCCAAACTATAACCCTCATTCTATATTTCTCTCTA
1 AACTTTTAAACATTCCAATTTCATTCCCAAACTATAACCCTCATTCTAAATTGATATCTA
* * *
15240101 AACTTTTAAATATTTCAATTTCATCCCCA
1 AACTTTTAAACATTCCAATTTCATTCCCA
15240130 CACTTTTGAA
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
60 74 1.00
ACGTcount: A:0.35, C:0.24, G:0.01, T:0.40
Consensus pattern (60 bp):
AACTTTTAAACATTCCAATTTCATTCCCAAACTATAACCCTCATTCTAAATTGATATCTA
Found at i:15242450 original size:31 final size:30
Alignment explanation
Indices: 15242406--15242515 Score: 84
Period size: 31 Copynumber: 3.7 Consensus size: 30
15242396 AAATTATGTG
* *
15242406 TTTAGTATTTAAATTATTAATTTTAATTTAT
1 TTTAATATCTAAATTATTAATTTT-ATTTAT
* *
15242437 TTTAATATCTAAATTTTTAATTTT-TTTAAA
1 TTTAATATCTAAATTATTAATTTTATTT-AT
* * *
15242467 ATTAAT-CCTAAAAT-TTAATTTTTATTTTAT
1 TTTAATATCTAAATTATTAA-TTTTA-TTTAT
*
15242497 TTTAATATC-ATATTATTAA
1 TTTAATATCTAAATTATTAA
15242516 AGTTATATTT
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
28 4 0.07
29 13 0.21
30 15 0.25
31 29 0.48
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.58
Consensus pattern (30 bp):
TTTAATATCTAAATTATTAATTTTATTTAT
Found at i:15243147 original size:27 final size:28
Alignment explanation
Indices: 15243117--15243174 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
15243107 TTGGTTCTAT
*
15243117 AAAATATTTTTTGTTTTC-ATTTTTAGA
1 AAAATAATTTTTGTTTTCAATTTTTAGA
*
15243144 AAAATAATTTTTGTTTTCAATTTTTTGA
1 AAAATAATTTTTGTTTTCAATTTTTAGA
15243172 AAA
1 AAA
15243175 TAAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.55
Consensus pattern (28 bp):
AAAATAATTTTTGTTTTCAATTTTTAGA
Found at i:15243828 original size:25 final size:26
Alignment explanation
Indices: 15243800--15243861 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
15243790 AAAATATAAA
* * *
15243800 AAATTATTAAGATATTC-AATAAATT
1 AAATTATTAAAAAATTCAAAAAAATT
15243825 AAA-TA-TAAAAAATTCTAAAAAAATT
1 AAATTATTAAAAAATTC-AAAAAAATT
15243850 AAATTATTAAAA
1 AAATTATTAAAA
15243862 TAAATTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 8 0.27
24 2 0.07
25 13 0.43
26 2 0.07
27 5 0.17
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (26 bp):
AAATTATTAAAAAATTCAAAAAAATT
Found at i:15243863 original size:34 final size:34
Alignment explanation
Indices: 15243782--15243863 Score: 80
Period size: 34 Copynumber: 2.5 Consensus size: 34
15243772 TAAAATTTAT
* * *
15243782 TTAAATTA--AAAATATAAAAAATTATTAAGATA
1 TTAAATTATTAAAATATAAAAAATTATAAAAAAA
* * *
15243814 TTCAATAAATT-AAATATAAAAAATTCTAAAAAAA
1 TTAAAT-TATTAAAATATAAAAAATTATAAAAAAA
15243848 TTAAATTATTAAAATA
1 TTAAATTATTAAAATA
15243864 AATTAATTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
32 5 0.13
33 4 0.11
34 29 0.76
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.34
Consensus pattern (34 bp):
TTAAATTATTAAAATATAAAAAATTATAAAAAAA
Found at i:15244391 original size:52 final size:52
Alignment explanation
Indices: 15244330--15244434 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
15244320 AGAATATCAT
*
15244330 TATTTCTAAATTCATAGGTATTATACAATTTTTTTTATTTTAGACAATGATA
1 TATTTCTAAATTCATAGGTATTATACAATTTTTGTTATTTTAGACAATGATA
* *
15244382 TATTTCTAAATTCTTAGGTATTATACAATTTTTGTTATTTTAGATAATGATA
1 TATTTCTAAATTCATAGGTATTATACAATTTTTGTTATTTTAGACAATGATA
15244434 T
1 T
15244435 TGTAATGTCC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (52 bp):
TATTTCTAAATTCATAGGTATTATACAATTTTTGTTATTTTAGACAATGATA
Found at i:15244412 original size:26 final size:26
Alignment explanation
Indices: 15244331--15244412 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 26
15244321 GAATATCATT
*
15244331 ATTTCTAAATTCATAGGTATTATACA
1 ATTTCTAAATTCTTAGGTATTATACA
* ** ** * *
15244357 ATTTTTTTTATT-TTAGACAATGATA-T
1 A-TTTCTAAATTCTTAG-GTATTATACA
15244383 ATTTCTAAATTCTTAGGTATTATACA
1 ATTTCTAAATTCTTAGGTATTATACA
15244409 ATTT
1 ATTT
15244413 TTGTTATTTT
Statistics
Matches: 37, Mismatches: 15, Indels: 8
0.62 0.25 0.13
Matches are distributed among these distances:
25 12 0.32
26 13 0.35
27 12 0.32
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (26 bp):
ATTTCTAAATTCTTAGGTATTATACA
Found at i:15246004 original size:74 final size:76
Alignment explanation
Indices: 15245894--15246058 Score: 255
Period size: 74 Copynumber: 2.2 Consensus size: 76
15245884 GTACCTCTAA
* *
15245894 AGGGGTATCGGTACCCATTGGGCATTATGTTTTTCTCAGAGCCAAAATTGA-CATAGGAGTATCG
1 AGGGGTATCAGTACCCATTGGACATTATGTTTTTCTCAGAGCCAAAATT-ATCATAGGAGTATCG
15245958 GTAC-CCC-ATG
65 GTACACCCTATG
* * *
15245968 AGGGGTATCAGTACCCATTTGACATTATGTTTTTCTCGGAGCCAAAATTATCATAGGGGTATCGG
1 AGGGGTATCAGTACCCATTGGACATTATGTTTTTCTCAGAGCCAAAATTATCATAGGAGTATCGG
15246033 TACACCCTATG
66 TACACCCTATG
15246044 AGGGGTATCAGTACC
1 AGGGGTATCAGTACC
15246059 TCCCTATTTA
Statistics
Matches: 83, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
73 1 0.01
74 61 0.73
75 3 0.04
76 18 0.22
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (76 bp):
AGGGGTATCAGTACCCATTGGACATTATGTTTTTCTCAGAGCCAAAATTATCATAGGAGTATCGG
TACACCCTATG
Found at i:15246652 original size:18 final size:19
Alignment explanation
Indices: 15246621--15246673 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
15246611 TCAAATAACT
* * *
15246621 AATAATCATTCAAACCAA-
1 AATAAACATCCAAACAAAC
15246639 AATAAACATCCAAACAAAC
1 AATAAACATCCAAACAAAC
15246658 AATTCAAACATCCAAA
1 AA-T-AAACATCCAAA
15246674 TTCCAAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 15 0.52
19 2 0.07
20 1 0.03
21 11 0.38
ACGTcount: A:0.58, C:0.25, G:0.00, T:0.17
Consensus pattern (19 bp):
AATAAACATCCAAACAAAC
Found at i:15248095 original size:23 final size:23
Alignment explanation
Indices: 15248064--15248142 Score: 117
Period size: 23 Copynumber: 3.5 Consensus size: 23
15248054 ACCCATGTAG
*
15248064 GGGTTTCGATACACATTCAAAGA
1 GGGTATCGATACACATTCAAAGA
15248087 GGGTATCGATACACATTCAAAGA
1 GGGTATCGATACACATTCAAAGA
* *
15248110 GCGTATCGATACACATTGAAAGA
1 GGGTATCGATACACATTCAAAGA
15248133 --GTATCGATAC
1 GGGTATCGATAC
15248143 CTAGCAAGGG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
21 10 0.19
23 43 0.81
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (23 bp):
GGGTATCGATACACATTCAAAGA
Found at i:15254046 original size:74 final size:73
Alignment explanation
Indices: 15253922--15254098 Score: 230
Period size: 74 Copynumber: 2.4 Consensus size: 73
15253912 AAATGACTAG
* * * *
15253922 GGGGTATCGGTA-CCTTTAAGGGGGTATCGGTACCCATTGGCATTCTGTTTTTCTCGGAGCCAAA
1 GGGGTATCGGTACCCTATGA-GGGGTATCAGTACCCATTGGCATTCTGTTTTTCTCAGAGCCAAA
15253986 ATTGGCATA
65 ATTGGCATA
15253995 GGGGTATCGGTACCCTATGAGGGGTATCAGTACCCATTTGGCATTCTGTTTTTCTCAGAGCCAAA
1 GGGGTATCGGTACCCTATGAGGGGTATCAGTACCCA-TTGGCATTCTGTTTTTCTCAGAGCCAAA
** *
15254060 ATTTTCATG
65 ATTGGCATA
* *
15254069 GGGGTATCAGTACACCCTATGAGGAGTATC
1 GGGGTATCGGT--ACCCTATGAGGGGTATC
15254099 GATACTTCCC
Statistics
Matches: 91, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
73 27 0.30
74 48 0.53
76 16 0.18
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (73 bp):
GGGGTATCGGTACCCTATGAGGGGTATCAGTACCCATTGGCATTCTGTTTTTCTCAGAGCCAAAA
TTGGCATA
Found at i:15254425 original size:20 final size:20
Alignment explanation
Indices: 15254381--15254432 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
15254371 TGATTCAATT
**
15254381 AGTATCGATACCGAAGGGGG
1 AGTATCGATACCGAAGGAAG
15254401 AGTATCGATACCGAAGGAA-
1 AGTATCGATACCGAAGGAAG
*
15254420 AGGTATCAATACC
1 A-GTATCGATACC
15254433 ATTTTGAGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.17
Consensus pattern (20 bp):
AGTATCGATACCGAAGGAAG
Found at i:15254510 original size:22 final size:21
Alignment explanation
Indices: 15254458--15254510 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 21
15254448 GCAAAAATGG
15254458 TATCGATACCATAGGAAGGTA
1 TATCGATACCATAGGAAGGTA
* * *
15254479 T-T-GGTACCATAGTATGGTAA
1 TATCGATACCATAGGAAGGT-A
15254499 TATCGATACCAT
1 TATCGATACCAT
15254511 GGTAAGGGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
19 13 0.52
20 3 0.12
21 2 0.08
22 7 0.28
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (21 bp):
TATCGATACCATAGGAAGGTA
Found at i:15254618 original size:20 final size:22
Alignment explanation
Indices: 15254571--15254622 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
15254561 CCGGAAGGGG
*
15254571 GTATCGATGCCATAATATAGTA
1 GTATCGATACCATAATATAGTA
*
15254593 GTATCGATACCATAGTA-AGT-
1 GTATCGATACCATAATATAGTA
15254613 GTATCGATAC
1 GTATCGATAC
15254623 TATGGAGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 10 0.36
21 3 0.11
22 15 0.54
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (22 bp):
GTATCGATACCATAATATAGTA
Found at i:15255421 original size:54 final size:54
Alignment explanation
Indices: 15254948--15255406 Score: 630
Period size: 54 Copynumber: 8.5 Consensus size: 54
15254938 CCAAATAGGT
* ** *
15254948 ACTAAGTGTGCATTTCACGGAATTCAACCTAAATGGATGAATAACCGTTTTGGC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGC
* * * *
15255002 AGTAAGTGTTCATTTCACGGAATTCATCCTAAGTGGATAAATAACCGTTTCGGC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGC
* *
15255056 ACTAAGTGTGCATTTCACGGAATTCATCCTAAGTAGATGAATAACCGTTTCGGC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGC
* * ** **
15255110 ACTAAGTGTGCATTTCACGAAATTCATCCTAAGTGGATGAATAATTGTTTCAAC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGC
* *
15255164 ACTAAGTGTTCATTTCACGGAATTCATCCTATGTGGATGAATAACCATTTCGGC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGC
* * *
15255218 ACTAAGTGCGCATTTCACGGAATTCATCCTATGTGGATGAATAACTGTTTCGAC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGC
* * *
15255272 ACTAAGTGTGCATTTCATGGAATTTATCCTATGTGGATGAATAATCGTTTCGGC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGC
* * * ** *
15255326 ACAAAGTATGCATTTCACGGAATTTATCCTATGTGGATGAATAATTGTTTCGAC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGC
* *
15255380 ACTAAGTGTACATTTCACGGGATTCAT
1 ACTAAGTGTGCATTTCACGGAATTCAT
15255407 AATATGTTTA
Statistics
Matches: 360, Mismatches: 45, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 360 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (54 bp):
ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGC
Found at i:15256031 original size:23 final size:23
Alignment explanation
Indices: 15256001--15256046 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
15255991 TTACTCAAAA
15256001 CTATAAATATAATAATTAGGAGT
1 CTATAAATATAATAATTAGGAGT
*
15256024 CTATAAATATAATAATTATGAGT
1 CTATAAATATAATAATTAGGAGT
15256047 GTAAATGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.48, C:0.04, G:0.11, T:0.37
Consensus pattern (23 bp):
CTATAAATATAATAATTAGGAGT
Found at i:15256578 original size:12 final size:12
Alignment explanation
Indices: 15256561--15256603 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
15256551 TACAAGCTTC
15256561 TAAACGAACTTA
1 TAAACGAACTTA
** *
15256573 TAAACGAGTTTC
1 TAAACGAACTTA
15256585 TAAACGAACTTA
1 TAAACGAACTTA
15256597 TAAACGA
1 TAAACGA
15256604 GTTTGTTCAT
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:0.47, C:0.16, G:0.12, T:0.26
Consensus pattern (12 bp):
TAAACGAACTTA
Found at i:15256617 original size:24 final size:24
Alignment explanation
Indices: 15256558--15256607 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
15256548 ATATACAAGC
15256558 TTCTAAACGAACTTATAAACGAGT
1 TTCTAAACGAACTTATAAACGAGT
15256582 TTCTAAACGAACTTATAAACGAGT
1 TTCTAAACGAACTTATAAACGAGT
15256606 TT
1 TT
15256608 GTTCATGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (24 bp):
TTCTAAACGAACTTATAAACGAGT
Found at i:15259401 original size:2 final size:2
Alignment explanation
Indices: 15259394--15259423 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
15259384 GAATAAATGA
*
15259394 CT CT CT CT CT CT CT CT TT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15259424 GTGGCATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:15260600 original size:2 final size:2
Alignment explanation
Indices: 15260595--15260625 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15260585 TAAAAAATGA
15260595 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
15260626 CAGAGAATGC
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:15262704 original size:2 final size:2
Alignment explanation
Indices: 15262693--15262737 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
15262683 ACGAATCAAT
15262693 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15262734 TA TA
1 TA TA
15262738 GTTAATGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:15263512 original size:19 final size:19
Alignment explanation
Indices: 15263490--15263546 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
15263480 AGTAGTACCA
*
15263490 ATACTTGTCATAAGTATCG
1 ATACTTGTAATAAGTATCG
*
15263509 ATAC-TATAAT-AGTATCG
1 ATACTTGTAATAAGTATCG
15263526 ATACTTGTAATAAGTATCG
1 ATACTTGTAATAAGTATCG
15263545 AT
1 AT
15263547 GCATATATCG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 11 0.33
18 9 0.27
19 13 0.39
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (19 bp):
ATACTTGTAATAAGTATCG
Found at i:15263524 original size:17 final size:19
Alignment explanation
Indices: 15263499--15263546 Score: 73
Period size: 17 Copynumber: 2.6 Consensus size: 19
15263489 AATACTTGTC
15263499 ATAAGTATCGATAC-TATA
1 ATAAGTATCGATACTTATA
*
15263517 AT-AGTATCGATACTTGTA
1 ATAAGTATCGATACTTATA
15263535 ATAAGTATCGAT
1 ATAAGTATCGAT
15263547 GCATATATCG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 11 0.41
18 7 0.26
19 9 0.33
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (19 bp):
ATAAGTATCGATACTTATA
Found at i:15269501 original size:22 final size:22
Alignment explanation
Indices: 15269451--15269532 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 22
15269441 ATGTGTACTT
*
15269451 AGTACC-AGTATTGTTCAT-CC-
1 AGTACCGA-TATTGTTCTTACCA
*
15269471 AGTACCGATATTGTTCTTACTA
1 AGTACCGATATTGTTCTTACCA
* *
15269493 AGTATCGATAATG-T-TTATCCA
1 AGTACCGATATTGTTCTTA-CCA
15269514 A-TACCGATATTGTTCTTAC
1 AGTACCGATATTGTTCTTAC
15269533 AGCCTCGATA
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
20 27 0.55
21 8 0.16
22 14 0.29
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (22 bp):
AGTACCGATATTGTTCTTACCA
Found at i:15271464 original size:41 final size:41
Alignment explanation
Indices: 15271395--15271477 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 41
15271385 AATTCTTTTG
15271395 TATTAATTATTTATTCTTTATTTAATTTATTAATAATATTT
1 TATTAATTATTTATTCTTTATTTAATTTATTAATAATATTT
*
15271436 TATTAATTATTTAATT-TATTCTTT-ATTTATTAATAATATTT
1 TATTAATTATTT-ATTCT-TTATTTAATTTATTAATAATATTT
15271477 T
1 T
15271478 CTATTTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
41 31 0.79
42 8 0.21
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (41 bp):
TATTAATTATTTATTCTTTATTTAATTTATTAATAATATTT
Found at i:15271479 original size:22 final size:22
Alignment explanation
Indices: 15271419--15271487 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
15271409 TCTTTATTTA
*
15271419 ATTTATTAATAATATTTT-ATT
1 ATTTATTAATAATATTTTCTTT
*
15271440 AATTATT--TAAT-TTATTCTTT
1 ATTTATTAATAATATT-TTCTTT
15271460 ATTTATTAATAATATTTTCTATT
1 ATTTATTAATAATATTTTCT-TT
15271483 -TTTAT
1 ATTTAT
15271488 ATGTTATATG
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
18 2 0.05
19 6 0.15
20 8 0.21
21 6 0.15
22 13 0.33
23 4 0.10
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTTATTAATAATATTTTCTTT
Found at i:15271516 original size:17 final size:17
Alignment explanation
Indices: 15271491--15271528 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
15271481 TTTTTATATG
15271491 TTATATGTTATTTTATC
1 TTATATGTTATTTTATC
* *
15271508 TTATCTGTTTTTTTATC
1 TTATATGTTATTTTATC
15271525 TTAT
1 TTAT
15271529 TTTATCTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.08, G:0.05, T:0.68
Consensus pattern (17 bp):
TTATATGTTATTTTATC
Found at i:15271528 original size:22 final size:22
Alignment explanation
Indices: 15271498--15271544 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
15271488 ATGTTATATG
*
15271498 TTATTTTATCTTATCTGT-TTTT
1 TTATCTTATCTTATCT-TATTTT
*
15271520 TTATCTTATTTTATCTTATTTT
1 TTATCTTATCTTATCTTATTTT
15271542 TTA
1 TTA
15271545 AAATGCAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (22 bp):
TTATCTTATCTTATCTTATTTT
Found at i:15271606 original size:22 final size:22
Alignment explanation
Indices: 15271578--15271619 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
15271568 AATTGATCTT
15271578 TTTTCTCTATATTTTATAGCGA
1 TTTTCTCTATATTTTATAGCGA
15271600 TTTTCTCTATATTTTATAGC
1 TTTTCTCTATATTTTATAGC
15271620 AATAAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.57
Consensus pattern (22 bp):
TTTTCTCTATATTTTATAGCGA
Found at i:15272040 original size:18 final size:18
Alignment explanation
Indices: 15272017--15272058 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
15272007 TGGACCTCGT
15272017 TCGGATCTCGATTCTCCA
1 TCGGATCTCGATTCTCCA
15272035 TCGGATCTCGATTCTCCA
1 TCGGATCTCGATTCTCCA
15272053 TCGGAT
1 TCGGAT
15272059 GTTTGATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.31, G:0.19, T:0.33
Consensus pattern (18 bp):
TCGGATCTCGATTCTCCA
Found at i:15274910 original size:37 final size:37
Alignment explanation
Indices: 15274837--15274911 Score: 91
Period size: 37 Copynumber: 2.0 Consensus size: 37
15274827 GTTAGAAAAT
* *
15274837 ATTTATATATTTTATTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTATTTAAAAAATTGAAAATCATAAA
*
15274874 ATTTATATATATGTT-TTTACAAAATTGAAAAT-ATAAA
1 ATTTATATAT-T-TTATTTAAAAAATTGAAAATCATAAA
15274911 A
1 A
15274912 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 16 0.48
38 15 0.45
39 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTATTTAAAAAATTGAAAATCATAAA
Found at i:15277607 original size:19 final size:19
Alignment explanation
Indices: 15277538--15277620 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
15277528 TACATTGGGC
* *
15277538 TATGAATTTGAAAATTAAGT
1 TATGAATATGAAAA-TAAAT
* * *
15277558 TATAAATCT-AAAAGTAAGT
1 TATGAATATGAAAA-TAAAT
15277577 TATGAATATGAAAATAAAT
1 TATGAATATGAAAATAAAT
* * *
15277596 TCTGAATTTGAAAATGAAT
1 TATGAATATGAAAATAAAT
15277615 TATGAA
1 TATGAA
15277621 ATGTAAAAGT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 41 0.79
20 11 0.21
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.35
Consensus pattern (19 bp):
TATGAATATGAAAATAAAT
Found at i:15277628 original size:19 final size:19
Alignment explanation
Indices: 15277557--15277628 Score: 51
Period size: 19 Copynumber: 3.8 Consensus size: 19
15277547 GAAAATTAAG
* *
15277557 TTAT-AAATCTAAAAGTAAG
1 TTATGAAATGTAAAA-TAAA
15277576 TTATGAATATG-AAAATAAA
1 TTATGAA-ATGTAAAATAAA
* * *
15277595 TTCTG-AATTTGAAAATGAA
1 TTATGAAATGT-AAAATAAA
15277614 TTATGAAATGTAAAA
1 TTATGAAATGTAAAA
15277629 GTAATAGTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
17 2 0.05
18 1 0.02
19 26 0.63
20 10 0.24
21 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.33
Consensus pattern (19 bp):
TTATGAAATGTAAAATAAA
Found at i:15277854 original size:18 final size:18
Alignment explanation
Indices: 15277831--15277865 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15277821 ATTAAGTTTA
15277831 ATGTTTTAAATTATTATG
1 ATGTTTTAAATTATTATG
* *
15277849 ATGTTTTTAATTTTTAT
1 ATGTTTTAAATTATTAT
15277866 AGAAGGGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.63
Consensus pattern (18 bp):
ATGTTTTAAATTATTATG
Found at i:15283271 original size:26 final size:26
Alignment explanation
Indices: 15283241--15283293 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
15283231 AATGTTAGAA
15283241 GTAGTATAATGACAATGGAATTTGAT
1 GTAGTATAATGACAATGGAATTTGAT
*
15283267 GTAGTATACTGACAATGGAATTTGAT
1 GTAGTATAATGACAATGGAATTTGAT
15283293 G
1 G
15283294 GTGAGATCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.34
Consensus pattern (26 bp):
GTAGTATAATGACAATGGAATTTGAT
Found at i:15287703 original size:30 final size:30
Alignment explanation
Indices: 15287642--15287733 Score: 121
Period size: 30 Copynumber: 3.0 Consensus size: 30
15287632 CTAAGGAACA
* * * *
15287642 TATGGACAGTTTACCTAGGTTATTTAGGACC
1 TATGGACAG-TTACCGAGGATCTTTATGACC
15287673 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
* *
15287703 TCTGGATAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
15287733 T
1 T
15287734 CTGAATAGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
30 46 0.84
31 9 0.16
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGATCTTTATGACC
Done.