Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 32 of 78
Found at i:6559751 original size:2 final size:2
Alignment explanation
Indices: 6559746--6559774 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6559736 ATATATATAT
6559746 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
6559775 TCATCCAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6560761 original size:15 final size:15
Alignment explanation
Indices: 6560741--6560775 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
6560731 ATATTTAGCT
*
6560741 GGGCGGGCGGATGTG
1 GGGCGGGCGGATGCG
6560756 GGGCGGGCGGATGCG
1 GGGCGGGCGGATGCG
6560771 GGGCG
1 GGGCG
6560776 AGTAATGTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.17, G:0.69, T:0.09
Consensus pattern (15 bp):
GGGCGGGCGGATGCG
Found at i:6562381 original size:23 final size:22
Alignment explanation
Indices: 6562344--6562388 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6562334 TAAATTATAA
*
6562344 ATAAAAATAAATATTTTGTATT
1 ATAAAAATAAATATTTTATATT
*
6562366 ATAAAAATAACTTATTTTATATT
1 ATAAAAATAA-ATATTTTATATT
6562389 GAATTTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
ATAAAAATAAATATTTTATATT
Found at i:6564205 original size:16 final size:16
Alignment explanation
Indices: 6564184--6564216 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6564174 TAAATTGATC
6564184 TGATATTTACATGACT
1 TGATATTTACATGACT
*
6564200 TGATATTTACTTGACT
1 TGATATTTACATGACT
6564216 T
1 T
6564217 ATAAGTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (16 bp):
TGATATTTACATGACT
Found at i:6564397 original size:19 final size:19
Alignment explanation
Indices: 6564373--6564418 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
6564363 GTTTTAGTTT
6564373 TTTATATTAATTCCAATTC
1 TTTATATTAATTCCAATTC
* **
6564392 TTTATATTATTTGTAATTC
1 TTTATATTAATTCCAATTC
6564411 -TTATATTA
1 TTTATATTA
6564419 TAAATTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTATATTAATTCCAATTC
Found at i:6565044 original size:23 final size:23
Alignment explanation
Indices: 6565027--6565119 Score: 152
Period size: 23 Copynumber: 4.1 Consensus size: 23
6565017 ACATCACTAT
* *
6565027 ATCAATTCAGCAAACATCATTGC
1 ATCAATTCAACAAGCATCATTGC
6565050 ATCAATTCAACAAGCATCATTGC
1 ATCAATTCAACAAGCATCATTGC
6565073 ATCAATTCAACAAGCATCATTGC
1 ATCAATTCAACAAGCATCATTGC
*
6565096 ATCAATTCAGCAAGCATCA-TGC
1 ATCAATTCAACAAGCATCATTGC
6565118 AT
1 AT
6565120 TCAGAAAGCA
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
22 5 0.07
23 62 0.93
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (23 bp):
ATCAATTCAACAAGCATCATTGC
Found at i:6565279 original size:20 final size:20
Alignment explanation
Indices: 6565206--6565283 Score: 77
Period size: 20 Copynumber: 4.0 Consensus size: 20
6565196 ATCCCTTACA
** *
6565206 AATATCAAGTAGAATCAAGC
1 AATATCAAACAGAATCAAGT
* ** *
6565226 AATATCAAACATAAGAAAAT
1 AATATCAAACAGAATCAAGT
6565246 AATAT-AAACAGAATCAAGT
1 AATATCAAACAGAATCAAGT
*
6565265 AATATCAAGCAGAATCAAG
1 AATATCAAACAGAATCAAG
6565284 CACCAACTAT
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
19 15 0.33
20 30 0.67
ACGTcount: A:0.56, C:0.13, G:0.12, T:0.19
Consensus pattern (20 bp):
AATATCAAACAGAATCAAGT
Found at i:6568174 original size:125 final size:120
Alignment explanation
Indices: 6567959--6568196 Score: 291
Period size: 119 Copynumber: 1.9 Consensus size: 120
6567949 ACACGAATGA
* * * * *
6567959 ACACTGATGACCAAGGGTTTAATTTTTGGGTGTTTGATAAAAAAAGGAATGGATTTAGGTTTTGG
1 ACACTGATGAACAAGAGTTAAATTTTTGGGCGTTTGATAAAAAAAGAAATGGATTTAGGTTTTGG
* * * *
6568024 TGTTTGTGAATATCAAATAATGG-TTTGGGGAAGAACACGGATGAACACAGATGG
66 TGTTTGTGAAGATCAAAGAAGGGTTTTGGGGAAGAACACAGATGAACACAGATGG
6568078 ACACTGATGAACAAGAGTTAAATTTTTGGGCGTTTGATCGGAAAAAAAACATGAAATGG-TTTAG
1 ACACTGATGAACAAGAGTTAAATTTTTGGGCGTTTGAT-----AAAAAA-A-GAAATGGATTTAG
* * *
6568142 GTTTTGGTGTTTGTGAAGATCAAAGGAGGGTTTTTGGGATGAACACAGATGAACA
59 GTTTTGGTGTTTGTGAAGATCAAAGAAGGGTTTTGGGGAAGAACACAGATGAACA
6568197 ATGGTTGAAG
Statistics
Matches: 99, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
119 34 0.34
124 6 0.06
125 32 0.32
126 27 0.27
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (120 bp):
ACACTGATGAACAAGAGTTAAATTTTTGGGCGTTTGATAAAAAAAGAAATGGATTTAGGTTTTGG
TGTTTGTGAAGATCAAAGAAGGGTTTTGGGGAAGAACACAGATGAACACAGATGG
Found at i:6568229 original size:106 final size:103
Alignment explanation
Indices: 6568073--6568297 Score: 317
Period size: 103 Copynumber: 2.2 Consensus size: 103
6568063 GATGAACACA
* * * *
6568073 GATGGACACTGATGAACAAGAGTTAAATTTTTGGGCGTTTGATCGGAAAAAAAACATGAAATGGT
1 GATGAACACAGATGAACAAGAGTTAAAGTTTTGGGCGTTTGATC-G--AAAAAACACGAAATGGT
* *
6568138 TTAGGTTTTGGTGTTTGTGAAGATCAAAGGAGGGTTTTTGG
63 TTAGGTTTTAGTATTTGTGAAGATCAAAGGAGGGTTTTTGG
* * *
6568179 GATGAACACAGATGAACAATG-GTTGAAGTTTTGGGTGTTTGATTGAAAAAACACGAAATGGTTT
1 GATGAACACAGATGAACAA-GAGTTAAAGTTTTGGGCGTTTGATCGAAAAAACACGAAATGGTTT
*
6568243 GGGTTTTAGTATTTGTGAAGATCAAAGGAGGGTTTTTGG
65 AGGTTTTAGTATTTGTGAAGATCAAAGGAGGGTTTTTGG
6568282 GATGAACACAGATGAA
1 GATGAACACAGATGAA
6568298 AAAAGATGAA
Statistics
Matches: 108, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
103 70 0.65
105 1 0.01
106 36 0.33
107 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (103 bp):
GATGAACACAGATGAACAAGAGTTAAAGTTTTGGGCGTTTGATCGAAAAAACACGAAATGGTTTA
GGTTTTAGTATTTGTGAAGATCAAAGGAGGGTTTTTGG
Found at i:6568459 original size:13 final size:13
Alignment explanation
Indices: 6568441--6568465 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6568431 ATACGGGTTC
6568441 GTTTGGGTTTTGG
1 GTTTGGGTTTTGG
6568454 GTTTGGGTTTTG
1 GTTTGGGTTTTG
6568466 ACCATCATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.00, G:0.44, T:0.56
Consensus pattern (13 bp):
GTTTGGGTTTTGG
Found at i:6568642 original size:28 final size:28
Alignment explanation
Indices: 6568551--6568631 Score: 144
Period size: 28 Copynumber: 2.9 Consensus size: 28
6568541 AATTTAATGA
*
6568551 TGCAATGTATTAATTTAAGCTTCATTCT
1 TGCAATTTATTAATTTAAGCTTCATTCT
6568579 TGCAATTTATTAATTTAAGCTTCATTCT
1 TGCAATTTATTAATTTAAGCTTCATTCT
*
6568607 TGCAATTTATTGATTTAAGCTTCAT
1 TGCAATTTATTAATTTAAGCTTCAT
6568632 ATTTAAAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (28 bp):
TGCAATTTATTAATTTAAGCTTCATTCT
Found at i:6568719 original size:25 final size:25
Alignment explanation
Indices: 6568679--6568748 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
6568669 TAATTCTTTC
6568679 AATT-ATATATATGTTTATATTAATA
1 AATTAATATATA-GTTTATATTAATA
6568704 AATTAATATATAGTTTATATTAATA
1 AATTAATATATAGTTTATATTAATA
*
6568729 AATTAATATATAGGTTATAT
1 AATTAATATATAGTTTATAT
6568749 ATACTAATGA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
25 36 0.84
26 7 0.16
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (25 bp):
AATTAATATATAGTTTATATTAATA
Found at i:6568765 original size:51 final size:50
Alignment explanation
Indices: 6568710--6568844 Score: 146
Period size: 51 Copynumber: 2.6 Consensus size: 50
6568700 AATAAATTAA
6568710 TATATAGTTTATATTAATA-AATTAATATATAGGTTATATATACTAATGAAC
1 TATATAGTTTATATTAATATAATT--TATATAGGTTATATATACTAATGAAC
* * ** * *
6568761 TATATAATATATAATTTTTATAGTTTATATAGTTTATATATACTAATGAAC
1 TATATAGTTTAT-ATTAATATAATTTATATAGGTTATATATACTAATGAAC
*
6568812 TATATAGTTTATATATACCATATAGTTTATATA
1 TATATAGTTTATAT-TA--ATATAATTTATATA
6568845 TACTATATAT
Statistics
Matches: 69, Mismatches: 10, Indels: 8
0.79 0.11 0.09
Matches are distributed among these distances:
50 2 0.03
51 46 0.67
52 5 0.07
53 16 0.23
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (50 bp):
TATATAGTTTATATTAATATAATTTATATAGGTTATATATACTAATGAAC
Found at i:6568836 original size:18 final size:18
Alignment explanation
Indices: 6568813--6568853 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
6568803 CTAATGAACT
6568813 ATATAGTTTATATATACC
1 ATATAGTTTATATATACC
*
6568831 ATATAGTTTATATATACT
1 ATATAGTTTATATATACC
6568849 ATATA
1 ATATA
6568854 TAAATATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (18 bp):
ATATAGTTTATATATACC
Found at i:6568945 original size:20 final size:18
Alignment explanation
Indices: 6568922--6568983 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
6568912 ATAGTTTTTA
*
6568922 TATATAGTTCATATGTAAAC
1 TATATAG-T-ATATATAAAC
6568942 TATATAGTATATATAAAC
1 TATATAGTATATATAAAC
*
6568960 TACGTAT-GTA-ATATATAC
1 TA--TATAGTATATATAAAC
6568978 TATATA
1 TATATA
6568984 AATAATTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 3 0.08
18 20 0.54
19 4 0.11
20 10 0.27
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (18 bp):
TATATAGTATATATAAAC
Found at i:6568953 original size:18 final size:20
Alignment explanation
Indices: 6568922--6568961 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
6568912 ATAGTTTTTA
*
6568922 TATATAGTTCATATGTAAAC
1 TATATAGTTCATATATAAAC
6568942 TATATAG-T-ATATATAAAC
1 TATATAGTTCATATATAAAC
6568960 TA
1 TA
6568962 CGTATGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 1 0.05
20 7 0.37
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (20 bp):
TATATAGTTCATATATAAAC
Found at i:6569062 original size:15 final size:15
Alignment explanation
Indices: 6569047--6569081 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
6569037 TACTTTGAAT
6569047 TTATAT-AGTATAAA
1 TTATATAAGTATAAA
6569061 TTATATAAGTATAAA
1 TTATATAAGTATAAA
6569076 TTATAT
1 TTATAT
6569082 TATATAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (15 bp):
TTATATAAGTATAAA
Found at i:6569080 original size:27 final size:27
Alignment explanation
Indices: 6569050--6569307 Score: 192
Period size: 27 Copynumber: 9.7 Consensus size: 27
6569040 TTTGAATTTA
* * * *
6569050 TATAGTATAAATTATATAAGTATAAAT
1 TATAGTATATAGTATATAAATATAAAC
* *
6569077 TATATTATATAGTATATAAATATCAAC
1 TATAGTATATAGTATATAAATATAAAC
6569104 TATAGTATATAGTATATAAATATAAAC
1 TATAGTATATAGTATATAAATATAAAC
*
6569131 TATAGTATATAGT-T-TATATATAAAC
1 TATAGTATATAGTATATAAATATAAAC
* * ***
6569156 TATAGTTTATATAGTTTAT-ATTATAGTT
1 TATAG--TATATAGTATATAAATATAAAC
* *
6569184 TTTA-TATATAGT-TCAT--ATGTAAAC
1 TATAGTATATAGTAT-ATAAATATAAAC
* * * *
6569208 TATACTGTATAGTATATATAGTTTATATA-
1 TATAGTATATAGTATATA-A--ATATAAAC
* *
6569237 TATAATATATAGTATATAAATATCAAC
1 TATAGTATATAGTATATAAATATAAAC
* *
6569264 TATATTATGTAGTATATAAATATAAAC
1 TATAGTATATAGTATATAAATATAAAC
*
6569291 TATAGTTTATA-TATATA
1 TATAGTATATAGTATATA
6569308 TCATATACTA
Statistics
Matches: 182, Mismatches: 36, Indels: 27
0.74 0.15 0.11
Matches are distributed among these distances:
24 7 0.04
25 34 0.19
26 12 0.07
27 99 0.54
28 9 0.05
29 17 0.09
30 4 0.02
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (27 bp):
TATAGTATATAGTATATAAATATAAAC
Found at i:6569087 original size:7 final size:7
Alignment explanation
Indices: 6569048--6569254 Score: 54
Period size: 7 Copynumber: 30.9 Consensus size: 7
6569038 ACTTTGAATT
6569048 TATATAG
1 TATATAG
* *
6569055 TATAAAT
1 TATATAG
6569062 TATATAAG
1 TATAT-AG
*
6569070 TATA-AA
1 TATATAG
*
6569076 T-TATAT
1 TATATAG
6569082 TATATAG
1 TATATAG
6569089 TATATA-
1 TATATAG
*
6569095 AATATCA-
1 TATAT-AG
6569102 -ACTATAG
1 TA-TATAG
6569109 TATATAG
1 TATATAG
6569116 TATATA-
1 TATATAG
*
6569122 AATATA-
1 TATATAG
*
6569128 AACTATAG
1 TA-TATAG
6569136 TATATAG
1 TATATAG
*
6569143 TTTATA-
1 TATATAG
* *
6569149 TATAAAC
1 TATATAG
*
6569156 TATAGT-T
1 TATA-TAG
6569163 TATATAG
1 TATATAG
*
6569170 TTTATA-
1 TATATAG
6569176 T-TATAG
1 TATATAG
* *
6569182 TTTTTA-
1 TATATAG
6569188 TATATAG
1 TATATAG
6569195 T-TCATATG
1 TAT-ATA-G
*
6569203 TA-A-AC
1 TATATAG
6569208 TATACT-G
1 TATA-TAG
6569215 TATAGTA-
1 TATA-TAG
6569222 TATATAG
1 TATATAG
*
6569229 TTTATA-
1 TATATAG
*
6569235 TATATAA
1 TATATAG
6569242 TATATAG
1 TATATAG
6569249 TATATA
1 TATATA
6569255 AATATCAACT
Statistics
Matches: 150, Mismatches: 26, Indels: 48
0.67 0.12 0.21
Matches are distributed among these distances:
5 8 0.05
6 38 0.25
7 95 0.63
8 9 0.06
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (7 bp):
TATATAG
Found at i:6569127 original size:20 final size:20
Alignment explanation
Indices: 6569048--6569141 Score: 61
Period size: 20 Copynumber: 4.7 Consensus size: 20
6569038 ACTTTGAATT
6569048 TATATAGTATA-AATTATATAAG
1 TATATAGTATATAA--ATAT-AG
* * *
6569070 TATAAATTATAT-TATATAG
1 TATATAGTATATAAATATAG
* *
6569089 TATATA-AATATCAACTATAG
1 TATATAGTATAT-AAATATAG
6569109 TATATAGTATATAAATATA-
1 TATATAGTATATAAATATAG
*
6569128 AACTATAGTATATA
1 TA-TATAGTATATA
6569142 GTTTATATAT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
18 4 0.07
19 8 0.14
20 32 0.56
21 4 0.07
22 9 0.16
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.40
Consensus pattern (20 bp):
TATATAGTATATAAATATAG
Found at i:6569244 original size:20 final size:20
Alignment explanation
Indices: 6569221--6569544 Score: 110
Period size: 20 Copynumber: 15.3 Consensus size: 20
6569211 ACTGTATAGT
6569221 ATATATAGTTTATATATATA
1 ATATATAGTTTATATATATA
* *
6569241 ATATATAGTATATAAATATCA
1 ATATATAGTTTATATATAT-A
*
6569262 ACTATATTATGTAGTATATAAATATA
1 A-TATA-TA-GT--T-TATATATATA
6569288 A-ACTATAGTTTATATATAT-
1 ATA-TATAGTTTATATATATA
* * *
6569307 ATCATATACTATATAAATAGT-
1 AT-ATATAGTTTATATATA-TA
* * *
6569328 TTATATAGTTCATTAATAAACTA
1 ATATATAGTTTA-T-ATATA-TA
* * *
6569351 TATATAAAGTTCATATGTA-A
1 -ATATATAGTTTATATATATA
6569371 ACTATATAGTTTATATATTATA
1 A-TATATAGTTTATATA-TATA
* *
6569393 TATATATAGTTCATATGTAATA
1 -ATATATAGTTTATATAT-ATA
* * * *
6569415 ATGTAAACTATATATAT-TA
1 ATATATAGTTTATATATATA
**
6569434 TATAGTATA-TAAATATCAACTATA
1 -ATA-TATAGTTTATAT--A-TATA
*
6569458 GTATATAGTTTATATATA-A
1 ATATATAGTTTATATATATA
6569477 AT-TATAGTTTATATATATA
1 ATATATAGTTTATATATATA
* * *
6569496 GT-TCATA-TGTAAACTATATA
1 ATAT-ATAGTTTATA-TATATA
6569516 GTATATATAGTTTATATATATA
1 --ATATATAGTTTATATATATA
*
6569538 ATTTATA
1 ATATATA
6569545 TATGTAGTAT
Statistics
Matches: 227, Mismatches: 43, Indels: 68
0.67 0.13 0.20
Matches are distributed among these distances:
18 15 0.07
19 13 0.06
20 82 0.36
21 25 0.11
22 43 0.19
23 19 0.08
24 17 0.07
25 2 0.01
26 2 0.01
27 9 0.04
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (20 bp):
ATATATAGTTTATATATATA
Found at i:6569313 original size:27 final size:28
Alignment explanation
Indices: 6569242--6569495 Score: 113
Period size: 27 Copynumber: 9.4 Consensus size: 28
6569232 ATATATATAA
*
6569242 TATATAGTATATAAATATCAACTATA--T
1 TATATAGTATAT-AATATAAACTATAGTT
*
6569269 TATGTAGTATATAAATATAAACTATAGTT
1 TATATAGTATAT-AATATAAACTATAGTT
*
6569298 TATATA-TATATCATATACTATATA-AATAGTT
1 TATATAGTATAT-A-ATA-TA-A-ACTATAGTT
*
6569329 TATATAGT-TCATTA-ATAAACTATA---
1 TATATAGTAT-ATAATATAAACTATAGTT
* *
6569353 TATAAAGT-TCAT-ATGTAAACTATATAGTT
1 TATATAGTAT-ATAATATAAAC--TATAGTT
6569382 TATATA-T-TAT-ATAT--A-TATAGTT
1 TATATAGTATATAATATAAACTATAGTT
* * *
6569404 CATAT-GTA-ATAATGTAAACTATATATAT
1 TATATAGTATATAATATAAACTATA-GT-T
*
6569432 TATATAGTATATAAATATCAACTATAG--
1 TATATAGTATAT-AATATAAACTATAGTT
* *
6569459 TATATAGTTTAT-ATATAAATTATAGTT
1 TATATAGTATATAATATAAACTATAGTT
6569486 TATATA-TATA
1 TATATAGTATA
6569496 GTTCATATGT
Statistics
Matches: 177, Mismatches: 22, Indels: 57
0.69 0.09 0.22
Matches are distributed among these distances:
22 14 0.08
23 4 0.02
24 16 0.09
25 13 0.07
26 12 0.07
27 51 0.29
28 15 0.08
29 18 0.10
30 5 0.03
31 25 0.14
32 4 0.02
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (28 bp):
TATATAGTATATAATATAAACTATAGTT
Found at i:6569356 original size:24 final size:24
Alignment explanation
Indices: 6569316--6569378 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
6569306 TATCATATAC
* *
6569316 TATATAAA-TAGTTTATATAGTTCA
1 TATATAAACTA-TATATAAAGTTCA
6569340 T-TAATAAACTATATATAAAGTTCA
1 TAT-ATAAACTATATATAAAGTTCA
*
6569364 TATGTAAACTATATA
1 TATATAAACTATATA
6569379 GTTTATATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 1 0.03
24 29 0.88
25 3 0.09
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.41
Consensus pattern (24 bp):
TATATAAACTATATATAAAGTTCA
Found at i:6569474 original size:31 final size:29
Alignment explanation
Indices: 6569390--6569776 Score: 115
Period size: 29 Copynumber: 12.8 Consensus size: 29
6569380 TTTATATATT
* * * *
6569390 ATATATATATAGTTCATATGTAATAATGTA
1 ATATATATATAGTTTATATATAA-ACTATA
*
6569420 A-ACTATATATA-TTATATAGTATATAAATATCA
1 ATA-TATATATAGTT-TATA-TATA-AACTAT-A
*
6569452 ACTATAGTATATAGTTTATATATAAATTATA
1 A-TATA-TATATAGTTTATATATAAACTATA
* * *
6569483 GTTTATATATATAGTTCATATGTAAACTAT-
1 --ATATATATATAGTTTATATATAAACTATA
6569513 ATAGTATATATAGTTTATATATATAA-T-T-
1 ATA-TATATATAGTTTATATATA-AACTATA
* *
6569541 -TATATATGTAGTATATACTATATAA--ATA
1 ATATATATATAGTTTATA-TATA-AACTATA
*
6569569 AT-T-TATATAGTTCAT-TAATAAACTATA
1 ATATATATATAGTTTATAT-ATAAACTATA
* * *
6569596 TAGTTTATATATATCGTTCATATGTAAACTACTAAA
1 -A---TATATATATAGTTTATATATAAACTA-T--A
*
6569632 CTATATATATTATACAGTTTATATATATA-TATA
1 --ATATATA-TAT--AGTTTATATATAAACTATA
* * * **
6569665 GTTTATACATATAGTTCATAGGTAAACTAT-
1 --ATATATATATAGTTTATATATAAACTATA
* *
6569695 ATAGTATATATAGTTCATATGTAAACTAT-
1 ATA-TATATATAGTTTATATATAAACTATA
* *
6569724 ATAGTATATATAGTTTACATAT--AGTATA
1 ATA-TATATATAGTTTATATATAAACTATA
*
6569752 AGTTAGTATATATTGTTTATATATA
1 A--TA-TATATATAGTTTATATATA
6569777 GTTTATATAT
Statistics
Matches: 279, Mismatches: 38, Indels: 79
0.70 0.10 0.20
Matches are distributed among these distances:
25 3 0.01
26 16 0.06
27 26 0.09
28 8 0.03
29 64 0.23
30 43 0.15
31 32 0.11
32 16 0.06
33 31 0.11
34 19 0.07
35 6 0.02
36 3 0.01
37 12 0.04
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (29 bp):
ATATATATATAGTTTATATATAAACTATA
Found at i:6569556 original size:42 final size:42
Alignment explanation
Indices: 6569479--6569606 Score: 109
Period size: 42 Copynumber: 3.1 Consensus size: 42
6569469 ATATATAAAT
* * *
6569479 TATAGTTTATATATATAGTTCATATGTAAACTATATAGTATA
1 TATAGTTTATATATATAATTCATATATAAACTATATACTATA
* ** *
6569521 TATAGTTTATATATATAATTTATATATGTAGTATATACTATA
1 TATAGTTTATATATATAATTCATATATAAACTATATACTATA
* * * * * *
6569563 TA-A-ATAATTTATATAGTTCAT-TAATAAACTATATAGTTTA
1 TATAGTTTATATATATAATTCATAT-ATAAACTATATACTATA
6569603 TATA
1 TATA
6569607 TATCGTTCAT
Statistics
Matches: 67, Mismatches: 17, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
39 1 0.01
40 27 0.40
41 2 0.03
42 37 0.55
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (42 bp):
TATAGTTTATATATATAATTCATATATAAACTATATACTATA
Found at i:6569667 original size:17 final size:17
Alignment explanation
Indices: 6569633--6569677 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
6569623 ACTACTAAAC
6569633 TATATATATTATACAGTT
1 TATATATA-TATACAGTT
*
6569651 TATATATATATATAGTT
1 TATATATATATACAGTT
*
6569668 TATACATATA
1 TATATATATA
6569678 GTTCATAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (17 bp):
TATATATATATACAGTT
Found at i:6569706 original size:9 final size:9
Alignment explanation
Indices: 6569692--6569785 Score: 50
Period size: 9 Copynumber: 9.7 Consensus size: 9
6569682 ATAGGTAAAC
6569692 TATATAGTA
1 TATATAGTA
6569701 TATATAGT-
1 TATATAGTA
6569709 TCATAT-GTAAA
1 T-ATATAGT--A
6569720 CTATATAGTA
1 -TATATAGTA
6569730 TATATAGTTTA
1 TATATAG--TA
*
6569741 CATATAGTA
1 TATATAGTA
6569750 TA-AGTTAGTA
1 TATA--TAGTA
*
6569760 TATATTGTTTA
1 TATATAG--TA
*
6569771 TATATAGTT
1 TATATAGTA
6569780 TATATA
1 TATATA
6569786 TAATTTCATA
Statistics
Matches: 67, Mismatches: 5, Indels: 26
0.68 0.05 0.27
Matches are distributed among these distances:
8 4 0.06
9 31 0.46
10 8 0.12
11 21 0.31
12 3 0.04
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (9 bp):
TATATAGTA
Found at i:6569735 original size:11 final size:11
Alignment explanation
Indices: 6569728--6569787 Score: 56
Period size: 11 Copynumber: 5.7 Consensus size: 11
6569718 AACTATATAG
6569728 TATATATAGTT
1 TATATATAGTT
* *
6569739 TACATATAGTA
1 TATATATAGTT
6569750 TA-AGT-TAG--
1 TATA-TATAGTT
*
6569758 TATATATTGTT
1 TATATATAGTT
6569769 TATATATAGTT
1 TATATATAGTT
6569780 TATATATA
1 TATATATA
6569788 ATTTCATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
10 4 0.10
11 30 0.75
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (11 bp):
TATATATAGTT
Found at i:6569736 original size:29 final size:29
Alignment explanation
Indices: 6569673--6569738 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
6569663 TAGTTTATAC
6569673 ATATAGTTCATAGGTAAACTATATAGTAT
1 ATATAGTTCATAGGTAAACTATATAGTAT
*
6569702 ATATAGTTCATATGTAAACTATATAGTAT
1 ATATAGTTCATAGGTAAACTATATAGTAT
6569731 ATATAGTT
1 ATATAGTT
6569739 TACATATAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (29 bp):
ATATAGTTCATAGGTAAACTATATAGTAT
Found at i:6569837 original size:20 final size:20
Alignment explanation
Indices: 6569814--6569995 Score: 97
Period size: 20 Copynumber: 8.8 Consensus size: 20
6569804 CTAAACCATA
6569814 TATATTATTTATATATAAAC
1 TATATTATTTATATATAAAC
6569834 TATA-TAGTTTATATTAATAAAC
1 TATATTA-TTTATA-T-ATAAAC
* * *
6569856 TATATAATTTATACATAGTA-
1 TATATTATTTATATATA-AAC
*
6569876 TATATTATTTATA-ATTATAC
1 TATATTATTTATATA-TAAAC
* * * **
6569896 -ATAATATATAAATATAAGT
1 TATATTATTTATATATAAAC
* *
6569915 TGTA-TAGTTTATATATAATTC
1 TATATTA-TTTATATATAA-AC
*
6569936 ATATATAATTTATATATAAAC
1 -TATATTATTTATATATAAAC
*
6569957 TATATAATTTATATTAATAAAC
1 TATATTATTTATA-T-ATAAAC
*
6569979 TAT-GTAGTTTATATATA
1 TATATTA-TTTATATATA
6569996 GTTCATGGTA
Statistics
Matches: 126, Mismatches: 20, Indels: 32
0.71 0.11 0.18
Matches are distributed among these distances:
19 18 0.14
20 55 0.44
21 6 0.05
22 45 0.36
23 2 0.02
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (20 bp):
TATATTATTTATATATAAAC
Found at i:6569853 original size:22 final size:21
Alignment explanation
Indices: 6569814--6569992 Score: 106
Period size: 22 Copynumber: 8.7 Consensus size: 21
6569804 CTAAACCATA
*
6569814 TATATTATTTATA-TATAAAC
1 TATATAATTTATATTATAAAC
*
6569834 TATATAGTTTATATTAATAAAC
1 TATATAATTTATATT-ATAAAC
* *
6569856 TATATAATTTATA-CATAGTA-
1 TATATAATTTATATTATA-AAC
* *
6569876 TATATTATTTATAATTATACA-
1 TATATAATTTAT-ATTATAAAC
* * **
6569897 TA-AT-ATATA-AATATAAGT
1 TATATAATTTATATTATAAAC
* * *
6569915 TGTATAGTTTATA-TATAATTC
1 TATATAATTTATATTATAA-AC
6569936 ATATATAATTTATA-TATAAAC
1 -TATATAATTTATATTATAAAC
6569957 TATATAATTTATATTAATAAAC
1 TATATAATTTATATT-ATAAAC
* *
6569979 TATGTAGTTTATAT
1 TATATAATTTATAT
6569993 ATAGTTCATG
Statistics
Matches: 124, Mismatches: 22, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
17 5 0.04
18 1 0.01
19 6 0.05
20 48 0.39
21 9 0.07
22 55 0.44
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (21 bp):
TATATAATTTATATTATAAAC
Found at i:6569949 original size:9 final size:10
Alignment explanation
Indices: 6569874--6569970 Score: 53
Period size: 9 Copynumber: 9.5 Consensus size: 10
6569864 TTATACATAG
6569874 TATAT-ATTA
1 TATATAATTA
*
6569883 TTTATAATTA
1 TATATAATTA
*
6569893 TACATAATATA
1 TATATAAT-TA
*
6569904 TAAATATAAGTTG
1 T--ATATAA-TTA
6569917 TATAGT--TTA
1 TATA-TAATTA
6569926 TATATAATTCA
1 TATATAATT-A
6569937 TATATAATTTA
1 TATATAA-TTA
6569948 TATATAA--A
1 TATATAATTA
6569956 CTATATAATT-
1 -TATATAATTA
6569966 TATAT
1 TATAT
6569971 TAATAAACTA
Statistics
Matches: 69, Mismatches: 6, Indels: 26
0.68 0.06 0.26
Matches are distributed among these distances:
8 2 0.03
9 22 0.32
10 12 0.17
11 22 0.32
12 3 0.04
13 7 0.10
14 1 0.01
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (10 bp):
TATATAATTA
Found at i:6569952 original size:13 final size:11
Alignment explanation
Indices: 6569917--6569974 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
6569907 ATATAAGTTG
*
6569917 TATAGTTTATA
1 TATAATTTATA
*
6569928 TATAATTCATA
1 TATAATTTATA
6569939 TATAATTTATA
1 TATAATTTATA
6569950 TATAA---ACTA
1 TATAATTTA-TA
6569959 TATAATTTATA
1 TATAATTTATA
6569970 T-TAAT
1 TATAAT
6569975 AAACTATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 1 0.03
9 7 0.17
10 4 0.10
11 27 0.68
12 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:6578282 original size:42 final size:42
Alignment explanation
Indices: 6578191--6578294 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
6578181 AATTAGTAAG
* *
6578191 TCCTTCGGGCCATC-AGTAAGTCTTTCGAGCATGATGGTTAAA
1 TCCTTCGGGCCATCTA-TAAGTCTTTCGAGCAAGATGGATAAA
* *
6578233 TCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGAT-GATAAGT
1 TCCTTCGGGCCATCTATAAGTCTTTCGAGCAAGATGGATAA-A
*
6578275 TCTTTCGGGCCATCTATAAG
1 TCCTTCGGGCCATCTATAAG
6578295 ACCTTCGGGG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
41 4 0.07
42 49 0.91
43 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (42 bp):
TCCTTCGGGCCATCTATAAGTCTTTCGAGCAAGATGGATAAA
Found at i:6578293 original size:21 final size:20
Alignment explanation
Indices: 6578236--6578294 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 20
6578226 GGTTAAATCC
*
6578236 TTCGGGTCATCTATAAGTCT
1 TTCGGGCCATCTATAAGTCT
* * **
6578256 TTCGAGCAAGATGATAAGTTCT
1 TTCGGGCCATCT-ATAAG-TCT
6578278 TTCGGGCCATCTATAAG
1 TTCGGGCCATCTATAAG
6578295 ACCTTCGGGG
Statistics
Matches: 28, Mismatches: 9, Indels: 3
0.70 0.22 0.08
Matches are distributed among these distances:
20 7 0.25
21 10 0.36
22 11 0.39
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (20 bp):
TTCGGGCCATCTATAAGTCT
Found at i:6578354 original size:260 final size:251
Alignment explanation
Indices: 6577770--6578904 Score: 1213
Period size: 237 Copynumber: 4.5 Consensus size: 251
6577760 GAGCAAGATG
* * *
6577770 ATAAGTCCTCCGGGCAGGATGTTTTCACATG-TTTTTCGAATAATGAGAAAACAATTTCCAAAGT
1 ATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTT-GAAAAATGAGAAAACAATTTCCAAAGT
* * *
6577834 TTCTCATTTATATATTTTCTGAAAA--AAGATTTTTTTGAACAA-TAAGAAAGCAATTTCCATAG
65 TTCTCATTTAAATATTTTCTGAAAATTAA-A--TTTTTGAA-AAGTAAGAAAG-GATTTCCAAAG
* **
6577896 TTTCTTACTTAGTGAACTATTTCTAAAATTAGCAAGTCCTTTAGGCCATCAGTAAGTCTTTCGAG
125 TTTCTTAC-TAGT--A-TATTTC---AATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
* * * * * * *
6577961 CATGATGATTGAATCCTTCGGGTCATCTATAAGCCTTTCTAGCAAGATGATACGTCATTCGAGCC
183 CATGATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCATTCGGGCC
6578026 ATCC
248 ATCC
** * *
6578030 ATAAGACCTTCGGGCATTATGTTTTCACACGTTTTTTGAAAAATGAGAAAACAATTTCCAAAGTT
1 ATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTGAAAAATGAGAAAACAATTTCCAAAGTT
6578095 TCTCATTTAAATATTTTCTGAAAATTAAATTTTTGAAAAGTAAGAAAAGGATTTCCAAAGTTTCT
66 TCTCATTTAAATATTTTCTGAAAATTAAATTTTTGAAAAGTAAG-AAAGGATTTCCAAAGTTTCT
6578160 TATCTAGTAAACTATTTCCAAAATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGA
130 TA-CTAGT--A-TATTT-C--AATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGA
* * * *
6578225 TGGTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTTCTTTCGGGCCATCT
188 TGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAGCAAGATGATAAG-TCATTCGGGCCATCC
* * * ** *
6578290 ATAAGACCTTCGGGGAGGATGTTATCATATGATTTTCAAAAAATGGGAAAGA-AATTTCCAAAGT
1 ATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTGAAAAATGAGAAA-ACAATTTCCAAAGT
* ** *
6578354 TTTTCATTTAAATATTTTCTG-AAATTTGATTTTTGAAAAGTAAGAAAACGATTTCCAAAG--T-
65 TTCTCATTTAAATATTTTCTGAAAATTAAATTTTTGAAAAGTAAG-AAAGGATTTCCAAAGTTTC
* * *
6578415 TT-C---T-TA---C--TTAGTAAGTCTTTTGGGCCATCAGTAAGTGTTTCGAGCATGATGCTTA
129 TTACTAGTATATTTCAATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTA
* *
6578470 AATCATTCAGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCATTCGGGCTATCC
194 AATCCTTCAGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCATTCGGGCCATCC
* ** * *
6578528 ATAAGACCTTCGGGCATGATGTTTTCACATGATTTTTGAAAAATGAGAAAATGATTTCTAACGTT
1 ATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTGAAAAATGAGAAAACAATTTCCAAAGTT
* * * * *
6578593 TCTCGTTTAAATCTTTTTTGAAAATT-GA-TTTTGAAAAGTAAGAAA--A--T---AA-TTTCTG
66 TCTCATTTAAATATTTTCTGAAAATTAAATTTTTGAAAAGTAAGAAAGGATTTCCAAAGTTTCTT
* *
6578648 A--AGT-T-TCTT-AATTAGTAAGTACTTCGGGCCATCAGTAAGTCTTTCGATCATGATGCTTAA
131 ACTAGTATAT-TTCAATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAA
* * * * *
6578708 ATCTTTCAGGTCATCTATAAGTCTTTCAATCAAGATAATAAGTCCTTCGGGCCATCC
195 ATCCTTCAGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCATTCGGGCCATCC
* ** *
6578765 ATAAGACCTTCGGGCAAGATGTTTTCACATGATTTTTGAAAAACAAGAAAACAATTTCCAAATTT
1 ATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTGAAAAATGAGAAAACAATTTCCAAAGTT
* * *
6578830 TCTCAATTAAATATGTTATGAAAATTGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTC
66 TCTCATTTAAATATTTTCTGAAAATT-AAATTTTTGAAAAGTAAGAAAG-GATTTCCAAAGTTTC
6578895 TTACCTAGTA
129 TTA-CTAGTA
6578905 AGTCTTTCGA
Statistics
Matches: 751, Mismatches: 85, Indels: 85
0.82 0.09 0.09
Matches are distributed among these distances:
229 2 0.00
230 1 0.00
231 1 0.00
232 1 0.00
233 2 0.00
234 1 0.00
236 3 0.00
237 188 0.25
238 83 0.11
239 91 0.12
240 17 0.02
243 2 0.00
245 1 0.00
247 2 0.00
248 2 0.00
249 6 0.01
251 1 0.00
252 3 0.00
254 1 0.00
256 2 0.00
257 1 0.00
258 2 0.00
259 163 0.22
260 166 0.22
261 7 0.01
262 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (251 bp):
ATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTGAAAAATGAGAAAACAATTTCCAAAGTT
TCTCATTTAAATATTTTCTGAAAATTAAATTTTTGAAAAGTAAGAAAGGATTTCCAAAGTTTCTT
ACTAGTATATTTCAATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
TCCTTCAGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCATTCGGGCCATCC
Found at i:6578532 original size:41 final size:42
Alignment explanation
Indices: 6578446--6578532 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
6578436 GGGCCATCAG
* * * *
6578446 TAAGTGTTTCGAGCATGATGCTTAAATCATTCAGGTCATCTA
1 TAAGTCTTTCGAGCAAGATGCATAAATCATTCAGGTCATCCA
* *
6578488 TAAGTCTTTCGAGCAAGATG-ATAAGTCATTC-GGGCTATCCA
1 TAAGTCTTTCGAGCAAGATGCATAAATCATTCAGGTC-ATCCA
6578529 TAAG
1 TAAG
6578533 ACCTTCGGGC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
40 3 0.08
41 17 0.45
42 18 0.47
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (42 bp):
TAAGTCTTTCGAGCAAGATGCATAAATCATTCAGGTCATCCA
Found at i:6578552 original size:498 final size:495
Alignment explanation
Indices: 6577924--6579617 Score: 1931
Period size: 498 Copynumber: 3.5 Consensus size: 495
6577914 ATTTCTAAAA
* * * * *
6577924 TTAGCAAGTCCTTTAGGCCATCAGTAAGTCTTTCGAGCATGATGATTGAATCCTTCGGGTCATCT
1 TTAGTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCT
* * **
6577989 ATAAGCCTTTCTAGCAAGATGATACGTCATTCGAGCCATCCATAAGACCTTCGGGCATTATGTTT
66 ATAAGCCTTTCGAGCAAGATGATAAGTCATTCGAGCCATCCATAAGACCTTCGGGCAGGATGTTT
* *
6578054 TCACACGTTTTTTGAAAAATGAGAAAACAATTTCCAAAGTTTCTCATTTAAATATTTTCTGAAAA
131 TCACATGTTTTTTGAAAAATGAGAAAACAATTTCCAAAGCTTCTCATTTAAATATTTTCTGAAAA
* *
6578119 TTAAATTTTTGAAAAGTAAGAAAAGGATTTCCAAAGTTTCTTATCTAGTAAACTATTTCCAAAAT
196 TT-TATTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTA-CTAGTAAACTATTTCCAAAAT
*
6578184 TAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGGTTAAATCCTTCGGGTCATCTA
259 TAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTA
* * *
6578249 TAAGTCTTTCGAGCAAGATGATAAGTTCTTTCGGGCCATCTATAAGACCTTCGGGGAGGATGTTA
324 TAAGTCTTTCGAGCAAGATGATAAGTTCTTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTT
* *
6578314 TCATATGATTTTCAAAAAATGGGAAAGAAATTTCCAAAGTTTTTCATTTAAATATTTTCTGAAAT
389 TCACATGATTTTCAAAAAATGAGAAAGAAATTTCCAAAGTTTTTCATTTAAATATTTTCTGAAA-
6578379 TTGATTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTAC
453 TTGATTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTAC
* * *
6578422 TTAGTAAGTCTTTTGGGCCATCAGTAAGTGTTTCGAGCATGATGCTTAAATCATTCAGGTCATCT
1 TTAGTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCT
* * * *
6578487 ATAAGTCTTTCGAGCAAGATGATAAGTCATTCGGGCTATCCATAAGACCTTCGGGCATGATGTTT
66 ATAAGCCTTTCGAGCAAGATGATAAGTCATTCGAGCCATCCATAAGACCTTCGGGCAGGATGTTT
* ** * * * * * *
6578552 TCACATGATTTTTGAAAAATGAGAAAATGATTTCTAACGTTTCTCGTTTAAATCTTTTTTGAAAA
131 TCACATGTTTTTTGAAAAATGAGAAAACAATTTCCAAAGCTTCTCATTTAAATATTTTCTGAAAA
* *
6578617 TTGA-TTTTGAAAAGTAAG-AAA--A--T---AA-TTTCTGA--AGT----T-TCTT----AATT
196 TTTATTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTAGTAAACTAT-TTCCAAAATT
* * * * *
6578661 AGTAAGTACTTCGGGCCATCAGTAAGTCTTTCGATCATGATGCTTAAATCTTTCAGGTCATCTAT
260 AGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTAT
* * * * *
6578726 AAGTCTTTCAATCAAGATAATAAG-TCCTTCGGGCCATCCATAAGACCTTCGGGCAAGATGTTTT
325 AAGTCTTTCGAGCAAGATGATAAGTTCTTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTT
** ** * * *
6578790 CACATGATTTTTGAAAAACAAGAAA-ACAATTTCCAAA-TTTTCTCAATTAAATATGTTATGAAA
390 CACATGATTTTCAAAAAATGAGAAAGA-AATTTCCAAAGTTTT-TCATTTAAATATTTTCTG-AA
*
6578853 ATTGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAG--T-TT-C
452 ATTG--ATTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTAC
* *
6578895 -T--T-A----------CC-T-AGTAAGTCTTTCGAGCATGATGCCTAAATCCTTCGGGTCATCT
1 TTAGTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCT
* * *
6578944 ATAAGCCTTTCGAGCAAGATGATAAGTCTTTCGGGCAATCCATAAGACCTTCGGGCAGGATGTTT
66 ATAAGCCTTTCGAGCAAGATGATAAGTCATTCGAGCCATCCATAAGACCTTCGGGCAGGATGTTT
* * *
6579009 TCACAT-TATTTTTGAAAAAATGATAAAGCATTTTCCAAAGCTTCTCATTTAAATATTTTCTGAA
131 TCACATGT-TTTTTG-AAAAATGAGAAAACAATTTCCAAAGCTTCTCATTTAAATATTTTCTGAA
* * *
6579073 AATTTATTTTTTAAACCGTAAGTAAACGATTTCCAAAGTTTCTTACCTAGTAAACTATTTCCAAA
194 AATTTATTTTTGAAA-AGTAAGAAAACGATTTCCAAAGTTTCTTA-CTAGTAAACTATTTCCAAA
* * * * *
6579138 ATTGGTAAGTCCTTCGGACCATCAGTAAGTTTTTCGAGCATGATGACTGAATCCTTCGGGTCATC
257 ATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATC
* * ** *
6579203 TATAAGCCTTTCGAGCAAGATGATAAGTCCTTT-GGGAGATCCATAAGGCCTTCGGGCAGGATGT
322 TATAAGTCTTTCGAGCAAGATGATAAGTTCTTTCGGGCCATCCATAAGACCTTCGGGCAGGATGT
** * *
6579267 TTTCACATGATTTTCGAAAAAAATGAGAAAGTGATTTCCAAAGTTTATCATTTAAATCTTTTCTG
387 TTTCACATGATTTTC--AAAAAATGAGAAAGAAATTTCCAAAGTTTTTCATTTAAATATTTTCT-
** *
6579332 GAAATTGATTTTTTTTAAAGTAAGAAAACGATTTTCAAAGTTTCTTAC
449 GAAATTGA-TTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTAC
* * * * * *
6579380 TTAGTAAGTCCTTCGGGCCATCCGCAAGTCATTCGAGCACGATGCATAAATCCTTCAGGTCATCT
1 TTAGTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCT
* * * * * *
6579445 ATAAGCCTTTTGAGCAAGATGATAAGTGC-TTTGAGCCGTTCATAAGACATTCGGGCAGGATATT
66 ATAAGCCTTTCGAGCAAGATGATAAGT-CATTCGAGCCATCCATAAGACCTTCGGGCAGGATGTT
*** * * **
6579509 TTCACATGATTTTCAAAAAAAATGAGAAAGCGATTTCCAAAGCTTCTCATTTAAATCCTTTCT--
130 TTCACATG-TTTT-TTGAAAAATGAGAAAACAATTTCCAAAGCTTCTCATTTAAATATTTTCTGA
*
6579572 -AATTTTTTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACT
193 AAATTTATTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACT
6579618 TAATAAGGCC
Statistics
Matches: 1001, Mismatches: 133, Indels: 125
0.80 0.11 0.10
Matches are distributed among these distances:
457 112 0.11
458 44 0.04
459 9 0.01
460 5 0.00
461 3 0.00
463 1 0.00
465 1 0.00
468 2 0.00
469 7 0.01
470 1 0.00
472 4 0.00
473 1 0.00
474 7 0.01
475 83 0.08
476 91 0.09
477 32 0.03
479 1 0.00
480 124 0.12
481 30 0.03
482 38 0.04
483 5 0.00
484 5 0.00
485 1 0.00
486 1 0.00
487 6 0.01
488 3 0.00
489 1 0.00
491 1 0.00
493 1 0.00
495 3 0.00
496 14 0.01
497 3 0.00
498 201 0.20
499 15 0.01
500 1 0.00
501 98 0.10
502 45 0.04
503 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (495 bp):
TTAGTAAGTCCTTTGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCT
ATAAGCCTTTCGAGCAAGATGATAAGTCATTCGAGCCATCCATAAGACCTTCGGGCAGGATGTTT
TCACATGTTTTTTGAAAAATGAGAAAACAATTTCCAAAGCTTCTCATTTAAATATTTTCTGAAAA
TTTATTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTAGTAAACTATTTCCAAAATTA
GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATA
AGTCTTTCGAGCAAGATGATAAGTTCTTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTTTTC
ACATGATTTTCAAAAAATGAGAAAGAAATTTCCAAAGTTTTTCATTTAAATATTTTCTGAAATTG
ATTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTAC
Found at i:6578702 original size:237 final size:236
Alignment explanation
Indices: 6578181--6579748 Score: 1482
Period size: 237 Copynumber: 6.6 Consensus size: 236
6578171 CTATTTCCAA
*
6578181 AATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGGTTAAATCCTTCGGGTCAT
1 AATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
* *
6578246 CTATAAGTCTTTCGAGCAAGATGATAAGTTCTTTCGGGCCATCTATAAGACCTTCGGGGAGGATG
66 CTATAAGTCTTTCGAGCAAGATGATAAG-TC-TTCGGGCCATCCATAAGACCTTCGGGCAGGATG
* * ** * * *
6578311 TTATCATATGATTTTCAAAAAATGGGAAAGAAATTTCCAAAGTTTTTCATTTAAATATTTTCTGA
129 TTTTCACATGATTTTTGAAAAATGAGAAA-AGATTTCCAAAGTTTCTCATTTAAATATTTTCTGA
* * *
6578376 AATTTGATTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTT
193 AAATTGATTTTTGAAAAGTAAGAAAACAATTTCTAAAGTTTCTT
* * * * * *
6578420 ACTTAGTAAGTCTTTTGGGCCATCAGTAAGTGTTTCGAGCATGATGCTTAAATCATTCAGGTCAT
1 AATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
* *
6578485 CTATAAGTCTTTCGAGCAAGATGATAAGTCATTCGGGCTATCCATAAGACCTTCGGGCATGATGT
66 CTATAAGTCTTTCGAGCAAGATGATAAGTC-TTCGGGCCATCCATAAGACCTTCGGGCAGGATGT
* * * * *
6578550 TTTCACATGATTTTTGAAAAATGAGAAAATGATTTCTAACGTTTCTCGTTTAAATCTTTTTTGAA
130 TTTCACATGATTTTTGAAAAATGAGAAAA-GATTTCCAAAGTTTCTCATTTAAATATTTTCTGAA
* *
6578615 AATTGA-TTTTGAAAAGTAAGAAAATAATTTCTGAAGTTTCTT
194 AATTGATTTTTGAAAAGTAAGAAAACAATTTCTAAAGTTTCTT
* * * *
6578657 AATTAGTAAGTACTTCGGGCCATCAGTAAGTCTTTCGATCATGATGCTTAAATCTTTCAGGTCAT
1 AATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
* * * *
6578722 CTATAAGTCTTTCAATCAAGATAATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAAGATGT
66 CTATAAGTCTTTCGAGCAAGATGATAAGT-CTTCGGGCCATCCATAAGACCTTCGGGCAGGATGT
** * * * * *
6578787 TTTCACATGATTTTTGAAAAACAAGAAAACAATTTCCAAATTTTCTCAATTAAATATGTTATGAA
130 TTTCACATGATTTTTGAAAAATGAGAAAA-GATTTCCAAAGTTTCTCATTTAAATATTTTCTGAA
* * *
6578852 AATTGAAATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTC--
194 AATTG--ATTTTTGAAAAGTAAGAAAACAATTTCTAAAGTTTCTT
*
6578895 ---T--T-A----------CC-T-AGTAAGTCTTTCGAGCATGATGCCTAAATCCTTCGGGTCAT
1 AATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
* *
6578942 CTATAAGCCTTTCGAGCAAGATGATAAGTCTTTCGGGCAATCCATAAGACCTTCGGGCAGGATGT
66 CTATAAGTCTTTCGAGCAAGATGATAAGTC-TTCGGGCCATCCATAAGACCTTCGGGCAGGATGT
* * *
6579007 TTTCACATTATTTTTGAAAAAATGA-TAAAGCATTTTCCAAAGCTTCTCATTTAAATATTTTCTG
130 TTTCACATGATTTTTG-AAAAATGAGAAAAG-A-TTTCCAAAGTTTCTCATTTAAATATTTTCTG
* * * * * *
6579071 AAAATTTATTTTTTAAACCGTAAGTAAACGATTTCCAAAGTTTCTTACCTAGT
192 AAAATTGATTTTTGAAA-AGTAAGAAAACAATTTCTAAAG--T-TT--CT--T
* * *
6579124 AAACTATTTCCAAAATTGGTAAGTCCTTCGGACCATCAGTAAGTTTTTCGAGCATGATGAC-TGA
1 --A--A-TT-----A---GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG-CTTAA
* * ** *
6579188 ATCCTTCGGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGTCCTTTGGGAGATCCATAAGGCC
52 ATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGT-CTTCGGGCCATCCATAAGACC
* * *
6579253 TTCGGGCAGGATGTTTTCACATGATTTTCGAAAAAAATGAGAAAGTGATTTCCAAAGTTTATCAT
116 TTCGGGCAGGATGTTTTCACATGATTTTTG--AAAAATGAGAAA-AGATTTCCAAAGTTTCTCAT
* * ** *
6579318 TTAAATCTTTTCTGGAAATTGATTTTTTTTAAAGTAAGAAAACGATTT-TCAAAGTTTCTT
178 TTAAATATTTTCTGAAAATTGA-TTTTTGAAAAGTAAGAAAACAATTTCT-AAAGTTTCTT
* * * * * * *
6579378 ACTTAGTAAGTCCTTCGGGCCATCCGCAAGTCATTCGAGCACGATGCATAAATCCTTCAGGTCAT
1 AATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
* * * * * * * *
6579443 CTATAAGCCTTTTGAGCAAGATGATAAGTGCTTTGAGCCGTTCATAAGACATTCGGGCAGGATAT
66 CTATAAGTCTTTCGAGCAAGATGATAAGT-CTTCGGGCCATCCATAAGACCTTCGGGCAGGATGT
** * * **
6579508 TTTCACATGATTTTCAAAAAAAATGAGAAAGCGATTTCCAAAGCTTCTCATTTAAATCCTTTCT-
130 TTTCACATGATTTT--TGAAAAATGAGAAA-AGATTTCCAAAGTTTCTCATTTAAATATTTTCTG
** * *
6579572 --AATTTTTTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTT
192 AAAATTGATTTTTGAAAAGTAAGAAAACAATTTCTAAAGTTTCTT
* * * ** * * *
6579615 ACTTAATAAGGCCTTTTGGCCATCATTAAGTCTCTCGAGCATGATGCAT-AATCCTTCGGGTCAT
1 AATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
* * * * * ** * *
6579679 ATATAAGCCTTTCAAACAAGATGATAAGTTCTTCGGGCTATCTGTATGACCTTCGGGCAAGATGT
66 CTATAAGTCTTTCGAGCAAGATGATAAG-TCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGT
6579744 TTTCA
130 TTTCA
6579749 TATGTTGTTC
Statistics
Matches: 1109, Mismatches: 158, Indels: 127
0.80 0.11 0.09
Matches are distributed among these distances:
219 10 0.01
220 132 0.12
221 39 0.04
222 3 0.00
223 2 0.00
225 1 0.00
232 1 0.00
233 1 0.00
235 1 0.00
236 67 0.06
237 281 0.25
238 93 0.08
239 87 0.08
240 30 0.03
241 161 0.15
244 1 0.00
247 1 0.00
248 1 0.00
249 2 0.00
252 1 0.00
254 1 0.00
256 2 0.00
258 4 0.00
259 2 0.00
260 110 0.10
261 63 0.06
262 11 0.01
263 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (236 bp):
AATTAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
CTATAAGTCTTTCGAGCAAGATGATAAGTCTTCGGGCCATCCATAAGACCTTCGGGCAGGATGTT
TTCACATGATTTTTGAAAAATGAGAAAAGATTTCCAAAGTTTCTCATTTAAATATTTTCTGAAAA
TTGATTTTTGAAAAGTAAGAAAACAATTTCTAAAGTTTCTT
Found at i:6578989 original size:41 final size:42
Alignment explanation
Indices: 6578903--6578994 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 42
6578893 TCTTACCTAG
* * * *
6578903 TAAGTCTTTCGAGCATGATGCCTAAATCCTTCGGGTCATCTA
1 TAAGCCTTTCGAGCAAGATGCATAAATCCTTCGGGTCATCCA
* *
6578945 TAAGCCTTTCGAGCAAGATG-ATAAGTCTTTCGGG-CAATCCA
1 TAAGCCTTTCGAGCAAGATGCATAAATCCTTCGGGTC-ATCCA
6578986 TAAGACCTT
1 TAAG-CCTT
6578995 CGGGCAGGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
40 1 0.02
41 19 0.45
42 22 0.52
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (42 bp):
TAAGCCTTTCGAGCAAGATGCATAAATCCTTCGGGTCATCCA
Found at i:6579105 original size:220 final size:219
Alignment explanation
Indices: 6578681--6579125 Score: 626
Period size: 220 Copynumber: 2.0 Consensus size: 219
6578671 TCGGGCCATC
* * * * *
6578681 AGTAAGTCTTTCGATCATGATGCTTAAATCTTTCAGGTCATCTATAAGTCTTTCAATCAAGATAA
1 AGTAAGTCTTTCGAGCATGATGCCTAAATCCTTCAGGTCATCTATAAGCCTTTCAAGCAAGATAA
*
6578746 TAAGTCCTTCGGGCCATCCATAAGACCTTCGGGCAAGATGTTTTCACATGATTTTTGAAAAACAA
66 TAAGTCCTTCGGGCAATCCATAAGACCTTCGGGCAAGATGTTTTCACATGATTTTTGAAAAACAA
**
6578811 GAAAACAATTTCCAAATTTTCTCAATTAAATATGTTATGAAAATTGAAATTTTTGAAAAGTAAGA
131 GAAAACAATTTCCAAAGCTTCTCAATTAAATATGTTATGAAAATT-AAATTTTTGAAAAGTAAGA
6578876 AAGCGATTTCCAAAGTTTCTTACCT
195 AAGCGATTTCCAAAGTTTCTTACCT
* * *
6578901 AGTAAGTCTTTCGAGCATGATGCCTAAATCCTTCGGGTCATCTATAAGCCTTTCGAGCAAGATGA
1 AGTAAGTCTTTCGAGCATGATGCCTAAATCCTTCAGGTCATCTATAAGCCTTTCAAGCAAGATAA
* * * *
6578966 TAAGTCTTTCGGGCAATCCATAAGACCTTCGGGCAGGATGTTTTCACATTATTTTTGAAAAA-AT
66 TAAGTCCTTCGGGCAATCCATAAGACCTTCGGGCAAGATGTTTTCACATGATTTTTGAAAAACAA
* * * * * * *
6579030 GATAAAGCATTTTCCAAAGCTTCTCATTTAAATATTTTCTGAAAATT-TATTTTTTAAACCGTAA
131 GA-AAA-CAATTTCCAAAGCTTCTCAATTAAATATGTTATGAAAATTAAATTTTTGAAA-AGTAA
6579094 GTAAA-CGATTTCCAAAGTTTCTTACCT
193 G-AAAGCGATTTCCAAAGTTTCTTACCT
6579121 AGTAA
1 AGTAA
6579126 ACTATTTCCA
Statistics
Matches: 199, Mismatches: 22, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
219 12 0.06
220 150 0.75
221 37 0.19
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (219 bp):
AGTAAGTCTTTCGAGCATGATGCCTAAATCCTTCAGGTCATCTATAAGCCTTTCAAGCAAGATAA
TAAGTCCTTCGGGCAATCCATAAGACCTTCGGGCAAGATGTTTTCACATGATTTTTGAAAAACAA
GAAAACAATTTCCAAAGCTTCTCAATTAAATATGTTATGAAAATTAAATTTTTGAAAAGTAAGAA
AGCGATTTCCAAAGTTTCTTACCT
Found at i:6579249 original size:41 final size:43
Alignment explanation
Indices: 6579169--6579254 Score: 97
Period size: 42 Copynumber: 2.0 Consensus size: 43
6579159 TCAGTAAGTT
* * *
6579169 TTTCGAGCATGATGACTGAATCCTTCGGGTCATCTATAA-GCC
1 TTTCGAGCAAGATGACTGAATCCTTCGGGACATCCATAAGGCC
* *
6579211 TTTCGAGCAAGATGA-T-AAGTCCTTTGGGAGATCCATAAGGCC
1 TTTCGAGCAAGATGACTGAA-TCCTTCGGGACATCCATAAGGCC
6579253 TT
1 TT
6579255 CGGGCAGGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
40 2 0.05
41 16 0.43
42 19 0.51
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (43 bp):
TTTCGAGCAAGATGACTGAATCCTTCGGGACATCCATAAGGCC
Found at i:6580395 original size:17 final size:18
Alignment explanation
Indices: 6580363--6580409 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
6580353 TTTTACCATG
*
6580363 ATAA-AATAATAACAAATA
1 ATAATAATAA-AACAAAAA
6580381 ATAATAA-AAAACAAAAA
1 ATAATAATAAAACAAAAA
6580398 ATAATAATAAAA
1 ATAATAATAAAA
6580410 AAGAGAAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 14 0.54
18 10 0.38
19 2 0.08
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (18 bp):
ATAATAATAAAACAAAAA
Found at i:6581637 original size:12 final size:12
Alignment explanation
Indices: 6581620--6581644 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6581610 TATACAGGTA
6581620 ATATGATATATG
1 ATATGATATATG
6581632 ATATGATATATG
1 ATATGATATATG
6581644 A
1 A
6581645 GTGTGTGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
ATATGATATATG
Found at i:6587397 original size:2 final size:2
Alignment explanation
Indices: 6587390--6587459 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
6587380 CAACCACTTA
6587390 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
6587432 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
6587460 CCTCATATCA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6587805 original size:21 final size:22
Alignment explanation
Indices: 6587766--6587808 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6587756 CCAAAGTGCA
6587766 ACATAGAATGTCCCGAAGGACC
1 ACATAGAATGTCCCGAAGGACC
6587788 ACATAG-ATG-CCTCGAAGGACC
1 ACATAGAATGTCC-CGAAGGACC
6587809 GCGTAGAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 2 0.10
21 12 0.60
22 6 0.30
ACGTcount: A:0.35, C:0.28, G:0.23, T:0.14
Consensus pattern (22 bp):
ACATAGAATGTCCCGAAGGACC
Found at i:6588822 original size:35 final size:35
Alignment explanation
Indices: 6588777--6588843 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
6588767 TCTCTCAAAA
*
6588777 TAGTACCGATATTTAAACATT-GGTATCGATACCCC
1 TAGTACCGATA-CTAAACATTCGGTATCGATACCCC
* *
6588812 TAGTATCGATACTAATCATTCGGTATCGATAC
1 TAGTACCGATACTAAACATTCGGTATCGATAC
6588844 TTCTTAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 7 0.25
35 21 0.75
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (35 bp):
TAGTACCGATACTAAACATTCGGTATCGATACCCC
Found at i:6593775 original size:43 final size:42
Alignment explanation
Indices: 6593719--6593801 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 42
6593709 CGTTTTCTAA
* *
6593719 CAAAAAAAGCCGCAATAGGAT-TTGTTATTTAGCGGCGTTTGT
1 CAAAAAAAACCGCAATAGG-TGTTGATATTTAGCGGCGTTTGT
*
6593761 CAAAAAAATACCGCAATAGGTGTTGATGTTTAGCGGCGTTT
1 CAAAAAAA-ACCGCAATAGGTGTTGATATTTAGCGGCGTTT
6593802 TACTTACAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 9 0.25
43 27 0.75
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.30
Consensus pattern (42 bp):
CAAAAAAAACCGCAATAGGTGTTGATATTTAGCGGCGTTTGT
Found at i:6601749 original size:32 final size:34
Alignment explanation
Indices: 6601686--6601749 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
6601676 CATCTCATCT
*
6601686 TCAACCAAATCAGAGAAAAAAGCTTATAAACAAC
1 TCAACCAAAACAGAGAAAAAAGCTTATAAACAAC
*
6601720 TCAACCAAAACA-AGAAAGAAG-TTATAAACA
1 TCAACCAAAACAGAGAAAAAAGCTTATAAACA
6601750 CTATTAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 9 0.32
33 8 0.29
34 11 0.39
ACGTcount: A:0.58, C:0.19, G:0.09, T:0.14
Consensus pattern (34 bp):
TCAACCAAAACAGAGAAAAAAGCTTATAAACAAC
Found at i:6607618 original size:22 final size:21
Alignment explanation
Indices: 6607586--6607653 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
6607576 ACGTTTATTT
* * * *
6607586 TAAATTTAAAATTTTAAAAAT
1 TAAATATAAAAGTATAAAAAA
6607607 TAAACTATAAAAGTATAAAAAA
1 TAAA-TATAAAAGTATAAAAAA
*
6607629 TAAATATAAAAATACT-AAAAA
1 TAAATATAAAAGTA-TAAAAAA
6607650 TAAA
1 TAAA
6607654 AGTTAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 22 0.55
22 18 0.45
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.29
Consensus pattern (21 bp):
TAAATATAAAAGTATAAAAAA
Found at i:6607648 original size:44 final size:44
Alignment explanation
Indices: 6607600--6607686 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
6607590 TTTAAAATTT
* * *
6607600 TAAAAATTAAACTATAAAAGTA-TAAAAAATAAATATAAAAATAC
1 TAAAAATAAAACT-TAAAAATACTAAAAAATAAAAATAAAAATAC
* * *
6607644 TAAAAATAAAAGTTAAAAATACTAAAAATTAAAAATATAAATA
1 TAAAAATAAAACTTAAAAATACTAAAAAATAAAAATAAAAATA
6607687 TTACTCATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
43 7 0.19
44 29 0.81
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.25
Consensus pattern (44 bp):
TAAAAATAAAACTTAAAAATACTAAAAAATAAAAATAAAAATAC
Found at i:6607649 original size:9 final size:8
Alignment explanation
Indices: 6607600--6607684 Score: 62
Period size: 8 Copynumber: 11.5 Consensus size: 8
6607590 TTTAAAATTT
6607600 TAAAAAT-
1 TAAAAATA
*
6607607 T-AAACTA
1 TAAAAATA
*
6607614 TAAAAGTA
1 TAAAAATA
6607622 TAAAAA-A
1 TAAAAATA
6607629 T--AAATA
1 TAAAAATA
6607635 TAAAAATA
1 TAAAAATA
6607643 CT-AAAA-A
1 -TAAAAATA
*
6607650 TAAAAGT-
1 TAAAAATA
6607657 TAAAAATA
1 TAAAAATA
6607665 CTAAAAAT-
1 -TAAAAATA
6607673 TAAAAATA
1 TAAAAATA
6607681 TAAA
1 TAAA
6607685 TATTACTCAT
Statistics
Matches: 62, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
5 3 0.05
6 7 0.11
7 21 0.34
8 23 0.37
9 8 0.13
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (8 bp):
TAAAAATA
Found at i:6607685 original size:22 final size:22
Alignment explanation
Indices: 6607600--6607686 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 22
6607590 TTTAAAATTT
* *
6607600 TAAAAATTAAACTATAAAAGTA-
1 TAAAAATTAAA-AATAAAAATAC
* *
6607622 TAAAAAATAAATATAAAAATAC
1 TAAAAATTAAAAATAAAAATAC
*
6607644 TAAAAA-TAAAAGTTAAAAATAC
1 TAAAAATTAAAA-ATAAAAATAC
*
6607666 TAAAAATTAAAAATATAAATA
1 TAAAAATTAAAAATAAAAATA
6607687 TTACTCATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.23
22 38 0.68
23 5 0.09
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.25
Consensus pattern (22 bp):
TAAAAATTAAAAATAAAAATAC
Found at i:6607689 original size:15 final size:15
Alignment explanation
Indices: 6607594--6607689 Score: 65
Period size: 15 Copynumber: 6.5 Consensus size: 15
6607584 TTTAAATTTA
*
6607594 AAATTTTAAAAAT-T
1 AAATATTAAAAATAT
*
6607608 AAACTA-TAAAAGTAT
1 AAA-TATTAAAAATAT
* * * *
6607623 AAAAAATAAATATAA
1 AAATATTAAAAATAT
*
6607638 AAATACTAAAAATA-
1 AAATATTAAAAATAT
*
6607652 AAA-GTTAAAAATACT
1 AAATATTAAAAATA-T
*
6607667 AAAAATTAAAAATAT
1 AAATATTAAAAATAT
6607682 AAATATTA
1 AAATATTA
6607690 CTCATAATGA
Statistics
Matches: 63, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
13 8 0.13
14 13 0.21
15 33 0.52
16 9 0.14
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (15 bp):
AAATATTAAAAATAT
Found at i:6612269 original size:11 final size:11
Alignment explanation
Indices: 6612240--6612290 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
6612230 ACCTTTAATC
*
6612240 CCTTGTTTTTT
1 CCTTCTTTTTT
6612251 CC-TCTTTTTT
1 CCTTCTTTTTT
*
6612261 CCTTTTTTTTT
1 CCTTCTTTTTT
* *
6612272 CCCTCTTTCCTT
1 CCTTCTTT-TTT
6612284 CCTTCTT
1 CCTTCTT
6612291 CCTTTTTCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
10 9 0.28
11 15 0.47
12 8 0.25
ACGTcount: A:0.00, C:0.31, G:0.02, T:0.67
Consensus pattern (11 bp):
CCTTCTTTTTT
Found at i:6614245 original size:30 final size:30
Alignment explanation
Indices: 6614211--6614282 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
6614201 ACCCTATAAG
* *
6614211 TTTCTATTTTAGCTATTTTGGT-CTTTGAAC
1 TTTCTATTTTAGCAATTTTAGTCCTTT-AAC
* *
6614241 TTTCTGTTTTAGCAATTTTAGTCCTTTAAG
1 TTTCTATTTTAGCAATTTTAGTCCTTTAAC
6614271 TTTCTATTTTAG
1 TTTCTATTTTAG
6614283 TCTTTTAAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 32 0.89
31 4 0.11
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.57
Consensus pattern (30 bp):
TTTCTATTTTAGCAATTTTAGTCCTTTAAC
Found at i:6614300 original size:20 final size:21
Alignment explanation
Indices: 6614255--6614303 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
6614245 TGTTTTAGCA
6614255 ATTTTAGTCCTTTAAGTTTCT
1 ATTTTAGTCCTTTAAGTTTCT
*
6614276 ATTTTAGTCTTTTAAGTTTCT
1 ATTTTAGTCCTTTAAGTTTCT
*
6614297 TTTTTAG
1 ATTTTAG
6614304 CTATTTTAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.10, G:0.10, T:0.61
Consensus pattern (21 bp):
ATTTTAGTCCTTTAAGTTTCT
Found at i:6614302 original size:51 final size:51
Alignment explanation
Indices: 6614223--6614324 Score: 150
Period size: 51 Copynumber: 2.0 Consensus size: 51
6614213 TCTATTTTAG
*
6614223 CTATTTTGGTCTTTGAACTTTCTGTTTTAGCAATTTTAGTCCTTTAAGTTT
1 CTATTTTAGTCTTTGAACTTTCTGTTTTAGCAATTTTAGTCCTTTAAGTTT
* * * * *
6614274 CTATTTTAGTCTTTTAAGTTTCTTTTTTAGCTATTTTAGTCTTTTAAGTTT
1 CTATTTTAGTCTTTGAACTTTCTGTTTTAGCAATTTTAGTCCTTTAAGTTT
6614325 ATGTTTTTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.59
Consensus pattern (51 bp):
CTATTTTAGTCTTTGAACTTTCTGTTTTAGCAATTTTAGTCCTTTAAGTTT
Found at i:6614308 original size:30 final size:30
Alignment explanation
Indices: 6614274--6614374 Score: 141
Period size: 30 Copynumber: 3.4 Consensus size: 30
6614264 CTTTAAGTTT
6614274 CTATTTTAGTCTTTTAAGTTTCT-TTTTTAG
1 CTATTTTAGTCTTTTAAGTTTCTATTTTT-G
* *
6614304 CTATTTTAGTCTTTTAAGTTTATGTTTTTG
1 CTATTTTAGTCTTTTAAGTTTCTATTTTTG
* *
6614334 CTATTTTAGTCCTTGAAGTTTCTATTTTTG
1 CTATTTTAGTCTTTTAAGTTTCTATTTTTG
*
6614364 TTATTTTAGTC
1 CTATTTTAGTC
6614375 CTTTGACTTT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 59 0.92
31 5 0.08
ACGTcount: A:0.17, C:0.10, G:0.12, T:0.61
Consensus pattern (30 bp):
CTATTTTAGTCTTTTAAGTTTCTATTTTTG
Found at i:6614338 original size:60 final size:60
Alignment explanation
Indices: 6614270--6614405 Score: 177
Period size: 60 Copynumber: 2.3 Consensus size: 60
6614260 AGTCCTTTAA
* * * *
6614270 GTTT-CTATTTTAGTCTTTTAAGTTTCT-TTTTTAGCTATTTTAGTCTTTTAAGTTTATGT
1 GTTTGCTATTTTAGTCCTTGAAGTTTCTATTTTT-GCTATTTTAGTCCTTTAACTTTATGT
* * *
6614329 TTTTGCTATTTTAGTCCTTGAAGTTTCTATTTTTGTTATTTTAGTCCTTTGACTTTATGT
1 GTTTGCTATTTTAGTCCTTGAAGTTTCTATTTTTGCTATTTTAGTCCTTTAACTTTATGT
*
6614389 GTTTGCTATTTTGGTCC
1 GTTTGCTATTTTAGTCC
6614406 CTTAAATTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
59 3 0.05
60 58 0.88
61 5 0.08
ACGTcount: A:0.15, C:0.11, G:0.14, T:0.60
Consensus pattern (60 bp):
GTTTGCTATTTTAGTCCTTGAAGTTTCTATTTTTGCTATTTTAGTCCTTTAACTTTATGT
Found at i:6614342 original size:81 final size:81
Alignment explanation
Indices: 6614207--6614361 Score: 238
Period size: 81 Copynumber: 1.9 Consensus size: 81
6614197 TTCAACCCTA
* * *
6614207 TAAGTTTCTATTTTAGCTATTTTGGTCTTTGAACTTTCTGTTTTAGCAATTTTAGTCCTTTAAGT
1 TAAGTTTCTATTTTAGCTATTTTAGTCTTTGAACTTTATGTTTTAGCAATTTTAGTCCTTGAAGT
6614272 TTCTATTTTAGTCTTT
66 TTCTATTTTAGTCTTT
* * * * *
6614288 TAAGTTTCTTTTTTAGCTATTTTAGTCTTTTAAGTTTATGTTTTTGCTATTTTAGTCCTTGAAGT
1 TAAGTTTCTATTTTAGCTATTTTAGTCTTTGAACTTTATGTTTTAGCAATTTTAGTCCTTGAAGT
6614353 TTCTATTTT
66 TTCTATTTT
6614362 TGTTATTTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.18, C:0.11, G:0.12, T:0.59
Consensus pattern (81 bp):
TAAGTTTCTATTTTAGCTATTTTAGTCTTTGAACTTTATGTTTTAGCAATTTTAGTCCTTGAAGT
TTCTATTTTAGTCTTT
Found at i:6614375 original size:30 final size:29
Alignment explanation
Indices: 6614274--6614410 Score: 139
Period size: 30 Copynumber: 4.6 Consensus size: 29
6614264 CTTTAAGTTT
*
6614274 CTATTTTAGTCTTTTAAGTTTCTTTTTTAG
1 CTATTTTAGTCCTTTAAGTTTCTTTTTT-G
* *
6614304 CTATTTTAGTCTTTTAAGTTTATGTTTTTG
1 CTATTTTAGTCCTTTAAGTTTCT-TTTTTG
*
6614334 CTATTTTAGTCCTTGAAGTTTCTATTTTTG
1 CTATTTTAGTCCTTTAAGTTTCT-TTTTTG
* * * * *
6614364 TTATTTTAGTCCTTTGACTTTATGTGTTTG
1 CTATTTTAGTCCTTTAAGTTTCT-TTTTTG
* *
6614394 CTATTTTGGTCCCTTAA
1 CTATTTTAGTCCTTTAA
6614411 ATTTTCTAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
30 85 0.94
31 5 0.06
ACGTcount: A:0.16, C:0.12, G:0.13, T:0.59
Consensus pattern (29 bp):
CTATTTTAGTCCTTTAAGTTTCTTTTTTG
Found at i:6615410 original size:18 final size:18
Alignment explanation
Indices: 6615383--6615454 Score: 105
Period size: 18 Copynumber: 4.2 Consensus size: 18
6615373 ATTGTTTGTA
6615383 TTTG-AACACCAAGAGAT
1 TTTGAAACACCAAGAGAT
6615400 TTTGAAACACCAAGAGAT
1 TTTGAAACACCAAGAGAT
*
6615418 TTTGAAACA-CTA-AGAT
1 TTTGAAACACCAAGAGAT
*
6615434 TTTGAAACACCAAGAAAT
1 TTTGAAACACCAAGAGAT
6615452 TTT
1 TTT
6615455 AATATTTAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
16 13 0.27
17 8 0.16
18 28 0.57
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (18 bp):
TTTGAAACACCAAGAGAT
Found at i:6616752 original size:1 final size:1
Alignment explanation
Indices: 6616746--6616771 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
6616736 TTCAAAAGGC
6616746 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
6616772 TTGAATTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:6617558 original size:24 final size:24
Alignment explanation
Indices: 6617528--6617590 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
6617518 TTTTATATTT
6617528 GTTTTAGGTATTTTAGTATAAATA
1 GTTTTAGGTATTTTAGTATAAATA
6617552 GTTTTAGGTATTTTAGTATAAATA
1 GTTTTAGGTATTTTAGTATAAATA
* *
6617576 GTTTTAAGTGTTTTA
1 GTTTTAGGTATTTTA
6617591 ATTAGGATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.52
Consensus pattern (24 bp):
GTTTTAGGTATTTTAGTATAAATA
Found at i:6618258 original size:17 final size:17
Alignment explanation
Indices: 6618233--6618266 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6618223 CTTTATCCCA
*
6618233 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
6618250 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
6618267 TTATCTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:6624009 original size:6 final size:5
Alignment explanation
Indices: 6623953--6624063 Score: 64
Period size: 5 Copynumber: 22.0 Consensus size: 5
6623943 TTTCGTTCTA
* * * * * *
6623953 ATTTT GTTTT ATTTC ATTTC ATTTC ATTTC ATTTC ATTTT CATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT -ATTTT ATTTT
**** * * *
6624004 ATTTTT AGCAA ACTTT ATTTC ATTAT A-TTT ATTTT ATTTT GA-TTT ATTTT
1 A-TTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT -ATTTT ATTTT
6624054 ATTTT ATTTT
1 ATTTT ATTTT
6624064 TCTCTGAACA
Statistics
Matches: 84, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
4 4 0.05
5 69 0.82
6 11 0.13
ACGTcount: A:0.22, C:0.08, G:0.03, T:0.68
Consensus pattern (5 bp):
ATTTT
Found at i:6624050 original size:15 final size:14
Alignment explanation
Indices: 6624017--6624062 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
6624007 TTTAGCAAAC
* *
6624017 TTTATTTCATTATA
1 TTTATTTTATTTTA
6624031 TTTATTTTATTTTGA
1 TTTATTTTATTTT-A
6624046 TTTATTTTATTTTA
1 TTTATTTTATTTTA
6624060 TTT
1 TTT
6624063 TTCTCTGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 15 0.52
15 14 0.48
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:6626302 original size:85 final size:82
Alignment explanation
Indices: 6626161--6626344 Score: 219
Period size: 85 Copynumber: 2.2 Consensus size: 82
6626151 AAACTTAAGT
* * * * *
6626161 TTTAGGATACTATTTTAAACATTATATTTTTATCTTTGTTTAAGTATTTTATTTTAAATAGGTTT
1 TTTAGGATATTATTTTAAACAGTATATTTTTATATTTGTTTAAGTATTTTAGTTTAAATA-ATTT
6626226 T-AGTATTTCAATTAGGA
65 TAAGTATTTCAATTAGGA
* *
6626243 TTTAGGATATTATTTTAAATAGTATTTTATTTTATATTTGTCTT-AGATATTTTAGTTTAAATAA
1 TTTAGGATATTATTTTAAACAGTA-TAT-TTTTATATTTGT-TTAAG-TATTTTAGTTTAAATAA
* *
6626307 TTTTAAGTGTTTTAATTAGGA
62 TTTTAAGTATTTCAATTAGGA
*
6626328 TTTAAGATATTATTTTA
1 TTTAGGATATTATTTTA
6626345 GGAATTATCT
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
82 21 0.24
83 2 0.02
84 17 0.20
85 47 0.54
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.55
Consensus pattern (82 bp):
TTTAGGATATTATTTTAAACAGTATATTTTTATATTTGTTTAAGTATTTTAGTTTAAATAATTTT
AAGTATTTCAATTAGGA
Found at i:6626616 original size:18 final size:17
Alignment explanation
Indices: 6626584--6626617 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6626574 CTGAGCTTAC
*
6626584 TTTTCAAATCAAAAGTA
1 TTTTCAAACCAAAAGTA
6626601 TTTTCAAAACCAAAAGT
1 TTTTC-AAACCAAAAGT
6626618 TGACGTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (17 bp):
TTTTCAAACCAAAAGTA
Found at i:6626923 original size:17 final size:17
Alignment explanation
Indices: 6626898--6626931 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6626888 CTTTATCCCA
*
6626898 ATTTATTTATTTTATTT
1 ATTTATTTATTTAATTT
*
6626915 ATTTGTTTATTTAATTT
1 ATTTATTTATTTAATTT
6626932 TTATCTCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
ATTTATTTATTTAATTT
Found at i:6634650 original size:21 final size:21
Alignment explanation
Indices: 6634603--6634657 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
6634593 CATAATTTCA
*
6634603 AAATATTATAAAATGTAAGTAT
1 AAATATTA-AAAATGTAAATAT
*
6634625 TAATATTAAAAAT-TAAAATAT
1 AAATATTAAAAATGT-AAATAT
*
6634646 AAATATTTAAAA
1 AAATATTAAAAA
6634658 CTTATAGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.71
22 7 0.25
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (21 bp):
AAATATTAAAAATGTAAATAT
Found at i:6635858 original size:22 final size:19
Alignment explanation
Indices: 6635821--6635863 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
6635811 CCTTTATTTG
6635821 TAATATTATTTAATAATAC
1 TAATATTATTTAATAATAC
*
6635840 TAATATTA-TTAATATATAA
1 TAATATTATTTAATA-ATAC
6635859 TAATA
1 TAATA
6635864 AAGTATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATATTATTTAATAATAC
Found at i:6640609 original size:27 final size:27
Alignment explanation
Indices: 6640570--6640624 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
6640560 ACCATGCATT
* *
6640570 TTAAAGCATAAAACAACTAATAAAAAA
1 TTAAAGCATAAAACAAATAAAAAAAAA
*
6640597 TTAAATGCA-AAAAGAAATAAAAAAAAA
1 TTAAA-GCATAAAACAAATAAAAAAAAA
6640624 T
1 T
6640625 GAGAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.69, C:0.07, G:0.05, T:0.18
Consensus pattern (27 bp):
TTAAAGCATAAAACAAATAAAAAAAAA
Found at i:6640784 original size:19 final size:19
Alignment explanation
Indices: 6640738--6640785 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
6640728 GGGCTAATTA
*
6640738 AAAAAATATAAAAATTAAAT
1 AAAAAA-ATAAAAATAAAAT
**
6640758 AACTAAATAAAAATAAAAT
1 AAAAAAATAAAAATAAAAT
6640777 AAAAAAATA
1 AAAAAAATA
6640786 GATTAGTGAC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAAAAATAAAAATAAAAT
Found at i:6641896 original size:23 final size:23
Alignment explanation
Indices: 6641844--6641896 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
6641834 GATTAGGCTA
* *
6641844 GGGTTTGGGCTTGGTTTCGGTCC
1 GGGTTTGGGCTTGGTCTCGGCCC
** *
6641867 GTCTTTGGGCTTGGTCTGGGCCC
1 GGGTTTGGGCTTGGTCTCGGCCC
6641890 GGGTTTG
1 GGGTTTG
6641897 TATTGTTGGG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.00, C:0.19, G:0.43, T:0.38
Consensus pattern (23 bp):
GGGTTTGGGCTTGGTCTCGGCCC
Found at i:6641940 original size:20 final size:20
Alignment explanation
Indices: 6641915--6641957 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
6641905 GGTAATGGGC
6641915 TTGGGTTT-AGTTTAGGTATT
1 TTGGGTTTGA-TTTAGGTATT
*
6641935 TTGGGTTTGATTTGGGTATT
1 TTGGGTTTGATTTAGGTATT
6641955 TTG
1 TTG
6641958 TAATAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.12, C:0.00, G:0.33, T:0.56
Consensus pattern (20 bp):
TTGGGTTTGATTTAGGTATT
Found at i:6641966 original size:3 final size:3
Alignment explanation
Indices: 6641958--6642010 Score: 52
Period size: 3 Copynumber: 16.3 Consensus size: 3
6641948 GGGTATTTTG
* *
6641958 TAA TAA TAAA TAAA TAA TAA TATT TTA TAA TAA TAA TAA TAA TAA TATA
1 TAA TAA T-AA T-AA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA-A
6642007 TAA T
1 TAA T
6642011 GTATAATGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
3 32 0.74
4 11 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:6641989 original size:27 final size:25
Alignment explanation
Indices: 6641951--6642005 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 25
6641941 TTGATTTGGG
*
6641951 TATTTTGTAATAATAAATAAATAATAA
1 TATTTTATAATAAT-AAT-AATAATAA
6641978 TATTTTATAATAATAATAATAATAA
1 TATTTTATAATAATAATAATAATAA
6642003 TAT
1 TAT
6642006 ATAATGTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 11 0.41
26 3 0.11
27 13 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TATTTTATAATAATAATAATAATAA
Found at i:6641998 original size:22 final size:24
Alignment explanation
Indices: 6641960--6642010 Score: 70
Period size: 22 Copynumber: 2.2 Consensus size: 24
6641950 GTATTTTGTA
* *
6641960 ATAATAAATAAATAATAATATTTT
1 ATAATAAATAAATAATAATAATAT
6641984 ATAAT-AAT-AATAATAATAATAT
1 ATAATAAATAAATAATAATAATAT
6642006 ATAAT
1 ATAAT
6642011 GTATAATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 17 0.68
23 3 0.12
24 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATAATAAATAAATAATAATAATAT
Found at i:6642926 original size:16 final size:17
Alignment explanation
Indices: 6642893--6642930 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6642883 TTAATATTAT
* *
6642893 TTTTTTGACTTCTTTCA
1 TTTTTTGAATTCTCTCA
6642910 TTTTTTGAATT-TCTCA
1 TTTTTTGAATTCTCTCA
6642926 TTTTT
1 TTTTT
6642931 AGTATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.13, C:0.13, G:0.05, T:0.68
Consensus pattern (17 bp):
TTTTTTGAATTCTCTCA
Found at i:6642997 original size:9 final size:9
Alignment explanation
Indices: 6642971--6643008 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
6642961 ATAATTATAA
6642971 TTTT-TCTT
1 TTTTCTCTT
6642979 TTTTCT-TT
1 TTTTCTCTT
6642987 TTTTCTCTT
1 TTTTCTCTT
*
6642996 TTTTCTATT
1 TTTTCTCTT
6643005 TTTT
1 TTTT
6643009 TGAATACCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:6642997 original size:17 final size:17
Alignment explanation
Indices: 6642971--6643009 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
6642961 ATAATTATAA
6642971 TTTTTCTTTTTTCT-TT
1 TTTTTCTTTTTTCTATT
6642987 TTTTCTCTTTTTTCTATT
1 TTTT-TCTTTTTTCTATT
6643005 TTTTT
1 TTTTT
6643010 GAATACCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.19
17 11 0.52
18 6 0.29
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTCTTTTTTCTATT
Found at i:6643390 original size:42 final size:42
Alignment explanation
Indices: 6643280--6643396 Score: 157
Period size: 41 Copynumber: 2.8 Consensus size: 42
6643270 ATGACCCAAA
*
6643280 GGATTTAACCATCATGCTCGAAAGACTTACTGATGGCTCGAG
1 GGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAG
* * * *
6643322 GG-TTTAAGCATTATTCTTGAAAGACTTATTGATGGC-CTGAG
1 GGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTC-GAG
*
6643363 GGATTTAAGCATCATGCTCGAAGGACTTACTGAT
1 GGATTTAAGCATCATGCTCGAAAGACTTACTGAT
6643397 AGCCCGAAGG
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.02
41 34 0.54
42 28 0.44
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (42 bp):
GGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCTCGAG
Found at i:6643818 original size:244 final size:241
Alignment explanation
Indices: 6643357--6644058 Score: 939
Period size: 244 Copynumber: 2.9 Consensus size: 241
6643347 TTATTGATGG
* * * *
6643357 CCTGAGGGATTTAAGCATCATGCTCGAAGGACTTACTGATAGCCCGAAGGACTTACTAAGTAAAA
1 CCTGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAAGTAAAA
* * **
6643422 AACTTTGGAATTCATTTTCTTACTTTTCAAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAAA
66 AACTTTGGAAATCGTTTTCTTACTTTTCAAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAGC
** ** * * *
6643487 TTTGGAAATTGCTTTCTCATTTTTTCCCTAAAATCATGTGAAAACATCATGCCCTAAGGTCTTAT
131 TTTGGAAATCACTTTCTCATTTTTT-TTTAAAATCATGTGAAAACATCCTGGCCAAAGGTCTTAT
* * * **
6643552 AGATGGCTCGAAGAAGTTATCATCTTGCTCGAAAGGCTTATAAATGA
195 AGATGGCCCGAAGGACTTATCATCTTGCAAGAAAGGCTTATAAATGA
* * * *
6643599 CCTGAAGGATTTAAACATAATGCTTGAAAGACTTACTGATGGTCCCGAGGGACTTACTAAGTAAT
1 CCTGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGG-CCCGAAGGACTTACTAAGTAAA
*
6643664 AAACTTTGGAAATCGTTTTATTACTTTTCAAAAAATCAATTTTCAGAAAAAGATTTAAATGAGAA
65 AAACTTTGGAAATCGTTTTCTTACTTTTCAAAAAATCAATTTTCAG-AAAAGATTTAAATGAGAA
* * * **
6643729 GCTTTGTAAATCACTTTCTCATTTTATTTTTAAATTAATGTGAAAATTTCCTGGCCAAAGGTCTT
129 GCTTTGGAAATCACTTTCTCATTTT-TTTTTAAAATCATGTGAAAACATCCTGGCCAAAGGTCTT
* *
6643794 ATGGATGGCCCGAAGGACTTATCATCTTGCAAGAAAGGCTTATAGATGA
193 ATAGATGGCCCGAAGGACTTATCATCTTGCAAGAAAGGCTTATAAATGA
* * * *
6643843 CCCGAAGGATTTAAATATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTATGTAAGA
1 CCTGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAAGTAAAA
6643908 AACTTTGGAAATCGTTTTCTTAC----CAAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAGC
66 AACTTTGGAAATCGTTTTCTTACTTTTCAAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAGC
* *
6643969 TTTGGAAATCACTTTCTCATTTTTTTTCAAAAATCATGTGAAAACATCCT-GCCTGAAGG-CTTT
131 TTTGGAAATCACTTTCTCATTTTTTTT-TAAAATCATGTGAAAACATCCTGGCC-AAAGGTC-TT
* *
6644032 ATAGATGACCCAAAGGACTTATCATCT
193 ATAGATGGCCCGAAGGACTTATCATCT
6644059 AGAAACCTTT
Statistics
Matches: 404, Mismatches: 50, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
237 8 0.02
238 89 0.22
239 18 0.04
242 36 0.09
243 105 0.26
244 146 0.36
245 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (241 bp):
CCTGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACTAAGTAAAA
AACTTTGGAAATCGTTTTCTTACTTTTCAAAAAATCAATTTTCAGAAAAGATTTAAATGAGAAGC
TTTGGAAATCACTTTCTCATTTTTTTTTAAAATCATGTGAAAACATCCTGGCCAAAGGTCTTATA
GATGGCCCGAAGGACTTATCATCTTGCAAGAAAGGCTTATAAATGA
Found at i:6644198 original size:51 final size:51
Alignment explanation
Indices: 6644114--6644212 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 51
6644104 ACAGTTATCA
*
6644114 TCAAGAAACCCCTAAAAAATTAGGCTTAATTTCTTTAAAAGTTCATTTGAAG
1 TCAAGAAACCCCTAAAAAATTAGGCTCAATTTCTTTAAAA-TTCATTTGAAG
* *
6644166 TCAAGAAACCCCT-GAAAATTAGGCTCAGTTTCTTTAAAATTCATTTG
1 TCAAGAAACCCCTAAAAAATTAGGCTCAATTTCTTTAAAATTCATTTG
6644213 CAAATATCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 8 0.18
51 23 0.52
52 13 0.30
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (51 bp):
TCAAGAAACCCCTAAAAAATTAGGCTCAATTTCTTTAAAATTCATTTGAAG
Found at i:6644255 original size:58 final size:58
Alignment explanation
Indices: 6644165--6644326 Score: 193
Period size: 59 Copynumber: 2.8 Consensus size: 58
6644155 TTCATTTGAA
* * ** * *
6644165 GTCAAGAAACCCCTGAAAAT-TAGGCTCAGTTTCTTTAAAATTCATTTGCAAATATCAT
1 GTCAAGAAACCTCTGAAAATCAAACCT-AGTTTCTTTAAAATTCATTTGAAAACATCAT
6644223 GTCAAGAAACCTCTGAAAATCAAACCTAGTTTCTTTAAAAATT-ATTTTGAAAACATCAT
1 GTCAAGAAACCTCTGAAAATCAAACCTAGTTTCTTT-AAAATTCA-TTTGAAAACATCAT
* * * *
6644282 GTCAAAAAACCTCTAAAAATCATACCTGGTTTCTTTAAAATTCAT
1 GTCAAGAAACCTCTGAAAATCAAACCTAGTTTCTTTAAAATTCAT
6644327 ATCAAATGGG
Statistics
Matches: 90, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
58 36 0.40
59 54 0.60
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.33
Consensus pattern (58 bp):
GTCAAGAAACCTCTGAAAATCAAACCTAGTTTCTTTAAAATTCATTTGAAAACATCAT
Found at i:6647329 original size:2 final size:2
Alignment explanation
Indices: 6647322--6647356 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6647312 AATAGTCCTT
6647322 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
6647357 TATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:6647361 original size:2 final size:2
Alignment explanation
Indices: 6647356--6647397 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
6647346 ACACACACAC
6647356 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
6647398 GAAGACTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6649176 original size:22 final size:21
Alignment explanation
Indices: 6649146--6649207 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 21
6649136 TAAACCCCTT
*
6649146 TTTTATTTTTTTTTATTATTA
1 TTTTATTTTTTTTTTTTATTA
*
6649167 TTTTATTTTTTTTCTTTTATTC
1 TTTTATTTTTTTT-TTTTATTA
*
6649189 TTTTCTTTTCTTTTCTTTT
1 TTTTATTTT-TTTT-TTTT
6649208 CCCTTCCTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 14 0.39
23 9 0.25
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTATTTTTTTTTTTTATTA
Found at i:6649208 original size:5 final size:5
Alignment explanation
Indices: 6649186--6649225 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
6649176 TTTTCTTTTA
* *
6649186 TTCTT TTCTT TTCTT TTCTT TTCCCT TCCTT TTCTT TTCT
1 TTCTT TTCTT TTCTT TTCTT TT-CTT TTCTT TTCTT TTCT
6649226 CTTATTTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 27 0.90
6 3 0.10
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (5 bp):
TTCTT
Found at i:6651444 original size:24 final size:23
Alignment explanation
Indices: 6651412--6651457 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6651402 AGGGCTAAAT
*
6651412 TAAAACAAAATTAAATTAAAAAAC
1 TAAAACAAAA-TAAAATAAAAAAC
*
6651436 TAAATCAAAATAAAATAAAAAA
1 TAAAACAAAATAAAATAAAAAA
6651458 TAGATTAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.20
Consensus pattern (23 bp):
TAAAACAAAATAAAATAAAAAAC
Found at i:6652593 original size:23 final size:23
Alignment explanation
Indices: 6652538--6652595 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
6652528 GGTTAGATGA
6652538 GGCTAGGGTTTGGGCTTGGTATG
1 GGCTAGGGTTTGGGCTTGGTATG
* *
6652561 GGCCCA-GGTTTGGGTTTGGCT-TG
1 GG-CTAGGGTTTGGGCTTGG-TATG
6652584 GGCTAGGGTTTG
1 GGCTAGGGTTTG
6652596 TATTATTAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 2 0.07
23 24 0.83
24 3 0.10
ACGTcount: A:0.07, C:0.12, G:0.47, T:0.34
Consensus pattern (23 bp):
GGCTAGGGTTTGGGCTTGGTATG
Found at i:6655052 original size:14 final size:16
Alignment explanation
Indices: 6655026--6655057 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6655016 CCCATGCATA
6655026 TTTAATTTATTAA-AT
1 TTTAATTTATTAATAT
6655041 TTTAATTT-TTAATAT
1 TTTAATTTATTAATAT
6655056 TT
1 TT
6655058 ATGTTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTAATTTATTAATAT
Found at i:6655094 original size:23 final size:24
Alignment explanation
Indices: 6655041--6655094 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
6655031 TTTATTAAAT
* *
6655041 TTTAATTTTTAATATTTATGTTTG
1 TTTAATTTTTAATATTTATATTTA
6655065 TTT-ATTTCTTAA-ATTTA-ATTTA
1 TTTAATTT-TTAATATTTATATTTA
6655087 TTTAATTT
1 TTTAATTT
6655095 GTTATTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 6 0.23
23 13 0.50
24 7 0.27
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (24 bp):
TTTAATTTTTAATATTTATATTTA
Found at i:6657652 original size:25 final size:25
Alignment explanation
Indices: 6657612--6657668 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
6657602 AGAGAGAGAG
* *
6657612 AGAGATACAAACAAAAAACACATAA
1 AGAGATACAAACAAAAAACAAAGAA
6657637 AGAGATACGAAA-AAAAAACAAAGAA
1 AGAGATAC-AAACAAAAAACAAAGAA
6657662 AGAGATA
1 AGAGATA
6657669 ACAACAGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 26 0.90
26 3 0.10
ACGTcount: A:0.68, C:0.11, G:0.14, T:0.07
Consensus pattern (25 bp):
AGAGATACAAACAAAAAACAAAGAA
Found at i:6661704 original size:27 final size:26
Alignment explanation
Indices: 6661669--6661731 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
6661659 TTATGTTTTT
*
6661669 TTTGTATTTTCATTT-TACATTCACATA
1 TTTGCATTTTCATTTGT--ATTCACATA
* *
6661696 TTTGCATTTGCATTTGTATTCACATC
1 TTTGCATTTTCATTTGTATTCACATA
*
6661722 TTTTCATTTT
1 TTTGCATTTT
6661732 TTACGTTTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 16 0.53
27 13 0.43
28 1 0.03
ACGTcount: A:0.21, C:0.16, G:0.06, T:0.57
Consensus pattern (26 bp):
TTTGCATTTTCATTTGTATTCACATA
Found at i:6666033 original size:42 final size:42
Alignment explanation
Indices: 6665985--6666067 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
6665975 GTTTCTTGAT
* * *
6665985 TTAAATCCTTCGGGTCAT-TAGTAAGTCTTTCAAGCATGATGC
1 TTAAATCCTTCAGGTCATCTA-TAAGCCTTTCAAGCAAGATGC
* *
6666027 TTAAATCCTTTAGGTCATCTATAAGCCTTTCGAGCAAGATG
1 TTAAATCCTTCAGGTCATCTATAAGCCTTTCAAGCAAGATG
6666068 ATAAGTCCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (42 bp):
TTAAATCCTTCAGGTCATCTATAAGCCTTTCAAGCAAGATGC
Found at i:6677867 original size:25 final size:25
Alignment explanation
Indices: 6677829--6677937 Score: 202
Period size: 25 Copynumber: 4.4 Consensus size: 25
6677819 TCCACCTCCT
6677829 CCTTCACTCT-TATGTCCCCATCATG
1 CCTTCACT-TATATGTCCCCATCATG
6677854 CCTTCACTTATATGTCCCCATCATG
1 CCTTCACTTATATGTCCCCATCATG
6677879 CCTTCACTTATATGTCCCCATCATG
1 CCTTCACTTATATGTCCCCATCATG
6677904 CCTTCACTTATATGTCCCCATCATG
1 CCTTCACTTATATGTCCCCATCATG
6677929 CCTTCACTT
1 CCTTCACTT
6677938 CTATCATTAA
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
24 1 0.01
25 82 0.99
ACGTcount: A:0.18, C:0.38, G:0.07, T:0.37
Consensus pattern (25 bp):
CCTTCACTTATATGTCCCCATCATG
Found at i:6683197 original size:3 final size:3
Alignment explanation
Indices: 6683191--6683250 Score: 59
Period size: 3 Copynumber: 19.0 Consensus size: 3
6683181 TCGTTAATAA
6683191 TAT TAT TAT TAT TAT TAAT TAT TAT TAAT TAGT TAT TAT TAGT T-T TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT T-AT TA-T TAT TAT TA-T TAT TAT
* *
6683239 TTT TAT TTT TAT
1 TAT TAT TAT TAT
6683251 CTTTATCTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
2 2 0.04
3 35 0.73
4 11 0.23
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6683213 original size:10 final size:10
Alignment explanation
Indices: 6683191--6683228 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
6683181 TCGTTAATAA
6683191 TATTATT-AT
1 TATTATTAAT
6683200 TATTATTAAT
1 TATTATTAAT
6683210 TATTATTAAT
1 TATTATTAAT
6683220 TAGTTATTA
1 TA-TTATTA
6683229 TTAGTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 7 0.26
10 14 0.52
11 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (10 bp):
TATTATTAAT
Found at i:6683231 original size:10 final size:9
Alignment explanation
Indices: 6683191--6683250 Score: 59
Period size: 10 Copynumber: 6.3 Consensus size: 9
6683181 TCGTTAATAA
6683191 TATTATTAT
1 TATTATTAT
6683200 TATTATTAAT
1 TATTATT-AT
6683210 TATTATTAAT
1 TATTATT-AT
6683220 TAGTTATTAT
1 TA-TTATTAT
6683230 TAGTT-TTAT
1 TA-TTATTAT
* *
6683239 TTTTATTTT
1 TATTATTAT
6683248 TAT
1 TAT
6683251 CTTTATCTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
8 2 0.04
9 17 0.38
10 21 0.47
11 5 0.11
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
TATTATTAT
Found at i:6683255 original size:6 final size:6
Alignment explanation
Indices: 6683223--6683295 Score: 85
Period size: 6 Copynumber: 12.2 Consensus size: 6
6683213 TATTAATTAG
* * * *
6683223 TTATTA TTAGTT TTATTT TTATTT TTATCT TTATCT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
*
6683271 TTATTTT TTATTT TT-TAT TTATTT T
1 TTA-TTT TTATTT TTATTT TTATTT T
6683296 ACAACAGGCC
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
5 4 0.07
6 48 0.83
7 6 0.10
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:6684299 original size:18 final size:17
Alignment explanation
Indices: 6684276--6684322 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
6684266 TGTTTATGAG
6684276 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT-AA
* * *
6684294 GGAATTGAAATTTGTCA
1 GGAATTGGAATCTGTAA
6684311 GGAATTGGAATC
1 GGAATTGGAATC
6684323 CAATTCCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.34, C:0.06, G:0.30, T:0.30
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:6692226 original size:20 final size:21
Alignment explanation
Indices: 6692201--6692254 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
6692191 TTTTACTTAG
6692201 TAAGTCCTTT-GAGCCATCAT
1 TAAGTCCTTTCGAGCCATCAT
6692221 TAAGT-CTTTCGAGCCATCAT
1 TAAGTCCTTTCGAGCCATCAT
6692241 TAAGT-CTTTCGAGC
1 TAAGTCCTTTCGAGC
6692255 ATGATGCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (21 bp):
TAAGTCCTTTCGAGCCATCAT
Found at i:6692936 original size:483 final size:476
Alignment explanation
Indices: 6692221--6693362 Score: 1410
Period size: 483 Copynumber: 2.4 Consensus size: 476
6692211 GAGCCATCAT
* * * * *
6692221 TAAGTCTTTCGAGCCATCATTAAGTCTTTCGAGCATGATGCTTAAATCTTTTGGGTCATTTATAA
1 TAAGTCCTTCG-GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTAGGTCATCTATAA
* * * *
6692286 GTCTTTCAAGCAATATGATAAGTCCTTCGGCCCATCCATAATACCTTCGAGCAGAATGTTTTCAC
65 GTCTTTTAAGCAAAATGATAAGTCCTTCGG-CCATCCATAAGACCTTCGGGCAG-ATGTTTTCAC
* * **
6692351 ATTATTTTCAAAAAAAAATGAGAAA-TCAATTTCCTTAGTTTCTTATTTAAAATCTTTTTCTGAA
128 ATGATTTTC--AAAAAAATGAGAAAGT-GATTTCCAAAGTTTCTTATTTAAAATCTTTTTCTGAA
* * *
6692415 AATTGGTTTTGAAAAATAAGAAAATGACTTCCAAAGTTTCTTACTTAGTATGTCCTTCGGGCTAT
190 AATTGGTTTTGAAAAATAAGAAAACGACTTCCAAAGTTTCTGACTTAGTAAGTCCTTCGGGCTAT
** * * * * *
6692480 CAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATTTGTAAGTCTTTCAAGCAAGATT
255 CAGTAAGTCTTTCGAGCATGATGCCTAAATCATTCGGGTCATCTATAAGTCTTTCAAACAAGATG
* * * *
6692545 ATAAGTCCTTTGGACCATCCATAAGACCTTCGGGCAGGACGTTTTCACATGATTTTCAAAAGAAA
320 ATAAGTCCTTCGGACCATCCATAAGACCATCAGGCAGGACATTTTCACATGATTTTC-AAAGAAA
* * *
6692610 AATGATAATGCTATTTACAAAGTTTCTCATTTAAGTCTTTT-TCGAAAAATTG-ATTTTGGAAAA
384 AA-GAAAATG--ATTTACAAAGTTTATCATTTAAATCTTTTCT-G-AAAATTGAATTTTGGAAAA
6692673 GTAAGAAAACGATTTCCAAAGTTTCTTACTTAG
444 GTAAGAAAACGATTTCCAAAGTTTCTTACTTAG
* ** *
6692706 TAAGTCCTTCGCGCCATCAGTAAGTCTTTTGAGGGTGATGATTAAATCCTTTAGGTCATCTATAA
1 TAAGTCCTTCG-GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTAGGTCATCTATAA
* * * *
6692771 GCCTTTTAAGCAAGATGATAAGTCTTTCAGGCCATCTATAAGACCTTCGGGCATGATGTTTTCAC
65 GTCTTTTAAGCAAAATGATAAGTCCTTC-GGCCATCCATAAGACCTTCGGGCA-GATGTTTTCAC
** * *
6692836 ATGATTTTCAAAAATTTGAGAAAGTGATTTCCAAAGTTTCTTATTTAAATTTTTTTTCTGAAAAT
128 ATGATTTTCAAAAAAATGAGAAAGTGATTTCCAAAGTTTCTTATTTAAAATCTTTTTCTGAAAAT
* * *
6692901 TGGTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTGACTTAGTAAGTCCTTCGGGCTATTAG
193 TGGTTTTGAAAAATAAGAAAACGACTTCCAAAGTTTCTGACTTAGTAAGTCCTTCGGGCTATCAG
6692966 TAAGTCTTTCGAGCATGATGCCTAAATCATTCGGGTCATCTATAAGTCTTTCAAACAAGATGATA
258 TAAGTCTTTCGAGCATGATGCCTAAATCATTCGGGTCATCTATAAGTCTTTCAAACAAGATGATA
** * * * **
6693031 AGTCCTTCGGGTCATCTATAAGACCATCAGGCAGGATATTTTCACATGATTTTCAAATAATGAGA
323 AGTCCTTCGGACCATCCATAAGACCATCAGGCAGGACATTTTCACATGATTTTCAAAGAAAAAGA
* **
6693096 AAATGATTTCCAAAGTTTATCATTTAAATCTTTTCTGAAAATTGAAATTTTTTAAAAGTAAGAAA
388 AAATGATTTACAAAGTTTATCATTTAAATCTTTTCTGAAAATTG-AATTTTGGAAAAGTAAGAAA
*
6693161 ATGATTTCCAAAGTTTCTTACTTAG
452 ACGATTTCCAAAGTTTCTTACTTAG
* * ** * *
6693186 TAAGTCCTTCGGACCATCAGTAAGTCTTTCAAGCATAATGCCAAAATTC-TTCGTGTCATCTATA
1 TAAGTCCTTCGG-CCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTAG-GTCATCTATA
* ** * * * * *
6693250 AGTCTATTAAATAAAATCACAAGTCCTTCGGGCCATCCATAGGATCTTCGGGCAGGATGTATTCA
64 AGTCTTTTAAGCAAAATGATAAGTCCTTC-GGCCATCCATAAGACCTTCGGGCA-GATGTTTTCA
* * * *
6693315 CAAGATTTTCAAAAAAATGAGAAAGTGGTTTTCAAAGTTTCTCATTTA
127 CATGATTTTCAAAAAAATGAGAAAGTGATTTCCAAAGTTTCTTATTTA
6693363 GTATTTTCAG
Statistics
Matches: 563, Mismatches: 86, Indels: 21
0.84 0.13 0.03
Matches are distributed among these distances:
478 7 0.01
479 31 0.06
480 183 0.33
481 6 0.01
482 6 0.01
483 210 0.37
484 1 0.00
485 116 0.21
486 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (476 bp):
TAAGTCCTTCGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTTAGGTCATCTATAAG
TCTTTTAAGCAAAATGATAAGTCCTTCGGCCATCCATAAGACCTTCGGGCAGATGTTTTCACATG
ATTTTCAAAAAAATGAGAAAGTGATTTCCAAAGTTTCTTATTTAAAATCTTTTTCTGAAAATTGG
TTTTGAAAAATAAGAAAACGACTTCCAAAGTTTCTGACTTAGTAAGTCCTTCGGGCTATCAGTAA
GTCTTTCGAGCATGATGCCTAAATCATTCGGGTCATCTATAAGTCTTTCAAACAAGATGATAAGT
CCTTCGGACCATCCATAAGACCATCAGGCAGGACATTTTCACATGATTTTCAAAGAAAAAGAAAA
TGATTTACAAAGTTTATCATTTAAATCTTTTCTGAAAATTGAATTTTGGAAAAGTAAGAAAACGA
TTTCCAAAGTTTCTTACTTAG
Found at i:6693005 original size:240 final size:238
Alignment explanation
Indices: 6692221--6693362 Score: 1324
Period size: 240 Copynumber: 4.7 Consensus size: 238
6692211 GAGCCATCAT
* * * * * *
6692221 TAAGTCTTTCGAGCCATCATTAAGTCTTTCGAGCATGATGCTTAAATCTTTTGGGTCATTTATAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
* * * *
6692286 GTCTTTCAAGCAATATGATAAGTCCTTCGGCCCATCCATAATACCTTCGAGCAGAATGTTTTCAC
66 GTCTTTCAAGCAAGATGATAAGTCCTTCGG-CCATCCATAAGACCTTCGGGCAGGATGTTTTCAC
* * ** *
6692351 ATTATTTTCAAAAAAAAATGAGAAA-TCAATTTCCTTAGTTTCTTATTTAAAATCTTTTTCTGAA
130 ATGATTTTC--AAAAAAATGAGAAAGT-GATTTCCAAAGTTTCTCATTT-AAATCTTTTTCTGAA
* * *
6692415 AATTGGTTTTGAAAAATAAGAAAATGACTTCCAAAGTTTCTTACTTAG
191 AATTGGTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTTAG
* * * * *
6692463 TATGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGATGTTTAAATCCTTCGGGTCATTTGTAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
* * *
6692528 GTCTTTCAAGCAAGATTATAAGTCCTTTGGACCATCCATAAGACCTTCGGGCAGGACGTTTTCAC
66 GTCTTTCAAGCAAGATGATAAGTCCTTCGG-CCATCCATAAGACCTTCGGGCAGGATGTTTTCAC
* * * *
6692593 ATGATTTTCAAAAGAAAAATGATAATGCT-ATTTACAAAGTTTCTCATTTAAGTCTTTTTC-GAA
130 ATGATTTTC--AA-AAAAATGAGAAAG-TGATTTCCAAAGTTTCTCATTTAAATCTTTTTCTG-A
*
6692656 AAATTGATTTTGGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTTAG
190 AAATTGGTTTT-GAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTTAG
* * ** * **
6692706 TAAGTCCTTCGCGCCATCAGTAAGTCTTTTGAGGGTGATGATTAAATCCTTTAGGTCATCTATAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
* * * * *
6692771 GCCTTTTAAGCAAGATGATAAGTCTTTCAGGCCATCTATAAGACCTTCGGGCATGATGTTTTCAC
66 GTCTTTCAAGCAAGATGATAAGTCCTTC-GGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAC
** * *
6692836 ATGATTTTCAAAAATTTGAGAAAGTGATTTCCAAAGTTTCTTATTTAAATTTTTTTTCTGAAAAT
130 ATGATTTTCAAAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAAA-TCTTTTTCTGAAAAT
*
6692901 TGGTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTGACTTAG
194 TGGTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTTAG
* * * *
6692946 TAAGTCCTTCGGGCTATTAGTAAGTCTTTCGAGCATGATGCCTAAATCATTCGGGTCATCTATAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
* * * * * *
6693011 GTCTTTCAAACAAGATGATAAGTCCTTCGGGTCATCTATAAGACCATCAGGCAGGATATTTTCAC
66 GTCTTTCAAGCAAGATGATAAGTCCTTC-GGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAC
* * *
6693076 ATGATTTTC-AAATAATGAGAAAATGATTTCCAAAGTTTATCATTTAAATC-TTTTCTGAAAATT
130 ATGATTTTCAAAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAAATCTTTTTCTGAAAATT
* * *
6693139 GAAATTTTTTAAAAGTAAGAAAATGATTTCCAAAGTTTCTTACTTAG
195 G---GTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTTAG
* * * ** * *
6693186 TAAGTCCTTCGGACCATCAGTAAGTCTTTCAAGCATAATGCCAAAATTCTTCGTGTCATCTATAA
1 TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
** * * * * * *
6693251 GTCTATT-AAATAAAATCACAAGTCCTTCGGGCCATCCATAGGATCTTCGGGCAGGATGTATTCA
66 GTCT-TTCAAGCAAGATGATAAGTCCTTC-GGCCATCCATAAGACCTTCGGGCAGGATGTTTTCA
* * *
6693315 CAAGATTTTCAAAAAAATGAGAAAGTGGTTTTCAAAGTTTCTCATTTA
129 CATGATTTTCAAAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTA
6693363 GTATTTTCAG
Statistics
Matches: 769, Mismatches: 117, Indels: 29
0.84 0.13 0.03
Matches are distributed among these distances:
237 14 0.02
238 1 0.00
239 34 0.04
240 337 0.44
241 55 0.07
242 147 0.19
243 178 0.23
244 2 0.00
245 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (238 bp):
TAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTATAA
GTCTTTCAAGCAAGATGATAAGTCCTTCGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCACA
TGATTTTCAAAAAAATGAGAAAGTGATTTCCAAAGTTTCTCATTTAAATCTTTTTCTGAAAATTG
GTTTTGAAAAGTAAGAAAACGATTTCCAAAGTTTCTTACTTAG
Found at i:6693045 original size:41 final size:42
Alignment explanation
Indices: 6692946--6693052 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
6692936 TCTGACTTAG
* * * *
6692946 TAAGTCCTTCGGG-CTAT-TAGTAAGTCTTTCGAGCATGATGCC
1 TAAGTCCTTCGGGTC-ATCTA-TAAGTCTTTCAAACAAGATGCA
* *
6692988 TAAATCATTCGGGTCATCTATAAGTCTTTCAAACAAGATG-A
1 TAAGTCCTTCGGGTCATCTATAAGTCTTTCAAACAAGATGCA
6693029 TAAGTCCTTCGGGTCATCTATAAG
1 TAAGTCCTTCGGGTCATCTATAAG
6693053 ACCATCAGGC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 22 0.40
42 30 0.55
43 3 0.05
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (42 bp):
TAAGTCCTTCGGGTCATCTATAAGTCTTTCAAACAAGATGCA
Found at i:6694176 original size:135 final size:133
Alignment explanation
Indices: 6693632--6694361 Score: 812
Period size: 134 Copynumber: 5.5 Consensus size: 133
6693622 TCAAACTTGG
* * * * *
6693632 TTCAATCTTCCCT-AAATAATAGTGAAATAAATCAATGTTTCCATATTTGATCTACCCTGAAGAG
1 TTCAATCTTCCCTGAAA-AATAGTGGAGTGAATCAATGTTTCCAGATCTGATCTACCCTGAAGAG
* * * * * *
6693696 CAGCGGAGCAGGTCCCC-TTTTTCCATATTTGATCTTCCCTGAGGAGCAGTAGAACAAGTCTGCC
65 CAGCAGAGCAGATCCCCTTTTTTCCAGATTTGATCTTCCCTGAGGAGCAGTGGAACAAATCTACC
*
6693760 TTGA
130 TCGA
* * * *
6693764 TTCAATCTTCCCTGAAGAATAGTGGAATGAATCAAGGTTTCCAGATCTGATCTACCCTGAAGAGT
1 TTCAATCTTCCCTGAAAAATAGTGGAGTGAATCAATGTTTCCAGATCTGATCTACCCTGAAGAGC
* * *
6693829 AGCAGAGCATATCCCCTTTTTTCCCAAATTTGAT-TTACCCTGAGGAGCAATGGAACAAGA-CTA
66 AGCAGAGCAGATCCCCTTTTTT-CCAGATTTGATCTT-CCCTGAGGAGCAGTGGAACAA-ATCTA
* *
6693892 GCTCAA
128 CCTCGA
* * * * * * *
6693898 TTCAATCTT-CCTTAAAGAACAGTGGAATGAATCAATGTTTCCTGATCTAATATACCCTGAAGAA
1 TTCAATCTTCCCTGAAA-AATAGTGGAGTGAATCAATGTTTCCAGATCTGATCTACCCTGAAGAG
* ** * * * *
6693962 AAGTGGAGCACATTCCCTTTTTTTCCAGATTTGATCTTCCTTGAGGAGCAGTGGAATAAATCTAC
65 CAGCAGAGCAGA-TCCCCTTTTTTCCAGATTTGATCTTCCCTGAGGAGCAGTGGAACAAATCTAC
*
6694027 CTTGA
129 CTCGA
** * *
6694032 TTCAATCTTCCCTGAAAAGCAGTGGAGTGAATCAACGTTTCCAGATTTGATCTACCCTGAAGAGC
1 TTCAATCTTCCCTGAAAAATAGTGGAGTGAATCAATGTTTCCAGATCTGATCTACCCTGAAGAGC
*
6694097 AGCAAAGCAGATCCCCTTTTTATCCTAGATTTGATCTTCCCTGAGGAGCAGTGGAACAAATCTAC
66 AGCAGAGCAGATCCCCTTTTT-TCC-AGATTTGATCTTCCCTGAGGAGCAGTGGAACAAATCTAC
6694162 CTCGA
129 CTCGA
* * * *
6694167 CTCAATCTTCCCTGAAAAATAGTGGAGTTAATCAACGTTTCCAGATTTGATCTACCCTGAAGAGC
1 TTCAATCTTCCCTGAAAAATAGTGGAGTGAATCAATGTTTCCAGATCTGATCTACCCTGAAGAGC
* * * *
6694232 AGCAGAGTAGATTCCC-TTTTT-CAGATTTGATCTTCCCTGAGGAACAATGGAACAAATCTACCT
66 AGCAGAGCAGATCCCCTTTTTTCCAGATTTGATCTTCCCTGAGGAGCAGTGGAACAAATCTACCT
6694295 CGA
131 CGA
* * * * * *
6694298 TTCAAT-TTACTTTAAAGAGTAGTGGAGTGAATCAATGTTTACAGATCTGAT-TAACCCCGAAGA
1 TTCAATCTTCCCTGAAA-AATAGTGGAGTGAATCAATGTTTCCAGATCTGATCT-ACCCTGAAGA
6694361 G
64 G
6694362 TAGAGGAGCA
Statistics
Matches: 509, Mismatches: 75, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
130 8 0.02
131 86 0.17
132 69 0.14
133 25 0.05
134 188 0.37
135 133 0.26
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (133 bp):
TTCAATCTTCCCTGAAAAATAGTGGAGTGAATCAATGTTTCCAGATCTGATCTACCCTGAAGAGC
AGCAGAGCAGATCCCCTTTTTTCCAGATTTGATCTTCCCTGAGGAGCAGTGGAACAAATCTACCT
CGA
Found at i:6700335 original size:23 final size:23
Alignment explanation
Indices: 6700249--6700328 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
6700239 GAGTTGAGGG
*
6700249 ATTCTATGCGGTCCTTC-GAGACA
1 ATTCTATGTGGTCCTTCGGA-ACA
* *
6700272 ATTCTATGTGGTCCTTCGGGATA
1 ATTCTATGTGGTCCTTCGGAACA
*
6700295 ATTCTATCTGGTCCTTCGGAACA
1 ATTCTATGTGGTCCTTCGGAACA
*
6700318 AATCTATGTGG
1 ATTCTATGTGG
6700329 CACTTCGATG
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 47 0.98
24 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (23 bp):
ATTCTATGTGGTCCTTCGGAACA
Found at i:6700347 original size:24 final size:24
Alignment explanation
Indices: 6700318--6700402 Score: 118
Period size: 24 Copynumber: 3.5 Consensus size: 24
6700308 CTTCGGAACA
*
6700318 AATCTATGTGGCACTTCGATGCAT
1 AATCTATGTGGCACTCCGATGCAT
*
6700342 AATCTATGCGGCACTCCGATGCAT
1 AATCTATGTGGCACTCCGATGCAT
*
6700366 AATCTACGTGGCACTCCGATGCA-
1 AATCTATGTGGCACTCCGATGCAT
*
6700389 AATTCTAGGTGGCA
1 AA-TCTATGTGGCA
6700403 GTTTTAACTG
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
23 2 0.04
24 53 0.96
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (24 bp):
AATCTATGTGGCACTCCGATGCAT
Found at i:6703593 original size:162 final size:162
Alignment explanation
Indices: 6703182--6703763 Score: 880
Period size: 162 Copynumber: 3.6 Consensus size: 162
6703172 TGTACTATTA
* * *
6703182 ACACTAAGTGTGTAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGGCACTAAGTGT
1 ACACTAAGTATGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGT
* **
6703247 GCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATTAGCACTAAGTGTGCAACCCATAG
66 GCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATAAGCACTAAGTGTGCAACCCACGG
* *
6703312 AATTCATCATAAGTTTATGAACGATTGTATCG
131 AATTCATAATAAGTTTATGAACGACTGTATCG
* *
6703344 GCAC-AAGTGTGCAACCCAC-GAAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTG
1 ACACTAAGTATGCAACCCACAG-AATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTG
* *
6703407 TGCAACCCACGGAATTCATAATAAGTTTATGAACGATCGTATAAGCACTAAGTGTGCAACCCACG
65 TGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATAAGCACTAAGTGTGCAACCCACG
6703472 GAATTCATAATAAGTTTATGAACGACTGTATCG
130 GAATTCATAATAAGTTTATGAACGACTGTATCG
*
6703505 ACACTAAGTATGCAACCCACAGAATTCATAATAAGTTTATGAAAGACCGTATCGACACTAAGTGT
1 ACACTAAGTATGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGT
* * ** ** *
6703570 GAAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGGTGCTAAGTGTGTAACCCACGG
66 GCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATAAGCACTAAGTGTGCAACCCACGG
*
6703635 AATTCATAATGAGTTTATGAACGACTGTATCG
131 AATTCATAATAAGTTTATGAACGACTGTATCG
* * * * * *
6703667 ACACGAAGTATGGAACCCACGGAATTCATAATGAGTTTATGAATGACCGTATCGGCACTAAGTGT
1 ACACTAAGTATGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGT
* *
6703732 GCAACCCACGAAATTCACAATAAGTTTGTGAA
66 GCAACCCACGAAATTCATAATAAGTTTATGAA
6703764 TCACAATATC
Statistics
Matches: 386, Mismatches: 31, Indels: 6
0.91 0.07 0.01
Matches are distributed among these distances:
160 1 0.00
161 149 0.39
162 235 0.61
163 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (162 bp):
ACACTAAGTATGCAACCCACAGAATTCATAATAAGTTTATGAACGACCGTATCGACACTAAGTGT
GCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATAAGCACTAAGTGTGCAACCCACGG
AATTCATAATAAGTTTATGAACGACTGTATCG
Found at i:6703774 original size:54 final size:54
Alignment explanation
Indices: 6703183--6703763 Score: 792
Period size: 54 Copynumber: 10.8 Consensus size: 54
6703173 GTACTATTAA
*
6703183 CACTAAGTGTGTAACCCAC-AGAATTCATAATAAGTTTATGAACGACCGTATCGG
1 CACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCGTATCGG
**
6703237 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATTAG
1 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGG
* * **
6703291 CACTAAGTGTGCAACCCA-TAGAATTCATCATAAGTTTATGAACGATTGTATCGG
1 CACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCGTATCGG
*
6703345 CAC-AAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGA
1 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGG
* * **
6703398 CACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGATCGTATAAG
1 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGG
* * *
6703452 CACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACTGTATCGA
1 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGG
* * *
6703506 CACTAAGTATGCAACCCAC-AGAATTCATAATAAGTTTATGAAAGACCGTATCGA
1 CACTAAGTGTGCAACCCACGA-AATTCATAATAAGTTTATGAACGACCGTATCGG
* *
6703560 CACTAAGTGTGAAACCCACGGAATTCATAATAAGTTTATGAACGACCGTATCGG
1 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGG
** * * * * *
6703614 TGCTAAGTGTGTAACCCACGGAATTCATAATGAGTTTATGAACGACTGTATCGA
1 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGG
* * * * * *
6703668 CACGAAGTATGGAACCCACGGAATTCATAATGAGTTTATGAATGACCGTATCGG
1 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGG
* *
6703722 CACTAAGTGTGCAACCCACGAAATTCACAATAAGTTTGTGAA
1 CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAA
6703764 TCACAATATC
Statistics
Matches: 467, Mismatches: 54, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
53 47 0.10
54 419 0.90
55 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.26
Consensus pattern (54 bp):
CACTAAGTGTGCAACCCACGAAATTCATAATAAGTTTATGAACGACCGTATCGG
Found at i:6708542 original size:19 final size:20
Alignment explanation
Indices: 6708518--6708555 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6708508 AATTGATTAG
*
6708518 TATTTGTATTTT-AAAGATA
1 TATTTGAATTTTCAAAGATA
6708537 TATTTGAATTTTCAAAGAT
1 TATTTGAATTTTCAAAGAT
6708556 TTGAATAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.50
Consensus pattern (20 bp):
TATTTGAATTTTCAAAGATA
Found at i:6709544 original size:23 final size:23
Alignment explanation
Indices: 6709518--6709569 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
6709508 CAGTCATTCG
6709518 GGACAATTCTATGTGGTCCTTCA
1 GGACAATTCTATGTGGTCCTTCA
*
6709541 GGACAATTCTATGTGGTCCTTCG
1 GGACAATTCTATGTGGTCCTTCA
6709564 GGACAA
1 GGACAA
6709570 ATCTTGTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (23 bp):
GGACAATTCTATGTGGTCCTTCA
Found at i:6710380 original size:20 final size:20
Alignment explanation
Indices: 6710352--6710392 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6710342 TTCCAGAATG
*
6710352 CTAGAGGGGAATCGATACCC
1 CTAGAGGGGAACCGATACCC
* *
6710372 CTAGGGGGGAACCGATTCCC
1 CTAGAGGGGAACCGATACCC
6710392 C
1 C
6710393 CATAAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.32, T:0.15
Consensus pattern (20 bp):
CTAGAGGGGAACCGATACCC
Found at i:6711338 original size:103 final size:103
Alignment explanation
Indices: 6711154--6711379 Score: 400
Period size: 103 Copynumber: 2.2 Consensus size: 103
6711144 GTCGAGGGTC
6711154 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* *
6711219 TTGATCCTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
*
6711257 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
6711322 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
6711360 TATGTGGTCCTT-ATGGACAT
1 TATGTGGTCCTTCA-GGACAT
6711380 TATTATATGG
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
103 117 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
TATGTGGTCCTTCAGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:6711437 original size:23 final size:23
Alignment explanation
Indices: 6711411--6711455 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
6711401 AATCCTACGC
6711411 GGCACTCCGGTGCAATTATATGT
1 GGCACTCCGGTGCAATTATATGT
*
6711434 GGCACTTCGGTGCAATTATATG
1 GGCACTCCGGTGCAATTATATG
6711456 AGTTGTGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTATATGT
Found at i:6720756 original size:10 final size:10
Alignment explanation
Indices: 6720733--6720819 Score: 65
Period size: 10 Copynumber: 8.7 Consensus size: 10
6720723 AAATATTTCT
6720733 TTTAAAAATA
1 TTTAAAAATA
* *
6720743 TTTAAGAATC
1 TTTAAAAATA
6720753 TTT-AAAAT-
1 TTTAAAAATA
* *
6720761 TTTATATATTA
1 TTTA-AAAATA
6720772 TTTAAAAATA
1 TTTAAAAATA
6720782 TATT-AAAAT-
1 T-TTAAAAATA
*
6720791 TTTATAAATTA
1 TTTA-AAAATA
6720802 TTTAAAAATA
1 TTTAAAAATA
6720812 TATTAAAA
1 T-TTAAAA
6720820 TTATAAAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
8 5 0.08
9 5 0.08
10 34 0.57
11 16 0.27
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:6720787 original size:11 final size:10
Alignment explanation
Indices: 6720768--6720846 Score: 67
Period size: 11 Copynumber: 7.7 Consensus size: 10
6720758 AATTTTATAT
6720768 ATTATTTAAAA
1 ATTA-TTAAAA
6720779 ATATATT-AAA
1 AT-TATTAAAA
*
6720789 ATT-TTATAA
1 ATTATTAAAA
6720798 ATTATTTAAAA
1 ATTA-TTAAAA
6720809 ATATATT-AAA
1 AT-TATTAAAA
6720819 ATTA-TAAAA
1 ATTATTAAAA
6720828 ATTATTAAATA
1 ATTATTAAA-A
6720839 ATATATTA
1 AT-TATTA
6720847 GTTTTGTTGA
Statistics
Matches: 57, Mismatches: 2, Indels: 17
0.75 0.03 0.22
Matches are distributed among these distances:
8 3 0.05
9 15 0.26
10 14 0.25
11 16 0.28
12 9 0.16
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTATTAAAA
Done.