Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 45 of 51
Found at i:8749768 original size:125 final size:124
Alignment explanation
Indices: 8749625--8749888 Score: 453
Period size: 125 Copynumber: 2.1 Consensus size: 124
8749615 TAATTCATAG
8749625 TAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGAT
1 TAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGAT
8749690 GATTTAGTAATGATTTGATAAT-ATCAAATTATAGTAATGATTT-G-ATATAAATCATTATAA
66 GATTTAGTAATGATTTGATAATAATC--ATTATAGTAATGATTTAGTA-AT-AATCATTATAA
8749750 TAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGAT
1 TAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGAT
8749815 GATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAA
66 GATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAA
* *
8749874 AAATGATTTAATAAT
1 TAATGATTTAGTAAT
8749889 GATTTAAATA
Statistics
Matches: 134, Mismatches: 2, Indels: 7
0.94 0.01 0.05
Matches are distributed among these distances:
124 40 0.30
125 90 0.67
126 4 0.03
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.43
Consensus pattern (124 bp):
TAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGAT
GATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAA
Found at i:8749793 original size:217 final size:218
Alignment explanation
Indices: 8749547--8750176 Score: 1130
Period size: 217 Copynumber: 2.9 Consensus size: 218
8749537 ATGTATTTAT
8749547 TAATCATTATAAAAATGATTTAATAATGATTTAAATA-TTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
8749611 TTGATAAT-TC-ATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAA
66 TTGATAATATCTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAA
8749674 TATTTAATGATTTGATGATTTAGTAATGATTTGATAATATCAAATTATAGTAATGATTTGATATA
131 TATTTAATGATTTGATGATTTAGTAATGATTTGATAATATCAAATTATAGTAATGATTTGATAT-
8749739 AATCATTATAATAATGATTTAGTAA
195 AATC-TTATAATAATGATTTAGTAA
8749764 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
8749829 TTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTT
66 TTGATAAT-ATC--TATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTT
8749894 AAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATATCAAA--ATAGTAATGA-TTG-T
128 AAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATATCAAATTATAGTAATGATTTGAT
8749955 ATAATCTTATAATAATGATTTAGTAA
193 ATAATCTTATAATAATGATTTAGTAA
8749981 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
8750046 TTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTT
66 TTGATAAT-ATC--TATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTT
*
8750111 AAATATTTAATGATTTGATGATTTAGTAATGATTTGATGATATCAAATTATAGTAATGATTTGAT
128 AAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATATCAAATTATAGTAATGATTTGAT
8750176 A
193 A
8750177 ATTATTACTA
Statistics
Matches: 402, Mismatches: 1, Indels: 16
0.96 0.00 0.04
Matches are distributed among these distances:
217 233 0.58
218 39 0.10
219 13 0.03
220 8 0.02
221 12 0.03
223 97 0.24
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (218 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATATCTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAA
TATTTAATGATTTGATGATTTAGTAATGATTTGATAATATCAAATTATAGTAATGATTTGATATA
ATCTTATAATAATGATTTAGTAA
Found at i:8749831 original size:98 final size:97
Alignment explanation
Indices: 8749721--8749981 Score: 422
Period size: 98 Copynumber: 2.7 Consensus size: 97
8749711 TATCAAATTA
*
8749721 TAGTAATGATTTGATATAAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATA-AAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTA
8749786 ATAATGATTTAAATATTTAATGATTTGATGATT
65 ATAATGATTTAAATATTTAATGATTTGATGATT
8749819 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATAA-AATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTA
8749884 ATAATGATTTAAATATTTAATGATTTGATGATT
65 ATAATGATTTAAATATTTAATGATTTGATGATT
* ** * *
8749917 TAGTAATGATTTGATAATATCAAAATAGTAATGA-TT-GT-ATAATC-TTATAATAATGATTTAG
1 TAGTAATGATTTGATAAAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAA
8749978 TAAT
66 TAAT
8749982 AATCATTATA
Statistics
Matches: 156, Mismatches: 6, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
93 19 0.12
94 6 0.04
95 2 0.01
96 2 0.01
97 15 0.10
98 112 0.72
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (97 bp):
TAGTAATGATTTGATAAAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAA
TAATGATTTAAATATTTAATGATTTGATGATT
Found at i:8749981 original size:119 final size:123
Alignment explanation
Indices: 8749819--8750105 Score: 483
Period size: 119 Copynumber: 2.3 Consensus size: 123
8749809 TTTGATGATT
*
8749819 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTG-TAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
8749884 ATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAAT-ATCAAAA
65 ATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCAAAA
8749942 TAGTAATGA-TTGT-ATAATC-TTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAA
1 TAGTAATGATTTGTAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAA
**
8750004 TAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTA
66 TAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCAAAA
* *
8750062 TAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAAT
1 TAGTAATGATTT-GTAATAATCATTATAATAATGATTTAGTAAT
8750106 GATTTAAATA
Statistics
Matches: 154, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
119 92 0.60
120 20 0.13
121 3 0.02
122 5 0.03
123 15 0.10
124 19 0.12
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (123 bp):
TAGTAATGATTTGTAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAA
TAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCAAAA
Found at i:8750078 original size:98 final size:97
Alignment explanation
Indices: 8749942--8750172 Score: 389
Period size: 98 Copynumber: 2.4 Consensus size: 97
8749932 AATATCAAAA
*
8749942 TAGTAATGA-TTG-TATAATC-TTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAA
1 TAGTAATGATTTGATATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAA
8750004 TAATGATTTAAATATTTAATGATTTGATGATT
66 TAATGATTTAAATATTTAATGATTTGATGATT
8750036 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGAT-ATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTA
8750101 ATAATGATTTAAATATTTAATGATTTGATGATT
65 ATAATGATTTAAATATTTAATGATTTGATGATT
8750134 TAGTAATGATTTGATGAT-ATCAAATTATAGTAATGATTT
1 TAGTAATGATTTGAT-ATAATC--ATTATAGTAATGATTT
8750173 GATAATTATT
Statistics
Matches: 129, Mismatches: 2, Indels: 7
0.93 0.01 0.05
Matches are distributed among these distances:
94 9 0.07
95 3 0.02
96 1 0.01
97 9 0.07
98 91 0.71
99 16 0.12
ACGTcount: A:0.42, C:0.02, G:0.12, T:0.44
Consensus pattern (97 bp):
TAGTAATGATTTGATATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAA
TAATGATTTAAATATTTAATGATTTGATGATT
Found at i:8750106 original size:315 final size:311
Alignment explanation
Indices: 8749547--8750172 Score: 914
Period size: 315 Copynumber: 2.0 Consensus size: 311
8749537 ATGTATTTAT
8749547 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTAATGATTTGATGATTTAGTAATGATT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTAATGATTTGATGATTTAGTAATGATT
*
8749612 TGATAATTCATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATAT
66 TGATAATTCATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATCATTTAAATAT
*
8749677 TTAATGATTTGATGATTTAGTAATGATTTGATAATATCAAATTATAGTAATGATTTGATATAAAT
131 TTAATGA--T-ATGATTTAG-AATGATTTAATAATATCAAATTATAGTAATGATTTGATATAAAT
8749742 CATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAAT
192 CATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAAT
8749807 GATTTGATGATTTAGTAATGATTTGATAATAATC-ATTATAGTAATGATTTAGTAA
257 GATTTGATGATTTAGTAATGATTTGATAAT-ATCAATTATAGTAATGATTTAGTAA
8749862 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATA-TTAATGATTTGATGATTTAGTAATGAT
*
8749927 TTGATAATATCAAAATAGTAATGA-TT-GT-ATAATC-TTATAATAATGATTTAGTAATAATCAT
65 TTGATAAT-TC---ATAGTAATGATTTAGTAATAATCATTATAAAAATGA-TT--TAATAATCAT
* * * *
8749988 TATAAAAATGATTTAAT-A-ATGATTTA-AAT-ATTTAATGATTTGATGATT-TAGTAATGATTT
123 T-T--AAAT-ATTTAATGATATGATTTAGAATGATTTAATAATATCA-AATTATAGTAATGATTT
*
8750048 GATA-ATAATCATTATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTA
183 GATATA-AATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTA
*
8750112 AATATTTAATGATTTGATGATTTAGTAATGATTTGATGATATCAAATTATAGTAATGATTT
247 AATATTTAATGATTTGATGATTTAGTAATGATTTGATAATATC-AATTATAGTAATGATTT
8750173 GATAATTATT
Statistics
Matches: 286, Mismatches: 9, Indels: 31
0.88 0.03 0.10
Matches are distributed among these distances:
314 4 0.01
315 159 0.56
316 68 0.24
317 10 0.03
318 10 0.03
319 12 0.04
320 11 0.04
322 5 0.02
323 7 0.02
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (311 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTAATGATTTGATGATTTAGTAATGATT
TGATAATTCATAGTAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATCATTTAAATAT
TTAATGATATGATTTAGAATGATTTAATAATATCAAATTATAGTAATGATTTGATATAAATCATT
ATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATT
TGATGATTTAGTAATGATTTGATAATATCAATTATAGTAATGATTTAGTAA
Found at i:8750134 original size:16 final size:17
Alignment explanation
Indices: 8750101--8750151 Score: 52
Period size: 19 Copynumber: 2.9 Consensus size: 17
8750091 AAATGATTTA
*
8750101 ATAATGATTTAAAT-ATT
1 ATAATGATTT-GATGATT
8750118 -TAATGATTTGATGATTT
1 ATAATGATTTGATGA-TT
8750135 AGTAATGATTTGATGAT
1 A-TAATGATTTGATGAT
8750152 ATCAAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 2 0.07
16 10 0.34
17 2 0.07
18 1 0.03
19 14 0.48
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (17 bp):
ATAATGATTTGATGATT
Found at i:8750150 original size:27 final size:27
Alignment explanation
Indices: 8750104--8750175 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
8750094 TGATTTAATA
* * *
8750104 ATGATTTA--AAT-ATTTAATGATTTG
1 ATGATTTAGTAATGATTTGATGATATC
8750128 ATGATTTAGTAATGATTTGATGATATC
1 ATGATTTAGTAATGATTTGATGATATC
*
8750155 A-AATTATAGTAATGATTTGAT
1 ATGATT-TAGTAATGATTTGAT
8750176 AATTATTACT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 8 0.20
26 6 0.15
27 26 0.65
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (27 bp):
ATGATTTAGTAATGATTTGATGATATC
Found at i:8750299 original size:14 final size:14
Alignment explanation
Indices: 8750280--8750321 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
8750270 TTTAAATATT
8750280 TAATGATTTGATAC
1 TAATGATTTGATAC
8750294 TAATGA-TT--TAC
1 TAATGATTTGATAC
*
8750305 TAATTATTTGATAC
1 TAATGATTTGATAC
8750319 TAA
1 TAA
8750322 ACATCATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
11 8 0.33
12 2 0.08
13 2 0.08
14 12 0.50
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (14 bp):
TAATGATTTGATAC
Found at i:8752104 original size:14 final size:14
Alignment explanation
Indices: 8752087--8752117 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8752077 TTTACAACAC
*
8752087 TAACTTTAATATAA
1 TAACTATAATATAA
8752101 TAACTATAATATAA
1 TAACTATAATATAA
8752115 TAA
1 TAA
8752118 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
TAACTATAATATAA
Found at i:8752144 original size:18 final size:17
Alignment explanation
Indices: 8752116--8752150 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8752106 ATAATATAAT
*
8752116 AAACTAATAAACTAAAC
1 AAACTAATAAAATAAAC
8752133 AAACTAAATAAAATAAAC
1 AAACT-AATAAAATAAAC
8752151 GTAAACACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (17 bp):
AAACTAATAAAATAAAC
Found at i:8752195 original size:120 final size:127
Alignment explanation
Indices: 8752032--8752296 Score: 366
Period size: 129 Copynumber: 2.1 Consensus size: 127
8752022 CTGTAAAAAT
* *
8752032 TAAACAACAATAAAAAATCATTTAATAAATCTAA-AAAC---TAACTAATTTACAACACT-AACT
1 TAAACACCAATAAAAAATCATTTAATAAATCTAATAAACAAACAACTAATTTACAACACTAAACT
8752092 TTAATATAATAAC-TATAATATAATAAACTAATAAACTAAACAAACTAAA-T-AAAATAAACG
66 TTAATATAATAACTTATAATATAATAAACTAATAAACT-AACAAACTAAATTAAAAATAAACG
*
8752152 TAAACACCAATAAAAAATCATTTAATATAATCTAATATAAACTAACTAACTAATTTACAACACTA
1 TAAACACCAATAAAAAATCATTTAATA-AATCT-A-ATAAACAAAC-AACTAATTTACAACACTA
8752217 AACTTTAATATAATAACTTATAATATAATAAACTAATAAACTAACAAACTAAACTTTTTAAAAAT
62 AACTTTAATATAATAACTTATAATATAATAAACTAATAAACTAACAAACTAAA----TTAAAAAT
8752282 AAACG
123 AAACG
8752287 TAAACACCAA
1 TAAACACCAA
8752297 ACCCTTAAAC
Statistics
Matches: 127, Mismatches: 2, Indels: 17
0.87 0.01 0.12
Matches are distributed among these distances:
120 26 0.20
121 5 0.04
122 1 0.01
123 1 0.01
124 4 0.03
128 17 0.13
129 28 0.22
130 24 0.19
134 1 0.01
135 20 0.16
ACGTcount: A:0.57, C:0.14, G:0.01, T:0.28
Consensus pattern (127 bp):
TAAACACCAATAAAAAATCATTTAATAAATCTAATAAACAAACAACTAATTTACAACACTAAACT
TTAATATAATAACTTATAATATAATAAACTAATAAACTAACAAACTAAATTAAAAATAAACG
Found at i:8752240 original size:15 final size:14
Alignment explanation
Indices: 8752217--8752247 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
8752207 TACAACACTA
8752217 AACTTTAATATAAT
1 AACTTTAATATAAT
8752231 AACTTATAATATAAT
1 AACTT-TAATATAAT
8752246 AA
1 AA
8752248 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:8752255 original size:16 final size:16
Alignment explanation
Indices: 8752222--8752268 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
8752212 CACTAAACTT
*
8752222 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
8752237 TAATATAATAAACTAA
1 TAATATAATAAACTAA
*
8752253 TAA-ACTAACAAACTAA
1 TAATA-TAATAAACTAA
8752269 ACTTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.30
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:8752377 original size:32 final size:33
Alignment explanation
Indices: 8752303--8752383 Score: 98
Period size: 33 Copynumber: 2.5 Consensus size: 33
8752293 CCAAACCCTT
*
8752303 AAAC-AACTAATAAAATATTTTTTATATAACTA
1 AAACTAACTAATAAACTATTTTTTATATAACTA
8752335 AAACTAACTAATAAACTATTTTTTCATTATAA-T-
1 AAACTAACTAATAAACTATTTTTT-A-TATAACTA
*
8752368 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
8752384 TACTAACTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
32 15 0.34
33 22 0.50
34 2 0.05
35 5 0.11
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.38
Consensus pattern (33 bp):
AAACTAACTAATAAACTATTTTTTATATAACTA
Found at i:8752489 original size:41 final size:44
Alignment explanation
Indices: 8752442--8752553 Score: 108
Period size: 40 Copynumber: 2.6 Consensus size: 44
8752432 AACTATTTAA
*
8752442 CTAACAAAAACTAATTAAATAATTTTTTTT-A-TA-ACTAACTAT
1 CTAACAAAAACTAATTAAATAATTTTTTTTAACTATA-GAACTAT
* * *
8752484 -TAAC-AAAACAAACTAATTAATTATTTTTTAACTATAGAACTAT
1 CTAACAAAAACTAATTAAATAATT-TTTTTTAACTATAGAACTAT
* * *
8752527 CAAACATATACTAATTAAATAATTTTT
1 CTAACAAAAACTAATTAAATAATTTTT
8752554 AATTTATGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
40 15 0.28
41 10 0.19
42 1 0.02
43 8 0.15
44 7 0.13
45 13 0.24
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (44 bp):
CTAACAAAAACTAATTAAATAATTTTTTTTAACTATAGAACTAT
Found at i:8752512 original size:44 final size:47
Alignment explanation
Indices: 8752424--8752512 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 47
8752414 AACAAACAAA
8752424 TATAACTTAACTATTTAACTAACAAAAACTAATTAAATAATTTTTTT
1 TATAACTTAACTATTTAACTAACAAAAACTAATTAAATAATTTTTTT
*
8752471 TATAAC-TAACTA-TTAAC-AA-AACAAACTAATT-AATTATTTTTT
1 TATAACTTAACTATTTAACTAACAA-AAACTAATTAAATAATTTTTT
8752513 AACTATAGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
43 12 0.30
44 11 0.28
45 5 0.12
46 6 0.15
47 6 0.15
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (47 bp):
TATAACTTAACTATTTAACTAACAAAAACTAATTAAATAATTTTTTT
Found at i:8752933 original size:50 final size:50
Alignment explanation
Indices: 8752862--8752970 Score: 179
Period size: 50 Copynumber: 2.2 Consensus size: 50
8752852 TAGGATCACA
*
8752862 TGGCATGC-TGTAGGCATGCAGCGGGGAGCAGGAGCACGTGAAG-TTATCT
1 TGGCATGCATGCAGGCATGCAGCGGGGAGCAGGAGCACGTGAAGTTTAT-T
8752911 TGGCATGCATGCAGGCATGCAGCGGGGAGCAGGAGCACGTGAAGTTTATT
1 TGGCATGCATGCAGGCATGCAGCGGGGAGCAGGAGCACGTGAAGTTTATT
8752961 TGGC-TGCATG
1 TGGCATGCATG
8752971 TGCATGCATG
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
49 14 0.25
50 39 0.68
51 4 0.07
ACGTcount: A:0.22, C:0.18, G:0.39, T:0.21
Consensus pattern (50 bp):
TGGCATGCATGCAGGCATGCAGCGGGGAGCAGGAGCACGTGAAGTTTATT
Found at i:8753038 original size:29 final size:29
Alignment explanation
Indices: 8753005--8753099 Score: 163
Period size: 29 Copynumber: 3.3 Consensus size: 29
8752995 TGGACGCCGG
8753005 GGCGACCTACAAGGTCGCCGGGACTACAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
8753034 GGCGACCTACAAGGTCGCCGGGACTACAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
** *
8753063 GGCGACCTACAAGGTCGCCCAGACTGCAT
1 GGCGACCTACAAGGTCGCCGGGACTACAT
8753092 GGCGACCT
1 GGCGACCT
8753100 CTCTATTGGC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.23, C:0.33, G:0.31, T:0.14
Consensus pattern (29 bp):
GGCGACCTACAAGGTCGCCGGGACTACAT
Found at i:8753128 original size:32 final size:32
Alignment explanation
Indices: 8753086--8753157 Score: 117
Period size: 32 Copynumber: 2.2 Consensus size: 32
8753076 GTCGCCCAGA
*
8753086 CTGCATGGCGACCTCTCTATTGGCTGGCTCGT
1 CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
* *
8753118 TTGCATGGCGACCTCTCCGTTGGCTGGCTCGT
1 CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
8753150 CTGCATGG
1 CTGCATGG
8753158 TGAGTATATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.08, C:0.31, G:0.31, T:0.31
Consensus pattern (32 bp):
CTGCATGGCGACCTCTCCATTGGCTGGCTCGT
Found at i:8753222 original size:24 final size:19
Alignment explanation
Indices: 8753172--8753209 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8753162 TATATGGCTT
8753172 GTATGGCTCGTCTGCATGG
1 GTATGGCTCGTCTGCATGG
8753191 GTATGGCTCGTCTGCATGG
1 GTATGGCTCGTCTGCATGG
8753210 TGAGTATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.21, G:0.37, T:0.32
Consensus pattern (19 bp):
GTATGGCTCGTCTGCATGG
Found at i:8757338 original size:15 final size:16
Alignment explanation
Indices: 8757318--8757347 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8757308 TAATAAGTGA
8757318 CTAATTT-TTGTGTTT
1 CTAATTTCTTGTGTTT
8757333 CTAATTTCTTGTGTT
1 CTAATTTCTTGTGTT
8757348 AATATTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (16 bp):
CTAATTTCTTGTGTTT
Found at i:8761971 original size:44 final size:44
Alignment explanation
Indices: 8761922--8762014 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
8761912 TCTCATGGTA
8761922 CGTCATAATAAAATTCAAAGTTTAACGATCAAATTTGGCTGACT
1 CGTCATAATAAAATTCAAAGTTTAACGATCAAATTTGGCTGACT
* *
8761966 CGTCATAATAAAATTCAAAGTTTGACTATCAAATTTGGCTGACT
1 CGTCATAATAAAATTCAAAGTTTAACGATCAAATTTGGCTGACT
8762010 CGTCA
1 CGTCA
8762015 GCCAACAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (44 bp):
CGTCATAATAAAATTCAAAGTTTAACGATCAAATTTGGCTGACT
Found at i:8762649 original size:2 final size:2
Alignment explanation
Indices: 8762633--8762669 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
8762623 CAAAGATTAT
*
8762633 TA TA TA T- TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8762670 AATCCTAGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:8762994 original size:90 final size:90
Alignment explanation
Indices: 8762841--8763020 Score: 360
Period size: 90 Copynumber: 2.0 Consensus size: 90
8762831 TTCCCCGCTA
8762841 GTAAGAAAGATTAAAGAAAGAAAATCGTAATAGAAACATTGCTCCTAATCTTAAGAAATTTCACA
1 GTAAGAAAGATTAAAGAAAGAAAATCGTAATAGAAACATTGCTCCTAATCTTAAGAAATTTCACA
8762906 ACTTCAAGTCATTGGTCTCAGCCTG
66 ACTTCAAGTCATTGGTCTCAGCCTG
8762931 GTAAGAAAGATTAAAGAAAGAAAATCGTAATAGAAACATTGCTCCTAATCTTAAGAAATTTCACA
1 GTAAGAAAGATTAAAGAAAGAAAATCGTAATAGAAACATTGCTCCTAATCTTAAGAAATTTCACA
8762996 ACTTCAAGTCATTGGTCTCAGCCTG
66 ACTTCAAGTCATTGGTCTCAGCCTG
8763021 AAAGCATCTA
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.27
Consensus pattern (90 bp):
GTAAGAAAGATTAAAGAAAGAAAATCGTAATAGAAACATTGCTCCTAATCTTAAGAAATTTCACA
ACTTCAAGTCATTGGTCTCAGCCTG
Found at i:8763356 original size:14 final size:14
Alignment explanation
Indices: 8763339--8763378 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
8763329 GTTCGGTTAT
8763339 GTTCGTTTATGTCC
1 GTTCGTTTATGTCC
* *
8763353 GTTCGGTTATGTTC
1 GTTCGTTTATGTCC
*
8763367 GTTCATTTATGT
1 GTTCGTTTATGT
8763379 ATAACTCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.10, C:0.15, G:0.23, T:0.53
Consensus pattern (14 bp):
GTTCGTTTATGTCC
Found at i:8764642 original size:114 final size:115
Alignment explanation
Indices: 8764442--8764671 Score: 453
Period size: 114 Copynumber: 2.0 Consensus size: 115
8764432 AAACATTTCA
8764442 TCACTGCTAATTAGCTCTTACGCTATTTATCACTGTAGATTTTGTTGATTTGCATTGTCGACTAT
1 TCACTGCTAATTAGCTCTTACGCTATTTATCACTGTAGATTTTGTTGATTTGCATTGTCGACTAT
8764507 TTTTCATGAAAGAATAATGGAAGGTAAGA-GTCCAACGTTTATGTTCGTT
66 TTTTCATGAAAGAATAATGGAAGGTAAGATGTCCAACGTTTATGTTCGTT
8764556 TCACTGCTAATTAGCTCTTACGCTATTTATCACTGTAGATTTTGTTGATTTGCATTGTCGACTAT
1 TCACTGCTAATTAGCTCTTACGCTATTTATCACTGTAGATTTTGTTGATTTGCATTGTCGACTAT
8764621 TTTTCATGAAAGAATAATGGAAGGTAAGATGTCCAACGTTTATGTTCGTT
66 TTTTCATGAAAGAATAATGGAAGGTAAGATGTCCAACGTTTATGTTCGTT
8764671 T
1 T
8764672 ATGTTCGTGT
Statistics
Matches: 115, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
114 94 0.82
115 21 0.18
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (115 bp):
TCACTGCTAATTAGCTCTTACGCTATTTATCACTGTAGATTTTGTTGATTTGCATTGTCGACTAT
TTTTCATGAAAGAATAATGGAAGGTAAGATGTCCAACGTTTATGTTCGTT
Found at i:8764688 original size:16 final size:16
Alignment explanation
Indices: 8764663--8764783 Score: 138
Period size: 16 Copynumber: 7.7 Consensus size: 16
8764653 CCAACGTTTA
*
8764663 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
*
8764679 TGTTCATTTATGTTCA
1 TGTTCATTTATGTTCG
* **
8764695 TATTTGTTTATGTTCG
1 TGTTCATTTATGTTCG
8764711 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
*
8764727 TGTTCATTTATATTCG
1 TGTTCATTTATGTTCG
* *
8764743 TATTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
* *
8764759 TATTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
8764775 T-TT-ATTTAT
1 TGTTCATTTAT
8764784 TAAATGAACG
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
14 5 0.05
15 2 0.02
16 84 0.92
ACGTcount: A:0.14, C:0.11, G:0.17, T:0.59
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:8764709 original size:32 final size:32
Alignment explanation
Indices: 8764665--8764783 Score: 161
Period size: 32 Copynumber: 3.8 Consensus size: 32
8764655 AACGTTTATG
*
8764665 TTCGTTTATGTTCGTGTTCATTTATGTTCATA
1 TTCGTTTATGTTCGTGTTCATTTATGTTCGTA
* *
8764697 TTTGTTTATGTTCGTGTTCATTTATGTTCGTG
1 TTCGTTTATGTTCGTGTTCATTTATGTTCGTA
* * * *
8764729 TTCATTTATATTCGTATTCGTTTATGTTCGTA
1 TTCGTTTATGTTCGTGTTCATTTATGTTCGTA
8764761 TTCGTTTATGTTCGT-TT-ATTTAT
1 TTCGTTTATGTTCGTGTTCATTTAT
8764784 TAAATGAACG
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
30 5 0.07
31 2 0.03
32 68 0.91
ACGTcount: A:0.14, C:0.11, G:0.16, T:0.59
Consensus pattern (32 bp):
TTCGTTTATGTTCGTGTTCATTTATGTTCGTA
Found at i:8764734 original size:48 final size:48
Alignment explanation
Indices: 8764663--8764783 Score: 183
Period size: 48 Copynumber: 2.6 Consensus size: 48
8764653 CCAACGTTTA
* *
8764663 TGTTCGTTTATGTTCGTGTTCATTTATGTTCATATTTGTTTATGTTCG
1 TGTTCGTTTATGTTCGTGTTCATTTATATTCATATTCGTTTATGTTCG
* *
8764711 TGTTCATTTATGTTCGTGTTCATTTATATTCGTATTCGTTTATGTTCG
1 TGTTCGTTTATGTTCGTGTTCATTTATATTCATATTCGTTTATGTTCG
*
8764759 TATTCGTTTATGTTCGT-TT-ATTTAT
1 TGTTCGTTTATGTTCGTGTTCATTTAT
8764784 TAAATGAACG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 6 0.09
47 2 0.03
48 59 0.88
ACGTcount: A:0.14, C:0.11, G:0.17, T:0.59
Consensus pattern (48 bp):
TGTTCGTTTATGTTCGTGTTCATTTATATTCATATTCGTTTATGTTCG
Found at i:8764866 original size:16 final size:16
Alignment explanation
Indices: 8764845--8764877 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
8764835 AAAAAAAATT
8764845 TGTTCGTTTATATTCG
1 TGTTCGTTTATATTCG
*
8764861 TGTTCGTTTATGTTCG
1 TGTTCGTTTATATTCG
8764877 T
1 T
8764878 TTATTTATTA
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:0.09, C:0.12, G:0.21, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATATTCG
Found at i:8768844 original size:21 final size:21
Alignment explanation
Indices: 8768810--8768873 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
8768800 TTTTCGGAAG
8768810 TTAGGCTGTTAGGTTACTATCTT
1 TTAGG-TG-TAGGTTACTATCTT
* *
8768833 TTAGGTGTAGGTTAGTAGCTT
1 TTAGGTGTAGGTTACTATCTT
*
8768854 TTAGGTGTATGTTACTATCT
1 TTAGGTGTAGGTTACTATCT
8768874 ATAGAATTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
21 29 0.81
22 2 0.06
23 5 0.14
ACGTcount: A:0.19, C:0.09, G:0.25, T:0.47
Consensus pattern (21 bp):
TTAGGTGTAGGTTACTATCTT
Found at i:8772268 original size:2 final size:2
Alignment explanation
Indices: 8772261--8772307 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
8772251 TAGTTATTAG
8772261 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8772303 TA TA T
1 TA TA T
8772308 GCGGATAAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8772333 original size:8 final size:8
Alignment explanation
Indices: 8772317--8772350 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
8772307 TGCGGATAAG
8772317 TAATTAAA
1 TAATTAAA
*
8772325 TAGTTAAA
1 TAATTAAA
8772333 TAATTAAA
1 TAATTAAA
8772341 TAATTAAA
1 TAATTAAA
8772349 TA
1 TA
8772351 TATAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (8 bp):
TAATTAAA
Found at i:8773437 original size:19 final size:20
Alignment explanation
Indices: 8773410--8773447 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
8773400 TTAGGGTTGA
8773410 GAGACGGGAGA-GCAGAGAG
1 GAGACGGGAGAGGCAGAGAG
*
8773429 GAGATGGGAGAGGCAGAGA
1 GAGACGGGAGAGGCAGAGA
8773448 ACGGCGAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.37, C:0.08, G:0.53, T:0.03
Consensus pattern (20 bp):
GAGACGGGAGAGGCAGAGAG
Found at i:8787299 original size:163 final size:165
Alignment explanation
Indices: 8786978--8788000 Score: 1659
Period size: 163 Copynumber: 6.2 Consensus size: 165
8786968 GGTTTCCCAA
* * * * *
8786978 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
* * * * *
8787043 AGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACACGATTGTTGAAGATTATTCG
66 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCG
8787108 AGTCTCT-TACTCTCTGAAGAAATAGGGGGCAGACG
131 AGTCT-TATACTCTCTGAAGAAATAGGGGGCAGACG
* *
8787143 TGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
* *
8787208 AGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGTGATCGTTGAAGATTGTTCG
66 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCG
*
8787271 AGTCTTATACTCTATGAAGAAATAGGGGGCAGACG
131 AGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
*
8787306 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCGATTGATGA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
*
8787371 AGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCG
66 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCG
8787434 AGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
131 AGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
*
8787469 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGGCGCGATTGATGA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
*
8787534 AGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCG
66 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCG
8787597 AGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
131 AGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
8787632 CAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACGCGATT-ATTG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGA-TG
* * *
8787696 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACACGATTGTTGAAGATTGTTT
65 AAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTC
* *
8787761 GGGTCTTATACTCTCTGAAGAAATAGGGGGCGGACG
130 GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
8787797 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGTAGACGCGATCGATGA
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
8787862 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCAG-TGAAGATTGTTC
66 AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATC-GTTGAAGATTGTTC
* *
8787926 GAGTCTTATACTCTTTGAAGAAATAGGGGGCAGATG
130 GAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
8787962 TGATTGTTAAAGATTGTTCGAGTCTTATACTCTCTGAAG
1 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
8788001 GACTAGAGAA
Statistics
Matches: 809, Mismatches: 43, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
162 2 0.00
163 466 0.58
164 2 0.00
165 337 0.42
166 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (165 bp):
CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGA
AGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTCG
AGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
Found at i:8788030 original size:55 final size:55
Alignment explanation
Indices: 8786978--8788000 Score: 1612
Period size: 55 Copynumber: 18.7 Consensus size: 55
8786968 GGTTTCCCAA
* * *
8786978 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACA
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
8787033 CGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGAAATAGGGAGCAGACA
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
*
8787088 CGATTGTTGAAGATTATTCGAGTCTCT-TACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATTGTTGAAGATTGTTCGAGTCT-TATACTCTCTGAAGAAATAGGGGGCAGACG
*
8787143 TGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
8787198 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
8787251 TGATCGTTGAAGATTGTTCGAGTCTTATACTCTATGAAGAAATAGGGGGCAGACG
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
8787306 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATG
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
8787361 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
*
8787414 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
8787469 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGGCG
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
8787524 CGATTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
*
8787577 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
8787632 CAATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCATACG
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
8787687 CGATTATTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACA
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
8787742 CGATTGTTGAAGATTGTTTGGGTCTTATACTCTCTGAAGAAATAGGGGGCGGACG
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
8787797 CGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGTAGACG
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
8787852 CGATCGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* * *
8787907 CGATCAG-TGAAGATTGTTCGAGTCTTATACTCTTTGAAGAAATAGGGGGCAGATG
1 CGAT-TGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
* *
8787962 TGATTGTTAAAGATTGTTCGAGTCTTATACTCTCTGAAG
1 CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAG
8788001 GACTAGAGAA
Statistics
Matches: 900, Mismatches: 58, Indels: 20
0.92 0.06 0.02
Matches are distributed among these distances:
53 144 0.16
54 8 0.01
55 747 0.83
56 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (55 bp):
CGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACG
Found at i:8788328 original size:2 final size:2
Alignment explanation
Indices: 8788321--8788355 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
8788311 TAGTTATTAG
8788321 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8788356 GTGGATAAGT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8788381 original size:8 final size:8
Alignment explanation
Indices: 8788365--8788398 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
8788355 TGTGGATAAG
8788365 TAATTAAA
1 TAATTAAA
*
8788373 TAGTTAAA
1 TAATTAAA
8788381 TAATTAAA
1 TAATTAAA
8788389 TAATTAAA
1 TAATTAAA
8788397 TA
1 TA
8788399 TATAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (8 bp):
TAATTAAA
Found at i:8789418 original size:19 final size:20
Alignment explanation
Indices: 8789391--8789428 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
8789381 TTAGGGTTGA
*
8789391 GAGACGGGAGA-GCAGAGAG
1 GAGAAGGGAGAGGCAGAGAG
8789410 GAGAAGGGAGAGGCAGAGA
1 GAGAAGGGAGAGGCAGAGA
8789429 ATGGCGAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.39, C:0.08, G:0.53, T:0.00
Consensus pattern (20 bp):
GAGAAGGGAGAGGCAGAGAG
Found at i:8792594 original size:115 final size:115
Alignment explanation
Indices: 8792365--8792595 Score: 335
Period size: 115 Copynumber: 2.0 Consensus size: 115
8792355 CCTTAGGAAT
*
8792365 ATGCAAAGGGAACCAAATCAAACTCTCTCATAAAACATTTTCATTTCTATCATGAATTCTCTCTC
1 ATGCAAAGGGAACCAAATCAAACTCTCCCATAAAACATTTTCA-TTCTATCATGAATTCTCTCTC
*
8792430 AAATACATCCACCATTTACTTCATTCCAATCCACCACACCGTCAAATAAAC
65 AAATACATCCACCATTTACTTCATTCCAATCCACCACACCATCAAATAAAC
* *
8792481 ATGCAAAGGGAACCAAATCAAACTCTCCCCTTAAACATTTTCCA-TCATAT-ATTGAATT-TCTC
1 ATGCAAAGGGAACCAAATCAAACTCTCCCATAAAACATTTT-CATTC-TATCA-TGAATTCTCTC
* *
8792543 -CAAAATCCATCCACCATTTACTTCATTCTAATCCACCACACCATCAAATAAAC
63 TC-AAATACATCCACCATTTACTTCATTCCAATCCACCACACCATCAAATAAAC
8792596 CACCAACCTC
Statistics
Matches: 105, Mismatches: 6, Indels: 9
0.88 0.05 0.08
Matches are distributed among these distances:
114 1 0.01
115 55 0.52
116 47 0.45
117 2 0.02
ACGTcount: A:0.37, C:0.30, G:0.05, T:0.28
Consensus pattern (115 bp):
ATGCAAAGGGAACCAAATCAAACTCTCCCATAAAACATTTTCATTCTATCATGAATTCTCTCTCA
AATACATCCACCATTTACTTCATTCCAATCCACCACACCATCAAATAAAC
Found at i:8799587 original size:18 final size:20
Alignment explanation
Indices: 8799544--8799587 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
8799534 ATAAAACGCC
8799544 TAATAATAATATTTTCAGTAA
1 TAATAATAATATTTTCAG-AA
*
8799565 AAATAATAATATTTT-AG-A
1 TAATAATAATATTTTCAGAA
8799583 TAATA
1 TAATA
8799588 TTTTTACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 5 0.24
20 2 0.10
21 14 0.67
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAATATTTTCAGAA
Found at i:8803531 original size:41 final size:40
Alignment explanation
Indices: 8803433--8803553 Score: 174
Period size: 39 Copynumber: 3.0 Consensus size: 40
8803423 ATGTATGCGC
8803433 TACTCATGCTAGTTTAAGAAAATACCA-ACCTTATTTTACT
1 TACTCATGCTAGTTTAAGAAAATA-CATACCTTATTTTACT
* *
8803473 T-CTCATGCTAATTTAAGAAAATATATACCTTATTTTACT
1 TACTCATGCTAGTTTAAGAAAATACATACCTTATTTTACT
* *
8803512 TAACTCATGCTAGTATAAGAAAATACCTACCTTATTTTACT
1 T-ACTCATGCTAGTTTAAGAAAATACATACCTTATTTTACT
8803553 T
1 T
8803554 CAAAAGCATC
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
38 1 0.01
39 35 0.49
40 1 0.01
41 35 0.49
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.40
Consensus pattern (40 bp):
TACTCATGCTAGTTTAAGAAAATACATACCTTATTTTACT
Found at i:8811862 original size:18 final size:17
Alignment explanation
Indices: 8811839--8811879 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
8811829 TTCTTTTGAA
8811839 AATTTTAGATTTTTAAAT
1 AATTTTA-ATTTTTAAAT
*
8811857 AATTTTTAATTTTTATAT
1 AA-TTTTAATTTTTAAAT
8811875 AATTT
1 AATTT
8811880 AAATATGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 13 0.62
19 5 0.24
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
AATTTTAATTTTTAAAT
Found at i:8811880 original size:27 final size:28
Alignment explanation
Indices: 8811850--8811908 Score: 77
Period size: 26 Copynumber: 2.1 Consensus size: 28
8811840 ATTTTAGATT
*
8811850 TTTAAATAATTTTTAATTTTTA-T-ATAA
1 TTTAAAT-ATGTTTAATTTTTATTAATAA
*
8811877 TTTAAATATGTTTATTTTTTATTAATAA
1 TTTAAATATGTTTAATTTTTATTAATAA
8811905 TTTA
1 TTTA
8811909 TTTTTACTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 12 0.43
27 8 0.29
28 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTAAATATGTTTAATTTTTATTAATAA
Found at i:8812630 original size:2 final size:2
Alignment explanation
Indices: 8812623--8812655 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8812613 CAATAATACC
8812623 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8812656 TTCTCAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8821696 original size:24 final size:21
Alignment explanation
Indices: 8821654--8821697 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 21
8821644 ACATTTAATT
8821654 TATTTATATAATATTATAAAA
1 TATTTATATAATATTATAAAA
8821675 TATTTATCATTAATAATTATAAA
1 TATTTAT-A-TAAT-ATTATAAA
8821698 TAGGATAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 1 0.05
23 4 0.20
24 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TATTTATATAATATTATAAAA
Found at i:8822342 original size:20 final size:20
Alignment explanation
Indices: 8822314--8822381 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
8822304 TTCCAAATTT
* *
8822314 GCAACGCGAATATGTAAATC
1 GCAAAGCGAATTTGTAAATC
8822334 GCAAAGCGAATTTGTAAATC
1 GCAAAGCGAATTTGTAAATC
* *
8822354 GCAACGCGAATTTGTAATTC
1 GCAAAGCGAATTTGTAAATC
8822374 GCAAAGCG
1 GCAAAGCG
8822382 CGTTTATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (20 bp):
GCAAAGCGAATTTGTAAATC
Found at i:8822405 original size:39 final size:40
Alignment explanation
Indices: 8822314--8822405 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
8822304 TTCCAAATTT
* *
8822314 GCAACGCGAATATGTAAATCGCAAAGCGAATTTGTAAATC
1 GCAACGCGAATTTGTAAATCGCAAAGCGAATTTATAAATC
* ** **
8822354 GCAACGCGAATTTGTAATTCGCAAAGCGCGTTTAT-TTTC
1 GCAACGCGAATTTGTAAATCGCAAAGCGAATTTATAAATC
8822393 GCAACGCGAATTT
1 GCAACGCGAATTT
8822406 TATTTTCGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 15 0.33
40 30 0.67
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (40 bp):
GCAACGCGAATTTGTAAATCGCAAAGCGAATTTATAAATC
Found at i:8822409 original size:20 final size:20
Alignment explanation
Indices: 8822352--8822413 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
8822342 AATTTGTAAA
*
8822352 TCGCAACGCGAATTTGTA-AT
1 TCGCAACGCGAATTT-TATTT
* **
8822372 TCGCAAAGCG-CGTTTATTT
1 TCGCAACGCGAATTTTATTT
8822391 TCGCAACGCGAATTTTATTT
1 TCGCAACGCGAATTTTATTT
8822411 TCG
1 TCG
8822414 AATTCGAAAC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 2 0.06
19 12 0.36
20 19 0.58
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (20 bp):
TCGCAACGCGAATTTTATTT
Found at i:8824444 original size:21 final size:21
Alignment explanation
Indices: 8824417--8824466 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
8824407 GTTAGGGGAG
*
8824417 TTACGTGATGAGGTCAGTGCT
1 TTACGTGATGAGGTCAGTACT
* *
8824438 TTGCGTGATGAGGTCGGTACT
1 TTACGTGATGAGGTCAGTACT
8824459 TTACGTGA
1 TTACGTGA
8824467 CGACAATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.18, C:0.14, G:0.34, T:0.34
Consensus pattern (21 bp):
TTACGTGATGAGGTCAGTACT
Found at i:8824507 original size:21 final size:22
Alignment explanation
Indices: 8824483--8824578 Score: 51
Period size: 21 Copynumber: 4.5 Consensus size: 22
8824473 TGGTTCATGG
8824483 CGTGATGAGGTACGGT-CTTTA
1 CGTGATGAGGTACGGTACTTTA
* * **
8824504 CGTGGTGAGGTA-GATGTTTTA
1 CGTGATGAGGTACGGTACTTTA
* * *
8824525 CGCGATGA--TAATGGTGCTTTA
1 CGTGATGAGGT-ACGGTACTTTA
*
8824546 CGTGGTGAGGTATC--TACTTTA
1 CGTGATGAGGTA-CGGTACTTTA
*
8824567 CGTGATAAGGTA
1 CGTGATGAGGTA
8824579 GCCGCTCTAT
Statistics
Matches: 56, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
19 1 0.02
20 3 0.05
21 50 0.89
22 1 0.02
23 1 0.02
ACGTcount: A:0.22, C:0.11, G:0.32, T:0.34
Consensus pattern (22 bp):
CGTGATGAGGTACGGTACTTTA
Found at i:8824913 original size:21 final size:21
Alignment explanation
Indices: 8824882--8824991 Score: 96
Period size: 21 Copynumber: 5.2 Consensus size: 21
8824872 GTAATCATTA
*
8824882 AAGATGCCCCTC-CTATCGTTC
1 AAGAGGCCCCTCTC-ATCGTTC
* *
8824903 AAGTGGCCCCTCTCATCATTC
1 AAGAGGCCCCTCTCATCGTTC
* * *
8824924 AAGAAGCCCCTCCCACCGTTC
1 AAGAGGCCCCTCTCATCGTTC
* *
8824945 AAAAGGCCCCTATCATCGTTC
1 AAGAGGCCCCTCTCATCGTTC
* * * *
8824966 AAGAGGTCTCTCCCACCGTTC
1 AAGAGGCCCCTCTCATCGTTC
8824987 AAGAG
1 AAGAG
8824992 CCCGATTCAC
Statistics
Matches: 69, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
21 68 0.99
22 1 0.01
ACGTcount: A:0.24, C:0.37, G:0.16, T:0.23
Consensus pattern (21 bp):
AAGAGGCCCCTCTCATCGTTC
Found at i:8824934 original size:42 final size:42
Alignment explanation
Indices: 8824875--8824988 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 42
8824865 TTCACATGTA
* * * * ** *
8824875 ATCATTAAAGATGCCCCTCCTATCGTTCAAGTGGCCCCTCTC
1 ATCATTCAAGAAGCCCCTCCCACCGTTCAAAAGGCCCCTATC
8824917 ATCATTCAAGAAGCCCCTCCCACCGTTCAAAAGGCCCCTATC
1 ATCATTCAAGAAGCCCCTCCCACCGTTCAAAAGGCCCCTATC
* * * *
8824959 ATCGTTCAAGAGGTCTCTCCCACCGTTCAA
1 ATCATTCAAGAAGCCCCTCCCACCGTTCAA
8824989 GAGCCCGATT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.25, C:0.37, G:0.14, T:0.25
Consensus pattern (42 bp):
ATCATTCAAGAAGCCCCTCCCACCGTTCAAAAGGCCCCTATC
Found at i:8828223 original size:63 final size:65
Alignment explanation
Indices: 8828114--8828274 Score: 170
Period size: 63 Copynumber: 2.5 Consensus size: 65
8828104 TCCCTTGACA
* * * *
8828114 GGTGCATCGATGCACTA-TCTATGCATCGATACA-TAAATCTTGTTCGATGTTTGCA-TTTAAGG
1 GGTGCATCGATGCACTACT-TGTGCATCGATACACTAAATCGTATTCGATGTTTGCATTTTAAAG
8828176 G
65 G
* * **
8828177 GGTGCATCGATGCACTACTTGTGCATCGATACACT-GATGGTATTCGATGTTTTTATTTTAAAGG
1 GGTGCATCGATGCACTACTTGTGCATCGATACACTAAATCGTATTCGATGTTTGCATTTTAAAGG
* * *
8828241 AGTGCATCGATGCAC-ATCATGTGCATTGATACAC
1 GGTGCATCGATGCACTA-CTTGTGCATCGATACAC
8828275 CTTGAATAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
63 45 0.54
64 38 0.46
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.34
Consensus pattern (65 bp):
GGTGCATCGATGCACTACTTGTGCATCGATACACTAAATCGTATTCGATGTTTGCATTTTAAAGG
Found at i:8831854 original size:16 final size:15
Alignment explanation
Indices: 8831832--8831870 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
8831822 GAAATCATTG
8831832 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
8831848 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
8831863 AAAAATTA
1 AAAAATTA
8831871 GAGATAGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:8832111 original size:20 final size:20
Alignment explanation
Indices: 8832045--8832121 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
8832035 ATTAAAATTC
**
8832045 GTGTTGCGAATTCAGAAA-T
1 GTGTTGCGAATTTGGAAACT
* *
8832064 CGAGTTGCGAATTT-GAAATTCA
1 -GTGTTGCGAATTTGGAAA--CT
8832086 GTGTTGCGAATTTGGAAACT
1 GTGTTGCGAATTTGGAAACT
*
8832106 GTGTTGAGAATTTGGA
1 GTGTTGCGAATTTGGA
8832122 GTTCGCGTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 4 0.09
20 27 0.57
21 12 0.26
22 4 0.09
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.34
Consensus pattern (20 bp):
GTGTTGCGAATTTGGAAACT
Found at i:8832117 original size:41 final size:40
Alignment explanation
Indices: 8832039--8832139 Score: 114
Period size: 41 Copynumber: 2.5 Consensus size: 40
8832029 TGTGAAATTA
** *
8832039 AAATTCGTGTTGCGAATTCAGAAATCGAGTTGCGAATTTG
1 AAATTCGTGTTGCGAATTTGGAAATCGAGTTGAGAATTTG
*
8832079 AAATTCAGTGTTGCGAATTTGGAAA-CTGTGTTGAGAATTTG
1 AAATTC-GTGTTGCGAATTTGGAAATC-GAGTTGAGAATTTG
* * *
8832120 GAGTTCGCGTTGCGAATTTG
1 AAATTCGTGTTGCGAATTTG
8832140 TTGGTCATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
40 20 0.38
41 32 0.62
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.35
Consensus pattern (40 bp):
AAATTCGTGTTGCGAATTTGGAAATCGAGTTGAGAATTTG
Found at i:8833178 original size:2 final size:2
Alignment explanation
Indices: 8833171--8833195 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8833161 AATAAAAATG
8833171 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8833196 AAAATATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8838864 original size:8 final size:8
Alignment explanation
Indices: 8838851--8838888 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
8838841 TTCGATATTT
8838851 TGATTTAC
1 TGATTTAC
8838859 TGATTTAC
1 TGATTTAC
*
8838867 TGATTTAT
1 TGATTTAC
8838875 TGATTTAC
1 TGATTTAC
8838883 TG-TTTA
1 TGATTTA
8838889 TGAATTATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
7 4 0.14
8 24 0.86
ACGTcount: A:0.24, C:0.08, G:0.13, T:0.55
Consensus pattern (8 bp):
TGATTTAC
Found at i:8838878 original size:24 final size:22
Alignment explanation
Indices: 8838850--8838896 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 22
8838840 GTTCGATATT
*
8838850 TTGATTTACTGATTTACTGATTTA
1 TTGATTTACTG-TTTA-TGAATTA
8838874 TTGATTTACTGTTTATGAATTA
1 TTGATTTACTGTTTATGAATTA
8838896 T
1 T
8838897 GGTATTAGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.32
23 4 0.18
24 11 0.50
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (22 bp):
TTGATTTACTGTTTATGAATTA
Found at i:8840853 original size:106 final size:106
Alignment explanation
Indices: 8840668--8840872 Score: 410
Period size: 106 Copynumber: 1.9 Consensus size: 106
8840658 GTGTTCATTG
8840668 TGATTTATATGTTTATAATGGATTTTTGTTCTCTCATTTGTAGTGGTAGACAAGGAAAAACCATT
1 TGATTTATATGTTTATAATGGATTTTTGTTCTCTCATTTGTAGTGGTAGACAAGGAAAAACCATT
8840733 TTAAATCTTATCTCTTATGACTATCTTAAGTAATTTATAAT
66 TTAAATCTTATCTCTTATGACTATCTTAAGTAATTTATAAT
8840774 TGATTTATATGTTTATAATGGATTTTTGTTCTCTCATTTGTAGTGGTAGACAAGGAAAAACCATT
1 TGATTTATATGTTTATAATGGATTTTTGTTCTCTCATTTGTAGTGGTAGACAAGGAAAAACCATT
8840839 TTAAATCTTATCTCTTATGACTATCTTAAGTAAT
66 TTAAATCTTATCTCTTATGACTATCTTAAGTAAT
8840873 AATTTATAAT
Statistics
Matches: 99, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 99 1.00
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.45
Consensus pattern (106 bp):
TGATTTATATGTTTATAATGGATTTTTGTTCTCTCATTTGTAGTGGTAGACAAGGAAAAACCATT
TTAAATCTTATCTCTTATGACTATCTTAAGTAATTTATAAT
Found at i:8841812 original size:21 final size:22
Alignment explanation
Indices: 8841788--8841840 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
8841778 TATGTTCGTA
8841788 TAAAAATTATCATT-AAATTAT
1 TAAAAATTATCATTCAAATTAT
*
8841809 TAAAATAATT-TCGTTCAAATTAT
1 T-AAA-AATTATCATTCAAATTAT
*
8841832 TAATAATTA
1 TAAAAATTA
8841841 ATTATTAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
21 5 0.19
22 9 0.35
23 12 0.46
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (22 bp):
TAAAAATTATCATTCAAATTAT
Found at i:8847470 original size:30 final size:30
Alignment explanation
Indices: 8847436--8847509 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
8847426 CAAATATTAA
8847436 TAAATGATTTGATTACATCATTTAAATAGT
1 TAAATGATTTGATTACATCATTTAAATAGT
8847466 TAAATGATTTGATTACATCATTTAAATAGT
1 TAAATGATTTGATTACATCATTTAAATAGT
*
8847496 TAAATGATATGATT
1 TAAATGATTTGATT
8847510 GATAAAATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (30 bp):
TAAATGATTTGATTACATCATTTAAATAGT
Found at i:8849232 original size:27 final size:27
Alignment explanation
Indices: 8849202--8849255 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
8849192 CTCATGCTAA
8849202 GAGAGATTGAGGGAGAGGAAGAAGGAG
1 GAGAGATTGAGGGAGAGGAAGAAGGAG
8849229 GAGAGATTGAGGGAGAGGAAGAAGGAG
1 GAGAGATTGAGGGAGAGGAAGAAGGAG
8849256 ATTGGAGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.52, T:0.07
Consensus pattern (27 bp):
GAGAGATTGAGGGAGAGGAAGAAGGAG
Found at i:8856477 original size:17 final size:16
Alignment explanation
Indices: 8856431--8856501 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 16
8856421 AAATTTTAGG
*
8856431 ATAAAAATAAATTATTA
1 ATAAAAATATA-TATTA
8856448 ATAAAAATATATATTA
1 ATAAAAATATATATTA
**
8856464 TATAAAAGATTATATAAAA
1 -ATAAAA-A-TATATATTA
*
8856483 ATATAAATTATATATTA
1 ATA-AAAATATATATTA
8856500 AT
1 AT
8856502 CTCAGACATG
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
16 5 0.11
17 25 0.57
18 4 0.09
19 10 0.23
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (16 bp):
ATAAAAATATATATTA
Found at i:8859323 original size:14 final size:14
Alignment explanation
Indices: 8859286--8859324 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
8859276 TAATCTTTTG
*
8859286 TTTTTACAAATTTA
1 TTTTCACAAATTTA
*
8859300 -TTTCAAAAATTTA
1 TTTTCACAAATTTA
8859313 TTTTCACAAATT
1 TTTTCACAAATT
8859325 ATCATAACTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTTCACAAATTTA
Found at i:8861195 original size:37 final size:36
Alignment explanation
Indices: 8861136--8861256 Score: 165
Period size: 36 Copynumber: 3.3 Consensus size: 36
8861126 ATCTCATTAT
* *
8861136 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAA
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
8861171 CTATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
1 C-ATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
* *
8861208 CCA-TTTTCAAAAAAACATTTACCAAACTTTGAAAAT
1 -CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
8861244 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
8861257 TTGGTTGCCA
Statistics
Matches: 76, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
35 3 0.04
36 38 0.50
37 34 0.45
38 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.32
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
Found at i:8861208 original size:21 final size:21
Alignment explanation
Indices: 8861184--8861248 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
8861174 TTTTTCAAAG
8861184 AAACATTTACCAAACTTTGAA
1 AAACATTTACCAAACTTTGAA
*
8861205 AAACCATTT-TC-AA-----AA
1 AAA-CATTTACCAAACTTTGAA
8861220 AAACATTTACCAAACTTTGAA
1 AAACATTTACCAAACTTTGAA
*
8861241 AATCATTT
1 AAACATTT
8861249 TTTCAAAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 16
0.63 0.06 0.31
Matches are distributed among these distances:
14 5 0.15
15 6 0.18
16 2 0.06
20 2 0.06
21 13 0.39
22 5 0.15
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (21 bp):
AAACATTTACCAAACTTTGAA
Found at i:8861215 original size:36 final size:37
Alignment explanation
Indices: 8861136--8861255 Score: 165
Period size: 37 Copynumber: 3.3 Consensus size: 37
8861126 ATCTCATTAT
* *
8861136 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAAAAACATTTACCAAACTTTGAAAAAC
* *
8861172 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
1 CATTTTTCAAAAAAACATTTACCAAACTTTGAAAAAC
*
8861209 CA-TTTTCAAAAAAACATTTACCAAACTTTG-AAAAT
1 CATTTTTCAAAAAAACATTTACCAAACTTTGAAAAAC
8861244 CATTTTTTCAAA
1 CA-TTTTTCAAA
8861256 GTTGGTTGCC
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
35 6 0.08
36 34 0.45
37 35 0.47
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (37 bp):
CATTTTTCAAAAAAACATTTACCAAACTTTGAAAAAC
Found at i:8866002 original size:20 final size:21
Alignment explanation
Indices: 8865977--8866028 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
8865967 TTTTCCCAAT
*
8865977 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
8865997 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
8866018 TCGCAATGCGA
1 TCGCAATGCGA
8866029 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:8866042 original size:20 final size:20
Alignment explanation
Indices: 8866017--8866151 Score: 130
Period size: 20 Copynumber: 6.7 Consensus size: 20
8866007 AATTGGGAAA
8866017 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
8866037 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
8866057 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
8866078 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
8866098 TTCGCAATGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
8866118 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
8866138 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
8866152 TTTCAAAGCG
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.04
20 64 0.68
21 24 0.26
22 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:8866061 original size:61 final size:61
Alignment explanation
Indices: 8866014--8866145 Score: 192
Period size: 61 Copynumber: 2.2 Consensus size: 61
8866004 GCGAATTGGG
* * * *
8866014 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
* * *
8866075 AAAATCGCAACGAGATACTGACTTTCGCAATGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
*
8866136 ATAATCGCAA
1 AAAATCGCAA
8866146 TGCGATTTTC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
Found at i:8866347 original size:22 final size:22
Alignment explanation
Indices: 8866319--8866363 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
8866309 CACTCTCTCA
8866319 CCCCATCTCCGACGAAATCCGT
1 CCCCATCTCCGACGAAATCCGT
*
8866341 CCCCATCTCCGGCGAAATCCGT
1 CCCCATCTCCGACGAAATCCGT
8866363 C
1 C
8866364 TATCTCCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.47, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCCATCTCCGACGAAATCCGT
Found at i:8866647 original size:20 final size:20
Alignment explanation
Indices: 8866588--8866641 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
8866578 GCGATTTTAG
*
8866588 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
8866608 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
*
8866628 TTTCGTGTTGCGAT
1 TTTCGCGTTGCGAT
8866642 TTTCATATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.39
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:8866841 original size:25 final size:24
Alignment explanation
Indices: 8866787--8866841 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
8866777 ATGTTATTAT
* *
8866787 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
8866811 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
8866837 TGTTT
1 TGTTT
8866842 ATTGTTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:8867992 original size:17 final size:18
Alignment explanation
Indices: 8867964--8868007 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
8867954 TCCACTTCGG
*
8867964 GAGCTATCACCTCGCCCA
1 GAGCTATCACCTCACCCA
8867982 GAGCT-TCACCTCACCCA
1 GAGCTATCACCTCACCCA
*
8867999 GAGCCATCA
1 GAGCTATCA
8868008 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.25, C:0.43, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCTATCACCTCACCCA
Found at i:8868525 original size:20 final size:19
Alignment explanation
Indices: 8868496--8868605 Score: 72
Period size: 19 Copynumber: 6.1 Consensus size: 19
8868486 CGCAATACAA
*
8868496 AAATGACTATCGTAATGCGG
1 AAATGACTATCGCAATGC-G
*
8868516 AAATGGCTATCGCAATGCG
1 AAATGACTATCGCAATGCG
**
8868535 AAATGAAAATCGCAA--CG
1 AAATGACTATCGCAATGCG
8868552 ACAA--A--ATCGCAATGCG
1 A-AATGACTATCGCAATGCG
* *
8868568 AAATGA-AATCGCAACGCG
1 AAATGACTATCGCAATGCG
* **
8868586 AAATAAAAATCGCAATGCG
1 AAATGACTATCGCAATGCG
8868605 A
1 A
8868606 TTTGTGTTTC
Statistics
Matches: 75, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
14 7 0.09
15 2 0.03
16 4 0.05
17 4 0.05
18 17 0.23
19 25 0.33
20 16 0.21
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.16
Consensus pattern (19 bp):
AAATGACTATCGCAATGCG
Found at i:8868539 original size:19 final size:20
Alignment explanation
Indices: 8868496--8868540 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
8868486 CGCAATACAA
*
8868496 AAATGACTATCGTAATGCGG
1 AAATGACTATCGCAATGCGG
*
8868516 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAATGCGG
8868535 AAATGA
1 AAATGA
8868541 AAATCGCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (20 bp):
AAATGACTATCGCAATGCGG
Found at i:8868546 original size:19 final size:19
Alignment explanation
Indices: 8868524--8868605 Score: 95
Period size: 19 Copynumber: 4.6 Consensus size: 19
8868514 GGAAATGGCT
8868524 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
8868543 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
8868557 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
* *
8868575 ATCGCAACGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
8868594 ATCGCAATGCGA
1 ATCGCAATGCGA
8868606 TTTGTGTTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 17 0.33
19 20 0.38
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:8868636 original size:14 final size:14
Alignment explanation
Indices: 8868617--8868707 Score: 83
Period size: 14 Copynumber: 5.9 Consensus size: 14
8868607 TTGTGTTTCG
8868617 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
8868631 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
8868647 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
8868663 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
8868680 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
8868696 CGTTGCGATTTT
1 CGTTGCGATTTT
8868708 CATTTCGCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 27 0.42
15 3 0.05
16 12 0.19
17 4 0.06
18 12 0.19
19 6 0.09
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:8868681 original size:33 final size:33
Alignment explanation
Indices: 8868612--8868723 Score: 208
Period size: 33 Copynumber: 3.4 Consensus size: 33
8868602 GCGATTTGTG
*
8868612 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
8868644 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
8868677 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
8868710 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
8868724 AGCCATTTCT
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 26 0.33
33 52 0.67
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:8868742 original size:20 final size:19
Alignment explanation
Indices: 8868708--8868763 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
8868698 TTGCGATTTT
8868708 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
* *
8868727 CATTTCTGCGTTGCGATAGT
1 CATTTC-GCATTGCGATAGC
8868747 CATTTTCGCATTGCGAT
1 CA-TTTCGCATTGCGAT
8868764 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.19
20 22 0.69
21 4 0.12
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:8870787 original size:19 final size:19
Alignment explanation
Indices: 8870763--8870868 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
8870753 ATCGCAACGA
8870763 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
8870782 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
8870801 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
8870820 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
8870839 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
8870853 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
8870869 TTTTCATTTC
Statistics
Matches: 84, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.13
15 1 0.01
16 2 0.02
17 2 0.02
19 68 0.81
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:8870918 original size:20 final size:20
Alignment explanation
Indices: 8870895--8870982 Score: 97
Period size: 20 Copynumber: 4.4 Consensus size: 20
8870885 CGATTTTTTA
8870895 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
8870915 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
** *
8870935 AATGCGATAGACATTTTCGC
1 GTTGCGATAGCCATTTTCGC
8870955 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
8870975 GTTGCGAT
1 GTTGCGAT
8870983 TTCCCCGTTG
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
19 3 0.06
20 47 0.89
21 3 0.06
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:8871291 original size:20 final size:21
Alignment explanation
Indices: 8871247--8871295 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
8871237 ATAGTCAGTA
*
8871247 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
8871268 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
8871288 TCGCATTG
1 TCGCATTG
8871296 TGAATTAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:8871421 original size:58 final size:59
Alignment explanation
Indices: 8871323--8871441 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
8871313 AACGCGATAC
8871323 TTAATTTCGCAACGAGATAATACAGAATCGCAATGCGATTTTCAAAGTTCGCAATAGGT
1 TTAATTTCGCAACGAGATAATACAGAATCGCAATGCGATTTTCAAAGTTCGCAATAGGT
8871382 TTAATTTCGCAACGAGATAA-ACAGAATCGCAATGCGATTTTCAAAGTTCGCAATAGGT
1 TTAATTTCGCAACGAGATAATACAGAATCGCAATGCGATTTTCAAAGTTCGCAATAGGT
8871440 TT
1 TT
8871442 TAGTTTCACA
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 40 0.67
59 20 0.33
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (59 bp):
TTAATTTCGCAACGAGATAATACAGAATCGCAATGCGATTTTCAAAGTTCGCAATAGGT
Found at i:8872156 original size:24 final size:24
Alignment explanation
Indices: 8872129--8872182 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
8872119 GTATTCGAAA
*
8872129 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
8872153 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
8872177 TTTGAT
1 TTTGAT
8872183 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:8874712 original size:33 final size:33
Alignment explanation
Indices: 8874670--8874794 Score: 189
Period size: 33 Copynumber: 3.8 Consensus size: 33
8874660 GGAAATTACT
8874670 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
8874703 ATCGCAATGCAAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
8874735 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
8874769 ATCGCAATGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
8874795 TGCGAATTTA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
32 1 0.01
33 79 0.98
34 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:8874777 original size:66 final size:66
Alignment explanation
Indices: 8874671--8874803 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
8874661 GAAATTACTA
*
8874671 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGCGAAT
8874736 T
66 T
* * *
8874737 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAATGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGCGAAT
8874802 T
66 T
8874803 T
1 T
8874804 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCAAAATGAAAATCGCAACGCGAAT
T
Found at i:8874811 original size:19 final size:19
Alignment explanation
Indices: 8874670--8874800 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
8874660 GGAAATTACT
8874670 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
8874689 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
8874703 ATCGCAATGCAAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
8874722 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
8874736 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
8874755 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
8874769 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
8874788 ATCGCAATGCGAA
1 ATCGCAATGCGAA
8874801 TTTAATTTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 30
0.65 0.11 0.24
Matches are distributed among these distances:
14 27 0.33
15 3 0.04
16 5 0.06
17 5 0.06
18 3 0.04
19 40 0.48
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:8874830 original size:14 final size:14
Alignment explanation
Indices: 8874811--8874867 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
8874801 TTTAATTTCG
8874811 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
8874825 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
8874844 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
8874858 CGTTGCGATT
1 CGTTGCGATT
8874868 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:8874842 original size:33 final size:33
Alignment explanation
Indices: 8874795--8874885 Score: 155
Period size: 33 Copynumber: 2.8 Consensus size: 33
8874785 AAAATCGCAA
* *
8874795 TGCGAATTTAATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
8874828 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
8874861 TGCGATTTTCATTTCGCATTGCGAT
1 TGCGATTTTCATTTCGCGTTGCGAT
8874886 AGTACTTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:8874849 original size:19 final size:19
Alignment explanation
Indices: 8874825--8874885 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
8874815 GCGATTCTCT
8874825 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
8874844 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
8874858 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
8874877 CATTGCGAT
1 CGTTGCGAT
8874886 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:8875016 original size:14 final size:14
Alignment explanation
Indices: 8874993--8875026 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
8874983 TCAATTAAAC
8874993 AATCAACTTTTACA
1 AATCAACTTTTACA
*
8875007 AATCACCTTTTACA
1 AATCAACTTTTACA
8875021 AATCAA
1 AATCAA
8875027 TTAAACAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
AATCAACTTTTACA
Found at i:8876452 original size:42 final size:41
Alignment explanation
Indices: 8876406--8876569 Score: 139
Period size: 42 Copynumber: 3.9 Consensus size: 41
8876396 CGATGACAGT
*
8876406 GGCCTCTTGAACAGTGGGAGGGGACTCTCAAGGAATGATAGG
1 GGCCTCTTGAAC-GTGGGAGGGGACTCTCGAGGAATGATAGG
* * ** * * * *
8876448 GGCCTCTTCAACGATAGGAGTTGACTCTTGAGGGATGACAGT
1 GGCCTCTTGAACG-TGGGAGGGGACTCTCGAGGAATGATAGG
* * *
8876490 GGCCTCTTGAATGGTGAGAGGGGACTCTCGAGGAATAATAGG
1 GGCCTCTTGAA-CGTGGGAGGGGACTCTCGAGGAATGATAGG
* * * * *
8876532 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTGAACG-TGGGAGGGGACTCTCGAGGAATGA
8876570 CAGGCGAGTC
Statistics
Matches: 91, Mismatches: 28, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
41 2 0.02
42 88 0.97
43 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.23
Consensus pattern (41 bp):
GGCCTCTTGAACGTGGGAGGGGACTCTCGAGGAATGATAGG
Found at i:8876511 original size:84 final size:84
Alignment explanation
Indices: 8876397--8876572 Score: 298
Period size: 84 Copynumber: 2.1 Consensus size: 84
8876387 CCTCTTCAAC
* *
8876397 GATGACAGTGGCCTCTTGAACAGTGGGAGGGGACTCTCAAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACAGTGAGAGGGGACTCTCAAGGAATAATAGGGGCCTCTTCAACGA
*
8876462 TAGGAGTTGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
** *
8876481 GATGACAGTGGCCTCTTGAATGGTGAGAGGGGACTCTCGAGGAATAATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACAGTGAGAGGGGACTCTCAAGGAATAATAGGGGCCTCTTCAACGA
8876546 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
8876565 GATGACAG
1 GATGACAG
8876573 GCGAGTCGGG
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.26, C:0.17, G:0.35, T:0.22
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACAGTGAGAGGGGACTCTCAAGGAATAATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:8876966 original size:91 final size:90
Alignment explanation
Indices: 8876791--8876975 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 90
8876781 ATTTCAAACT
*
8876791 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
8876856 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
8876884 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
8876948 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
8876975 T
1 T
8876976 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 27 0.31
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:8878606 original size:33 final size:33
Alignment explanation
Indices: 8878549--8878647 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
8878539 ACGAGATAAT
*
8878549 GAGAATCACAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
8878583 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
8878616 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
8878648 CGAAATGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
33 47 0.78
34 13 0.22
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:8878641 original size:19 final size:19
Alignment explanation
Indices: 8878524--8878669 Score: 105
Period size: 19 Copynumber: 8.1 Consensus size: 19
8878514 AGCCTTGGTT
*
8878524 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
* *
8878543 GATAATGAGAATCACAACGC
1 GA-AATGAAAATCGCAACGC
**
8878563 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
8878581 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
8878597 GAAATGACTATCGCGA--C
1 GAAATGAAAATCGCAACGC
*
8878614 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
8878630 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
8878649 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
8878668 GA
1 GA
8878670 TTTTGGTTCG
Statistics
Matches: 99, Mismatches: 16, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
14 17 0.17
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 43 0.43
20 25 0.25
21 2 0.02
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:8878689 original size:18 final size:16
Alignment explanation
Indices: 8878665--8878740 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 16
8878655 AAAATCGCAA
8878665 TGCGATTTTGGTTCGCGT
1 TGCGATTTT--TTCGCGT
*
8878683 TGTGATTTTTTCGCGT
1 TGCGATTTTTTCGCGT
* *
8878699 TGCGA--TTCTCTCGT
1 TGCGATTTTTTCGCGT
8878713 TGCGATAGTTATTTCCGCGT
1 TGCGAT--TT-TTT-CGCGT
8878733 TGCGATTT
1 TGCGATTT
8878741 CATTCTCGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
14 12 0.26
16 11 0.24
18 11 0.24
19 2 0.04
20 10 0.22
ACGTcount: A:0.09, C:0.18, G:0.26, T:0.46
Consensus pattern (16 bp):
TGCGATTTTTTCGCGT
Found at i:8879328 original size:20 final size:20
Alignment explanation
Indices: 8879243--8879336 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
8879233 CGCTATGTAA
* * *
8879243 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
*
8879263 ATCGCATTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
8879283 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
8879304 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
8879324 ATCGCATTGCGAT
1 ATCGCATTGCGAT
8879337 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 43 0.72
21 12 0.20
22 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:8879355 original size:41 final size:41
Alignment explanation
Indices: 8879263--8879357 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
8879253 GAAAGTCAGA
* * * ** *
8879263 ATCGCATTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAT
8879304 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT-CCAAT
*
8879346 -TCGCGTTGCGAT
1 ATCGCATTGCGAT
8879358 TTACTTATTC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (41 bp):
ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:8879466 original size:15 final size:15
Alignment explanation
Indices: 8879446--8879476 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8879436 GCGAAATGCA
8879446 ACGCGAATTTGCGAT
1 ACGCGAATTTGCGAT
8879461 ACGCGAATTTGCGAT
1 ACGCGAATTTGCGAT
8879476 A
1 A
8879477 ATGGAGATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (15 bp):
ACGCGAATTTGCGAT
Found at i:8880289 original size:37 final size:37
Alignment explanation
Indices: 8880229--8880350 Score: 169
Period size: 36 Copynumber: 3.4 Consensus size: 37
8880219 TATCCCATTT
* *
8880229 TCATTTTTC-AACAAACATCTACCAAACTTTGAAAAA
1 TCATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
*
8880265 TTATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
1 TCATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
* *
8880302 CCA-TTTTCAAAAAAACATTTACCAAACTTTG-AAAA
1 TCATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
8880337 TCATTTTTTCAAAG
1 TCA-TTTTTCAAAG
8880351 TTGGTTGCCA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
35 6 0.08
36 35 0.47
37 34 0.45
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (37 bp):
TCATTTTTCAAAGAAACATTTACCAAACTTTGAAAAA
Found at i:8880302 original size:21 final size:21
Alignment explanation
Indices: 8880278--8880342 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 21
8880268 TTTTTCAAAG
8880278 AAACATTTACCAAACTTTGAA
1 AAACATTTACCAAACTTTGAA
*
8880299 AAACCATTT-TC-AA-----AA
1 AAA-CATTTACCAAACTTTGAA
8880314 AAACATTTACCAAACTTTGAA
1 AAACATTTACCAAACTTTGAA
*
8880335 AATCATTT
1 AAACATTT
8880343 TTTCAAAGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 16
0.63 0.06 0.31
Matches are distributed among these distances:
14 5 0.15
15 6 0.18
16 2 0.06
20 2 0.06
21 13 0.39
22 5 0.15
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (21 bp):
AAACATTTACCAAACTTTGAA
Found at i:8881344 original size:3 final size:3
Alignment explanation
Indices: 8881331--8881393 Score: 83
Period size: 3 Copynumber: 21.3 Consensus size: 3
8881321 ATAATTATTG
* * * *
8881331 TAT TAT AAT TAT TAT TA- TAA TAA AAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8881378 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
8881394 TTACAACGTT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:8881363 original size:29 final size:31
Alignment explanation
Indices: 8881312--8881380 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 31
8881302 GAGAAATAAA
8881312 TATTATATAATAATTATTGTATTATAATTAT
1 TATTATATAATAATTATTGTATTATAATTAT
* *
8881343 TATTATAATAA-AATTATTATTATTATTATTAT
1 TATTAT-ATAATAATTATT-GTATTATAATTAT
8881375 TATTAT
1 TATTAT
8881381 TATTATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
31 13 0.38
32 21 0.62
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (31 bp):
TATTATATAATAATTATTGTATTATAATTAT
Found at i:8881689 original size:26 final size:26
Alignment explanation
Indices: 8881653--8881709 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
8881643 CTTTCGGGAT
8881653 TTCACTTCACCAAATCAGAGAAATAA
1 TTCACTTCACCAAATCAGAGAAATAA
8881679 TTCACTTCACCAAATCAGAGAAATAA
1 TTCACTTCACCAAATCAGAGAAATAA
8881705 TTCAC
1 TTCAC
8881710 CTACTTCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.44, C:0.25, G:0.07, T:0.25
Consensus pattern (26 bp):
TTCACTTCACCAAATCAGAGAAATAA
Found at i:8884037 original size:130 final size:130
Alignment explanation
Indices: 8883883--8884142 Score: 520
Period size: 130 Copynumber: 2.0 Consensus size: 130
8883873 GACACGGTTT
8883883 TCAAAATCTCGCCACTCATAAAAAAATTGTTTCGACAGCTTGGCGATTCTGCTGGGGACTTTTTT
1 TCAAAATCTCGCCACTCATAAAAAAATTGTTTCGACAGCTTGGCGATTCTGCTGGGGACTTTTTT
8883948 ATAGGATCAAGCTGATAATCGATTAATTAATTGTCTTTGCAAACAAAATTTATAAGTTCGTTCTA
66 ATAGGATCAAGCTGATAATCGATTAATTAATTGTCTTTGCAAACAAAATTTATAAGTTCGTTCTA
8884013 TCAAAATCTCGCCACTCATAAAAAAATTGTTTCGACAGCTTGGCGATTCTGCTGGGGACTTTTTT
1 TCAAAATCTCGCCACTCATAAAAAAATTGTTTCGACAGCTTGGCGATTCTGCTGGGGACTTTTTT
8884078 ATAGGATCAAGCTGATAATCGATTAATTAATTGTCTTTGCAAACAAAATTTATAAGTTCGTTCTA
66 ATAGGATCAAGCTGATAATCGATTAATTAATTGTCTTTGCAAACAAAATTTATAAGTTCGTTCTA
8884143 ATTTGGTTTT
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 130 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.35
Consensus pattern (130 bp):
TCAAAATCTCGCCACTCATAAAAAAATTGTTTCGACAGCTTGGCGATTCTGCTGGGGACTTTTTT
ATAGGATCAAGCTGATAATCGATTAATTAATTGTCTTTGCAAACAAAATTTATAAGTTCGTTCTA
Found at i:8884427 original size:66 final size:66
Alignment explanation
Indices: 8884321--8884455 Score: 234
Period size: 66 Copynumber: 2.0 Consensus size: 66
8884311 CTTTCGATAT
* *
8884321 TTAGAGCCTTCTTATTGTGCTATTTCCCGTTAGGTAGGGGTAAACGCTACGCTTACGTGAGAAAA
1 TTAGAGCCTTCTTATTGTGCTATGTCCCGTTAGGTAGGGGTAAACACTACGCTTACGTGAGAAAA
8884386 A
66 A
* *
8884387 TTAGAGCCTTCTTATTGTGCTCTGTCCCGTTAGGTAGGGGTGAACACTACGCTTACGTGAGAAAA
1 TTAGAGCCTTCTTATTGTGCTATGTCCCGTTAGGTAGGGGTAAACACTACGCTTACGTGAGAAAA
8884452 A
66 A
8884453 TTA
1 TTA
8884456 TTTTTCTCCG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (66 bp):
TTAGAGCCTTCTTATTGTGCTATGTCCCGTTAGGTAGGGGTAAACACTACGCTTACGTGAGAAAA
A
Found at i:8885506 original size:6 final size:6
Alignment explanation
Indices: 8885495--8885522 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8885485 TAACACCCCG
8885495 TGCATT TGCATT TGCATT TGCATT TGCA
1 TGCATT TGCATT TGCATT TGCATT TGCA
8885523 CTCACATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (6 bp):
TGCATT
Found at i:8889444 original size:2 final size:2
Alignment explanation
Indices: 8889437--8889471 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
8889427 GTACCCAACA
8889437 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8889472 GGGTATACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8890805 original size:125 final size:125
Alignment explanation
Indices: 8890647--8890953 Score: 395
Period size: 125 Copynumber: 2.5 Consensus size: 125
8890637 GGGGCATGGT
* * * *
8890647 TGAAGCCACATCATGTTGAGATTACCAGATTCAGAACAAGTAGGCATTGAGAATGAGCCTTACAA
1 TGAACCCACATCATGTTGAGATAACAAGATTCAGACCAAGTAGGCATTGAGAATGAGCCTTACAA
*
8890712 TTTGAGGTGATGAGGCATTTTGGAA-GCCCGTACTAGTATAAGATAATGTGGGGGCACGAC
66 TTTGAGGTGATGAGGCATTTT-GAAGGCCCGTACTAGTATAAGATAAGGTGGGGGCACGAC
* * * *
8890772 TGAACCCACATAATGTTGAGATGACAAGATTCAGACCAAGGAGGCA-TGAAGAATGAGCCTTATA
1 TGAACCCACATCATGTTGAGATAACAAGATTCAGACCAAGTAGGCATTG-AGAATGAGCCTTACA
* * ** *
8890836 ATTTGGGGTGATGGGGCATTTTGAAGGCTTGTACTAGTATAAGATAAGGTTGGGGCACGAC
65 ATTTGAGGTGATGAGGCATTTTGAAGGCCCGTACTAGTATAAGATAAGGTGGGGGCACGAC
* * * * *
8890897 TGAACCCACGTCATGATGAGAAAACAATATTCAGACCAA-TAAGTCATTGAGAATGAG
1 TGAACCCACATCATGTTGAGATAACAAGATTCAGACCAAGT-AGGCATTGAGAATGAG
8890954 TCTCGCAACT
Statistics
Matches: 157, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
124 5 0.03
125 150 0.96
126 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (125 bp):
TGAACCCACATCATGTTGAGATAACAAGATTCAGACCAAGTAGGCATTGAGAATGAGCCTTACAA
TTTGAGGTGATGAGGCATTTTGAAGGCCCGTACTAGTATAAGATAAGGTGGGGGCACGAC
Found at i:8891803 original size:39 final size:41
Alignment explanation
Indices: 8891713--8891816 Score: 115
Period size: 39 Copynumber: 2.6 Consensus size: 41
8891703 TCCAAAATTT
* *
8891713 ATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAACATGATGC
1 ATAAGTCCTTCGGGCCATCA-TAAGCCTTTCGAACAAGATGC
* * * *
8891755 TTAA-ACCTTCGGGTCATC-TAAGCCTTTCGAGCAAGATG-
1 ATAAGTCCTTCGGGCCATCATAAGCCTTTCGAACAAGATGC
8891793 ATAAGTCCTTCGGGCCATCCATAA
1 ATAAGTCCTTCGGGCCAT-CATAA
8891817 AACCTTCGGG
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
38 3 0.06
39 28 0.56
40 1 0.02
41 15 0.30
42 3 0.06
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (41 bp):
ATAAGTCCTTCGGGCCATCATAAGCCTTTCGAACAAGATGC
Found at i:8892202 original size:216 final size:216
Alignment explanation
Indices: 8891708--8892679 Score: 1467
Period size: 216 Copynumber: 4.6 Consensus size: 216
8891698 CTATTTCCAA
*
8891708 AATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAACATGATGCTTAAA-CCTTCGGGTCAT
1 AATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
*
8891772 C--TAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTATGA-TT
66 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTATGATTT
*
8891834 TTTCATATGAA-TTGAAAATGAAAAAAATGATG-TTTAAGAAGATGGAA---TT------AAAGA
131 TTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACAAAGA
* * * * *
8891888 TTTCTTATTTACTAAACTATTTCCAA
196 ATGC-GATTTTC-AAA--ATTT-CAC
* *
8891914 AATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAACATGATGCTTAAACCCTTCGGGTCAT
1 AATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
*
8891979 CTGTAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTATGATTT
66 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTATGATTT
*
8892044 TTTCATATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACAAAGA
131 TTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACAAAGA
8892109 ATGCGATTTTCAAAATTTCAC
196 ATGCGATTTTCAAAATTTCAC
* *
8892130 AATTTATAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGACGCTTAAATCCTTCGGGTCAT
1 AATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
* * *
8892195 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGTCATCCATAAGACCTTCGGGTA-GAATG
66 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTATG-ATT
* * * * *
8892259 TTTTCACATGAATTTGAAAATG--AAAAATGAAGTTTTAAGAATATGAAATATTTGAAAACTAAG
130 TTTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACAAAG
*
8892322 AATGAGATTTTCAAAATTTCAC
195 AATGCGATTTTCAAAATTTCAC
* *
8892344 AATTTATAAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGCCAT
1 AATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
* *
8892409 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTTGGGTATGATAT
66 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTATGATTT
*
8892474 TTTCACATGAATTTGAAAATGAAAAAAATGATGTTCTAAGAAGATGGAATTTTTGAAAACAAAGA
131 TTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACAAAGA
*
8892539 ATGTGATTTTCAAAATTTCAC
196 ATGCGATTTTCAAAATTTCAC
* * *
8892560 AATTTATAAGTCATTCGGGCCATCAGTAAGTATTTCGAGCATGATGCTTAAATTCTTCGGGTCAT
1 AATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
8892625 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAGACCTTC
66 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAA-ACCTTC
8892680 ATGTAGGATG
Statistics
Matches: 706, Mismatches: 40, Indels: 29
0.91 0.05 0.04
Matches are distributed among these distances:
206 52 0.07
207 13 0.02
209 59 0.08
210 13 0.02
211 21 0.03
212 15 0.02
214 198 0.28
215 4 0.01
216 307 0.43
217 9 0.01
219 3 0.00
220 5 0.01
221 7 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (216 bp):
AATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTATGATTT
TTTCACATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGAATTTTTGAAAACAAAGA
ATGCGATTTTCAAAATTTCAC
Found at i:8892232 original size:41 final size:42
Alignment explanation
Indices: 8892135--8892236 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 42
8892125 TTCACAATTT
* * * * *
8892135 ATAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGACGC
1 ATAAGTCCTTCGGGTCATCAGTAAGCCTTTAGAGCAAGACGC
* * * *
8892177 TTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG-
1 ATAAGTCCTTCGGGTCATCAGTAAGCCTTTAGAGCAAGACGC
8892218 ATAAGTCCTTCGGGTCATC
1 ATAAGTCCTTCGGGTCATC
8892237 CATAAGACCT
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 17 0.35
42 32 0.65
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (42 bp):
ATAAGTCCTTCGGGTCATCAGTAAGCCTTTAGAGCAAGACGC
Found at i:8892426 original size:42 final size:41
Alignment explanation
Indices: 8892357--8892450 Score: 125
Period size: 42 Copynumber: 2.3 Consensus size: 41
8892347 TTATAAGTCT
* * * *
8892357 TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCC
1 TTCGGGCCATCAGTAAGCCTTTAGAGCAAGATG-ATAAATCC
* *
8892399 TTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCC
1 TTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGATAAATCC
8892440 TTCGGGCCATC
1 TTCGGGCCATC
8892451 CATAAAACCT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 17 0.37
42 29 0.63
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (41 bp):
TTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGATAAATCC
Found at i:8892500 original size:430 final size:423
Alignment explanation
Indices: 8891708--8892679 Score: 1476
Period size: 430 Copynumber: 2.3 Consensus size: 423
8891698 CTATTTCCAA
*
8891708 AATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAACATGATGCTTAAA-CCTTCGGGTCAT
1 AATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
* *
8891772 C--TAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTATGATTT
66 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTATGATTT
* * * * **
8891835 TTCATATGAATTGAAAATGAAAAAAATGATGTTTAAGAAGATGGAATTAAAGATTTCTTATTTAC
131 TTCACATGAATTGAAAATG-AAAAAATGAAGTTTAAGAAGATGAAATTAAAGATATCAGATTTAC
8891900 TAAACTATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAACATGATGCTTAA
195 TAAAC-ATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAACATGATGCTTAA
* *
8891965 ACCCTTCGGGTCATCTGTAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACC
259 ACCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACC
* * *
8892030 TTCGGGTATGATTTTTTCATATGAATTTGAAAATGAAAAAAATGATGTTTTAAGAAGATGGAATT
324 TTCGGGTATGATATTTTCACATGAATTTGAAAATGAAAAAAATGATGTTCTAAGAAGATGGAATT
8892095 TTTGAAAACAAAGAATGCGATTTTCAAAATTTCAC
389 TTTGAAAACAAAGAATGCGATTTTCAAAATTTCAC
* *
8892130 AATTTATAAGTCCTTCGAGCCATCAGTAAGTCTTTCGAGCATGACGCTTAAATCCTTCGGGTCAT
1 AATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
*
8892195 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGTCATCCATAAGACCTTCGGGTA-GAATG
66 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTATG-AT-
*
8892259 TTTTCACATGAATTTGAAAATG-AAAAATGAAGTTTTAAGAATATGAAATATTTGAAA-ACTAAG
129 TTTTCACATGAA-TTGAAAATGAAAAAATGAAG-TTTAAGAAGATG-AA-A-TT-AAAGA-T---
* * * * *
8892322 AATGAGATTTTC-AAA-ATTT-CACAATTTATAAGTCTTTCGGGCCATCAGTAAGTCTTTCGAGC
184 -ATCAGATTTACTAAACATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAAC
*
8892384 ATGATGCTTAAATCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCA
248 ATGATGCTTAAACCCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCA
*
8892449 TCCATAAAACCTTTGGGTATGATATTTTCACATGAATTTGAAAATGAAAAAAATGATGTTCTAAG
313 TCCATAAAACCTTCGGGTATGATATTTTCACATGAATTTGAAAATGAAAAAAATGATGTTCTAAG
*
8892514 AAGATGGAATTTTTGAAAACAAAGAATGTGATTTTCAAAATTTCAC
378 AAGATGGAATTTTTGAAAACAAAGAATGCGATTTTCAAAATTTCAC
* * *
8892560 AATTTATAAGTCATTCGGGCCATCAGTAAGTATTTCGAGCATGATGCTTAAATTCTTCGGGTCAT
1 AATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
8892625 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAGACCTTC
66 CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCAT-AAGACCTTC
8892680 ATGTAGGATG
Statistics
Matches: 501, Mismatches: 32, Indels: 25
0.90 0.06 0.04
Matches are distributed among these distances:
422 49 0.10
423 13 0.03
424 1 0.00
425 64 0.13
426 22 0.04
427 10 0.02
428 1 0.00
429 3 0.01
430 316 0.63
431 13 0.03
433 3 0.01
434 6 0.01
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (423 bp):
AATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAT
CTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTATGATTT
TTCACATGAATTGAAAATGAAAAAATGAAGTTTAAGAAGATGAAATTAAAGATATCAGATTTACT
AAACATTTCCAAAATTTATAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAACATGATGCTTAAAC
CCTTCGGGCCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTT
CGGGTATGATATTTTCACATGAATTTGAAAATGAAAAAAATGATGTTCTAAGAAGATGGAATTTT
TGAAAACAAAGAATGCGATTTTCAAAATTTCAC
Found at i:8892620 original size:42 final size:41
Alignment explanation
Indices: 8892573--8892666 Score: 98
Period size: 42 Copynumber: 2.3 Consensus size: 41
8892563 TTATAAGTCA
* * * * *
8892573 TTCGGGCCATCAGTAAGTATTTCGAGCATGATGCTTAAATTC
1 TTCGGGCCATCAGTAAGCATTTAGAGCAAGATG-ATAAATCC
* * * *
8892615 TTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCC
1 TTCGGGCCATCAGTAAGCATTTAGAGCAAGATGATAAATCC
8892656 TTCGGGCCATC
1 TTCGGGCCATC
8892667 CATAAAGACC
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
41 15 0.36
42 27 0.64
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (41 bp):
TTCGGGCCATCAGTAAGCATTTAGAGCAAGATGATAAATCC
Done.