Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 17 of 295
Found at i:5007626 original size:16 final size:15
Alignment explanation
Indices: 5007602--5007631 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
5007592 TAAAAATCAA
5007602 ATAAAATTACATTAT
1 ATAAAATTACATTAT
5007617 ATAAACATTACATTA
1 ATAAA-ATTACATTA
5007632 AAAAAATCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAAAATTACATTAT
Found at i:5007905 original size:107 final size:106
Alignment explanation
Indices: 5007621--5007912 Score: 400
Period size: 103 Copynumber: 2.8 Consensus size: 106
5007611 CATTATATAA
*
5007621 ACATTACATT-AAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATCAT
1 ACATTAC-TTAAAAAAAATCACAAAACACTATACTAAACACTAACAATTTATATAACCTAATCAT
5007685 AAATTACTAACAAAATAACTATAAAATTATTTTTAAAAAAAT
65 AAATTACTAACAAAATAACTATAAAATTATTTTTAAAAAAAT
*
5007727 ACATTA---ATAAAAAATCACAAAACAC-ATAACTAAACACTAACAATTTATATAACCTAATCAT
1 ACATTACTTAAAAAAAATCACAAAACACTAT-ACTAAACACTAACAATTTATATAACCTAATCAT
* * * *
5007788 GAATTACTAACAAAATATCTATAAAATTGTTTTTTAAAAAATT
65 AAATTACTAACAAAATAACTATAAAATT-ATTTTTAAAAAAAT
* * *
5007831 ACATTACTTAAAAAAAATCACAAAACCCTATACTAAATACTAACAA-TT-TGTAACCTAATCTCA
1 ACATTACTTAAAAAAAATCACAAAACACTATACTAAACACTAACAATTTATATAACCTAA--TCA
*
5007894 TAAATCACTAACAAAATAA
64 TAAATTACTAACAAAATAA
5007913 ATAACTATAA
Statistics
Matches: 164, Mismatches: 13, Indels: 17
0.85 0.07 0.09
Matches are distributed among these distances:
102 1 0.01
103 76 0.46
104 18 0.11
105 9 0.05
106 8 0.05
107 50 0.30
108 2 0.01
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.28
Consensus pattern (106 bp):
ACATTACTTAAAAAAAATCACAAAACACTATACTAAACACTAACAATTTATATAACCTAATCATA
AATTACTAACAAAATAACTATAAAATTATTTTTAAAAAAAT
Found at i:5008168 original size:60 final size:60
Alignment explanation
Indices: 5008095--5008213 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
5008085 ATACTAAACT
* * * *
5008095 AAACACAAAAATTTATAATATAATCTTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAAACATAAATTACTAACAAATTAATTTTAAAATAATTAC
*
5008155 AAACACAACAATTTATAACATAAACATAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAAACATAAATTACTAACAAATTAATTTTAAAATAATTA
5008214 TAAAAAATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAAACATAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:5008706 original size:20 final size:20
Alignment explanation
Indices: 5008656--5008708 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
5008646 TATTAAAAAA
5008656 ATAAAATAAA-AATATTTTAT
1 ATAAAA-AAAGAATATTTTAT
*
5008676 TTAAAGTAAAAAGAATATTTTAT
1 AT-AA--AAAAAGAATATTTTAT
5008699 ATAAAAAAAG
1 ATAAAAAAAG
5008709 TGGTTGTGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
20 7 0.26
21 2 0.07
22 5 0.19
23 13 0.48
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (20 bp):
ATAAAAAAAGAATATTTTAT
Found at i:5013035 original size:24 final size:25
Alignment explanation
Indices: 5012989--5013036 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
5012979 ATTATTATTC
* *
5012989 TTTAATATATATGTTATGCATATAT
1 TTTAATATATATATTATACATATAT
*
5013014 TTTAATAT-TATATTATATATATA
1 TTTAATATATATATTATACATATA
5013037 CATTTTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 12 0.60
25 8 0.40
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTAATATATATATTATACATATAT
Found at i:5013102 original size:26 final size:27
Alignment explanation
Indices: 5013059--5013109 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
5013049 CTATGCATAC
* **
5013059 ATACTTTTAACATTATATT-TATATGT
1 ATACTCTTAACACCATATTATATATGT
5013085 ATACTCTTAACACCATATTATATAT
1 ATACTCTTAACACCATATTATATAT
5013110 ATCTTGTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.47
Consensus pattern (27 bp):
ATACTCTTAACACCATATTATATATGT
Found at i:5013254 original size:22 final size:22
Alignment explanation
Indices: 5013206--5013270 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 22
5013196 TTTTAATACC
5013206 ATAATATATATTATCATATTTTATTAT
1 ATAAT-TATA-TAT-ATATTTTA-T-T
5013233 ATAATTAGTATATATATTTTATT
1 ATAATTA-TATATATATTTTATT
*
5013256 ATACTTATATATATA
1 ATAATTATATATATA
5013271 CCTTTTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
22 8 0.22
23 7 0.19
24 1 0.03
25 8 0.22
26 5 0.14
27 7 0.19
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (22 bp):
ATAATTATATATATATTTTATT
Found at i:5015902 original size:30 final size:30
Alignment explanation
Indices: 5015866--5015927 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
5015856 TTTTGAAAAA
5015866 CAGAAATT-AAAAGACTCAACTCAACTCTCG
1 CAGAAATTAAAAAG-CTCAACTCAACTCTCG
*
5015896 CAGAAATTAAAAAGCTCAACTCACCTCTCG
1 CAGAAATTAAAAAGCTCAACTCAACTCTCG
5015926 CA
1 CA
5015928 ATATGAGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.42, C:0.29, G:0.10, T:0.19
Consensus pattern (30 bp):
CAGAAATTAAAAAGCTCAACTCAACTCTCG
Found at i:5016092 original size:84 final size:81
Alignment explanation
Indices: 5015710--5016435 Score: 304
Period size: 77 Copynumber: 8.9 Consensus size: 81
5015700 AAAAATAGAA
*
5015710 ATTGAAAATAGCTC-AGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 ATTGAAAATACCTCGA-CACGTGA-CCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
**
5015774 TG-AAACTTAA-CTTGAAAAGC
63 TGAAAACAGAATC-T-AAAA-C
* * * *
5015794 AGATTTTGAAAATACCTCGATATGTGACTAAGGTTCAACTCA-CTCTCGCAATATGAGTTGATTT
1 --A--TTGAAAATACCTCGACACGTGACCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*
5015858 TTGAAAAACAGAAAT-TAAAAG
62 TTG-AAAACAG-AATCTAAAAC
* * * * ** * * *
5015879 ACT-CAACTCAACTCTCGCAGAAATTA-AAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATT
1 ATTGAAAAT--AC-CTCG-ACACGTGACCAAGGCTCAACTCACCTCTCGCAATATGAGTTG-A--
* * * *
5015942 TTTTTGAAAAAAAAAAC-AGAA-
59 TTTTTGAAAACAGAATCTAAAAC
* *
5015963 ATTGAAAATAGCTC-AGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
1 ATTGAAAATACCTCGA-CACGTGA-CCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
5016027 GAAAACAGAATCTGAAAAC
64 GAAAACAGAATCT-AAAAC
* * * *
5016046 ATTTTGAAAATACCTCGACATGTGACCGAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTT
1 A--TTGAAAATACCTCGACACGTGACCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*** *
5016111 -TTGA-A-AA--TATAA-
64 GAAAACAGAATCTAAAAC
*** *
5016123 ATTGAAAAAATACCTC-AGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATT
1 ATTG--AAAATACCTCGA-CACGTGA-C-CAAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*** *
5016186 TTTTTGAA-AG-A-C-AGAA-
61 TTTGAAAACAGAATCTAAAAC
* *
5016202 ATTGAAAATAGCTC-AGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 ATTGAAAATACCTCGA-CACGTGA-CCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TT
*
5016266 TTTGAAAGGCAGAAAT-TGAAAAC
61 TTTGAAA-ACAG-AATCT-AAAAC
** * * *
5016289 GAAATTGAAAATACCTC-ACGTGTGACCTGAGGCTCAACT---CTCT-ACAATACGAGTTGATTT
1 ---ATTGAAAATACCTCGACACGTGACC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
*** *
5016349 TT-TTGAC--AA-C-AGAA-
62 TTGAAAACAGAATCTAAAAC
* * * *
5016363 ATTGAAATTACCTC-A-GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 ATTGAAAATACCTCGACACGTGACC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT
5016426 GAAAACAGAA
64 GAAAACAGAA
5016436 ATTGAAAATA
Statistics
Matches: 498, Mismatches: 83, Indels: 126
0.70 0.12 0.18
Matches are distributed among these distances:
70 18 0.04
71 14 0.03
73 4 0.01
74 12 0.02
75 11 0.02
76 5 0.01
77 65 0.13
78 39 0.08
79 13 0.03
80 25 0.05
81 6 0.01
82 17 0.03
83 49 0.10
84 62 0.12
85 45 0.09
86 37 0.07
87 24 0.05
88 21 0.04
89 17 0.03
90 14 0.03
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (81 bp):
ATTGAAAATACCTCGACACGTGACCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
AAACAGAATCTAAAAC
Found at i:5016211 original size:77 final size:75
Alignment explanation
Indices: 5016073--5016618 Score: 551
Period size: 73 Copynumber: 7.2 Consensus size: 75
5016063 ACATGTGACC
* * * *
5016073 GAGGCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAATATAAATTGAAAAAATACCT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTG--AAAATACCT
*
5016138 CAGTGTGTGATCT
64 CAGCGTGT-ATCT
* *
5016151 GAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATAGCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTC
* * *
5016216 AGCGCGTGAGCC
65 AGCGTGT-ATCT
* *
5016228 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGGCAGAAATTGAAAACGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTT--------G-AA---AACA-GAAA
*
5016293 TTGAAAATACCTCA-CGTGTGACCT
52 TTGAAAATACCTCAGCGTGT-ATCT
* * * *
5016317 GAGGCTCAACT---CTCT-ACAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCA
*
5016378 GCGTGT-CCT
66 GCGTGTATCT
5016387 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCA
* *
5016451 GCATGTCT-T
66 GCGTGTATCT
** * *
5016460 GAGGCTCAACTCATTTCTCACAATATGAGTTGATTTTTTTTTAAAACAGAAATTG-AAATACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAACAGAAATTGAAAATACCTC
* *
5016524 AGCATGTCT-T
65 AGCGTGTATCT
* *
5016534 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCA
*
5016597 GCGTGTCT-T
66 GCGTGTATCT
5016606 GAGGCTCAACTCA
1 GAGGCTCAACTCA
5016619 TTTTGAACAG
Statistics
Matches: 404, Mismatches: 40, Indels: 54
0.81 0.08 0.11
Matches are distributed among these distances:
70 14 0.03
71 34 0.08
72 38 0.09
73 69 0.17
74 61 0.15
75 20 0.05
76 1 0.00
77 48 0.12
78 48 0.12
79 8 0.02
84 7 0.02
85 12 0.03
86 5 0.01
87 2 0.00
89 19 0.05
90 18 0.04
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.30
Consensus pattern (75 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCA
GCGTGTATCT
Found at i:5016230 original size:239 final size:239
Alignment explanation
Indices: 5015701--5016498 Score: 873
Period size: 253 Copynumber: 3.3 Consensus size: 239
5015691 ACAGACATTA
*
5015701 AAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
** * ** *
5015766 TGATTTTTTG-AAACTTAA-CTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTAAGGTT
66 TGATTTTTTGAAAACAGAATC-TGAAAA-C-GATTTTGAAAATACCTCGACATGTGACCGAGGCT
* * *
5015829 CAACTCACTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT-AAAAGACTCAACTCAAC
128 CAACTCACTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTGAAAA-AAT-ACCTC-AG
* * *
5015891 TCTCGCAGAAAT-TAAAAAGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTG
189 TGT-G-TG--ATCT--GAAGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTG
*
5015948 AAAAAAAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACTTCTCGCAAT
1 ------AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAAT
5016013 ATGAGTTGA-TTTTTGAAAACAGAATCTGAAAAC-ATTTTGAAAATACCTCGACATGTGACCGAG
60 ATGAGTTGATTTTTTGAAAACAGAATCTGAAAACGATTTTGAAAATACCTCGACATGTGACCGAG
* * *
5016076 GCTCAACTCACATCTCGCAATGTGAGTTGATTTTTTTGAAAATATAAATTGAAAAAATACCTCAG
125 GCTCAACTCAC-TCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAAATACCTCAG
5016141 TGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
189 TGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
5016192 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAA-ACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
* ** *
5016257 TTGATTTTTTTTGAAAGGCAGAAAT-TGAAAACGAAATTGAAAATACCTC-ACGTGTGACCTGAG
65 TTGA--TTTTTTGAAA-ACAG-AATCTGAAAACGATTTTGAAAATACCTCGACATGTGACC-GAG
* * * * *
5016320 GCTCAACT--CTCT-ACAATACGAGTTGATTTTTTTGACAACAGAAATTG--AAATTACCTCAGC
125 GCTCAACTCACTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAAATACCTCAGT
* *
5016380 GTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG
190 GTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
* * ** ** *
5016427 AAAACAGAAATTGAAAATACCTCAGCA--TG-TCTTGAGGCTCAACTCATTTCTCACAATATGAG
1 AAAACAGAAATTGAAAATAGCTCAGCACGTGAGC-CAAGGCTCAACTCACCTCTCGCAATATGAG
5016489 TTGATTTTTT
65 TTGATTTTTT
5016499 TTTAAAACAG
Statistics
Matches: 488, Mismatches: 41, Indels: 55
0.84 0.07 0.09
Matches are distributed among these distances:
230 6 0.01
231 1 0.00
232 31 0.06
234 22 0.05
235 10 0.02
236 34 0.07
238 18 0.04
239 63 0.13
240 29 0.06
241 3 0.01
242 10 0.02
243 19 0.04
244 37 0.08
245 31 0.06
246 2 0.00
247 1 0.00
248 1 0.00
249 1 0.00
250 40 0.08
251 21 0.04
252 19 0.04
253 88 0.18
254 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (239 bp):
AAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAACAGAATCTGAAAACGATTTTGAAAATACCTCGACATGTGACCGAGGCTCAA
CTCACTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAAAATACCTCAGTGTGTGA
TCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:5016544 original size:147 final size:145
Alignment explanation
Indices: 5016281--5016621 Score: 514
Period size: 147 Copynumber: 2.4 Consensus size: 145
5016271 AAGGCAGAAA
*
5016281 TTGAAAAC-GAAATTGAAAATACCTCA-CGTGTGACCTGAGGCTCAACTC---TCTACAATACGA
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGT--CTTGAGGCTCAACTCATTTCTACAATACGA
* *
5016341 GTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
64 GTTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTC
*
5016406 GCAATATGAGTTGATTTT
129 GCAATATGAGTTGA-ATT
* *
5016424 TTGAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCACAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCT-ACAATACGAG
* *
5016489 TTGATTTTTTTTTAAAACAGAAATTGAAA-TACCTCAGCATGTCTTGAGGCTCAACTCACCTCTC
65 TTGA-TTTTTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTC
5016553 GCAATATGAGTTGAATT
129 GCAATATGAGTTGAATT
*
5016570 TTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTT
5016622 TGAACAGAAA
Statistics
Matches: 181, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
143 22 0.12
144 18 0.10
145 4 0.02
146 55 0.30
147 60 0.33
148 22 0.12
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (145 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCATTTCTACAATACGAGT
TGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGC
AATATGAGTTGAATT
Found at i:5016632 original size:49 final size:49
Alignment explanation
Indices: 5016575--5016670 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
5016565 GAATTTTGAA
*
5016575 AACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
5016624 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
5016671 CTCGCAATAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (49 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:5016659 original size:121 final size:120
Alignment explanation
Indices: 5016504--5016742 Score: 424
Period size: 121 Copynumber: 2.0 Consensus size: 120
5016494 TTTTTTTTAA
*
5016504 AACAGAAATTGAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
1 AACAGAAATTGAAATACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
*
5016569 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
66 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
* **
5016624 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAA-TACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA
5016689 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
65 TTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
5016743 CTCGCAATAT
Statistics
Matches: 113, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
120 14 0.12
121 99 0.88
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (120 bp):
AACAGAAATTGAAATACCTCAACATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAT
TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:5016704 original size:72 final size:72
Alignment explanation
Indices: 5016624--5016849 Score: 285
Period size: 72 Copynumber: 3.0 Consensus size: 72
5016614 ACTCATTTTG
5016624 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
5016689 TTTTGAA
66 TTTTGAA
5016696 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
5016761 TTTTTTTTTTGAA
66 ------TTTTGAA
* * * * ** *
5016774 AGACAGAAATTGAAAATACCTCAGCATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATGAGC
1 A-ACAGAAATTGAAATTACCTCA--ACGTG-TCTTGAGGCTCAACTCATTTCTCGCAATATGAGT
5016838 TG-ATTTTGAA
62 TGAATTTTGAA
5016848 AA
1 AA
5016850 AGTAGAAATT
Statistics
Matches: 137, Mismatches: 7, Indels: 19
0.84 0.04 0.12
Matches are distributed among these distances:
72 65 0.47
73 1 0.01
74 8 0.06
78 8 0.06
79 20 0.15
80 1 0.01
81 33 0.24
82 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (72 bp):
AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:5017052 original size:54 final size:53
Alignment explanation
Indices: 5016952--5017056 Score: 140
Period size: 54 Copynumber: 1.9 Consensus size: 53
5016942 GACCTGAGGC
*
5016952 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTAAAAGGT
* * *
5017006 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTAAAA
5017057 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
54 36 0.80
55 5 0.11
56 4 0.09
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (53 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTAAAAGGT
Found at i:5017191 original size:54 final size:54
Alignment explanation
Indices: 5017091--5017196 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
5017081 GACCTGAGGC
*
5017091 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
5017145 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
5017197 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:5017292 original size:140 final size:140
Alignment explanation
Indices: 5016769--5017394 Score: 1177
Period size: 139 Copynumber: 4.5 Consensus size: 140
5016759 AATTTTTTTT
5016769 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
5016833 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
5016898 TTGAACAAC-TAAA
127 TTGAACAACGTAAA
5016911 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
5016976 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
5017041 ACAACGTAAA
131 ACAACGTAAA
*
5017051 TT-AAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
5017115 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
5017180 ACAACGTAAA
131 ACAACGTAAA
5017190 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
5017255 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
5017320 ACAACGTAAA
131 ACAACGTAAA
5017330 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
5017395 TTGAAATTAA
Statistics
Matches: 477, Mismatches: 4, Indels: 8
0.98 0.01 0.02
Matches are distributed among these distances:
138 3 0.01
139 238 0.50
140 207 0.43
141 23 0.05
142 6 0.01
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACGTAAA
Found at i:5017307 original size:279 final size:279
Alignment explanation
Indices: 5016769--5017394 Score: 1175
Period size: 279 Copynumber: 2.2 Consensus size: 279
5016759 AATTTTTTTT
5016769 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
5016833 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
5016898 TTGAACAACTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCT
127 TTGAACAACTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCT
*
5016963 CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATG
192 CTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATG
5017028 AGTTGATTCTTGAACAACGTAAA
257 AGTTGATTCTTGAACAACGTAAA
*
5017051 TT-AAAACAGAAATTGAAAATACCTTAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
5017115 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
5017180 ACAACGTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTC
131 ACAAC-TAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTC
5017245 GCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGT
195 GCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGT
5017310 TGATTCTTGAACAACGTAAA
260 TGATTCTTGAACAACGTAAA
5017330 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
5017395 TTGAAATTAA
Statistics
Matches: 338, Mismatches: 3, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
277 3 0.01
278 102 0.30
279 145 0.43
280 83 0.25
281 3 0.01
282 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (279 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACTAAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCG
CAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTT
GATTCTTGAACAACGTAAA
Found at i:5017331 original size:54 final size:54
Alignment explanation
Indices: 5017231--5017336 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
5017221 GACCTGAGGC
*
5017231 TCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* *
5017285 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
5017337 CAGAAATTGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
54 33 0.72
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:5017461 original size:72 final size:71
Alignment explanation
Indices: 5017327--5017485 Score: 237
Period size: 72 Copynumber: 2.2 Consensus size: 71
5017317 TGAACAACGT
* * * *
5017327 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
5017392 GAGTTG
66 GAGTTG
*
5017398 AAATTAAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
5017463 TGAGTTG
65 TGAGTTG
**
5017470 ATTTTGAAAAACAAAA
1 AAATT-AAAAACAAAA
5017486 TTAAAAGGCT
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
71 8 0.10
72 67 0.85
73 4 0.05
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:5017584 original size:121 final size:123
Alignment explanation
Indices: 5017367--5017611 Score: 388
Period size: 121 Copynumber: 2.0 Consensus size: 123
5017357 GCGTGACCTG
* *
5017367 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
5017432 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA-AAAATTAAA
* * * *
5017491 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
* *
5017553 TGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
5017611 A
1 A
5017612 ATACCTCAAC
Statistics
Matches: 113, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
120 10 0.09
121 68 0.60
122 7 0.06
123 1 0.01
124 27 0.24
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.24
Consensus pattern (123 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGCG
TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
Found at i:5017637 original size:70 final size:70
Alignment explanation
Indices: 5017491--5017664 Score: 219
Period size: 70 Copynumber: 2.5 Consensus size: 70
5017481 CAAAATTAAA
* * * * * *
5017491 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
5017555 CCCCG
66 CCCCG
*
5017560 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
5017624 GTCTTG
65 GCCCCG
5017630 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
5017665 CCCTTGAAAA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
69 27 0.29
70 61 0.66
71 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.28
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:5022465 original size:19 final size:20
Alignment explanation
Indices: 5022416--5022466 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 20
5022406 AGGGTTTCTT
5022416 GGTTTTTTTTTGAGTGGGTTA
1 GGTTTTTTTTT-AGTGGGTTA
*
5022437 GGTTTTTTTTT-TTGGGTTA
1 GGTTTTTTTTTAGTGGGTTA
5022456 GGTTTTTTTTT
1 GGTTTTTTTTT
5022467 GGGGGCTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.62
21 11 0.38
ACGTcount: A:0.06, C:0.00, G:0.27, T:0.67
Consensus pattern (20 bp):
GGTTTTTTTTTAGTGGGTTA
Found at i:5022469 original size:17 final size:18
Alignment explanation
Indices: 5022416--5022466 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 18
5022406 AGGGTTTCTT
5022416 GGTTTTTTTTTGAGTGGGTTA
1 GGTTTTTTTTT---TGGGTTA
5022437 GGTTTTTTTTTTTGGGTTA
1 GG-TTTTTTTTTTGGGTTA
5022456 GGTTTTTTTTT
1 GGTTTTTTTTT
5022467 GGGGGCTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.31
19 9 0.31
21 2 0.07
22 9 0.31
ACGTcount: A:0.06, C:0.00, G:0.27, T:0.67
Consensus pattern (18 bp):
GGTTTTTTTTTTGGGTTA
Found at i:5023831 original size:40 final size:39
Alignment explanation
Indices: 5023752--5023833 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 39
5023742 CTAAATTTTT
* *
5023752 TCACCTTCTTTTCCCTAACAAGATAATGGCGGGAAGTAA
1 TCACCTTCTTTTCCCTAACAAGACAATGGCCGGAAGTAA
*
5023791 TCACCTTCTTTTCCTCT-ACGAAGACGATGGCCGGAAGTAA
1 TCACCTTCTTTTCC-CTAAC-AAGACAATGGCCGGAAGTAA
5023831 TCA
1 TCA
5023834 TCAGATCGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 16 0.42
40 22 0.58
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (39 bp):
TCACCTTCTTTTCCCTAACAAGACAATGGCCGGAAGTAA
Found at i:5026306 original size:21 final size:21
Alignment explanation
Indices: 5026280--5026337 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
5026270 ATATATGCGA
*
5026280 TATTAAACATGATAATAATAG
1 TATTAAACACGATAATAATAG
5026301 TATTAAACACGATAATAATAG
1 TATTAAACACGATAATAATAG
5026322 TATTAAACACGA-AATA
1 TATTAAACACGATAATA
5026338 GAGACGAACA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 4 0.11
21 32 0.89
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (21 bp):
TATTAAACACGATAATAATAG
Found at i:5026485 original size:2 final size:2
Alignment explanation
Indices: 5026478--5026553 Score: 70
Period size: 2 Copynumber: 39.5 Consensus size: 2
5026468 ATAATATTAA
* * *
5026478 AT AT AT AT AT AC AT A- AT AT AT AT AC AT A- AT AT AT AT A- AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
5026517 AT AT AT AT ACT AA AT AT AT AT AT AC AT A- AT AT AT AT A
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A
5026554 AAATGAACAT
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
1 4 0.07
2 54 0.90
3 2 0.03
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (2 bp):
AT
Found at i:5026496 original size:13 final size:13
Alignment explanation
Indices: 5026460--5026553 Score: 115
Period size: 13 Copynumber: 7.3 Consensus size: 13
5026450 ATGAAAAGTG
5026460 TATACATAATA-A
1 TATACATAATATA
*
5026472 TATTAAAT-ATATA
1 TA-TACATAATATA
5026485 TATACATAATATA
1 TATACATAATATA
5026498 TATACATAATATA
1 TATACATAATATA
5026511 TATA-A-AATATA
1 TATACATAATATA
*
5026522 TATACTAAATATATA
1 TATAC-ATA-ATATA
5026537 TATACATAATATA
1 TATACATAATATA
5026550 TATA
1 TATA
5026554 AAATGAACAT
Statistics
Matches: 72, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
11 10 0.14
12 10 0.14
13 39 0.54
14 3 0.04
15 10 0.14
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (13 bp):
TATACATAATATA
Found at i:5026536 original size:39 final size:39
Alignment explanation
Indices: 5026460--5026557 Score: 155
Period size: 39 Copynumber: 2.5 Consensus size: 39
5026450 ATGAAAAGTG
* *
5026460 TATACATAATA-ATATTAAATATATATATACATAATATA
1 TATACATAATATATATAAAATATATATATAAATAATATA
5026498 TATACATAATATATATAAAATATATATACTAAAT-ATATA
1 TATACATAATATATATAAAATATATATA-TAAATAATATA
5026537 TATACATAATATATATAAAAT
1 TATACATAATATATATAAAAT
5026558 GAACATATAC
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
38 11 0.20
39 41 0.73
40 4 0.07
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (39 bp):
TATACATAATATATATAAAATATATATATAAATAATATA
Found at i:5026566 original size:52 final size:52
Alignment explanation
Indices: 5026475--5026576 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
5026465 ATAATAATAT
*
5026475 TAAATATATATATACATAATATATATACATAATATATATAAAATATATATAC
1 TAAATATATATATACATAATATATATACATAATACATATAAAATATATATAC
*
5026527 TAAATATATATATACATAATATATATA-A-AATGAACATATACAATATATAT
1 TAAATATATATATACATAATATATATACATAAT--ACATATAAAATATATAT
5026577 TAGAAATACT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
50 3 0.07
51 1 0.02
52 42 0.91
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.37
Consensus pattern (52 bp):
TAAATATATATATACATAATATATATACATAATACATATAAAATATATATAC
Found at i:5026572 original size:39 final size:38
Alignment explanation
Indices: 5026460--5026576 Score: 150
Period size: 39 Copynumber: 3.0 Consensus size: 38
5026450 ATGAAAAGTG
*
5026460 TATACATAATA-ATATTAAATATATATATAC-ATAATATA
1 TATACATAATATATATAAAATA-ATATATACAAT-ATATA
5026498 TATACATAATATATATAAAAT-ATATATACTAAATATATA
1 TATACATAATATATATAAAATAATATATAC--AATATATA
*
5026537 TATACATAATATATATAAAATGAACATATACAATATATA
1 TATACATAATATATATAAAAT-AATATATACAATATATA
5026576 T
1 T
5026577 TAGAAATACT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
37 8 0.11
38 11 0.15
39 43 0.61
40 2 0.03
41 7 0.10
ACGTcount: A:0.56, C:0.06, G:0.01, T:0.38
Consensus pattern (38 bp):
TATACATAATATATATAAAATAATATATACAATATATA
Found at i:5026584 original size:52 final size:52
Alignment explanation
Indices: 5026476--5026596 Score: 144
Period size: 52 Copynumber: 2.3 Consensus size: 52
5026466 TAATAATATT
* *
5026476 AAATATATATATACATAATATATATACATAATATATATAAAATATATATACT
1 AAATATATATATACATAATATATATACATAATACATATAAAATATATATACG
*
5026528 AAATATATATATACATAATATATATA-A-AATGAACATATACAATATATATTA-G
1 AAATATATATATACATAATATATATACATAAT--ACATATAAAATATATA-TACG
5026580 AAATACTA-ATA-ACATAA
1 AAATA-TATATATACATAA
5026597 AAAATATATT
Statistics
Matches: 62, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
50 3 0.05
51 7 0.11
52 48 0.77
53 4 0.06
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.35
Consensus pattern (52 bp):
AAATATATATATACATAATATATATACATAATACATATAAAATATATATACG
Found at i:5026643 original size:20 final size:21
Alignment explanation
Indices: 5026620--5026738 Score: 73
Period size: 22 Copynumber: 5.2 Consensus size: 21
5026610 AATACTACAT
*
5026620 AAATATGTACATAT-ATATTA
1 AAATATATACATATAATATTA
*
5026640 AAATAAATACATAATAATATTA
1 AAATATATACAT-ATAATATTA
*
5026662 AAAGTATATACATAAAATAGTGTTAA
1 AAA-TATATACATATAATA---TT-A
*
5026688 AAATACATACATAATATAGTTATTA
1 AAATATATACAT-ATA-A--TATTA
5026713 AAATATAT--ATATACATATTA
1 AAATATATACATATA-ATATTA
5026733 GAAATA
1 -AAATA
5026739 ATAATAATGT
Statistics
Matches: 79, Mismatches: 8, Indels: 23
0.72 0.07 0.21
Matches are distributed among these distances:
20 15 0.19
21 7 0.09
22 18 0.23
23 10 0.13
25 18 0.23
26 8 0.10
27 1 0.01
29 2 0.03
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATATATACATATAATATTA
Found at i:5026687 original size:25 final size:25
Alignment explanation
Indices: 5026635--5026721 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
5026625 TGTACATATA
*
5026635 TATTAAAATAAATACATAATAATA-T
1 TATTAAAATATATACATAA-AATAGT
*
5026660 TA--AAAGTATATACATAAAATAGT
1 TATTAAAATATATACATAAAATAGT
* * *
5026683 GT-TAAAAATACATACATAATATAGT
1 -TATTAAAATATATACATAAAATAGT
5026708 TATTAAAATATATA
1 TATTAAAATATATA
5026722 TATACATATT
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
22 4 0.08
23 14 0.28
24 2 0.04
25 30 0.60
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (25 bp):
TATTAAAATATATACATAAAATAGT
Found at i:5026709 original size:23 final size:22
Alignment explanation
Indices: 5026627--5026705 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 22
5026617 CATAAATATG
5026627 TACAT-ATATATT-AAAATAAA
1 TACATAATATATTAAAAATAAA
* *
5026647 TACATAATAATATTAAAAGTATA
1 TACATAAT-ATATTAAAAATAAA
* *
5026670 TACATAAAATAGTGTTAAAAATACA
1 TACAT--AATA-TATTAAAAATAAA
5026695 TACATAATATA
1 TACATAATATA
5026706 GTTATTAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
20 5 0.11
21 2 0.04
22 6 0.13
23 15 0.32
24 1 0.02
25 18 0.38
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (22 bp):
TACATAATATATTAAAAATAAA
Found at i:5026805 original size:21 final size:21
Alignment explanation
Indices: 5026775--5026840 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
5026765 ATAATACTGC
*
5026775 ATAAACATATACATATATATA
1 ATAAACATATACACATATATA
* * *
5026796 TTAAAGATATATACATATATA
1 ATAAACATATACACATATATA
5026817 ATAAACATATACTA-ATA-ATA
1 ATAAACATATAC-ACATATATA
5026837 ATAA
1 ATAA
5026841 TAATTATAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 7 0.19
21 29 0.78
22 1 0.03
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAAACATATACACATATATA
Found at i:5026835 original size:3 final size:3
Alignment explanation
Indices: 5026829--5026858 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
5026819 AAACATATAC
*
5026829 TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5026859 AAAGATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:5026940 original size:12 final size:12
Alignment explanation
Indices: 5026925--5027072 Score: 59
Period size: 12 Copynumber: 12.6 Consensus size: 12
5026915 CAATAGTGAA
*
5026925 AATAATAAGTAT
1 AATAATAAATAT
5026937 AATAATAAATAT
1 AATAATAAATAT
*
5026949 AATGAT--ATAT
1 AATAATAAATAT
5026959 AA-AATAACACTAT
1 AATAATAA-A-TAT
5026972 ATATAA-AAATAT
1 A-ATAATAAATAT
*
5026984 -ATATATACACGTAT
1 AATA-ATA-A-ATAT
5026998 AAT-A-AAATAT
1 AATAATAAATAT
*
5027008 -ATACT-AATATT
1 AATAATAAATA-T
5027019 AATAATAAATAT
1 AATAATAAATAT
****
5027031 AAT-AGGGGTA-
1 AATAATAAATAT
5027041 AA-AATAAATAT
1 AATAATAAATAT
5027052 AATAATAACATAT
1 AATAATAA-ATAT
5027065 ACATAATA
1 A-ATAATA
5027073 CGGTATTAAA
Statistics
Matches: 100, Mismatches: 15, Indels: 40
0.65 0.10 0.26
Matches are distributed among these distances:
9 4 0.04
10 21 0.21
11 8 0.08
12 35 0.35
13 16 0.16
14 12 0.12
15 4 0.04
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:5027091 original size:21 final size:22
Alignment explanation
Indices: 5027067--5027109 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
5027057 TAACATATAC
*
5027067 ATAATACGGTA-TTAAAAAAAT
1 ATAATACAGTATTTAAAAAAAT
*
5027088 ATAATATAGTATTTAAAAAAAT
1 ATAATACAGTATTTAAAAAAAT
5027110 GTATACATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (22 bp):
ATAATACAGTATTTAAAAAAAT
Found at i:5027119 original size:23 final size:22
Alignment explanation
Indices: 5027078--5027122 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
5027068 TAATACGGTA
*
5027078 TTAAAAAAATATAATATAGTAT
1 TTAAAAAAATATAACATAGTAT
*
5027100 TTAAAAAAATGTATACATAGTAT
1 TTAAAAAAATATA-ACATAGTAT
5027123 ATATACTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (22 bp):
TTAAAAAAATATAACATAGTAT
Found at i:5027292 original size:46 final size:48
Alignment explanation
Indices: 5027204--5027297 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
5027194 TAGTATATAC
* *
5027204 ATAATATAGTTATTAAAAAATATACGTAAGATAATATGAAAAATACAA
1 ATAATATAGTTATTAAAAAATATACATAACATAATATGAAAAATACAA
*
5027252 ATAATATAG-TATTAAAGATATATACATAACAT-ATAT-AAAAATACAA
1 ATAATATAGTTATTAAA-AAATATACATAACATAATATGAAAAATACAA
5027298 TATTAAAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
46 10 0.24
47 11 0.26
48 21 0.50
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (48 bp):
ATAATATAGTTATTAAAAAATATACATAACATAATATGAAAAATACAA
Found at i:5027503 original size:12 final size:11
Alignment explanation
Indices: 5027483--5027563 Score: 54
Period size: 12 Copynumber: 6.7 Consensus size: 11
5027473 TACTACCATT
5027483 AATAATAATAA
1 AATAATAATAA
*
5027494 TAAGAATAATATA
1 -AATAATAATA-A
*
5027507 AATAATAGTAA
1 AATAATAATAA
5027518 ATATAATAATATTA
1 A-ATAATAATA--A
*
5027532 AATAATATTAA
1 AATAATAATAA
**
5027543 AAGTAATTAATTT
1 AA-TAA-TAATAA
5027556 AATAATAA
1 AATAATAA
5027564 AGAAATGAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
11 8 0.15
12 31 0.56
13 14 0.25
14 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (11 bp):
AATAATAATAA
Found at i:5027525 original size:15 final size:15
Alignment explanation
Indices: 5027487--5027535 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
5027477 ACCATTAATA
*
5027487 ATAATAATAAGAATAAT
1 ATAATAAT-AGTA-AAT
5027504 ATAAATAATAGTAAAT
1 AT-AATAATAGTAAAT
*
5027520 ATAATAATATTAAAT
1 ATAATAATAGTAAAT
5027535 A
1 A
5027536 ATATTAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 13 0.45
16 5 0.17
17 5 0.17
18 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (15 bp):
ATAATAATAGTAAAT
Found at i:5029530 original size:16 final size:15
Alignment explanation
Indices: 5029481--5029537 Score: 55
Period size: 16 Copynumber: 3.8 Consensus size: 15
5029471 AGTTATGATA
*
5029481 TTTAATCTTTAT-AT
1 TTTAATTTTTATAAT
*
5029495 TTTAA-TTTGATTAAT
1 TTTAATTTTTA-TAAT
5029510 TTTAATTTTTATAATT
1 TTTAATTTTTATAA-T
*
5029526 TTTAAATTTTAT
1 TTTAATTTTTAT
5029538 TTTAGATCTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
13 3 0.09
14 6 0.17
15 10 0.29
16 16 0.46
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TTTAATTTTTATAAT
Found at i:5031937 original size:42 final size:42
Alignment explanation
Indices: 5031878--5031962 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
5031868 TTGATTAATT
5031878 AATGTCTTAGTGTCGGAAGTTGAAAACTTGGAAAGAATTTAA
1 AATGTCTTAGTGTCGGAAGTTGAAAACTTGGAAAGAATTTAA
5031920 AATGTCTTAGTGTCGGAAGTTGAAAACTTGGAAAGAATTTAA
1 AATGTCTTAGTGTCGGAAGTTGAAAACTTGGAAAGAATTTAA
5031962 A
1 A
5031963 GTATGATTCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.31
Consensus pattern (42 bp):
AATGTCTTAGTGTCGGAAGTTGAAAACTTGGAAAGAATTTAA
Found at i:5035896 original size:32 final size:32
Alignment explanation
Indices: 5035859--5036024 Score: 82
Period size: 32 Copynumber: 5.2 Consensus size: 32
5035849 AGTTAGGAGC
5035859 ATTTGATTCATTTCGATCATAGCATCCTAATT
1 ATTTGATTCATTTCGATCATAGCATCCTAATT
** * * *
5035891 ATTTGA--CA-TAAGCATCACATCTAGT--TAGGAGT
1 ATTTGATTCATTTCG-ATCATAGC-A-TCCTA--ATT
5035923 ATTTGATTCATTTCGATCATAGCATCCTAATT
1 ATTTGATTCATTTCGATCATAGCATCCTAATT
** * **
5035955 ATTTGA--CA-TAAGCATCATATCTAGT--TAGGAGC
1 ATTTGATTCATTTCG-ATCATAGC-A-TCCTA--ATT
5035987 ATTTGATTCATTTCGATCATAGCATCCTAATT
1 ATTTGATTCATTTCGATCATAGCATCCTAATT
5036019 ATTTGA
1 ATTTGA
5036025 CATAAGCATC
Statistics
Matches: 94, Mismatches: 20, Indels: 40
0.61 0.13 0.26
Matches are distributed among these distances:
29 4 0.04
30 21 0.22
31 2 0.02
32 40 0.43
33 2 0.02
34 21 0.22
35 4 0.04
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (32 bp):
ATTTGATTCATTTCGATCATAGCATCCTAATT
Found at i:5035916 original size:64 final size:64
Alignment explanation
Indices: 5035842--5036157 Score: 551
Period size: 64 Copynumber: 4.9 Consensus size: 64
5035832 ACATTCATAA
5035842 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
*
5035906 CACATCTAGTTAGGAGTATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
*
5035970 CATATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
*
5036034 CACATCTAGTTAGGGGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * * * * *
5036098 CACATCTAGTTAGGAGCATTTAATTTATTTTGATCATAGCATCCTAGTCATTTGGCATAA
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAA
5036158 ACATAGGCAT
Statistics
Matches: 240, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 240 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.37
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:5036460 original size:87 final size:87
Alignment explanation
Indices: 5036207--5036912 Score: 856
Period size: 87 Copynumber: 8.0 Consensus size: 87
5036197 GCGACATCGG
* * *** * * *
5036207 TGAAAATTGTAGATCTTGTCTCCCTGAAGTTGCAGTAGAACAAATCAAAGACGGCAAGCCTTAAC
1 TGAAGATTGCAGATCTTGTCTCCCT-AAACAGCAGTGGAACAAATCGAAGA-AGCAAGCCTTAAC
* *
5036272 CCCCTAAGTAGTAAGGTAACAGGT
64 CCCCTAAGTAGTAGGGTAACAGGC
* *** * *
5036296 TGAAGATTGCAGATCTTGTCTCCATGAAGTTGCAGTGGAACAGATCGAAGAAGTAAGCCTTAACC
1 TGAAGATTGCAGATCTTGTCTCCCT-AAACAGCAGTGGAACAAATCGAAGAAGCAAGCCTTAACC
*
5036361 CCCTAAGTAGTAGGGTAACAGGA
65 CCCTAAGTAGTAGGGTAACAGGC
* * * * *
5036384 TGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTAGAGCAAATCGAAGTAGCAAGCCTTAACCC
1 TGAAGATTGCAGATCTTGTCTCCCTAAACAGCAGTGGAACAAATCGAAGAAGCAAGCCTTAACCC
*
5036449 CCTAAGTAGTAGGGTAATAGGC
66 CCTAAGTAGTAGGGTAACAGGC
* * * * * * * * *
5036471 TAAAGATTGCAGATCTTGTATCCTTAAACAGTAATGGAGCAGATCAAAGATGGCAAGCCTTAACC
1 TGAAGATTGCAGATCTTGTCTCCCTAAACAGCAGTGGAACAAATCGAAGA-AGCAAGCCTTAACC
5036536 CCCTAAGTAGTAGGGTAACAGAG-
65 CCCTAAGTAGTAGGGTAACAG-GC
* *** *
5036559 TGAAGATTACAGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAGCAAGCCTTAACC
1 TGAAGATTGCAGATCTTGTCTCCCT-AAACAGCAGTGGAACAAATCGAAGAAGCAAGCCTTAACC
5036624 CCCTAAGTAGTAGGGTAACAGGC
65 CCCTAAGTAGTAGGGTAACAGGC
* *
5036647 TGAAGATTGTAGATCTTGTCTCCCTAAACAGCAGTGGAACAGATCGAAGAAGCAAGCCTTAACCC
1 TGAAGATTGCAGATCTTGTCTCCCTAAACAGCAGTGGAACAAATCGAAGAAGCAAGCCTTAACCC
*
5036712 CCTAAGTAGTAAGGTAACAGGC
66 CCTAAGTAGTAGGGTAACAGGC
* * *
5036734 TGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAACCC
1 TGAAGATTGCAGATCTTGTCTCCCTAAACAGCAGTGGAACAAATCGAAGAAGCAAGCCTTAACCC
*
5036799 CCTAAGTAGTAGTGTAACAGGC
66 CCTAAGTAGTAGGGTAACAGGC
* * * * * **
5036821 TAAAGATTGCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGTGAGCCTTAACC
1 TGAAGATTGCAGATCTTGTCTCCCTAAACAGCAGTGGAACAAATCGAAGA-AGCAAGCCTTAACC
* * *
5036886 CCCTAAGCAATAGGGTAATAGGC
65 CCCTAAGTAGTAGGGTAACAGGC
5036909 TGAA
1 TGAA
5036913 AATTACAAGT
Statistics
Matches: 544, Mismatches: 68, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
87 280 0.51
88 200 0.37
89 64 0.12
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.23
Consensus pattern (87 bp):
TGAAGATTGCAGATCTTGTCTCCCTAAACAGCAGTGGAACAAATCGAAGAAGCAAGCCTTAACCC
CCTAAGTAGTAGGGTAACAGGC
Found at i:5036688 original size:44 final size:44
Alignment explanation
Indices: 5036640--5036771 Score: 101
Period size: 44 Copynumber: 3.0 Consensus size: 44
5036630 GTAGTAGGGT
*
5036640 AACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGCAGTGG
1 AACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGAAGTGG
* * * * ** * ** *
5036684 AACA-GATCGAAGA-AGCA-AGCCTTAACCCCCTAAGTAGTAAG-GT
1 AACAGGCT-GAAGATTGTAGA-TCTTGTCTCCCTAAACAG-AAGTGG
*
5036727 AACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGG
1 AACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGAAGTGG
5036771 A
1 A
5036772 GCAAATCGAA
Statistics
Matches: 59, Mismatches: 22, Indels: 14
0.62 0.23 0.15
Matches are distributed among these distances:
42 1 0.02
43 28 0.47
44 29 0.49
45 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.23
Consensus pattern (44 bp):
AACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGAAGTGG
Found at i:5036717 original size:263 final size:262
Alignment explanation
Indices: 5036247--5036912 Score: 985
Period size: 263 Copynumber: 2.5 Consensus size: 262
5036237 TGCAGTAGAA
* *
5036247 CAAATCAAAGACGGCAAGCCTTAACCCCCTAAGTAGTAAGGTAACAGGTTGAAGATTGCAGATCT
1 CAAATCAAAGA-GGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCT
*
5036312 TGTCTCCATGAAGTTGCAGTGGAACAGATCGAAGAAGTAAGCCTTAACCCCCTAAGTAGTAGGGT
65 TGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAGTAAGCCTTAACCCCCTAAGTAGTAGGGT
* * * *
5036377 AACAGGATGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTAGAGCAAATCGAAGTAGCAAGCC
130 AACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGCAGTAGAACAAATCGAAGAAGCAAGCC
* * *
5036442 TTAACCCCCTAAGTAGTAGGGTAATAGGCTAAAGATTGCAGATCTTGTATCCTTAAACAGTAATG
195 TTAACCCCCTAAGTAGTAAGGTAACAGGCTAAAGATTGCAGATCTTGTATCCCTAAACAGTAATG
5036507 GAG
260 GAG
* *
5036510 CAGATCAAAGATGGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGAG-TGAAGATTACAGATC
1 CAAATCAAAGA-GGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAG-GCTGAAGATTGCAGATC
*
5036574 TTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGG
64 TTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAGTAAGCCTTAACCCCCTAAGTAGTAGGG
* *
5036639 TAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGCAGTGGAACAGATCGAAGAAGCAAGC
129 TAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGCAGTAGAACAAATCGAAGAAGCAAGC
* * * *
5036704 CTTAACCCCCTAAGTAGTAAGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGTAGT
194 CTTAACCCCCTAAGTAGTAAGGTAACAGGCTAAAGATTGCAGATCTTGTATCCCTAAACAGTAAT
5036769 GGAG
259 GGAG
* * * *
5036773 CAAATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGTGTAACAGGCTAAAGATTGCAGATCTT
1 CAAATCAAAGAGGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTT
** * * * * * * *
5036838 GTCTCCCT-AAGCAGTAGTGGAGCAAATCGAAGATGGTGAGCCTTAACCCCCTAAGCAATAGGGT
66 GTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGA-AGTAAGCCTTAACCCCCTAAGTAGTAGGGT
*
5036902 AATAGGCTGAA
130 AACAGGCTGAA
5036913 AATTACAAGT
Statistics
Matches: 364, Mismatches: 36, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
261 21 0.06
262 91 0.25
263 251 0.69
264 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (262 bp):
CAAATCAAAGAGGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGATCTT
GTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGAAGTAAGCCTTAACCCCCTAAGTAGTAGGGTA
ACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAACAGCAGTAGAACAAATCGAAGAAGCAAGCCT
TAACCCCCTAAGTAGTAAGGTAACAGGCTAAAGATTGCAGATCTTGTATCCCTAAACAGTAATGG
AG
Found at i:5036783 original size:44 final size:44
Alignment explanation
Indices: 5036735--5036871 Score: 118
Period size: 44 Copynumber: 3.1 Consensus size: 44
5036725 GTAACAGGCT
* *
5036735 GAAGATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATC
1 GAAGATTGCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATC
* * ** * * * * **
5036779 GAAGA-AGCA-AGCCTTAACCCCCTAAGTAGTAGTGTAAC-AGGC
1 GAAGATTGCAGA-TCTTGTCTCCCTAAGCAGTAGTGGAGCAAATC
*
5036821 TAAAGATTGCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATC
1 -GAAGATTGCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATC
5036866 GAAGAT
1 GAAGAT
5036872 GGTGAGCCTT
Statistics
Matches: 64, Mismatches: 24, Indels: 10
0.65 0.24 0.10
Matches are distributed among these distances:
42 3 0.05
43 25 0.39
44 33 0.52
45 3 0.05
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (44 bp):
GAAGATTGCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATC
Found at i:5036902 original size:350 final size:352
Alignment explanation
Indices: 5036217--5036903 Score: 1108
Period size: 350 Copynumber: 2.0 Consensus size: 352
5036207 TGAAAATTGT
*
5036217 AGATCTTGTCTCCCTGAAGTTGCAGTAGAACAAATCAAAGACGGCAAGCCTTAACCCCCTAAGTA
1 AGATCTTGTCTCCCTGAAGTTGCAGTAGAACAAATCAAAGACAGCAAGCCTTAACCCCCTAAGTA
* ***
5036282 GTAAGGTAACAGGTTGAAGATTGCAGATCTTGTCTCCATGAAGTTGCAGTGGAACAGATCGAAGA
66 GTAAGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCATGAAACAGCAGTGGAACAGATCGAAGA
* *
5036347 AGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGATGAAGATTGTAGATCTTGTCTCCCTAAA
131 AGCAAGCCTTAACCCCCTAAGTAGTAAGGTAACAGGATGAAGATTGTAGATCTTGTCTCCCTAAA
* *
5036412 CAGTAGTAGAGCAAATCGAAGTAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAATAGGCTAAAGA
196 CAGTAGTAGAGCAAATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAGA
* *
5036477 TTGCAGATCTTGTATCCTTAAACAGTAATGGAGCAGATCAAAGATGGCAAGCCTTAACCCCCTAA
261 TTGCAGATCTTGTATCCCTAAACAGTAATGGAGCAAATCAAAGATGGCAAGCCTTAACCCCCTAA
* *
5036542 GTAGTAGGGTAACAGAGTGAAGATTAC
326 GCAATAGGGTAACAGAGTGAAGATTAC
* * *
5036569 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGA-AGCAAGCCTTAACCCCCTAAGTA
1 AGATCTTGTCTCCCTGAAGTTGCAGTAGAACAAATCAAAGACAGCAAGCCTTAACCCCCTAAGTA
* * *
5036633 GTAGGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCT-AAACAGCAGTGGAACAGATCGAAGA
66 GTAAGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCATGAAACAGCAGTGGAACAGATCGAAGA
*
5036697 AGCAAGCCTTAACCCCCTAAGTAGTAAGGTAACAGGCTGAAGATTGTAGATCTTGTCTCCCTAAA
131 AGCAAGCCTTAACCCCCTAAGTAGTAAGGTAACAGGATGAAGATTGTAGATCTTGTCTCCCTAAA
* *
5036762 CAGTAGTGGAGCAAATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGTGTAACAGGCTAAAGA
196 CAGTAGTAGAGCAAATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAGA
* * * * **
5036827 TTGCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGTGAGCCTTAACCCCCTAA
261 TTGCAGATCTTGTATCCCTAAACAGTAATGGAGCAAATCAAAGATGGCAAGCCTTAACCCCCTAA
5036892 GCAATAGGGTAA
326 GCAATAGGGTAA
5036904 TAGGCTGAAA
Statistics
Matches: 307, Mismatches: 28, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
350 212 0.69
351 57 0.19
352 38 0.12
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (352 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTAGAACAAATCAAAGACAGCAAGCCTTAACCCCCTAAGTA
GTAAGGTAACAGGCTGAAGATTGCAGATCTTGTCTCCATGAAACAGCAGTGGAACAGATCGAAGA
AGCAAGCCTTAACCCCCTAAGTAGTAAGGTAACAGGATGAAGATTGTAGATCTTGTCTCCCTAAA
CAGTAGTAGAGCAAATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTAAAGA
TTGCAGATCTTGTATCCCTAAACAGTAATGGAGCAAATCAAAGATGGCAAGCCTTAACCCCCTAA
GCAATAGGGTAACAGAGTGAAGATTAC
Found at i:5039116 original size:20 final size:21
Alignment explanation
Indices: 5039080--5039119 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
5039070 AGATTAAACT
5039080 GGTCAAAACATAAAAATTCTG
1 GGTCAAAACATAAAAATTCTG
*
5039101 GGTCAAAAC-TATAAATTCT
1 GGTCAAAACATAAAAATTCT
5039120 TAGTTCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (21 bp):
GGTCAAAACATAAAAATTCTG
Found at i:5049750 original size:46 final size:47
Alignment explanation
Indices: 5049665--5049756 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 47
5049655 CGCATCACAC
* * *
5049665 ACCGAAGCCATAGCCTTGCCATGGTCTTACACGGTTCACA-TATCAT
1 ACCGAAGCCATAGCCATGACATGGTCTTACACGGATCACATTATCAT
* *
5049711 ACCGAAGCCATATCCAT-ACATGGTCTTATACGGAATCACATTATCA
1 ACCGAAGCCATAGCCATGACATGGTCTTACACGG-ATCACATTATCA
5049757 CATTATCACA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
45 14 0.36
46 20 0.51
47 5 0.13
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (47 bp):
ACCGAAGCCATAGCCATGACATGGTCTTACACGGATCACATTATCAT
Found at i:5049758 original size:8 final size:8
Alignment explanation
Indices: 5049745--5049770 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
5049735 CTTATACGGA
5049745 ATCACATT
1 ATCACATT
5049753 ATCACATT
1 ATCACATT
5049761 ATCACATT
1 ATCACATT
5049769 AT
1 AT
5049771 ACCGATGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (8 bp):
ATCACATT
Found at i:5049813 original size:53 final size:52
Alignment explanation
Indices: 5049754--5049872 Score: 188
Period size: 53 Copynumber: 2.3 Consensus size: 52
5049744 AATCACATTA
*
5049754 TCACATTATCACATT-ATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAG
1 TCACATTATCACATTGA-ACCGATGCCATAGCCCAGCTATGGTCTTAAACGG-G
5049807 TCACATTATCACATTGAACCGATGCCATAGCCCAGCTATGGTCTTAAACGGG
1 TCACATTATCACATTGAACCGATGCCATAGCCCAGCTATGGTCTTAAACGGG
5049859 -CACACTTATCACAT
1 TCACA-TTATCACAT
5049873 ATTTTTCGTC
Statistics
Matches: 63, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
51 4 0.06
52 10 0.16
53 48 0.76
54 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (52 bp):
TCACATTATCACATTGAACCGATGCCATAGCCCAGCTATGGTCTTAAACGGG
Found at i:5051264 original size:29 final size:29
Alignment explanation
Indices: 5051230--5051285 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
5051220 ATATGGACTA
5051230 GATCAAATTAGTCCCTCTATTATTAAATT
1 GATCAAATTAGTCCCTCTATTATTAAATT
* * *
5051259 GATCAATTTAGTCTCTTTATTATTAAA
1 GATCAAATTAGTCCCTCTATTATTAAA
5051286 AGGAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (29 bp):
GATCAAATTAGTCCCTCTATTATTAAATT
Found at i:5052539 original size:6 final size:6
Alignment explanation
Indices: 5052507--5052538 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
5052497 TTAATGAAGA
5052507 TTTT-T TTTTGT TTTTGT TTTTGT TTTT-T TTTT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTT
5052539 TAAGTTGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 9 0.35
6 17 0.65
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (6 bp):
TTTTGT
Found at i:5052539 original size:12 final size:12
Alignment explanation
Indices: 5052507--5052539 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
5052497 TTAATGAAGA
5052507 TTTTTTTTTGTT
1 TTTTTTTTTGTT
*
5052519 TTTGTTTTTGTT
1 TTTTTTTTTGTT
5052531 TTTTTTTTT
1 TTTTTTTTT
5052540 AAGTTGTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:5052941 original size:12 final size:12
Alignment explanation
Indices: 5052913--5052974 Score: 58
Period size: 12 Copynumber: 5.4 Consensus size: 12
5052903 ACTAGTGTAG
* *
5052913 TTGGAGGTGGTA
1 TTGGAGCTGGAA
5052925 TTGGAGCTGGAA
1 TTGGAGCTGGAA
* *
5052937 CTGGATCT--AA
1 TTGGAGCTGGAA
*
5052947 -TGGAGCTGGAG
1 TTGGAGCTGGAA
5052958 TTGGAGCTGGAA
1 TTGGAGCTGGAA
5052970 TTGGA
1 TTGGA
5052975 ATTGGTGGTG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
9 6 0.15
10 2 0.05
11 1 0.03
12 31 0.77
ACGTcount: A:0.23, C:0.08, G:0.42, T:0.27
Consensus pattern (12 bp):
TTGGAGCTGGAA
Found at i:5053029 original size:12 final size:12
Alignment explanation
Indices: 5053009--5053090 Score: 110
Period size: 12 Copynumber: 6.8 Consensus size: 12
5052999 GAAAACGGAG
* *
5053009 ATGGTGCTGTTT
1 ATGGAGCTGGTT
5053021 ATGGAGCTGGTT
1 ATGGAGCTGGTT
*
5053033 ATGGAGTTGGTT
1 ATGGAGCTGGTT
*
5053045 ATGGAGCTGGTA
1 ATGGAGCTGGTT
*
5053057 ATGGAGTTGGTT
1 ATGGAGCTGGTT
*
5053069 ATGGAGCTAGTT
1 ATGGAGCTGGTT
5053081 ATGGAGCTGG
1 ATGGAGCTGG
5053091 AGAAGCTGCT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 60 1.00
ACGTcount: A:0.18, C:0.06, G:0.40, T:0.35
Consensus pattern (12 bp):
ATGGAGCTGGTT
Found at i:5053126 original size:15 final size:15
Alignment explanation
Indices: 5053106--5053147 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
5053096 CTGCTGGTGG
*
5053106 TGGAACTCGTGGAAC
1 TGGAACTAGTGGAAC
5053121 TGGAACTAGTGGAAC
1 TGGAACTAGTGGAAC
*
5053136 TGGAACTGGTGG
1 TGGAACTAGTGG
5053148 TGGTGGAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.26, C:0.14, G:0.38, T:0.21
Consensus pattern (15 bp):
TGGAACTAGTGGAAC
Found at i:5053139 original size:21 final size:21
Alignment explanation
Indices: 5053115--5053339 Score: 84
Period size: 21 Copynumber: 10.9 Consensus size: 21
5053105 GTGGAACTCG
*
5053115 TGGAACTGGAACTAGTGGAAC
1 TGGAACTGGAACTAGTGGAGC
*** *
5053136 TGGAACTGGTGGTGGTGGAGC
1 TGGAACTGGAACTAGTGGAGC
* * * *
5053157 TGGAGCTGGAGCTAGTGGTGG
1 TGGAACTGGAACTAGTGGAGC
* * * *
5053178 TGGAACTGGAACTGGAGGTGG
1 TGGAACTGGAACTAGTGGAGC
* ** * * *
5053199 TGGAGCTGGAGTTGGTGGTGG
1 TGGAACTGGAACTAGTGGAGC
* *
5053220 TGGAACTGAAACTGGT-G-G-
1 TGGAACTGGAACTAGTGGAGC
* *
5053238 TCGAACTGGAACT-G-GTAG-
1 TGGAACTGGAACTAGTGGAGC
* * *
5053256 TGGAACTGGAACTGGTGGTGT
1 TGGAACTGGAACTAGTGGAGC
* * * *
5053277 TGGAATTGGAACTGGTGGTGG
1 TGGAACTGGAACTAGTGGAGC
* *
5053298 TGGAGCTGGAACTAGAATTGGAAC
1 TGGAACTGGAACTAG---TGGAGC
*
5053322 TGGAATTGGAACTAGTGG
1 TGGAACTGGAACTAGTGG
5053340 TGGTTTAGGA
Statistics
Matches: 157, Mismatches: 39, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
17 1 0.01
18 24 0.15
19 2 0.01
20 3 0.02
21 111 0.71
24 16 0.10
ACGTcount: A:0.23, C:0.10, G:0.44, T:0.24
Consensus pattern (21 bp):
TGGAACTGGAACTAGTGGAGC
Found at i:5053166 original size:42 final size:42
Alignment explanation
Indices: 5053115--5053310 Score: 134
Period size: 42 Copynumber: 4.7 Consensus size: 42
5053105 GTGGAACTCG
*
5053115 TGGAACTGGAACTAGTGGAACTGGAACTGGTGGTGGTGGAGC
1 TGGAACTGGAGCTAGTGGAACTGGAACTGGTGGTGGTGGAGC
* *
5053157 TGGAGCTGGAGCTAGTGGTGGTGGAACTGGAACTGGAGGTGGTGGAGC
1 TGGAACTGGAGCTA------GTGGAACTGGAACTGGTGGTGGTGGAGC
** * * * * * *
5053205 TGGAGTTGGTGGTGGTGGAACTGAAAC---TGGTGGTCGAAC
1 TGGAACTGGAGCTAGTGGAACTGGAACTGGTGGTGGTGGAGC
* **
5053244 TGGAACT-G-G-TAGTGGAACTGGAACTGGTGGTGTTGGAAT
1 TGGAACTGGAGCTAGTGGAACTGGAACTGGTGGTGGTGGAGC
* * * *
5053283 TGGAACTGGTGGTGGTGGAGCTGGAACT
1 TGGAACTGGAGCTAGTGGAACTGGAACT
5053311 AGAATTGGAA
Statistics
Matches: 122, Mismatches: 20, Indels: 24
0.73 0.12 0.14
Matches are distributed among these distances:
36 13 0.11
37 1 0.01
38 1 0.01
39 30 0.25
40 1 0.01
41 1 0.01
42 38 0.31
48 37 0.30
ACGTcount: A:0.21, C:0.10, G:0.45, T:0.24
Consensus pattern (42 bp):
TGGAACTGGAGCTAGTGGAACTGGAACTGGTGGTGGTGGAGC
Found at i:5053201 original size:27 final size:27
Alignment explanation
Indices: 5053130--5053201 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
5053120 CTGGAACTAG
* *
5053130 TGGAACTGGAACTGGTGGTGGTGGAGC
1 TGGAACTGGAGCTGGTGGTGGTGGAAC
* *
5053157 TGGAGCTGGAGCTAGTGGTGGTGGAAC
1 TGGAACTGGAGCTGGTGGTGGTGGAAC
*
5053184 TGGAACTGGAGGTGGTGG
1 TGGAACTGGAGCTGGTGG
5053202 AGCTGGAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.18, C:0.10, G:0.50, T:0.22
Consensus pattern (27 bp):
TGGAACTGGAGCTGGTGGTGGTGGAAC
Found at i:5053235 original size:18 final size:18
Alignment explanation
Indices: 5053172--5053297 Score: 108
Period size: 21 Copynumber: 6.5 Consensus size: 18
5053162 CTGGAGCTAG
5053172 TGGTGGTGGAACTGGAAC
1 TGGTGGTGGAACTGGAAC
* **
5053190 TGGAGGTGGTGGAGCTGGAGTTGG
1 T---GGTGGTGGAACTGGA---AC
*
5053214 TGGTGGTGGAACTGAAAC
1 TGGTGGTGGAACTGGAAC
*
5053232 TGGTGGTCGAACTGGAAC
1 TGGTGGTGGAACTGGAAC
*
5053250 TGGTAGTGGAACTGGAAC
1 TGGTGGTGGAACTGGAAC
*
5053268 TGGTGGTGTTGGAATTGGAAC
1 TGGT-G-G-TGGAACTGGAAC
5053289 TGGTGGTGG
1 TGGTGGTGG
5053298 TGGAGCTGGA
Statistics
Matches: 86, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
18 40 0.47
19 1 0.01
20 2 0.02
21 42 0.49
24 1 0.01
ACGTcount: A:0.20, C:0.09, G:0.46, T:0.25
Consensus pattern (18 bp):
TGGTGGTGGAACTGGAAC
Found at i:5053321 original size:12 final size:12
Alignment explanation
Indices: 5053304--5053336 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
5053294 GTGGTGGAGC
5053304 TGGAACTAGAAT
1 TGGAACTAGAAT
*
5053316 TGGAACTGGAAT
1 TGGAACTAGAAT
5053328 TGGAACTAG
1 TGGAACTAG
5053337 TGGTGGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.24
Consensus pattern (12 bp):
TGGAACTAGAAT
Found at i:5053460 original size:9 final size:9
Alignment explanation
Indices: 5053448--5053497 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
5053438 GATCTGGAAG
5053448 TGGTGGAGT
1 TGGTGGAGT
5053457 TGGTGGAGT
1 TGGTGGAGT
* *
5053466 TGGAGGAGC
1 TGGTGGAGT
5053475 TGGTGGAGT
1 TGGTGGAGT
* *
5053484 TGGAGGAGC
1 TGGTGGAGT
5053493 TGGTG
1 TGGTG
5053498 ATGGTGGAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.14, C:0.04, G:0.56, T:0.26
Consensus pattern (9 bp):
TGGTGGAGT
Found at i:5053473 original size:18 final size:18
Alignment explanation
Indices: 5053452--5053497 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
5053442 TGGAAGTGGT
*
5053452 GGAGTTGGTGGAGTTGGA
1 GGAGCTGGTGGAGTTGGA
5053470 GGAGCTGGTGGAGTTGGA
1 GGAGCTGGTGGAGTTGGA
5053488 GGAGCTGGTG
1 GGAGCTGGTG
5053498 ATGGTGGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.15, C:0.04, G:0.57, T:0.24
Consensus pattern (18 bp):
GGAGCTGGTGGAGTTGGA
Found at i:5053505 original size:18 final size:18
Alignment explanation
Indices: 5053442--5053497 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
5053432 GAGCTGGATC
* * *
5053442 TGGAAGTGGTGGAGTTGG
1 TGGAGGTGGAGGAGCTGG
*
5053460 TGGAGTTGGAGGAGCTGG
1 TGGAGGTGGAGGAGCTGG
*
5053478 TGGAGTTGGAGGAGCTGG
1 TGGAGGTGGAGGAGCTGG
5053496 TG
1 TG
5053498 ATGGTGGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.16, C:0.04, G:0.55, T:0.25
Consensus pattern (18 bp):
TGGAGGTGGAGGAGCTGG
Found at i:5054124 original size:34 final size:35
Alignment explanation
Indices: 5054086--5054159 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
5054076 AATTTTCTTC
* *
5054086 TAAAATTTTTCCA-TTTTTTTTCTCAATTCCCTTT
1 TAAAATTTATCCAGTTTTTTTTCTCAACTCCCTTT
*
5054120 TAAAATTTATCTAGTTTTTTTTCTCAACTCCCTTT
1 TAAAATTTATCCAGTTTTTTTTCTCAACTCCCTTT
5054155 TAAAA
1 TAAAA
5054160 ACCCCTTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 11 0.31
35 25 0.69
ACGTcount: A:0.26, C:0.19, G:0.01, T:0.54
Consensus pattern (35 bp):
TAAAATTTATCCAGTTTTTTTTCTCAACTCCCTTT
Found at i:5056446 original size:13 final size:14
Alignment explanation
Indices: 5056407--5056449 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
5056397 CTTAAACCAA
5056407 CAATCTAAAATCAC
1 CAATCTAAAATCAC
5056421 CAATCTAAAATCAC
1 CAATCTAAAATCAC
5056435 CAATCT-AAATCAC
1 CAATCTAAAATCAC
5056448 CA
1 CA
5056450 GTTCGCTGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 9 0.31
14 20 0.69
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (14 bp):
CAATCTAAAATCAC
Found at i:5062313 original size:23 final size:22
Alignment explanation
Indices: 5062287--5062337 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
5062277 TGATAATAAT
* *
5062287 AATAATAGTATGTTAATAACAAC
1 AATAATACTATGGTAA-AACAAC
*
5062310 AATAATACTATGGTAAAACAAT
1 AATAATACTATGGTAAAACAAC
5062332 AATAAT
1 AATAAT
5062338 GCATAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (22 bp):
AATAATACTATGGTAAAACAAC
Found at i:5064413 original size:75 final size:73
Alignment explanation
Indices: 5064322--5064464 Score: 180
Period size: 73 Copynumber: 1.9 Consensus size: 73
5064312 ACAGACATTA
*
5064322 AAACAAAAATTAAAAATAGCTCAACACGTGAGCC-AAGGCTCAACTCACCTCTCGCAATATGAGT
1 AAACAAAAATTAAAAATACCTC-A-ACGTG-GCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
5064386 TAATTTTTGAC
63 TAATTTTTGAC
* * * * * * *
5064397 AAACAGAAATTTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTGGCAATATGAGTTGA
1 AAACAAAAATTAAAAATACCTCAACGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTAA
5064462 TTT
66 TTT
5064465 AAAAAAATAG
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
72 2 0.03
73 37 0.63
74 1 0.02
75 19 0.32
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.26
Consensus pattern (73 bp):
AAACAAAAATTAAAAATACCTCAACGTGGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTTAA
TTTTTGAC
Found at i:5064669 original size:46 final size:46
Alignment explanation
Indices: 5064599--5064690 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
5064589 ATATGACCCG
* * *
5064599 AGGCTCAACTCACTTTTCGCAATATGAGTTGATTTTAAAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTAAAAATTAAA
* *
5064645 AGGCTCAACTCACCTCTCGTAATATGAGTTGAGTTTGAAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTAAAAATTAAA
5064691 CTGAAAATAC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (46 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTAAAAATTAAA
Found at i:5064820 original size:215 final size:214
Alignment explanation
Indices: 5064430--5064844 Score: 475
Period size: 215 Copynumber: 1.9 Consensus size: 214
5064420 GCGTGTCCTG
* * *
5064430 AGGCTCAACTCACCTCTGGCAATATGAGTTGATTTAAAAAAATAGACATTAAAACAGAAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAATAAACATAAAAACAGAAATTGAA
* * * * ***
5064495 AATAGCTCAGCACGTGAGCTAAGGCTCAACTCACCTCTCGCCATATGAGTTGGCCTTTTTGAAAC
66 AATACCTCAG-ACGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGGCATTTAAAAAAC
** * * * *
5064560 TTAAAAGCAGATTTTGAAAATACCTCGACATATGACCCGAGGCTCAACTCACTTTTCGCAATATG
130 TTAAAAGCAGAAATTGAAAATACCTCGACACATGACCCAAGGCTCAACTCACCTCTCGCAATATG
5064625 AGTTGATTTTAAAAATTAAA
195 AGTTGATTTTAAAAATTAAA
* * *
5064645 AGGCTCAACTCACCTCTCGTAATATGAGTTGAGTTT-GAAAATTAAAC-TGAAAATACAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAAAAAAATAAACAT-AAAA-ACAGAAATT
* *
5064708 GAAAATACCTCAG-CGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT-G-ATTTAAAAA
63 GAAAATACCTCAGACGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGGCATTT-AAAA
* * *
5064770 CAGACATTAAAA-CAGAAATTGAAAATAGCTC-AGCACGTGAGCCAAGGCTCAACTCACCTCTCG
127 -A-AC-TTAAAAGCAGAAATTGAAAATACCTCGA-CACATGACCCAAGGCTCAACTCACCTCTCG
*
5064833 CCATATGAGTTG
188 CAATATGAGTTG
5064845 GCCTTTTTGA
Statistics
Matches: 167, Mismatches: 25, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
212 3 0.02
213 2 0.01
214 38 0.23
215 94 0.56
216 30 0.18
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (214 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAATAAACATAAAAACAGAAATTGAA
AATACCTCAGACGTGACCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGGCATTTAAAAAACT
TAAAAGCAGAAATTGAAAATACCTCGACACATGACCCAAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTAAAAATTAAA
Found at i:5064839 original size:84 final size:85
Alignment explanation
Indices: 5064644--5064844 Score: 250
Period size: 84 Copynumber: 2.4 Consensus size: 85
5064634 TAAAAATTAA
* **
5064644 AAGGCTCAACTCACCTCTCGTAATATGAGTTGAGTTTGAAAATTAAACTGAAAATACAGAAATTG
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTGAAAAACAAACTGAAAATACAGAAATTG
*
5064709 AAAATACCTCAGCGTGTCCT
66 AAAATACCTCAGCGTGGCCT
* * *
5064729 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-AAAAACAGACAT-TAAA-ACAGAAATT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTGAAAAACAAAC-TGAAAATACAGAAATT
*
5064790 GAAAATAGCTCAGCACGTGAGCC-
65 GAAAATACCTCAG--CGTG-GCCT
*
5064813 AAGGCTCAACTCACCTCTCGCCATATGAGTTG
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTG
5064845 GCCTTTTTGA
Statistics
Matches: 102, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
82 21 0.21
83 10 0.10
84 38 0.37
85 33 0.32
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (85 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTGAAAAACAAACTGAAAATACAGAAATTG
AAAATACCTCAGCGTGGCCT
Found at i:5064937 original size:298 final size:300
Alignment explanation
Indices: 5064399--5064984 Score: 1059
Period size: 298 Copynumber: 2.0 Consensus size: 300
5064389 TTTTTGACAA
* *
5064399 ACAGAAATTTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTGGCAATATGAGTTGATT
1 ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* *
5064464 TAAAAAAATAGACATTAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCTAAGGCTCAACTCAC
66 T-AAAAAACAGACATTAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCAC
*
5064529 CTCTCGCCATATGAGTTGGCCTTTTTGAAACTTAAAAGCAGATTTTGAAAATACCTCGACATATG
130 CTCTCGCCATATGAGTTGGCCTTTTTGAAACTTAAAAACAGATTTTGAAAATACCTCGACATATG
* *
5064594 ACCCGAGGCTCAACTCACTTTTCGCAATATGAGTTGATTTTAAAAATTAAAAGGCTCAACTCACC
195 ACCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTAAAAATTAAAAGGCTCAACTCACC
*
5064659 TCTCGTAATATGAGTTGA-GTTTGAAAATTAAACTGAAAAT
260 TCTCGCAATATGAGTTGATGTTTGAAAATTAAACTGAAAAT
5064699 ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
5064764 T-AAAAACAGACATTAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACC
66 TAAAAAACAGACATTAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACC
*
5064828 TCTCGCCATATGAGTTGGCCTTTTTGAAACTTAAAAATAGATTTTGAAAATACCTCGACATATGA
131 TCTCGCCATATGAGTTGGCCTTTTTGAAACTTAAAAACAGATTTTGAAAATACCTCGACATATGA
5064893 CCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTAAAAATTAAAAGGCTCAACTCACCT
196 CCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTAAAAATTAAAAGGCTCAACTCACCT
*
5064958 CTCGCAATATGAGTTGATTTTTGAAAA
261 CTCGCAATATGAGTTGATGTTTGAAAA
5064985 CAGAAATAAA
Statistics
Matches: 275, Mismatches: 10, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
298 203 0.74
299 8 0.03
300 64 0.23
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (300 bp):
ACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TAAAAAACAGACATTAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACC
TCTCGCCATATGAGTTGGCCTTTTTGAAACTTAAAAACAGATTTTGAAAATACCTCGACATATGA
CCCGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTAAAAATTAAAAGGCTCAACTCACCT
CTCGCAATATGAGTTGATGTTTGAAAATTAAACTGAAAAT
Found at i:5073933 original size:39 final size:39
Alignment explanation
Indices: 5073898--5073971 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
5073888 GGTTTTGATA
*
5073898 TTTTC-TTTTCT-TCCATTCT-CTTTC-CTTCTTCTTTTG
1 TTTTCTTTTTCTCTCCA-TCTACTTTCTCCTCTTCTTTTG
5073934 TTTTCTTTTTCTCTCCATCTACTTTCTCCTCTTCTTTT
1 TTTTCTTTTTCTCTCCATCTACTTTCTCCTCTTCTTTT
5073972 TCTTTTTTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
36 5 0.15
37 9 0.27
38 9 0.27
39 10 0.30
ACGTcount: A:0.04, C:0.30, G:0.01, T:0.65
Consensus pattern (39 bp):
TTTTCTTTTTCTCTCCATCTACTTTCTCCTCTTCTTTTG
Found at i:5074770 original size:8 final size:8
Alignment explanation
Indices: 5074757--5074795 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
5074747 CTAGATCAGT
*
5074757 AAAAGCCG
1 AAAAGCCA
5074765 AAAAGCCA
1 AAAAGCCA
* *
5074773 AAAAGTCG
1 AAAAGCCA
5074781 AAAAGCCA
1 AAAAGCCA
5074789 AAAAGCC
1 AAAAGCC
5074796 TGCATTTGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.56, C:0.23, G:0.18, T:0.03
Consensus pattern (8 bp):
AAAAGCCA
Found at i:5074782 original size:16 final size:16
Alignment explanation
Indices: 5074757--5074795 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
5074747 CTAGATCAGT
5074757 AAAAGCCGAAAAGCCA
1 AAAAGCCGAAAAGCCA
*
5074773 AAAAGTCGAAAAGCCA
1 AAAAGCCGAAAAGCCA
5074789 AAAAGCC
1 AAAAGCC
5074796 TGCATTTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.56, C:0.23, G:0.18, T:0.03
Consensus pattern (16 bp):
AAAAGCCGAAAAGCCA
Found at i:5076390 original size:16 final size:17
Alignment explanation
Indices: 5076358--5076390 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
5076348 CATCAAGAAA
5076358 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
5076376 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
5076391 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:5081690 original size:23 final size:22
Alignment explanation
Indices: 5081656--5081706 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
5081646 ATGTGATAAT
* *
5081656 AATAATAGTATGTTAATAACAAC
1 AATAATACTATGGTAA-AACAAC
*
5081679 AATAATACTATGGTAAAACAAT
1 AATAATACTATGGTAAAACAAC
5081701 AATAAT
1 AATAAT
5081707 GCATAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (22 bp):
AATAATACTATGGTAAAACAAC
Found at i:5083069 original size:26 final size:26
Alignment explanation
Indices: 5083036--5083096 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
5083026 GGGCCTCTCA
5083036 GGTTTGGGTTTGAAAGTGGGTTAAGG
1 GGTTTGGGTTTGAAAGTGGGTTAAGG
5083062 GGTTTGGGTTTGAAAGTGGGTTAAGG
1 GGTTTGGGTTTGAAAGTGGGTTAAGG
5083088 GGTTTGGGT
1 GGTTTGGGT
5083097 AATGTATTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (26 bp):
GGTTTGGGTTTGAAAGTGGGTTAAGG
Found at i:5085776 original size:28 final size:28
Alignment explanation
Indices: 5085745--5085805 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
5085735 ACATATTAAC
*
5085745 ATTATA-CCATGTATATATTTTTATAAAT
1 ATTATATCCATATATATATTTTTA-AAAT
** *
5085773 ATTATATGTATATATATATTTTTAATAT
1 ATTATATCCATATATATATTTTTAAAAT
5085801 ATTAT
1 ATTAT
5085806 GTATATTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (28 bp):
ATTATATCCATATATATATTTTTAAAAT
Found at i:5087865 original size:25 final size:25
Alignment explanation
Indices: 5087836--5087902 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
5087826 TTATACGAAT
* *
5087836 ATCTTAACGTATCATATCATATTGA
1 ATCTTAACATATCATATCATATCGA
* * *
5087861 ATCTTAGCATATCATGTTATATCGA
1 ATCTTAACATATCATATCATATCGA
* *
5087886 ATCATAACATAGCATAT
1 ATCTTAACATATCATAT
5087903 TTTATCATAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (25 bp):
ATCTTAACATATCATATCATATCGA
Found at i:5089182 original size:14 final size:13
Alignment explanation
Indices: 5089164--5089212 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
5089154 GAATTAAAAT
*
5089164 TAAAATTAATAAA
1 TAAAAATAATAAA
*
5089177 TAAAAAATAAAAAA
1 T-AAAAATAATAAA
5089191 TAAAAATAATAAA
1 TAAAAATAATAAA
5089204 -AACAAATAA
1 TAA-AAATAA
5089213 AACAATAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 2 0.06
13 18 0.58
14 11 0.35
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAAATAATAAA
Found at i:5089195 original size:27 final size:26
Alignment explanation
Indices: 5089159--5089220 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
5089149 TGGTGGAATT
* *
5089159 AAAATTAAAATTAATAAATAAAAAATA
1 AAAAATAAAAATAATAAA-AAAAAATA
*
5089186 AAAAATAAAAATAATAAAAACAAATA
1 AAAAATAAAAATAATAAAAAAAAATA
5089212 AAACAATAA
1 AAA-AATAA
5089221 GATATACTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 10 0.32
27 21 0.68
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (26 bp):
AAAAATAAAAATAATAAAAAAAAATA
Found at i:5091511 original size:23 final size:22
Alignment explanation
Indices: 5091484--5091526 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
5091474 TTAATCTAAC
5091484 TTTTTTATATTTATTACATATGA
1 TTTTTTATATTTATTA-ATATGA
*
5091507 TTTTTTATTTTTATTAATAT
1 TTTTTTATATTTATTAATAT
5091527 AAATCCAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TTTTTTATATTTATTAATATGA
Found at i:5097629 original size:29 final size:29
Alignment explanation
Indices: 5097577--5097632 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
5097567 ATATGGACTA
5097577 GATCAAATTAGTCCCTCTACTATTAAATT
1 GATCAAATTAGTCCCTCTACTATTAAATT
* * * *
5097606 GATCAATTTAGTCTCTTTATTATTAAA
1 GATCAAATTAGTCCCTCTACTATTAAA
5097633 AGGAATAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (29 bp):
GATCAAATTAGTCCCTCTACTATTAAATT
Found at i:5099110 original size:12 final size:12
Alignment explanation
Indices: 5099095--5099133 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
5099085 GTTTTGGAAT
*
5099095 TGGTGGTGGTGG
1 TGGTAGTGGTGG
*
5099107 TGGTAGTAGTGG
1 TGGTAGTGGTGG
*
5099119 TGGTAGTGGAGG
1 TGGTAGTGGTGG
5099131 TGG
1 TGG
5099134 AACTGGAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.10, C:0.00, G:0.59, T:0.31
Consensus pattern (12 bp):
TGGTAGTGGTGG
Found at i:5099906 original size:35 final size:35
Alignment explanation
Indices: 5099829--5099924 Score: 88
Period size: 35 Copynumber: 2.7 Consensus size: 35
5099819 AGCACGATAC
* * *
5099829 TTGTTTTTCAT-AATTTTCTTCTAAAATTATTCCAG
1 TTGTTTTTC-TCAATTCTCTTTTAAAATTATACCAG
*
5099864 TTTTTTTTCTCAATTCTCTTTTAAAATT-TACCTAG
1 TTGTTTTTCTCAATTCTCTTTTAAAATTATACC-AG
* * *
5099899 TTGTTTTTTTCTAACTCCCTTTTAAA
1 TTGTTTTTCTC-AATTCTCTTTTAAA
5099925 TATAATATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
34 4 0.08
35 34 0.68
36 12 0.24
ACGTcount: A:0.23, C:0.17, G:0.04, T:0.56
Consensus pattern (35 bp):
TTGTTTTTCTCAATTCTCTTTTAAAATTATACCAG
Found at i:5101960 original size:27 final size:27
Alignment explanation
Indices: 5101930--5102407 Score: 430
Period size: 27 Copynumber: 17.7 Consensus size: 27
5101920 TCAGTTTACC
5101930 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
5101957 AAATTACCAAAATACCCCCGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** **
5101984 AAATTACTAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
5102011 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
5102038 AAATTACTAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
5102065 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
5102092 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
5102119 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
5102146 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
5102173 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
5102200 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
5102227 AAATTATCAAAATA-CTCTCGATTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * **
5102254 AAA-TATCGAAATACCCCT-GTAGGGTA
1 AAATTACCAAAATACCCCTGGT-TTGTA
* * * **
5102280 GAATCACCGAAATACCCCT-GTAAGGTA
1 AAATTACCAAAATACCCCTGGT-TTGTA
* ** **
5102307 GAATTACCGGAATACCCCT-GTAGGGTA
1 AAATTACCAAAATACCCCTGGT-TTGTA
* ** **
5102334 GAATTACTGAAATACCCCT-GTAAGGTA
1 AAATTACCAAAATACCCCTGGT-TTGTA
* **
5102361 GAATTACCAAAATACCCCT-GTAGGGTA
1 AAATTACCAAAATACCCCTGGT-TTGTA
*
5102388 GAATTACCAAAATACCCCTG
1 AAATTACCAAAATACCCCTG
5102408 TAGGGTGGAA
Statistics
Matches: 389, Mismatches: 57, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
25 1 0.00
26 17 0.04
27 371 0.95
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:5102408 original size:27 final size:27
Alignment explanation
Indices: 5102260--5102448 Score: 263
Period size: 27 Copynumber: 7.0 Consensus size: 27
5102250 TGTAAAATAT
*
5102260 CGAAATACCCCTGTAGGGTAGAATCAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
5102287 CGAAATACCCCTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
5102314 CGGAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
5102341 TGAAATACCCCTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
5102368 CAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
5102395 CAAAATACCCCTGTAGGGTGGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
5102422 CGAGATA-CCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
5102448 C
1 C
5102449 ATTTTGCCCC
Statistics
Matches: 145, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 16 0.11
27 129 0.89
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:5102927 original size:22 final size:22
Alignment explanation
Indices: 5102875--5102939 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
5102865 TTAAAGCCTT
* *
5102875 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
5102897 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
5102919 CTGATTATGGCTGTGTACCAA
1 CTGATTATGGCTCTGTGCCAA
5102940 ACGTATTTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:5103156 original size:54 final size:53
Alignment explanation
Indices: 5103098--5103199 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
5103088 ATTCTGTTAA
* * * * *
5103098 GTGGCTTTGCCATATTATCTGTTTCTGATGGCTATGTCACAAATATCTGTTTTG
1 GTGGCTCTGCCACAATATCTGTATCTGATGACTATGTCAC-AATATCTGTTTTG
* *
5103152 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTGTATCTGATGACTATGTCACAATATCTG
5103200 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTGATGACTATGTCACAATATCTGTTTTG
Found at i:5103180 original size:27 final size:26
Alignment explanation
Indices: 5103098--5103199 Score: 96
Period size: 27 Copynumber: 3.8 Consensus size: 26
5103088 ATTCTGTTAA
* * *
5103098 GTGGCTTTGCCATATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTG-TTCTG
* * * *
5103125 ATGGCTATGTCACAAATATCTGTTTTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
5103152 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* *
5103179 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
5103200 ATAACTGAGC
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 9 0.15
27 45 0.74
28 7 0.11
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.39
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:5103363 original size:6 final size:6
Alignment explanation
Indices: 5103352--5103473 Score: 90
Period size: 6 Copynumber: 19.8 Consensus size: 6
5103342 TTACCTAATA
* * * *
5103352 CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGGTT CTGATT TTGATT
1 CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT
* * *
5103401 CTG-TT ACCTGATA CTGATT CTGATT CTAATT CTG-TCAC CTGATT CTGATT
1 CTGATT --CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT
5103451 CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGA-TT CTGAT
5103474 AATATTTTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
5 6 0.07
6 72 0.79
7 10 0.11
8 3 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
CTGATT
Found at i:5103378 original size:31 final size:31
Alignment explanation
Indices: 5103323--5103464 Score: 194
Period size: 31 Copynumber: 4.5 Consensus size: 31
5103313 TTGCATTCAC
* * *
5103323 ATTCTGATTTTTAATTATGTTACCTAATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
5103355 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
5103386 GTTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
5103417 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
5103448 ATTCTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
5103465 AGTTCTGATA
Statistics
Matches: 100, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 93 0.93
32 7 0.07
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:5111225 original size:17 final size:17
Alignment explanation
Indices: 5111203--5111243 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
5111193 GAACTTGACG
5111203 TCTCGATCTGGAGGCAA
1 TCTCGATCTGGAGGCAA
5111220 TCTCGATCTGGAGGCAA
1 TCTCGATCTGGAGGCAA
*
5111237 GCTCGAT
1 TCTCGAT
5111244 AACTCTTCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (17 bp):
TCTCGATCTGGAGGCAA
Found at i:5113988 original size:3 final size:3
Alignment explanation
Indices: 5113969--5114421 Score: 104
Period size: 3 Copynumber: 152.3 Consensus size: 3
5113959 TTAGTTAATT
* * * * *
5113969 TTA TTA TTT TTA CTA TTA TTG TTA TTA -AA TATA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * * *
5114014 TTG TTA TTA TTA TTTA CATG TTA TTA TTTC TTT TTC TT- TTA TTA TGGTA
1 TTA TTA TTA TTA -TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA T--TA
* ** * * *
5114063 TTA TTA TTA TTG CCA TTA TTA CTA TTT TTA TT- TT- TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
5114109 TTA TCA -TC TTA TT- TTA TTG TCA TT- TT- TGTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * * * *
5114151 TTT TTA -TA TT- TT- TTA CTA CTA TTA TTA CTC TT- TTT TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * *
5114195 TTA TTA TT- TT- TTA CCA -TA TTA TTA TT- TCCTA TT- TTT TTA TATG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T--TA TTA TTA TTA T-TA
* ** *
5114238 TTA TTA TTG TTA TTA ACA -TA TTA TTA TTA TTA TTAA TGTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA
* * * * ** *
5114284 TT- TCCTA TTA TTA TTA TTA CTA ATA TCA CTA TTA CCA TTT TTA TTA
1 TTA T--TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
5114330 CTG TTA TTA TTA TTA TTA TTC TTCA CTA TCTA ATA -TA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA T-TA TTA TTA TTA TTA TTA
* * * * *
5114375 CCTTT TTA TTA TTA TCA CTA TT- GTA TTA TTA CTA TTA TTA TTA TTA
1 --TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5114421 T
1 T
5114422 ATTTTCTTTT
Statistics
Matches: 319, Mismatches: 96, Indels: 70
0.66 0.20 0.14
Matches are distributed among these distances:
2 35 0.11
3 259 0.81
4 18 0.06
5 7 0.02
ACGTcount: A:0.27, C:0.09, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:5114282 original size:20 final size:20
Alignment explanation
Indices: 5114239--5114285 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
5114229 TTTTATATGT
* *
5114239 TATTATTGTTATTAACATAT
1 TATTATTATTATTAACATAC
**
5114259 TATTATTATTATTAATGTAC
1 TATTATTATTATTAACATAC
5114279 TATTATT
1 TATTATT
5114286 TCCTATTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (20 bp):
TATTATTATTATTAACATAC
Found at i:5117419 original size:11 final size:11
Alignment explanation
Indices: 5117403--5117431 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
5117393 GTAATGTTAA
5117403 AATATATACAT
1 AATATATACAT
5117414 AATATATACAT
1 AATATATACAT
5117425 -ATATATA
1 AATATATA
5117432 TGAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (11 bp):
AATATATACAT
Found at i:5118196 original size:25 final size:28
Alignment explanation
Indices: 5118144--5118201 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 28
5118134 AAATGATGAT
* *
5118144 ATAAATAATAATATGTTAAAAATAAATA
1 ATAAATAATAATAAGGTAAAAATAAATA
5118172 ATAAAT-ATAATAAGGT-AAAAT-AATA
1 ATAAATAATAATAAGGTAAAAATAAATA
5118197 ATAAA
1 ATAAA
5118202 GGTATGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 9 0.32
26 5 0.18
27 8 0.29
28 6 0.21
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (28 bp):
ATAAATAATAATAAGGTAAAAATAAATA
Found at i:5120259 original size:27 final size:27
Alignment explanation
Indices: 5120212--5120330 Score: 82
Period size: 30 Copynumber: 4.2 Consensus size: 27
5120202 ACAATGGAGA
**
5120212 TGGAGCTAGAGGTGGTAATGGTGGTGG
1 TGGAGCTAGAGGTGGGCATGGTGGTGG
5120239 TGGAGCTAGAGGTGGGCATGGTAATGGTGG
1 TGGAGCTAGAGGTGGGCATGG---TGGTGG
***
5120269 TGGAG--AGGAAGGTGGGCACAACAATGGTGG
1 TGGAGCTA-G-AGGTGGG--C-ATGGTGGTGG
*
5120299 TGGAGCTAGAGGTGGTG-GTGGTGGTGG
1 TGGAGCTAGAGGTGG-GCATGGTGGTGG
5120326 TGGAG
1 TGGAG
5120331 GAGCTGGAAG
Statistics
Matches: 72, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
27 30 0.42
28 1 0.01
29 1 0.01
30 35 0.49
31 2 0.03
32 2 0.03
33 1 0.01
ACGTcount: A:0.20, C:0.06, G:0.52, T:0.22
Consensus pattern (27 bp):
TGGAGCTAGAGGTGGGCATGGTGGTGG
Found at i:5120269 original size:30 final size:29
Alignment explanation
Indices: 5120212--5120313 Score: 95
Period size: 30 Copynumber: 3.5 Consensus size: 29
5120202 ACAATGGAGA
**
5120212 TGGAGCTAGAGGTGGTAATGG--TGGTGG
1 TGGAGCTAGAGGTGGGCATGGAATGGTGG
5120239 TGGAGCTAGAGGTGGGCATGGTAATGGTGG
1 TGGAGCTAGAGGTGGGCATGG-AATGGTGG
***
5120269 TGGAG--AGGAAGGTGGGCACAACAATGGTGG
1 TGGAGCTA-G-AGGTGGGCA-TGGAATGGTGG
5120299 TGGAGCTAGAGGTGG
1 TGGAGCTAGAGGTGG
5120314 TGGTGGTGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
27 19 0.31
28 1 0.02
29 1 0.02
30 39 0.63
31 1 0.02
32 1 0.02
ACGTcount: A:0.23, C:0.07, G:0.50, T:0.21
Consensus pattern (29 bp):
TGGAGCTAGAGGTGGGCATGGAATGGTGG
Found at i:5128131 original size:46 final size:46
Alignment explanation
Indices: 5128079--5128296 Score: 260
Period size: 46 Copynumber: 4.7 Consensus size: 46
5128069 TGGGCATCTG
5128079 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
* *
5128125 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
* * * * * * * *
5128171 AACTCGTCGAGTTGAGTCAGAGTTCA-TGAAATGTA-ACTAGGCATCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACGTCCA
* *
5128218 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
* * *
5128264 AGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
5128297 GCGGGTTACA
Statistics
Matches: 142, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
45 1 0.01
46 107 0.75
47 33 0.23
48 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCA
Found at i:5131698 original size:51 final size:51
Alignment explanation
Indices: 5131622--5131731 Score: 184
Period size: 51 Copynumber: 2.2 Consensus size: 51
5131612 AATGGCAATA
* *
5131622 GATAAGTGGTAGCTTTAACTACACTTATCTGATTAGTGACAATTGACAAGT
1 GATAAGTGGTAGCTTTAACTACACTTATCTGATCAGTGACAAGTGACAAGT
*
5131673 GATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGT
1 GATAAGTGGTAGCTTTAACTACACTTATCTGATCAGTGACAAGTGACAAGT
*
5131724 GACAAGTG
1 GATAAGTG
5131732 ATAAATGTGA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (51 bp):
GATAAGTGGTAGCTTTAACTACACTTATCTGATCAGTGACAAGTGACAAGT
Found at i:5131719 original size:7 final size:7
Alignment explanation
Indices: 5131707--5131732 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5131697 TTATCTGATC
5131707 AGTGACA
1 AGTGACA
5131714 AGTGACA
1 AGTGACA
5131721 AGTGACA
1 AGTGACA
5131728 AGTGA
1 AGTGA
5131733 TAAATGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.12, G:0.31, T:0.15
Consensus pattern (7 bp):
AGTGACA
Found at i:5135449 original size:33 final size:32
Alignment explanation
Indices: 5135405--5135472 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
5135395 ACCAACATAC
*
5135405 AAAGTATAATTAAATAATGCATGATATACAAA
1 AAAGTATAATTAAATAATGCATGACATACAAA
5135437 AAAGTGATAATTAAATAATGCATGACATACAAA
1 AAAGT-ATAATTAAATAATGCATGACATACAAA
5135470 AAA
1 AAA
5135473 AAAAGTAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 5 0.15
33 29 0.85
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.25
Consensus pattern (32 bp):
AAAGTATAATTAAATAATGCATGACATACAAA
Found at i:5135833 original size:23 final size:23
Alignment explanation
Indices: 5135798--5135866 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 23
5135788 AATTTATATT
5135798 TATA-ATAAA-ATAATTATATAA
1 TATATATAAATATAATTATATAA
*
5135819 TATATATAAATATAAATT-TAGAA
1 TATATATAAATAT-AATTATATAA
5135842 TA-ATATGAAATAAGTAATTA-ATAA
1 TATATAT-AAAT-A-TAATTATATAA
5135866 T
1 T
5135867 GAAATATACG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
21 4 0.10
22 9 0.23
23 12 0.31
24 13 0.33
25 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
TATATATAAATATAATTATATAA
Found at i:5136089 original size:19 final size:20
Alignment explanation
Indices: 5136063--5136112 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
5136053 TAATACAAGT
5136063 AAAA-AATAATAA-CGATGA
1 AAAATAATAATAATCGATGA
**
5136081 AAAATAATAATAATTTATGA
1 AAAATAATAATAATCGATGA
5136101 AAAATAA-AATAA
1 AAAATAATAATAA
5136113 AATAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 13 0.46
20 11 0.39
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (20 bp):
AAAATAATAATAATCGATGA
Found at i:5136129 original size:12 final size:12
Alignment explanation
Indices: 5136108--5136167 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
5136098 TGAAAAATAA
*
5136108 AATAAAATAAAT
1 AATAATATAAAT
5136120 AATAATATAAAT
1 AATAATATAAAT
* *
5136132 ACT-ATGTAAAT
1 AATAATATAAAT
5136143 AGATAATTATATAAT
1 A-ATAA-TATA-AAT
5136158 -ATAATATAAA
1 AATAATATAAA
5136168 AGTAAGGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
11 10 0.26
12 18 0.46
13 5 0.13
14 3 0.08
15 3 0.08
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:5138184 original size:206 final size:206
Alignment explanation
Indices: 5137830--5138455 Score: 972
Period size: 206 Copynumber: 3.0 Consensus size: 206
5137820 GAAGGTGAGG
* * * * *
5137830 TCTGCTATGTATCTGCTCTCCGTTGAAGTGGAGATGCTAGACTTCGATTTGCTCTCTGACAATAC
1 TCTGCTATGTGTCTGCCCTCCGTTGAAGTGGAGATGCCAGACTTCTATTTGCTCTCTGCCAATAC
*
5137895 AGAGATGCCAAATCATCTTAGATTTGCTTCATCCTAAACACGTGAAAGCCAAATCAGCTATGTCT
66 AGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCT
* * *
5137960 TCGATTTTTTCCTTGTAAGCAAAGGGATGCCAAATCATCTTGGATCTTACTTTAGTCTAATCATT
131 TCGATTTGTTCCTTGTAAGCAAAGGGATGCCAAATCATCTTGGATCTTACTTCAGTCTAATCATC
5138025 TGAAGGCCAGA
196 TGAAGGCCAGA
5138036 TCTGCTATGTGTCTGCCCTCCGTTGAAGTGGAGATGCCAGACTTCTATTTGCTCTCTGCCAATAC
1 TCTGCTATGTGTCTGCCCTCCGTTGAAGTGGAGATGCCAGACTTCTATTTGCTCTCTGCCAATAC
* * *
5138101 AGAAATGCCAAATCATCTTAGATTTGCTTCATCGTAAACATGTGAAAGCCAAATTAGCTATGTCT
66 AGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCT
* * * *
5138166 TCGATTTGCTCCTTGTAAGCACAGGGATGCCAAATCATCTTGGATCTTGCTTCAGTTTAATCATC
131 TCGATTTGTTCCTTGTAAGCAAAGGGATGCCAAATCATCTTGGATCTTACTTCAGTCTAATCATC
*
5138231 TGAAGGTCAGA
196 TGAAGGCCAGA
* *
5138242 TCTGCTATGTGTCTGCCCTCCGTAGAAGTGGAGATGCCAGA-TTTTGATTTGCTCTCTGCCAATA
1 TCTGCTATGTGTCTGCCCTCCGTTGAAGTGGAGATGCCAGACTTCT-ATTTGCTCTCTGCCAATA
5138306 CAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTC
65 CAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTC
* * *
5138371 TTCGATTTGTTCCTTGTAAGCACAA-GGATACCAAACCATCTTGGATC-TACTTCAG-CATAAGC
130 TTCGATTTGTTCCTTGTAAGCA-AAGGGATGCCAAATCATCTTGGATCTTACTTCAGTC-TAATC
**
5138433 ATCTGAAGGTTGAGA
193 ATCTGAAGG-CCAGA
5138448 TCTGCTAT
1 TCTGCTAT
5138456 ACTGCGGCCT
Statistics
Matches: 386, Mismatches: 30, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
205 23 0.06
206 362 0.94
207 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (206 bp):
TCTGCTATGTGTCTGCCCTCCGTTGAAGTGGAGATGCCAGACTTCTATTTGCTCTCTGCCAATAC
AGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCAAATCAGCTATGTCT
TCGATTTGTTCCTTGTAAGCAAAGGGATGCCAAATCATCTTGGATCTTACTTCAGTCTAATCATC
TGAAGGCCAGA
Found at i:5152052 original size:33 final size:32
Alignment explanation
Indices: 5152008--5152075 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
5151998 ACCAACATAC
*
5152008 AAAGTATAATTAAATAATGCATAATATACAAA
1 AAAGTATAATTAAATAATGCATAACATACAAA
*
5152040 AAAGTGATAATTAAATAATGCATGACATACAAA
1 AAAGT-ATAATTAAATAATGCATAACATACAAA
5152073 AAA
1 AAA
5152076 AAGTAATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 5 0.15
33 28 0.85
ACGTcount: A:0.59, C:0.07, G:0.09, T:0.25
Consensus pattern (32 bp):
AAAGTATAATTAAATAATGCATAACATACAAA
Found at i:5152434 original size:23 final size:23
Alignment explanation
Indices: 5152399--5152467 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 23
5152389 AATTTATATT
5152399 TATA-ATAAA-ATAATTATATAA
1 TATATATAAATATAATTATATAA
*
5152420 TATATATAAATATAAGTT-TAGAA
1 TATATATAAATATAA-TTATATAA
5152443 TA-ATATGAAATAAGTAATTA-ATAA
1 TATATAT-AAAT-A-TAATTATATAA
5152467 T
1 T
5152468 GAAATATACG
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
21 4 0.10
22 9 0.23
23 14 0.36
24 9 0.23
25 3 0.08
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.38
Consensus pattern (23 bp):
TATATATAAATATAATTATATAA
Found at i:5152683 original size:18 final size:18
Alignment explanation
Indices: 5152643--5152696 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
5152633 AGTGACATAG
5152643 TATAATATATAATATAA-A
1 TATAATATATAA-ATAATA
*
5152661 GTAT-ATATGTAAAATAATA
1 -TATAATATAT-AAATAATA
5152680 TATAATATATAAATAAT
1 TATAATATATAAATAAT
5152697 TAATAAATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
18 19 0.63
19 11 0.37
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (18 bp):
TATAATATATAAATAATA
Found at i:5152702 original size:11 final size:10
Alignment explanation
Indices: 5152673--5152804 Score: 56
Period size: 11 Copynumber: 12.6 Consensus size: 10
5152663 ATATATGTAA
*
5152673 AATAATATAT
1 AATAATAAAT
5152683 AATATATAAAT
1 AATA-ATAAAT
5152694 AATTAATAAAT
1 AA-TAATAAAT
*
5152705 ACATAATACA-
1 A-ATAATAAAT
* *
5152715 AGTAAAAAAT
1 AATAATAAAT
**
5152725 AATAA-CGAT
1 AATAATAAAT
*
5152734 GAAAAAT-AAT
1 -AATAATAAAT
**
5152744 AATAATTTAT
1 AATAATAAAT
*
5152754 GAAAAATAAAAT
1 -AATAAT-AAAT
5152766 AAT-ATAAAT
1 AATAATAAAT
5152775 AATAATATAAAT
1 AAT-A-ATAAAT
5152787 AATATATAAAT
1 AATA-ATAAAT
5152798 AGATAAT
1 A-ATAAT
5152805 TATATAATAT
Statistics
Matches: 93, Mismatches: 16, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
9 19 0.20
10 19 0.20
11 38 0.41
12 17 0.18
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (10 bp):
AATAATAAAT
Found at i:5152744 original size:19 final size:20
Alignment explanation
Indices: 5152718--5152768 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
5152708 TAATACAAGT
5152718 AAAA-AATAATAA-CGATGA
1 AAAATAATAATAATCGATGA
**
5152736 AAAATAATAATAATTTATGA
1 AAAATAATAATAATCGATGA
5152756 AAAATAA-AATAAT
1 AAAATAATAATAAT
5152769 ATAAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 14 0.48
20 11 0.38
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAATAATAATAATCGATGA
Done.