Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004426.1 Hibiscus syriacus cultivar Beakdansim tig00009705_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 282303
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
File 2 of 2
Found at i:206371 original size:13 final size:13
Alignment explanation
Indices: 206353--206377 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
206343 TGAACTTCAT
206353 ATAAAATTTTAAA
1 ATAAAATTTTAAA
206366 ATAAAATTTTAA
1 ATAAAATTTTAA
206378 TTATAGATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAAAATTTTAAA
Found at i:207243 original size:16 final size:16
Alignment explanation
Indices: 207224--207267 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
207214 AATTTTGGCT
207224 TTTTTGTTTTTTTTTG
1 TTTTTGTTTTTTTTTG
**
207240 TTTTTGCCTTTTTTTG
1 TTTTTGTTTTTTTTTG
207256 -TTTTGTTTTTTT
1 TTTTTGTTTTTTT
207268 ATGAAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.00, C:0.05, G:0.11, T:0.84
Consensus pattern (16 bp):
TTTTTGTTTTTTTTTG
Found at i:210723 original size:34 final size:35
Alignment explanation
Indices: 210604--211492 Score: 673
Period size: 34 Copynumber: 24.9 Consensus size: 35
210594 CCTCAGGGCA
*
210604 ATCTTAAGCCTTCACCAG-AGAATAGTGAAGCAAATCC
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC-AA-CC
* * * *
210641 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGAAATC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACC
*
210676 ATCTTAAGTCTTCACAGAAGAGTAGTGAAGC-ACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACC
* *
210710 ATCTTAAGCCTTCATAGAAAAGTAGTGAAGC-ACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACC
* *
210744 ATATTAAGCCTTCACA-AAGGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCACAGAA-GAGTAGTGAAGCAACC
*
210779 ATCTTAAGCCTTCACAGAAGAGTAGTGGAGC-ACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACC
*
210813 ATCTTAAGCCTTCACAGAGGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-AACC
* *
210849 ATCTTAAGCCTTCACCA-AAAAGGAGTGAAGCAAACC
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC-AACC
* * *
210885 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACC
*
210920 ATCTTAAGTCTTCACAGAAGAGTAGTTG-AGC-ACC
1 ATCTTAAGCCTTCACAGAAGAGTAG-TGAAGCAACC
* *
210954 ATCTTAAGCCTTCACAGAGGAGTAGTGAAGC-ACT
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACC
*
210988 ATCTTAAGCCTTCACCA-AAGAGGAGTGAAGCAAACC
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC-AACC
*
211024 ATCTTAAGCCTTCACCAG-AGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGCAACC
211059 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-ACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACC
* * *
211093 ATATTAAGCCTTCACCAG-AGAATAGTGAAGCAAATCA
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC-AA-CC
*
211130 ATTTTAAGCCTTCACCA-AAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC-AA-CC
* * * * * **
211167 ATCAATAAGCCTTCCGAGCATGATGATTAAGTCCTTAGGGTA--
1 ATC-TTAAGCCTT-C-A-CA-GAAGAGT-AG---TGAAGCAACC
*
211209 ATCTTAAGCCTTCACCAG-AGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC-AA-CC
* *
211246 ATTTTAAGCCTTCACAGAGGAGTAGTGAAGC-ACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACC
*
211280 ATCTTAAGCCTTCAC--------CGTGAAGCAAACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-AACC
* * *
211308 ATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-AA-CC
* * * *** *
211345 ATCAGTAAGCCTTCCGAGCACGATGATTAAGT-TCTCAAGGCA
1 ATC-TTAAGCCTT-C-A-CA-GAAGAGT-AGTGAAGCAA--CC
** * * *
211387 ATCTTAAGCCTTCACCTAAGAATAGGGAAGAAAATCC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAG-CAA-CC
* *
211424 ATCTTAATCCTTCACCA-AAGAGGAGTGAAGCAAACC
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC-AACC
* * *
211460 ATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAA
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAA
211493 ATCCATCAGT
Statistics
Matches: 689, Mismatches: 106, Indels: 116
0.76 0.12 0.13
Matches are distributed among these distances:
26 7 0.01
28 17 0.02
33 7 0.01
34 191 0.28
35 124 0.18
36 141 0.20
37 126 0.18
38 20 0.03
39 6 0.01
40 6 0.01
41 19 0.03
42 16 0.02
43 5 0.01
45 1 0.00
46 3 0.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (35 bp):
ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACC
Found at i:210880 original size:139 final size:138
Alignment explanation
Indices: 210604--211492 Score: 822
Period size: 139 Copynumber: 6.2 Consensus size: 138
210594 CCTCAGGGCA
* * *
210604 ATCTTAAGCCTTCACCAGAGAATAGTGAAGCAAATCCATCTTAAGCCTTCACCGGAGAGTAGTGA
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGC-AAT-CATCTTAAGCCTTCACAGAAGAGTAGTGA
* * * * * *
210669 AGAAATCATCTTAAGTCTTCACAGAAGAGTAGTGAAGCACCATCTTAAGCCTTCA-TAGAAAAGT
64 AG-CACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCACCATCTTAAGCCTTCACCA-AAAAGG
210733 AGTGAAGC-ACC
127 AGTGAAGCAACC
* * *
210744 ATATTAAGCCTTCA-CAAAGGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGGA
1 ATCTTAAGCCTTCACCAGA-GAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAA
210808 GCACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCAAACCATCTTAAGCCTTCACCAAAAAGGA
65 GCACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGC--ACCATCTTAAGCCTTCACCAAAAAGGA
210873 GTGAAGCAAACC
128 GTGAAGC-AACC
* *
210885 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCTTAAGTCTTCACAGAAGAGTAGTTG-A
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAG-TGAA
* *
210949 GCACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCACTATCTTAAGCCTTCACCAAAGAGGAGT
65 GCACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCACCATCTTAAGCCTTCACCAAAAAGGAGT
211014 GAAGCAAACC
130 GAAGC-AACC
211024 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
* * * * * *
211089 CACCATATTAAGCCTTCACCAGA-GAATAGTGAAGCAAATCAATTTTAAGCCTTCACCAAAGAGT
66 CACCATCTTAAGCCTTCA-CAGAGGAGTAGTGAAGC--A-CCATCTTAAGCCTTCACCAAAAAGG
211153 AGTGAAGCAAATCC
127 AGTGAAGC-AA-CC
* * * ** ** *
211167 ATCAATAAGCCTTCCGAGCATGATGATTAAGTCCTTAG-GGTAATCTTAAGCCTTCACCAG-AGA
1 ATC-TTAAGCCTT-C-ACCA-GA-GAGT-AGT--GAAGCAATCATCTTAAGCCTTCA-CAGAAGA
* *
211230 GTAGTGAAGCAAATCAATTTTAAGCCTTCACAGAGGAGTAGTGAAGCACCATCTTAAGCCTTCAC
57 GTAGTGAAGC--A-CCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCACCATCTTAAGCCTTCAC
211295 C--------GTGAAGCAAACC
119 CAAAAAGGAGTGAAGC-AACC
* * * * *
211308 ATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCGAGCACGATGATT
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGC-AAT-CATC-TTAAGCCTT-C-A-CA-GAAGAGT
* ** * * * * *
211373 AAGTTCTCAAGGCA--ATCTTAAGCCTTCACCTAAGAATAGGGAAGAAAATCCATCTTAATCCTT
59 -AG---TGAA-GCACCATCTTAAGCCTTCACAGAGGAGTAGTGAAG--CA-CCATCTTAAGCCTT
*
211436 CACCAAAGAGGAGTGAAGCAAACC
116 CACCAAAAAGGAGTGAAGC-AACC
* *
211460 ATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAA
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAA
211493 ATCCATCAGT
Statistics
Matches: 637, Mismatches: 61, Indels: 91
0.81 0.08 0.12
Matches are distributed among these distances:
133 2 0.00
135 4 0.01
136 6 0.01
137 41 0.06
138 33 0.05
139 165 0.26
140 37 0.06
141 126 0.20
142 49 0.08
143 6 0.01
144 26 0.04
145 4 0.01
146 5 0.01
147 2 0.00
148 3 0.00
149 3 0.00
150 44 0.07
151 8 0.01
152 48 0.08
153 25 0.04
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (138 bp):
ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
CACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCACCATCTTAAGCCTTCACCAAAAAGGAGTG
AAGCAACC
Found at i:211102 original size:244 final size:244
Alignment explanation
Indices: 210607--211162 Score: 845
Period size: 244 Copynumber: 2.3 Consensus size: 244
210597 CAGGGCAATC
*
210607 TTAAGCCTTCACCAGAGAATAGTGAAGCAAATCCATCTTAAGCCTTCACCGGAGAGTAGTGAAGA
1 TTAAGCCTTCACCAGAGAATAGTGAAGCAAATCCATCTTAAGCCTTCACCGGAGAGTAGTGAAGC
*
210672 AATCATCTTAAGTCTTCACAGAAGAGTAGTGAAGCACCATCTTAAGCCTTCATAGAAAAGTAGTG
66 AATCATCTTAAGTCTTCACAGAAGAGTAGTGAAGCACCATCTTAAGCCTTCACAGAAAAGTAGTG
* *
210737 AAGCACCATATTAAGCCTTCACAAAGGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGT
131 AAGCACCATATTAAGCCTTCACAAAGGAGGAGTGAAGCAACCATCTTAAGCCTTCACAGAAGAGT
* * *
210802 AGTGGAGCACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGCAAACCATC
196 AGTGAAGCACCATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-AACCATA
* *
210852 TTAAGCCTTCACCA-AAAAGGAGTGAAGCAAA-CCATCTTAAGCCTTCACCGGAGAGTAGTGAAG
1 TTAAGCCTTCACCAGAGAA-TAGTGAAGCAAATCCATCTTAAGCCTTCACCGGAGAGTAGTGAAG
**
210915 CAATCATCTTAAGTCTTCACAGAAGAGTAGTTG-AGCACCATCTTAAGCCTTCACAGAGGAGTAG
65 CAATCATCTTAAGTCTTCACAGAAGAGTAG-TGAAGCACCATCTTAAGCCTTCACAGAAAAGTAG
* *
210979 TGAAGCACTATCTTAAGCCTTCACCAAA-GAGGAGTGAAGCAAACCATCTTAAGCCTTCACCAG-
129 TGAAGCACCATATTAAGCCTTCA-CAAAGGAGGAGTGAAGC-AACCATCTTAAGCCTTCA-CAGA
*
211042 AGAGTAGTGAAGCAATCATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-ACCATA
191 AGAGTAGTGAAGC-ACCATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACCATA
* * **
211096 TTAAGCCTTCACCAGAGAATAGTGAAGCAAATCAATTTTAAGCCTTCACCAAAGAGTAGTGAAGC
1 TTAAGCCTTCACCAGAGAATAGTGAAGCAAATCCATCTTAAGCCTTCACCGGAGAGTAGTGAAGC
211161 AA
66 AA
211163 ATCCATCAAT
Statistics
Matches: 283, Mismatches: 20, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
244 154 0.54
245 94 0.33
246 35 0.12
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.22
Consensus pattern (244 bp):
TTAAGCCTTCACCAGAGAATAGTGAAGCAAATCCATCTTAAGCCTTCACCGGAGAGTAGTGAAGC
AATCATCTTAAGTCTTCACAGAAGAGTAGTGAAGCACCATCTTAAGCCTTCACAGAAAAGTAGTG
AAGCACCATATTAAGCCTTCACAAAGGAGGAGTGAAGCAACCATCTTAAGCCTTCACAGAAGAGT
AGTGAAGCACCATCTTAAGCCTTCACAGAAGAGTAGTGAAGCAACCATA
Found at i:211316 original size:28 final size:26
Alignment explanation
Indices: 211270--211324 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 26
211260 CAGAGGAGTA
*
211270 GTGAAGCACCATCTTAAGCCTTCACC
1 GTGAAGCACCATCTGAAGCCTTCACC
211296 GTGAAGCAAACCATCTGAAGCCTTCACC
1 GTGAAGC--ACCATCTGAAGCCTTCACC
211324 G
1 G
211325 GAGAGTAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 7 0.27
28 19 0.73
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (26 bp):
GTGAAGCACCATCTGAAGCCTTCACC
Found at i:211360 original size:178 final size:178
Alignment explanation
Indices: 211024--211476 Score: 572
Period size: 178 Copynumber: 2.5 Consensus size: 178
211014 GAAGCAAACC
211024 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGC-AATCATCTTAAGCCTTCACAGAAGAGTAGTGAA
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAAATCATCTTAAGCCTTCACAGAAGAGTAGTGAA
* * *
211088 GCACCATATTAAGCCTTCACCAGAGAATAGTGAAGCAAATCAATTTTAAGCCTTCACCAAAGAGT
66 GCACCATCTTAAGCCTTCACC--------GTGAAGCAAATCAATCTGAAGCCTTCACCAAAGAGT
* * * *
211153 AGTGAAGCAAATCCATCAATAAGCCTTCCGAGCATGATGATTAAGTCCTTAGGGTA
123 AGTGAAGCAAATCCATCAATAAGCCTTCCGAGCACGATGATTAAGTCCTCAAGGCA
* *
211209 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAAATCAATTTTAAGCCTTCACAGAGGAGTAGTGA
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAAATC-ATCTTAAGCCTTCACAGAAGAGTAGTGA
* **
211274 AGCACCATCTTAAGCCTTCACCGTGAAGCAAA-CCATCTGAAGCCTTCACCGGAGAGTAGTGAAG
65 AGCACCATCTTAAGCCTTCACCGTGAAGCAAATCAATCTGAAGCCTTCACCAAAGAGTAGTGAAG
* *
211338 CAAATCCATCAGTAAGCCTTCCGAGCACGATGATTAAGTTCTCAAGGCA
130 CAAATCCATCAATAAGCCTTCCGAGCACGATGATTAAGTCCTCAAGGCA
* * * * *
211387 ATCTTAAGCCTTCACCTA-AGAATAGGGAAGAAAATCCATCTTAATCCTTCACCA-AAGAGGAGT
1 ATCTTAAGCCTTCACC-AGAGAGTAGTGAAGCAAAT-CATCTTAAGCCTTCA-CAGAAGAGTAGT
*
211450 GAAGCAAACCATCTGAAGCCTTCACCG
63 GAAGC--ACCATCTTAAGCCTTCACCG
211477 GAGAGTAGTG
Statistics
Matches: 239, Mismatches: 22, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
178 124 0.52
179 14 0.06
180 19 0.08
185 31 0.13
186 4 0.02
187 47 0.20
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (178 bp):
ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAAATCATCTTAAGCCTTCACAGAAGAGTAGTGAA
GCACCATCTTAAGCCTTCACCGTGAAGCAAATCAATCTGAAGCCTTCACCAAAGAGTAGTGAAGC
AAATCCATCAATAAGCCTTCCGAGCACGATGATTAAGTCCTCAAGGCA
Found at i:211436 original size:37 final size:37
Alignment explanation
Indices: 211387--211690 Score: 202
Period size: 37 Copynumber: 8.1 Consensus size: 37
211377 TCTCAAGGCA
* * * *
211387 ATCTTAAGCCTTCACCTAAGAATAGGGAAGAAAATCC
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCC
* *
211424 ATCTTAATCCTTCACCAAAGAGGAGTGAAGCAAA-CC
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCC
* **
211460 ATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCC
* * * * * *** *** *
211497 ATCAGTAAGACTTCCGAGCATGATGATTAAGT-CCTCAGGGCA
1 ATC-TTAAGCCTT-C-ACCA--AAGAGT-AGTGAAGCAAATCC
* ** * *
211539 ATCTTAAGCCTTTACCTGAGAATAGGGAAGCAAATCC
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCC
* * *
211576 ATCTTAAGCCTTCA-CATGAGAATAGTG-AGTCAAATCA
1 ATCTTAAGCCTTCACCA-AAGAGTAGTGAAG-CAAATCC
211613 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCC
** * *
211650 ATCAGCAAGCCTTCACCGAAGAGTGGTGAAGCAAATCC
1 ATC-TTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCC
211688 ATC
1 ATC
211691 AGCAAGCCTT
Statistics
Matches: 201, Mismatches: 53, Indels: 25
0.72 0.19 0.09
Matches are distributed among these distances:
36 36 0.18
37 98 0.49
38 43 0.21
39 3 0.01
40 2 0.01
41 7 0.03
42 9 0.04
43 3 0.01
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (37 bp):
ATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCC
Found at i:211495 original size:73 final size:74
Alignment explanation
Indices: 211296--211701 Score: 225
Period size: 79 Copynumber: 5.3 Consensus size: 74
211286 AGCCTTCACC
*
211296 GTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCG
1 GTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCC
* *
211361 AGCACGATGA
66 A-CAAGAGGA
* * * * ** * * * * *
211371 -TTAAGTTCTCAAGGCAATCTTAAGCCTTCACCTAAGAATAGGGAAGAAAATCCATC-TTAATCC
1 GTGAAG----CAA-ACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCC
211434 TTCACCA-AAGAGGA
61 TTC-CCACAAGAGGA
* *
211448 GTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGACTTCCG
1 GTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCC
* *
211513 AGCATGATGA
66 A-CAAGAGGA
* ** * * * * * * *
211523 -TTAAGTCCTCAGGGCAATCTTAAGCCTTTACCTGAGAATAGGGAAGCAAATCCATC-TTAAGCC
1 GTGAAG----CA-AACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCC
* ** **
211586 TTCACATGAGAATA
61 TTCCCACAAGAGGA
* * ** *
211600 GTG-AGTCAAATCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATCAGCAAGCCTTC
1 GTGAAG-CAAA-CCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTC
*
211664 ACC-GAAGAGTG-
64 -CCACAAGAG-GA
*
211675 GTGAAGCAAATCCATCAGCAAGCCTTC
1 GTGAAGCAAA-CCATCTG-AAGCCTTC
211702 CGAGCATGAT
Statistics
Matches: 244, Mismatches: 65, Indels: 43
0.69 0.18 0.12
Matches are distributed among these distances:
73 37 0.15
74 58 0.24
75 28 0.11
76 11 0.05
77 10 0.04
78 27 0.11
79 73 0.30
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (74 bp):
GTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCC
ACAAGAGGA
Found at i:211574 original size:152 final size:152
Alignment explanation
Indices: 211296--211663 Score: 551
Period size: 152 Copynumber: 2.4 Consensus size: 152
211286 AGCCTTCACC
211296 GTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCG
1 GTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCG
*
211361 AGCACGATGATTAAGTTCTCAAGGCAATCTTAAGCCTTCACCTAAGAATAGGGAAGAAAATCCAT
66 AGCACGATGATTAAGTCCTCAAGGCAATCTTAAGCCTTCACCTAAGAATAGGGAAGAAAATCCAT
* *
211426 CTTAATCCTTCACCA-AAGAGGA
131 CTTAAGCCTTCA-CATAAGAAGA
*
211448 GTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGACTTCCG
1 GTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCG
* * * * *
211513 AGCATGATGATTAAGTCCTCAGGGCAATCTTAAGCCTTTACCTGAGAATAGGGAAGCAAATCCAT
66 AGCACGATGATTAAGTCCTCAAGGCAATCTTAAGCCTTCACCTAAGAATAGGGAAGAAAATCCAT
* *
211578 CTTAAGCCTTCACATGAGAATA
131 CTTAAGCCTTCACATAAGAAGA
* * ** *
211600 GTG-AGTCAAATCAATCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATCAGCAAGCCTTC
1 GTGAAG-CAAA-CCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTC
211664 ACCGAAGAGT
Statistics
Matches: 196, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
151 4 0.02
152 145 0.74
153 47 0.24
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (152 bp):
GTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCG
AGCACGATGATTAAGTCCTCAAGGCAATCTTAAGCCTTCACCTAAGAATAGGGAAGAAAATCCAT
CTTAAGCCTTCACATAAGAAGA
Found at i:212152 original size:80 final size:81
Alignment explanation
Indices: 211898--212176 Score: 506
Period size: 81 Copynumber: 3.5 Consensus size: 81
211888 TGAGTCATTT
*
211898 GTAAGTCTTTCGAGCATGATGATTAAATACTTCGGGTAATTTTTTAAGCCTTCACAGAAGAGTAG
1 GTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTTTTAAGCCTTCACAGAAGAGTAG
211963 TGAAGCAAATTCATCA
66 TGAAGCAAATTCATCA
*
211979 GTAAGTCTTTCGAGCGTGATGATTAAATCCTTCGGGTAATTTTTTAAGCCTTCACAGAAGAGTAG
1 GTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTTTTAAGCCTTCACAGAAGAGTAG
212044 TGAAGCAAATTCATCA
66 TGAAGCAAATTCATCA
* *
212060 GTAAGTCTTTCGAGCGTGATGATTAAATCCTTCGGGTAA-TTTTTAAGCCTTCACAAAAGAGTAG
1 GTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTTTTAAGCCTTCACAGAAGAGTAG
212124 TGAAGCAAATTCATCA
66 TGAAGCAAATTCATCA
*
212140 GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGT
1 GTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGT
212177 CATCCATAAG
Statistics
Matches: 193, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
80 75 0.39
81 118 0.61
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (81 bp):
GTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTTTTAAGCCTTCACAGAAGAGTAG
TGAAGCAAATTCATCA
Found at i:214283 original size:39 final size:41
Alignment explanation
Indices: 214240--214351 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 41
214230 TTCCTTGGTC
* *
214240 AATTATCTTTTTA-ATTATTA-T-TATTTTAGTTAGTTTGTT
1 AATTAT-TTTTTAGATTATTAGTGTAATTTAGTTAGTTAGTT
214279 AATTATTTTTTATGATTATTAGTTGTAATTTAGTTAGTTAGTT
1 AATTATTTTTTA-GATTATTAG-TGTAATTTAGTTAGTTAGTT
*
214322 AATTATTTTTCATGATTATTAGTTGTAATT
1 AATTATTTTTTA-GATTATTAG-TGTAATT
214352 AAATTAGTAT
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
38 6 0.09
39 6 0.09
40 7 0.11
42 1 0.02
43 45 0.69
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.60
Consensus pattern (41 bp):
AATTATTTTTTAGATTATTAGTGTAATTTAGTTAGTTAGTT
Found at i:214311 original size:43 final size:43
Alignment explanation
Indices: 214264--214365 Score: 159
Period size: 43 Copynumber: 2.3 Consensus size: 43
214254 TTATTATTAT
*
214264 TTTAGTTAGTTTGTTAATTATTTTTTATGATTATTAGTTGTAA
1 TTTAGTTAGTTTGTTAATTATTTTTCATGATTATTAGTTGTAA
*
214307 TTTAGTTAGTTAGTTAATTATTTTTCATGATTATTAGTTGTAA
1 TTTAGTTAGTTTGTTAATTATTTTTCATGATTATTAGTTGTAA
* *
214350 TTAAATTAGTATTGTT
1 TTTAGTTAGT-TTGTT
214366 GACTTTAGCA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 49 0.92
44 4 0.08
ACGTcount: A:0.27, C:0.01, G:0.14, T:0.58
Consensus pattern (43 bp):
TTTAGTTAGTTTGTTAATTATTTTTCATGATTATTAGTTGTAA
Found at i:220971 original size:21 final size:19
Alignment explanation
Indices: 220926--220975 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 19
220916 AAAGAGAAAG
220926 AAAA-GAAAAAAATAAAAA
1 AAAATGAAAAAAATAAAAA
*
220944 AAGAATGAAAAAATTGAAATAA
1 AA-AATGAAAAAAAT-AAA-AA
220966 AAAATGAAAA
1 AAAATGAAAA
220976 TAAAAGGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.07
19 2 0.07
20 8 0.30
21 11 0.41
22 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (19 bp):
AAAATGAAAAAAATAAAAA
Found at i:221333 original size:34 final size:34
Alignment explanation
Indices: 221295--222293 Score: 780
Period size: 34 Copynumber: 27.9 Consensus size: 34
221285 CCTCAGGGCA
* *
221295 ATCTTAAGCCTTCACAGAGGAGTAGTGAAGCACT
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
*
221329 ATCTTAAGCCTTCACCA-AAGAGGAGTGAAGCAAACC
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC--ACC
*
221365 ATCTTAAGCCTTCACCAG-AGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC-ACC
221400 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
* *
221434 ATCTTAAGCCTTCACCAG-AGAATAGTGAAGCAAATCA
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC--A-CC
* **
221471 ATTTTAAGCCTTCACCCAAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC--A-CC
* * * ** ** *
221508 ATCAGTAAGCCTTCCGAGCATGATGATTAAGTCCTCAGGGCA
1 ATC-TTAAGCCTT-C-A-CA-GAAGAGT-AGT--GAAGCACC
*
221550 ATCTTAAGCCTTCACCAG-AGAATAGTGAAGCAAATCC
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC--A-CC
* * *
221587 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-ACC
*
221622 ATCTTAAGTCTTCACAGAAGAGTAGTGAAGCACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
** * *
221656 ATCTTAATTCTTCATAGAAAAGTAGTGAAGCACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
* *
221690 ATATTAAGCCTTCACA-AAGGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCACAGAA-GAGTAGTGAAGC-ACC
*
221725 ATCTTAAGCCTTCACAGAAGAGTAGTGGAGCACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
* *
221759 ATCTTAAGCCTTCACAGAGGAGTAGTGAAGTAAACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAG--CACC
*
221795 ATCTTAAGCCTTCACCA-AAGAGGAGTGAAGCAAACC
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC--ACC
* * *
221831 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGC-ACC
* * *
221866 ATTTTAAGCCTTCACAGAAGAGTAGTGGAGAACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
* *
221900 ATCTTAAGCCTTCACAGAGGAGTAGTGAAGCACT
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
*
221934 ATCTTAAGCCTTCACCA-AAGAGGAGTGAAGCAAACC
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC--ACC
* *
221970 ATCTTAAGCCTTCACTAG-AGAGTAGTGAAGTAATC
1 ATCTTAAGCCTTCAC-AGAAGAGTAGTGAAG-CACC
222005 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
* * *
222039 ATCTTAAGCATTCACCAG-AGAATAGTGAAGCAAATCA
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC--A-CC
* *
222076 ATTTTAAGCCTTCACCA-AAGAGTAGTGAATCAAATCC
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC--A-CC
* * * ** ** *
222113 ATCAGTAAGCCTTTCGAGCATGATGATTAAGTCCTCAGGGCA
1 ATC-TTAAGCC-TTC-A-CA-GAAGAGT-AGT--GAAGCACC
* * *
222155 ATCTTAAGCCTTCACCTG-AGAGTAGTGAAGAAAATCA
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAG--CA-CC
* *
222192 ATTTTAAGCCTTCACAGAGGAGTAGTGAAGCACC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
*
222226 ATCTTAAGCCTTCACCA-AAGAGGAGTGAAGCAAACC
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAGC--ACC
* * *
222262 ATCTGAAGCCTTCACCGGAGAGTAGTGAAGCA
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCA
222294 AATCCATCAG
Statistics
Matches: 785, Mismatches: 121, Indels: 118
0.77 0.12 0.12
Matches are distributed among these distances:
33 2 0.00
34 260 0.33
35 161 0.21
36 161 0.21
37 128 0.16
38 16 0.02
39 9 0.01
40 8 0.01
41 15 0.02
42 16 0.02
43 6 0.01
45 3 0.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (34 bp):
ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACC
Found at i:222012 original size:139 final size:140
Alignment explanation
Indices: 221295--222464 Score: 972
Period size: 139 Copynumber: 8.1 Consensus size: 140
221285 CCTCAGGGCA
* * * *
221295 ATCTTAAGCCTTCACAGAGGAGTAGTGAAGCACTATCTTAAGCCTTCACCA-AAGAGGAGTGAAG
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGAACCATCTTAAGCCTTCA-CAGAAGAGTAGTGAAG
* * *
221359 CAAACCATCTTAAGCCTTCACCAGAGAGTAGTGAAGC-AATCATCTTAAGCCTTCA-CAGAAGAG
65 C-AACCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACCAG-AGAG
* *
221422 TAGTGAAG-CACC
128 TAGTGAAGAAATC
* * * **
221434 ATCTTAAGCCTTCACCAG-AGAATAGTGAAGCAAATCAATTTTAAGCCTTCACCCAAGAGTAGTG
1 ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAG--AA-CCATCTTAAGCCTTCACAGAAGAGTAGTG
* * * * * ** *
221498 AAGCAAATCCATCAGTAAGCCTTC-CGAGCATGATGA-TTAAGTCCTCAGGGCAATCTTAAGCCT
62 AAGC-AA-CCATC-TTAAGCCTTCACCA--AAGAGGAGTGAAG----CA-AACCATCTTAAGCCT
*
221561 TCACCAGAGAATAGTGAAGCAAATCC
117 TCACCAGAGAGTAGTGAAG-AAAT-C
* * * *
221587 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAATCATCTTAAGTCTTCACAGAAGAGTAGTGAAG
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAG-AACCATCTTAAGCCTTCACAGAAGAGTAGTGAAG
** * * * * *
221652 C-ACCATCTTAATTCTTCA-TAGAAAAGTAGTGAAGC--ACCATATTAAGCCTTCA-CAAAGGAG
65 CAACCATCTTAAGCCTTCACCA-AAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACCAGA-GAG
*
221712 TAGTGAAGCAATC
128 TAGTGAAGAAATC
* * *
221725 ATCTTAAGCCTTCACAGAAGAGTAGTGGAGCACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGT
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGAACCATCTTAAGCCTTCACAGAAGAGTAGTGAAG-
* *
221790 AAACCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACCGGAGAGTA
65 CAACCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACCAGAGAGTA
*
221855 GTGAAGCAATC
130 GTGAAGAAATC
* * *
221866 ATTTTAAGCCTTCACAGAAGAGTAGTGGAGAACCATCTTAAGCCTTCACAGAGGAGTAGTGAAGC
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGAACCATCTTAAGCCTTCACAGAAGAGTAGTGAAGC
* *
221931 -ACTATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACTAGAGAGTAG
66 AACCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACCAGAGAGTAG
*
221995 TGAAGTAATC
131 TGAAGAAATC
* * *
222005 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGCACCATCTTAAGCATTCACCAG-AGAATAGTGAAG
1 ATCTTAAGCCTTCACAGAAGAGTAGTGAAGAACCATCTTAAGCCTTCA-CAGAAGAGTAGTGAAG
* * * * * *
222069 CAAATCAATTTTAAGCCTTCACCAAAGAGTAGTGAATCAAATCCATCAGTAAGCCTTTCGAGCAT
65 C-AA-CCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAA-CCATC-TTAAGCC-TTC-ACCA-
* **** ***
222134 GATGATTAAGTCCTCAGGGC
123 GA-GAGT-AGTGAAGAAATC
* * * *
222154 AATCTTAAGCCTTCACCTG-AGAGTAGTGAAGAAAATCAATTTTAAGCCTTCACAGAGGAGTAGT
1 -ATCTTAAGCCTTCA-CAGAAGAGTAGTGAAG--AA-CCATCTTAAGCCTTCACAGAAGAGTAGT
* *
222218 GAAGC-ACCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTGAAGCCTTCACCGGAG
61 GAAGCAACCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACCAGAG
222282 AGTAGTGAAGCAAATCC
126 AGTAGTGAAG-AAAT-C
* * * ** ** * * *
222299 ATCAGTAAGCCTTCCAAGCATGATGATTATGTCCTCAGGGCAATCTTAAGCCTTCACCTG-AGAA
1 ATC-TTAAGCCTT-C-A-CA-GAAGAGTA-GT--GAAGAACCATCTTAAGCCTTCA-CAGAAGAG
*
222363 TAG-GAAAGCAAATCCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTGAAGCCTTC
57 TAGTG-AAGC-AA-CCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTC
*
222427 ACCGGAGAGTAGTGAAGCAAATCC
119 ACCAGAGAGTAGTGAAG-AAAT-C
*
222451 ATCAGTAAGCCTTC
1 ATC-TTAAGCCTTC
222465 CGAGTATGAT
Statistics
Matches: 843, Mismatches: 127, Indels: 110
0.78 0.12 0.10
Matches are distributed among these distances:
137 30 0.04
138 28 0.03
139 182 0.22
140 31 0.04
141 97 0.12
142 64 0.08
143 16 0.02
144 26 0.03
145 17 0.02
146 8 0.01
147 19 0.02
148 16 0.02
149 38 0.05
150 87 0.10
151 35 0.04
152 99 0.12
153 50 0.06
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (140 bp):
ATCTTAAGCCTTCACAGAAGAGTAGTGAAGAACCATCTTAAGCCTTCACAGAAGAGTAGTGAAGC
AACCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTTAAGCCTTCACCAGAGAGTAG
TGAAGAAATC
Found at i:222372 original size:79 final size:77
Alignment explanation
Indices: 222262--222617 Score: 270
Period size: 79 Copynumber: 4.7 Consensus size: 77
222252 GAAGCAAACC
*
222262 ATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCAAGCATGATGATT
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAATCCATCAGTAAGCCTTCCAAG-ATGATGATT
*
222327 ATGTCCTCAGGGCA
65 A-GTCCTCAGAGCA
* * * *
222341 ATCTTAAGCCTTCACCTGAGAATAG-GAAAGCAAATCCATC-TTAAGCCTTCACCAAAGAGGAGT
1 ATCTGAAGCCTTCACCGGAGAATAGTG-AAGCAAATCCATCAGTAAGCCTT--CC-AAGATGA-T
* *
222404 GA--AG----CA-AACC
61 GATTAGTCCTCAGAGCA
* *
222414 ATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCCATCAGTAAGCCTTCCGAGTATGATGATT
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAATCCATCAGTAAGCCTTCCAAG-ATGATGATT
*
222479 AAGTCCTCAGCGCA
65 -AGTCCTCAGAGCA
* * * * * * * *
222493 ATCTTAAGCCTTCACCTGAGAATAGGGAAACAAATCCATC-TTAAGTCTT-C-ACATGA-GAATA
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAATCCATCAGTAAGCCTTCCAAGATGATGATTA
*** * *
222554 GTGAGGCAAATCA
66 GT-CCTCAGAGCA
* * * * *
222567 ATCTTAAGCCTTCACTGAAGAGTAGTGAAGCAAATCCATCAGCAAGCCTTC
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAATCCATCAGTAAGCCTTC
222618 ACCGAAGAGT
Statistics
Matches: 217, Mismatches: 41, Indels: 41
0.73 0.14 0.14
Matches are distributed among these distances:
71 5 0.02
72 5 0.02
73 39 0.18
74 54 0.25
75 10 0.05
76 1 0.00
77 1 0.00
78 19 0.09
79 72 0.33
80 5 0.02
81 6 0.03
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (77 bp):
ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAATCCATCAGTAAGCCTTCCAAGATGATGATTA
GTCCTCAGAGCA
Found at i:222386 original size:37 final size:37
Alignment explanation
Indices: 222341--222644 Score: 228
Period size: 37 Copynumber: 8.1 Consensus size: 37
222331 CCTCAGGGCA
* *
222341 ATCTTAAGCCTTCACCTGAGAATAG-GAAAGCAAATCC
1 ATCTTAAGCCTTCACCAGAGAGTAGTG-AAGCAAATCC
* *
222378 ATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAA-CC
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAAATCC
* *
222414 ATCTGAAGCCTTCACCGGAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAAATCC
* * * ** *
222451 ATCAGTAAGCCTTC-CGAGTATGA-T-GATTAAGTCCTCAGCGC
1 ATC-TTAAGCCTTCACCAG-A-GAGTAG-TGAAG--CAAATC-C
* * * *
222492 AATCTTAAGCCTTCACCTGAGAATAGGGAAACAAATCC
1 -ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAAATCC
* * * *
222530 ATCTTAAGTCTTCA-CATGAGAATAGTGAGGCAAATCA
1 ATCTTAAGCCTTCACCA-GAGAGTAGTGAAGCAAATCC
*
222567 ATCTTAAGCCTTCA-CTGAAGAGTAGTGAAGCAAATCC
1 ATCTTAAGCCTTCACCAG-AGAGTAGTGAAGCAAATCC
**
222604 ATCAGCAAGCCTTCACC-GAAGAGTAGTGAAGCAAATCC
1 ATC-TTAAGCCTTCACCAG-AGAGTAGTGAAGCAAATCC
222642 ATC
1 ATC
222645 AGCAAGCCTT
Statistics
Matches: 212, Mismatches: 38, Indels: 33
0.75 0.13 0.12
Matches are distributed among these distances:
36 34 0.16
37 98 0.46
38 49 0.23
39 6 0.03
40 5 0.02
41 14 0.07
42 6 0.03
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (37 bp):
ATCTTAAGCCTTCACCAGAGAGTAGTGAAGCAAATCC
Found at i:222397 original size:152 final size:152
Alignment explanation
Indices: 222224--222617 Score: 621
Period size: 152 Copynumber: 2.6 Consensus size: 152
222214 TAGTGAAGCA
222224 CCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTG
1 CCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTG
* *
222289 AAGCAAATCCATCAGTAAGCCTTCCAAGCATGATGATTATGTCCTCAGGGCAATCTTAAGCCTTC
66 AAGCAAATCCATCAGTAAGCCTTCCAAGCATGATGATTAAGTCCTCAGCGCAATCTTAAGCCTTC
222354 ACCTGAGAATA-GGAAAGCAAAT
131 ACCTGAGAATAGGGAAA-CAAAT
222376 CCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTG
1 CCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTG
* *
222441 AAGCAAATCCATCAGTAAGCCTTCCGAGTATGATGATTAAGTCCTCAGCGCAATCTTAAGCCTTC
66 AAGCAAATCCATCAGTAAGCCTTCCAAGCATGATGATTAAGTCCTCAGCGCAATCTTAAGCCTTC
222506 ACCTGAGAATAGGGAAACAAAT
131 ACCTGAGAATAGGGAAACAAAT
* * ** * * * * *
222528 CCATCTTAAGTCTTCA-CATGAGAATAGTGAGGCAAATCAATCTTAAGCCTTCACTGAAGAGTAG
1 CCATCTTAAGCCTTCACCA-AAGAGGAGTGAAGCAAA-CCATCTGAAGCCTTCACCGGAGAGTAG
*
222592 TGAAGCAAATCCATCAGCAAGCCTTC
64 TGAAGCAAATCCATCAGTAAGCCTTC
222618 ACCGAAGAGT
Statistics
Matches: 225, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
151 2 0.01
152 170 0.76
153 53 0.24
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (152 bp):
CCATCTTAAGCCTTCACCAAAGAGGAGTGAAGCAAACCATCTGAAGCCTTCACCGGAGAGTAGTG
AAGCAAATCCATCAGTAAGCCTTCCAAGCATGATGATTAAGTCCTCAGCGCAATCTTAAGCCTTC
ACCTGAGAATAGGGAAACAAAT
Found at i:222856 original size:42 final size:42
Alignment explanation
Indices: 222810--222893 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
222800 CTGGCCATCA
* * *
222810 GTAAGTCTTTTAAGCATGATGCTTAAATCCTTCGGGTCATTT
1 GTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTAATTT
* *
222852 GTAAGTCTTTCGAGCGTGATGATTAAATCCTTCGGGTAATTT
1 GTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTAATTT
222894 TTTAAGCCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.39
Consensus pattern (42 bp):
GTAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTAATTT
Found at i:223106 original size:80 final size:81
Alignment explanation
Indices: 222852--223130 Score: 506
Period size: 81 Copynumber: 3.5 Consensus size: 81
222842 CGGGTCATTT
222852 GTAAGTCTTTCGAGCGTGATGATTAAATCCTTCGGGTAATTTTTTAAGCCTTCACAGAAGAGTAG
1 GTAAGTCTTTCGAGCGTGATGATTAAATCCTTCGGGTAATTTTTTAAGCCTTCACAGAAGAGTAG
*
222917 TGAAGTAAATTCATCA
66 TGAAGCAAATTCATCA
*
222933 GTAAGTCTTTCGAGCGTGATGATTAAATCCTTCGGGTAATTTTTTAAGCCTTCATAGAAGAGTAG
1 GTAAGTCTTTCGAGCGTGATGATTAAATCCTTCGGGTAATTTTTTAAGCCTTCACAGAAGAGTAG
222998 TGAAGCAAATTCATCA
66 TGAAGCAAATTCATCA
*
223014 GTAAGTCTTTCGAGCGTGATGATTAAATCCTTCGGGTAA-TTTTTAAGCCTTCACAAAAGAGTAG
1 GTAAGTCTTTCGAGCGTGATGATTAAATCCTTCGGGTAATTTTTTAAGCCTTCACAGAAGAGTAG
223078 TGAAGCAAATTCATCA
66 TGAAGCAAATTCATCA
* *
223094 GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGT
1 GTAAGTCTTTCGAGCGTGATGATTAAATCCTTCGGGT
223131 TATCCATAAG
Statistics
Matches: 192, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
80 74 0.39
81 118 0.61
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (81 bp):
GTAAGTCTTTCGAGCGTGATGATTAAATCCTTCGGGTAATTTTTTAAGCCTTCACAGAAGAGTAG
TGAAGCAAATTCATCA
Found at i:224253 original size:43 final size:43
Alignment explanation
Indices: 224206--224307 Score: 168
Period size: 43 Copynumber: 2.3 Consensus size: 43
224196 TTATTATTAT
224206 TTTAGTTAGTTTGTTAATTATTTTTCATGATTATTAGTTGTAA
1 TTTAGTTAGTTTGTTAATTATTTTTCATGATTATTAGTTGTAA
*
224249 TTTAGTTAGTTTGTTAATTATTTTTCATGATTATTAGTTTTAA
1 TTTAGTTAGTTTGTTAATTATTTTTCATGATTATTAGTTGTAA
* *
224292 TTAAATTAGTATTGTT
1 TTTAGTTAGT-TTGTT
224308 GACTTTAGCA
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 50 0.91
44 5 0.09
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.59
Consensus pattern (43 bp):
TTTAGTTAGTTTGTTAATTATTTTTCATGATTATTAGTTGTAA
Found at i:227774 original size:24 final size:23
Alignment explanation
Indices: 227747--227796 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
227737 TTATAATATA
*
227747 TATATATATATATATATATTCTTT
1 TATATATATATATACATATT-TTT
*
227771 TATATATTTATATACATATTTTT
1 TATATATATATATACATATTTTT
227794 TAT
1 TAT
227797 TTTTCATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATATATATATATACATATTTTT
Found at i:227904 original size:19 final size:18
Alignment explanation
Indices: 227882--227945 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
227872 ACACTTTACT
*
227882 TTTTTTATACTTTTCTTCC
1 TTTTTTATA-TTTTCTTCA
227901 TTTTGTATATATTTTGTCTTCA
1 TTTT-T-TATA-TTT-TCTTCA
* *
227923 TTTATTATATTTTATTCA
1 TTTTTTATATTTTCTTCA
227941 TTTTT
1 TTTTT
227946 ATTATTTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 9 0.24
19 7 0.19
20 5 0.14
21 8 0.22
22 8 0.22
ACGTcount: A:0.17, C:0.11, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTTATATTTTCTTCA
Found at i:227942 original size:18 final size:18
Alignment explanation
Indices: 227919--227953 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
227909 ATATTTTGTC
227919 TTCATTTATTA-TATTTTA
1 TTCATTT-TTATTATTTTA
227937 TTCATTTTTATTATTTT
1 TTCATTTTTATTATTTT
227954 TCTTTGTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (18 bp):
TTCATTTTTATTATTTTA
Found at i:227979 original size:14 final size:14
Alignment explanation
Indices: 227961--228009 Score: 59
Period size: 13 Copynumber: 3.6 Consensus size: 14
227951 TTTTCTTTGT
*
227961 TTTCGTTTTATTTT
1 TTTCGTTTTATTTA
227975 TTTCGTTTT-TCTTA
1 TTTCGTTTTAT-TTA
227989 TTT-GTTTTATTTA
1 TTTCGTTTTATTTA
228002 TTTC-TTTT
1 TTTCGTTTT
228010 GGTTTTAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 16 0.52
14 15 0.48
ACGTcount: A:0.08, C:0.08, G:0.06, T:0.78
Consensus pattern (14 bp):
TTTCGTTTTATTTA
Found at i:229259 original size:33 final size:33
Alignment explanation
Indices: 229192--229312 Score: 108
Period size: 32 Copynumber: 3.8 Consensus size: 33
229182 GATCTAGATT
* *
229192 GAAAATC-AATCGATATGATATTGACTCA-ATCC
1 GAAAATCAAATCGATCTGATATTGAC-CAGACCC
*
229224 GAAAATCAAATCAATCTGATATTGACCAGACCC
1 GAAAATCAAATCGATCTGATATTGACCAGACCC
* * *
229257 G-AAATCTAA-CTGACCTGATATTGACCCGACCC
1 GAAAATCAAATC-GATCTGATATTGACCAGACCC
* * *
229289 AAAAATC-AATTGATATGATATTGA
1 GAAAATCAAATCGATCTGATATTGA
229313 TCCAAACCAA
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
31 1 0.01
32 47 0.64
33 25 0.34
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (33 bp):
GAAAATCAAATCGATCTGATATTGACCAGACCC
Found at i:230973 original size:29 final size:29
Alignment explanation
Indices: 230930--231039 Score: 186
Period size: 29 Copynumber: 3.8 Consensus size: 29
230920 TTTTATATGT
230930 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
230958 TCATGTAGTTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
230987 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
231016 TCATGTAGCTAATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
231040 ATATCACATA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
28 7 0.09
29 65 0.84
30 5 0.06
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:231483 original size:64 final size:63
Alignment explanation
Indices: 231414--231570 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 63
231404 TAATGAAGGT
**
231414 ATGCATCGATGCACTACTTGTGCATCGATGCA-TAAAATGCATTCGATG-TTTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGATGTTTTTATT-TTAA-AA
231477 G
63 G
* * * * *
231478 ATGCATCGATGCA-TGCCTTATGCATCGATTCACTAATTGCATTTGATGTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCGATGTTTTTATTTTAAAAG
* *
231541 AGTGCATCGATGCACTACCTGTGCACCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
231571 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
63 3 0.04
64 65 0.84
65 9 0.12
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATGTTTTTATTTTAAAAG
Found at i:237190 original size:29 final size:29
Alignment explanation
Indices: 237149--237257 Score: 184
Period size: 29 Copynumber: 3.8 Consensus size: 29
237139 TTTATATGTC
237149 CATGTA-CTCATGTCATTTCTCTTGTGAT
1 CATGTAGCTCATGTCATTTCTCTTGTGAT
*
237177 CATGTAGTTCATGTCATTTCTCTTGTGAT
1 CATGTAGCTCATGTCATTTCTCTTGTGAT
237206 CATGTAGCTCATGTCATTTCTCTTGTGAT
1 CATGTAGCTCATGTCATTTCTCTTGTGAT
*
237235 CATGTAGCTAATGTCATGTTCTC
1 CATGTAGCTCATGTCAT-TTCTC
237258 ATATCATATA
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
28 6 0.08
29 65 0.86
30 5 0.07
ACGTcount: A:0.18, C:0.20, G:0.17, T:0.45
Consensus pattern (29 bp):
CATGTAGCTCATGTCATTTCTCTTGTGAT
Found at i:237706 original size:64 final size:63
Alignment explanation
Indices: 237634--237790 Score: 185
Period size: 64 Copynumber: 2.5 Consensus size: 63
237624 TAATGAAGGT
* **
237634 ATGCATCGATGCACTACTTGTGCATCGGTGC-CTAAAATGCATTCGATG-TTTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATGCATTCGATGTTTTTATT-TTAA-AA
237697 G
63 G
* * *
237698 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATGCATTCGATGTTTTTATTTTAAAAG
*
237761 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
237791 ACACCTTCAA
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
63 3 0.04
64 66 0.84
65 10 0.13
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATGCATTCGATGTTTTTATTTTAAAAG
Found at i:242556 original size:20 final size:20
Alignment explanation
Indices: 242526--242604 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
242516 ATCGCAACAC
*
242526 AATAGTAAAAAGCGCAACGTG
1 AATAGT-AAAATCGCAACGTG
*
242547 AATAGTAAAATCGTAACGTG
1 AATAGTAAAATCGCAACGTG
* * **
242567 AATAGTGAAATCGTAATATG
1 AATAGTAAAATCGCAACGTG
242587 AATAGTAAAATCGCAACG
1 AATAGTAAAATCGCAACG
242605 AATCGCAACA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 43 0.88
21 6 0.12
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (20 bp):
AATAGTAAAATCGCAACGTG
Found at i:242558 original size:40 final size:40
Alignment explanation
Indices: 242514--242605 Score: 96
Period size: 40 Copynumber: 2.3 Consensus size: 40
242504 GCGAATTTAT
*
242514 AAATCGCAAC-ACAATAGTAAAAAGCGCAACGTGAATAGTA
1 AAATCGCAACGACAATAGT-AAAAGCGCAACATGAATAGTA
* ** * * * *
242554 AAATCGTAACGTGAATAGTGAAATCGTAATATGAATAGTA
1 AAATCGCAACGACAATAGTAAAAGCGCAACATGAATAGTA
242594 AAATCGCAACGA
1 AAATCGCAACGA
242606 ATCGCAACAT
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
40 35 0.85
41 6 0.15
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (40 bp):
AAATCGCAACGACAATAGTAAAAGCGCAACATGAATAGTA
Found at i:245737 original size:72 final size:73
Alignment explanation
Indices: 245624--245765 Score: 200
Period size: 72 Copynumber: 2.0 Consensus size: 73
245614 ATTGTTTATA
* * *
245624 ATTTTTAAATTAAAAAAAATATTTAAAACAAGAGAATAAAAC-AACTCATCCATAATGTTGCTCA
1 ATTTTTAAAATAAAAAAAATATTTAAAACAAAAGAAGAAAACAAAC-CATCCATAATGTTGCTCA
245688 TAAAATTTG
65 TAAAATTTG
* *
245697 ATTTTTAAAAT-AAAAAAATATTTAATAA-AAAAGAAGAAAACAAACCATCCATAATGTTTCTTA
1 ATTTTTAAAATAAAAAAAATATTTAA-AACAAAAGAAGAAAACAAACCATCCATAATGTTGCTCA
245760 TAAAAT
65 TAAAAT
245766 GGTTGAATAA
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
72 47 0.76
73 15 0.24
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.31
Consensus pattern (73 bp):
ATTTTTAAAATAAAAAAAATATTTAAAACAAAAGAAGAAAACAAACCATCCATAATGTTGCTCAT
AAAATTTG
Found at i:245779 original size:72 final size:71
Alignment explanation
Indices: 245636--245780 Score: 170
Period size: 72 Copynumber: 2.0 Consensus size: 71
245626 TTTTAAATTA
* * *
245636 AAAAAAATATTTAAAACAAGAGAATAAAACAACTCATCCATAATGTTGCTCATAAAATTTGATTT
1 AAAAAAATATTTAAAACAAAAGAAGAAAACAACTCATCCATAATGTTGCTCATAAAATTTGA-TA
*
245701 TTAAAAT
65 TAAAAAT
* *
245708 AAAAAAATATTTAATAA-AAAAGAAGAAAACAAAC-CATCCATAATGTTTCTTATAAAATGGTTG
1 AAAAAAATATTTAA-AACAAAAGAAGAAAAC-AACTCATCCATAATGTTGCTCATAAAAT--TTG
245771 A-ATAAAAAT
62 ATATAAAAAT
245780 A
1 A
245781 TACACAAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
72 54 0.86
73 5 0.08
74 4 0.06
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (71 bp):
AAAAAAATATTTAAAACAAAAGAAGAAAACAACTCATCCATAATGTTGCTCATAAAATTTGATAT
AAAAAT
Found at i:247720 original size:93 final size:93
Alignment explanation
Indices: 247551--247720 Score: 216
Period size: 93 Copynumber: 1.8 Consensus size: 93
247541 CCTCGGAACT
* * **
247551 AGAATCGGAACATGTTAGTCAAGCCGAAGAAGACCAATCATCAATTCTCACATTAGAAGTTGAGA
1 AGAATCGGAACATGTTAGTCAAGCCGAAGAAGACCAATCATCAATACTAACAGCAGAAGTTGAGA
*
247616 TATCAGAGCATTCCCCGAAATCATAATC
66 TATCACAGCATTCCCCGAAATCATAATC
* * * * * *
247644 AGAATCGGAACTTGTTA-TCGAAGCCGAAGATGATCAATCATCGATACTAACGGCGGAAGTTGAG
1 AGAATCGGAACATGTTAGTC-AAGCCGAAGAAGACCAATCATCAATACTAACAGCAGAAGTTGAG
*
247708 ATATCACCGCATT
65 ATATCACAGCATT
247721 TCCAACCTCA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
92 2 0.03
93 62 0.97
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (93 bp):
AGAATCGGAACATGTTAGTCAAGCCGAAGAAGACCAATCATCAATACTAACAGCAGAAGTTGAGA
TATCACAGCATTCCCCGAAATCATAATC
Found at i:249580 original size:15 final size:15
Alignment explanation
Indices: 249560--249677 Score: 121
Period size: 15 Copynumber: 7.5 Consensus size: 15
249550 TAATAAGGTT
249560 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
249575 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
249590 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
**
249605 ATTTACCTTAAAATA
1 ATTTATTTTAAAATA
* *
249620 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
249639 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
249657 ATTTA-TTTAAAATA
1 ATTTATTTTAAAATA
249671 ATTTATT
1 ATTTATT
249678 AGTATGAATT
Statistics
Matches: 85, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
14 14 0.16
15 51 0.60
16 4 0.05
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.05
22 6 0.07
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:249647 original size:22 final size:22
Alignment explanation
Indices: 249622--249722 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 22
249612 TTAAAATAAA
*
249622 TTATTATAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
** * *
249644 TTATTTTAAAATAATTTATTTAAA
1 TTATTTTAAAAT-ATGGA-TTGAT
* * * * *
249668 ATAATTTATTAGTATGAATTGAT
1 TTATTTTA-AAATATGGATTGAT
249691 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
249713 TTATTTTAAA
1 TTATTTTAAA
249723 TAATTTATTA
Statistics
Matches: 58, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
22 32 0.55
23 12 0.21
24 12 0.21
25 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (22 bp):
TTATTTTAAAATATGGATTGAT
Found at i:249713 original size:69 final size:66
Alignment explanation
Indices: 249575--249732 Score: 214
Period size: 69 Copynumber: 2.3 Consensus size: 66
249565 TTTTAAAATA
249575 ATTTATTTTAAAATAATTTATTATAAAATAATTTACCTTAAAATAAATTATTATAAAATATGGAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTA-CTTAAAATAAATTATTATAAAATATGGAT
249640 TG
65 TG
* * *
249642 ATTTATTTTAAAATAATTTATT-TAAAATAATTTA-TTAGTATGAATTGATTTATTTTAAAATAT
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTACTTA--A--AA-TAAATTATTATAAAATAT
249705 GGATTG
61 GGATTG
249711 ATTTATTTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
249733 GTATGGATTG
Statistics
Matches: 82, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
64 3 0.04
66 13 0.16
67 22 0.27
68 14 0.17
69 30 0.37
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (66 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTACTTAAAATAAATTATTATAAAATATGGATT
G
Found at i:249724 original size:54 final size:54
Alignment explanation
Indices: 249657--250211 Score: 450
Period size: 54 Copynumber: 10.1 Consensus size: 54
249647 TTTTAAAATA
* *
249657 ATTTATTTAAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
249711 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
249765 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
249819 ATTTA--TT--AT--TGTAGTT-GTATGGATTAATTTATTTTAAATAATTTATTAGTATGTATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-T-G---G-ATTG
* *
249877 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAACATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
** **
249931 ATTTA--TT--AT--GGTAGTT-GTATGGATTGATTTATTTT-AAATAATTTATTAG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * *
249980 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTTTAAAATATGGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
250033 ATTTATTTTAAATAATTTATTAGTATCGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * ** * * *
250083 ATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGA
1 ATTTATTTTAAATAATTTA--TT--AGTATGGATTGATTTA-TTT---TAA---A--A-TATGGA
250148 TTG
52 TTG
250151 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
250205 ATTTATT
1 ATTTATT
250212 ATTGTAGTGG
Statistics
Matches: 402, Mismatches: 50, Indels: 98
0.73 0.09 0.18
Matches are distributed among these distances:
47 3 0.01
48 47 0.12
49 7 0.02
50 25 0.06
51 1 0.00
52 11 0.03
53 17 0.04
54 190 0.47
55 11 0.03
57 2 0.00
58 11 0.03
59 2 0.00
60 6 0.01
62 5 0.01
63 7 0.02
64 37 0.09
65 2 0.00
66 2 0.00
68 16 0.04
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:249740 original size:32 final size:32
Alignment explanation
Indices: 249702--250194 Score: 272
Period size: 32 Copynumber: 15.7 Consensus size: 32
249692 TATTTTAAAA
249702 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
249734 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
249756 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
249788 TATGGATTGATTTATTTTAAAATATAGATTGATTTAT
1 TATGGATTGATTTATTTT--AA-ATA-ATTTA-TTAG
*
249825 TATTGTAGTTGTATGGATTAATTTATTTTAAATAATTTATTAG
1 TA-TG--G--AT-T-G----ATTTATTTTAAATAATTTATTAG
* *
249868 TATGTATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
*
249900 TATGGATTGATTTATTTTAAA-ACATGGATTGATTTAT
1 TATGGATTGATTTATTTTAAATA-AT---TT-A-TTAG
** * * *
249937 TATGGTAGTTGTATGGATTGA-TTTATTTTAAATAATTTAT
1 TATGG-A-TTG-AT---TT-ATTTTA-AATAATTTA-TTAG
* * * * *
249977 TA-GTATGGATTGA-TTT--AT--TTTA-AAA
1 TATGGATTGATTTATTTTAAATAATTTATTAG
250002 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
250024 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
* *
250056 TATCGATTGATTTATTTTAAATAATTTATTTG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
250088 TATGGATTGATTTA-TTT---TAA---A--A-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
250110 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
250142 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
250174 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
250195 ATATGGATTG
Statistics
Matches: 367, Mismatches: 30, Indels: 128
0.70 0.06 0.24
Matches are distributed among these distances:
22 42 0.11
23 11 0.03
24 1 0.00
25 6 0.02
26 20 0.05
27 2 0.01
28 6 0.02
29 4 0.01
31 10 0.03
32 176 0.48
33 1 0.00
34 2 0.01
35 5 0.01
36 8 0.02
37 15 0.04
38 5 0.01
39 4 0.01
40 11 0.03
41 1 0.00
42 3 0.01
43 12 0.03
44 7 0.02
45 4 0.01
46 2 0.01
48 9 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:249759 original size:22 final size:22
Alignment explanation
Indices: 249734--249776 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
249724 AATTTATTAG
249734 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
249756 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
249777 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:249905 original size:112 final size:111
Alignment explanation
Indices: 249657--250108 Score: 505
Period size: 112 Copynumber: 4.1 Consensus size: 111
249647 TTTTAAAATA
* *
249657 ATTTATTTAAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATT-GTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--
*
249722 ATAATTTA-TTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
61 AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
*
249765 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATT-GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
* *
249830 TAGTTGTATGGATTAATTTATTTTAAATAATTTATTAGTATGTATTG
65 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
249877 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAACATGGATTGATTTATTATGG
1 ATTTATTTTAAATAATTTA-TTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
249942 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
65 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
249989 ATTTATTTT--A-AA---A---TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
1 ATTTATTTTAAATAATTTATTGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--A
* * *
250045 TAATTTA-TTAGTATCGATTGATTTATTTTAAATAATTTATTTGTATGGATTG
62 T--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
250097 ATTTATTTTAAA
1 ATTTATTTTAAA
250109 ATATGGATTG
Statistics
Matches: 307, Mismatches: 16, Indels: 40
0.85 0.04 0.11
Matches are distributed among these distances:
102 52 0.17
103 5 0.02
104 4 0.01
106 8 0.03
107 2 0.01
108 107 0.35
109 3 0.01
110 2 0.01
111 1 0.00
112 121 0.39
113 2 0.01
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (111 bp):
ATTTATTTTAAATAATTTATTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGT
AGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:250005 original size:22 final size:22
Alignment explanation
Indices: 249980--250044 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
249970 AATTTATTAG
249980 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
250002 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
250024 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
250045 TAATTTATTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:250113 original size:22 final size:22
Alignment explanation
Indices: 250088--250130 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
250078 AATTTATTTG
250088 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
250110 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
250131 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:250163 original size:86 final size:86
Alignment explanation
Indices: 250002--250274 Score: 441
Period size: 86 Copynumber: 3.2 Consensus size: 86
249992 TATTTTAAAA
*
250002 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATCGATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
*
250067 TTATTTTAAATAATTTATTTG
66 TTATTTTAAATAATTTATTAG
250088 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
250153 TTATTTTAAATAATTTATTAG
66 TTATTTTAAATAATTTATTAG
* * * *
250174 TATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--AT--TGTAGTGGTATGGATTAAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
250233 TTATTTTAAATAATTTATTAG
66 TTATTTTAAATAATTTATTAG
*
250254 TATGAATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
250275 TAATTTATTA
Statistics
Matches: 180, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
80 56 0.31
82 2 0.01
84 2 0.01
86 120 0.67
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (86 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
TTATTTTAAATAATTTATTAG
Found at i:250248 original size:14 final size:14
Alignment explanation
Indices: 250229--250283 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
250219 TGGTATGGAT
250229 TAATTTATTTTAAA
1 TAATTTATTTTAAA
*
250243 TAATTTATTAGTATGAAT
1 TAATTTATT--T-T-AAA
*
250261 TGATTTATTTTAAA
1 TAATTTATTTTAAA
250275 TAATTTATT
1 TAATTTATT
250284 ATTGTAGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 19 0.58
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.30
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (14 bp):
TAATTTATTTTAAA
Found at i:250267 original size:32 final size:32
Alignment explanation
Indices: 250221--250284 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
250211 TATTGTAGTG
*
250221 GTATGGATTAATTTATTTTAAATAATTTATTA
1 GTATGAATTAATTTATTTTAAATAATTTATTA
*
250253 GTATGAATTGATTTATTTTAAATAATTTATTA
1 GTATGAATTAATTTATTTTAAATAATTTATTA
250285 TTGTAGTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (32 bp):
GTATGAATTAATTTATTTTAAATAATTTATTA
Found at i:250334 original size:31 final size:31
Alignment explanation
Indices: 250299--250357 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
250289 AGTTGTATGG
* *
250299 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
250330 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
250358 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:251667 original size:26 final size:26
Alignment explanation
Indices: 251624--251687 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
251614 TTCATCTTTA
251624 TTTA-TTATTTCACACTTTTAAGTTT
1 TTTATTTATTTCACACTTTTAAGTTT
*
251649 TTTATTTATTTCACCCTTTTAAGTTT
1 TTTATTTATTTCACACTTTTAAGTTT
251675 TTTATTTATTTCA
1 TTTATTTATTTCA
251688 AGATCATCCT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 4 0.11
26 33 0.89
ACGTcount: A:0.22, C:0.12, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTATTTATTTCACACTTTTAAGTTT
Found at i:256278 original size:4 final size:4
Alignment explanation
Indices: 256269--256295 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
256259 TTCTACTATG
256269 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
256296 ATATGAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:266463 original size:34 final size:35
Alignment explanation
Indices: 266399--266476 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 35
266389 AATTTAAAAA
*
266399 TTCAAAAATATATTTAATTTATAATCTTA-TTATT
1 TTCAAAAATATATTTAATTTAAAATCTTATTTATT
* *
266433 TTCAAAATTATATTT-ATTTAAAATATTTATTTA-T
1 TTCAAAAATATATTTAATTTAAAAT-CTTATTTATT
266467 TT-AAAAATAT
1 TTCAAAAATAT
266477 CAGAAAAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
33 15 0.39
34 20 0.53
35 3 0.08
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (35 bp):
TTCAAAAATATATTTAATTTAAAATCTTATTTATT
Found at i:266675 original size:19 final size:21
Alignment explanation
Indices: 266651--266693 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
266641 TATTATAAGT
*
266651 ATATTTAT-GAATAT-ATAAA
1 ATATTTATACAATATAATAAA
266670 ATATTTATACAATATAATAAA
1 ATATTTATACAATATAATAAA
266691 ATA
1 ATA
266694 AATATCACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 5 0.24
21 8 0.38
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
ATATTTATACAATATAATAAA
Found at i:268022 original size:3 final size:3
Alignment explanation
Indices: 268014--268106 Score: 159
Period size: 3 Copynumber: 31.0 Consensus size: 3
268004 TTAATATATT
*
268014 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
268062 TAA TAA TAA TAA TAA TGA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
268107 AAAATATTAG
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 84 1.00
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:268851 original size:114 final size:114
Alignment explanation
Indices: 268419--268832 Score: 740
Period size: 114 Copynumber: 3.6 Consensus size: 114
268409 AGAATTATGC
* *
268419 AAAAAGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
268484 TATGAACTTTCTCTGGAAAAGCTGATCCATCAA-ATGATGGATTCAAGT
66 TATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
268532 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
268597 TATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
268646 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
268711 TATGAACCTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGT
66 TATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
268760 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
268825 TATGAACT
66 TATGAACT
268833 CTACCTGGCA
Statistics
Matches: 290, Mismatches: 10, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
113 94 0.32
114 196 0.68
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (114 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGTTAATCCATCAATTTGATGAATTCAGGT
Found at i:269661 original size:83 final size:83
Alignment explanation
Indices: 269517--270225 Score: 1137
Period size: 83 Copynumber: 8.6 Consensus size: 83
269507 CTTACCAAAA
* *
269517 CAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTCCAAATTCAA
* *
269582 TGATTGATTCTATCCAAC
66 TGATTGGTTCTGTCCAAC
* * *
269600 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTCCAAATTCAA
*
269665 TGATT-ATTCTGTCCAAC
66 TGATTGGTTCTGTCCAAC
* *
269682 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTCCAAATTCAA
269747 TGATTGGTTCTGTCCAAC
66 TGATTGGTTCTGTCCAAC
269765 CAGATCAGATAACTCAAAG-ACACTTCCAGAAGATGC--TTAGCACATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTCCAAATTCAA
* *
269827 TGATTGGTTCT-ACTAAAC
66 TGATTGGTTCTGTC-CAAC
* *
269845 CAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTCCAAATTCAA
269910 TGATTGGTTCTGTCCAAC
66 TGATTGGTTCTGTCCAAC
*
269928 CAGATCAGATAACTCAAAGAACATTTCCAGAAGATGCTATTAGCACATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTCCAAATTCAA
*
269993 TGATTGGTTCTG-CTAAAC
66 TGATTGGTTCTGTC-CAAC
* *
270011 CAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT-AGCACATTCATCTTCCAAATTCA
270076 ATGATTGGTTCTGTCCAAC
65 ATGATTGGTTCTGTCCAAC
* * *
270095 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATAC--TGAGCACATTCATCTTCTAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTCCAAATTCAA
270158 TGATTGGTTCTGTCCAAC
66 TGATTGGTTCTGTCCAAC
270176 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATT-AGCACATT
270226 ATATTTGTTC
Statistics
Matches: 585, Mismatches: 29, Indels: 23
0.92 0.05 0.04
Matches are distributed among these distances:
79 1 0.00
80 56 0.10
81 95 0.16
82 97 0.17
83 253 0.43
84 82 0.14
85 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (83 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTCCAAATTCAA
TGATTGGTTCTGTCCAAC
Found at i:270221 original size:165 final size:167
Alignment explanation
Indices: 269517--270225 Score: 1152
Period size: 165 Copynumber: 4.3 Consensus size: 167
269507 CTTACCAAAA
* *
269517 CAGATTAGATAACTCAAAGAACACTTCCAGAAGATGCTATT-AGCAAATTCATCTTCCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAAATTCA
* * * *
269581 ATGATTGATTCTATCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAA
66 ATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC-ATTAGCAC
* * *
269646 ATTCATCTTCTAAATTCAATGATT-ATTCTGTC-CAAC
130 ATTCATCTTCCAAATTCAATGATTGGTTCTGTCTAAAC
*
269682 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTCTAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAAATTCA
269746 ATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAG-ACACTTCCAGAAGATGC-TTAGCACA
66 ATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCATTAGCACA
*
269809 TTCATCTTCCAAATTCAATGATTGGTTCT-ACTAAAC
131 TTCATCTTCCAAATTCAATGATTGGTTCTGTCTAAAC
*
269845 CAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTCCAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAAATTCA
*
269909 ATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACATTTCCAGAAGATGCTATTAGCAC
66 ATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGC-ATTAGCAC
269974 ATTCATCTTCCAAATTCAATGATTGGTTCTG-CTAAAC
130 ATTCATCTTCCAAATTCAATGATTGGTTCTGTCTAAAC
* *
270011 CAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAATTCA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAAATTCA
* *
270076 ATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATAC-TGAGCACA
66 ATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCATTAGCACA
* *
270140 TTCATCTTCTAAATTCAATGATTGGTTCTGTC-CAAC
131 TTCATCTTCCAAATTCAATGATTGGTTCTGTCTAAAC
270176 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATT
270226 ATATTTGTTC
Statistics
Matches: 514, Mismatches: 21, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
162 29 0.06
163 107 0.21
164 34 0.07
165 183 0.36
166 83 0.16
167 78 0.15
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (167 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCCAAATTCA
ATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCATTAGCACA
TTCATCTTCCAAATTCAATGATTGGTTCTGTCTAAAC
Found at i:271015 original size:19 final size:16
Alignment explanation
Indices: 270993--271038 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 16
270983 AATAGAAAAG
270993 AATAAATTGAATTTCCAAA
1 AATAAATTGAATTT-C--A
*
271012 AATAAATTGACTTTCA
1 AATAAATTGAATTTCA
271028 AATAAATTGAA
1 AATAAATTGAA
271039 CTTGAAATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 11 0.44
18 1 0.04
19 13 0.52
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.33
Consensus pattern (16 bp):
AATAAATTGAATTTCA
Found at i:271375 original size:11 final size:10
Alignment explanation
Indices: 271361--271436 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 10
271351 GAACCCCCCT
271361 TTTTCTTTTTC
1 TTTT-TTTTTC
271372 TTTTTTTTTC
1 TTTTTTTTTC
271382 TTTTTTCTTTC
1 TTTTTT-TTTC
271393 TTTTTTCTTT-
1 TTTTTT-TTTC
271403 TTTCTATTTTT-
1 TTT-T-TTTTTC
*
271414 TTTTATTTTC
1 TTTTTTTTTC
*
271424 TTTCTTTTCTC
1 TTT-TTTTTTC
271435 TT
1 TT
271437 AAGCATAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
9 4 0.07
10 19 0.33
11 32 0.56
12 2 0.04
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:271376 original size:7 final size:7
Alignment explanation
Indices: 271360--271436 Score: 65
Period size: 7 Copynumber: 11.1 Consensus size: 7
271350 TGAACCCCCC
271360 TTTTTC-
1 TTTTTCT
271366 TTTTTCT
1 TTTTTCT
271373 TTTTT-T
1 TTTTTCT
271379 TTCTTT-T
1 TT-TTTCT
271386 TTCTTTCT
1 TT-TTTCT
271394 TTTTTCT
1 TTTTTCT
271401 TTTTTCT
1 TTTTTCT
271408 ATTTTT-T
1 -TTTTTCT
271415 TTTATT-T
1 TTT-TTCT
*
271422 TCTTTCT
1 TTTTTCT
*
271429 TTTCTCT
1 TTTTTCT
271436 T
1 T
271437 AAGCATAATA
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
6 14 0.23
7 40 0.65
8 8 0.13
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:271413 original size:28 final size:27
Alignment explanation
Indices: 271360--271431 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 27
271350 TGAACCCCCC
*
271360 TTTTTC-TTTTTCTTTTTTTTTCTTTT
1 TTTTTCTTTTTTCTTTTTTTATCTTTT
271386 TTCTTTCTTTTTTCTTTTTTCTAT-TTTT
1 TT-TTTCTTTTTTCTTTTTT-TATCTTTT
271414 TTTTAT-TTTCTTTCTTTT
1 TTTT-TCTTT-TTTCTTTT
271432 CTCTTAAGCA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
26 2 0.05
27 9 0.22
28 27 0.68
29 2 0.05
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (27 bp):
TTTTTCTTTTTTCTTTTTTTATCTTTT
Found at i:271413 original size:35 final size:35
Alignment explanation
Indices: 271360--271436 Score: 113
Period size: 35 Copynumber: 2.2 Consensus size: 35
271350 TGAACCCCCC
*
271360 TTTTTC-TTTTTCT-TTTTTTTTCTTTTTTCTTTCT
1 TTTTTCTTTTTTCTATTTTTTTT-TATTTTCTTTCT
271394 TTTTTCTTTTTTCTATTTTTTTTTATTTTCTTTCT
1 TTTTTCTTTTTTCTATTTTTTTTTATTTTCTTTCT
*
271429 TTTCTCTT
1 TTTTTCTT
271437 AAGCATAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
34 6 0.15
35 25 0.64
36 8 0.21
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (35 bp):
TTTTTCTTTTTTCTATTTTTTTTTATTTTCTTTCT
Done.