Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 73 of 113
Found at i:16529649 original size:148 final size:148
Alignment explanation
Indices: 16529354--16529650 Score: 339
Period size: 148 Copynumber: 2.0 Consensus size: 148
16529344 TTCAAATAGT
* * * * **
16529354 TATGACTATTTGAGCAATTATTTATTTCAAATCATTATGACTTTTTGATTTGTTGTAAAACAATT
1 TATGACAATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGATTTGTCATAAAACAATT
* * * ** * *** * *
16529419 TTTTTATTCATACAAGCTTATTTGCATTAAAATAATACTAATTTATTAATATTTTGACAATTAGT
66 GTTTCATTCATACAAGCTTATTTGAAAAAAAATAATACTAATTTATTAATAATCCAAAAATTAAT
* *
16529484 AAGTAAAATTTTTAAAAA
131 AAGTAAAAATTTAAAAAA
* * *
16529502 TATGACAATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGATTTGTCATAAAAGAGTT
1 TATGACAATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGATTTGTCATAAAACAATT
*
16529567 GTTTCAGTTCATATAAGCTTA-TT-AAAAAAAATAATACTAATTTATTAATAATCCAAAAATTAA
66 GTTTCA-TTCATACAAGCTTATTTGAAAAAAAATAATACTAATTTATTAATAATCCAAAAATTAA
16529630 TAA-TAAAGAGATTTAAAAAA
130 TAAGTAAA-A-ATTTAAAAAA
16529650 T
1 T
16529651 TACTTTGTTT
Statistics
Matches: 123, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
146 4 0.03
147 35 0.28
148 71 0.58
149 13 0.11
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Consensus pattern (148 bp):
TATGACAATTTGAACAATTATCTATTTCAAATCATTATGACCTTTTGATTTGTCATAAAACAATT
GTTTCATTCATACAAGCTTATTTGAAAAAAAATAATACTAATTTATTAATAATCCAAAAATTAAT
AAGTAAAAATTTAAAAAA
Found at i:16529841 original size:179 final size:179
Alignment explanation
Indices: 16529510--16529841 Score: 424
Period size: 179 Copynumber: 1.9 Consensus size: 179
16529500 AATATGACAA
* ** * *
16529510 TTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGATTTGTCATAAAAGAGTTGTTTCAGT
1 TTTGAATAATTATCTATTTCAAATCACTAAAACCTTTTGATTTGTAATAAAAGAATTGTTTCAGT
* *
16529575 TCATATAAGCTTATTAAAAAAAATAATACTAATTTATTAATAATCCAAAAATTAATAATAAAGAG
66 TCATATAAGCTTATTAAAAAAAATAATACAAATTTATTAATAATCAAAAAATTAATAATAAAGAG
* * *
16529640 ATTTAAAAAATTACTTTGTTTACTAAACAAATTTAAATAATTAGGACTG
131 ATTTAAAAAATAAATCTGTTTACTAAACAAATTTAAATAATTAGGACTG
* *
16529689 TTTGAATAATTATCTATTTGAAAT-AGCTAAAACCTTTTGTTTTGTAATAAAAGAATT-TTTCTA
1 TTTGAATAATTATCTATTTCAAATCA-CTAAAACCTTTTGATTTGTAATAAAAGAATTGTTTC-A
* * * *
16529752 -TTCATCTAAGCTTATTCGAATAAAATAATACAAATTTATTAAT-ATTAAGACAAATTAATAAGT
64 GTTCATATAAGCTTATT-AAAAAAAATAATACAAATTTATTAATAATCAA-A-AAATTAATAA-T
16529815 AAA-AGATTT-AAAAATAAATCTGTTTAC
125 AAAGAGATTTAAAAAATAAATCTGTTTAC
16529842 CAAATAAGTT
Statistics
Matches: 131, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
178 23 0.18
179 88 0.67
180 16 0.12
181 4 0.03
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (179 bp):
TTTGAATAATTATCTATTTCAAATCACTAAAACCTTTTGATTTGTAATAAAAGAATTGTTTCAGT
TCATATAAGCTTATTAAAAAAAATAATACAAATTTATTAATAATCAAAAAATTAATAATAAAGAG
ATTTAAAAAATAAATCTGTTTACTAAACAAATTTAAATAATTAGGACTG
Found at i:16530042 original size:13 final size:13
Alignment explanation
Indices: 16530024--16530062 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
16530014 ATAATCTTTA
16530024 ATAATTATATTAT
1 ATAATTATATTAT
16530037 ATAATTATATT-T
1 ATAATTATATTAT
*
16530049 A-AGTTATATTAT
1 ATAATTATATTAT
16530061 AT
1 AT
16530063 TATTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 8 0.35
12 4 0.17
13 11 0.48
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (13 bp):
ATAATTATATTAT
Found at i:16530264 original size:17 final size:17
Alignment explanation
Indices: 16530244--16530279 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
16530234 TATAATTAAC
*
16530244 TAATATTATATTATATA
1 TAATATTATAATATATA
16530261 TAATATTATAATATATA
1 TAATATTATAATATATA
16530278 TA
1 TA
16530280 TTTGATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATATTATAATATATA
Found at i:16530492 original size:31 final size:32
Alignment explanation
Indices: 16530420--16530499 Score: 153
Period size: 32 Copynumber: 2.5 Consensus size: 32
16530410 ATAATGTATA
16530420 TAATTATAATTTATATACAAGTATTTGATTAG
1 TAATTATAATTTATATACAAGTATTTGATTAG
16530452 TAATTATAATTTATATACAAGTATTTGATTAG
1 TAATTATAATTTATATACAAGTATTTGATTAG
16530484 T-ATTATAATTTATATA
1 TAATTATAATTTATATA
16530500 ATTATAAATT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 15 0.31
32 33 0.69
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (32 bp):
TAATTATAATTTATATACAAGTATTTGATTAG
Found at i:16530505 original size:15 final size:15
Alignment explanation
Indices: 16530401--16530512 Score: 67
Period size: 15 Copynumber: 7.3 Consensus size: 15
16530391 TTGTACTTTA
*
16530401 TATATAATTATAATG
1 TATATAATTATAATT
16530416 TATATAATTATAATT
1 TATATAATTATAATT
16530431 TATATACA--AGT-ATT
1 TATATA-ATTA-TAATT
16530445 TGATTAGTAATTATAATT
1 T-A-TA-TAATTATAATT
16530463 TATATACA--AGT-ATT
1 TATATA-ATTA-TAATT
16530477 TGAT-TAGTATTATAATT
1 T-ATATA--ATTATAATT
*
16530494 TATATAATTATAAAT
1 TATATAATTATAATT
16530509 TATA
1 TATA
16530513 ATCGTATAAT
Statistics
Matches: 78, Mismatches: 3, Indels: 32
0.69 0.03 0.28
Matches are distributed among these distances:
14 12 0.15
15 40 0.51
16 10 0.13
17 11 0.14
18 5 0.06
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (15 bp):
TATATAATTATAATT
Found at i:16530869 original size:31 final size:31
Alignment explanation
Indices: 16530801--16530869 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
16530791 TTAATGATAA
**
16530801 ATATAATAAATATTTAAATTATTTTTCTATT
1 ATATAATAAATATTTAAATTATAATTCTATT
*
16530832 AT-TAATAAATTATTTATATTA-AATTCTATT
1 ATATAATAAA-TATTTAAATTATAATTCTATT
16530862 ATATAATA
1 ATATAATA
16530870 TTAATTGAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 16 0.48
31 17 0.52
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (31 bp):
ATATAATAAATATTTAAATTATAATTCTATT
Found at i:16531321 original size:22 final size:23
Alignment explanation
Indices: 16531279--16531334 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
16531269 ATAATTGTTG
*
16531279 TAATTA-AATA-ATAATCTAATT
1 TAATTATAATATATAATCAAATT
16531300 TAATTATAATATATAAT-AAATT
1 TAATTATAATATATAATCAAATT
* *
16531322 AAAATATAATATA
1 TAATTATAATATA
16531335 ATATTTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 5 0.17
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TAATTATAATATATAATCAAATT
Found at i:16531351 original size:25 final size:22
Alignment explanation
Indices: 16531296--16531353 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
16531286 ATAATAATCT
*
16531296 AATTTAATTATAATATATAATA
1 AATTTAAATATAATATATAATA
* *
16531318 AATTAAAATATAATATAATATTTA
1 AATTTAAATATAATAT-ATA-ATA
16531342 AATTTTAAATAT
1 AA-TTTAAATAT
16531354 TAAAATTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 14 0.48
23 3 0.10
24 4 0.14
25 8 0.28
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTTAAATATAATATATAATA
Found at i:16531602 original size:11 final size:11
Alignment explanation
Indices: 16531574--16531609 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
16531564 AATATATAGA
16531574 TTAATAATTAAT
1 TTAATAATT-AT
16531586 TATAATAATTAT
1 T-TAATAATTAT
16531598 TTAATAATTAT
1 TTAATAATTAT
16531609 T
1 T
16531610 ATTAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.48
12 4 0.17
13 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TTAATAATTAT
Found at i:16531614 original size:13 final size:13
Alignment explanation
Indices: 16531573--16531614 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
16531563 TAATATATAG
16531573 ATTAATAATTAATT
1 ATTAATAATT-ATT
16531587 A-TAATAATTA-T
1 ATTAATAATTATT
16531598 -TTAATAATTATT
1 ATTAATAATTATT
16531610 ATTAA
1 ATTAA
16531615 ATATAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
11 10 0.40
12 2 0.08
13 12 0.48
14 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAATAATTATT
Found at i:16532033 original size:169 final size:171
Alignment explanation
Indices: 16531740--16532401 Score: 493
Period size: 180 Copynumber: 3.8 Consensus size: 171
16531730 CCTATAGCCT
* * * * *
16531740 TAACTATTTGAATTGGTT-TAGCAAACAAATTTATTTTTTAAATCTATTAGTTATTAA-TTTTGA
1 TAACTATTTGAATTTGTTCGA-TAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTGA
* * * * *
16531803 GAATATTATTACATTAGTATTATTTTATTCTGAATAAA-CTTGTATGAATAGAAATAATTGTTTT
65 -AATATTAATAAATTAATATTATTTTATTC-GAA-AAAGCTTGTATG-ATAAAAACAATTGTTTT
* *
16531867 ATGAGAATAAAAAGTT-AT-A-GGAAATTGAAATAT-AAATAGTCA
126 ATGAAAATAAAAAGTTAATAATGGAAATAGAAATATCAAATAGTCA
* *
16531909 TAACTATTTGAATTTGTTCGATAAACAGATTTATTTTTTAAATCTCCTACTTATTAATTTTTGAA
1 TAACTATTTGAATTTGTTCGATAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAA
* *
16531974 ATGTTAATAAATTAATATTATTTTATTACGAAAAAGCTAGTATGATGAAAAACAATTGTTTTAT-
66 ATATTAATAAATTAATATTATTTTATT-CGAAAAAGCTTGTATGAT-AAAAACAATTGTTTTATG
* * * * *
16532038 ATAAAAAAAAAGTTCATAATGATTTGAAATAGATAAATGTTCAAATGGCCA
129 A-AAATAAAAAGTTAATAATG----GAAATAG--AAAT-ATCAAATAGTCA
* * * * *** * * *
16532089 TAATTATTTTAA-CTGATTTGATAAATTGATTTATGTTTTAAATCT-TTAACTTATCAATTTTTA
1 TAACTATTTGAATTTG-TTCGATAAACAAATTTATTTTTTAAATCTCTT-ACTTATTAATTTTTG
* * * * * *
16532152 AAATATTAATAAAGTAATATTATTTTATTTGGGACAAGCTTTTATGATCTAAAACAATTGTTTTA
64 AAATATTAATAAATTAATATTATTTTA-TTCGAAAAAGCTTGTATGAT-AAAAACAATTGTTTTA
* ** *
16532217 TGATAAAATAAAAGGTCATAATAATTTTAGATAGATAATTATTCAAATAGTCA
127 TG--AAAATAAAAAGT--TAATAA-TGGAAATAGA-AA-TA-TCAAATAGTCA
* * * *
16532270 TAACTATTTGAACTTGTTCGATAAACAAATTTATTTTTTTAACTTTCTTGCTTATTAATTTTTTG
1 TAACTATTTGAATTTGTTCGATAAACAAATTTA-TTTTTTAAATCTCTTACTTATTAA-TTTTTG
* * * * * *
16532335 -AATGTTAATAAATTAGTATTATTTTATTTTGAATAAGCATGTATGA-ACTAAAACAATTATTTT
64 AAATATTAATAAATTAATATTATTTTA-TTCGAAAAAGCTTGTATGATA--AAAACAATTGTTTT
16532398 ATGA
126 ATGA
16532402 CTAAACAAAA
Statistics
Matches: 387, Mismatches: 71, Indels: 59
0.75 0.14 0.11
Matches are distributed among these distances:
168 6 0.02
169 107 0.28
170 10 0.03
171 1 0.00
172 1 0.00
176 6 0.02
178 4 0.01
179 5 0.01
180 112 0.29
181 40 0.10
182 81 0.21
183 8 0.02
184 5 0.01
185 1 0.00
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (171 bp):
TAACTATTTGAATTTGTTCGATAAACAAATTTATTTTTTAAATCTCTTACTTATTAATTTTTGAA
ATATTAATAAATTAATATTATTTTATTCGAAAAAGCTTGTATGATAAAAACAATTGTTTTATGAA
AATAAAAAGTTAATAATGGAAATAGAAATATCAAATAGTCA
Found at i:16532778 original size:9 final size:9
Alignment explanation
Indices: 16532766--16532794 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
16532756 ATTTTAAATA
16532766 AATATGTAT
1 AATATGTAT
16532775 AATATGTAT
1 AATATGTAT
16532784 AATAT-TAT
1 AATATGTAT
16532792 AAT
1 AAT
16532795 TAATTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (9 bp):
AATATGTAT
Found at i:16535995 original size:181 final size:181
Alignment explanation
Indices: 16535241--16537727 Score: 1746
Period size: 180 Copynumber: 13.9 Consensus size: 181
16535231 AAAAACATTA
* * * * ** *
16535241 AATTGTGTCATGAGAAAACAAAAAGTCATAACAATTTGAAATAAATAATTGTTCAAATAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * ** * * * * * **
16535306 ATTATTTAAACTTATTT-GATAAATAGATTTATTTTTTAAATGTTTTACTTATTACTTGTCTGAA
66 ACTATTTGAACTGGTTTAG-TAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAA
* *
16535370 TATTAATAAATTTGTA-TAGTTTTATTT-GAAATAACCTTGTATGAATAGAAAAT
130 TATTAATAAATTAGTATTA-TTTTATTTCG-AATAAACTTGTATGAATA-AAAAT
* * * * ** * * * *
16535423 -TTTATTTTAGGACAAAACAAAAAGGTTATAGCGATTAGAAATATATAGTTATTCAAATAGTCAT
1 AATTGTTTTATGACAAAAC-AAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCAT
* * * * * * *
16535487 AATTATTTGTACTTGTTT-GATAAACAAATTCATTTTTTAAA--TC-T-CTTATTAATTTTTAGA
65 AACTATTTGAACTGGTTTAG-TAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAA
* * * * * * ** *
16535547 ATATTAATAAAATAGAATTATATTATTTCAAATAAGCTAGTAT-AGGCAAAAAC
129 ATATTAATAAATTAGTATTATTTTATTTCGAATAAACTTGTATGA-ATAAAAAT
* * *
16535600 AATTGTTTTGTGAGAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * ** ** * *
16535665 ACTATTTGCATTGG-TTAGGCCAATTGATTCATTTTTTAAATCTATTACTTATTAA-TTTCAAAA
66 ACTATTTGAACTGGTTTA-GTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAA
* * * * *
16535728 TATTGATAAATTAGTATTACTCTATTTTGAATAAGA-TTGTATGAACAAAAAT
130 TATTAATAAATTAGTATTATTTTATTTCGAATAA-ACTTGTATGAATAAAAAT
* * * * * *
16535780 AATTATTTTATGACAATACAAATGGTCATAATGATTCGAAATAAATAATTGTTCAAATAGTTATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * * *
16535845 ACTAATTGAACTGGTTTAGTAAACAGTTTTACTTTTTAAATTTCTTACTTCTTAATTTTCAAAAT
66 ACTATTTGAACTGGTTTAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAAT
* * * * * * *
16535910 TTTAATAAATTAATATTGTTTTATTTCGAACAAACTTATATGTATAAAAAC
131 ATTAATAAATTAGTATTATTTTATTTCGAATAAACTTGTATGAATAAAAAT
* * ** *
16535961 ATTTGTTTTATGACAAAATAAAAGAACATAATGATTCGAAATAGATAATTGTTCAAATAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * ** * * * *
16536026 ATTATTTGAACTGGTTAAGCAAATTGAATTGTTTTTTAAATCTCTTACTTATTAAGTTTT-GAAG
66 ACTATTTGAACTGGTTTAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAA-TTTTCAAAA
* * * * * * * *
16536090 TATTAATAAATTTGTTTTACTTTATTCCGAAT-AAGTTACTAAGAAATGAAAAT
130 TATTAATAAATTAGTATTATTTTATTTCGAATAAACTT-GTATG-AATAAAAAT
* * ** * * * * * *
16536143 --TTGTTTTACGGCAAAACAAAAGGTCATAGCGATTTGAAATAAAGAATTGTCCATATAGCCTTA
1 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * * *
16536206 AATATTTGAACTAGTTCAGTAAAC-GAATTTATTTTTTAAATTTCTTAGTTATTAATTTTCAAAA
66 ACTATTTGAACTGGTTTAGTAAACAG-ATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAA
* * * *
16536270 TATT-AT-TA-TATTATTATTTTATTTCGAATAAACTTGTGTGAATAGAAAT
130 TATTAATAAATTAGTATTATTTTATTTCGAATAAACTTGTATGAATAAAAAT
* * * ** * * *
16536319 AATTGTTTTATGAGATAACAAAAGGTTATAACAATTTAAAATATATAATTGTTCAAATAGTTATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * **
16536384 ACTATTTGAACTGGTTCAGTAAACAGATTAACTTTTTAAA--TCTT--TTATTAATTTTTGAAAT
66 ACTATTTGAACTGGTTTAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAAT
* * * **
16536445 ATTAGTAAATTAGTATTATTTTATTCCAAATAGGCTTGTATG-ATGAAAAAT
131 ATTAATAAATTAGTATTATTTTATTTCGAATAAACTTGTATGAAT-AAAAAT
* * *
16536496 AATTGTTTTATGACAAAACAAAAGTTCATAATGATTTGAAATAGATAATTATTCAAATGGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * ** * * ** * **
16536561 ATTATTTGGA-TAATTT-GATAAACTGATTTATTTTTTAAAACTCCAACTTCTTAATTTTTGAAA
66 ACTATTTGAACTGGTTTAG-TAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAA
** * * * * * *
16536624 TATTAATAAAGCAATATTATTTTATTTTGAAAAAACTTTTATGCACT-GAAAT
130 TATTAATAAATTAGTATTATTTTATTTCGAATAAACTTGTATG-AATAAAAAT
* * * * * *
16536676 AGTTGTTTTATGATAAAATAAAAGGTCATAATGATTTTAAATAAATAATTATTCAAATAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
* ** * * * ** * * *
16536741 TCTATTTGAACTTATTCAATAAATAG----ATTTTTTAAAAAT-TT-CTTGTTAATATTCTAAAT
66 ACTATTTGAACTGGTTTAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAAT
* * * * * * * *
16536800 TTTAATAAATTAATATAACTATATTTCAAATAAGCATGTATGAACT-AAAAT
131 ATTAATAAATTAGTATTATTTTATTTCGAATAAACTTGTATGAA-TAAAAAT
* * * * * * * * *
16536851 AATTATTTTTTGACTAAACAAAAGATCAGAATAATTTGGAATAGATAATTGTTCTAATAGTCTTA
1 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * * * **
16536916 ACTATTTGAACCGCTTTGGAAAACACATTTA-TTTTTAAA--TC---CTTATTAATTTTTGAAAT
66 ACTATTTGAACTGGTTTAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAAT
* * ** * * *
16536975 AGTAATAAATTGGTATTATTTTA-TTCTGAATAATTTTATATGAATAGAAAC
131 ATTAATAAATTAGTATTATTTTATTTC-GAATAAACTTGTATGAATAAAAAT
* * * * * * * *** * * *
16537026 AATTATTTTATAATAAAAGAAAATGTCATAACGATTTGAAATAAATAACAATTCAAATGGACATG
1 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * * * * * * *
16537091 GCTATTTAAACTTGTTTGGTAAATAAATTTATTTTTTAAATCTCTAACTTATTAATTTTTAGAAT
66 ACTATTTGAACTGGTTTAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAAT
* * * * * *
16537156 AATAATAAATTAGTATTATTTTATTCCAAATAAACTTGTGTGAATAGAAAC
131 ATTAATAAATTAGTATTATTTTATTTCGAATAAACTTGTATGAATAAAAAT
* ** * * *
16537207 AATTATTTTATGACAAAATGAAAGATCATAAAT-ATTTGAAATATATAATTGTTCAAATAGTAAT
1 AATTGTTTTATGACAAAACAAAAGGTCAT-AATGATTTGAAATAGATAATTGTTCAAATAGTCAT
* * * ** * * * *
16537271 AATTATTTGAACTTGCTCGGTAAACAAATTTATTATTTAAATCTTTTACTTATTAATTTTAAAAA
65 AACTATTTGAACTGGTTTAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAA
* * *
16537336 TA-TAATAAATTAATATTATTTTATTTCGAATAAGCTTGTATGAATATAAAT
130 TATTAATAAATTAGTATTATTTTATTTCGAATAAACTTGTATGAATAAAAAT
* ** *
16537387 AATTGGTTTATGACAAAACAAATTGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
* ** * * * * **
16537452 ACTA-TTGAA-TGTGTTCAAAAAACATATTTATTTTTTAAATTTTTATTTATTTATTAATTTTTG
66 ACTATTTGAACTG-GTTTAGTAAACAGATTTATTTTTTAAA--TCT-CTTACTTATTAATTTTCA
* * * * * * *
16537515 GAGTTTTAATAAATTTA-TATTATTTTA-TTCGAAATAAGCTTGCATGAACAAAACT
127 AAATATTAATAAA-TTAGTATTATTTTATTTCG-AATAAACTTGTATGAATAAAAAT
* * * * * * *
16537570 AATTATTTTATGATAAAACAAATGGTCATAATGTTTTGAAATAGATAATTATTTAGATAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
* * * * ****
16537635 ACTATTTGAACTTGTTT-GATAAACAGATTCATTTTTTTAATTCTCTTACTCATTAATTTTTGGT
66 ACTATTTGAACTGGTTTAG-TAAACAGATTTA-TTTTTTAAATCTCTTACTTATTAATTTTCAAA
*
16537699 ATATTAATAAATTAG-AGCTATTTTATTTC
129 ATATTAATAAATTAGTA-TTATTTTATTTC
16537728 AAACAAGCTT
Statistics
Matches: 1790, Mismatches: 446, Indels: 137
0.75 0.19 0.06
Matches are distributed among these distances:
174 23 0.01
175 230 0.13
176 46 0.03
177 194 0.11
178 159 0.09
179 41 0.02
180 456 0.25
181 371 0.21
182 140 0.08
183 101 0.06
184 20 0.01
185 9 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (181 bp):
AATTGTTTTATGACAAAACAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAATAGTCATA
ACTATTTGAACTGGTTTAGTAAACAGATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAAT
ATTAATAAATTAGTATTATTTTATTTCGAATAAACTTGTATGAATAAAAAT
Found at i:16535995 original size:361 final size:359
Alignment explanation
Indices: 16535241--16537712 Score: 1695
Period size: 361 Copynumber: 6.9 Consensus size: 359
16535231 AAAAACATTA
* * * * * * *
16535241 AATTGTGTCATGAGAAAACAAAAAGTCATAACAATTTGAAATAAATAATTGTTCAAATAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATA
* * * * * * * * * *
16535306 ATTATTTAAACTT-ATTTGATAAATAGATTTATTTTTTAAATGTTTTACTTATTACTTGTCT-GA
66 ACTATTTGAA-TTGGTTAG-CAAATAGA-TTATTTTTTAAATCTATTACTTATTAATT-TTTAAA
* * ** ** * *
16535369 ATATTAATAAATTTGTA-TAGTTTTATTTGAAATAACCTTGTATGAATAGAAAAT-TTTATTTTA
127 ATATTAATAAATTAGTATTA-CTTTATTCCAAATAAGATTGTATGAACA-AAAATAATTATTTTA
* * * ** * * * * * * *
16535432 GGACAAAACAAAAAGGTTATAGCGATTAGAAATATATAGTTATTCAAATAGTCATAATTATTTGT
190 TGACAAAAC-AAAAGATCATAATGATTTGAAATAAATAATTGTTCAAATAGTTATAACTATTTGA
* * * * *
16535497 ACTTGTTT-GATAAACAAATTCATTTTTTAAA--TC-T-CTTATTAATTTTTAGAATATTAATAA
254 ACTAGTTTAG-TAAACAGATTTA-TTTTTAAATTTCTTACTTATTAATTTTCAAAATATTAATAA
* * * * * *
16535557 AATAGA-ATTATATTATTTCAAATAAGCTAGTATAGGCA-A-AAAC
317 ATTA-ATATTATTTTATTTCGAATAAACT--TATATGAATAGAAAC
* * *
16535600 AATTGTTTTGTGAGAAAACAAAAGGTCATAATGATTTGAAATAGATAATTATTCAAATAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATA
* * * *
16535665 ACTATTTGCATTGGTTAGGCCAATTGATTCATTTTTTAAATCTATTACTTATTAA-TTTCAAAAT
66 ACTATTTGAATTGGTTA-GCAAATAGATT-ATTTTTTAAATCTATTACTTATTAATTTTTAAAAT
* * ***
16535729 ATTGATAAATTAGTATTACTCTATTTTGAATAAGATTGTATGAACAAAAATAATTATTTTATGAC
129 ATTAATAAATTAGTATTACTTTATTCCAAATAAGATTGTATGAACAAAAATAATTATTTTATGAC
* * * * * *
16535794 AATACAAATGGTCATAATGATTCGAAATAAATAATTGTTCAAATAGTTATAACTAATTGAACTGG
194 AAAACAAAAGATCATAATGATTTGAAATAAATAATTGTTCAAATAGTTATAACTATTTGAACTAG
* * *
16535859 TTTAGTAAACAGTTTTACTTTTTAAATTTCTTACTTCTTAATTTTCAAAATTTTAATAAATTAAT
259 TTTAGTAAACAGATTTA-TTTTTAAATTTCTTACTTATTAATTTTCAAAATATTAATAAATTAAT
* * * *
16535924 ATTGTTTTATTTCGAACAAACTTATATGTATAAAAAC
323 ATTATTTTATTTCGAATAAACTTATATGAATAGAAAC
* * ** * * *
16535961 ATTTGTTTTATGACAAAATAAAAGAACATAATGATTCGAAATAGATAATTGTTCAAATAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATA
* * * * * * * *
16536026 ATTATTTGAACTGGTTAAGCAAATTGAATTGTTTTTTAAATCTCTTACTTATTAAGTTTTGAAGT
66 ACTATTTGAATTGGTT-AGCAAATAG-ATTATTTTTTAAATCTATTACTTATTAATTTTTAAAAT
* * * * * * *
16536091 ATTAATAAATTTGTTTTACTTTATTCCGAATAAG-TTACTAAGAA-ATGAAAAT--TTGTTTTAC
129 ATTAATAAATTAGTATTACTTTATTCCAAATAAGATT-GTATGAACA--AAAATAATTATTTTAT
* * ** * * *
16536152 GGCAAAACAAAAGGTCATAGCGATTTGAAATAAAGAATTGTCCATATAGCCTTA-AA-TATTTGA
191 GACAAAACAAAAGATCATAATGATTTGAAATAAATAATTGTTCAAATAG--TTATAACTATTTGA
* * *
16536215 ACTAGTTCAGTAAAC-GAATTTATTTTTTAAATTTCTTAGTTATTAATTTTCAAAATATT-AT-T
254 ACTAGTTTAGTAAACAG-ATTTA-TTTTTAAATTTCTTACTTATTAATTTTCAAAATATTAATAA
* * * *
16536277 A-TATTATTATTTTATTTCGAATAAACTTGTGTGAATAGAAAT
317 ATTAATATTATTTTATTTCGAATAAACTTATATGAATAGAAAC
* * * * * * * *
16536319 AATTGTTTTATGAGATAACAAAAGGTTATAACAATTTAAAATATATAATTGTTCAAATAGTTATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATA
* * * * *
16536384 ACTATTTGAACTGGTTCAGTAAACAGATTAACTTTTTAAATC--TT--TTATTAATTTTTGAAAT
66 ACTATTTGAATTGGTT-AGCAAATAGATT-ATTTTTTAAATCTATTACTTATTAATTTTTAAAAT
* * * * ** *
16536445 ATTAGTAAATTAGTATTATTTTATTCCAAATAGGCTTGTATGATGAAAAATAATTGTTTTATGAC
129 ATTAATAAATTAGTATTACTTTATTCCAAATAAGATTGTATGAACAAAAATAATTATTTTATGAC
* * * * * * * *
16536510 AAAACAAAAGTTCATAATGATTTGAAATAGATAATTATTCAAATGGTCATAATTATTTGGA-TAA
194 AAAACAAAAGATCATAATGATTTGAAATAAATAATTGTTCAAATAGTTATAACTATTTGAACTAG
* ** ** * ** **
16536574 TTT-GATAAACTGATTTATTTTTTAAAACTCCAACTTCTTAATTTTTGAAATATTAATAAAGCAA
259 TTTAG-TAAACAGATTTA-TTTTTAAATTTCTTACTTATTAATTTTCAAAATATTAATAAATTAA
* * * * *
16536638 TATTATTTTATTTTGAAAAAACTTTTATGCACT-GAAAT
322 TATTATTTTATTTCGAATAAACTTATATG-AATAGAAAC
* * * * * *
16536676 AGTTGTTTTATGATAAAATAAAAGGTCATAATGATTTTAAATAAATAATTATTCAAATAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATA
* * * * * * * *
16536741 TCTATTTGAACTT-ATT--C-AATAAATAGATTTTTTAAA--AATTTCTTGTTAATATTCT-AAA
66 ACTATTTGAA-TTGGTTAGCAAATAGAT-TATTTTTTAAATCTATTACTTATTAAT-TTTTAAAA
* * * * * * *
16536799 TTTTAATAAATTAATATAACTATATTTCAAATAAGCA-TGTATGAACTAAAATAATTATTTTTTG
128 TATTAATAAATTAGTATTACTTTATTCCAAATAAG-ATTGTATGAACAAAAATAATTATTTTATG
* * * * * *
16536863 ACTAAACAAAAGATCAGAATAATTTGGAATAGATAATTGTTCTAATAGTCT-TAACTATTTGAAC
192 ACAAAACAAAAGATCATAATGATTTGAAATAAATAATTGTTCAAATAGT-TATAACTATTTGAAC
* * * * ** *
16536927 -CGCTTTGGAAAACACATTTATTTTTAAA--TC---CTTATTAATTTTTGAAATAGTAATAAATT
256 TAG-TTTAGTAAACAGATTTATTTTTAAATTTCTTACTTATTAATTTTCAAAATATTAATAAATT
** **
16536986 GGTATTATTTTA-TTCTGAATAATTTTATATGAATAGAAAC
320 AATATTATTTTATTTC-GAATAAACTTATATGAATAGAAAC
* * * * * * ** * * *
16537026 AATTATTTTATAATAAAAGAAAATGTCATAACGATTTGAAATAAATAACAATTCAAATGGACATG
1 AATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATA
* * * * * * * * *
16537091 GCTATTTAAACTTGTTTGGTAAATAAATTTATTTTTTAAATCTCTAACTTATTAATTTTTAGAAT
66 ACTATTTGAA-TTGGTTAGCAAATAGA-TTATTTTTTAAATCTATTACTTATTAATTTTTAAAAT
* * * * * *
16537156 AATAATAAATTAGTATTATTTTATTCCAAATAA-ACTTGTGTGAATAGAAACAATTATTTTATGA
129 ATTAATAAATTAGTATTACTTTATTCCAAATAAGA-TTGTATGAACAAAAATAATTATTTTATGA
** * * *
16537220 CAAAATGAAAGATCATAAAT-ATTTGAAATATATAATTGTTCAAATAGTAATAATTATTTGAACT
193 CAAAACAAAAGATCAT-AATGATTTGAAATAAATAATTGTTCAAATAGTTATAACTATTTGAACT
* * ** * *
16537284 TGCTCGGTAAACAAATTTATTATTTAAATCTT-TTACTTATTAATTTTAAAAATA-TAATAAATT
257 AGTTTAGTAAACAGATTTATT-TTTAAAT-TTCTTACTTATTAATTTTCAAAATATTAATAAATT
* * * *
16537347 AATATTATTTTATTTCGAATAAGCTTGTATGAATATAAAT
320 AATATTATTTTATTTCGAATAAACTTATATGAATAGAAAC
* ** *
16537387 AATTGGTTTATGACAAAACAAATTGTCATAACGATTTGAAATAGATAATTGTTCAAATAGTCATA
1 AATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATA
** * * * * *
16537452 ACTA-TTGAA-TGTGTTCAAAAAACATATTTATTTTTTAAATTTTTATTTATTTATTAATTTTTG
66 ACTATTTGAATTG-GTT-AGCAAATAGA-TTATTTTTTAAA--TCTA-TTACTTATTAATTTTTA
* * * * * * * *
16537515 GAGTTTTAATAAATTTA-TATTATTTTATTCGAAATAAGCTTGCATGAACAAAACTAATTATTTT
125 AAATATTAATAAA-TTAGTATTACTTTATTCCAAATAAGATTGTATGAACAAAAATAATTATTTT
* * * * * * * * *
16537579 ATGATAAAACAAATGGTCATAATGTTTTGAAATAGATAATTATTTAGATAGTCATAACTATTTGA
189 ATGACAAAACAAAAGATCATAATGATTTGAAATAAATAATTGTTCAAATAGTTATAACTATTTGA
* * * * ****
16537644 ACTTGTTT-GATAAACAGATTCATTTTTTTAATTCTCTTACTCATTAATTTTTGGTATATTAATA
254 ACTAGTTTAG-TAAACAGATTTA-TTTTTAAATT-TCTTACTTATTAATTTTCAAAATATTAATA
16537708 AATTA
316 AATTA
16537713 GAGCTATTTT
Statistics
Matches: 1668, Mismatches: 361, Indels: 162
0.76 0.16 0.07
Matches are distributed among these distances:
349 4 0.00
350 114 0.07
351 2 0.00
353 26 0.02
354 109 0.07
355 182 0.11
356 142 0.09
357 183 0.11
358 179 0.11
359 106 0.06
360 30 0.02
361 345 0.21
362 72 0.04
363 142 0.09
364 22 0.01
365 10 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (359 bp):
AATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTCAAATAGTCATA
ACTATTTGAATTGGTTAGCAAATAGATTATTTTTTAAATCTATTACTTATTAATTTTTAAAATAT
TAATAAATTAGTATTACTTTATTCCAAATAAGATTGTATGAACAAAAATAATTATTTTATGACAA
AACAAAAGATCATAATGATTTGAAATAAATAATTGTTCAAATAGTTATAACTATTTGAACTAGTT
TAGTAAACAGATTTATTTTTAAATTTCTTACTTATTAATTTTCAAAATATTAATAAATTAATATT
ATTTTATTTCGAATAAACTTATATGAATAGAAAC
Found at i:16537500 original size:19 final size:18
Alignment explanation
Indices: 16537476--16537513 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
16537466 TCAAAAAACA
*
16537476 TATTTATTTTTTAAATTTT
1 TATTTATTTATT-AATTTT
16537495 TATTTATTTATTAATTTT
1 TATTTATTTATTAATTTT
16537513 T
1 T
16537514 GGAGTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTATTTATTAATTTT
Found at i:16537983 original size:18 final size:19
Alignment explanation
Indices: 16537950--16537997 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
16537940 CTGTTTACAA
16537950 AACTATTTCAAATAATTAT
1 AACTATTTCAAATAATTAT
*
16537969 AACTATTT-GAATAATTAT
1 AACTATTTCAAATAATTAT
16537987 --CTATTTCAAAT
1 AACTATTTCAAAT
16537998 TGTTATTACC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 6 0.23
17 3 0.12
18 9 0.35
19 8 0.31
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (19 bp):
AACTATTTCAAATAATTAT
Found at i:16538269 original size:181 final size:180
Alignment explanation
Indices: 16537956--16538591 Score: 635
Period size: 181 Copynumber: 3.5 Consensus size: 180
16537946 ACAAAACTAT
* * *** *
16537956 TTCAAATAATTATAACTATTTGAATAATTATCTATTTCAAATTGTTATTACC-----TTTTGTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCACTATGACCTTTTGTTTTGTCA
* * * ** *
16538016 TAAAACAAATGTCTT-TGTTCATATAAG-TTAGTTTGGAATAAAATAATATTAATTTATTAATAT
66 TAAAACAATTGT-TTCTATTCATACAAGCTTA-TTCAGAAT-AAATAATACTAATTTATTAATAT
* * *
16538079 TTCAAAAATTAATACGTAAGAGATTTAAAAAATAAATATGTTTGCCATACCAG
128 TTCAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGCCATACCAG
* * * * * * * *
16538132 TTCAATTAGTTATAACTATTTGACCAAATATTTATTTCAAATCACTATGACCATTTGTTTTATCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCACTATGACCTTTTGTTTTGTCA
* * *
16538197 TAAAACAATTGTTTCTATTCATATAATCTTATTCAGAATAAAGTAATGCTAATTTATTAATATTT
66 TAAAACAATTGTTTCTATTCATACAAGCTTATTCAGAATAAA-TAATACTAATTTATTAATATTT
* * * * *
16538262 TAAAAATTAATAAGTAATG-GATTTAGAAAATGTATCT-TTTGGCTTGACCAG
130 CAAAAATTAATAAGTAA-GAGATTTAAAAAATGAATCTGTTTGCCAT-ACCAG
* * * * *
16538313 TGCAAACAATTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCACTATGACCTTTTGTTTTGTCA
* * * * * * *
16538378 CAAAACAATTGTTTTTGTTCATACAAGCTTACTCAAAATAACATAATTCTAATTTATTAATATTC
66 TAAAACAATTGTTTCTATTCATACAAGCTTATTCAGAATAA-ATAATACTAATTTATTAATATTT
* * * *
16538443 CAAAAATTAATAAGTGAGAGATTTAAAAAATGAATCTGTTTACTGA-ACAAG
130 CAAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGC-CATACCAG
* * ** * *
16538494 TTCAAATAATTATGGCTATTTGAACAATTATCTAGTTCAAATTGCTATAACCTTTTGTATTGTCA
1 TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCACTATGACCTTTTGTTTTGTCA
* *
16538559 TAAAATAATTTTTTCTATTCATACAAGCTTATT
66 TAAAACAATTGTTTCTATTCATACAAGCTTATT
16538592 TCAAATTTGT
Statistics
Matches: 373, Mismatches: 73, Indels: 23
0.80 0.16 0.05
Matches are distributed among these distances:
176 42 0.11
180 12 0.03
181 311 0.83
182 8 0.02
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (180 bp):
TTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCACTATGACCTTTTGTTTTGTCA
TAAAACAATTGTTTCTATTCATACAAGCTTATTCAGAATAAATAATACTAATTTATTAATATTTC
AAAAATTAATAAGTAAGAGATTTAAAAAATGAATCTGTTTGCCATACCAG
Found at i:16538865 original size:300 final size:301
Alignment explanation
Indices: 16538322--16538897 Score: 751
Period size: 300 Copynumber: 1.9 Consensus size: 301
16538312 GTGCAAACAA
* *
16538322 TTATGACTATTTGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTCACAAAACAAT
1 TTATGACTATTGGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTCACAAAACAAT
* * **
16538387 TGTTTTTGTTCATACAAGCTTACTCAAAATAACATAATTCTAATTTATTAATATTCCAAAAATTA
66 TATTTTTGTTCATACAAGCTTACTCAAAATAAAATAATAATAATTTATTAATATTCCAAAAATTA
* * * * * * ** *
16538452 ATAAGTGAGAGATTTAAAAAATGAATCTGTTTACTGAACAAGTTCAAATAATTATGGCTATTTGA
131 ATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAATAATAACTATCTGA
* * * * * * *
16538517 ACAATTATCTAGTTCAAATTGCTATAACCTTTTGTATTGTCATAAAATAATTTTTTCTATTCATA
196 ACAATTATCCAGTTCAAATCGCTATAACCTTTTATATTGCCATAAAATAATTATATCAATTCATA
16538582 CAAGCTTATTTCAAATTTGTTTACCGAATAATTTTGAATAG
261 CAAGCTTATTTCAAATTTGTTTACCGAATAATTTTGAATAG
* * *
16538623 TTATGACTATTGGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAACAAT
1 TTATGACTATTGGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTCACAAAACAAT
** * * * * **
16538688 TATTTTTGTTCATATTAGCTTATTCAGATTAAAATAA-AATAATTTATTAATATTTCAGCAATTA
66 TATTTTTGTTCATACAAGCTTACTCAAAATAAAATAATAATAATTTATTAATATTCCAAAAATTA
* *
16538752 ATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAATTAGTAATAACTATCTGA
131 ATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAATAATAACTATCTGA
* * * *
16538817 ATAATTATCCATTTCAAATCGTTATGACCTTTTAT-TTCGCCATAAAATAATTATATCAATTCAT
196 ACAATTATCCAGTTCAAATCGCTATAACCTTTTATATT-GCCATAAAATAATTATATCAATTCAT
* * *
16538881 ATAGGCTTATTTGAAAT
260 ACAAGCTTATTTCAAAT
16538898 AAAATAATAC
Statistics
Matches: 232, Mismatches: 42, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
299 2 0.01
300 140 0.60
301 90 0.39
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (301 bp):
TTATGACTATTGGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTCACAAAACAAT
TATTTTTGTTCATACAAGCTTACTCAAAATAAAATAATAATAATTTATTAATATTCCAAAAATTA
ATAAGTAAAAGATTTAAAAAATAAATATGTTTACCGAACAAGTTCAAATAATAATAACTATCTGA
ACAATTATCCAGTTCAAATCGCTATAACCTTTTATATTGCCATAAAATAATTATATCAATTCATA
CAAGCTTATTTCAAATTTGTTTACCGAATAATTTTGAATAG
Found at i:16539024 original size:181 final size:181
Alignment explanation
Indices: 16538594--16539856 Score: 1149
Period size: 181 Copynumber: 7.0 Consensus size: 181
16538584 AGCTTATTTC
* * * ** * * * *
16538594 AAATTTGTTTACCGAATAATTTTGAATAGTTATGACTATTGGAACAATTATTTATTTCAAATCAT
1 AAATTTATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGT
* * * ** * *
16538659 TATGACCTTTTGTTTTGTCATAAAACAATTATTTTTGTTCATATTAGCTTA-TTCAGATTAAAAT
66 TATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGA-AATAAAAT
* * ** *
16538723 AA-AATAATTTATTAATATTTCAGCAATTAATAAGTAAAAGATTTAAAAAAT
130 AATACTAATTTATTAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAAT
* * * * * * *
16538774 AAATATGTTTACCGAACAAGTTCAATTAGTAATAACTATCTGAATAATTATCCATTTCAAATCGT
1 AAATTTATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGT
* * * * * * * * *
16538839 TATGACCTTTTATTTCGCCATAAAATAATTATATCAATTCATATAGGCTTATTTGAAATAAAATA
66 TATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAATA
* * *
16538904 ATACTAACTTATTACTATTCCAAAAATTAATGAGTAAGAGATTTAAAAAAT
131 ATACTAATTTATTAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAAT
* * * * * * * *
16538955 GAATCTACTTACCAAACAAGTTCAAATAGTTATGACAATTTGAACAATTATCTATTTCATATTGT
1 AAATTTATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGT
* *
16539020 TATGACCTTTTGTTTTG-CTATAAAACAATTGTTTCTGTTCATACAAGCTTATTTCAAATAAAAT
66 TATGACCTTTTGTTTTGTC-ATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAAT
* * * * *
16539084 AATA-TAAATTTACTAATATTCCAAAGATTAATAAGTAA-AAATATATAAAAT
130 AATACT-AATTTATTAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAAT
* *** * * * * *
16539135 AAATTTGTTTTTTGAACACGTTCAAAATAATTATAACCATTTGAACAATTATCTATTTCAAATCG
1 AAATTTATTTACCGAACAAGTTC-AAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCG
* * **
16539200 TTATGACCTTTTGTTTTGTCATAAACCAATTGTTTCTATTCATAAAAGCTTATTCAAAATAAAAT
65 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAAT
* * * *
16539265 AATACTAATTTATTAAAATTTCAAAAATTAATAAGTAAAATATTTAAAAAAT
130 AATACTAATTTATTAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAAT
* *** * * *
16539317 AAATTTATTTACCTAGTGAGTTCAAATAATTATGACTATTTAAATAATTATTTATTTCAAATCGT
1 AAATTTATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGT
* * ** **
16539382 TATGATCC-TTTGTTTTGTAATAAAACAGTTGTTTCTATTCATACAAAATTATTCAAAATAAAAT
66 TATGA-CCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAAT
* *** *
16539446 AATACTTATTTATTAATATTTTGAAAA-T--TAA-TAAGAGATTTAAAAACT
130 AATACTAATTTATTAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAAT
* ** * * * *
16539494 ATATTTATTTATTGGACCAA-TTTAAATAGCTATGAC-ATTTTGAATAATTATCTATCTCAAATC
1 AAATTTATTTA-CCGAACAAGTTCAAATAGTTATGACTA-TTTGAATAATTATCTATTTCAAATC
* * * * * * *
16539557 GGTATGATC-TTTGTTTTGTCATAAAATAATTGTTTCTATCCATACAAACTTATTCGAAGTAAAA
64 GTTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAA
* * ** * *
16539621 TATTGCTAAACTAATAATATTCTAAAAATTAATAAGTAAGAGATTTAAAAAAT
129 TAATACTAATTTATTAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAAT
* *** * * * * *
16539674 AAATGTATTTGTTGAACTAGTTCAAATTGTTAAGATTATTAT-AATAATTATCTATTTCAAATCA
1 AAATTTATTTACCGAACAAGTTCAAATAGTTATGACTATT-TGAATAATTATCTATTTCAAATCG
* * * * *
16539738 TTCTGACGTTTTGTTTAGTCATAAAATAATTG-TTC-AGTTCATACATGCTTATTTGAAATAAAA
65 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTTGAAATAAAA
* * * * *
16539801 TAATATTACTTTATTAACATT-CAGAAAATTAATAAGCAAG-GAATTAAAAAAT
129 TAATACTAATTTATTAATATTCCA-AAAATTAATAAGTAAGAGATTTAAAAAAT
16539853 AAAT
1 AAAT
16539857 CTATGAGATT
Statistics
Matches: 878, Mismatches: 184, Indels: 43
0.79 0.17 0.04
Matches are distributed among these distances:
176 70 0.08
177 66 0.08
178 5 0.01
179 25 0.03
180 241 0.27
181 443 0.50
182 28 0.03
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (181 bp):
AAATTTATTTACCGAACAAGTTCAAATAGTTATGACTATTTGAATAATTATCTATTTCAAATCGT
TATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTTGAAATAAAATA
ATACTAATTTATTAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAAT
Found at i:16539063 original size:481 final size:482
Alignment explanation
Indices: 16538138--16539078 Score: 1163
Period size: 481 Copynumber: 2.0 Consensus size: 482
16538128 CCAGTTCAAT
* *
16538138 TAGTTATAACTATTTGACCAAATATTTATTTCAAATCACTATGACCATTTGTTTTATCATAAAAC
1 TAGTTATAACTATTGGAACAAATATTTATTTCAAATCACTATGACCATTTGTTTTATCATAAAAC
* * * ** *
16538203 AATTGTTTCTATTCATATAATCTTATTCAGAATAAAGTAATGCTAATTTATTAATATTTTAAAAA
66 AATTATTTCTATTCATATAAGCTTATTCAGAATAAAATAATAATAATTTATTAATATTTCAAAAA
** * ** * * * * * * *
16538268 TTAATAAGTAATGGATTTAGAAAATGTATCTTTTGGCTTGACCAGTGCAAACAATTATGACTATT
131 TTAATAAGTAAAAGATTTAAAAAATAAATATTTTGACTCGACAAGTGCAAACAATAATAACTATC
* * * * * ***
16538333 TGAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTTCTCACAAAACAATTGTTTTTGTTC
196 TGAATAATTATCCATTTCAAATCATTATGACCTTTTGATTTCCCACAAAACAATTATATCAATTC
* * * *
16538398 ATACAAGCTTACTCAAAATAACATAATTCTAATTTATTAATATTCCAAAAATTAATAAGTGAGAG
261 ATACAAGCTTACTCAAAATAAAATAATACTAACTTATTAATATTCCAAAAATTAATAAGTAAGAG
** ** * *
16538463 ATTTAAAAAATGAATCTGTTTACTGAACAAGTTCAAATAATTATGGCTATTTGAACAATTATCTA
326 ATTTAAAAAATGAATCTACTTACCAAACAAGTTCAAATAATTATGACAATTTGAACAATTATCTA
* *
16538528 GTTCAAATTGCTATAACCTTTTGTATTGTCATAAAATAATTTTTTCTATTCATACAAGCTTATTT
391 GTTCAAATTGCTATAACCTTTTGTATTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTT
16538593 CAAATTTGTTTACCGAATAATTTTGAA
456 CAAATTTGTTTACCGAATAATTTTGAA
* * * * *
16538620 TAGTTATGACTATTGGAACAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAAC
1 TAGTTATAACTATTGGAACAAATATTTATTTCAAATCACTATGACCATTTGTTTTATCATAAAAC
* * * * **
16538685 AATTATTTTTGTTCATATTAGCTTATTCAGATTAAAATAA-AATAATTTATTAATATTTCAGCAA
66 AATTATTTCTATTCATATAAGCTTATTCAGAATAAAATAATAATAATTTATTAATATTTCAAAAA
* ** *
16538749 TTAATAAGTAAAAGATTTAAAAAATAAATATGTTT-AC-CGAACAAGTTCAATTAGTAATAACTA
131 TTAATAAGTAAAAGATTTAAAAAATAAATAT-TTTGACTCG-ACAAGTGCAAACAATAATAACTA
* * *
16538812 TCTGAATAATTATCCATTTCAAATCGTTATGACCTTTT-ATTTCGCCATAAAATAATTATATCAA
194 TCTGAATAATTATCCATTTCAAATCATTATGACCTTTTGATTTC-CCACAAAACAATTATATCAA
* * * ** * *
16538876 TTCATATAGGCTTATTTGAAATAAAATAATACTAACTTATTACTATTCCAAAAATTAATGAGTAA
258 TTCATACAAGCTTACTCAAAATAAAATAATACTAACTTATTAATATTCCAAAAATTAATAAGTAA
*
16538941 GAGATTTAAAAAATGAATCTACTTACCAAACAAGTTCAAATAGTTATGACAATTTGAACAATTAT
323 GAGATTTAAAAAATGAATCTACTTACCAAACAAGTTCAAATAATTATGACAATTTGAACAATTAT
* * * * * *
16539006 CTATTTCATATTGTTATGACCTTTTGTTTTG-CTATAAAACAATTGTTTCTGTTCATACAAGCTT
388 CTAGTTCAAATTGCTATAACCTTTTGTATTGTC-ATAAAACAATTGTTTCTATTCATACAAGCTT
16539070 ATTTCAAAT
452 ATTTCAAAT
16539079 AAAATAATAT
Statistics
Matches: 383, Mismatches: 72, Indels: 9
0.83 0.16 0.02
Matches are distributed among these distances:
480 6 0.02
481 283 0.74
482 94 0.25
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (482 bp):
TAGTTATAACTATTGGAACAAATATTTATTTCAAATCACTATGACCATTTGTTTTATCATAAAAC
AATTATTTCTATTCATATAAGCTTATTCAGAATAAAATAATAATAATTTATTAATATTTCAAAAA
TTAATAAGTAAAAGATTTAAAAAATAAATATTTTGACTCGACAAGTGCAAACAATAATAACTATC
TGAATAATTATCCATTTCAAATCATTATGACCTTTTGATTTCCCACAAAACAATTATATCAATTC
ATACAAGCTTACTCAAAATAAAATAATACTAACTTATTAATATTCCAAAAATTAATAAGTAAGAG
ATTTAAAAAATGAATCTACTTACCAAACAAGTTCAAATAATTATGACAATTTGAACAATTATCTA
GTTCAAATTGCTATAACCTTTTGTATTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTT
CAAATTTGTTTACCGAATAATTTTGAA
Found at i:16540092 original size:18 final size:19
Alignment explanation
Indices: 16540066--16540103 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
16540056 CTACTTACGA
*
16540066 AACTAATTTAAATAATTAT
1 AACTAATTTAAACAATTAT
*
16540085 AACT-ATTTACACAATTAT
1 AACTAATTTAAACAATTAT
16540103 A
1 A
16540104 TCGTAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (19 bp):
AACTAATTTAAACAATTAT
Found at i:16540113 original size:11 final size:11
Alignment explanation
Indices: 16540097--16540126 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
16540087 CTATTTACAC
16540097 AATTATATCGT
1 AATTATATCGT
16540108 AATTATATCGT
1 AATTATATCGT
16540119 AATTATAT
1 AATTATAT
16540127 TAATACTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (11 bp):
AATTATATCGT
Found at i:16540529 original size:14 final size:13
Alignment explanation
Indices: 16540506--16540569 Score: 55
Period size: 13 Copynumber: 5.1 Consensus size: 13
16540496 TTATAAAAAT
*
16540506 ATATTTATTATTA
1 ATATTTATTATAA
16540519 ATATTTGATTATAA
1 ATATTT-ATTATAA
*
16540533 ATATTTATAATAA
1 ATATTTATTATAA
*
16540546 TTA-TTA--ATAA
1 ATATTTATTATAA
16540556 ATTATTTA-TATAA
1 A-TATTTATTATAA
16540569 A
1 A
16540570 CAAAAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
10 4 0.09
11 2 0.05
12 6 0.14
13 19 0.44
14 12 0.28
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (13 bp):
ATATTTATTATAA
Found at i:16540540 original size:24 final size:25
Alignment explanation
Indices: 16540513--16540564 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
16540503 AATATATTTA
*
16540513 TTATTAATATTTGATT-ATAAA-TAT
1 TTATTAATAATT-ATTAATAAATTAT
16540537 TTA-TAATAATTATTAATAAATTAT
1 TTATTAATAATTATTAATAAATTAT
16540561 TTAT
1 TTAT
16540565 ATAAACAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
22 3 0.12
23 12 0.50
24 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
TTATTAATAATTATTAATAAATTAT
Found at i:16541093 original size:23 final size:23
Alignment explanation
Indices: 16541067--16541124 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
16541057 TTATTTTTGT
16541067 TTATATAAATTATTTATTAAT-AA
1 TTATATAAATTATTTA-TAATCAA
16541090 TTATTATAAA-TATTTATAATCAA
1 TTA-TATAAATTATTTATAATCAA
*
16541113 ATAT-TAAATTAT
1 TTATATAAATTAT
16541125 CCAACTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 4 0.13
22 8 0.26
23 13 0.42
24 6 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
TTATATAAATTATTTATAATCAA
Found at i:16541244 original size:18 final size:18
Alignment explanation
Indices: 16541188--16541244 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
16541178 AATTATTTTA
*
16541188 TATAAATTATACTATAATT
1 TATAAATTATA-TTTAATT
*
16541207 TA-AAATTAT-TTATAA-A
1 TATAAATTATATT-TAATT
16541223 TATAAATTATATTTAATT
1 TATAAATTATATTTAATT
16541241 TATA
1 TATA
16541245 TTATTATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 9
0.72 0.07 0.21
Matches are distributed among these distances:
16 3 0.10
17 13 0.42
18 13 0.42
19 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
TATAAATTATATTTAATT
Found at i:16541269 original size:29 final size:29
Alignment explanation
Indices: 16541181--16541277 Score: 83
Period size: 29 Copynumber: 3.2 Consensus size: 29
16541171 TATTTGAAAT
*
16541181 TATT-TTATATAAATTATACTATAATTTAA
1 TATTATTATATAAATTATAATATAATTT-A
* *
16541210 AATTATT-TATAAATATAAATTATATTTAATTTA
1 TATTATTATATAAAT-T--A-TA-ATATAATTTA
16541243 TATTATTATATAAATTATAATATAATTGT-
1 TATTATTATATAAATTATAATATAATT-TA
16541272 TATTAT
1 TATTAT
16541278 CAGTAAATAG
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
29 23 0.42
30 6 0.11
31 1 0.02
32 1 0.02
33 10 0.18
34 14 0.25
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
TATTATTATATAAATTATAATATAATTTA
Found at i:16541574 original size:25 final size:25
Alignment explanation
Indices: 16541546--16541602 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
16541536 ACTTAATATC
*
16541546 AATTGTAATAATAATT-ATAATTTAT
1 AATTATAATAAT-ATTAATAATTTAT
* *
16541571 AATTATTATAATATTAATTATTTAT
1 AATTATAATAATATTAATAATTTAT
16541596 -ATTATAA
1 AATTATAA
16541603 ATTATAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
AATTATAATAATATTAATAATTTAT
Found at i:16541589 original size:28 final size:28
Alignment explanation
Indices: 16541546--16541612 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
16541536 ACTTAATATC
* *
16541546 AATTGTAATAATAATTA-TAAT-TTATA
1 AATTATAATATTAATTATTAATATTATA
*
16541572 ATTATTATAATATTAATTATTTATATTATA
1 A--ATTATAATATTAATTATTAATATTATA
16541602 AATTATAATAT
1 AATTATAATAT
16541613 AATCATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 1 0.03
28 24 0.71
29 3 0.09
30 6 0.18
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (28 bp):
AATTATAATATTAATTATTAATATTATA
Found at i:16541595 original size:16 final size:16
Alignment explanation
Indices: 16541560--16541607 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
16541550 GTAATAATAA
*
16541560 TTATAATTTATAATTA-
1 TTATAATAT-TAATTAT
16541576 TTATAATATTAATTAT
1 TTATAATATTAATTAT
* *
16541592 TTATATTATAAATTAT
1 TTATAATATTAATTAT
16541608 AATATAATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 6 0.21
16 22 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATAATATTAATTAT
Found at i:16541634 original size:28 final size:27
Alignment explanation
Indices: 16541574--16541645 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 27
16541564 AATTTATAAT
*
16541574 TATTATAATATTAATTATTTATATTATA
1 TATTATAATA-TAATCATTTATATTATA
*
16541602 AATTATAATATAATCATTTTATACTTA-A
1 TATTATAATATAATCA-TTTATA-TTATA
16541630 TATTATTAATAATAAT
1 TATTA-TAAT-ATAAT
16541646 GAATTTAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 5 0.14
28 20 0.54
29 7 0.19
30 5 0.14
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (27 bp):
TATTATAATATAATCATTTATATTATA
Found at i:16542453 original size:21 final size:22
Alignment explanation
Indices: 16542410--16542456 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 22
16542400 ATTTATTAGT
16542410 TAATTTAACTAATAATAAGATTA
1 TAATTTAAC-AATAATAAGATTA
16542433 TAATTTAA-AATATATAA-ATTA
1 TAATTTAACAATA-ATAAGATTA
16542454 TAA
1 TAA
16542457 AATTTTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 11 0.48
22 4 0.17
23 8 0.35
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
TAATTTAACAATAATAAGATTA
Found at i:16542718 original size:31 final size:34
Alignment explanation
Indices: 16542682--16542755 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 34
16542672 TATATCATAT
*
16542682 AATTATATTAT-ATATTAA-TT-TATAAACTATC
1 AATTATATTATAATATTAAGTTATATAAACTAAC
* *
16542713 AATTATATAATAATATTAAGTTATATAAATTAAC
1 AATTATATTATAATATTAAGTTATATAAACTAAC
16542747 -ATTATATTA
1 AATTATATTA
16542756 ATTATTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 10 0.28
32 7 0.19
33 10 0.28
34 9 0.25
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (34 bp):
AATTATATTATAATATTAAGTTATATAAACTAAC
Found at i:16542887 original size:26 final size:25
Alignment explanation
Indices: 16542858--16542934 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 25
16542848 TATATATTAA
*
16542858 TTATAAATATATAATAAATTTAAAT
1 TTATTAATATATAATAAATTTAAAT
* ** *
16542883 CTTATTAATATTTAATATTTTTGAAT
1 -TTATTAATATATAATAAATTTAAAT
* *
16542909 ATATTAATATATAATTAATTATAAAT
1 TTATTAATATATAATAAATT-TAAAT
16542935 AATACTTATT
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
25 15 0.38
26 24 0.62
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (25 bp):
TTATTAATATATAATAAATTTAAAT
Found at i:16543213 original size:13 final size:13
Alignment explanation
Indices: 16543195--16543219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16543185 AATAATAACT
16543195 TATCTAATTAGAC
1 TATCTAATTAGAC
16543208 TATCTAATTAGA
1 TATCTAATTAGA
16543220 TTAATTATTT
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:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCTAATTAGAC
Found at i:16543368 original size:18 final size:16
Alignment explanation
Indices: 16543325--16543371 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
16543315 TAAATATTTT
16543325 TATATTAATAAATTATA
1 TATATT-ATAAATTATA
16543342 -ATAATTATAAATATACTA
1 TAT-ATTATAAAT-TA-TA
16543360 TATATTATAAAT
1 TATATTATAAAT
16543372 CTAATAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 8 0.31
17 5 0.19
18 11 0.42
19 2 0.08
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TATATTATAAATTATA
Found at i:16544424 original size:17 final size:18
Alignment explanation
Indices: 16544402--16544461 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 18
16544392 TAATAGTTAA
16544402 TAAATTAAATATAAT-AG
1 TAAATTAAATATAATAAG
16544419 TAAATT--ATATAATAAG
1 TAAATTAAATATAATAAG
16544435 TTAAATTATAATAATTAATAAG
1 -TAAATTA-AAT-A-TAATAAG
16544457 TAAAT
1 TAAAT
16544462 GTTTATCATT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
15 7 0.19
16 2 0.06
17 12 0.33
20 2 0.06
21 6 0.17
22 7 0.19
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
TAAATTAAATATAATAAG
Found at i:16544431 original size:29 final size:32
Alignment explanation
Indices: 16544372--16544455 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 32
16544362 ATCTGTAATG
16544372 TTAAATATTAATAGATATAATAATAGTTAATAAA
1 TTAAATA-TAATAGATATAATAATAG-TAATAAA
* *
16544406 TTAAATATAATAG-TA-AATTATA-TAATAAG
1 TTAAATATAATAGATATAATAATAGTAATAAA
16544435 TTAAATTATAATA-AT-TAATAA
1 TTAAA-TATAATAGATATAATAA
16544456 GTAAATGTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
29 11 0.25
30 12 0.27
31 6 0.14
32 2 0.05
33 6 0.14
34 7 0.16
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (32 bp):
TTAAATATAATAGATATAATAATAGTAATAAA
Found at i:16544526 original size:21 final size:22
Alignment explanation
Indices: 16544482--16544561 Score: 67
Period size: 21 Copynumber: 3.6 Consensus size: 22
16544472 ATAATGTATT
16544482 TTATT-TAT-TTAAATATATAATA
1 TTATTATATATTAAATAT-T-ATA
16544504 TTATTATATATTAAATATT-TA
1 TTATTATATATTAAATATTATA
* * *
16544525 TTATAATGTAATAAATATTATA
1 TTATTATATATTAAATATTATA
**
16544547 CAATTATATTATTAA
1 TTATTATA-TATTAA
16544562 TTTAATTATA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
21 18 0.39
22 11 0.24
23 9 0.20
24 8 0.17
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (22 bp):
TTATTATATATTAAATATTATA
Found at i:16544537 original size:17 final size:16
Alignment explanation
Indices: 16544494--16544591 Score: 55
Period size: 17 Copynumber: 6.1 Consensus size: 16
16544484 ATTTATTTAA
16544494 ATATA-TAATATTATT
1 ATATATTAATATTATT
16544509 ATATATTAAATATTTATT
1 ATATATT-AATA-TTATT
*
16544527 ATA-ATGTAATAAATATT
1 ATATAT-TAAT-ATTATT
*
16544544 ATACAATT-ATATTATT
1 ATA-TATTAATATTATT
*
16544560 A-AT-TTAAT-TATATA
1 ATATATTAATAT-TATT
*
16544574 ATAATATTAATTTTATT
1 AT-ATATTAATATTATT
16544591 A
1 A
16544592 AACAATTGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 24
0.69 0.05 0.26
Matches are distributed among these distances:
13 3 0.05
14 6 0.09
15 6 0.09
16 9 0.14
17 27 0.42
18 12 0.18
19 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (16 bp):
ATATATTAATATTATT
Found at i:16545110 original size:24 final size:22
Alignment explanation
Indices: 16545066--16545110 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
16545056 ACAATTTTAT
*
16545066 AATTATTATAATTTTAGTTAAC
1 AATTATTATAATATTAGTTAAC
*
16545088 AATTATTAACTAATATTATTTAA
1 AATTATT-A-TAATATTAGTTAA
16545111 ATATTTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 1 0.05
24 11 0.58
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
AATTATTATAATATTAGTTAAC
Found at i:16545374 original size:19 final size:19
Alignment explanation
Indices: 16545332--16545385 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 19
16545322 TAGACAAAAT
*
16545332 ATAATAATTA-TATA-GTA
1 ATAATAATTATTATATTTA
*
16545349 AT-TTAATTATTATATTTA
1 ATAATAATTATTATATTTA
*
16545367 ATAATAATTGTTA-ATTTA
1 ATAATAATTATTATATTTA
16545385 A
1 A
16545386 AATGCTATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 6 0.20
17 6 0.20
18 10 0.33
19 8 0.27
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (19 bp):
ATAATAATTATTATATTTA
Found at i:16545486 original size:14 final size:13
Alignment explanation
Indices: 16545453--16545517 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 13
16545443 AAATTTAATC
*
16545453 TATTAACAATTATT
1 TATTAATAATTA-T
16545467 TATTAATAATTAT
1 TATTAATAATTAT
16545480 TAGTTAATAAGTTAT
1 TA-TTAATAA-TTAT
* *
16545495 AATAATACTAATTAT
1 --TATTAATAATTAT
16545510 TA-TAATAA
1 TATTAATAA
16545518 CTAATTGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
12 5 0.12
13 5 0.12
14 18 0.42
15 8 0.19
16 5 0.12
17 2 0.05
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (13 bp):
TATTAATAATTAT
Found at i:16545509 original size:15 final size:16
Alignment explanation
Indices: 16545491--16545523 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16545481 AGTTAATAAG
16545491 TTATAATAAT-ACTAA
1 TTATAATAATAACTAA
*
16545506 TTATTATAATAACTAA
1 TTATAATAATAACTAA
16545522 TT
1 TT
16545524 GAATAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
TTATAATAATAACTAA
Found at i:16545565 original size:24 final size:25
Alignment explanation
Indices: 16545537--16545593 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
16545527 TAAATTATTT
*
16545537 ATTTAATAA-TAAAT-T-TAGTATA
1 ATTTAATAATTAAATATATACTATA
*
16545559 TATTTTATAATTAAATATATACTATA
1 -ATTTAATAATTAAATATATACTATA
16545585 ATTTAATAA
1 ATTTAATAA
16545594 CTATTAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 8 0.29
24 5 0.18
25 9 0.32
26 6 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
ATTTAATAATTAAATATATACTATA
Found at i:16545689 original size:21 final size:22
Alignment explanation
Indices: 16545663--16545703 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
16545653 AAATTAGTAT
* *
16545663 TAATTATTATTAAT-ATTTTAA
1 TAATTAATATAAATGATTTTAA
16545684 TAATTAATATAAATGATTTT
1 TAATTAATATAAATGATTTT
16545704 TACTTATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TAATTAATATAAATGATTTTAA
Found at i:16546681 original size:3 final size:3
Alignment explanation
Indices: 16546673--16546707 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
16546663 AAAATAGATA
16546673 TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16546708 AATAATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:16546715 original size:20 final size:20
Alignment explanation
Indices: 16546672--16546715 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
16546662 TAAAATAGAT
* *
16546672 ATATTATTATTATTATTATT
1 ATATTATTATTATTATAATA
16546692 ATATTATTATTATTATAATA
1 ATATTATTATTATTATAATA
16546712 ATAT
1 ATAT
16546716 ATGATAATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATATTATTATTATTATAATA
Found at i:16546783 original size:27 final size:26
Alignment explanation
Indices: 16546744--16546798 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
16546734 TAAATAAACA
* *
16546744 ATTATTTATATTTAATAATAGATATTT
1 ATTATTGAAATTTAATAATA-ATATTT
*
16546771 ATTATTGAAATTTAATAATACTATTT
1 ATTATTGAAATTTAATAATAATATTT
16546797 AT
1 AT
16546799 AAGAATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (26 bp):
ATTATTGAAATTTAATAATAATATTT
Found at i:16546861 original size:23 final size:24
Alignment explanation
Indices: 16546830--16546888 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
16546820 TTATTAATAA
* *
16546830 TTAATATTAATTGTTAATTTA-AAT
1 TTAA-ATTAATTATTAAGTTATAAT
16546854 TTAAATTAATTATTAAGTTATAAT
1 TTAAATTAATTATTAAGTTATAAT
16546878 TATAAA-TAATT
1 T-TAAATTAATT
16546889 TAATATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 14 0.45
24 13 0.42
25 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (24 bp):
TTAAATTAATTATTAAGTTATAAT
Found at i:16546995 original size:25 final size:28
Alignment explanation
Indices: 16546965--16547023 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
16546955 AAGTATACTA
16546965 ATTTATAATAA-A-TAT-AATTATTAAT
1 ATTTATAATAATATTATAAATTATTAAT
*
16546990 ATTTATAATAATATTATAAATTATTTAT
1 ATTTATAATAATATTATAAATTATTAAT
*
16547018 AATTAT
1 ATTTAT
16547024 TATCTAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 11 0.38
26 1 0.03
27 3 0.10
28 14 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
ATTTATAATAATATTATAAATTATTAAT
Found at i:16547170 original size:23 final size:23
Alignment explanation
Indices: 16547120--16547170 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
16547110 AATTATAAAA
16547120 TATATTTATTTTATTAATTCATT
1 TATATTTATTTTATTAATTCATT
* * *
16547143 AATATTTA-TTTATTTATTTATGT
1 TATATTTATTTTATTAATTCAT-T
16547166 TATAT
1 TATAT
16547171 ATAATTTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
TATATTTATTTTATTAATTCATT
Found at i:16548316 original size:40 final size:39
Alignment explanation
Indices: 16548245--16548323 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 39
16548235 AAATCTCTTA
16548245 TTAATTTTTAGAATATTATTAAATTAGTATTATTTCAAATC
1 TTAATTTTTAGAATATTATTAAATTA-TATTATTT-AAATC
*
16548286 TTAATTTTTATATAGTATTATTAAA-T-TATTATTTAAAT
1 TTAATTTTTAGA-A-TATTATTAAATTATATTATTTAAAT
16548324 TATATTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
39 4 0.11
40 8 0.23
41 11 0.31
42 2 0.06
43 10 0.29
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (39 bp):
TTAATTTTTAGAATATTATTAAATTATATTATTTAAATC
Found at i:16548333 original size:14 final size:14
Alignment explanation
Indices: 16548257--16548333 Score: 51
Period size: 14 Copynumber: 5.6 Consensus size: 14
16548247 AATTTTTAGA
16548257 ATATTA-TTAAATT
1 ATATTATTTAAATT
16548270 AGTATTATTTCAAATCT
1 A-TATTATTT-AAAT-T
*
16548287 -TAATT-TTTATA-T
1 AT-ATTATTTAAATT
16548299 AGTATTA-TTAAA-T
1 A-TATTATTTAAATT
16548312 -TATTATTTAAATT
1 ATATTATTTAAATT
16548325 ATATTATTT
1 ATATTATTT
16548334 GATAAATTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 21
0.69 0.03 0.28
Matches are distributed among these distances:
11 5 0.10
12 6 0.12
13 10 0.20
14 16 0.31
15 6 0.12
16 7 0.14
17 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (14 bp):
ATATTATTTAAATT
Found at i:16549368 original size:25 final size:24
Alignment explanation
Indices: 16549332--16549392 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 24
16549322 TCTTAATCAT
16549332 TTATC-AATAAAT-TTAATTTTTGAA
1 TTATCAAATAAATATT-ATTTTT-AA
16549356 TTATCAAATAAATATTATTTTTAA
1 TTATCAAATAAATATTATTTTTAA
*
16549380 TT-TGAAATAAATA
1 TTATCAAATAAATA
16549393 AAATTTAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
23 10 0.29
24 9 0.26
25 13 0.38
26 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (24 bp):
TTATCAAATAAATATTATTTTTAA
Found at i:16549594 original size:23 final size:24
Alignment explanation
Indices: 16549550--16549594 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
16549540 TTGATATAAC
* *
16549550 TTAATATATTATTGAATTATTGAA
1 TTAATATATTATTAAATAATTGAA
16549574 TTAAT-TATTATTAAATAATTG
1 TTAATATATTATTAAATAATTG
16549595 TTGATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (24 bp):
TTAATATATTATTAAATAATTGAA
Found at i:16549646 original size:10 final size:10
Alignment explanation
Indices: 16549619--16549706 Score: 63
Period size: 10 Copynumber: 8.2 Consensus size: 10
16549609 AATCAAACAA
16549619 TATATAAATAT
1 TATATAAAT-T
16549630 TAT-TAAATT
1 TATATAAATT
16549639 TATATAAATT
1 TATATAAATT
* *
16549649 TAAATCAATT
1 TATATAAATT
16549659 TATATAATTCTATT
1 TATATAA----ATT
16549673 TATATAAATT
1 TATATAAATT
*
16549683 TCATTTAAAATT
1 T-ATAT-AAATT
16549695 TA-ATAATATT
1 TATATAA-ATT
16549705 TA
1 TA
16549707 ATATTAATAA
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
9 6 0.10
10 34 0.54
11 7 0.11
12 6 0.10
14 10 0.16
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (10 bp):
TATATAAATT
Found at i:16550090 original size:21 final size:20
Alignment explanation
Indices: 16550049--16550089 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
16550039 TTAACTTATT
16550049 TAATATTTTAAATATTAAAA
1 TAATATTTTAAATATTAAAA
*
16550069 TAATTTTTTATAATAATTAAA
1 TAATATTTTA-AAT-ATTAAA
16550090 TTTAAATGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATATTTTAAATATTAAAA
Found at i:16550225 original size:27 final size:31
Alignment explanation
Indices: 16550187--16550252 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
16550177 ATTTGACATA
*
16550187 ATTAA-TATTTT-ATATTATAGT-AT-AAAT
1 ATTAATTATTTTAATATTATAATAATAAAAT
* *
16550214 ATTAATTATTTAAATATTTTAATAATAAAAT
1 ATTAATTATTTTAATATTATAATAATAAAAT
16550245 ATTAATTA
1 ATTAATTA
16550253 AAATTATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 5 0.16
28 5 0.16
29 8 0.25
30 2 0.06
31 12 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (31 bp):
ATTAATTATTTTAATATTATAATAATAAAAT
Found at i:16550446 original size:26 final size:24
Alignment explanation
Indices: 16550417--16550482 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
16550407 AATATATTAT
16550417 TTAATATTACTAATATTTAATAATA
1 TTAATATTA-TAATATTTAATAATA
* **
16550442 GTTAATATTTTAA-ATTTTTTAATA
1 -TTAATATTATAATATTTAATAATA
*
16550466 TTAATTTTATAATATTT
1 TTAATATTATAATATTT
16550483 TTTAAATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 10 0.29
24 13 0.38
25 3 0.09
26 8 0.24
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
TTAATATTATAATATTTAATAATA
Found at i:16550473 original size:14 final size:14
Alignment explanation
Indices: 16550454--16550496 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
16550444 TAATATTTTA
*
16550454 AATTTTTTAATATT
1 AATTTTATAATATT
16550468 AATTTTATAATATT
1 AATTTTATAATATT
16550482 --TTTTA-AATATT
1 AATTTTATAATATT
16550493 AATT
1 AATT
16550497 CATTGACGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 6 0.23
12 5 0.19
13 2 0.08
14 13 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AATTTTATAATATT
Found at i:16550490 original size:25 final size:22
Alignment explanation
Indices: 16550437--16550496 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 22
16550427 TAATATTTAA
16550437 TAATAGTTAATATTTTAAATTTTT
1 TAATA-TTAAT-TTTTAAATTTTT
16550461 TAATATTAATTTTATAATATTTTT
1 TAATATTAATTTT-TAA-ATTTTT
16550485 TAAATATTAATT
1 T-AATATTAATT
16550497 CATTGACGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.09
23 8 0.24
24 12 0.36
25 10 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TAATATTAATTTTTAAATTTTT
Found at i:16551071 original size:11 final size:13
Alignment explanation
Indices: 16551018--16551074 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 13
16551008 TAGAATTAAG
16551018 TTAATAATTATAATA
1 TTAAT-ATTATAA-A
16551033 TTAATAGTTAT--A
1 TTAATA-TTATAAA
16551045 -TAATATTATAAA
1 TTAATATTATAAA
16551057 TTAAT-TTAT-AA
1 TTAATATTATAAA
16551068 TTAATAT
1 TTAATAT
16551075 AACTATCGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
10 4 0.11
11 12 0.32
12 7 0.19
13 4 0.11
14 1 0.03
15 9 0.24
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
TTAATATTATAAA
Found at i:16551225 original size:27 final size:26
Alignment explanation
Indices: 16551183--16551235 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
16551173 AATCCAAGTA
16551183 TAATTATAATAATAATT-TATTATAT
1 TAATTATAATAATAATTATATTATAT
16551208 TAATTATAAAATAATAATTAATATTATA
1 TAATTAT--AATAATAATT-ATATTATA
16551236 ATATAATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 7 0.29
27 10 0.42
29 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TAATTATAATAATAATTATATTATAT
Found at i:16551270 original size:18 final size:19
Alignment explanation
Indices: 16551210--16551270 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 19
16551200 TATTATATTA
*
16551210 ATTATAAAATAATAATTAA-T
1 ATTATAATATAAT-A-TAATT
*
16551230 ATTATAATATAATGTAATT
1 ATTATAATATAATATAATT
*
16551249 -TTATAATA-AATATAGTT
1 ATTATAATATAATATAATT
16551266 ATTAT
1 ATTAT
16551271 TGGTGATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 7 0.20
18 15 0.43
19 1 0.03
20 12 0.34
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
ATTATAATATAATATAATT
Found at i:16551412 original size:14 final size:17
Alignment explanation
Indices: 16551376--16551428 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 17
16551366 TATTTATAAA
* *
16551376 TATAA-AATTATTATAA
1 TATAATAATTGTTATAT
*
16551392 TAAAAT-ATTG-TA-AT
1 TATAATAATTGTTATAT
16551406 TATAATAATTGTTATAT
1 TATAATAATTGTTATAT
16551423 TATAAT
1 TATAAT
16551429 CAAATTAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 6 0.21
15 6 0.21
16 9 0.31
17 8 0.28
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (17 bp):
TATAATAATTGTTATAT
Found at i:16551646 original size:12 final size:13
Alignment explanation
Indices: 16551614--16551658 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 13
16551604 TAATTATATA
16551614 ATATTAATAAA-T
1 ATATTAATAAATT
* *
16551626 ATAAT-ATAATTT
1 ATATTAATAAATT
16551638 ATA-TAATAAATT
1 ATATTAATAAATT
16551650 ATATTAATA
1 ATATTAATA
16551659 TAATGACATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTAATAAATT
Found at i:16551661 original size:18 final size:18
Alignment explanation
Indices: 16551582--16551662 Score: 59
Period size: 18 Copynumber: 4.7 Consensus size: 18
16551572 AATATTAACT
16551582 TATTAATTATACATAT-ATA
1 TATTAA-TATA-ATATAATA
*
16551601 TGTTAAT-T-ATAT-A-A
1 TATTAATATAATATAATA
16551615 TATTAATA-AATATAATA
1 TATTAATATAATATAATA
*
16551632 TAATTTATATAATA-AATTA
1 T-ATTAATATAATATAA-TA
16551651 TATTAATATAAT
1 TATTAATATAAT
16551663 GACATTAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
14 7 0.14
15 9 0.18
16 1 0.02
17 3 0.06
18 19 0.37
19 12 0.24
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (18 bp):
TATTAATATAATATAATA
Found at i:16551834 original size:33 final size:33
Alignment explanation
Indices: 16551797--16551867 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
16551787 CTATCTCAAT
* *
16551797 TTATAATTATTAATAATACTA-ATATTAATTATA
1 TTATAATAATTAATAA-ACTATATAATAATTATA
*
16551830 TTATAATAATTAATAAACTATTTAATAATTATA
1 TTATAATAATTAATAAACTATATAATAATTATA
16551863 TTATA
1 TTATA
16551868 TTAAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 4 0.12
33 30 0.88
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (33 bp):
TTATAATAATTAATAAACTATATAATAATTATA
Found at i:16552522 original size:17 final size:16
Alignment explanation
Indices: 16552500--16552531 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
16552490 TTATTCAATT
16552500 ATAAATAATATGAATAA
1 ATAAATAAT-TGAATAA
16552517 ATAAATAATTGAATA
1 ATAAATAATTGAATA
16552532 TTAAACTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
ATAAATAATTGAATAA
Found at i:16552523 original size:41 final size:44
Alignment explanation
Indices: 16552474--16552561 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
16552464 AAGAGATTTA
*
16552474 AAATAAATAA-TGATTATT-A-TTCAATTATAAATAATATGAAT
1 AAATAAATAATTGAATATTAACTTCAATTATAAATAATATGAAT
* *
16552515 AAATAAATAATTGAATATTAAACTTCAATTATTAATAATATTAAT
1 AAATAAATAATTGAATATT-AACTTCAATTATAAATAATATGAAT
16552560 AA
1 AA
16552562 TTTTAAGCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
41 10 0.25
42 7 0.17
44 1 0.03
45 22 0.55
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (44 bp):
AAATAAATAATTGAATATTAACTTCAATTATAAATAATATGAAT
Found at i:16553015 original size:21 final size:21
Alignment explanation
Indices: 16552964--16553032 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
16552954 TATTAATAAA
*
16552964 TAATTATTAATATAATTAATATT
1 TAATTATTAAAATAATT-ATA-T
** *
16552987 AATAATTATTATTATATTTATAT
1 --TAATTATTAAAATAATTATAT
16553010 TAATTATTAAAATAATTATAT
1 TAATTATTAAAATAATTATAT
16553031 TA
1 TA
16553033 TAGATTATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
21 20 0.51
23 1 0.03
24 3 0.08
25 15 0.38
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TAATTATTAAAATAATTATAT
Found at i:16553336 original size:175 final size:176
Alignment explanation
Indices: 16553092--16553500 Score: 412
Period size: 175 Copynumber: 2.3 Consensus size: 176
16553082 CATAATGACA
* * *
16553092 TTTTGTTTTATTATAAAATAATTGTTTCTATGCATAAAAAATTATTCAGAATAAAATAATACCAA
1 TTTTGTTTTATTAAAAAATAATTGTTTCAATGCATAAAAAATTATTCAAAATAAAATAATACCAA
** * * * * * *
16553157 TTTATTACTATTTCA-AAAATTAATAAG-GATTTAAAAATAAATGTGTTTTTCGAAGCAGTTCAA
66 TTTATTAAAATTT-AGAAAATTAATAAGAAATTTAAAAAAAAATCTATTTATCGAAGAAGTTCAA
16553220 ATAGTTAAGACTATTAGAACAATTACCTATTCCAAATTATTCTAATC
130 ATAGTTAAGACTATTAGAACAATTACCTATTCCAAATTATTCTAATC
* * *** * * *
16553267 TTTTG-TTTAGTTAAAAAATAATTGTTTCAATTCATACATGCTTATTCAAAATATAGTAATACTA
1 TTTTGTTTTA-TTAAAAAATAATTGTTTCAATGCATAAAAAATTATTCAAAATAAAATAATACCA
*
16553331 ATTTATTAAAATTTAGAAAATTAATAAGAAATTTAAAAAAAAATCTATTTATCGAATAAGTTCAA
65 ATTTATTAAAATTTAGAAAATTAATAAGAAATTTAAAAAAAAATCTATTTATCGAAGAAGTTCAA
* * * * ** * * *
16553396 ATAGTTATGACTATTTGAAATAATTATCTATTTAAAATTGTTATAACC
130 ATAGTTAAGACTATTAG-AACAATTACCTATTCCAAATTATTCTAATC
* * * * * * * * *
16553444 CTTTATTTTATCATAAAACAATTGCTTCAATACA-AAAAAGTTTTTCCAAAATAAAAT
1 TTTTGTTTTATTAAAAAATAATTGTTTCAATGCATAAAAAATTATT-CAAAATAAAAT
16553501 GATATTGCTT
Statistics
Matches: 185, Mismatches: 43, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
174 5 0.03
175 72 0.39
176 50 0.27
177 54 0.29
178 4 0.02
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.40
Consensus pattern (176 bp):
TTTTGTTTTATTAAAAAATAATTGTTTCAATGCATAAAAAATTATTCAAAATAAAATAATACCAA
TTTATTAAAATTTAGAAAATTAATAAGAAATTTAAAAAAAAATCTATTTATCGAAGAAGTTCAAA
TAGTTAAGACTATTAGAACAATTACCTATTCCAAATTATTCTAATC
Found at i:16554062 original size:174 final size:173
Alignment explanation
Indices: 16553608--16554089 Score: 445
Period size: 174 Copynumber: 2.7 Consensus size: 173
16553598 TGAACTTGTT
* *
16553608 TGGTAAACAGATTTATTTTTTAAA-TCTTTTACTTATTAATTGTCTAATATTAATAAA-TATGTA
1 TGGTAAACAGATTTATTTTTTAAATTTTTTTACTTATTAATTGTCAAATATTAATAAATTA-GTA
* * * * *
16553671 TTATTTTATTTGAAATAAGCTTAG-ATGAACAAAAAAAATTCTTTTATGACAAACAAAAGATTAT
65 TTATTTTATTTCAAATAAGCTT-GTATGAATAGAAACAATTCTTTTATGACAAACAAAAG---GT
* *
16553735 AGCTATTTCAAATAGATAATTATTTAAATAGTCCTAATTATTTAAATTTGTT
126 --C-A-TTCAAATAGATAATTATTTAAATAGTCCTAATTATTTAAATTAGTG
* * * * * * * * ** *
16553787 TAGAAAACAGAGTCATTTTTTAAATCTCTTTA-TTATAAATTTTTGGATTATTAATAAATTAGTA
1 TGGTAAACAGATTTATTTTTTAAATTTTTTTACTTATTAA-TTGTCAAATATTAATAAATTAGTA
** * * *
16553851 TTATTTTATTTTGAATAAGTTTATATGAATTGAAACAATTCTTTTATGACAAAGCAAAAGGTCAT
65 TTATTTTATTTCAAATAAGCTTGTATGAATAGAAACAATTCTTTTATGACAAA-CAAAAGGTCAT
* * * * *
16553916 TGAAATAGATAATTATTTAAATTGTCGTGATTATTT-GATCTAGTG
129 TCAAATAGATAATTATTTAAATAGTCCTAATTATTTAAAT-TAGTG
* *
16553961 TGGTAAACATATTTA-TTTTTAAATTTTTTTACTTATTAATTGTCAAAATATTAACAAATTAGTA
1 TGGTAAACAGATTTATTTTTTAAATTTTTTTACTTATTAATTGTC-AAATATTAATAAATTAGTA
* * * * * * *
16554025 TTATTTTAATCCAAATAAGCTTGTATAAATAGAAACAATTATTGTATAACAAAACAAAAAGTCAT
65 TTATTTTATTTCAAATAAGCTTGTATGAATAGAAACAATTCTTTTATGAC-AAACAAAAGGTCAT
16554090 AACTTCTGGA
Statistics
Matches: 241, Mismatches: 53, Indels: 23
0.76 0.17 0.07
Matches are distributed among these distances:
173 19 0.08
174 117 0.49
175 4 0.02
176 1 0.00
178 1 0.00
179 26 0.11
180 65 0.27
181 8 0.03
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (173 bp):
TGGTAAACAGATTTATTTTTTAAATTTTTTTACTTATTAATTGTCAAATATTAATAAATTAGTAT
TATTTTATTTCAAATAAGCTTGTATGAATAGAAACAATTCTTTTATGACAAACAAAAGGTCATTC
AAATAGATAATTATTTAAATAGTCCTAATTATTTAAATTAGTG
Found at i:16554686 original size:179 final size:177
Alignment explanation
Indices: 16554079--16554689 Score: 573
Period size: 179 Copynumber: 3.4 Consensus size: 177
16554069 TATAACAAAA
* * * * *
16554079 CAAAAAGTCATAACT-TCTGGAACTAGTTTGATACATAGATTTATTTTTTAAA--TC--ACTTAT
1 CAAATAGTCATAACTAT-TTGAACTAG-TTGGTAAACAGATTTATTTTTTAAATCTCTTACTTAT
* * * *
16554139 TAATTTTTGAAATATTAATATATTAGTATTGCTTTATTTCAAATAAACTTATATGAACA-AAAAC
64 TAATTTTTGAAATATT-ATAAATTCGTATTGTTTTATTTCAAATAAGCTTATATGAACAGAAAA-
* *
16554203 ATTTGTTTTATGACAAAACAAAAAGTAATAATGATTTGAAATATATAATTGTT
127 A-TTGTTTTATGACAAAACAAAAGGTAATAATGATTTG-AATATAGAATTGTT
* * * * * *
16554256 CAAATAGT-ATAATTTTTTGAATTGGTTAGGTAAACAGAATTATTTTTTAAATCTCTTATTTATT
1 CAAATAGTCATAACTATTTGAACTAGTT-GGTAAACAGATTTATTTTTTAAATCTCTTACTTATT
* * * * **
16554320 AATTTTTGAAATATTAAAAATTCATTTTATTTTATTTCAAATAAGC-TAGTATGAATTGAGAAAA
65 AATTTTTGAAATATTATAAATTCGTATTGTTTTATTTCAAATAAGCTTA-TATGAACAGA-AAAA
* * * * *
16554384 TTATTTTATGACAAGA-TAAAGGTCATAACGATTTGAAT-TAGGTAATTGTT
128 TTGTTTTATGACAAAACAAAAGGTAATAATGATTTGAATATA-G-AATTGTT
* * * * * * * *
16554434 CATATAGTCTTAACTA-TTGAATTGGTTTGTCAAACAAATTTATTTTTTAAATCCCTTAGTTATT
1 CAAATAGTCATAACTATTTGAACTAGTTGGT-AAACAGATTTATTTTTTAAATCTCTTACTTATT
* ** *
16554498 AATTTTTTG-AATATTATTAGATTCGTATTGTTTTATTTTGAATAAGCTTTTATGAACAGAAATA
65 AA-TTTTTGAAATATTA-TAAATTCGTATTGTTTTATTTCAAATAAGCTTATATGAACAGAAA-A
* *
16554562 ATTGTTTTATGACAAAACAAAAGGTTATAATGATATGAAGTATAGAATTGTT
127 ATTGTTTTATGACAAAACAAAAGGTAATAATGATTTGAA-TATAGAATTGTT
* * *
16554614 CAAATAGTCATAACTATTTAAACTAGTTCGGTAAATAGATTCATTTTTTAAA-CTCTTACTTATT
1 CAAATAGTCATAACTATTTGAACTAGTT-GGTAAACAGATTTATTTTTTAAATCTCTTACTTATT
16554678 AATTTTTGAAAT
65 AATTTTTGAAAT
16554690 TGTTAATTGT
Statistics
Matches: 348, Mismatches: 63, Indels: 43
0.77 0.14 0.09
Matches are distributed among these distances:
175 2 0.01
176 32 0.09
177 13 0.04
178 84 0.24
179 106 0.30
180 77 0.22
181 30 0.09
182 4 0.01
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (177 bp):
CAAATAGTCATAACTATTTGAACTAGTTGGTAAACAGATTTATTTTTTAAATCTCTTACTTATTA
ATTTTTGAAATATTATAAATTCGTATTGTTTTATTTCAAATAAGCTTATATGAACAGAAAAATTG
TTTTATGACAAAACAAAAGGTAATAATGATTTGAATATAGAATTGTT
Found at i:16555822 original size:535 final size:535
Alignment explanation
Indices: 16555139--16556314 Score: 1240
Period size: 535 Copynumber: 2.2 Consensus size: 535
16555129 AATAGTTAAA
* ** *
16555139 ACTATATGAATAATTATCTATTTCAAATCATTATAACCTTTTTTGTTTTGTCATAAAACAA-TAT
1 ACTATTTGAATAATTATCTATTTCAAATCATTATGGCC--TTTTGTTTTGTCATAAAAAAATTA-
*
16555203 TTTCAATTCATACTAGCTTATTTAGAATAAAATAA-AATAAATTTATTAAAATTTCAAAAATTAA
63 TTTCAATTCATA-TAGCTTATTTA-AATAAAATAATAATAAAGTTATTAAAATTTCAAAAATTAA
* *
16555267 TAAGTAAGAGAATTAAAAAAT-AATTCTATTTACCT-AACCAGTTCAAATAATTATGACTATTTG
126 TAAGTAAGAGAATTAAAAAATGAA-TCTATTTA-CTGAACAAGTTCAAATAATTATAACTATTTG
* * * * * *
16555330 AACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAACTA-ATGTTTTTGT-TT
189 AACAATTATCTATTACAAATCGCTATAACCTTTTGCTTTGTCATAAAA--AGAT-TTTTTCTATT
* * * *
16555393 -ATATAAG-TT-TGTTTGAAATAAAATAATACTAATCTATTAATATTTCA-A-AATT-AA-TAAA
251 CATACAAGCTTAT-TTTG-AATAAAATAAGACAAATCTATTAA-A-TTAAGACAATTAAAGTAAA
* * * *
16555451 A-ATTTTAAAAATAAATTTGTTTA-TCAAACTAGTTCAAA-TTAAGATTATTT-AAGTAGTTATT
312 AGA-TTTAAAAATAAATTTGTTTACT-AAACAAGTTCAAACTTAAGACTATTTGAA-CAATTATT
* * * * *
16555512 TATTTCAAATCATTATGACTTTTTATTCTGTTATAAGATAATAGTTTCTATTTATTCAAGCTTAT
374 TATTTCAAATCATTATGACTTTTTATTCTGTCATAAAACAATAGTTTCTATTCATACAAGCTTAT
* **
16555577 TCAAATTAAAATAATACAAATTTATTAATATTTTGACAATTAATAAGTAAAAAATGTAAAAAATT
439 T-AAAGTAAAATAATACAAATTTATTAATATTTCAACAATTAATAAGTAAAAAATGTAAAAAA-T
*
16555642 AAATATGTTTACTAAACTAGATCAAACT-GTCATC
502 AAATATGTTTACTAAACAAGATCAAA-TAGTCATC
* * * *
16555676 ACTATTTGAATAGTTATCTATTTCAAATCGTTATGGCCTTTTCTTCTGTCATAAAAAAATTATTT
1 ACTATTTGAATAATTATCTATTTCAAATCATTATGGCCTTTTGTTTTGTCATAAAAAAATTATTT
* * * **
16555741 CAATTCATATAAGCTTATTCGAAATAAAATAATACT-AAGTTATTAATATTTTGAAAATTAATAA
66 CAATTCATAT-AGCTTATT-TAAATAAAATAATAATAAAGTTATTAAAATTTCAAAAATTAATAA
* * * * * * *
16555805 TTAAGAGATTTAAAAAATGAATCTGTTTACTGAATAAGTTTAAATAATTATAATTATTTGAATAA
129 GTAAGAGAATTAAAAAATGAATCTATTTACTGAACAAGTTCAAATAATTATAACTATTTGAACAA
* *
16555870 TTATTTATTAGAAATCGCTATAACCTTTTGCTTTGTCATAAAAAGATTTTTTCTATTCATACAAG
194 TTATCTATTACAAATCGCTATAACCTTTTGCTTTGTCATAAAAAGATTTTTTCTATTCATACAAG
*
16555935 CTTATTTTGAATAAAATAAGACAAATTTATTAAATTAAGACAATTAACAAGTAAAAGATTTAAAA
259 CTTATTTTGAATAAAATAAGACAAATCTATTAAATTAAGACAATT-A-AAGTAAAAGATTTAAAA
* * * * *
16556000 ATAAATTTGTTTACTGAACAAGTTTAAATCGTTACGACTATTTGAACAATTATTTATTTTAAATT
322 ATAAATTTGTTTACTAAACAAGTTCAAA-C-TTAAGACTATTTGAACAATTATTTATTTCAAATC
* * * * * * * ***
16556065 GTTATGACTTTTTGTTTTGTCATAAAACAATTGTTTTTGTTCATACTAGCTTATTTGGGTAAAAT
385 ATTATGACTTTTTATTCTGTCATAAAACAATAGTTTCTATTCATACAAGCTTATTAAAGTAAAAT
** * * * *
16556130 AATATTAATTTATTAATATTTCAACAATTTATAAGTAAAAGATTTAAAAAATAAATATGTTTGCT
450 AATACAAATTTATTAATATTTCAACAATTAATAAGTAAAAAATGTAAAAAATAAATATGTTTACT
* * *
16556195 AATCAAGTTCAAATAGTCATG
515 AAACAAGATCAAATAGTCATC
* * * * *
16556216 ACTATTTGAATAATAATCTATTTCAAATCATCATGAG-CTTTTGTTTTGTAATAAAATAATTACT
1 ACTATTTGAATAATTATCTATTTCAAATCATTATG-GCCTTTTGTTTTGTCATAAAAAAATTATT
*
16556280 TCAATTCATATGAGCCTATTTAAGATAAAATAATA
65 TCAATTCATAT-AGCTTATTTAA-ATAAAATAATA
16556315 TTTCAAAAAT
Statistics
Matches: 528, Mismatches: 85, Indels: 49
0.80 0.13 0.07
Matches are distributed among these distances:
533 10 0.02
534 9 0.02
535 189 0.36
536 13 0.02
537 34 0.06
538 2 0.00
539 38 0.07
540 112 0.21
541 51 0.10
542 68 0.13
543 2 0.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (535 bp):
ACTATTTGAATAATTATCTATTTCAAATCATTATGGCCTTTTGTTTTGTCATAAAAAAATTATTT
CAATTCATATAGCTTATTTAAATAAAATAATAATAAAGTTATTAAAATTTCAAAAATTAATAAGT
AAGAGAATTAAAAAATGAATCTATTTACTGAACAAGTTCAAATAATTATAACTATTTGAACAATT
ATCTATTACAAATCGCTATAACCTTTTGCTTTGTCATAAAAAGATTTTTTCTATTCATACAAGCT
TATTTTGAATAAAATAAGACAAATCTATTAAATTAAGACAATTAAAGTAAAAGATTTAAAAATAA
ATTTGTTTACTAAACAAGTTCAAACTTAAGACTATTTGAACAATTATTTATTTCAAATCATTATG
ACTTTTTATTCTGTCATAAAACAATAGTTTCTATTCATACAAGCTTATTAAAGTAAAATAATACA
AATTTATTAATATTTCAACAATTAATAAGTAAAAAATGTAAAAAATAAATATGTTTACTAAACAA
GATCAAATAGTCATC
Found at i:16556086 original size:179 final size:179
Alignment explanation
Indices: 16555078--16556624 Score: 1099
Period size: 180 Copynumber: 8.7 Consensus size: 179
16555068 AATATTCTAA
* * * * * * **
16555078 AATTAATAATTAAGAGATTTAAAAAATAAAATTGTTTGCCGAACTAGTTCAAATAGTTAAAACTA
1 AATTAATAAGTAAAAGATTT-AAAAATAAATTTGTTTACTGAACAAGTTCAAATAGTTATGACTA
* * * * *
16555143 TATGAATAATTATCTATTTCAAATCATTATAACCTTTTTTGTTTTGTCATAAAACAATATTTTCA
65 TTTGAATAATTATCTATTTCAAATCGTTATGACC--TTTTGTTTTGTCATAAAACAATTTTTTCT
* * * *
16555208 ATTCATACTAGCTTATTTAGAATAAAATAAAATAAATTTATTAAAATTTCAAA-
128 ATTCATACAAGCTTATTT-GAATAAAATAATACAAATTTATTAATATTT-AAAC
* * * * *
16555261 AATTAATAAGTAAGAGAATTAAAAA-ATAATTCTATTTACCT-AACCAGTTCAAATAATTATGAC
1 AATTAATAAGTAAAAGATTTAAAAATA-AATT-TGTTTA-CTGAACAAGTTCAAATAGTTATGAC
* *
16555324 TATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCATAAAACTAATGTTTTT
63 TATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAAC-AAT-TTTTT
* * * * * * *
16555389 GT-TT-ATATAAGTTTGTTTGAAATAAAATAATACTAATCTATTAATATTTCAA-
126 CTATTCATACAAGCTTATTTG-AATAAAATAATACAAATTTATTAATATTTAAAC
* * * * *
16555441 AATTAAT-A--AAAA-TTTTAAAAATAAATTTGTTTA-TCAAACTAGTTC-AA-A-TTAAGATTA
1 AATTAATAAGTAAAAGATTTAAAAATAAATTTGTTTACT-GAACAAGTTCAAATAGTTATGACTA
* * * * * * * * * **
16555498 TTT-AAGTAGTTATTTATTTCAAATCATTATGACTTTTTATTCTGTTATAAGATAATAGTTTCTA
65 TTTGAA-TAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTTTTTCTA
* * ** **
16555562 TTTATTCAAGCTTATTCAAATTAAAATAATACAAATTTATTAATATTTTGAC
129 TTCATACAAGCTTATTTGAA-TAAAATAATACAAATTTATTAATATTTAAAC
* * * * * * * *
16555614 AATTAATAAGTAAAAAATGTAAAAAATTAAATATGTTTACTAAACTAGATCAAACT-GTCATCAC
1 AATTAATAAGTAAAAGAT-TTAAAAA-TAAATTTGTTTACTGAACAAGTTCAAA-TAGTTATGAC
* * * * * * *
16555678 TATTTGAATAGTTATCTATTTCAAATCGTTATGGCCTTTTCTTCTGTCATAAAAAAATTATTTCA
63 TATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTTTTTCT
* * * * *
16555743 ATTCATATAAGCTTATTCGAAATAAAATAATACTAAGTTATTAATATTTTGAA-
128 ATTCATACAAGCTTATTTG-AATAAAATAATACAAATTTATTAATA-TTTAAAC
* * * * * * * * *
16555796 AATTAATAATTAAGAGATTTAAAAAATGAATCTGTTTACTGAATAAGTTTAAATAATTATAATTA
1 AATTAATAAGTAAAAGATTT-AAAAATAAATTTGTTTACTGAACAAGTTCAAATAGTTATGACTA
* ** * * *
16555861 TTTGAATAATTATTTATTAGAAATCGCTATAACCTTTTGCTTTGTCATAAAA-AGATTTTTTCTA
65 TTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACA-ATTTTTTCTA
*
16555925 TTCATACAAGCTTATTTTGAATAAAATAAGACAAATTTATTAA-A-TTAAGAC
129 TTCATACAAGCTTA-TTTGAATAAAATAATACAAATTTATTAATATTTAA-AC
* * * *
16555976 AATTAACAAGTAAAAGATTTAAAAATAAATTTGTTTACTGAACAAGTTTAAATCGTTACGACTAT
1 AATTAATAAGTAAAAGATTTAAAAATAAATTTGTTTACTGAACAAGTTCAAATAGTTATGACTAT
* * * * * *
16556041 TTGAACAATTATTTATTTTAAATTGTTATGACTTTTTGTTTTGTCATAAAACAATTGTTTT-TGT
66 TTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATT-TTTTCTAT
* ** ** *
16556105 TCATACTAGCTTATTTGGGTAAAATAATATTAATTTATTAATATTTCAAC
130 TCATACAAGCTTATTTGAATAAAATAATACAAATTTATTAATATTTAAAC
* * * *
16556155 AATTTATAAGTAAAAGATTTAAAAAATAAATATGTTTGCT-AATCAAGTTCAAATAGTCATGACT
1 AATTAATAAGTAAAAGATTT-AAAAATAAATTTGTTTACTGAA-CAAGTTCAAATAGTTATGACT
* * * * * * ** *
16556219 ATTTGAATAATAATCTATTTCAAATCATCATGAGCTTTTGTTTTGTAATAAAATAATTACTTCAA
64 ATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTTTTTCTA
** * *
16556284 TTCATATGAGCCTA-TT---T--AA-GAT--AAA---A-TAATATTTCAAA-
129 TTCATACAAGCTTATTTGAATAAAATAATACAAATTTATTAATATTT-AAAC
* * * * * * *
16556322 AATGAA-AGAGTAACAGAATTAAAAAAATGAATTT-TCTTATTGATCAAGTTGAAATAGTTATGA
1 AATTAATA-AGTAAAAG-ATT-TAAAAATAAATTTGT-TTACTGAACAAGTTCAAATAGTTATGA
* * * * * * * * **
16556385 CTATCTAAACAATAATCTATTTCAAAACATTATGACATTTTGTTTTGTCATAAACCAATTGGTTC
62 CTATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTTTTTC
* * *
16556450 TATTCATGCAAG-TGTATTTTGAATAAAATAATATAAATTTATTAATATTCCAAA-
127 TATTCATACAAGCT-TA-TTTGAATAAAATAATACAAATTTATTAATATT-TAAAC
* * ** * **
16556504 AATTAATAAGTATAA-TTTTAGAAAATAAAGCTATTTTTTGAACACA-TTCAAATAGTTATGACT
1 AATTAATAAGTAAAAGATTTA-AAAATAAATTTGTTTACTGAACA-AGTTCAAATAGTTATGACT
* * * *
16556567 ATTTGAACAATTATCTATTTCAAATCATTATGACCATTTGTTTTGTCATAAACCAATT
64 ATTTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATT
16556625 GTTTATTCAA
Statistics
Matches: 1075, Mismatches: 222, Indels: 137
0.75 0.15 0.10
Matches are distributed among these distances:
166 1 0.00
167 20 0.02
168 99 0.09
169 1 0.00
170 6 0.01
171 11 0.01
172 81 0.08
173 12 0.01
174 5 0.00
175 15 0.01
176 18 0.02
177 5 0.00
178 35 0.03
179 147 0.14
180 219 0.20
181 168 0.16
182 147 0.14
183 84 0.08
184 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (179 bp):
AATTAATAAGTAAAAGATTTAAAAATAAATTTGTTTACTGAACAAGTTCAAATAGTTATGACTAT
TTGAATAATTATCTATTTCAAATCGTTATGACCTTTTGTTTTGTCATAAAACAATTTTTTCTATT
CATACAAGCTTATTTGAATAAAATAATACAAATTTATTAATATTTAAAC
Found at i:16556289 original size:359 final size:359
Alignment explanation
Indices: 16555045--16556618 Score: 1146
Period size: 348 Copynumber: 4.4 Consensus size: 359
16555035 GATGATTTAT
* * * * *
16555045 AAATTAAATAAAACTAATCTAATAATA-TTCTAAAATTAATAATTAAGAGATTTAAAAAATAAA-
1 AAATAAAATAATACTAATTTATTAATATTTC-AAAATTAATAATTAAAAGATTTAAAAAATAAAT
* * *
16555108 ATTGTTTGC-CGAA-CTAGTTCAAATAGTTAAAACTATATGAATAATTATCTATTTCAAATCATT
65 A-TGTTTGCTC-AATCAAGTTCAAATAGTTAAAACTATTTGAATAATTATCTATTTCAAATCATC
* * *
16555171 ATAACCTTTTTTGTTTTGTCATAAAACAATATTTTCAATTCATACTAGCTTATTTAGAATAAAAT
128 ATAACC--TTTTGTTTTGTCATAAAATAATAGTTTCAATTCATACAAGCTTATTTAGAATAAAAT
* * * *
16555236 AAAATAAATTTATTAAAATTTCAA-A-AATTAATAAGTAAGAGAATTAAAAA-ATAATTCTATTT
191 AAAACAAATTTATT-AAA-TT-AAGACAATTAATAAGTAAAAGATTTAAAAATA-AATT-TGTTT
* ** *
16555298 ACCTAACCAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTT
251 A-CTAACAAGTTCAAATCGTTACGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTT
* * *
16555363 TGTTTTGTCATAAAACTAA-TGTTTTTGTTTATATAAGTTTGTTTG
315 TGTTTTGTCATAAAAC-AATTGTTTTTGTTCATATAAGCTTATTTG
* * *
16555408 AAATAAAATAATACTAATCTATTAATATTTCAAAA-T--TAA-TAAAA-ATTTTAAAAATAAATT
1 AAATAAAATAATACTAATTTATTAATATTTCAAAATTAATAATTAAAAGATTTAAAAAATAAATA
* * * * * * * *
16555468 TGTTT-ATCAAACTAGTTC-AA-A-TTAAGATTATTT-AAGTAGTTATTTATTTCAAATCATTAT
66 TGTTTGCTCAATCAAGTTCAAATAGTTAAAACTATTTGAA-TAATTATCTATTTCAAATCATCAT
* * * * * * * * * * *
16555528 GACTTTTTATTCTGTTATAAGATAATAGTTTCTATTTATTCAAGCTTATTCA-AATTAAAATAAT
130 AACCTTTTGTTTTGTCATAAAATAATAGTTTCAATTCATACAAGCTTATTTAGAA-TAAAATAAA
** * * *
16555592 ACAAATTTATTAATATTTTGACAATTAATAAGTAAAAAATGTAAAAAATTAAATATGTTTACTAA
194 ACAAATTTATTAA-ATTAAGACAATTAATAAGTAAAAGAT-TTAAAAA-TAAATTTGTTTACT-A
* * * * * * * *
16555657 ACTAGATCAAA-CTGTCATC-ACTATTTGAATAGTTATCTATTTCAAATCGTTATGGCCTTTTCT
255 ACAAGTTCAAATC-GTTA-CGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGT
* * * *** *
16555720 TCTGTCATAAAAAAATTATTTCAATTCATATAAGCTTATTCG
318 TTTGTCATAAAACAATTGTTTTTGTTCATATAAGCTTATTTG
* * * *
16555762 AAATAAAATAATACTAAGTTATTAATATTTTGAAAATTAATAATTAAGAGATTTAAAAAATGAAT
1 AAATAAAATAATACTAATTTATTAATA-TTTCAAAATTAATAATTAAAAGATTTAAAAAATAAAT
* * * * * * * * ** *
16555827 CTGTTTACTGAAT-AAGTTTAAATAATTATAATTATTTGAATAATTATTTATTAGAAATC-GCTA
65 ATGTTTGCTCAATCAAGTTCAAATAGTTAAAACTATTTGAATAATTATCTATTTCAAATCATC-A
* ** * *
16555890 TAACCTTTTGCTTTGTCATAAAA-AGATTTTTTCTATTCATACAAGCTTATTTTGAATAAAATAA
129 TAACCTTTTGTTTTGTCATAAAATA-ATAGTTTCAATTCATACAAGCTTATTTAGAATAAAATAA
* *
16555954 GACAAATTTATTAAATTAAGACAATTAACAAGTAAAAGATTTAAAAATAAATTTGTTTACTGAAC
193 AACAAATTTATTAAATTAAGACAATTAATAAGTAAAAGATTTAAAAATAAATTTGTTTACT-AAC
* * * *
16556019 AAGTTTAAATCGTTACGACTATTTGAACAATTATTTATTTTAAATTGTTATGACTTTTTGTTTTG
257 AAGTTCAAATCGTTACGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTG
16556084 TCATAAAACAATTGTTTTTGTTCATACT-AGCTTATTTG
322 TCATAAAACAATTGTTTTTGTTCATA-TAAGCTTATTTG
** * * *
16556122 -GGTAAAATAATATTAATTTATTAATATTTCAACAATTTATAAGTAAAAGATTTAAAAAATAAAT
1 AAATAAAATAATACTAATTTATTAATATTTCAA-AATTAATAATTAAAAGATTTAAAAAATAAAT
* ** *
16556186 ATGTTTGCT-AATCAAGTTCAAATAGTCATGACTATTTGAATAATAATCTATTTCAAATCATCAT
65 ATGTTTGCTCAATCAAGTTCAAATAGTTAAAACTATTTGAATAATTATCTATTTCAAATCATCAT
* * * * ** *
16556250 GAGCTTTTGTTTTGTAATAAAATAATTA-CTTCAATTCATATGAGCCTATTTA-AGATAAAAT--
130 AACCTTTTGTTTTGTCATAAAATAA-TAGTTTCAATTCATACAAGCTTATTTAGA-ATAAAATAA
* * * * * *
16556311 ----AA--TATT---TCAA-A-AATGAA-AGAGTAACAGAATTAAAAAAATGAATTT-TCTTATT
193 AACAAATTTATTAAATTAAGACAATTAATA-AGTAAAAG-ATT-TAAAAATAAATTTGT-TTACT
* * * * * * * *** *
16556363 GATCAAGTTGAAATAGTTATGACTATCTAAACAATAATCTATTTCAAAACATTATGACATTTTGT
254 -AACAAGTTCAAATCGTTACGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGT
* * * * **
16556428 TTTGTCATAAACCAATTGGTTCTATTCATGCAAG-TGTATTTTG
318 TTTGTCATAAAACAATTGTTTTTGTTCATATAAGCT-TA-TTTG
* * * * *
16556471 -AATAAAATAATA-TAAATTTATTAATATTCCAAAAATTAATAAGTATAA-TTTTAGAAAATAAA
1 AAATAAAATAATACT-AATTTATTAATATTTC-AAAATTAATAATTAAAAGATTTAAAAAATAAA
* * ** *
16556533 GCTAT-TTT-TTGAA-CACA-TTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
64 --TATGTTTGCTCAATCA-AGTTCAAATAGTTAAAACTATTTGAATAATTATCTATTTCAAATCA
* * *
16556594 TTATGACCATTTGTTTTGTCATAAA
126 TCATAACCTTTTGTTTTGTCATAAA
16556619 CCAATTGTTT
Statistics
Matches: 972, Mismatches: 187, Indels: 119
0.76 0.15 0.09
Matches are distributed among these distances:
345 1 0.00
346 12 0.01
347 6 0.01
348 177 0.18
349 48 0.05
350 5 0.01
351 4 0.00
352 7 0.01
353 77 0.08
354 118 0.12
355 43 0.04
356 3 0.00
357 4 0.00
358 38 0.04
359 148 0.15
360 122 0.13
361 13 0.01
362 25 0.03
363 114 0.12
364 7 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (359 bp):
AAATAAAATAATACTAATTTATTAATATTTCAAAATTAATAATTAAAAGATTTAAAAAATAAATA
TGTTTGCTCAATCAAGTTCAAATAGTTAAAACTATTTGAATAATTATCTATTTCAAATCATCATA
ACCTTTTGTTTTGTCATAAAATAATAGTTTCAATTCATACAAGCTTATTTAGAATAAAATAAAAC
AAATTTATTAAATTAAGACAATTAATAAGTAAAAGATTTAAAAATAAATTTGTTTACTAACAAGT
TCAAATCGTTACGACTATTTGAACAATTATCTATTTCAAATTGTTATGACCTTTTGTTTTGTCAT
AAAACAATTGTTTTTGTTCATATAAGCTTATTTG
Found at i:16556746 original size:4 final size:4
Alignment explanation
Indices: 16556737--16556795 Score: 52
Period size: 4 Copynumber: 15.2 Consensus size: 4
16556727 ATCAATATTC
* * *
16556737 ATTA ATTA A-TA ATTA ATT- ATTA ATT- ATTC ATTA AATA ATTA ATGA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
*
16556782 TATTA AATA ATTA A
1 -ATTA ATTA ATTA A
16556796 AATATATAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
3 9 0.20
4 32 0.73
5 3 0.07
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (4 bp):
ATTA
Found at i:16557545 original size:17 final size:18
Alignment explanation
Indices: 16557505--16557545 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
16557495 AATATATGAT
*
16557505 TATAATTTTATTATAATA
1 TATAATTTTATCATAATA
16557523 -ATTAATTTT-TCATAATA
1 TA-TAATTTTATCATAATA
16557540 TATAAT
1 TATAAT
16557546 CTTAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TATAATTTTATCATAATA
Found at i:16557673 original size:19 final size:20
Alignment explanation
Indices: 16557643--16557682 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
16557633 TATAATTGAC
16557643 TATTTAAAAATAATAA-ATAT
1 TATTTAAAAAT-ATAATATAT
16557663 TATTT-AAAATATAATATAT
1 TATTTAAAAATATAATATAT
16557682 T
1 T
16557683 TCCCATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 10 0.53
20 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATTTAAAAATATAATATAT
Found at i:16557676 original size:21 final size:21
Alignment explanation
Indices: 16557607--16557678 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
16557597 TAGCTTAATA
*
16557607 ATAATTAATATTAATTATAAATAT
1 ATAATAAATATT-ATT-TAAA-AT
* * *
16557631 ATTATAATTGACTATTTAAAA-
1 ATAATAAAT-ATTATTTAAAAT
16557652 ATAATAAATATTATTTAAAAT
1 ATAATAAATATTATTTAAAAT
16557673 ATAATA
1 ATAATA
16557679 TATTTCCCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
20 10 0.26
21 13 0.33
22 1 0.03
23 4 0.10
24 9 0.23
25 2 0.05
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
ATAATAAATATTATTTAAAAT
Found at i:16558178 original size:15 final size:18
Alignment explanation
Indices: 16558124--16558173 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
16558114 ACAAATATCA
*
16558124 TAATAATATAT-ATTATT
1 TAATATTATATAATTATT
*
16558141 AGAATATTATATAATTATT
1 -TAATATTATATAATTATT
16558160 TAATATTAT-TAATT
1 TAATATTATATAATT
16558174 TTAATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 5 0.18
18 17 0.61
19 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
TAATATTATATAATTATT
Found at i:16558447 original size:16 final size:17
Alignment explanation
Indices: 16558428--16558462 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
16558418 AAATATTATT
16558428 TATAAATAA-TAATATA
1 TATAAATAACTAATATA
*
16558444 TATAAATAACTATTATA
1 TATAAATAACTAATATA
16558461 TA
1 TA
16558463 AGTTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
TATAAATAACTAATATA
Found at i:16558486 original size:27 final size:29
Alignment explanation
Indices: 16558456--16558516 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 29
16558446 TAAATAACTA
16558456 TTATATAAG-T-TATTATTTTAAAAATAG
1 TTATATAAGATATATTATTTTAAAAATAG
* *
16558483 TTATATTAGATAACTATTATTTTATAAATAG
1 TTATATAAGAT-A-TATTATTTTAAAAATAG
16558514 TTA
1 TTA
16558517 ATTTATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.29
28 1 0.04
31 19 0.68
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (29 bp):
TTATATAAGATATATTATTTTAAAAATAG
Found at i:16558645 original size:18 final size:18
Alignment explanation
Indices: 16558634--16558675 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
16558624 ATATTATTTA
16558634 ATAATTAAATATCATATT
1 ATAATTAAATATCATATT
* *
16558652 ATAATTAGATA--ATATC
1 ATAATTAAATATCATATT
16558668 ATAATTAA
1 ATAATTAA
16558676 TGATATTATG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (18 bp):
ATAATTAAATATCATATT
Found at i:16559565 original size:15 final size:15
Alignment explanation
Indices: 16559541--16559576 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
16559531 TCTAGATAAA
16559541 ATAT-ATTATAATAC
1 ATATAATTATAATAC
16559555 ATATAATTATAATAC
1 ATATAATTATAATAC
*
16559570 ATGTAAT
1 ATATAAT
16559577 AACCTAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (15 bp):
ATATAATTATAATAC
Found at i:16559734 original size:13 final size:13
Alignment explanation
Indices: 16559675--16559735 Score: 56
Period size: 13 Copynumber: 4.7 Consensus size: 13
16559665 TAATATTATC
16559675 ATTATAATTAAATA
1 ATTA-AATTAAATA
* *
16559689 TTTATATTTAAAT-
1 ATTA-AATTAAATA
16559702 ATT-AATTCAAATA
1 ATTAAATT-AAATA
16559715 ATT-AATTAAATA
1 ATTAAATTAAATA
16559727 ATTAAATTA
1 ATTAAATTA
16559736 TTTACAAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 3 0.08
12 12 0.30
13 14 0.35
14 11 0.28
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTAAATTAAATA
Found at i:16559795 original size:16 final size:15
Alignment explanation
Indices: 16559774--16559816 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
16559764 TTTTAACTAC
16559774 GTAATTATAATTATAT
1 GTAATTATAATTA-AT
*
16559790 GTAATTATAA-CAAT
1 GTAATTATAATTAAT
*
16559804 ATAATTATAATTA
1 GTAATTATAATTA
16559817 CAATTTCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 11 0.48
15 2 0.09
16 10 0.43
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (15 bp):
GTAATTATAATTAAT
Found at i:16559889 original size:14 final size:15
Alignment explanation
Indices: 16559856--16559896 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
16559846 ATTTATTATT
*
16559856 TAATTATAAATT-AA
1 TAATTATAATTTAAA
16559870 TAATTATAATTTAAA
1 TAATTATAATTTAAA
*
16559885 T-ATTATATTTTA
1 TAATTATAATTTA
16559897 GTATGATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 21 0.88
15 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TAATTATAATTTAAA
Found at i:16560761 original size:27 final size:27
Alignment explanation
Indices: 16560739--16560797 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
16560729 TTTAATTGTT
*
16560739 ATAAATTGGTATTAAATTATAATATTTA
1 ATAAATTGGT-TTAAATAATAATATTTA
* *
16560767 ATTAATTGGTTTAAATAATAATAATTA
1 ATAAATTGGTTTAAATAATAATATTTA
16560794 ATAA
1 ATAA
16560798 GTTTTGTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 18 0.67
28 9 0.33
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (27 bp):
ATAAATTGGTTTAAATAATAATATTTA
Found at i:16561312 original size:17 final size:16
Alignment explanation
Indices: 16561292--16561329 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
16561282 ATTATATTTA
16561292 TAATAATTAATATTAAT
1 TAATAATTAATA-TAAT
*
16561309 TAATTATTAATATAAT
1 TAATAATTAATATAAT
16561325 TAATA
1 TAATA
16561330 TATAATATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATAATTAATATAAT
Found at i:16561319 original size:21 final size:22
Alignment explanation
Indices: 16561276--16561324 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
16561266 TAACTAACAT
*
16561276 TATAATATTATATTTATAATAA
1 TATAATATTATATTAATAATAA
*
16561298 T-TAATATTA-ATTAATTATTAA
1 TATAATATTATATTAA-TAATAA
16561319 TATAAT
1 TATAAT
16561325 TAATATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 4 0.17
21 14 0.61
22 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATAATATTATATTAATAATAA
Found at i:16561756 original size:11 final size:11
Alignment explanation
Indices: 16561740--16561770 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
16561730 TATATAAATT
16561740 ATTTATTAATA
1 ATTTATTAATA
16561751 ATTTATTAATA
1 ATTTATTAATA
16561762 A-TTATTAAT
1 ATTTATTAAT
16561771 GTTTCAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
ATTTATTAATA
Found at i:16561920 original size:16 final size:16
Alignment explanation
Indices: 16561895--16561925 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16561885 TAACGATTTG
16561895 AAATAGATAATTATTC
1 AAATAGATAATTATTC
*
16561911 AAATATATAATTATT
1 AAATAGATAATTATT
16561926 TGTATATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
AAATAGATAATTATTC
Found at i:16562013 original size:30 final size:30
Alignment explanation
Indices: 16561965--16562039 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 30
16561955 TATCATAAAT
16561965 TAATCTAATTAA-TATAATATAACTA-ATAA
1 TAAT-TAATTAATTATAATATAACTACATAA
* * *
16561994 TAATTCATATAATTATAATATAATTACTTAA
1 TAATTAAT-TAATTATAATATAACTACATAA
16562025 TAATTAATTAATTAT
1 TAATTAATTAATTAT
16562040 TATAACATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
28 3 0.08
29 7 0.18
30 19 0.49
31 10 0.26
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (30 bp):
TAATTAATTAATTATAATATAACTACATAA
Found at i:16562228 original size:20 final size:19
Alignment explanation
Indices: 16562203--16562250 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
16562193 AATAAATTAC
16562203 TATTAATAAAT-AATAACATT
1 TATTAATAAATAAAT-A-ATT
*
16562223 TATTAAATTAATAAATAATT
1 TATT-AATAAATAAATAATT
16562243 TATTAATA
1 TATTAATA
16562251 TAAATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 3 0.12
20 11 0.46
21 7 0.29
22 3 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TATTAATAAATAAATAATT
Found at i:16562254 original size:25 final size:24
Alignment explanation
Indices: 16562204--16562266 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
16562194 ATAAATTACT
** *
16562204 ATTAATAAATAATAACATTTATTAA
1 ATTAATAAATAAT-TTATTAATTAA
16562229 ATTAATAAATAATTTATTAATATAA
1 ATTAATAAATAATTTATTAAT-TAA
16562254 ATT-A-AAATAATTT
1 ATTAATAAATAATTT
16562267 TAATTTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 9 0.26
24 6 0.18
25 19 0.56
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTAATAAATAATTTATTAATTAA
Found at i:16562311 original size:17 final size:17
Alignment explanation
Indices: 16562253--16562318 Score: 52
Period size: 17 Copynumber: 4.1 Consensus size: 17
16562243 TATTAATATA
*
16562253 AATTAA-AATAAT-TTT
1 AATTAATAATATTATTT
*
16562268 AATT-TTAATATTA--T
1 AATTAATAATATTATTT
* *
16562282 AATTTAATTATATTGTTT
1 AA-TTAATAATATTATTT
16562300 AATTAATAATATTATTT
1 AATTAATAATATTATTT
16562317 AA
1 AA
16562319 ATTACTTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
14 3 0.08
15 11 0.29
16 6 0.16
17 15 0.39
18 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
AATTAATAATATTATTT
Found at i:16562334 original size:33 final size:30
Alignment explanation
Indices: 16562272--16562349 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 30
16562262 AATTTTAATT
* *
16562272 TTAATATTATAATTT-AATTATATTGTTTAA
1 TTAATAATAT-ATTTAAATTATATTATTTAA
16562302 TTAATAATATTATTTAAATTACTTATTATTTAA
1 TTAATAATA-TATTTAAATTA--TATTATTTAA
*
16562335 ATAA-AATA-ATTTAAA
1 TTAATAATATATTTAAA
16562350 CAATTGTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
30 19 0.46
31 6 0.15
32 4 0.10
33 12 0.29
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TTAATAATATATTTAAATTATATTATTTAA
Found at i:16562725 original size:182 final size:179
Alignment explanation
Indices: 16562342--16562774 Score: 478
Period size: 182 Copynumber: 2.4 Consensus size: 179
16562332 TAAATAAAAT
* * * * * *
16562342 AATTTAAACAATTGTTTTATGACAAAACAAAAGTTCATAATGATTGGAAATAGATAATTGTTTAA
1 AATTGAAACAATTATTTTATGA-TAAA-AAAAGGTCATAATGATTTGAAATAGATAATTGTTCAA
* * * * * *
16562407 ATGGTCATAATTATTTGAACTGATTCGACAAACTGATTTTTGTTTTAAATCTCTAACTTATCAAT
64 ATAGTAAAAAATATTTAAACTGATTCGACAAACTGATTTTTGTTTTAAATCTCTAACTAATCAAT
* *
16562472 TTTTATAATATTAATAAAGTAATATTATTTTATTTCAGATAAGCTTTTACG
129 TTTTATAATATTAATAAAGTAATATTATTTTATTTCAGATAAGCATCTACG
* *
16562523 AATTGAAACAATTATTTTATGATAAAATATAAGGTCATAACGATTTTAAATAGATAATTGTTCAA
1 AATTGAAACAATTATTTTATGATAAAA-A-AAGGTCATAATGATTTGAAATAGATAATTGTTCAA
* * * *
16562588 ATAGTAAAAAATATTTAAACTTATTCGACAAA-TAGATTTTTTTTTTCTAATTTCTAACCTAAT-
64 ATAGTAAAAAATATTTAAACTGATTCGACAAACT-GATTTTTGTTTT-AAATCTCTAA-CTAATC
* * * * *
16562651 AATTTTT-TGAATGTTAATGAATTAGTATTATTTTATTTC-GAATAAGCATCTATG
126 AATTTTTAT-AATATTAATAAAGTAATATTATTTTATTTCAG-ATAAGCATCTACG
* * * *
16562705 AGTTGAAGCAATTATTTTATGACTAAACAAAAGGTCAAAATGATTTGAAATAGATAATTGTTCTA
1 AATTGAAACAATTATTTTATGA-TAAA-AAAAGGTCATAATGATTTGAAATAGATAATTGTTCAA
16562770 ATAGT
64 ATAGT
16562775 CTTAACTATT
Statistics
Matches: 212, Mismatches: 31, Indels: 17
0.82 0.12 0.07
Matches are distributed among these distances:
179 1 0.00
180 5 0.02
181 89 0.42
182 107 0.50
183 9 0.04
184 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.41
Consensus pattern (179 bp):
AATTGAAACAATTATTTTATGATAAAAAAAGGTCATAATGATTTGAAATAGATAATTGTTCAAAT
AGTAAAAAATATTTAAACTGATTCGACAAACTGATTTTTGTTTTAAATCTCTAACTAATCAATTT
TTATAATATTAATAAAGTAATATTATTTTATTTCAGATAAGCATCTACG
Found at i:16563298 original size:23 final size:22
Alignment explanation
Indices: 16563254--16563299 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
16563244 TTTATATAAT
*
16563254 TAAATAATTATATTATTAATTA
1 TAAATAATTATATAATTAATTA
* *
16563276 TAAATAAATTTTATAATTTATTA
1 TAAAT-AATTATATAATTAATTA
16563299 T
1 T
16563300 TTGTAATTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAATAATTATATAATTAATTA
Found at i:16563326 original size:20 final size:20
Alignment explanation
Indices: 16563289--16563327 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
16563279 ATAAATTTTA
*
16563289 TAATTTATTATTTGTAATTG
1 TAATTTATTATATGTAATTG
16563309 TAATTTATATATAT-TAATT
1 TAATTTAT-TATATGTAATT
16563328 AATTAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (20 bp):
TAATTTATTATATGTAATTG
Found at i:16563488 original size:25 final size:29
Alignment explanation
Indices: 16563426--16563489 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 29
16563416 AATTAATTAG
16563426 TTAATAAATATTTATTTAAAGTTATATATAA
1 TTAATAAATA-TTATTTAAAGTTATATAT-A
*
16563457 TTTATAAATA-TA-TTAAA-TTATATAT-
1 TTAATAAATATTATTTAAAGTTATATATA
16563482 TTAATAAA
1 TTAATAAA
16563490 AAAATAGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 7 0.23
27 8 0.26
28 5 0.16
29 2 0.06
31 9 0.29
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
TTAATAAATATTATTTAAAGTTATATATA
Found at i:16563722 original size:27 final size:27
Alignment explanation
Indices: 16563691--16563746 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
16563681 ACATATTTAA
16563691 TTAATATTAAAT-TTATGAA-TATTGATT
1 TTAAT-TTAAATATT-TGAATTATTGATT
*
16563718 TTAATTTAAATATTTTAATTATTGATT
1 TTAATTTAAATATTTGAATTATTGATT
16563745 TT
1 TT
16563747 TATTAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (27 bp):
TTAATTTAAATATTTGAATTATTGATT
Found at i:16563888 original size:19 final size:19
Alignment explanation
Indices: 16563866--16563905 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16563856 ATAACAATTA
16563866 TATTAATAATAATATTAAT
1 TATTAATAATAATATTAAT
* * *
16563885 TATTTATATTAATATTTAT
1 TATTAATAATAATATTAAT
16563904 TA
1 TA
16563906 ATTTATTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATTAATAATAATATTAAT
Found at i:16563900 original size:12 final size:12
Alignment explanation
Indices: 16563863--16563903 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
16563853 CTTATAACAA
*
16563863 TTATATTAATAA
1 TTATATTAATAT
*
16563875 TAATATTAATTAT
1 TTATATTAA-TAT
16563888 TTATATTAATAT
1 TTATATTAATAT
16563900 TTAT
1 TTAT
16563904 TAATTTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTATATTAATAT
Found at i:16564078 original size:31 final size:30
Alignment explanation
Indices: 16564024--16564083 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
16564014 AAAATATTAT
16564024 AATTATAATTATAATATTATATAAAAATAC
1 AATTATAATTATAATATTATATAAAAATAC
* *
16564054 AATTAATAATTTTAAT-TTATTATAATAATA
1 AATT-ATAATTATAATATTA-TATAAAAATA
16564084 TAATAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (30 bp):
AATTATAATTATAATATTATATAAAAATAC
Found at i:16564577 original size:16 final size:16
Alignment explanation
Indices: 16564537--16564578 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
16564527 TTTATATTTA
16564537 ATTAATAAT-TAAATT
1 ATTAATAATATAAATT
*
16564552 ATT-ATAAATATCAATT
1 ATTAAT-AATATAAATT
16564568 ATTAATAATAT
1 ATTAATAATAT
16564579 TTTATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 2 0.09
15 6 0.26
16 13 0.57
17 2 0.09
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTAATAATATAAATT
Found at i:16565866 original size:181 final size:181
Alignment explanation
Indices: 16565426--16566506 Score: 1026
Period size: 181 Copynumber: 6.0 Consensus size: 181
16565416 TAACAAATAC
* * * * ** ** * *
16565426 ATTTATTTTTTAAATCTCTTACTTATTACTTTTT-AGAATATTATTAGTTTAGCAATATTTTACT
1 ATTTATTTTTTAAATATTTTACTTATTAATTTTTGA-AATATTAATAAATTAATATTATTTTATT
* * * * * * *
16565490 CCGAATATGTTTGTATGGATAGAAACAATTGTTTTATGACAAAAC-AAAGATCATACCGATTTGA
65 TCGAATAAGCTTATATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGA
* * * * *
16565554 GATAGATAATTATTCAAA-ATGTCATAGCTATTTGAA-TTGGTCCGATAAACAA
130 AATAGATAATTATTCAAATA-GTCATAACTATTTAAACTT-GTTCGGTAAACAA
* * * ** * * *
16565606 ATATAGTTTTT-AA-A-TCT-CTTATTAATTTTCAAAATATTAATAAATTAGTGTGATTTTATTT
1 ATTTATTTTTTAAATATTTTACTTATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTT
* ** * * * * *
16565667 TGAATAATTTTGTATGAATAGAAACAATTGTTTTATTACAAAAC-GAAGGATTAAAACGATTTGA
66 CGAATAAGCTTATATGAATAGAAACAATTGTTTTATGACAAAACAAAAGG-TCATAACGATTTGA
* * * * *** *
16565731 AATAAATAATTATTTAAATAGTTATAATTATTTAAACTCACTCGTTAAACAA
130 AATAGATAATTATTCAAATAGTCATAACTATTTAAACTTGTTCGGTAAACAA
*
16565783 ATTTATTTTTTAAATATTTTACTTATTAATTTTTGAAATTTTAATAAATTAATATTATTTTATTT
1 ATTTATTTTTTAAATATTTTACTTATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTT
* *
16565848 CGAATAAGCTTTTATGAATAGAAACAATTGGTTTATGACAAAACAAAAGGTCATAACGATTTGAA
66 CGAATAAGCTTATATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAA
* * * **
16565913 ATAGATAATTATTCAAAT-GATCATAATTATTTTGAACGTGTTC-AAAAAGCAA
131 ATAGATAATTATTCAAATAG-TCATAACTA-TTTAAACTTGTTCGGTAAA-CAA
* * * * * * *
16565965 ATTTATTTTATATAT-TTTTACTTATTAATCTTTGGAATATTAGTAAGTTTATATTATTTTATTT
1 ATTTATTTTTTAAATATTTTACTTATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTT
* * *
16566029 -GAAATAAGCTTGTATGAATAGAAACAATTGTTTTATGGCAAAACAAAAGGTCATAACAATTTGA
66 CG-AATAAGCTTATATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGA
* * * * *
16566093 AATAGATAATTGTTCAAATAGTCATAACTATTTGAACTTGTTTGGTAAATAG
130 AATAGATAATTATTCAAATAGTCATAACTATTTAAACTTGTTCGGTAAACAA
* * * * * * *
16566145 ATTCATTTTTT-AA-A-TCT-CTTATTAATTTTTGGAATAGTAATAAGTTAGTATTACTTTATTT
1 ATTTATTTTTTAAATATTTTACTTATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTT
* * * * * ** *
16566206 TGAATAAGCCTATATGAATTGATATAATTGTTTTATGATGAAACAAAAGGTCATAACGATTTAAA
66 CGAATAAGCTTATATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAA
* * * * * *
16566271 ATAGACAATTATTCAGATAGTTATTACTATTTAAACTTGTTTGGTAAACAT
131 ATAGATAATTATTCAAATAGTCATAACTATTTAAACTTGTTCGGTAAACAA
* * *
16566322 ATTTATTTTTTAAATCTTTTACTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTAATT
1 ATTTATTTTTTAAATATTTTACTTATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTT
* * * * *
16566387 CGAATAAGCTAATATGAACAAAAATAATTGTTTTATGACAAAACAAAAGATCATAACGATTTGAA
66 CGAATAAGCTTATATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAA
* * * * * * *
16566452 ATAAATAATTGTTCCAATAGTCATAACTATTCAAAATTATTCGGTAAACAG
131 ATAGATAATTATTCAAATAGTCATAACTATTTAAACTTGTTCGGTAAACAA
16566503 ATTT
1 ATTT
16566507 GAAATAAGCT
Statistics
Matches: 733, Mismatches: 147, Indels: 41
0.80 0.16 0.04
Matches are distributed among these distances:
176 73 0.10
177 202 0.28
178 9 0.01
179 4 0.01
180 36 0.05
181 380 0.52
182 29 0.04
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (181 bp):
ATTTATTTTTTAAATATTTTACTTATTAATTTTTGAAATATTAATAAATTAATATTATTTTATTT
CGAATAAGCTTATATGAATAGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAA
ATAGATAATTATTCAAATAGTCATAACTATTTAAACTTGTTCGGTAAACAA
Found at i:16566257 original size:358 final size:361
Alignment explanation
Indices: 16565503--16566501 Score: 990
Period size: 358 Copynumber: 2.8 Consensus size: 361
16565493 AATATGTTTG
* * * * * * *
16565503 TATGGATAGAAACAATTGTTTTATGACAAAAC-AAAGATCATACCGATTTGAGATAGATAATTAT
1 TATGAATAGAAACAATTGGTTTATGACAAAACAAAAGGTCATAACGATTTAAAATAGACAATTAT
* * * * * * *
16565567 TCAAA-ATGTCATAGCTATTTGAA-TTGGTCCGATAAACAAATATAGTTTT-TAAATC---T-CT
66 TCAAATA-GTCATAACTATTTAAACGTGTTTC-AAAAACAAATTTA-TTTTATAAATCTTTTACT
* * * * **
16565625 TATTAATT-TTCAAAATATTAATAAATTAGTGTGATTTTATTTTGAATAATTTTGTATGAATAGA
128 TATTAATTGTT-GAAATATTAATAAATTAATATTATTTTA-TTTGAATAAGCTTGTATGAATAGA
* * * * * *
16565689 AACAATTGTTTTATTACAAAAC-GAAGGATTAAAACGATTTGAAATAAATAATTATTTAAATAGT
191 AACAATTGTTTTATGACAAAACAAAAGG-TCATAACGATTTGAAATAAATAATTGTTCAAATAGT
* * * * *
16565753 TATAATTATTTAAACTCACTCGTTAAACAAATTTATTTTTTAAATATTTTACTTATTAATTTTTG
255 CATAACTATTTAAACTCACTCGGTAAACAAATTCATTTTTTAAATATTCTACTTATTAATTTTTG
** * * *
16565818 AAATTTTAATAAATTAATATTATTTTATTTCGAATAAGCTTT
320 AAATAGTAATAAATTAATATTACTTTATTTCGAATAAGCCTA
* *
16565860 TATGAATAGAAACAATTGGTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTAT
1 TATGAATAGAAACAATTGGTTTATGACAAAACAAAAGGTCATAACGATTTAAAATAGACAATTAT
* * *
16565925 TCAAAT-GATCATAATTATTTTGAACGTG-TTCAAAAAGCAAATTTATTTTATATAT-TTTTACT
66 TCAAATAG-TCATAACTA-TTTAAACGTGTTTCAAAAA-CAAATTTATTTTATAAATCTTTTACT
* * * *
16565987 TATTAATCT-TTGGAATATTAGTAAGTTTATATTATTTTATTTGAAATAAGCTTGTATGAATAGA
128 TATTAAT-TGTTGAAATATTAATAAATTAATATTATTTTATTTG-AATAAGCTTGTATGAATAGA
* * *
16566051 AACAATTGTTTTATGGCAAAACAAAAGGTCATAACAATTTGAAATAGATAATTGTTCAAATAGTC
191 AACAATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAAATAATTGTTCAAATAGTC
* *** * * * *
16566116 ATAACTATTTGAACTTGTTTGGTAAATAGATTCATTTTTT-AA-A-TCT-CTTATTAATTTTTGG
256 ATAACTATTTAAACTCACTCGGTAAACAAATTCATTTTTTAAATATTCTACTTATTAATTTTTGA
* * *
16566177 AATAGTAATAAGTTAGTATTACTTTATTTTGAATAAGCCTA
321 AATAGTAATAAATTAATATTACTTTATTTCGAATAAGCCTA
* * * * **
16566218 TATGAATTGATATAATTGTTTTATGATGAAACAAAAGGTCATAACGATTTAAAATAGACAATTAT
1 TATGAATAGAAACAATTGGTTTATGACAAAACAAAAGGTCATAACGATTTAAAATAGACAATTAT
* * * * *** * *
16566283 TCAGATAGTTATTACTATTTAAACTTGTTTGGTAAACATATTTATTTTTTAAATCTTTTACTTAT
66 TCAAATAGTCATAACTATTTAAACGTGTTTCAAAAACAAATTTATTTTATAAATCTTTTACTTAT
* ** * * *
16566348 TAATTGTTGAAATATTAATAAATTAATATTATTTTAATTCGAATAAGCTAATATGAACAAAAATA
131 TAATTGTTGAAATATTAATAAATTAATATTATTTT-ATTTGAATAAGCTTGTATGAATAGAAACA
* *
16566413 ATTGTTTTATGACAAAACAAAAGATCATAACGATTTGAAATAAATAATTGTTCCAATAGTCATAA
195 ATTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAAATAATTGTTCAAATAGTCATAA
* * * *
16566478 CTATTCAAAATTATTCGGTAAACA
260 CTATTTAAACTCACTCGGTAAACA
16566502 GATTTGAAAT
Statistics
Matches: 530, Mismatches: 93, Indels: 37
0.80 0.14 0.06
Matches are distributed among these distances:
357 55 0.10
358 305 0.58
359 26 0.05
360 3 0.01
361 7 0.01
362 127 0.24
363 7 0.01
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (361 bp):
TATGAATAGAAACAATTGGTTTATGACAAAACAAAAGGTCATAACGATTTAAAATAGACAATTAT
TCAAATAGTCATAACTATTTAAACGTGTTTCAAAAACAAATTTATTTTATAAATCTTTTACTTAT
TAATTGTTGAAATATTAATAAATTAATATTATTTTATTTGAATAAGCTTGTATGAATAGAAACAA
TTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAAATAATTGTTCAAATAGTCATAAC
TATTTAAACTCACTCGGTAAACAAATTCATTTTTTAAATATTCTACTTATTAATTTTTGAAATAG
TAATAAATTAATATTACTTTATTTCGAATAAGCCTA
Found at i:16566830 original size:181 final size:179
Alignment explanation
Indices: 16566509--16567143 Score: 612
Period size: 181 Copynumber: 3.6 Consensus size: 179
16566499 ACAGATTTGA
* * * * * * * ** * *
16566509 AATAAGCTTGTATGGATAGAAAAAAATATTTTATGACAATACAAAAGGTTATAGTATTTTGAACT
1 AATAAGCTTATATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTTATAACAATTTGAAAT
* * * *
16566574 AGATAATTGTTTAAATAGCTATAATTATTTGAACTTGTTC-GATAAACAGATTCATTTTTTAAAT
66 AGATAATTGTTCAAATAGTTATAATTATTTGAACTAG-TCAGACAAACAGATTCATTTTTTAAAT
* *
16566638 CTCTCACTTATTAATTTTTGGAATATTAATAAATTAGAATTATTTTATTTTG
130 CTCTTACTTATTAATTTTT-GAATATTAATAAATTAG-ATTATTTTATTTCG
* * * * *
16566690 AGTAAGCTTGTATGAACAGAAACAATTGTTTTGTGAGAAAACAAAAGCTTATAACAATTTGAAAT
1 AATAAGCTTATATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTTATAACAATTTGAAAT
* * * * *
16566755 AGATAATTGTTCAAATAGTTATAATTTTTTGCACTAGTCAAGCCAAA-AGATACATTTTCTAAAT
66 AGATAATTGTTCAAATAGTTATAATTATTTGAACTAGTC-AGACAAACAGATTCATTTTTTAAAT
** *
16566819 C-CATTACTTATTAATTTTCAAAATATTAATAAATTAGCATTACTTTA-TTCG
130 CTC-TTACTTATTAATTTT-TGAATATTAATAAATTAG-ATTATTTTATTTCG
* * * * *
16566870 AATAAGATTATATGAATAG-AACAATTGTTTTATGATAAAACAAATGGTCATAA-AATTTGAAAT
1 AATAAGCTTATATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTTATAACAATTTGAAAT
* * * * * * * *
16566933 AAATATTTGGTCAAATAGTTATAACTAATTGAACTGGT-ATGGCAAACAGATTTATTTTTTAAAT
66 AGATAATTGTTCAAATAGTTATAATTATTTGAACTAGTCA-GACAAACAGATTCATTTTTTAAAT
* * * *
16566997 CTCTTACGTATTAATTTTTGAA-A-T-ATTAA-T--ATTATTTTATTCCA
130 CTCTTACTTATTAATTTTTGAATATTAATAAATTAGATTATTTTATTTCG
* * * * *
16567041 AACAAACTTATATGAACAAAAACATTTGTTTTATGACAAAACAAAAGGTAATAACAATTTGAAAT
1 AATAAGCTTATATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTTATAACAATTTGAAAT
* * *
16567106 AGATAATTATTCAAATAGTCATAATTATTTGAAATAGT
66 AGATAATTGTTCAAATAGTTATAATTATTTGAACTAGT
16567144 TTTGTAAACA
Statistics
Matches: 369, Mismatches: 75, Indels: 28
0.78 0.16 0.06
Matches are distributed among these distances:
170 8 0.02
171 16 0.04
172 30 0.08
173 40 0.11
174 4 0.01
175 1 0.00
176 2 0.01
177 7 0.02
178 69 0.19
179 30 0.08
180 21 0.06
181 137 0.37
182 4 0.01
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.39
Consensus pattern (179 bp):
AATAAGCTTATATGAACAGAAACAATTGTTTTATGACAAAACAAAAGGTTATAACAATTTGAAAT
AGATAATTGTTCAAATAGTTATAATTATTTGAACTAGTCAGACAAACAGATTCATTTTTTAAATC
TCTTACTTATTAATTTTTGAATATTAATAAATTAGATTATTTTATTTCG
Found at i:16567011 original size:178 final size:182
Alignment explanation
Indices: 16566617--16567143 Score: 526
Period size: 178 Copynumber: 3.0 Consensus size: 182
16566607 CTTGTTCGAT
* * *
16566617 AAACAGATTCATTTTTTAAATCTCTCACTTATTAATTTTTGGAATATTAATAAATTAGAATTATT
1 AAACAGATTCATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGAATTACT
* * * * * *
16566682 TTATTTTGAGTAAGCTTGTATGAACAGAAACAATTGTTTTGTGAGAAAACAAAAGCTTATAACAA
66 TTATTTCGAATAAGATTATATGAACAGAAACAATTGTTTTATGAGAAAACAAAAGCTCATAACAA
* * * ** *
16566747 TTTGAAATAGATAATTGTTCAAATAGTTATAATTTTTTGCACTAGTCAAGCC
131 TTTGAAATAAATAATTGGTCAAATAGTTATAACTAATTGAACTAGTCAAGCC
* * ** *
16566799 AAA-AGATACATTTTCTAAATC-CATTACTTATTAATTTTCAAAATATTAATAAATTAGCATTAC
1 AAACAGATTCATTTTTTAAATCTC-TTACTTATTAATTTTTGAAATATTAATAAATTAGAATTAC
* * * *
16566862 TTTA-TTCGAATAAGATTATATGAATAG-AACAATTGTTTTATGATAAAACAAATGGTCATAA-A
65 TTTATTTCGAATAAGATTATATGAACAGAAACAATTGTTTTATGAGAAAACAAAAGCTCATAACA
* * * *
16566924 ATTTGAAATAAATATTTGGTCAAATAGTTATAACTAATTGAACTGGT-ATGGC
130 ATTTGAAATAAATAATTGGTCAAATAGTTATAACTAATTGAACTAGTCAAGCC
* *
16566976 AAACAGATTTATTTTTTAAATCTCTTACGTATTAATTTTTGAAATATTAAT--ATT---A-T--T
1 AAACAGATTCATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGAATTACT
* * * * * * * *
16567033 TTATTCCAAACAA-ACTTATATGAACAAAAACATTTGTTTTATGACAAAACAAAAGGTAATAACA
66 TTATTTCGAATAAGA-TTATATGAACAGAAACAATTGTTTTATGAGAAAACAAAAGCTCATAACA
* ** * * * *
16567097 ATTTGAAATAGATAATTATTCAAATAGTCATAATTATTTGAAATAGT
130 ATTTGAAATAAATAATTGGTCAAATAGTTATAACTAATTGAACTAGT
16567144 TTTGTAAACA
Statistics
Matches: 286, Mismatches: 52, Indels: 23
0.79 0.14 0.06
Matches are distributed among these distances:
170 5 0.02
171 16 0.06
172 31 0.11
173 40 0.14
176 3 0.01
177 6 0.02
178 79 0.28
179 30 0.10
180 19 0.07
181 54 0.19
182 3 0.01
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (182 bp):
AAACAGATTCATTTTTTAAATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGAATTACT
TTATTTCGAATAAGATTATATGAACAGAAACAATTGTTTTATGAGAAAACAAAAGCTCATAACAA
TTTGAAATAAATAATTGGTCAAATAGTTATAACTAATTGAACTAGTCAAGCC
Found at i:16567123 original size:16 final size:17
Alignment explanation
Indices: 16567102--16567134 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16567092 TAACAATTTG
16567102 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
16567118 AAATAGTCATAATTATT
1 AAATAG-CATAATTATT
16567135 TGAAATAGTT
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:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:16567142 original size:19 final size:18
Alignment explanation
Indices: 16567097--16567143 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
16567087 GGTAATAACA
16567097 ATTTGAAATAG-ATAATT
1 ATTTGAAATAGTATAATT
*
16567114 A-TTCAAATAGTCATAATT
1 ATTTGAAATAGT-ATAATT
16567132 ATTTGAAATAGT
1 ATTTGAAATAGT
16567144 TTTGTAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 8 0.32
17 1 0.04
18 7 0.28
19 9 0.36
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (18 bp):
ATTTGAAATAGTATAATT
Found at i:16567692 original size:180 final size:180
Alignment explanation
Indices: 16567160--16569160 Score: 1608
Period size: 180 Copynumber: 11.2 Consensus size: 180
16567150 AACAGAATTG
* * * **
16567160 TTATGACTTTTTGTTTTGTAATAAAACAATTGTTTCTGTTCATACAAGCTTATTC-AATTAAAAT
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAAAAAAAT
* ** * * *
16567224 AATATTAATTTATTAATATTTTGACAATTAATAAGTGAAAGATTTAAAAAATAAATATGTTTACC
66 AATACTAATTTATTAATATTTCAAAAATTAATAAAT-AAAGATTTAAAAAATAAATATGTTTATC
* * * * * *
16567289 AAACAAGTTCAAATAATCAAGACTATTTGAATAATTATCTATTTCAAATAA
130 GAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * * * * * * *
16567340 TTGTGACATTCTATTTTGTAATAAAATAACTATTTC-AGTTAACATA-AA-CTTATTTGAAATAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-TT--CATACAAGCTTATTCGAAAAAA
* ** * * *
16567402 AATAGCT-CTAATTTATTAATATACCAAAAATTAATGAGTAAGAGAATTATAAAAAAAAATGAAT
63 AATA-ATACTAATTTATTAATATTTCAAAAATTAATAAATAA-AG-ATT-T---AAAAAATAAAT
* * * *
16567466 ATGTTTA-CGAACAAGTTCAAATAGTTATGACTATCTAAATAATTATCTATTTCAAAACA
121 ATGTTTATCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * *
16567525 TTATGACCATTTGTTTTGTCATAAAATAATTGGTTCTATTCATGCAAGCTTATTTCGAAAAAATA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTA-TTCGAAAAAA-A
* * * * * *
16567590 ATAATA-AAATTTATTAAAACTCCAAAAATTAATAAATAAAAATTTAAAAAATAAATATGTTTTT
64 ATAATACTAATTTATTAATATTTCAAAAATTAATAAATAAAGATTTAAAAAATAAATATGTTTAT
* *
16567654 TGAACACA-TTC-AATAGTTATGACTATTTGAACAATTATCTATTTCAAATCG
129 CGAACA-AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
** * *
16567705 TTATGACAATTTGTTTTGTCATAAACCAATTATTTCTATTCATACAAGCTTATTC-AAAATAAAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAAA-AAAA
* * * * *
16567769 TAATATTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAATAATAAATTTGTTTAT
65 TAATACTAATTTATTAATATTTCAAAAATTAATAAAT-AAAGATTTAAAAAATAAATATGTTTAT
* * * *
16567834 CGAGCAAGTTCAAATAGTTATTACTATTTGAACAATTATATATTTCAAATCT
129 CGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * * *
16567886 TTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGGAATAAAAT
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAAAAAAAT
* * * *
16567951 AATACTAATTTATTATTA-TTCTAAAAATTAATAAGTTAGAGATTTAAAAAATAAATTTGTTTAT
66 AATACTAATTTATTAATATTTC-AAAAATTAATAA-ATAAAGATTTAAAAAATAAATATGTTTAT
* * * * *** *
16568015 CGAACAAGTTTAAATAGTCATGTCCATTTGAATTGTTATTTATTTCAAATCA
129 CGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * * * ** *
16568067 TTATGACATTTTGTTTTATTATAAAATAATTATTTTTATTCATACAAAATTATTC-AGAATAAAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGA-AAAAAAA
* * * *
16568131 TAATACCAATTTATTACTATTTCAAAAA-T--T-AATAAGGATTT-AAAAATAAATGTGTTT-TC
65 TAATACTAATTTATTAATATTTCAAAAATTAATAAATAAAGATTTAAAAAATAAATATGTTTATC
* * * *
16568190 GAAGCAA-TTCAAATAGTTAAGACTA-TTAAACAATTATCTATTCCAAATTA
130 GAA-CAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * * * * * *
16568240 TTCTGATCTTTTGTTTAGTCAAAAAATAATTGTTTC-AGTTCATACATGCTTATTCGAAATATAG
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTA-TTCATACAAGCTTATTCGAAAAAAAA
* * * * * *
16568304 TAATACTAATTTATTAAAATTT-AGAATATTAAT-AA-GAA-ATTT-AAAAA-AAATCTATTTAC
65 TAATACTAATTTATTAATATTTCA-AAAATTAATAAATAAAGATTTAAAAAATAAATATGTTTAT
* * *
16568363 CGAATAAGTTCAAATAGTTAAGACTATTTGAACAATTATCTATTTAAAATCA
129 CGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * * * * * *
16568415 TTATGAGCTTTTATTTTATCATAAAACAATCGTTTCAATACATAAAAG-TTTTTCCAAAATAAAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAAA-AAAA
* *** * * ** *
16568479 TAATATTGCCTTATTAATATTTCAAAAATTAAGAAGTTGGAGTTTTAAAAAATAAATCA-GTTTA
65 TAATACTAATTTATTAATATTTCAAAAATTAATAA-ATAAAGATTTAAAAAATAAAT-ATGTTTA
* ** * * * *
16568543 TCAAATTA-TTCAAATAATTATGGCCATTTGAATAATTATCTATTTCAAATCA
128 TCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * *
16568595 TTATGAACTTTTGTTTTGTCATAAAACAATTGTTTTTCA-TCATACAAGCCTATTTGGAAAAAAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT-ATTCATACAAGCTTATTCGAAAAAAAA
* * * *
16568659 TAATACTAATTTACTAATATTTCAAAAATTAAT--A-AAAGATTTAAAAAGTTAATCT-TTTA-C
65 TAATACTAATTTATTAATATTTCAAAAATTAATAAATAAAGATTTAAAAAATAAATATGTTTATC
* * **
16568719 TGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAATTG
130 -GAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * * *
16568771 TTATAACCTTTTGTTATCTCATAAAA-AATTATTTCTATTCACACAAGTTTATTC-AAAATAAAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAAA-AAAA
* * * * *
16568834 TAATACTAATATAATAATA-TTCTGAAAATTAATAACTAAGAGATTTAAAAAATAAATTTGTTTA
65 TAATACTAATTTATTAATATTTC-AAAAATTAATAAATAA-AGATTTAAAAAATAAATATGTTTA
* * * * * * * **
16568898 -CTGAACTAGTTCAAATATTTAAGGCTATATG-ACAATTCTTTATTTCAAATTG
128 TC-GAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
* * * * * *
16568950 TTATGACCTTTTGTTTT-TCGTAAAACAATT-TTTTTCATTTCTTAGTAA-CTTATTCGGAATAA
1 TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCT-A-TTCATA-CAAGCTTATTCGAAAAAA
* * * * ** * *
16569012 AGTAAAACAAATTTATTAATATTTCAAAACTTAATAAGCAAGAGATTTAAAAAACAATTCA-GTT
63 AATAATACTAATTTATTAATATTTCAAAAATTAATAAATAA-AGATTTAAAAAATAAAT-ATGTT
** * * *
16569076 TGCCTAACCAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCA
126 TATCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
** *
16569131 TTATGTTCTTTTATTTTGTCATAAAACAAT
1 TTATGACCTTTTGTTTTGTCATAAAACAAT
16569161 ATTAATTTAT
Statistics
Matches: 1453, Mismatches: 296, Indels: 142
0.77 0.16 0.08
Matches are distributed among these distances:
172 2 0.00
173 96 0.07
174 67 0.05
175 158 0.11
176 86 0.06
177 1 0.00
178 27 0.02
179 89 0.06
180 395 0.27
181 360 0.25
182 26 0.02
183 5 0.00
184 5 0.00
185 78 0.05
186 54 0.04
187 4 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (180 bp):
TTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATTCGAAAAAAAAT
AATACTAATTTATTAATATTTCAAAAATTAATAAATAAAGATTTAAAAAATAAATATGTTTATCG
AACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATCA
Found at i:16568105 original size:20 final size:20
Alignment explanation
Indices: 16568080--16568120 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
16568070 TGACATTTTG
16568080 TTTTATT-ATAAAATAATTAT
1 TTTTATTCATAAAA-AATTAT
*
16568100 TTTTATTCATACAAAATTAT
1 TTTTATTCATAAAAAATTAT
16568120 T
1 T
16568121 CAGAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTATTCATAAAAAATTAT
Found at i:16569027 original size:710 final size:712
Alignment explanation
Indices: 16567160--16569160 Score: 1768
Period size: 710 Copynumber: 2.8 Consensus size: 712
16567150 AACAGAATTG
* * * * * *
16567160 TTATG-ACTTTTTGTTTTGTAATAAAACAATTGTTTCTGTTCATACAAGCTTA-TT-CAATTAAA
1 TTATGAAC-TTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGCCTATTTGGAA-AAAA
* * * * * * *
16567222 ATAATATTAATTTATTAATATTTTGACAATTAATAAGTGAAAGATTTAAAAAATAAATATGTTTA
64 ATAATACTAATTTACTAATATTCTAAAAATTAATAA-T-AGAGATTTAAAAAATAAATCTGTTTA
* * * * * * * * * * *
16567287 CCAAACAAGTTCAAATAATCAAGACTATTTGAATAATTATCTATTTCAAATAATTGTGACATTCT
127 TCGAACAAGTTCAAATAGTCATGACCATTTGAACAATTATATATTTCAAATCATTATAACATTTT
* * * * * * * * ** * * *
16567352 ATTTTGTAATAAAATAACTATTTC-AGTTAACATAAACTTATTTGAAATAAAATAGCT-CTAATT
192 GTTATATCATAAAATAATTATTTCTA-TTCACACAAAATTATTCAAAATAAAATA-ATACCAATA
* ** * *
16567415 TATTAATATACCAAAAATTAATGAGTAAGAGAATTATAAAAAAAAATGAATATGTTTACGAA-CA
255 TAATAATATTTC-AAAA--AAT-AATAAG-G-ATT-TAAAAATAAATG----TGTTTACGAAGCA
* * * ** * *
16567479 AGTTCAAATAGTTATGACTATCTAAATAATTATCTATTTCAAAACATTATGACCATTTGTTTTGT
309 A-TTCAAATAGTTAAGACTAT-TAAACAATTATCTATTCCAAATTATTATGACCTTTTGTTTAGT
* * * * *
16567544 CATAAAATAATTGGTTCTA-TTCATGCA-AGCTTATTTCGAAA-AAA-TAATAATAAAATTTATT
372 CAAAAAACAATTGTTTC-AGTTCATACATA-CTTA-TTCGAAATAAAGTAA-AA-CAAATTTATT
* * * * * * * ***
16567605 AAAACTCCAAAAATTAATAA-ATAAAAATTTAAAAAATAAAT-ATGTTTTTTGAACACA-TTC-A
432 AAAATTTCAAAACTTAATAAGA-AGAGATTTAAAAAACAATTCA-GTTTACCGAACA-AGTTCAA
* * * *
16567666 ATAGTTATGACTATTTGAACAATTATCTATTTCAAATCGTTATGACAATTTGTTTTGTCATAAAC
494 ATAGTTATGACTATTTGAACAATTATCTATTTCAAATCATTATGAC-TTTTATTTTGTCATAAAA
* * * * * *
16567731 CAATTATTTCTATTCATACAAGCTTATTCAAAATAAAATAATATTAATTTATTAATATTTCTAAA
558 CAATCATTTCAATACATAAAAGCTTATTCAAAATAAAATAATATTAACTTATTAATATTTCAAAA
* * ** * * * * *
16567796 ATTAATAAGTAAAAGATTTAAATAATAAATTTGTTTATCGAGCAAGTTCAAATAGTTATTACTAT
623 ATTAAGAAGTAAAAGATTTAAAAAATAAATCAGTTTATCAAACAAGTTCAAATAATTATGACCAT
*
16567861 TTGAACAATTATATATTTCAAATCT
688 TTGAACAATTATATATTTCAAATCA
* ** *
16567886 TTATGATCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGGAATAAAAT
1 TTATGAACTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGCCTATTTGGAAAAAAAT
* * *
16567951 AATACTAATTTATTATTATTCTAAAAATTAATAAGTTAGAGATTTAAAAAATAAATTTGTTTATC
66 AATACTAATTTACTAATATTCTAAAAATTAATAA--TAGAGATTTAAAAAATAAATCTGTTTATC
* * *** * *
16568016 GAACAAGTTTAAATAGTCATGTCCATTTGAATTGTTATTTATTTCAAATCATTATGACATTTTGT
129 GAACAAGTTCAAATAGTCATGACCATTTGAACAATTATATATTTCAAATCATTATAACATTTTGT
* * * * * * *
16568081 TTTATTATAAAATAATTATTTTTATTCATACAAAATTATTCAGAATAAAATAATACCAATTTATT
194 TATATCATAAAATAATTATTTCTATTCACACAAAATTATTCAAAATAAAATAATACCAATATAAT
* * *
16568146 ACTATTTCAAAAATTAATAAGGATTTAAAAATAAATGTGTTTTCGAAGCAATTCAAATAGTTAAG
259 AATATTTCAAAAAATAATAAGGATTTAAAAATAAATGTGTTTACGAAGCAATTCAAATAGTTAAG
* * *
16568211 ACTATTAAACAATTATCTATTCCAAATTATTCTGATCTTTTGTTTAGTCAAAAAATAATTGTTTC
324 ACTATTAAACAATTATCTATTCCAAATTATTATGACCTTTTGTTTAGTCAAAAAACAATTGTTTC
* * * *
16568276 AGTTCATACATGCTTATTCGAAATATAGTAATACTAATTTATTAAAATTT-AGAATA-TTAATAA
389 AGTTCATACATACTTATTCGAAATAAAGTAAAACAAATTTATTAAAATTTCA-AA-ACTTAATAA
* *
16568339 G-A-A-ATTTAAAAAA-AA-TCTA-TTTACCGAATAAGTTCAAATAGTTAAGACTATTTGAACAA
452 GAAGAGATTTAAAAAACAATTC-AGTTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAA
* * *
16568398 TTATCTATTTAAAATCATTATGAGCTTTTATTTTATCATAAAACAATCGTTTCAATACATAAAAG
516 TTATCTATTTCAAATCATTATGA-CTTTTATTTTGTCATAAAACAATCATTTCAATACATAAAAG
* ** *** *
16568463 -TTTTTCCAAAATAAAATAATATTGCCTTATTAATATTTCAAAAATTAAGAAGTTGGAGTTTTAA
580 CTTATT-CAAAATAAAATAATATTAACTTATTAATATTTCAAAAATTAAGAAGTAAAAGATTTAA
** * * *
16568527 AAAATAAATCAGTTTATCAAATTA-TTCAAATAATTATGGCCATTTGAATAATTATCTATTTCAA
644 AAAATAAATCAGTTTATCAAACAAGTTCAAATAATTATGACCATTTGAACAATTATATATTTCAA
16568591 ATCA
709 ATCA
* *
16568595 TTATGAACTTTTGTTTTGTCATAAAACAATTGTTTTTCA-TCATACAAGCCTATTTGGAAAAAAA
1 TTATGAACTTTTGTTTTGTCATAAAACAATTGTTTCT-ATTCACACAAGCCTATTTGGAAAAAAA
* *
16568659 TAATACTAATTTACTAATATT-TCAAAAATTAATAA-A-AGATTTAAAAAGTTAATCT-TTTA-C
65 TAATACTAATTTACTAATATTCT-AAAAATTAATAATAGAGATTTAAAAAATAAATCTGTTTATC
* * * ** *
16568719 TGAACCAGTTCAAATAGTTATGACTATTTGAACAATTATATATTTCAAATTGTTATAACCTTTTG
129 -GAACAAGTTCAAATAGTCATGACCATTTGAACAATTATATATTTCAAATCATTATAACATTTTG
* ** *
16568784 TTATCTCATAAAA-AATTATTTCTATTCACACAAGTTTATTCAAAATAAAATAATACTAATATAA
193 TTATATCATAAAATAATTATTTCTATTCACACAAAATTATTCAAAATAAAATAATACCAATATAA
* * *
16568848 TAATATTCTGAAAATTAATAACTAAGAGATTTAAAAAATAAATTTGTTTACTGAA-CTAGTTCAA
258 TAATATT-TCAAAA--AATAA-TAAG-GATTT-AAAAATAAATGTGTTTAC-GAAGC-AATTCAA
* * * * * * * * **
16568912 ATATTTAAGGCTA-TATGACAATTCTTTATTTCAAATTGTTATGACCTTTTGTTT-TTCGTAAAA
315 ATAGTTAAGACTATTA-AACAATTATCTATTCCAAATTATTATGACCTTTTGTTTAGTCAAAAAA
* * * * * *
16568975 CAATTTTTTTCATTTCTTA-GTAACTTATTCGGAATAAAGTAAAACAAATTTATTAATATTTCAA
379 CAA-TTGTTTCAGTTCATACAT-ACTTATTCGAAATAAAGTAAAACAAATTTATTAAAATTTCAA
* * * *
16569039 AACTTAATAAGCAAGAGATTTAAAAAACAATTCAGTTTGCCTAACCAGTTCAAATAATTATGACT
442 AACTTAATAAG-AAGAGATTTAAAAAACAATTCAGTTTACCGAACAAGTTCAAATAGTTATGACT
*
16569104 ATTTGAACAATTATCTATTTCAAATCATTATGTTCTTTTATTTTGTCATAAAACAAT
506 ATTTGAACAATTATCTATTTCAAATCATTATG-ACTTTTATTTTGTCATAAAACAAT
16569161 ATTAATTTAT
Statistics
Matches: 1051, Mismatches: 180, Indels: 98
0.79 0.14 0.07
Matches are distributed among these distances:
703 50 0.05
704 70 0.07
705 16 0.02
706 5 0.00
707 4 0.00
708 7 0.01
709 168 0.16
710 249 0.24
711 13 0.01
712 2 0.00
713 3 0.00
714 40 0.04
715 68 0.06
716 109 0.10
717 3 0.00
720 11 0.01
721 3 0.00
722 1 0.00
723 5 0.00
724 2 0.00
726 50 0.05
727 168 0.16
728 4 0.00
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (712 bp):
TTATGAACTTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGCCTATTTGGAAAAAAAT
AATACTAATTTACTAATATTCTAAAAATTAATAATAGAGATTTAAAAAATAAATCTGTTTATCGA
ACAAGTTCAAATAGTCATGACCATTTGAACAATTATATATTTCAAATCATTATAACATTTTGTTA
TATCATAAAATAATTATTTCTATTCACACAAAATTATTCAAAATAAAATAATACCAATATAATAA
TATTTCAAAAAATAATAAGGATTTAAAAATAAATGTGTTTACGAAGCAATTCAAATAGTTAAGAC
TATTAAACAATTATCTATTCCAAATTATTATGACCTTTTGTTTAGTCAAAAAACAATTGTTTCAG
TTCATACATACTTATTCGAAATAAAGTAAAACAAATTTATTAAAATTTCAAAACTTAATAAGAAG
AGATTTAAAAAACAATTCAGTTTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATC
TATTTCAAATCATTATGACTTTTATTTTGTCATAAAACAATCATTTCAATACATAAAAGCTTATT
CAAAATAAAATAATATTAACTTATTAATATTTCAAAAATTAAGAAGTAAAAGATTTAAAAAATAA
ATCAGTTTATCAAACAAGTTCAAATAATTATGACCATTTGAACAATTATATATTTCAAATCA
Found at i:16569173 original size:143 final size:143
Alignment explanation
Indices: 16569021--16569278 Score: 358
Period size: 143 Copynumber: 1.8 Consensus size: 143
16569011 AAGTAAAACA
* * ** *
16569021 AATTTATTAATA-TTTCAAAACTTAATAAGCAAGAGATTTAAAAAACAATTCAGTTTGCCT-AAC
1 AATTTATTAATATTTTCAAAA-TTAAGAAGCAAGAAATTTAAAAAACAAAACAGTTT-ACTAAAC
*
16569084 CAGTTCAAATAATTATGACTATTTGAACAATTATCTATTTCAAATCATTATGTTCTTTTATTTTG
64 CAGTTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATCATTATGTTCTTTTATTTTG
16569149 TCATAAAACAATATT
129 TCATAAAACAATATT
* * ** *
16569164 AATTTATTAATATTTTGAAAATTAAGAAGTAAGAAATTTAAAAAGTAAAACTGTTTACTAAACCA
1 AATTTATTAATATTTTCAAAATTAAGAAGCAAGAAATTTAAAAAACAAAACAGTTTACTAAACCA
* * *
16569229 GTTCAATTAGTTATAACTATTTGAACAATTATTTATTTCAAATCATTATG
66 GTTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATCATTATG
16569279 ACCATTTGTA
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
142 2 0.02
143 90 0.91
144 7 0.07
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (143 bp):
AATTTATTAATATTTTCAAAATTAAGAAGCAAGAAATTTAAAAAACAAAACAGTTTACTAAACCA
GTTCAAATAATTATAACTATTTGAACAATTATCTATTTCAAATCATTATGTTCTTTTATTTTGTC
ATAAAACAATATT
Done.