Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 63 of 163
Found at i:16036594 original size:185 final size:185
Alignment explanation
Indices: 16036277--16036652 Score: 698
Period size: 185 Copynumber: 2.0 Consensus size: 185
16036267 TGATAAGACC
16036277 ATTTGCATTTCTGATTACAACTCCTGAAAAGATTGTTTAGTAGCAAGAATGTAAGAAGTGTCAAA
1 ATTT-CATTTCTGATTACAACTCCTGAAAAGATTGTTTAGTAGCAAGAATGTAAGAAGTGTCAAA
* * *
16036342 ATTAATTTTGACAGAACCCCGTGATGGAGGGTTCTAGTGGTCAGATCTGATAGTGCTCGGTTTAT
65 ATTAATTTTGACAGAACCCCGTGATGGAGGGTTCCAGTGGTCAAATCTGATAGTGCTCGATTTAT
*
16036407 GTTTCATAGATGATAGAGAATCAAACTCTTGCAAGTATGCAGTCACAAAACAACAA
130 GTTTCATAGATGATAGAGAATCAAACTCTTGCAAGTATCCAGTCACAAAACAACAA
16036463 ATTTCATTTCTGATTACAACTCCTGAAAAGATTGTTTAGTAGCAAGAATGTAAGAAGTGTCAAAA
1 ATTTCATTTCTGATTACAACTCCTGAAAAGATTGTTTAGTAGCAAGAATGTAAGAAGTGTCAAAA
*
16036528 TTAATTTTGACAGGACCCCGTGATGGAGGGTTCCAGTGGTCAAATCTGATAGTGCTCGATTTATG
66 TTAATTTTGACAGAACCCCGTGATGGAGGGTTCCAGTGGTCAAATCTGATAGTGCTCGATTTATG
16036593 TTTCATAGATGATAGAGAATCAAACTCTTGCAAGTATCCAGTCACAAAACAACAA
131 TTTCATAGATGATAGAGAATCAAACTCTTGCAAGTATCCAGTCACAAAACAACAA
16036648 ATTTC
1 ATTTC
16036653 CTGGCTCATT
Statistics
Matches: 185, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
185 181 0.98
186 4 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (185 bp):
ATTTCATTTCTGATTACAACTCCTGAAAAGATTGTTTAGTAGCAAGAATGTAAGAAGTGTCAAAA
TTAATTTTGACAGAACCCCGTGATGGAGGGTTCCAGTGGTCAAATCTGATAGTGCTCGATTTATG
TTTCATAGATGATAGAGAATCAAACTCTTGCAAGTATCCAGTCACAAAACAACAA
Found at i:16038147 original size:111 final size:111
Alignment explanation
Indices: 16037966--16038190 Score: 450
Period size: 111 Copynumber: 2.0 Consensus size: 111
16037956 AATGTAGAAG
16037966 ATAATCAAATTATTTATTTCGTTAATAATATTTTAACAGATTAAGTTTAAAAATAATAAAATAAG
1 ATAATCAAATTATTTATTTCGTTAATAATATTTTAACAGATTAAGTTTAAAAATAATAAAATAAG
16038031 ATTATATATATTTTTTAATATTATATATTATGATTTTTATTAATTC
66 ATTATATATATTTTTTAATATTATATATTATGATTTTTATTAATTC
16038077 ATAATCAAATTATTTATTTCGTTAATAATATTTTAACAGATTAAGTTTAAAAATAATAAAATAAG
1 ATAATCAAATTATTTATTTCGTTAATAATATTTTAACAGATTAAGTTTAAAAATAATAAAATAAG
16038142 ATTATATATATTTTTTAATATTATATATTATGATTTTTATTAATTC
66 ATTATATATATTTTTTAATATTATATATTATGATTTTTATTAATTC
16038188 ATA
1 ATA
16038191 TTTTAATAAT
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 114 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (111 bp):
ATAATCAAATTATTTATTTCGTTAATAATATTTTAACAGATTAAGTTTAAAAATAATAAAATAAG
ATTATATATATTTTTTAATATTATATATTATGATTTTTATTAATTC
Found at i:16047856 original size:39 final size:39
Alignment explanation
Indices: 16047809--16047888 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
16047799 CCAAAAATAG
16047809 TACTTGGAGTAAAATATAATAAATTAAACTCAAGGGCAT
1 TACTTGGAGTAAAATATAATAAATTAAACTCAAGGGCAT
16047848 TACTTGGAGTAAAATATAATAAATTAAACTCAAGGGCAT
1 TACTTGGAGTAAAATATAATAAATTAAACTCAAGGGCAT
16047887 TA
1 TA
16047889 AATTAATAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (39 bp):
TACTTGGAGTAAAATATAATAAATTAAACTCAAGGGCAT
Found at i:16050739 original size:62 final size:59
Alignment explanation
Indices: 16050623--16050739 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 59
16050613 ATCATTTTAA
* * *
16050623 TATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAAAATATTTATCAAGATAAACATTAGATTAAATTTAATATTAAATCT
*
16050682 TATTAAAATAATAAAATATTTATCTACAAGATAAACATTTA-ATTTAATTTAATATTAA
1 TATTAAAATAATAAAATATTTA--T-CAAGATAAACA-TTAGATTAAATTTAATATTAA
16050740 GATAATCACT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
59 20 0.40
61 1 0.02
62 26 0.52
63 3 0.06
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (59 bp):
TATTAAAATAATAAAATATTTATCAAGATAAACATTAGATTAAATTTAATATTAAATCT
Found at i:16050778 original size:25 final size:25
Alignment explanation
Indices: 16050724--16050778 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
16050714 AAACATTTAA
*
16050724 TTTAATTTAATATTAAGATAATCAC
1 TTTAATTTAATATTAAGACAATCAC
*
16050749 TTTAATATTAA-ATTAATACAAT-AC
1 TTTAAT-TTAATATTAAGACAATCAC
16050773 TATTAA
1 T-TTAA
16050779 AATAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.44
Consensus pattern (25 bp):
TTTAATTTAATATTAAGACAATCAC
Found at i:16050790 original size:12 final size:12
Alignment explanation
Indices: 16050773--16050825 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
16050763 AATACAATAC
16050773 TATTAAAATAAA
1 TATTAAAATAAA
*
16050785 TATTAAATTAAA
1 TATTAAAATAAA
*
16050797 T-TTAATATTAAA
1 TATTAA-AATAAA
16050809 TTATTAAAAT-AA
1 -TATTAAAATAAA
16050821 TATTA
1 TATTA
16050826 TTTTTGAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
11 9 0.25
12 20 0.56
13 3 0.08
14 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATTAAAATAAA
Found at i:16050796 original size:17 final size:17
Alignment explanation
Indices: 16050774--16050811 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
16050764 ATACAATACT
16050774 ATTAAAATAAATATTAA
1 ATTAAAATAAATATTAA
* *
16050791 ATTAAATTTAATATTAA
1 ATTAAAATAAATATTAA
16050808 ATTA
1 ATTA
16050812 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTAAAATAAATATTAA
Found at i:16059475 original size:18 final size:20
Alignment explanation
Indices: 16059441--16059481 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
16059431 AAAGTATGGC
16059441 AAAAGAGATGAGAAAG-ATGA
1 AAAAGAGAT-AGAAAGAATGA
16059461 AAAAGAGAT-GAAAGAATGA
1 AAAAGAGATAGAAAGAATGA
16059480 AA
1 AA
16059482 TATCAGGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 6 0.30
20 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.27, T:0.10
Consensus pattern (20 bp):
AAAAGAGATAGAAAGAATGA
Found at i:16061730 original size:25 final size:26
Alignment explanation
Indices: 16061693--16061743 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
16061683 GTTGTAAGTC
*
16061693 AAAAAAATATCTTTAGAG-ATTTTCT
1 AAAAAAATATCTTCAGAGAATTTTCT
* *
16061718 AAAATAATCTCTTCAGAGAATTTTCT
1 AAAAAAATATCTTCAGAGAATTTTCT
16061744 CTCTACAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (26 bp):
AAAAAAATATCTTCAGAGAATTTTCT
Found at i:16061981 original size:20 final size:19
Alignment explanation
Indices: 16061958--16061995 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
16061948 TTAATAAAAT
16061958 ATTATTAAAATACATATTAA
1 ATTATTAAAATA-ATATTAA
16061978 ATTATTAAAATAATATTA
1 ATTATTAAAATAATATTA
16061996 TTTTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTATTAAAATAATATTAA
Found at i:16063197 original size:17 final size:17
Alignment explanation
Indices: 16063171--16063208 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
16063161 TAAGTTGTCT
*
16063171 TTCTCTCAATGTAAACG
1 TTCTCGCAATGTAAACG
16063188 TTCTCGCAATGTAAACG
1 TTCTCGCAATGTAAACG
16063205 TTCT
1 TTCT
16063209 TATAATGCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (17 bp):
TTCTCGCAATGTAAACG
Found at i:16066928 original size:232 final size:232
Alignment explanation
Indices: 16066522--16066987 Score: 923
Period size: 232 Copynumber: 2.0 Consensus size: 232
16066512 GCATGACAAG
16066522 AGGGAAGGAGACCTCAGTAGTGAAAGGAACTACACCAAGGAAAGGAAAAGAAAAAGTAAAGAAGG
1 AGGGAAGGAGACCTCAGTAGTGAAAGGAACTACACCAAGGAAAGGAAAAGAAAAAGTAAAGAAGG
16066587 AAGAAAAACAACCTCATGCTCCTACATATCCTCAATTATGGAGGAAAATTAAAGAAATCGAGCAG
66 AAGAAAAACAACCTCATGCTCCTACATATCCTCAATTATGGAGGAAAATTAAAGAAATCGAGCAG
16066652 ATGGCTGACAAAATTAGTGTGCAGCAAATCAAACTTGTCGCCACAATTGAGGACATGGAGCACTC
131 ATGGCTGACAAAATTAGTGTGCAGCAAATCAAACTTGTCGCCACAATTGAGGACATGGAGCACTC
16066717 ACAAAATTTATTCTATGCCTACACTAAGGCATTGAAT
196 ACAAAATTTATTCTATGCCTACACTAAGGCATTGAAT
16066754 AGGGAAGGAGACCTCAGTAGTGAAAGGAACTACACCAAGGAAAGGAAAAGAAAAAGTAAAGAAGG
1 AGGGAAGGAGACCTCAGTAGTGAAAGGAACTACACCAAGGAAAGGAAAAGAAAAAGTAAAGAAGG
16066819 AAGAAAAACAACCTCATGCTCCTACATATCCTCAATTATGGAGGAAAATTAAAGAAATCGAGCAG
66 AAGAAAAACAACCTCATGCTCCTACATATCCTCAATTATGGAGGAAAATTAAAGAAATCGAGCAG
16066884 ATGGCTGACAAAATTAGTGTGCAGCAAATCAAACTTGTCGCCACAATTGAGGACATGGAGCACTC
131 ATGGCTGACAAAATTAGTGTGCAGCAAATCAAACTTGTCGCCACAATTGAGGACATGGAGCACTC
*
16066949 GCAAAATTTATTCTATGCCTACACTAAGGCATTGAAT
196 ACAAAATTTATTCTATGCCTACACTAAGGCATTGAAT
16066986 AG
1 AG
16066988 TGCGATAGTC
Statistics
Matches: 233, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
232 233 1.00
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.19
Consensus pattern (232 bp):
AGGGAAGGAGACCTCAGTAGTGAAAGGAACTACACCAAGGAAAGGAAAAGAAAAAGTAAAGAAGG
AAGAAAAACAACCTCATGCTCCTACATATCCTCAATTATGGAGGAAAATTAAAGAAATCGAGCAG
ATGGCTGACAAAATTAGTGTGCAGCAAATCAAACTTGTCGCCACAATTGAGGACATGGAGCACTC
ACAAAATTTATTCTATGCCTACACTAAGGCATTGAAT
Found at i:16072500 original size:23 final size:23
Alignment explanation
Indices: 16072455--16072521 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 23
16072445 AGTTTGAATC
*
16072455 TGATTTTTAGGTGATATTA-TTT
1 TGATTTTTAGTTGATATTATTTT
*
16072477 TGATTTTTAATTGATATTATTTT
1 TGATTTTTAGTTGATATTATTTT
* *
16072500 TAAATTTTAGTTGA-ATT-TTTT
1 TGATTTTTAGTTGATATTATTTT
16072521 T
1 T
16072522 AAAAAAATCG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 5 0.13
22 20 0.51
23 14 0.36
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.63
Consensus pattern (23 bp):
TGATTTTTAGTTGATATTATTTT
Found at i:16075274 original size:30 final size:31
Alignment explanation
Indices: 16075240--16075297 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
16075230 CTGCCCAATA
*
16075240 ATTTAAATAAAAA-TTTTGAATAGTTTAGTG
1 ATTTAAATAAAAACTTTTGAATAATTTAGTG
16075270 ATTTAAATAAAAACTTTTGAATAATTTA
1 ATTTAAATAAAAACTTTTGAATAATTTA
16075298 ATAATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.43
Consensus pattern (31 bp):
ATTTAAATAAAAACTTTTGAATAATTTAGTG
Found at i:16075360 original size:279 final size:278
Alignment explanation
Indices: 16074818--16075379 Score: 778
Period size: 279 Copynumber: 2.0 Consensus size: 278
16074808 GATATTTGAC
* * *
16074818 ATTGATTGTGAGATTGACTTGCATCTAAGTTTTGTTCTTCTACTTGTCAATAAGTACTGATCAAG
1 ATTGATTGTGAGATTGACTTGCATATAAGTTATGTTCTTCTACTTATCAATAAGTACTGATCAAG
* * *
16074883 TGTACTAATAATTGAATTGTCACTTGAAACTCATTAGTCGAACTCAAAAAAAAAAACCCTTAACG
66 TGTACTAATAATTGAATTGTCACTTGAAACTCATTAGACGAACTAAAAAAAAAAAACCCCTAACG
* *
16074948 ACCCAATAATTTAAATAAAAATTTCGAATAGTTTAGTGACTTAAATGAAAACTTTTGAATAGTTC
131 ACCCAATAATTTAAATAAAAATTTCGAATAGTTTAGTGACTTAAATAAAAACTTTTGAATAATTC
* * * *
16075013 AATAATCATTTCTTAACTTTTTAAAGTTGAGTGATTAAAATGTAAACTTATCTTAGGTTACAATT
196 AATAATAATTTCTAAACTTTTTAAAGTTGAGTGATCAAAATGTAAAC-TA-CTTAGATTACAATT
16075078 ACCAATAATTTAAATTGATA
259 ACCAATAATTTAAATTGATA
* *
16075098 ATTGATTGTGAGATTGACTTGCATATAAGTTAT-TTCTTCTACTTATCAAT-GGATACTGATCTA
1 ATTGATTGTGAGATTGACTTGCATATAAGTTATGTTCTTCTACTTATCAATAAG-TACTGATCAA
* *
16075161 GTGTACTAATAATTGAATTGTCGCTT-AGAGCTCATTAGACGAACTAAAAAAAAAAGAAAAAACC
65 GTGTACTAATAATTGAATTGTCACTTGA-AACTCATTAGACGAACT----AAAAAA-AAAAAACC
* * *
16075225 CCTAGCTG-CCCAATAATTTAAATAAAAATTTTGAATAGTTTAGTGATTTAAATAAAAACTTTTG
124 CCTAAC-GACCCAATAATTTAAATAAAAATTTCGAATAGTTTAGTGACTTAAATAAAAACTTTTG
* *
16075289 AATAATTTAATAATAATTT-TAAACTTTTTAAAGTTGAGTGATCAAAATGTATAC-A-TTAGATT
188 AATAATTCAATAATAATTTCTAAACTTTTTAAAGTTGAGTGATCAAAATGTAAACTACTTAGATT
* *
16075351 ACCATTACCAATACTTTAAATTGATA
253 ACAATTACCAATAATTTAAATTGATA
16075377 ATT
1 ATT
16075380 TAAAAGCCCT
Statistics
Matches: 251, Mismatches: 23, Indels: 17
0.86 0.08 0.06
Matches are distributed among these distances:
278 2 0.01
279 98 0.39
280 31 0.12
281 1 0.00
283 37 0.15
284 81 0.32
285 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (278 bp):
ATTGATTGTGAGATTGACTTGCATATAAGTTATGTTCTTCTACTTATCAATAAGTACTGATCAAG
TGTACTAATAATTGAATTGTCACTTGAAACTCATTAGACGAACTAAAAAAAAAAAACCCCTAACG
ACCCAATAATTTAAATAAAAATTTCGAATAGTTTAGTGACTTAAATAAAAACTTTTGAATAATTC
AATAATAATTTCTAAACTTTTTAAAGTTGAGTGATCAAAATGTAAACTACTTAGATTACAATTAC
CAATAATTTAAATTGATA
Found at i:16079443 original size:20 final size:20
Alignment explanation
Indices: 16079405--16079443 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16079395 ATTATAAAAA
** *
16079405 AATTATACAAATTTCTTAAG
1 AATTATACAAAGATATTAAG
16079425 AATTATACAAAGATATTAA
1 AATTATACAAAGATATTAA
16079444 AAAGTTATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (20 bp):
AATTATACAAAGATATTAAG
Found at i:16079708 original size:20 final size:21
Alignment explanation
Indices: 16079683--16079736 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
16079673 ATATATTAAT
*
16079683 ATTTTTTATAATTTCT-CATA
1 ATTTTTTATAATTTCTAAATA
* * *
16079703 ATTTTTAAGAATTTTTAAATA
1 ATTTTTTATAATTTCTAAATA
*
16079724 TTTTTTTATAATT
1 ATTTTTTATAATT
16079737 ATTTGAAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTTTTTATAATTTCTAAATA
Found at i:16085432 original size:14 final size:14
Alignment explanation
Indices: 16085415--16085444 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16085405 ATTAAACTCT
*
16085415 AAAAGATAAATCTA
1 AAAAGATAAATATA
16085429 AAAAGATAAATATA
1 AAAAGATAAATATA
16085443 AA
1 AA
16085445 TTAAATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAGATAAATATA
Found at i:16087074 original size:24 final size:22
Alignment explanation
Indices: 16087001--16087075 Score: 55
Period size: 24 Copynumber: 3.2 Consensus size: 22
16086991 CCGATCTAGG
16087001 GCATTT-ATCCCTTGCTAATTTAGA
1 GCATTTGA-CCCTTGCT-A-TTAGA
* * *
16087025 GCATTCGA-CCATGACTATTAGG
1 GCATTTGACCCTTG-CTATTAGA
16087047 GCATTTGACCCTTGCTCACTTAGA
1 GCATTTGACCCTTGCT-A-TTAGA
16087071 GCATT
1 GCATT
16087076 CAACAAAAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
22 13 0.32
23 10 0.25
24 16 0.40
25 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (22 bp):
GCATTTGACCCTTGCTATTAGA
Found at i:16100547 original size:104 final size:104
Alignment explanation
Indices: 16100115--16100545 Score: 650
Period size: 104 Copynumber: 4.1 Consensus size: 104
16100105 ATAAGAAGTA
*
16100115 AAAATTTTAACAAAATGCATTAATTGAAATGTTTCTTGAAATCCTATCATTTAGATGATGTATTT
1 AAAATTTTAACAAAATGCACTAATTGAAATGTTTCTTGAAATCCTATCATTTAGATGATGTATTT
* *
16100180 ATCAGCTACTTGTTTTCCTTACCTCAAAAGGTACATATA
66 ATCAACTACTTGTTTTCCTTACCTCAAAAGGTACATATC
* * **
16100219 AAAATTTTAACAAAATG-ACCTAATCGAAATGTTTCTTGAAATCTTATCATTTAGACAATGTATT
1 AAAATTTTAACAAAATGCA-CTAATTGAAATGTTTCTTGAAATCCTATCATTTAGATGATGTATT
* * * *
16100283 TATTAGCTACTTGCTTTCATTACCTCAAAAGGTACATATC
65 TATCAACTACTTGTTTTCCTTACCTCAAAAGGTACATATC
16100323 AAAATTTTAACAAAATGCACTAATTGAAATGTTTCTTGAAATCCTATCATTTAGACT-ATGTATT
1 AAAATTTTAACAAAATGCACTAATTGAAATGTTTCTTGAAATCCTATCATTTAGA-TGATGTATT
*
16100387 TATCAACTACTTGATTTCCTTACCTCAAAAGGTACATATC
65 TATCAACTACTTGTTTTCCTTACCTCAAAAGGTACATATC
* * * * *
16100427 AAAATTTTAACAAAAAGCAATAATTTAAATGTTTCTTGAAATCCTATTATTTAGATGATATATTT
1 AAAATTTTAACAAAATGCACTAATTGAAATGTTTCTTGAAATCCTATCATTTAGATGATGTATTT
* * *
16100492 ATCAATTACTTGTTTTCCTTATCTCAAAAGATACATATC
66 ATCAACTACTTGTTTTCCTTACCTCAAAAGGTACATATC
16100531 AAAATTTTAACAAAA
1 AAAATTTTAACAAAA
16100546 AGTAGTATCT
Statistics
Matches: 298, Mismatches: 25, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
103 2 0.01
104 295 0.99
105 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.39
Consensus pattern (104 bp):
AAAATTTTAACAAAATGCACTAATTGAAATGTTTCTTGAAATCCTATCATTTAGATGATGTATTT
ATCAACTACTTGTTTTCCTTACCTCAAAAGGTACATATC
Found at i:16106062 original size:24 final size:24
Alignment explanation
Indices: 16106011--16106065 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
16106001 TCTTTTAGTT
* * *
16106011 AAACTCCGTTTATTTGTTTCAATT
1 AAACTCTGTTTATTTATTTCAATC
* *
16106035 AAACTCTGTTTATTTATTTGAGTC
1 AAACTCTGTTTATTTATTTCAATC
16106059 AAACTCT
1 AAACTCT
16106066 TATTAGTCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.47
Consensus pattern (24 bp):
AAACTCTGTTTATTTATTTCAATC
Found at i:16107159 original size:3 final size:3
Alignment explanation
Indices: 16107151--16107193 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
16107141 GAATAATTCT
* *
16107151 ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16107194 ATTGTTTATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:16118108 original size:13 final size:14
Alignment explanation
Indices: 16118090--16118119 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
16118080 GTCAACGCAA
16118090 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
16118103 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
16118117 TCA
1 TCA
16118120 ATATACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:16123602 original size:27 final size:27
Alignment explanation
Indices: 16123546--16123603 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
16123536 TACAGTTACC
* *
16123546 AACCCATTTCTTTTAAACCACAAAATA
1 AACCCATTTCCTTTAAACCACAAAAAA
16123573 AACCCATTTCCTTTAAACC-CAAATAAA
1 AACCCATTTCCTTTAAACCACAAA-AAA
16123600 AACC
1 AACC
16123604 AAACCCGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.45, C:0.29, G:0.00, T:0.26
Consensus pattern (27 bp):
AACCCATTTCCTTTAAACCACAAAAAA
Found at i:16135339 original size:24 final size:24
Alignment explanation
Indices: 16135299--16135345 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16135289 ATTCATCTTT
**
16135299 TATTAATTTGCTTTGACA-TTTTA
1 TATTAATTTGCACTGACAGTTTTA
16135322 TATTACATTTGCACTGACAGTTTT
1 TATTA-ATTTGCACTGACAGTTTT
16135346 TACTCTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.51
Consensus pattern (24 bp):
TATTAATTTGCACTGACAGTTTTA
Found at i:16136279 original size:103 final size:103
Alignment explanation
Indices: 16136100--16136326 Score: 391
Period size: 103 Copynumber: 2.2 Consensus size: 103
16136090 CTATTCCTTA
* *
16136100 ACGATGCTGCTCACACGAGCTGTTGGGAGTATGCATAAAACATAAGTCCCAGCCATCGAATGGGC
1 ACGATGCTGCTCACACGAGCTGTCGGGAGTATGCATAAAACATAAGTCCCAGCCATCGAAAGGGC
*
16136165 CTATAATCCATTTAGGATTCATATCTCTTTTCCGAATC
66 CTATAATCCATTTAGGATTCATATCTCTTTTCCAAATC
* * *
16136203 ACGATGCTGCTCACACAAGCTGTCGGGAGTATGCATAAAGCATAAGTCCCAGTCATCGAAAGGGC
1 ACGATGCTGCTCACACGAGCTGTCGGGAGTATGCATAAAACATAAGTCCCAGCCATCGAAAGGGC
*
16136268 CTATAATCCATTTAGGATTCATATCTCTTTTTCAAATC
66 CTATAATCCATTTAGGATTCATATCTCTTTTCCAAATC
16136306 ACGATGCTGCTCACACGAGCT
1 ACGATGCTGCTCACACGAGCT
16136327 ATCGAGGACT
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 116 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (103 bp):
ACGATGCTGCTCACACGAGCTGTCGGGAGTATGCATAAAACATAAGTCCCAGCCATCGAAAGGGC
CTATAATCCATTTAGGATTCATATCTCTTTTCCAAATC
Found at i:16138126 original size:14 final size:14
Alignment explanation
Indices: 16138107--16138142 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
16138097 CAACAAGATC
16138107 TATTTTACTTTATT
1 TATTTTACTTTATT
*
16138121 TATTTTATTTTATT
1 TATTTTACTTTATT
16138135 TCATTTTA
1 T-ATTTTA
16138143 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTTACTTTATT
Found at i:16138127 original size:5 final size:5
Alignment explanation
Indices: 16138107--16138146 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
16138097 CAACAAGATC
* *
16138107 TATTT TACTT TA-TT TATTT TATTT TATTT CATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT T
16138147 TAATTTAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (5 bp):
TATTT
Found at i:16153087 original size:21 final size:22
Alignment explanation
Indices: 16153044--16153090 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
16153034 TGAAATGTTT
*
16153044 AAAACCAATTATAAAAATAGAA
1 AAAACAAATTATAAAAATAGAA
* *
16153066 AAAACAAATTATTAGAAT-GAA
1 AAAACAAATTATAAAAATAGAA
16153087 AAAA
1 AAAA
16153091 ATAGACTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (22 bp):
AAAACAAATTATAAAAATAGAA
Found at i:16156410 original size:23 final size:23
Alignment explanation
Indices: 16156374--16156547 Score: 258
Period size: 23 Copynumber: 7.6 Consensus size: 23
16156364 TTGTTTATTT
16156374 ATTTGTGCTTAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
* * *
16156397 ATTTTTTCTCAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
16156420 ATTTGTGCTTAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
* * *
16156443 ATTTGTGCTCAAATGTTAATGTG
1 ATTTGTGCTTAAATATTAATATG
* *
16156466 ATTTATGCTTAAATATTAATGTG
1 ATTTGTGCTTAAATATTAATATG
16156489 ATTTGTGCTTAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
* *
16156512 ATTTATGATTAAATATTAATATG
1 ATTTGTGCTTAAATATTAATATG
16156535 ATTTGTGCTTAAA
1 ATTTGTGCTTAAA
16156548 GAATTAAGAT
Statistics
Matches: 133, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 133 1.00
ACGTcount: A:0.34, C:0.05, G:0.13, T:0.48
Consensus pattern (23 bp):
ATTTGTGCTTAAATATTAATATG
Found at i:16160221 original size:22 final size:21
Alignment explanation
Indices: 16160195--16160243 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
16160185 CAACTAAAAT
16160195 AAAATAAATATAATATCAACTA
1 AAAATAAA-ATAATATCAACTA
* *
16160217 AAAATTAGAATAATATCACCTA
1 AAAA-TAAAATAATATCAACTA
16160239 AAAAT
1 AAAAT
16160244 CATATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 20 0.83
23 3 0.12
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATAAAATAATATCAACTA
Found at i:16162124 original size:18 final size:18
Alignment explanation
Indices: 16162101--16162140 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
16162091 TGTTAAAATC
16162101 TGAAATAAACATATTAAA
1 TGAAATAAACATATTAAA
16162119 TGAAATAAACATATTAAA
1 TGAAATAAACATATTAAA
16162137 TGAA
1 TGAA
16162141 TTACCAAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (18 bp):
TGAAATAAACATATTAAA
Found at i:16175169 original size:12 final size:12
Alignment explanation
Indices: 16175152--16175184 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
16175142 GCAATATATT
16175152 TCTTTTCTTTTC
1 TCTTTTCTTTTC
16175164 TCTTTTCTTTTC
1 TCTTTTCTTTTC
16175176 T-TTTTCTTT
1 TCTTTTCTTT
16175185 CTTTTTGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TCTTTTCTTTTC
Found at i:16175190 original size:10 final size:11
Alignment explanation
Indices: 16175150--16175190 Score: 59
Period size: 10 Copynumber: 3.8 Consensus size: 11
16175140 TGGCAATATA
16175150 TTTC-TTTTCT
1 TTTCTTTTTCT
16175160 TTTCTCTTTTCT
1 TTTCT-TTTTCT
16175172 TTTCTTTTTC-
1 TTTCTTTTTCT
16175182 TTTCTTTTT
1 TTTCTTTTT
16175191 GTGATTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 13 0.45
11 5 0.17
12 11 0.38
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:16182581 original size:14 final size:15
Alignment explanation
Indices: 16182552--16182581 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16182542 ATTGTTGTTG
16182552 TAACTCCCTTGTCTA
1 TAACTCCCTTGTCTA
16182567 TAACTCCCTTG-CTA
1 TAACTCCCTTGTCTA
16182581 T
1 T
16182582 GAGGAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (15 bp):
TAACTCCCTTGTCTA
Found at i:16186132 original size:24 final size:24
Alignment explanation
Indices: 16186045--16186135 Score: 110
Period size: 24 Copynumber: 3.8 Consensus size: 24
16186035 TTCCAAAAAT
* *
16186045 TTAGCTCATACGAGCCCAGACAAAA
1 TTAGCTCATACGAGCCCAGA-TAAG
* *
16186070 TTAGCTCATACAAGCCCAGATAGG
1 TTAGCTCATACGAGCCCAGATAAG
* *
16186094 TTAGCTCTTATGAGCCCAGATAAG
1 TTAGCTCATACGAGCCCAGATAAG
*
16186118 TTAGCTCATTCGAGCCCA
1 TTAGCTCATACGAGCCCA
16186136 AGCAGAGTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
24 36 0.65
25 19 0.35
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (24 bp):
TTAGCTCATACGAGCCCAGATAAG
Found at i:16207858 original size:31 final size:31
Alignment explanation
Indices: 16207821--16207883 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
16207811 TTTGTTTGGC
16207821 TTTGTTTCCTCATTTGGGTAAGTAGATTTTG
1 TTTGTTTCCTCATTTGGGTAAGTAGATTTTG
16207852 TTTGTTTCCTCATTTGGGTAAGTAGATTTTG
1 TTTGTTTCCTCATTTGGGTAAGTAGATTTTG
16207883 T
1 T
16207884 CCGTTTTTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.16, C:0.10, G:0.22, T:0.52
Consensus pattern (31 bp):
TTTGTTTCCTCATTTGGGTAAGTAGATTTTG
Found at i:16208574 original size:25 final size:25
Alignment explanation
Indices: 16208540--16208817 Score: 159
Period size: 25 Copynumber: 11.1 Consensus size: 25
16208530 AGTGGAGCAA
* *
16208540 ATATTTTGTCTGGCTCGAAAGAGTG
1 ATATTCTGTCTGGCTCGAAAGAGCG
* * *
16208565 ATATTCTGTCTGGGTTGTAAGAGCG
1 ATATTCTGTCTGGCTCGAAAGAGCG
* * * * * **
16208590 GTATTTTGTCTGACTTGTAAGAGTA
1 ATATTCTGTCTGGCTCGAAAGAGCG
* *
16208615 ATATTCTGTTTGGCTCGTAAGAGCG
1 ATATTCTGTCTGGCTCGAAAGAGCG
* * *
16208640 ATATTTTGTTTGGCTCGTAAGAGCG
1 ATATTCTGTCTGGCTCGAAAGAGCG
* * *
16208665 ATATTTTGACTAGCTC-ATAAGAGCG
1 ATATTCTGTCTGGCTCGA-AAGAGCG
* * * *
16208690 GTATTATGTTTGGCTC-ATAAGAGTG
1 ATATTCTGTCTGGCTCGA-AAGAGCG
* * * *
16208715 ATATTTTGCCTGGCTCGTAAGAACG
1 ATATTCTGTCTGGCTCGAAAGAGCG
* * *
16208740 GTATTCTGTCTAGCT-TATAAGAGCG
1 ATATTCTGTCTGGCTCGA-AAGAGCG
* * *
16208765 ATATTCTGCCTAGCTC-ATAAGAGTG
1 ATATTCTGTCTGGCTCGA-AAGAGCG
** *
16208790 ATATTCTGTCTAACTCGTAAGAGCG
1 ATATTCTGTCTGGCTCGAAAGAGCG
16208815 ATA
1 ATA
16208818 CTCTATCTAG
Statistics
Matches: 198, Mismatches: 50, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
25 198 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (25 bp):
ATATTCTGTCTGGCTCGAAAGAGCG
Found at i:16208596 original size:50 final size:50
Alignment explanation
Indices: 16208541--16208787 Score: 219
Period size: 50 Copynumber: 4.9 Consensus size: 50
16208531 GTGGAGCAAA
* *
16208541 TATTTTGTCTGGCTCGAAAGAGTGATATTCTGTCTGGGTTGTAAGAGCGG
1 TATTTTGTCTGGCTCGAAAGAGTGATATTCTGTCTGGCTCGTAAGAGCGG
* * * * * *
16208591 TATTTTGTCTGACTTGTAAGAGTAATATTCTGTTTGGCTCGTAAGAGCGA
1 TATTTTGTCTGGCTCGAAAGAGTGATATTCTGTCTGGCTCGTAAGAGCGG
* * * * * * *
16208641 TATTTTGTTTGGCTCGTAAGAGCGATATTTTGACTAGCTCATAAGAGCGG
1 TATTTTGTCTGGCTCGAAAGAGTGATATTCTGTCTGGCTCGTAAGAGCGG
* * * * *
16208691 TATTATGTTTGGCTC-ATAAGAGTGATATTTTGCCTGGCTCGTAAGAACGG
1 TATTTTGTCTGGCTCGA-AAGAGTGATATTCTGTCTGGCTCGTAAGAGCGG
* * * * * * *
16208741 TATTCTGTCTAGCT-TATAAGAGCGATATTCTGCCTAGCTCATAAGAG
1 TATTTTGTCTGGCTCGA-AAGAGTGATATTCTGTCTGGCTCGTAAGAG
16208788 TGATATTCTG
Statistics
Matches: 161, Mismatches: 34, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
50 161 1.00
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (50 bp):
TATTTTGTCTGGCTCGAAAGAGTGATATTCTGTCTGGCTCGTAAGAGCGG
Found at i:16208662 original size:75 final size:75
Alignment explanation
Indices: 16208534--16208814 Score: 287
Period size: 75 Copynumber: 3.7 Consensus size: 75
16208524 TGGCTCAGTG
* * *
16208534 GAGCAAATATTTTGTCTGGCTCGA-AAGAGTGATATTCTGTCTGGGTTGTAAGAGCGGTATTTTG
1 GAGC-AATATTCTGTCTGGCTC-ATAAGAGTGATATTCTGTCTGGCTCGTAAGAGCGGTATTTTG
*
16208598 TCT-GACTTGTAA
64 TCTAG-CTTATAA
* * * * * * * *
16208610 GAGTAATATTCTGTTTGGCTCGTAAGAGCGATATTTTGTTTGGCTCGTAAGAGCGATATTTTGAC
1 GAGCAATATTCTGTCTGGCTCATAAGAGTGATATTCTGTCTGGCTCGTAAGAGCGGTATTTTGTC
*
16208675 TAGCTCATAA
66 TAGCTTATAA
** * * * * * *
16208685 GAGCGGTATTATGTTTGGCTCATAAGAGTGATATTTTGCCTGGCTCGTAAGAACGGTATTCTGTC
1 GAGCAATATTCTGTCTGGCTCATAAGAGTGATATTCTGTCTGGCTCGTAAGAGCGGTATTTTGTC
16208750 TAGCTTATAA
66 TAGCTTATAA
* * * **
16208760 GAGCGATATTCTGCCTAGCTCATAAGAGTGATATTCTGTCTAACTCGTAAGAGCG
1 GAGCAATATTCTGTCTGGCTCATAAGAGTGATATTCTGTCTGGCTCGTAAGAGCG
16208815 ATACTCTATC
Statistics
Matches: 167, Mismatches: 36, Indels: 5
0.80 0.17 0.02
Matches are distributed among these distances:
75 163 0.98
76 4 0.02
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (75 bp):
GAGCAATATTCTGTCTGGCTCATAAGAGTGATATTCTGTCTGGCTCGTAAGAGCGGTATTTTGTC
TAGCTTATAA
Found at i:16208795 original size:50 final size:50
Alignment explanation
Indices: 16208627--16208817 Score: 202
Period size: 50 Copynumber: 3.8 Consensus size: 50
16208617 ATTCTGTTTG
* * * * * * *
16208627 GCTCGTAAGAGCGATATTTTGTTTGGCTCGTAAGAGCGATATTTTGACTA
1 GCTCATAAGAGCGGTATTCTGTCTAGCTCATAAGAGCGATATTTTGCCTA
* * * * *
16208677 GCTCATAAGAGCGGTATTATGTTTGGCTCATAAGAGTGATATTTTGCCTG
1 GCTCATAAGAGCGGTATTCTGTCTAGCTCATAAGAGCGATATTTTGCCTA
* * * *
16208727 GCTCGTAAGAACGGTATTCTGTCTAGCTTATAAGAGCGATATTCTGCCTA
1 GCTCATAAGAGCGGTATTCTGTCTAGCTCATAAGAGCGATATTTTGCCTA
* * * *
16208777 GCTCATAAGAGTGATATTCTGTCTAACTCGTAAGAGCGATA
1 GCTCATAAGAGCGGTATTCTGTCTAGCTCATAAGAGCGATA
16208818 CTCTATCTAG
Statistics
Matches: 118, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 118 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (50 bp):
GCTCATAAGAGCGGTATTCTGTCTAGCTCATAAGAGCGATATTTTGCCTA
Found at i:16220815 original size:97 final size:97
Alignment explanation
Indices: 16220649--16220835 Score: 347
Period size: 97 Copynumber: 1.9 Consensus size: 97
16220639 TATACATGTT
16220649 AACCCTAAGGTAAGGTATGTATCATCATGCATGGAGATCTACCTGGCATAGAATGACTTAATATA
1 AACCCTAAGGTAAGGTATGTATCATCATGCATGGAGATCTACCTGGCATAGAATGACTTAATATA
16220714 ACATTTGATACCTAAACTTGACATTAACCCTA
66 ACATTTGATACCTAAACTTGACATTAACCCTA
* * *
16220746 AACCCTAAGGTAAGGTATGTATCATCATGTATGGAGATCTATCTGGCATAGAATGGCTTAATATA
1 AACCCTAAGGTAAGGTATGTATCATCATGCATGGAGATCTACCTGGCATAGAATGACTTAATATA
16220811 ACATTTGATACCTAAACTTGACATT
66 ACATTTGATACCTAAACTTGACATT
16220836 TTTTCCTAAC
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 87 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (97 bp):
AACCCTAAGGTAAGGTATGTATCATCATGCATGGAGATCTACCTGGCATAGAATGACTTAATATA
ACATTTGATACCTAAACTTGACATTAACCCTA
Found at i:16220906 original size:31 final size:31
Alignment explanation
Indices: 16220869--16220929 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
16220859 ATTTTTTTAT
16220869 CCAATTTGGTA-CTCAAACTTGACACTTTTTC
1 CCAATTTGGTATCT-AAACTTGACACTTTTTC
16220900 CCAATTTGGTATCTAAACTTGACACTTTTT
1 CCAATTTGGTATCTAAACTTGACACTTTTT
16220930 TTTTAAGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (31 bp):
CCAATTTGGTATCTAAACTTGACACTTTTTC
Found at i:16220949 original size:32 final size:31
Alignment explanation
Indices: 16220869--16220951 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 31
16220859 ATTTTTTTAT
* *
16220869 CCAATTTGGTACTCAAACTTGACACTTTTTC
1 CCAAGTTGGTACTTAAACTTGACACTTTTTC
* *
16220900 CCAATTTGGTA-TCTAAACTTGACACTTTTTTT
1 CCAAGTTGGTACT-TAAACTTGACAC-TTTTTC
**
16220932 TTAAGTTGGTACTTAAACTT
1 CCAAGTTGGTACTTAAACTT
16220952 TTAGAATCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
30 1 0.02
31 22 0.50
32 20 0.45
33 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (31 bp):
CCAAGTTGGTACTTAAACTTGACACTTTTTC
Found at i:16220978 original size:90 final size:90
Alignment explanation
Indices: 16220813--16221005 Score: 210
Period size: 90 Copynumber: 2.1 Consensus size: 90
16220803 TTAATATAAC
* * ***
16220813 ATTTGATACCTAAACTTGACATTTTTTCCTAACTTGGTACCTGAACATTTTTTTATCCAATTTGG
1 ATTTGGTACCTAAACTTGACATTTTTTCCTAACTTGGTACCTAAACATTTTAGAATCCAATTTGG
16220878 TACTCAAACTTGACACTTTTTCCCA
66 TACTCAAACTTGACACTTTTTCCCA
* ** * *
16220903 ATTTGGTATCTAAACTTGACACTTTTTTTTTAAGTTGGTACTTAAAC-TTTTAGAATCCAATTTG
1 ATTTGGTACCTAAACTTGACA-TTTTTTCCTAACTTGGTACCTAAACATTTTAGAATCCAATTTG
* * ** *
16220967 GTAC-CTGAACTTTACTTTTTTTCCTA
65 GTACTC-AAACTTGACACTTTTTCCCA
*
16220993 ATTTAGTACCTAA
1 ATTTGGTACCTAA
16221006 TCTTTTTTTT
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
89 1 0.01
90 63 0.75
91 20 0.24
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.45
Consensus pattern (90 bp):
ATTTGGTACCTAAACTTGACATTTTTTCCTAACTTGGTACCTAAACATTTTAGAATCCAATTTGG
TACTCAAACTTGACACTTTTTCCCA
Found at i:16226306 original size:15 final size:16
Alignment explanation
Indices: 16226280--16226309 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16226270 TATTTTATTT
16226280 TAATTCTAAAAAATTA
1 TAATTCTAAAAAATTA
16226296 TAATT-TAAAAAATT
1 TAATTCTAAAAAATT
16226310 TTAAGTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATTCTAAAAAATTA
Found at i:16232126 original size:21 final size:21
Alignment explanation
Indices: 16232101--16232141 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16232091 ATACTCATAT
*
16232101 TTCAAA-ATACTTATTCTAAAA
1 TTCAAATATAC-TATACTAAAA
16232122 TTCAAATATACTATACTAAA
1 TTCAAATATACTATACTAAA
16232142 CTCAAACTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.37
Consensus pattern (21 bp):
TTCAAATATACTATACTAAAA
Found at i:16232648 original size:15 final size:14
Alignment explanation
Indices: 16232606--16232654 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
16232596 AAAATTTCAA
16232606 TAAATAAAAAATAT
1 TAAATAAAAAATAT
**
16232620 TAAATTATTAAATAT
1 TAAA-TAAAAAATAT
16232635 TAAATAAAACAATA-
1 TAAATAAAA-AATAT
16232649 TAAATA
1 TAAATA
16232655 TTTTTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 13 0.45
15 16 0.55
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATAAAAAATAT
Found at i:16236983 original size:2 final size:2
Alignment explanation
Indices: 16236976--16237021 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
16236966 TCTATATGAC
16236976 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16237018 AT AT
1 AT AT
16237022 TATTAAATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16239656 original size:8 final size:8
Alignment explanation
Indices: 16239643--16239680 Score: 76
Period size: 8 Copynumber: 4.8 Consensus size: 8
16239633 TTCATTTTAT
16239643 AGTGGAAA
1 AGTGGAAA
16239651 AGTGGAAA
1 AGTGGAAA
16239659 AGTGGAAA
1 AGTGGAAA
16239667 AGTGGAAA
1 AGTGGAAA
16239675 AGTGGA
1 AGTGGA
16239681 GTGTTTGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.39, T:0.13
Consensus pattern (8 bp):
AGTGGAAA
Found at i:16240520 original size:17 final size:17
Alignment explanation
Indices: 16240481--16240521 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
16240471 ATGGGTTTGA
16240481 TAAATAATTAAATTTTTT
1 TAAAT-ATTAAATTTTTT
*
16240499 T-AATATTTAATTTTTT
1 TAAATATTAAATTTTTT
16240515 TAAATAT
1 TAAATAT
16240522 GTTTGATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 12 0.57
17 8 0.38
18 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TAAATATTAAATTTTTT
Found at i:16242745 original size:38 final size:38
Alignment explanation
Indices: 16242694--16242769 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
16242684 ATCGAGATGA
16242694 GAAAGAATAAATGTTGCAGTTCTATTATATCTATTAAT
1 GAAAGAATAAATGTTGCAGTTCTATTATATCTATTAAT
16242732 GAAAGAATAAATGTTGCAGTTCTATTATATCTATTAAT
1 GAAAGAATAAATGTTGCAGTTCTATTATATCTATTAAT
16242770 ACTATCATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.39
Consensus pattern (38 bp):
GAAAGAATAAATGTTGCAGTTCTATTATATCTATTAAT
Found at i:16243812 original size:28 final size:28
Alignment explanation
Indices: 16243762--16243829 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
16243752 ATTTATCTTC
16243762 CATATATTT--TAT-AAATATAACAATA
1 CATATATTTAATATAAAATATAACAATA
*
16243787 CATATATTTAATATAAAATTTAACAATA
1 CATATATTTAATATAAAATATAACAATA
16243815 CATATATTTAATATA
1 CATATATTTAATATA
16243830 TTTTAAGATA
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
25 9 0.23
27 3 0.08
28 27 0.69
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.41
Consensus pattern (28 bp):
CATATATTTAATATAAAATATAACAATA
Found at i:16243825 original size:16 final size:16
Alignment explanation
Indices: 16243779--16243825 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
16243769 TTTATAAATA
16243779 TAACAATACATATATT
1 TAACAATACATATATT
*
16243795 TAA-TATA-A-A-ATT
1 TAACAATACATATATT
16243807 TAACAATACATATATT
1 TAACAATACATATATT
16243823 TAA
1 TAA
16243826 TATATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
12 6 0.24
13 4 0.16
14 2 0.08
15 4 0.16
16 9 0.36
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (16 bp):
TAACAATACATATATT
Found at i:16245656 original size:31 final size:32
Alignment explanation
Indices: 16245599--16245673 Score: 116
Period size: 31 Copynumber: 2.3 Consensus size: 32
16245589 AAAAAAAAAC
16245599 TTAAATACCAAATTAAGAAAAAAAGTGTCAAAT
1 TTAAATACCAAATTAAG-AAAAAAGTGTCAAAT
*
16245632 TTAAATACCAAATTAAG-AAAAAGTGTTAAAT
1 TTAAATACCAAATTAAGAAAAAAGTGTCAAAT
*
16245663 TCAAATACCAA
1 TTAAATACCAA
16245674 TTATTATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
31 23 0.57
33 17 0.43
ACGTcount: A:0.56, C:0.11, G:0.08, T:0.25
Consensus pattern (32 bp):
TTAAATACCAAATTAAGAAAAAAGTGTCAAAT
Found at i:16251193 original size:33 final size:33
Alignment explanation
Indices: 16251151--16251223 Score: 146
Period size: 33 Copynumber: 2.2 Consensus size: 33
16251141 CCAAATTTCT
16251151 TCAACACCATTCCATAAGACATCCCAAGTATTA
1 TCAACACCATTCCATAAGACATCCCAAGTATTA
16251184 TCAACACCATTCCATAAGACATCCCAAGTATTA
1 TCAACACCATTCCATAAGACATCCCAAGTATTA
16251217 TCAACAC
1 TCAACAC
16251224 TTTAACTAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.40, C:0.32, G:0.05, T:0.23
Consensus pattern (33 bp):
TCAACACCATTCCATAAGACATCCCAAGTATTA
Found at i:16251533 original size:40 final size:40
Alignment explanation
Indices: 16251436--16251587 Score: 128
Period size: 40 Copynumber: 3.8 Consensus size: 40
16251426 GATACTACAT
* * *
16251436 CACCAGCTTATAGCCTGCTAAGCCGTAA-CTTGAATC-TTAA
1 CACCAGCTCATAACCTGCTAAGTCG-AAGCTTG-ATCTTTAA
* * * * * *
16251476 CACTAGGTTACAGCCTGCTAAGTCGAAGCTTGATTTTTAA
1 CACCAGCTCATAACCTGCTAAGTCGAAGCTTGATCTTTAA
* * *
16251516 CACCAGCTCGTAACCTGCTAAGCCTAAGCTTGATCTTTAA
1 CACCAGCTCATAACCTGCTAAGTCGAAGCTTGATCTTTAA
* * * *
16251556 CATCGGCTCATAACCTGCTAAGTAGTAGCTTG
1 CACCAGCTCATAACCTGCTAAGTCGAAGCTTG
16251588 GAGTTTTCTA
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
39 4 0.04
40 85 0.96
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (40 bp):
CACCAGCTCATAACCTGCTAAGTCGAAGCTTGATCTTTAA
Found at i:16253669 original size:24 final size:24
Alignment explanation
Indices: 16253632--16253692 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
16253622 GACTAATAAA
* *
16253632 AGTTTGACTAAAACAAATAAAAAG
1 AGTTTAACTGAAACAAATAAAAAG
* *
16253656 AGTTTAATTGAAACAAATAAACAG
1 AGTTTAACTGAAACAAATAAAAAG
*
16253680 TGTTTAACTGAAA
1 AGTTTAACTGAAA
16253693 GATTATTTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.26
Consensus pattern (24 bp):
AGTTTAACTGAAACAAATAAAAAG
Found at i:16254523 original size:10 final size:10
Alignment explanation
Indices: 16254508--16254622 Score: 58
Period size: 10 Copynumber: 11.2 Consensus size: 10
16254498 ACATATCGTG
16254508 TAACATATCA
1 TAACATATCA
16254518 TAACATATCTTA
1 TAACATATC--A
* *
16254530 TCACAAATCA
1 TAACATATCA
*
16254540 TAGTGA-ATCTCA
1 TA---ACATATCA
16254552 TAACATATCA
1 TAACATATCA
16254562 TAACATATCGCA
1 TAACATAT--CA
**
16254574 TATGATATCA
1 TAACATATCA
*
16254584 TAAAATATC-
1 TAACATATCA
*
16254593 T--CATATTA
1 TAACATATCA
*
16254601 TATCATATCA
1 TAACATATCA
*
16254611 TATCATATCA
1 TAACATATCA
16254621 TA
1 TA
16254623 TCCGTTACAC
Statistics
Matches: 81, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
7 4 0.05
8 1 0.01
9 2 0.02
10 51 0.63
12 22 0.27
13 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.35
Consensus pattern (10 bp):
TAACATATCA
Found at i:16254563 original size:5 final size:5
Alignment explanation
Indices: 16254549--16254624 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
16254539 ATAGTGAATC
* * * **
16254549 TCATA ACATA TCATA ACATA TCGCATA TGATA TCATA AAATA TCTCATA
1 TCATA TCATA TCATA TCATA T--CATA TCATA TCATA TCATA --TCATA
*
16254598 TTATA TCATA TCATA TCATA TCATA TC
1 TCATA TCATA TCATA TCATA TCATA TC
16254625 CGTTACACAT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
5 47 0.85
7 8 0.15
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.37
Consensus pattern (5 bp):
TCATA
Found at i:16254575 original size:22 final size:22
Alignment explanation
Indices: 16254508--16254614 Score: 90
Period size: 22 Copynumber: 4.9 Consensus size: 22
16254498 ACATATCGTG
*
16254508 TAACATATCATAACATATCTTA
1 TAACATATCATAACATATCTCA
* * **
16254530 TCACAAATCATAGTGA-ATCTCA
1 TAACATATCATA-ACATATCTCA
*
16254552 TAACATATCATAACATATCGCA
1 TAACATATCATAACATATCTCA
** *
16254574 TATGATATCATAAAATATCTCA
1 TAACATATCATAACATATCTCA
** *
16254596 TATTATATCATATCATATC
1 TAACATATCATAACATATC
16254615 ATATCATATC
Statistics
Matches: 66, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
21 1 0.02
22 64 0.97
23 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.35
Consensus pattern (22 bp):
TAACATATCATAACATATCTCA
Found at i:16254847 original size:29 final size:29
Alignment explanation
Indices: 16254806--16254872 Score: 125
Period size: 29 Copynumber: 2.3 Consensus size: 29
16254796 TTCCTCCATC
*
16254806 AAAACATAACCTACCCCAATACATATATA
1 AAAACATAACCTACCCCAATACATATAAA
16254835 AAAACATAACCTACCCCAATACATATAAA
1 AAAACATAACCTACCCCAATACATATAAA
16254864 AAAACATAA
1 AAAACATAA
16254873 TAACATACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.18
Consensus pattern (29 bp):
AAAACATAACCTACCCCAATACATATAAA
Found at i:16258860 original size:22 final size:21
Alignment explanation
Indices: 16258790--16258862 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 21
16258780 ATATCGTGTA
* *
16258790 ACATATCATAACATATATTAT
1 ACATATCATAGCATATCTTAT
* * *
16258811 GACATATCATAGCAAATCTCAAA
1 -ACATATCATAGCATATCT-TAT
16258834 ACATATCATAGCATATCTTAT
1 ACATATCATAGCATATCTTAT
16258855 ATCATATC
1 A-CATATC
16258863 TCACCCCTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 2 0.05
22 38 0.93
23 1 0.02
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (21 bp):
ACATATCATAGCATATCTTAT
Found at i:16261668 original size:184 final size:184
Alignment explanation
Indices: 16261357--16261727 Score: 679
Period size: 184 Copynumber: 2.0 Consensus size: 184
16261347 TTTGTGCCAA
* *
16261357 TATGAATGAGGTTTTTCTCAATTTCTCATATTTTTCAATTTAATCACTATGATCTCTCTCTCTCT
1 TATGAATGAGGTTTTTCTCAATTTCTCATATTTTTCAATTTAATCACTATGATCACTCTCACTCT
*
16261422 CTTGGCTTTTATTCATTCTATGCTTTTATCACACTCACTTTGCTTTTAACCCTCATAATGCTTTT
66 CTTGGCTTTTATTCATTCTATGCTTTTATCACACTCACTTTGCTTTTAACCCTCACAATGCTTTT
*
16261487 GTTCACACATTCATTTTATTTTAAGGCACATACTTGCAAGAATTTTATACTTAT
131 GTTCACACATTCATTTTATTTTAAGGCACATACTTGCAAGAAATTTATACTTAT
*
16261541 TATGAATGAGGTTTTTCTCAATTTCTCATATTTTTCAATTTAATCACTGTGATCACTCTCACTCT
1 TATGAATGAGGTTTTTCTCAATTTCTCATATTTTTCAATTTAATCACTATGATCACTCTCACTCT
*
16261606 CTTGGCTTTTATTCGTTCTATGCTTTTATCACACTCACTTTGCTTTTAACCCTCACAATGCTTTT
66 CTTGGCTTTTATTCATTCTATGCTTTTATCACACTCACTTTGCTTTTAACCCTCACAATGCTTTT
*
16261671 GTTCACACATTCATTTTATTTTAAGGCACATACTTGTAAGAAATTTATACTTAT
131 GTTCACACATTCATTTTATTTTAAGGCACATACTTGCAAGAAATTTATACTTAT
16261725 TAT
1 TAT
16261728 ACTATAACGT
Statistics
Matches: 180, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
184 180 1.00
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (184 bp):
TATGAATGAGGTTTTTCTCAATTTCTCATATTTTTCAATTTAATCACTATGATCACTCTCACTCT
CTTGGCTTTTATTCATTCTATGCTTTTATCACACTCACTTTGCTTTTAACCCTCACAATGCTTTT
GTTCACACATTCATTTTATTTTAAGGCACATACTTGCAAGAAATTTATACTTAT
Found at i:16262885 original size:29 final size:30
Alignment explanation
Indices: 16262830--16262888 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
16262820 ATCTCAAAAT
* *
16262830 TATACATGAACTTTGATTTAATGTGCAATTG
1 TATACATGAACTTTAATTT-AGGTGCAATTG
16262861 TATACATGAACTTTAATTT-GGTGCAATT
1 TATACATGAACTTTAATTTAGGTGCAATT
16262889 ATGCACGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
31 18 0.69
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAGGTGCAATTG
Found at i:16263570 original size:19 final size:19
Alignment explanation
Indices: 16263546--16263584 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
16263536 TAAAGAGAAT
16263546 TAACTTTCCCCACTAAAAG
1 TAACTTTCCCCACTAAAAG
16263565 TAACTTTCCCCACTAAAAG
1 TAACTTTCCCCACTAAAAG
16263584 T
1 T
16263585 TAAAGTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.31, G:0.05, T:0.28
Consensus pattern (19 bp):
TAACTTTCCCCACTAAAAG
Found at i:16271234 original size:19 final size:20
Alignment explanation
Indices: 16271191--16271237 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
16271181 CATGTACCTA
16271191 AAAAATATTATATTAAAATT
1 AAAAATATTATATTAAAATT
*
16271211 -TAAATATTA-ATT-AAATT
1 AAAAATATTATATTAAAATT
16271228 CAAAAATATT
1 -AAAAATATT
16271238 TAAATACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 15 0.65
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAAATATTATATTAAAATT
Found at i:16272004 original size:16 final size:16
Alignment explanation
Indices: 16271949--16272004 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
16271939 AAAAATATTT
*
16271949 AAATTTGAGAAAGTTC
1 AAATTTGAGAAAATTC
** *
16271965 AAGCTTGAGAAATTTC
1 AAATTTGAGAAAATTC
*
16271981 -GATATTGAGAAAATTC
1 AAAT-TTGAGAAAATTC
16271997 AAATTTGA
1 AAATTTGA
16272005 TAGAACTTGA
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
16 28 0.93
17 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (16 bp):
AAATTTGAGAAAATTC
Found at i:16272791 original size:2 final size:2
Alignment explanation
Indices: 16272773--16272817 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
16272763 GTTGCATTTT
* * * *
16272773 TA TA CA TA TA TA CA TA TA TA TA TA TA TA TG TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16272815 TA T
1 TA T
16272818 TTCTTTTGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (2 bp):
TA
Found at i:16276299 original size:23 final size:22
Alignment explanation
Indices: 16276264--16276310 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
16276254 TCAACGTCTC
*
16276264 TTTGCATGCATTTTACCATTCA
1 TTTGCATGCATTTTACCATGCA
*
16276286 TTTGCATTGCATTTTATCATGCA
1 TTTGCA-TGCATTTTACCATGCA
16276309 TT
1 TT
16276311 AAATTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (22 bp):
TTTGCATGCATTTTACCATGCA
Found at i:16279250 original size:99 final size:98
Alignment explanation
Indices: 16279129--16279760 Score: 498
Period size: 99 Copynumber: 6.4 Consensus size: 98
16279119 AGTCTCTCTA
* * * *
16279129 AGGTTACAGTGGAATAGG-GTGAAGCTTCAACACCAAATCTTATATACCTGAAGTTGTAGTGAAT
1 AGGTTACAGTGGAAT-GGAGTGAAGCTTCAACACCAAATCCTATATCCCTGAAGTTGCAGTGGAT
*
16279193 CGGATTAAAATAAACAATAAATCTCAATCTCCCTG
65 CGGATTAAAATAAA-AATAGATCTCAATCTCCCTG
* *
16279228 AGGTTACAGTGGAATGGAGTGAAG-TTACAAC-CTCAAATCC--TA----T-AAGTTGTA-AGGA
1 AGGTTACAGTGGAATGGAGTGAAGCTT-CAACAC-CAAATCCTATATCCCTGAAGTTGCAGTGGA
* * * * *
16279283 TCGAAGTAAAAAAAAAACAGATCTCAATCTCCCTA
64 TCGGATTAAAATAAAAATAGATCTCAATCTCCCTG
* * * * *
16279318 AGGTTACAGTGAAATGAAGTGAAGCTTCAACACCAAATTCTATATCCTTGAAGTTGTAGTGGATC
1 AGGTTACAGTGGAATGGAGTGAAGCTTCAACACCAAATCCTATATCCCTGAAGTTGCAGTGGATC
* * * * **
16279383 GGATTAAAATAAGTAACAGATATAAATCTATCTG
66 GGATTAAAATAA-AAATAGATCTCAATCTCCCTG
* * * * * * * *
16279417 AGTTTATAGTGGAATGAAGTAAAG-TTACAACACCAAATCCTATACCCCTAAAATTGCAGTGGGT
1 AGGTTACAGTGGAATGGAGTGAAGCTT-CAACACCAAATCCTATATCCCTGAAGTTGCAGTGGAT
* * * * *
16279481 CAGATTAAAGTTATAAAAGTATATCTCAATCTTCTTG
65 CGGATTAAA---ATAAAAATAGATCTCAATCTCCCTG
* * * * *
16279518 AGGTTAGAGTGGAATGGAGTGAAGCTTCAATATCAAATCCTATTTCCCTAAAGTTGCAGTGGATC
1 AGGTTACAGTGGAATGGAGTGAAGCTTCAACACCAAATCCTATATCCCTGAAGTTGCAGTGGATC
* * *
16279583 AGATTAAAATAAGTAATGGATCTCAATCTCCCTG
66 GGATTAAAATAA-AAATAGATCTCAATCTCCCTG
** ** * ** ** * * *
16279617 AAATTGTAGTGGAATGGAGTAAAG-TTACATTACCAAATCCTATGCCCCTGAAGTTACAATGGGT
1 AGGTTACAGTGGAATGGAGTGAAGCTT-CAACACCAAATCCTATATCCCTGAAGTTGCAGTGGAT
* *
16279681 CGAATTAAAGTTACAAAAGTAGATCTCAATCTCCCTG
65 CGGATTAAA-ATA-AAAA-TAGATCTCAATCTCCCTG
* * *
16279718 ATGTTATAGTGGAATGAAGTGAAGCTTCAACACCAAATCCTAT
1 AGGTTACAGTGGAATGGAGTGAAGCTTCAACACCAAATCCTAT
16279761 CTTCTTGAAG
Statistics
Matches: 424, Mismatches: 84, Indels: 48
0.76 0.15 0.09
Matches are distributed among these distances:
90 49 0.12
91 17 0.04
92 10 0.02
93 1 0.00
96 1 0.00
97 10 0.02
98 27 0.06
99 174 0.41
100 4 0.01
101 123 0.29
102 8 0.02
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (98 bp):
AGGTTACAGTGGAATGGAGTGAAGCTTCAACACCAAATCCTATATCCCTGAAGTTGCAGTGGATC
GGATTAAAATAAAAATAGATCTCAATCTCCCTG
Found at i:16279654 original size:200 final size:200
Alignment explanation
Indices: 16279087--16279858 Score: 667
Period size: 200 Copynumber: 3.9 Consensus size: 200
16279077 GAAGTTGCAG
* * * * * * *
16279087 TGGGTCGAATTAAAGTTACAAAAGCAAATCTTAGTCTCTCTAAGGTTACAGTGGAAT-AGGGTGA
1 TGGGTCGAATTAAAGTTACAAAAGTAGATCTCAATCTCCCTGAGGTTACAGTGGAATGA-AGTGA
* * * * * ** ***
16279151 AGCTTCAACACCAAATCTTATATACC-TGAAGTTGTAGTGAATCGGATTAAAATAAACAATAAAT
65 AGCTTCAACACCAAATCCTAT-TTCCTTGAAGTTGCAGTGGATCAGATTAAAATAAGTAACGGAT
* ** ** * *
16279215 CTCAATCTCCCTGAGGTTACAGTGGAATGGAGTGAAGTTACAAC-CTCAAATCC--TA----T-A
129 CTCAATCTCTCTGAAATTGTAGTGGAATGGAGTAAAGTTACATCAC-CAAATCCTATACCCCTAA
* **
16279272 AGTTGTAA
193 AATTACAA
* * * ** * *
16279280 -GGATCGAAGTAAA---AAAAAAACAGATCTCAATCTCCCTAAGGTTACAGTGAAATGAAGTGAA
1 TGGGTCGAATTAAAGTTACAAAAGTAGATCTCAATCTCCCTGAGGTTACAGTGGAATGAAGTGAA
* * * * * *
16279341 GCTTCAACACCAAATTCTATATCCTTGAAGTTGTAGTGGATCGGATTAAAATAAGTAACAGATAT
66 GCTTCAACACCAAATCCTATTTCCTTGAAGTTGCAGTGGATCAGATTAAAATAAGTAACGGATCT
* * ** * * *
16279406 AAATCTATCTGAGTTTATAGTGGAATGAAGTAAAGTTACAACACCAAATCCTATACCCCTAAAAT
131 CAATCTCTCTGAAATTGTAGTGGAATGGAGTAAAGTTACATCACCAAATCCTATACCCCTAAAAT
* *
16279471 TGCAG
196 TACAA
* * * * * *
16279476 TGGGTC-AGATTAAAGTTATAAAAGTATATCTCAATCTTCTTGAGGTTAGAGTGGAATGGAGTGA
1 TGGGTCGA-ATTAAAGTTACAAAAGTAGATCTCAATCTCCCTGAGGTTACAGTGGAATGAAGTGA
* * * * *
16279540 AGCTTCAATATCAAATCCTATTTCCCTAAAGTTGCAGTGGATCAGATTAAAATAAGTAATGGATC
65 AGCTTCAACACCAAATCCTATTTCCTTGAAGTTGCAGTGGATCAGATTAAAATAAGTAACGGATC
* * * * *
16279605 TCAATCTCCCTGAAATTGTAGTGGAATGGAGTAAAGTTACATTACCAAATCCTATGCCCCTGAAG
130 TCAATCTCTCTGAAATTGTAGTGGAATGGAGTAAAGTTACATCACCAAATCCTATACCCCTAAAA
16279670 TTACAA
195 TTACAA
* *
16279676 TGGGTCGAATTAAAGTTACAAAAGTAGATCTCAATCTCCCTGATGTTATAGTGGAATGAAGTGAA
1 TGGGTCGAATTAAAGTTACAAAAGTAGATCTCAATCTCCCTGAGGTTACAGTGGAATGAAGTGAA
* * * ** *
16279741 GCTTCAACACCAAATCCTATCTT-CTTGAAGTTACGGTGAAGAAGATTAAAACTATAGTAGCGGA
66 GCTTCAACACCAAATCCTAT-TTCCTTGAAGTTGCAGTGGATCAGATTAAAA-TA-AGTAACGGA
* * * * *
16279805 TCTCAATCTCTTTGAAGTTGCAGTGGAATGGAGTGAAGTTACATCACCACATCC
128 TCTCAATCTCTCTGAAATTGTAGTGGAATGGAGTAAAGTTACATCACCAAATCC
16279859 AATCTTATGC
Statistics
Matches: 468, Mismatches: 92, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
188 2 0.00
189 132 0.28
190 2 0.00
191 2 0.00
192 11 0.02
195 1 0.00
196 7 0.01
197 9 0.02
200 243 0.52
201 5 0.01
202 54 0.12
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.28
Consensus pattern (200 bp):
TGGGTCGAATTAAAGTTACAAAAGTAGATCTCAATCTCCCTGAGGTTACAGTGGAATGAAGTGAA
GCTTCAACACCAAATCCTATTTCCTTGAAGTTGCAGTGGATCAGATTAAAATAAGTAACGGATCT
CAATCTCTCTGAAATTGTAGTGGAATGGAGTAAAGTTACATCACCAAATCCTATACCCCTAAAAT
TACAA
Found at i:16279789 original size:101 final size:99
Alignment explanation
Indices: 16279420--16279842 Score: 268
Period size: 101 Copynumber: 4.2 Consensus size: 99
16279410 CTATCTGAGT
* * * * * * * * *
16279420 TTATAGTGGAATGAAGTAAAG-TTACAACACCAAATCCTATAC-CCCTAAAATTGCAGTGGGTCA
1 TTATAGTGGAATGGAGTGAAGCTT-CAATACCAAATCCTAT-CTTCCTGAAGTTACAGTGAG-AA
* * * *
16279483 GATTAAAGTTATAAAAGTATATCTCAATCTTCTTGAGG
63 GATTAAAGTTA-AAAAGTAGATCTCAATCTCCCTGAAG
* * * *
16279521 TTAGAGTGGAATGGAGTGAAGCTTCAATATCAAATCCTAT-TTCCCTAAAGTTGCAGTG-GATCA
1 TTATAGTGGAATGGAGTGAAGCTTCAATACCAAATCCTATCTT-CCTGAAGTTACAGTGAGA--A
* * * *
16279584 GATTAAA-ATAAGTAA-TGGATCTCAATCTCCCTGAAA
63 GATTAAAGTTAA-AAAGTAGATCTCAATCTCCCTGAAG
* * * * * * **
16279620 TTGTAGTGGAATGGAGTAAAG-TTACATTACCAAATCCTATGC-CCCTGAAGTTACAATGGGTCG
1 TTATAGTGGAATGGAGTGAAGCTT-CAATACCAAATCCTAT-CTTCCTGAAGTTACAGTGAGAAG
*
16279683 AATTAAAGTTACAAAAGTAGATCTCAATCTCCCTGATG
64 -ATTAAAGTTA-AAAAGTAGATCTCAATCTCCCTGAAG
* * * *
16279721 TTATAGTGGAATGAAGTGAAGCTTCAACACCAAATCCTATCTTCTTGAAGTTACGGTGAAGAAGA
1 TTATAGTGGAATGGAGTGAAGCTTCAATACCAAATCCTATCTTCCTGAAGTTACAGTG-AGAAGA
** ** ** **
16279786 TTAAAACTATAGTAGCGGATCTCAATCTCTTTGAAG
65 TTAAAGTTA-AAAAGTAGATCTCAATCTCCCTGAAG
**
16279822 TTGCAGTGGAATGGAGTGAAG
1 TTATAGTGGAATGGAGTGAAG
16279843 TTACATCACC
Statistics
Matches: 248, Mismatches: 57, Indels: 34
0.73 0.17 0.10
Matches are distributed among these distances:
98 3 0.01
99 66 0.27
100 11 0.04
101 162 0.65
102 6 0.02
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (99 bp):
TTATAGTGGAATGGAGTGAAGCTTCAATACCAAATCCTATCTTCCTGAAGTTACAGTGAGAAGAT
TAAAGTTAAAAAGTAGATCTCAATCTCCCTGAAG
Found at i:16280032 original size:46 final size:46
Alignment explanation
Indices: 16279850--16280079 Score: 223
Period size: 46 Copynumber: 5.0 Consensus size: 46
16279840 AAGTTACATC
* *
16279850 ACCA-CATCCAATCTTATGCCCCTAAATCCAGAGGGACAAATTGAA
1 ACCACCATCCAATCTTATACCCCTAAATCCAGAGGGGCAAATTGAA
* * * * * **
16279895 GCCACCATCTAATCTTATA-CCCAAAACCCAAAGGGGCGGATTGAA
1 ACCACCATCCAATCTTATACCCCTAAATCCAGAGGGGCAAATTGAA
*
16279940 GCCACCATCCAATCTTATACCCCTAAATCCAGAGGGGCAAATTGAA
1 ACCACCATCCAATCTTATACCCCTAAATCCAGAGGGGCAAATTGAA
* * * * *
16279986 ACCATCATCCAATATTATACCTCTAAATCTAGAGGGGCAGATTGAA
1 ACCACCATCCAATCTTATACCCCTAAATCCAGAGGGGCAAATTGAA
* * * *
16280032 ACCGCGAAGGT-GAATCTTATACCCCTAAATCTATAGAGGGGCAAATTG
1 ACCAC-CA--TCCAATCTTATACCCCTAAATC--CAGAGGGGCAAATTG
16280080 GCGCTGTAAA
Statistics
Matches: 150, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
45 41 0.27
46 76 0.51
47 1 0.01
48 17 0.11
49 1 0.01
50 14 0.09
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (46 bp):
ACCACCATCCAATCTTATACCCCTAAATCCAGAGGGGCAAATTGAA
Found at i:16280128 original size:50 final size:50
Alignment explanation
Indices: 16280041--16280164 Score: 140
Period size: 50 Copynumber: 2.5 Consensus size: 50
16280031 AACCGCGAAG
* * * *** **
16280041 GTGAATCTTATACCCCTAAATCTATAGAGGGGCAAATTGGCGCTGTAAAA
1 GTGAATCTTATACCCCTAAAGCTATAGACGAGCAAATTAAAGCTACAAAA
* * *
16280091 GTGAATCTTATACCCCTAAAGCTGTAGACGAGTAAATTAAATCTACAAAA
1 GTGAATCTTATACCCCTAAAGCTATAGACGAGCAAATTAAAGCTACAAAA
*
16280141 GTGAATCTTATACTCCTAAAGCTA
1 GTGAATCTTATACCCCTAAAGCTA
16280165 AAGAAGGGCA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (50 bp):
GTGAATCTTATACCCCTAAAGCTATAGACGAGCAAATTAAAGCTACAAAA
Found at i:16280477 original size:23 final size:26
Alignment explanation
Indices: 16280451--16280497 Score: 73
Period size: 23 Copynumber: 1.9 Consensus size: 26
16280441 AATGGTATGA
16280451 TTAATTAAGG-TT-AT-AAAAAAGGG
1 TTAATTAAGGCTTAATGAAAAAAGGG
16280474 TTAATTAAGGCTTAATGAAAAAAG
1 TTAATTAAGGCTTAATGAAAAAAG
16280498 TCTTAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
24 2 0.10
25 2 0.10
26 7 0.33
ACGTcount: A:0.49, C:0.02, G:0.19, T:0.30
Consensus pattern (26 bp):
TTAATTAAGGCTTAATGAAAAAAGGG
Found at i:16280503 original size:26 final size:23
Alignment explanation
Indices: 16280451--16280503 Score: 61
Period size: 26 Copynumber: 2.2 Consensus size: 23
16280441 AATGGTATGA
*
16280451 TTAATTAAGGTTATAAAAAAGGG
1 TTAATTAAGGTTATAAAAAAGGC
*
16280474 TTAATTAAGGCTTAATGAAAAAAGTC
1 TTAATTAAGG-TT-AT-AAAAAAGGC
16280500 TTAA
1 TTAA
16280504 ACTTTACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.40
24 2 0.08
25 2 0.08
26 11 0.44
ACGTcount: A:0.47, C:0.04, G:0.17, T:0.32
Consensus pattern (23 bp):
TTAATTAAGGTTATAAAAAAGGC
Found at i:16281349 original size:41 final size:41
Alignment explanation
Indices: 16281277--16281418 Score: 214
Period size: 41 Copynumber: 3.4 Consensus size: 41
16281267 ACTTGATGTG
* *
16281277 TAAATGGAAGACTCATGTCTCGGGATAAGCATGAGGGGATAT
1 TAAA-GGAAGACTCATGTCTTGGGATGAGCATGAGGGGATAT
*
16281319 TAAAGGAAGACTCATGTCTTAGGATGAGCATG-GGAGGATAT
1 TAAAGGAAGACTCATGTCTTGGGATGAGCATGAGG-GGATAT
*
16281360 TAAAGGAAGACTCATGTCTTGGGATGAGCATGAGGGAATAT
1 TAAAGGAAGACTCATGTCTTGGGATGAGCATGAGGGGATAT
*
16281401 TAAAGGAAGACTAATGTC
1 TAAAGGAAGACTCATGTC
16281419 CCGAGTTGAG
Statistics
Matches: 92, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
40 2 0.02
41 84 0.91
42 6 0.07
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.24
Consensus pattern (41 bp):
TAAAGGAAGACTCATGTCTTGGGATGAGCATGAGGGGATAT
Found at i:16281429 original size:41 final size:41
Alignment explanation
Indices: 16281277--16281477 Score: 190
Period size: 41 Copynumber: 4.8 Consensus size: 41
16281267 ACTTGATGTG
* * * *
16281277 TAAATGGAAGACTCATGTCTCGGGATAAGCATGAGGGGATAT
1 TAAA-GGAAGACTCATGTCCCGAGATGAGCATGAGGGAATAT
** *
16281319 TAAAGGAAGACTCATGT-CTTAGGATGAGCATG-GGAGGATAT
1 TAAAGGAAGACTCATGTCCCGA-GATGAGCATGAGG-GAATAT
** *
16281360 TAAAGGAAGACTCATGTCTTGGGATGAGCATGAGGGAATAT
1 TAAAGGAAGACTCATGTCCCGAGATGAGCATGAGGGAATAT
* * ** *
16281401 TAAAGGAAGACTAATGTCCCGAGTTGAGCATGAGATTATGTAT
1 TAAAGGAAGACTCATGTCCCGAGATGAGCATGAG-GGA-ATAT
* *
16281444 TAAAGGAAGACTAATGTCCCGAGTTGAGCATGAG
1 TAAAGGAAGACTCATGTCCCGAGATGAGCATGAG
16281478 ATTATGTATT
Statistics
Matches: 136, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
40 2 0.01
41 89 0.65
42 8 0.06
43 37 0.27
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.24
Consensus pattern (41 bp):
TAAAGGAAGACTCATGTCCCGAGATGAGCATGAGGGAATAT
Found at i:16281429 original size:82 final size:83
Alignment explanation
Indices: 16281277--16281461 Score: 230
Period size: 82 Copynumber: 2.2 Consensus size: 83
16281267 ACTTGATGTG
* * **
16281277 TAAATGGAAGACTCATGTCTCGGGATAAGCATGAGGGGATATTAAAGGAAGACTCATGTCTTAGG
1 TAAA-GGAAGACTCATGTCTCGGGATAAGCATGAGGGAATATTAAAGGAAGACTAATGTCCGAGG
*
16281342 ATGAGCATGGGAGGA-TAT
65 ATGAGCATGAGAGGAGTAT
* *
16281360 TAAAGGAAGACTCATGTCTTGGGATGAGCATGAGGGAATATTAAAGGAAGACTAATGTCCCGA-G
1 TAAAGGAAGACTCATGTCTCGGGATAAGCATGAGGGAATATTAAAGGAAGACTAATGT-CCGAGG
* **
16281424 TTGAGCATGAGATTATGTAT
65 ATGAGCATGAGAGGA-GTAT
*
16281444 TAAAGGAAGACTAATGTC
1 TAAAGGAAGACTCATGTC
16281462 CCGAGTTGAG
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
82 62 0.70
83 6 0.07
84 20 0.23
ACGTcount: A:0.35, C:0.11, G:0.29, T:0.25
Consensus pattern (83 bp):
TAAAGGAAGACTCATGTCTCGGGATAAGCATGAGGGAATATTAAAGGAAGACTAATGTCCGAGGA
TGAGCATGAGAGGAGTAT
Found at i:16281455 original size:43 final size:43
Alignment explanation
Indices: 16281398--16281498 Score: 202
Period size: 43 Copynumber: 2.3 Consensus size: 43
16281388 CATGAGGGAA
16281398 TATTAAAGGAAGACTAATGTCCCGAGTTGAGCATGAGATTATG
1 TATTAAAGGAAGACTAATGTCCCGAGTTGAGCATGAGATTATG
16281441 TATTAAAGGAAGACTAATGTCCCGAGTTGAGCATGAGATTATG
1 TATTAAAGGAAGACTAATGTCCCGAGTTGAGCATGAGATTATG
16281484 TATTAAAGGAAGACT
1 TATTAAAGGAAGACT
16281499 CGTGAGTGGG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.28
Consensus pattern (43 bp):
TATTAAAGGAAGACTAATGTCCCGAGTTGAGCATGAGATTATG
Found at i:16282237 original size:21 final size:21
Alignment explanation
Indices: 16282221--16282261 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
16282211 TTGGTAGTGT
*
16282221 CATGGCTTGTATCGGTAGAAG
1 CATGACTTGTATCGGTAGAAG
16282242 CATGACTTGTATCGGTAGAA
1 CATGACTTGTATCGGTAGAA
16282262 CTATCTCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (21 bp):
CATGACTTGTATCGGTAGAAG
Found at i:16282634 original size:50 final size:50
Alignment explanation
Indices: 16282543--16282848 Score: 294
Period size: 50 Copynumber: 6.1 Consensus size: 50
16282533 TTACATAAAG
* * *
16282543 TGAAGTTGCAAAAGCGAATCTTATACCCCTAAAGCTGTAGAGGGGTAGAT
1 TGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGCTATAGAGGGGCAGAT
* * * * *
16282593 TGAAACTACAAAGGCGAATCTTGTACCCCTAAAGTTATAGAGGGGCAGAT
1 TGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGCTATAGAGGGGCAGAT
* * * *
16282643 TGAAGCTGCAAAAGCGAATCTTATACCGCTAAA-CATGTAGAGGTGCAAAT
1 TGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGC-TATAGAGGGGCAGAT
* * * * * *
16282693 TGAAG-TCGCGAAGGCAAATCTTATACCCCTAAAGTTGTAGAGAGGCAGAT
1 TGAAGCT-GCAAAAGCGAATCTTATACCCCTAAAGCTATAGAGGGGCAGAT
** * * * *
16282743 TGAAGCTGTGAAAGTGAATCTTATACCCCTAAAGCTATACAGAGGCATAT
1 TGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGCTATAGAGGGGCAGAT
* * * * * *
16282793 T-AATGCTGCAAAAGTGAATGTTGTACCCCTAAAGCTATAGAAGGGTAGAG
1 TGAA-GCTGCAAAAGCGAATCTTATACCCCTAAAGCTATAGAGGGGCAGAT
16282843 TGAAGC
1 TGAAGC
16282849 CAAAATAGCA
Statistics
Matches: 207, Mismatches: 43, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
49 3 0.01
50 201 0.97
51 3 0.01
ACGTcount: A:0.36, C:0.17, G:0.24, T:0.23
Consensus pattern (50 bp):
TGAAGCTGCAAAAGCGAATCTTATACCCCTAAAGCTATAGAGGGGCAGAT
Found at i:16282861 original size:150 final size:150
Alignment explanation
Indices: 16282539--16282833 Score: 344
Period size: 150 Copynumber: 2.0 Consensus size: 150
16282529 GATGTTACAT
* * * *
16282539 AAAGTGAAGTTGCAAAAGCGAATCTTATACCCCTAAAGCTGTAGAGGGGTAGATTGAAACTACAA
1 AAAGTGAAGTCGCAAAAGCAAATCTTATACCCCTAAAGCTGTAGAGAGGCAGATTGAAACTACAA
* * * *
16282604 AGGCGAATCTTGTACCCCTAAAGTTATAGAGGGGCAGATTGAAGCTGCAAAAGCGAATCTTATAC
66 AGGCGAATCTTATACCCCTAAAGCTATACAGAGGCAGATTGAAGCTGCAAAAGCGAATCTTATAC
* *
16282669 CGCTAAACATGTAGAGGTGC
131 CCCTAAACATATAGAGGTGC
* * * * * **
16282689 AAATTGAAGTCGCGAAGGCAAATCTTATACCCCTAAAGTTGTAGAGAGGCAGATTGAAGCTGTGA
1 AAAGTGAAGTCGCAAAAGCAAATCTTATACCCCTAAAGCTGTAGAGAGGCAGATTGAAACT-ACA
* * * * *
16282754 AA-GTGAATCTTATACCCCTAAAGCTATACAGAGGCATATT-AATGCTGCAAAAGTGAATGTTGT
65 AAGGCGAATCTTATACCCCTAAAGCTATACAGAGGCAGATTGAA-GCTGCAAAAGCGAATCTTAT
16282817 ACCCCTAAAGC-TATAGA
129 ACCCCTAAA-CATATAGA
16282834 AGGGTAGAGT
Statistics
Matches: 120, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
149 2 0.02
150 114 0.95
151 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (150 bp):
AAAGTGAAGTCGCAAAAGCAAATCTTATACCCCTAAAGCTGTAGAGAGGCAGATTGAAACTACAA
AGGCGAATCTTATACCCCTAAAGCTATACAGAGGCAGATTGAAGCTGCAAAAGCGAATCTTATAC
CCCTAAACATATAGAGGTGC
Found at i:16283779 original size:21 final size:21
Alignment explanation
Indices: 16283755--16283795 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16283745 ACCCTGCAAC
* *
16283755 TTCTATCGATACAAGCAAACG
1 TTCTACCGAAACAAGCAAACG
*
16283776 TTCTACCGAAACAAGTAAAC
1 TTCTACCGAAACAAGCAAAC
16283796 AGATTTCATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.22
Consensus pattern (21 bp):
TTCTACCGAAACAAGCAAACG
Found at i:16284322 original size:18 final size:18
Alignment explanation
Indices: 16284301--16284369 Score: 79
Period size: 18 Copynumber: 3.8 Consensus size: 18
16284291 TATTGCTCTT
*
16284301 ACGAGCTAGTATGCTTAA
1 ACGAGCCAGTATGCTTAA
* *
16284319 ACGAGCTAGTATAC-TATA
1 ACGAGCCAGTATGCTTA-A
16284337 ACGAGCCAGTATGCTCT-A
1 ACGAGCCAGTATGCT-TAA
16284355 ACGAGCCAGTATGCT
1 ACGAGCCAGTATGCT
16284370 ACTCCTTCCG
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
17 2 0.04
18 42 0.93
20 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (18 bp):
ACGAGCCAGTATGCTTAA
Found at i:16287492 original size:17 final size:17
Alignment explanation
Indices: 16287451--16287492 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
16287441 TAATGATAAT
*
16287451 ATAAATATATAATGTCC
1 ATAAATATATAATGTAC
16287468 ATAAATATATAATG-AC
1 ATAAATATATAATGTAC
16287484 AT-AATATAT
1 ATAAATATAT
16287493 TAATTTAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 7 0.29
16 3 0.12
17 14 0.58
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (17 bp):
ATAAATATATAATGTAC
Found at i:16291229 original size:63 final size:64
Alignment explanation
Indices: 16291130--16291256 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 64
16291120 ATTGGTAAAA
* * *
16291130 ACTCTTCAATTCTTAATAAAATATAGGTCTTGCAACCTTTTTTAATTATTCTCTCT-AAAAATT
1 ACTCTTCAATTCTTAATAAAATATAGGTCTAGCAACCGTTTTTAATTATTCCCTCTGAAAAATT
*
16291193 ACTCTTCAATTCTTAATAAAATATAGGTGTAGCAACCGTTTTTAATTATTCCCTCTGAAAAATT
1 ACTCTTCAATTCTTAATAAAATATAGGTCTAGCAACCGTTTTTAATTATTCCCTCTGAAAAATT
16291257 CAAGAGAAAG
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
63 52 0.88
64 7 0.12
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (64 bp):
ACTCTTCAATTCTTAATAAAATATAGGTCTAGCAACCGTTTTTAATTATTCCCTCTGAAAAATT
Found at i:16294418 original size:20 final size:21
Alignment explanation
Indices: 16294380--16294419 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
16294370 GTCAGCCAAA
16294380 AAGTATCGATACCTTTTTGACC
1 AAGTATCGATA-CTTTTTGACC
16294402 AAGTATCGATA-TTTTTGA
1 AAGTATCGATACTTTTTGA
16294420 AATATTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (21 bp):
AAGTATCGATACTTTTTGACC
Found at i:16295419 original size:29 final size:29
Alignment explanation
Indices: 16295360--16295432 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
16295350 ATATATAGTT
* *
16295360 TAAAATTGCAAAA-AATATCTAAAATATA
1 TAAAATTGTAAAATAATATCTAAAATACA
*
16295388 TAAAAATTGTAAAATAATATTTAAAAT-CA
1 T-AAAATTGTAAAATAATATCTAAAATACA
16295417 TAAAATT-T-AAATAATA
1 TAAAATTGTAAAATAATA
16295433 GAAAATTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 8 0.20
27 1 0.03
28 7 0.17
29 13 0.32
30 11 0.28
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (29 bp):
TAAAATTGTAAAATAATATCTAAAATACA
Found at i:16295713 original size:43 final size:43
Alignment explanation
Indices: 16295665--16295866 Score: 192
Period size: 43 Copynumber: 4.7 Consensus size: 43
16295655 GGAAAATGCT
* *
16295665 GCTATAGAACATGATCTTTAGCGGCGCTTTTCCCTCAAACGCC
1 GCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
* * * * *
16295708 GCTATAGAACATGGTCTTTAGCAGTGCTTTTTCCATAAACGCT
1 GCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
** **
16295751 GCTGCAGAACATGGT-TTGTAGCGGCATTTTTCCCACAAACG-C
1 GCTATAGAACATGGTCTT-TAGCGGCGCTTTTCCCACAAACGCC
* * * * *
16295793 GTTATAGAACATGGTCTTTAGTGACGCTTTTCCCACAAAAGTC
1 GCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
* ** * *
16295836 GGTATAGAACATTATCTTTAGCTGTGCTTTT
1 GCTATAGAACATGGTCTTTAGCGGCGCTTTT
16295867 TGTACAAACG
Statistics
Matches: 125, Mismatches: 31, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
42 32 0.26
43 93 0.74
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (43 bp):
GCTATAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
Found at i:16295845 original size:85 final size:86
Alignment explanation
Indices: 16295657--16295857 Score: 212
Period size: 85 Copynumber: 2.3 Consensus size: 86
16295647 TTTATGTGGG
* *
16295657 AAAATGCTGCTATAGAACATGATCTTTAGCGGCGCTTTTCCCTCAAACGCCGCTATAGAACATGG
1 AAAA-GCTGCTATAGAACATGATCTTTAGCGGCACTTTTCCCACAAACGCCGCTATAGAACATGG
* * *
16295722 TCTTTAGCAGTGCTTTTTCCAT
65 TCTTTAGCAGCGCTTTTCCCAC
* ** * * *
16295744 AAACGCTGCTGCAGAACATGGT-TTGTAGCGGCATTTTTCCCACAAACG-CGTTATAGAACATGG
1 AAAAGCTGCTATAGAACATGATCTT-TAGCGGCACTTTTCCCACAAACGCCGCTATAGAACATGG
*
16295807 TCTTTAG-TGACGCTTTTCCCAC
65 TCTTTAGCAG-CGCTTTTCCCAC
* *
16295829 AAAAG-TCGGTATAGAACATTATCTTTAGC
1 AAAAGCT-GCTATAGAACATGATCTTTAGC
16295858 TGTGCTTTTT
Statistics
Matches: 92, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
84 2 0.02
85 50 0.54
86 37 0.40
87 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (86 bp):
AAAAGCTGCTATAGAACATGATCTTTAGCGGCACTTTTCCCACAAACGCCGCTATAGAACATGGT
CTTTAGCAGCGCTTTTCCCAC
Found at i:16299609 original size:17 final size:17
Alignment explanation
Indices: 16299587--16299620 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16299577 CTACAGCTGT
* *
16299587 AAAAGAAGTTGGATCTG
1 AAAAGAAATGGGATCTG
16299604 AAAAGAAATGGGATCTG
1 AAAAGAAATGGGATCTG
16299621 CAATTCTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.06, G:0.29, T:0.21
Consensus pattern (17 bp):
AAAAGAAATGGGATCTG
Found at i:16305152 original size:15 final size:15
Alignment explanation
Indices: 16305125--16305163 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
16305115 GAAGAAGGAA
*
16305125 AATGAAGAAGAGAAAG
1 AATGAAGAGGAG-AAG
16305141 AA-GAAGAGGAGAAG
1 AATGAAGAGGAGAAG
16305155 AATGAAGAG
1 AATGAAGAG
16305164 AAGGAAGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 5 0.24
15 14 0.67
16 2 0.10
ACGTcount: A:0.59, C:0.00, G:0.36, T:0.05
Consensus pattern (15 bp):
AATGAAGAGGAGAAG
Found at i:16305161 original size:27 final size:28
Alignment explanation
Indices: 16305114--16305171 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
16305104 GAACCTGAGG
16305114 AGAAGAAGGAAAATGAAGAAGAGAAAGA
1 AGAAGAAGGAAAATGAAGAAGAGAAAGA
* *
16305142 AGAAG-AGGAGAA-GAATGAAGAGAAGGA
1 AGAAGAAGGAAAATGAA-GAAGAGAAAGA
16305169 AGA
1 AGA
16305172 TGCCCCAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 3 0.11
27 19 0.70
28 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.36, T:0.03
Consensus pattern (28 bp):
AGAAGAAGGAAAATGAAGAAGAGAAAGA
Found at i:16306227 original size:25 final size:25
Alignment explanation
Indices: 16306193--16306240 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
16306183 TCATTTATAA
*
16306193 AAAAAAG-AAAGAAAGAAAGAAGAGG
1 AAAAAAGAAAAG-AAGAAAAAAGAGG
*
16306218 AAAAGAGAAAAGAAGAAAAAAGA
1 AAAAAAGAAAAGAAGAAAAAAGA
16306241 AATATATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (25 bp):
AAAAAAGAAAAGAAGAAAAAAGAGG
Found at i:16313374 original size:29 final size:27
Alignment explanation
Indices: 16313342--16313621 Score: 171
Period size: 29 Copynumber: 9.6 Consensus size: 27
16313332 GGATACCCGG
16313342 GGGTAAAATGGTAATTTTTGGTGAAATCA
1 GGGTAAAATGG-AA-TTTTGGTGAAATCA
* * *
16313371 GGGTCAAAATGGAATTTTAG-AAAATTTA
1 GGGT-AAAATGGAATTTTGGTGAAA-TCA
*
16313399 GGGGTAAAATGGTAATTTTGGTGAAATCG
1 -GGGTAAAATGG-AATTTTGGTGAAATCA
*
16313428 GGGTTAAAAATGGAATTTT-G-GAAAGTTCGG
1 GGG-T-AAAATGGAATTTTGGTGAAA--TC-A
*
16313458 GGGTAAAATGGTAATTTCGGTGAAATC-
1 GGGTAAAATGG-AATTTTGGTGAAATCA
*
16313485 GGGATTAAAATTGAATTTT-G-GAAAGTTCGA
1 GGG--TAAAATGGAATTTTGGTGAAA--TC-A
16313515 GGGTAAAATGGTAATTTTTGGTGAAATCGA
1 GGGTAAAATGG-AA-TTTTGGTGAAATC-A
*
16313545 GGTTAAAAATGGAATTTT-G-GAAAGTTCGA
1 GGGT-AAAATGGAATTTTGGTGAAA--TC-A
*
16313574 GGGTAAAATGGTAATTTTTGGTGAAATCG
1 GGGTAAAATGG-AA-TTTTGGTGAAATCA
16313603 GGGTTAAAAATGGAATTTT
1 GGG-T-AAAATGGAATTTT
16313622 TAAATTTTAG
Statistics
Matches: 205, Mismatches: 14, Indels: 64
0.72 0.05 0.23
Matches are distributed among these distances:
26 4 0.02
27 15 0.07
28 47 0.23
29 64 0.31
30 47 0.23
31 20 0.10
32 8 0.04
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.33
Consensus pattern (27 bp):
GGGTAAAATGGAATTTTGGTGAAATCA
Found at i:16313380 original size:58 final size:59
Alignment explanation
Indices: 16313304--16313621 Score: 439
Period size: 58 Copynumber: 5.5 Consensus size: 59
16313294 GAAGAAACGA
* * * **
16313304 TGAAATCGGGGTTGAAAATGGGACTTTTGGATA-CCCGGGGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAAT-GGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGG
* * * * **
16313363 TGAAATCAGGG-TCAAAATGGAATTTTAGAAAATTTAGGGGTAAAATGGTAA-TTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGG
*
16313420 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAA-TTTCGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGG
* * *
16313478 TGAAATCGGGATT-AAAATTGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGG
* *
16313536 TGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGG
1 TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGG
16313595 TGAAATCGGGGTTAAAAATGGAATTTT
1 TGAAATCGGGGTTAAAAATGGAATTTT
16313622 TAAATTTTAG
Statistics
Matches: 231, Mismatches: 24, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
57 62 0.27
58 89 0.39
59 80 0.35
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.32
Consensus pattern (59 bp):
TGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTTGG
Found at i:16314003 original size:162 final size:162
Alignment explanation
Indices: 16313721--16314062 Score: 515
Period size: 162 Copynumber: 2.1 Consensus size: 162
16313711 AGGCATCCAG
* * *
16313721 CAGTCAAGGGGCTAAATTGTAAATCTGGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAACG
1 CAGTCAAAGGACTAAATTATAAATCTGGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAACG
* * * *
16313786 TGATTTAGGAATTAAATTAAAATAAATTAAAAATAACAGGGACTAGATACATAAATAAGCCAAAA
66 TGATTTAGGAATTAAATTAAAATAAATTAAAAATAAAAAGGACTAAATACATAAATAAACCAAAA
*
16313851 AGTGACACGTGGCAACCCCTGGTGTAGTCAAA
131 AGTGACACGTGGCAACCCCTGGTGCAGTCAAA
* **
16313883 CAGTCAAAGGACTAATTTATAAATCTTTAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAA-G
1 CAGTCAAAGGACTAAATTATAAATCTGGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAACG
* *
16313947 TTGATTTAGGGATTAAATTAAAATAAATTAAAAATAAAAAGGACTAAATGCATAAATAAACCAAA
66 -TGATTTAGGAATTAAATTAAAATAAATTAAAAATAAAAAGGACTAAATACATAAATAAACCAAA
* * *
16314012 AAGTGACACGTGGCGACCTCTGGTGCAGTCCAA
130 AAGTGACACGTGGCAACCCCTGGTGCAGTCAAA
*
16314045 CAGTCAAAGGATTAAATT
1 CAGTCAAAGGACTAAATT
16314063 GAAAACCAAT
Statistics
Matches: 161, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
161 1 0.01
162 160 0.99
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.27
Consensus pattern (162 bp):
CAGTCAAAGGACTAAATTATAAATCTGGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAACG
TGATTTAGGAATTAAATTAAAATAAATTAAAAATAAAAAGGACTAAATACATAAATAAACCAAAA
AGTGACACGTGGCAACCCCTGGTGCAGTCAAA
Found at i:16315812 original size:11 final size:11
Alignment explanation
Indices: 16315792--16315869 Score: 54
Period size: 11 Copynumber: 7.1 Consensus size: 11
16315782 AATTTAGTAT
*
16315792 TTTAATTTTAA
1 TTTAATTTAAA
16315803 TTTAAATTTAAA
1 TTT-AATTTAAA
**
16315815 TTTAAGGTAAA
1 TTTAATTTAAA
*
16315826 TTTAA-ATATAA
1 TTTAATTTA-AA
16315837 -TT-ATTTAAA
1 TTTAATTTAAA
**
16315846 TTTACCTTAAA
1 TTTAATTTAAA
16315857 TTTAAATTTAAA
1 TTT-AATTTAAA
16315869 T
1 T
16315870 CAATTTAATT
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
9 3 0.06
10 8 0.15
11 24 0.46
12 17 0.33
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:16315818 original size:6 final size:6
Alignment explanation
Indices: 16315778--16315869 Score: 71
Period size: 6 Copynumber: 15.2 Consensus size: 6
16315768 ACTTTTAATG
* * * **
16315778 TTTAAA TTTAGTA TTTTAA TTTTAA TTTAAA TTTAAA TTT-AA GGTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
16315826 TTTAAA TATAATTA TTTAAA TTT-AC CTTAAA TTTAAA TTTAAA T
1 TTTAAA TTTAA--A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T
16315870 CAATTTAATT
Statistics
Matches: 67, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
5 6 0.09
6 52 0.78
7 4 0.06
8 5 0.07
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:16315818 original size:17 final size:16
Alignment explanation
Indices: 16315792--16315877 Score: 77
Period size: 17 Copynumber: 5.3 Consensus size: 16
16315782 AATTTAGTAT
*
16315792 TTTAATTTTAATTTAAA
1 TTTAAATTTAA-TTAAA
*
16315809 TTTAAATTTAAGGTAAA
1 TTTAAATTTAA-TTAAA
*
16315826 TTTAAATATAATT--A
1 TTTAAATTTAATTAAA
*
16315840 TTTAAATTTACCTTAAA
1 TTTAAATTTA-ATTAAA
* *
16315857 TTTAAATTTAAATCAA
1 TTTAAATTTAATTAAA
16315873 TTTAA
1 TTTAA
16315878 TTCTAAATTA
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
14 10 0.18
15 2 0.04
16 9 0.16
17 35 0.62
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (16 bp):
TTTAAATTTAATTAAA
Found at i:16316241 original size:38 final size:36
Alignment explanation
Indices: 16316190--16316776 Score: 178
Period size: 38 Copynumber: 15.6 Consensus size: 36
16316180 CTATCCAACT
16316190 TTACTTCAATTTCAAGAGGATGGGAAACGATCTTGCTC
1 TTACTTCAATTTCAAGA-GAT-GGAAACGATCTTGCTC
* * * *
16316228 TTACTTCAATTTC-AGAGAT-AAAGACTTG-TTTTCCAAC
1 TTACTTCAATTTCAAGAGATGGAA-AC--GATCTTGC-TC
*
16316265 TCTACTTCAATTTCAAGAGGATAGGAAATGA-CGTTGCTC
1 T-TACTTCAATTTCAAGA-GAT-GGAAACGATC-TTGCTC
* * * *
16316304 TTACTTCAATTTC-AGAGAT-AAAGACG-TGTTATCCAC
1 TTACTTCAATTTCAAGAGATGGAA-ACGAT-CT-TGCTC
* *
16316340 TCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGGTC
1 T-TACTTCAATTTCAAGA-GAT-GGAAACGATCTTGCTC
* * *
16316379 TTACTTCAATTTC-AGAGAT-AAAGACG-TGTT-ATCC
1 TTACTTCAATTTCAAGAGATGGAA-ACGATCTTGCT-C
*
16316413 ATTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTC
1 --T-TACTTCAATTTCAAGA-GAT-GGAAACGATCTTGCTC
* ***
16316454 TTACTTCAATTTC-AGAGAT-AAAGACTTGTTATCCAACTC
1 TTACTTCAATTTCAAGAGATGGAA-AC--G--ATCTTGCTC
* * *
16316493 -TACTTAAATTTCAAGAAGATAGGAAATGATCTTGTTC
1 TTACTTCAATTTCAAG-AGAT-GGAAACGATCTTGCTC
* * * * *
16316530 TTACATCAATTTC-AGAGAT-AAAGACTTGAT-ATCCAAC
1 TTACTTCAATTTCAAGAGATGGAA-AC--GATCTTGC-TC
* *
16316567 TCTACTTCAATTTCAAGAAGATAGGAAATGATCTTGTTC
1 T-TACTTCAATTTCAAG-AGAT-GGAAACGATCTTGCTC
* * * *
16316606 TTACTTCAATTTC-AGAGAT-AAAGACTTGAT-ATCCAAC
1 TTACTTCAATTTCAAGAGATGGAA-AC--GATCTTGC-TC
* * *
16316643 TCTACTTCAATTTCAAGAGGATAGGAAATGACCTTGATC
1 T-TACTTCAATTTCAAGA-GAT-GGAAACGATCTTGCTC
* * * *
16316682 TTACTTCAATTTC-AGAGAT-AAAGACTTGAT-ATCCAAC
1 TTACTTCAATTTCAAGAGATGGAA-AC--GATCTTGC-TC
*
16316719 TCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTC
1 T-TACTTCAATTTCAAGA-GAT-GGAAACGATCTTGCTC
16316758 TTACTTCAATTTC-AGAGAT
1 TTACTTCAATTTCAAGAGAT
16316777 AAAGACGTGT
Statistics
Matches: 397, Mismatches: 80, Indels: 146
0.64 0.13 0.23
Matches are distributed among these distances:
33 1 0.00
34 18 0.05
35 11 0.03
36 38 0.10
37 69 0.17
38 159 0.40
39 47 0.12
40 29 0.07
41 14 0.04
42 11 0.03
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (36 bp):
TTACTTCAATTTCAAGAGATGGAAACGATCTTGCTC
Found at i:16316292 original size:76 final size:76
Alignment explanation
Indices: 16316165--16316903 Score: 1182
Period size: 76 Copynumber: 9.8 Consensus size: 76
16316155 TGCTCTTTAG
* * * *
16316165 AGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATGGGAAACGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
16316230 ACTTCAATTTC
66 ACTTCAATTTC
*
16316241 AGAGATAAAGACTTGTTTTCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGA-CGTTGCTCT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATC-TTGCTCT
16316305 TACTTCAATTTC
65 TACTTCAATTTC
* * *
16316317 AGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGGTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
16316381 ACTTCAATTTC
66 ACTTCAATTTC
* * *
16316392 AGAGATAAAGACGTGTTATCC-ATTCTACTTCAATTTCAAGAGGATAGGAAAAGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
16316456 ACTTCAATTTC
66 ACTTCAATTTC
* * *
16316467 AGAGATAAAGACTTGTTATCCAACTCTACTTAAATTTCAAGAAGATAGGAAATGATCTTGTTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
*
16316532 ACATCAATTTC
66 ACTTCAATTTC
* * *
16316543 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAAGATAGGAAATGATCTTGTTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
16316608 ACTTCAATTTC
66 ACTTCAATTTC
* * *
16316619 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGACCTTGATCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
16316684 ACTTCAATTTC
66 ACTTCAATTTC
*
16316695 AGAGATAAAGACTTGATATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
16316760 ACTTCAATTTC
66 ACTTCAATTTC
* * * * *
16316771 AGAGATAAAGACGTGTTATCC-ACTCTACTTCAATTTGAAGAGGATAGGAAAAGATCCTGGTCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
*
16316835 A-TTCAATTTT
66 ACTTCAATTTC
16316845 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTT
1 AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTT
16316904 CCTGCGGTCT
Statistics
Matches: 622, Mismatches: 37, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
74 28 0.05
75 218 0.35
76 376 0.60
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (76 bp):
AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGATAGGAAATGATCTTGCTCTT
ACTTCAATTTC
Found at i:16317764 original size:11 final size:11
Alignment explanation
Indices: 16317748--16317791 Score: 65
Period size: 10 Copynumber: 4.1 Consensus size: 11
16317738 TCTCCGATTT
16317748 TTTTTTTTGTG
1 TTTTTTTTGTG
16317759 TTTTTTTTGTG
1 TTTTTTTTGTG
16317770 -TTTTTTTGT-
1 TTTTTTTTGTG
16317779 TTTTTTTATGTG
1 TTTTTTT-TGTG
16317791 T
1 T
16317792 AATATTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 15 0.50
11 14 0.47
12 1 0.03
ACGTcount: A:0.02, C:0.00, G:0.16, T:0.82
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:16317775 original size:21 final size:21
Alignment explanation
Indices: 16317749--16317791 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
16317739 CTCCGATTTT
16317749 TTTTTTTGTGTTTTTTT-TGTG
1 TTTTTTTGT-TTTTTTTATGTG
16317770 TTTTTTTGTTTTTTTTATGTG
1 TTTTTTTGTTTTTTTTATGTG
16317791 T
1 T
16317792 AATATTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.02, C:0.00, G:0.16, T:0.81
Consensus pattern (21 bp):
TTTTTTTGTTTTTTTTATGTG
Found at i:16328706 original size:29 final size:29
Alignment explanation
Indices: 16328666--16329060 Score: 199
Period size: 29 Copynumber: 13.5 Consensus size: 29
16328656 ACCCGGGGGC
16328666 AAAATGGTAATTTTGGTGAAATCAGGGTTA
1 AAAATGG-AATTTTGGTGAAATCAGGGTTA
* * *
16328696 AAAATGGAATTTTGG-AAAATTTAGGGGT-
1 AAAATGGAATTTTGGTGAAA-TCAGGGTTA
* *
16328724 AAAATGGTAATTTCGATGAAATC-GGGATTA
1 AAAATGG-AATTTTGGTGAAATCAGGG-TTA
* ** * *
16328754 AAAATGGAATTTTGGAGAGTTCGGGGGT-
1 AAAATGGAATTTTGGTGAAATCAGGGTTA
*
16328782 AAAATGGTAATTTTTAGTGAAAT-AGGGGTTA
1 AAAATGG-AA-TTTTGGTGAAATCA-GGGTTA
*
16328813 AAAATAGAATTTT-G-GAAAGTTCGAGGG-T-
1 AAAATGGAATTTTGGTGAAA--TC-AGGGTTA
16328841 AAAATGGTAATTTTTGGTGAAATCAGGGTTA
1 AAAATGG-AA-TTTTGGTGAAATCAGGGTTA
16328872 AAAATGGAATTTT-G-GAAAGTTCGAGGG-TA
1 AAAATGGAATTTTGGTGAAA--TC-AGGGTTA
*
16328901 AAATACT--AATTTTGGTGAAA-CCGAGGTTA
1 AAA-A-TGGAATTTTGGTGAAATCAG-GGTTA
* * *
16328930 AAAATAGAATTTT-G-GAAAGTTCGGGGGTA
1 AAAATGGAATTTTGGTGAAA--TCAGGGTTA
*
16328959 AAATACT--AATTTTGGTGAAA-CCGAGGTTA
1 AAA-A-TGGAATTTTGGTGAAATCAG-GGTTA
* *
16328988 AAAATGGAATTTT-G-GAAAGTTCGGGGGT-
1 AAAATGGAATTTTGGTGAAA--TCAGGGTTA
*
16329016 AAAATAGTAATTTTGGTGAAATC-GAGGTTA
1 AAAAT-GGAATTTTGGTGAAATCAG-GGTTA
16329046 AAAATGGAATTTTGG
1 AAAATGGAATTTTGG
16329061 AATTTTAGGG
Statistics
Matches: 284, Mismatches: 32, Indels: 99
0.68 0.08 0.24
Matches are distributed among these distances:
27 19 0.07
28 43 0.15
29 125 0.44
30 64 0.23
31 29 0.10
32 4 0.01
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.31
Consensus pattern (29 bp):
AAAATGGAATTTTGGTGAAATCAGGGTTA
Found at i:16328827 original size:59 final size:58
Alignment explanation
Indices: 16328626--16329062 Score: 561
Period size: 58 Copynumber: 7.5 Consensus size: 58
16328616 AGAAACGACA
* * * ** *
16328626 AAATCGGGGTTGAAAATGAGACTTTTGGATA-CCCGGGGGCAAAATGGTAATTTTGGTG
1 AAATCGGGGTTAAAAATG-GAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTGGTG
* * ** * *
16328684 AAATCAGGGTTAAAAATGGAATTTTGGAAAATTTAGGGGTAAAATGGTAATTTCGATG
1 AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTGGTG
* * *
16328742 AAATCGGGATTAAAAATGGAATTTTGGAGAGTTCGGGGGTAAAATGGTAATTTTTAGTG
1 AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAA-TTTTGGTG
* * *
16328801 AAATAGGGGTTAAAAATAGAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGTG
1 AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAA-TTTTGGTG
* * **
16328860 AAATCAGGGTTAAAAATGGAATTTTGGAAAGTTCGAGGGTAAAATACTAATTTTGGTG
1 AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTGGTG
* * * **
16328918 AAACCGAGGTTAAAAATAGAATTTTGGAAAGTTCGGGGGTAAAATACTAATTTTGGTG
1 AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTGGTG
* * *
16328976 AAACCGAGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATAGTAATTTTGGTG
1 AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTGGTG
*
16329034 AAATCGAGGTTAAAAATGGAATTTTGGAA
1 AAATCGGGGTTAAAAATGGAATTTTGGAA
16329063 TTTTAGGGTC
Statistics
Matches: 338, Mismatches: 39, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
57 10 0.03
58 225 0.67
59 103 0.30
ACGTcount: A:0.37, C:0.05, G:0.28, T:0.30
Consensus pattern (58 bp):
AAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGTAAAATGGTAATTTTGGTG
Found at i:16329403 original size:162 final size:162
Alignment explanation
Indices: 16329129--16329499 Score: 507
Period size: 162 Copynumber: 2.3 Consensus size: 162
16329119 AAAGGGTGGC
* * *
16329129 TGACACGTGGCAGCCCCACAG-GCA-TCCAACAGTCAAGGGGCTAAATTCTAAATCTGGAAAAAT
1 TGACACGTGGCAGCCCC-TAGTGCAGTCCAACAGTCAAGGGACTAAATTATAAATCTGGAAAAAT
*
16329192 TCTTGGGCCAATTTTGTAATTAAATAAAAGTTGATTTAGGAACTAAATTAAAACAAATTAAAAAT
65 TCTTGAGCCAATTTTGTAATTAAATAAAAGTTGATTTAGGAACTAAATTAAAACAAATTAAAAAT
* * * *
16329257 AACAGGGACTAGATACATAAATAAGCCAAAAAG
130 AAAAAGGACTAAATACATAAATAAACCAAAAAG
* * * * **
16329290 TGACACGTGGCAGCCCCTAGTGTAGTCAAACAGTCAATGGACTAATTTATAAATCTTTAAAAATT
1 TGACACGTGGCAGCCCCTAGTGCAGTCCAACAGTCAAGGGACTAAATTATAAATCTGGAAAAATT
*
16329355 CTTGAGCCAATTTTGTAATTAAATAAAAGTTGATTTAAGG-ATTAAATTAAAACAAATTAAAAAT
66 CTTGAGCCAATTTTGTAATTAAATAAAAGTTGATTT-AGGAACTAAATTAAAACAAATTAAAAAT
*
16329419 AAAAAGGACTAAATGCATAAATAAACCAAAAAG
130 AAAAAGGACTAAATACATAAATAAACCAAAAAG
* * * *
16329452 TGACACGTGGC-GACCTCTGGTGCAGTCCAACAGTCAAAGGATTAAATT
1 TGACACGTGGCAG-CCCCTAGTGCAGTCCAACAGTCAAGGGACTAAATT
16329500 GAAAACCAAT
Statistics
Matches: 183, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
160 2 0.01
161 20 0.11
162 158 0.86
163 3 0.02
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.25
Consensus pattern (162 bp):
TGACACGTGGCAGCCCCTAGTGCAGTCCAACAGTCAAGGGACTAAATTATAAATCTGGAAAAATT
CTTGAGCCAATTTTGTAATTAAATAAAAGTTGATTTAGGAACTAAATTAAAACAAATTAAAAATA
AAAAGGACTAAATACATAAATAAACCAAAAAG
Found at i:16331259 original size:16 final size:16
Alignment explanation
Indices: 16331212--16331251 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 16
16331202 TTAGTATTTT
*
16331212 AATTTAAATTTAAGATA
1 AATTTAAATTTAA-ATC
16331229 AATTTAAATTTAAATC
1 AATTTAAATTTAAATC
16331245 AATTTAA
1 AATTTAA
16331252 TTCTAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
AATTTAAATTTAAATC
Found at i:16331810 original size:17 final size:17
Alignment explanation
Indices: 16331790--16331823 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16331780 ATTAAATAAA
* *
16331790 CTAATTAACTATTTAAT
1 CTAACTAACTAGTTAAT
16331807 CTAACTAACTAGTTAAT
1 CTAACTAACTAGTTAAT
16331824 TAAAAAGAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (17 bp):
CTAACTAACTAGTTAAT
Found at i:16334693 original size:43 final size:43
Alignment explanation
Indices: 16334645--16334756 Score: 104
Period size: 42 Copynumber: 2.6 Consensus size: 43
16334635 CTATTGCTTA
* * *
16334645 ACTTTTAGCGTCGTTTTTCCCATAAATACCGCTAATGCTCTTT
1 ACTTTTAGCGACGTTTTTCCCATAAACACCGCTAATACTCTTT
* * * *
16334688 ACTTTTTA-CGGCGTTTTT-CGATAAACGCCGCTATTACTCTTT
1 AC-TTTTAGCGACGTTTTTCCCATAAACACCGCTAATACTCTTT
* *
16334730 ACCTTTT-GTGACATTTTTCCCATAAAC
1 A-CTTTTAGCGACGTTTTTCCCATAAAC
16334757 GTCATTATTG
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
42 31 0.56
43 19 0.35
44 5 0.09
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (43 bp):
ACTTTTAGCGACGTTTTTCCCATAAACACCGCTAATACTCTTT
Found at i:16334863 original size:40 final size:40
Alignment explanation
Indices: 16334762--16334866 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
16334752 TAAACGTCAT
* * *
16334762 TATTGTTTTACCTTTTCCGGCATTTATGAAAAAACGCAGC
1 TATTGCTTTACCTTTTCCAGCGTTTATGAAAAAACGCAGC
* * * *
16334802 TATTGCTTTACCTTTTGCAGCGTTTATGGAAAAATGCCGC
1 TATTGCTTTACCTTTTCCAGCGTTTATGAAAAAACGCAGC
*
16334842 TATTGCTTTACCTTTTTCAGCGTTT
1 TATTGCTTTACCTTTTCCAGCGTTT
16334867 TCGGTCCAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (40 bp):
TATTGCTTTACCTTTTCCAGCGTTTATGAAAAAACGCAGC
Found at i:16339280 original size:29 final size:29
Alignment explanation
Indices: 16339239--16339328 Score: 153
Period size: 29 Copynumber: 3.1 Consensus size: 29
16339229 GATAAGGGTC
* * *
16339239 TTATATCTACATCTGTAACTGTATCTGTG
1 TTATGTCTGCATCTGTAATTGTATCTGTG
16339268 TTATGTCTGCATCTGTAATTGTATCTGTG
1 TTATGTCTGCATCTGTAATTGTATCTGTG
16339297 TTATGTCTGCATCTGTAATTGTATCTGTG
1 TTATGTCTGCATCTGTAATTGTATCTGTG
16339326 TTA
1 TTA
16339329 AATTGGATTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 58 1.00
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (29 bp):
TTATGTCTGCATCTGTAATTGTATCTGTG
Found at i:16339283 original size:17 final size:17
Alignment explanation
Indices: 16339261--16339312 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
16339251 CTGTAACTGT
16339261 ATCTGTGTTATGTCTGC
1 ATCTGTGTTATGTCTGC
* *
16339278 ATC--TG-TA-AT-TGT
1 ATCTGTGTTATGTCTGC
16339290 ATCTGTGTTATGTCTGC
1 ATCTGTGTTATGTCTGC
16339307 ATCTGT
1 ATCTGT
16339313 AATTGTATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 4 0.15
15 4 0.15
16 1 0.04
17 11 0.42
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.48
Consensus pattern (17 bp):
ATCTGTGTTATGTCTGC
Found at i:16339527 original size:19 final size:19
Alignment explanation
Indices: 16339503--16339547 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
16339493 TGCTCTGCTC
16339503 TGCTTTGGTTGTTGTGGTT
1 TGCTTTGGTTGTTGTGGTT
16339522 TGCTTTGGTTGTTGTGGTT
1 TGCTTTGGTTGTTGTGGTT
16339541 TGCTTTG
1 TGCTTTG
16339548 TTATGTCTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.00, C:0.07, G:0.36, T:0.58
Consensus pattern (19 bp):
TGCTTTGGTTGTTGTGGTT
Found at i:16340079 original size:20 final size:20
Alignment explanation
Indices: 16340050--16340097 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
16340040 ATATCTTTGA
*
16340050 AAAGTGCTTTTAATAAAGCT
1 AAAGTTCTTTTAATAAAGCT
*
16340070 AAAGTTCTTTTAGTAAAGCT
1 AAAGTTCTTTTAATAAAGCT
*
16340090 GAAGTTCT
1 AAAGTTCT
16340098 GATTGACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (20 bp):
AAAGTTCTTTTAATAAAGCT
Found at i:16342283 original size:21 final size:23
Alignment explanation
Indices: 16342243--16342285 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
16342233 TAATAAATAG
*
16342243 GATTAATTAAAGGTTAATTAAGT
1 GATTAATTAAAGGCTAATTAAGT
16342266 GATTAA-TAAA-GCTAATTAAG
1 GATTAATTAAAGGCTAATTAAG
16342286 AAAGTCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 4 0.21
23 6 0.32
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.35
Consensus pattern (23 bp):
GATTAATTAAAGGCTAATTAAGT
Found at i:16343400 original size:36 final size:36
Alignment explanation
Indices: 16343360--16343450 Score: 130
Period size: 36 Copynumber: 2.5 Consensus size: 36
16343350 CATGACTTTT
*
16343360 GGGTCAACAGGGAGTAAAATGAGTAACATGAA-CTTC
1 GGGTCAACAGGGAGTAAAATGAGCAACAT-AACCTTC
* *
16343396 GGGTCAACAAGGAGCAAAATGAGCAACATAACCTTC
1 GGGTCAACAGGGAGTAAAATGAGCAACATAACCTTC
*
16343432 GGGTCAATAGGGAGTAAAA
1 GGGTCAACAGGGAGTAAAA
16343451 CAAATAATGA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
35 2 0.04
36 46 0.96
ACGTcount: A:0.41, C:0.15, G:0.27, T:0.16
Consensus pattern (36 bp):
GGGTCAACAGGGAGTAAAATGAGCAACATAACCTTC
Found at i:16344156 original size:21 final size:21
Alignment explanation
Indices: 16344117--16344168 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
16344107 ATTTTTCAGC
*
16344117 ATCGGTAGAAGTATGACTTGCT
1 ATCGGTAGAAGTATCACTTG-T
16344139 -TCGGTAGAAGT-TACACTTGT
1 ATCGGTAGAAGTAT-CACTTGT
16344159 ATCGGTAGAA
1 ATCGGTAGAA
16344169 CATTCCTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (21 bp):
ATCGGTAGAAGTATCACTTGT
Done.