Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005495.1 Hibiscus syriacus cultivar Beakdansim tig00012643_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 118212
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Found at i:2398 original size:19 final size:20
Alignment explanation
Indices: 2376--2416 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
2366 CTTGCTTTTG
2376 GAAAGATAGA-GGAA-GAGAA
1 GAAA-ATAGAGGGAAGGAGAA
*
2395 GAAAATGGAGGGAAGGAGAA
1 GAAAATAGAGGGAAGGAGAA
2415 GA
1 GA
2417 GGTTTGGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.21
19 8 0.42
20 7 0.37
ACGTcount: A:0.54, C:0.00, G:0.41, T:0.05
Consensus pattern (20 bp):
GAAAATAGAGGGAAGGAGAA
Found at i:4089 original size:50 final size:51
Alignment explanation
Indices: 3991--4094 Score: 176
Period size: 50 Copynumber: 2.1 Consensus size: 51
3981 TGACAAGAAC
3991 CTTAATCCATAGTATCTATTTATAGTGATAGTTTCTTGTTTACAAAGTAAA
1 CTTAATCCATAGTATCTATTTATAGTGATAGTTTCTTGTTTACAAAGTAAA
*
4042 CTTAATCCATAGTATCTA-TTGT-GTGATAAGTTTCTTGTTTACAAAGTAAA
1 CTTAATCCATAGTATCTATTTATAGTGAT-AGTTTCTTGTTTACAAAGTAAA
4092 CTT
1 CTT
4095 GCATAGAAAG
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
49 5 0.10
50 28 0.55
51 18 0.35
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (51 bp):
CTTAATCCATAGTATCTATTTATAGTGATAGTTTCTTGTTTACAAAGTAAA
Found at i:9792 original size:333 final size:331
Alignment explanation
Indices: 9119--10119 Score: 1507
Period size: 333 Copynumber: 3.0 Consensus size: 331
9109 AACTTGATAA
* *
9119 ATTTTGATTTTTGCATGAAATTACACAATACATATAATCTAGTATAGGAAAACTTTGAGGGTAGG
1 ATTTTGATTTTTGCATGAAATTACACAATACATATAATCTAGTATAGGAAAACTTTGAGGATAAG
*
9184 TATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACTAATATTTATTTTACAAAATGATGAT
66 TATTTTAAAATATGAATAATTTTATAAAAGTTTTATAAC-AATATTTCTTTTACAAAATGATGAT
* * *
9249 GATGACGATGATAAATATTTTATAATTTTAAAAATTATAAATTTCATAT-TTTTTGAAAAATTTA
130 GAT-A--ATAATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAATTTTA
* * *
9313 TTTACTATTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAACTTTTAATTACAATTG
192 TTGACTTTTAAAATTAATTGTTT--AAATATAAAAAATATTAAAATAAACTTTTAATTAAAATTG
* * *
9378 AGGGATAAAATGAATTATTATTCATTAATTATTATTTTTAACAACATTTAATAATGTTTATTCTT
255 AGGGATCAAATGAATTATTATTC-TTAATTATTATTTTTAACAACAATTAATAATGTTTATTCAT
9443 TTTTAATAAAATT
319 TTTTAATAAAATT
* * * *
9456 ATTTTGATTTTTGTATAAAATTACACAATACGTATAATCTAGTATAGAAAAACTTTGAGGATAAG
1 ATTTTGATTTTTGCATGAAATTACACAATACATATAATCTAGTATAGGAAAACTTTGAGGATAAG
*
9521 TATTTTAAAATATGAGTAATTTTATAAAAGTTTTATAATCAATATTTCTTTTACAAAATGATGAT
66 TATTTTAAAATATGAATAATTTTATAAAAGTTTTATAA-CAATATTTCTTTTACAAAATGATGAT
* *
9586 GATAATAATAAATATTTTATAATTTAAAAAAGTATAAATTTCATATATATTTGAAAATTTTATTG
130 GATAATAATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAATTTTATTG
* *
9651 ACTTTTAAAATTAATTGTTTAAATATAAAAAATATTAAAATAAAATTTTAATTAAAATTGAGCGA
195 ACTTTTAAAATTAATTGTTTAAATATAAAAAATATTAAAATAAACTTTTAATTAAAATTGAGGGA
*
9716 TCAAATGAATTATTATTCGTTAATTATTATTTTTAACAACAATTAATAATGTTTATTCAATTTTA
260 TCAAATGAATTATTATTC-TTAATTATTATTTTTAACAACAATTAATAATGTTTATTCATTTTTA
9781 ATAAAATT
324 ATAAAATT
9789 ATTTTGATTTTTGCATGAAATTACACAATACATATAATCTAGTATAGGAAAACTTTGAGGATAAG
1 ATTTTGATTTTTGCATGAAATTACACAATACATATAATCTAGTATAGGAAAACTTTGAGGATAAG
* * * *
9854 TTTTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAGTATTTCTTTTGCAAAATGCTGAA
66 TATTTTAAAATATGAATAATTTTATAAAAGTTTTATAA-CAATATTTCTTTTACAAAA---TGAT
* *
9919 GATGATGATAATAAATATTTTATAATTTAAAAAATTATAAATTTTATATATTTTTGAAAATTTTA
127 GATGATAATAATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAATTTTA
* *
9984 TTGACTTTTAAAATTAATTGTTTAAAAATATAAAAATATTAAAATAAACTTTTAATT-ACATTCG
192 TTGACTTTTAAAATTAATTGTTTAAATATA-AAAAATATTAAAATAAACTTTTAATTAAAATT-G
* *
10048 AGGGATCAAATGAATTATTA---TT-A--ATTATTTTTAATAACAGTTAATAATGTTTACTT-AT
255 AGGGATCAAATGAATTATTATTCTTAATTATTATTTTTAACAACAATTAATAATGTTTA-TTCAT
10106 TTTTAATAAAATT
319 TTTTAATAAAATT
10119 A
1 A
10120 GAGTTTAATA
Statistics
Matches: 612, Mismatches: 44, Indels: 23
0.90 0.06 0.03
Matches are distributed among these distances:
330 43 0.07
331 2 0.00
332 1 0.00
333 226 0.37
334 39 0.06
335 34 0.06
336 98 0.16
337 168 0.27
338 1 0.00
ACGTcount: A:0.43, C:0.05, G:0.08, T:0.43
Consensus pattern (331 bp):
ATTTTGATTTTTGCATGAAATTACACAATACATATAATCTAGTATAGGAAAACTTTGAGGATAAG
TATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACAATATTTCTTTTACAAAATGATGATG
ATAATAATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAATTTTATTGA
CTTTTAAAATTAATTGTTTAAATATAAAAAATATTAAAATAAACTTTTAATTAAAATTGAGGGAT
CAAATGAATTATTATTCTTAATTATTATTTTTAACAACAATTAATAATGTTTATTCATTTTTAAT
AAAATT
Found at i:9998 original size:18 final size:19
Alignment explanation
Indices: 9957--9998 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
9947 AAAAAATTAT
*
9957 AAATTTTATATATTTTTGA
1 AAATTTTATATACTTTTGA
9976 AAATTTTAT-TGACTTTT-A
1 AAATTTTATAT-ACTTTTGA
9994 AAATT
1 AAATT
9999 AATTGTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (19 bp):
AAATTTTATATACTTTTGA
Found at i:10246 original size:31 final size:31
Alignment explanation
Indices: 10208--10266 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
10198 CTTTACATCT
10208 TTTTTTATTGAAT-TTTATTCACTTTTAATTC
1 TTTTTTATTGAATCTTTATTCA-TTTTAATTC
* *
10239 TTTTTTATTGCATCTTTATTGATTTTAA
1 TTTTTTATTGAATCTTTATTCATTTTAA
10267 AAAAAAGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 18 0.72
32 7 0.28
ACGTcount: A:0.22, C:0.08, G:0.05, T:0.64
Consensus pattern (31 bp):
TTTTTTATTGAATCTTTATTCATTTTAATTC
Found at i:15683 original size:64 final size:64
Alignment explanation
Indices: 15596--15758 Score: 152
Period size: 64 Copynumber: 2.5 Consensus size: 64
15586 CCCTTACCAT
* * *
15596 GTGCATC-AATGCACTACCCATGCATCGATACACAAATCACCTTCGATGTTTT-AATCTTAAGGG
1 GTGCATCGAA-GCACTTCCTATGCATCGATACACAAATCACATTCGATGTTTTCAATCTTAA-GG
15659 G
64 G
* * * * ** * * *
15660 GTGTATCGATGCAC-TCCTTATGCATCGATGCACTAATTGCATTCGGTGTTTTCCATTTTTAAGG
1 GTGCATCGAAGCACTTCC-TATGCATCGATACACAAATCACATTCGATGTTTT-CAATCTTAAGG
15724 G
64 G
*
15725 GTGCATCGAAGCACTTCCTGTGCATCGATACACA
1 GTGCATCGAAGCACTTCCTATGCATCGATACACA
15759 CTGAACAATT
Statistics
Matches: 77, Mismatches: 17, Indels: 9
0.75 0.17 0.09
Matches are distributed among these distances:
63 2 0.03
64 37 0.48
65 29 0.38
66 9 0.12
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (64 bp):
GTGCATCGAAGCACTTCCTATGCATCGATACACAAATCACATTCGATGTTTTCAATCTTAAGGG
Found at i:17099 original size:17 final size:17
Alignment explanation
Indices: 17077--17191 Score: 51
Period size: 20 Copynumber: 6.3 Consensus size: 17
17067 GGTTTATACT
17077 TATAAGTATACTTATAA
1 TATAAGTATACTTATAA
17094 TATAAGTTTATA-TATAATATTTA
1 TATAAG--TATACT-T-ATA---A
17117 TATAAGTATACATTATACA
1 TATAAGTATAC-TTATA-A
* *
17136 TTATAATTATACTTCATAC
1 -TATAAGTATACTT-ATAA
*
17155 T-TAA--A-AGTATATAA
1 TATAAGTATACT-TATAA
17169 TATAAGTATACTTATAAA
1 TATAAGTATACTTAT-AA
17187 TATAA
1 TATAA
17192 ATCCTAATTT
Statistics
Matches: 75, Mismatches: 6, Indels: 33
0.66 0.05 0.29
Matches are distributed among these distances:
14 6 0.08
15 5 0.07
17 13 0.17
18 11 0.15
19 8 0.11
20 16 0.21
21 7 0.09
22 1 0.01
23 8 0.11
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (17 bp):
TATAAGTATACTTATAA
Found at i:17154 original size:20 final size:20
Alignment explanation
Indices: 17070--17165 Score: 60
Period size: 20 Copynumber: 4.9 Consensus size: 20
17060 AAACCAGGGT
17070 TTATAC-TTATAAGTATAC-
1 TTATACATTATAAGTATACA
*
17088 TTATA-A-TATAAGTTTATATA
1 TTATACATTATAAG--TATACA
* **
17108 TAATATTTATATAAGTATACA
1 TTATACAT-TATAAGTATACA
*
17129 TTATACATTATAATTATAC-
1 TTATACATTATAAGTATACA
*
17148 TTCATAC-TTAAAAGTATA
1 TT-ATACATTATAAGTATA
17166 TAATATAAGT
Statistics
Matches: 60, Mismatches: 10, Indels: 15
0.71 0.12 0.18
Matches are distributed among these distances:
17 6 0.10
18 5 0.08
19 15 0.25
20 18 0.30
21 10 0.17
23 6 0.10
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (20 bp):
TTATACATTATAAGTATACA
Found at i:17275 original size:2 final size:2
Alignment explanation
Indices: 17268--17348 Score: 135
Period size: 2 Copynumber: 39.5 Consensus size: 2
17258 TAAGTATAAG
17268 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
17310 TA TA TA TA TA TA TA TA TA TA TA TA GTA TA AA GTA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA T
17349 TCGAGGGACT
Statistics
Matches: 75, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
2 72 0.96
3 3 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:17588 original size:60 final size:60
Alignment explanation
Indices: 17510--17701 Score: 188
Period size: 60 Copynumber: 3.2 Consensus size: 60
17500 GATTTTGGGT
* * *
17510 AAAGTATAC-AAATGGTCCTTCAACTATAAGATATTGCTTTATTGAATCTTTCGACTATTA
1 AAAGT-TACAAAATAGTCCTTCAACTATAAAATATTACTTTATTGAATCTTTCGACTATTA
** * * *
17570 AAAGTTACAAAATAGTCCTTTGACTATAAAATGTTACTTTGTTGAGTCTTTCGACTATTA
1 AAAGTTACAAAATAGTCCTTCAACTATAAAATATTACTTTATTGAATCTTTCGACTATTA
* * * * * * ** * *
17630 AAGGTTACAAAGTAGTCGTTCAACCATGAAATGTTACTTTGCTGAGTCTCTCGACTATTA
1 AAAGTTACAAAATAGTCCTTCAACTATAAAATATTACTTTATTGAATCTTTCGACTATTA
* *
17690 ATAGTTATAAAA
1 AAAGTTACAAAA
17702 GGGTCTTCTG
Statistics
Matches: 110, Mismatches: 21, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
59 3 0.03
60 107 0.97
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (60 bp):
AAAGTTACAAAATAGTCCTTCAACTATAAAATATTACTTTATTGAATCTTTCGACTATTA
Found at i:17626 original size:31 final size:30
Alignment explanation
Indices: 17587--17687 Score: 80
Period size: 31 Copynumber: 3.4 Consensus size: 30
17577 CAAAATAGTC
17587 CTTT-GACTATAAAATGTTACTTTGTTGAGT
1 CTTTCGACTATAAAATGTTACTTTG-TGAGT
* * ***
17617 CTTTCGACTATTAAAGGTTACAAAGT-AGT
1 CTTTCGACTATAAAATGTTACTTTGTGAGT
* * * *
17646 CGTTCAACCATGAAATGTTACTTTGCTGAGT
1 CTTTCGACTATAAAATGTTACTTTG-TGAGT
*
17677 CTCTCGACTAT
1 CTTTCGACTAT
17688 TAATAGTTAT
Statistics
Matches: 51, Mismatches: 17, Indels: 5
0.70 0.23 0.07
Matches are distributed among these distances:
29 20 0.39
30 6 0.12
31 25 0.49
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (30 bp):
CTTTCGACTATAAAATGTTACTTTGTGAGT
Found at i:21601 original size:32 final size:32
Alignment explanation
Indices: 21541--21602 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
21531 TAACACATGC
* *
21541 CATGTCATCATCTTAGATAATATTATACATAT
1 CATGTCATCATATTAGATAATATGATACATAT
* * *
21573 CATGTCATTATATTAGGTAATGTGATACAT
1 CATGTCATCATATTAGATAATATGATACAT
21603 GTCAGATCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.40
Consensus pattern (32 bp):
CATGTCATCATATTAGATAATATGATACATAT
Found at i:21613 original size:32 final size:32
Alignment explanation
Indices: 21577--21638 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
21567 ACATATCATG
* *
21577 TCATTA-TATTAGGTAATGTGATACATGTCAGA
1 TCATTAGT-TTAGGTAACGTGATAAATGTCAGA
*
21609 TCATTAGTTTAGGTGACGTGATAAATGTCA
1 TCATTAGTTTAGGTAACGTGATAAATGTCA
21639 TATTATTACC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (32 bp):
TCATTAGTTTAGGTAACGTGATAAATGTCAGA
Found at i:21653 original size:32 final size:32
Alignment explanation
Indices: 21585--21663 Score: 77
Period size: 32 Copynumber: 2.5 Consensus size: 32
21575 TGTCATTATA
* * * **
21585 TTAGGTAATGTGATACATGTCAGATCATTAGT
1 TTAGGTGACGTGATAAATGTCAGATCATTACC
* *
21617 TTAGGTGACGTGATAAATGTCATATTATTACC
1 TTAGGTGACGTGATAAATGTCAGATCATTACC
* *
21649 TTAGGCGGCGTGATA
1 TTAGGTGACGTGATA
21664 TATGATACAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.35
Consensus pattern (32 bp):
TTAGGTGACGTGATAAATGTCAGATCATTACC
Found at i:28469 original size:38 final size:38
Alignment explanation
Indices: 28427--28501 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
28417 AGGTATCGTG
28427 ATCATATAATAACGATCACAGAGAATATCACTCCCGCT
1 ATCATATAATAACGATCACAGAGAATATCACTCCCGCT
28465 ATCATATAATAACGATCACAGAGAATATCACTCCCGC
1 ATCATATAATAACGATCACAGAGAATATCACTCCCGC
28502 CATATAGCGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.23
Consensus pattern (38 bp):
ATCATATAATAACGATCACAGAGAATATCACTCCCGCT
Found at i:29585 original size:2 final size:2
Alignment explanation
Indices: 29578--29616 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
29568 GCTAATTGAA
29578 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
29617 AAGAGATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:33863 original size:17 final size:15
Alignment explanation
Indices: 33841--33878 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 15
33831 CATGATATTA
33841 ATTTAATTTGATGTTTG
1 ATTTAATTTGA--TTTG
33858 ATTTAATTTGATTTG
1 ATTTAATTTGATTTG
33873 ATTTAA
1 ATTTAA
33879 ATGGAATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 10 0.48
17 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (15 bp):
ATTTAATTTGATTTG
Found at i:34385 original size:60 final size:59
Alignment explanation
Indices: 34248--34385 Score: 138
Period size: 60 Copynumber: 2.3 Consensus size: 59
34238 AACATAATGA
* * *
34248 ATAGTCAAGTGACCATATTGTAATTTTTAATTATCGAGTGACTCAACAAAGTAATACTCT
1 ATAGTC-AGGGACCATTTTGTAATTTTTAATTATCGAGTGACTCAACAAAATAATACTCT
* * * *
34308 ATAGTCAGAGGATCATTTTGTAATTTTTAA-TAGTCGA-TGGACTTAATAAAATAGTA-TCAT
1 ATAGTCAG-GGACCATTTTGTAATTTTTAATTA-TCGAGT-GACTCAACAAAATAATACTC-T
34368 ATAGTCGAGGGACCATTT
1 ATAGTC-AGGGACCATTT
34386 CCATACTTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
59 7 0.11
60 56 0.86
61 2 0.03
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (59 bp):
ATAGTCAGGGACCATTTTGTAATTTTTAATTATCGAGTGACTCAACAAAATAATACTCT
Found at i:37189 original size:37 final size:37
Alignment explanation
Indices: 37116--37190 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
37106 GTTAGAAAAT
* *
37116 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
37153 ATTTATATGATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
37190 A
1 A
37191 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:42145 original size:21 final size:21
Alignment explanation
Indices: 42121--42165 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
42111 ATAAAGTACA
*
42121 ATAACATACTAGGTAGCGCTT
1 ATAACATAATAGGTAGCGCTT
**
42142 ATAATGTAATAGGTAGCGCTT
1 ATAACATAATAGGTAGCGCTT
42163 ATA
1 ATA
42166 TTTACCTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (21 bp):
ATAACATAATAGGTAGCGCTT
Found at i:42914 original size:18 final size:18
Alignment explanation
Indices: 42891--42927 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
42881 CCGAATATAT
42891 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
42909 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
42927 A
1 A
42928 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:43157 original size:23 final size:23
Alignment explanation
Indices: 43131--43195 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
43121 ATGCGAGATA
43131 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
43154 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
43177 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
43196 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:43573 original size:21 final size:20
Alignment explanation
Indices: 43543--43596 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
43533 GATAGACACT
*
43543 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
43564 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
43587 TTACATTATA
1 TTACATTATA
43597 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:43584 original size:23 final size:23
Alignment explanation
Indices: 43558--43620 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
43548 ATATAACCAT
43558 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
43581 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
43604 TACCTATTACATCATAT
1 TACCTATTACATTATAT
43621 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:44003 original size:21 final size:20
Alignment explanation
Indices: 43973--44026 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
43963 GATAGACACT
*
43973 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
43994 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
44017 TTACATTATA
1 TTACATTATA
44027 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:44014 original size:23 final size:23
Alignment explanation
Indices: 43988--44050 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
43978 ATATAACCAT
43988 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
44011 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
44034 TACCTATTACATCATAT
1 TACCTATTACATTATAT
44051 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:44467 original size:23 final size:22
Alignment explanation
Indices: 44405--44476 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
44395 ACACTTTACA
*
44405 ATATAACCATTACCTATTACATT
1 ATATAACGA-TACCTATTACATT
44428 ATATAACGATACCTATTACATT
1 ATATAACGATACCTATTACATT
* * *
44450 ATATAAGGGCTACCTATTACATC
1 ATATAA-CGATACCTATTACATT
44473 ATAT
1 ATAT
44477 GTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 19 0.43
23 25 0.57
ACGTcount: A:0.39, C:0.19, G:0.06, T:0.36
Consensus pattern (22 bp):
ATATAACGATACCTATTACATT
Found at i:45295 original size:23 final size:23
Alignment explanation
Indices: 45265--45327 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
45255 AATATACCAT
45265 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
45288 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
45311 TACCTATTACATCATAT
1 TACCTATTACATTATAT
45328 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:45709 original size:21 final size:20
Alignment explanation
Indices: 45679--45732 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
45669 GATAGACACT
*
45679 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
45700 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
45723 TTACATTATA
1 TTACATTATA
45733 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:45720 original size:23 final size:23
Alignment explanation
Indices: 45694--45756 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
45684 ATATAACCAT
45694 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
45717 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
45740 TACCTATTACATCATAT
1 TACCTATTACATTATAT
45757 GTTACCTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:46131 original size:21 final size:20
Alignment explanation
Indices: 46101--46155 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 20
46091 GATAGACACT
*
46101 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
46122 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
46145 TTACATTATAA
1 TTACATTATAA
46156 GGGCTACCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 2 0.07
21 8 0.28
22 1 0.03
23 14 0.48
24 4 0.14
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:46163 original size:21 final size:22
Alignment explanation
Indices: 46116--46176 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
46106 ATATAACCAT
46116 TACCTATTACATTATATAAACGA
1 TACCTATTACA-TATATAAACGA
** *
46139 TACCTATTACAT-TATAAGGGC
1 TACCTATTACATATATAAACGA
46160 TACCTATTACATCATAT
1 TACCTATTACAT-ATAT
46177 GTTTACCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 18 0.55
22 1 0.03
23 14 0.42
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (22 bp):
TACCTATTACATATATAAACGA
Found at i:46359 original size:30 final size:29
Alignment explanation
Indices: 46320--46385 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
46310 TCATTTGCAC
* *
46320 AAAA-ATTATTT-GATTGTTTTATATTTTAT
1 AAAATATTATTTAGAAT-TTTTA-ATTTAAT
46349 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
46378 AATAATAT
1 AA-AATAT
46386 ATACCGTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 12 0.38
30 17 0.53
31 3 0.09
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:46555 original size:21 final size:20
Alignment explanation
Indices: 46525--46578 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
46515 GATAGACACT
*
46525 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
46546 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
46569 TTACATTATA
1 TTACATTATA
46579 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:46566 original size:23 final size:23
Alignment explanation
Indices: 46540--46602 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
46530 ATATAACCAT
46540 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
46563 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
46586 TACCTATTACATCATAT
1 TACCTATTACATTATAT
46603 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:46847 original size:426 final size:431
Alignment explanation
Indices: 43133--47552 Score: 8415
Period size: 427 Copynumber: 10.4 Consensus size: 431
43123 GCGAGATAGA
43133 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
43198 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
43263 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTAC-ATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
*
43327 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTAT-AAA-A-TATTTAGAATTTTA
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
43389 AATTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
43452 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
43517 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
43558 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
*
43623 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
43688 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
43753 ATTTCATTTGCAC-AAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
43817 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
43882 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
43947 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
43988 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
44053 TTACCTATTATATTGAAAGTGTCCATAC-TTTT-TAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
44116 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
44181 ATTTCATTTGCACAAAAAATTA-TTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
44245 AA-TTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
44309 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
44374 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
44415 TACCTATTACATTATAT-AACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
44479 TTACCTATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
44543 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
44608 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAAT-TTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
44672 AATTTAAT-ATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
44736 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
44801 ACACTTTTAT-AAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
44841 TACCTATT--A-TATA-AAACGATACCTATTACA-T-TATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
44900 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
44965 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
*
45030 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
45095 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
45160 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
45225 ACACTTTTATAAAAAGGATAGACACTTTACAATAT-ACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
45265 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
45330 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAACTT
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTT-AAAACTT
45395 ATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAAT
130 ATGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAAT
45460 AATTTCATTTGCAC-AAAAATTATTTGATTGTTTTTATA-TTTATAAAATATTATTTAGAATTTT
195 AATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTT
45523 TAATTTAATAATAATATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAAT
260 TAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAAT
45587 TAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATG
325 TAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATG
45652 GACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
390 GACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
45694 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATG-
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
45758 TTACCTATTATATTGAAAGTGTCC-TACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
45821 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTT-ATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
45885 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTAT-AAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
45949 AA-TT--TAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTAT-ATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
46010 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
46075 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
46116 TACCTATTACATTATATAAACGATACCTATTACA-T-TATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
46179 TTACCTATTATATTGAAAGTGTCCATACTTTTTAT-AAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
46243 TGTAATTTATGTTTCAA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
46307 ATTTCATTTGCAC-AAAAATTATTTGATTG-TTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
46370 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
46435 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
46499 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
46540 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
46605 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
46670 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
*
46735 ATTTCATTTGCAC-AAAAATTATTTGATTGTTTTTATATTTTAT-AAATATTATTTAGAATTTTA
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
46798 AATTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
46861 AATATCTTAAAACTCACTC-AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
46925 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
46966 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
47031 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
47096 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATG-TTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
47160 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
196 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
47225 AA-TT--TAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
261 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
47287 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
326 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
47352 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
47393 TACCTATTACATTATATAAACGATACCTATTACA-T-TATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
*
47456 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTATAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
47521 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
131 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
47553 ACTGCGAATT
Statistics
Matches: 3941, Mismatches: 8, Indels: 92
0.98 0.00 0.02
Matches are distributed among these distances:
420 40 0.01
421 176 0.04
422 382 0.10
423 66 0.02
424 299 0.08
425 610 0.15
426 615 0.16
427 669 0.17
428 490 0.12
429 149 0.04
430 359 0.09
431 86 0.02
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (431 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
Found at i:46981 original size:21 final size:20
Alignment explanation
Indices: 46951--47004 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
46941 GATAGACACT
*
46951 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
46972 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
46995 TTACATTATA
1 TTACATTATA
47005 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:46992 original size:23 final size:23
Alignment explanation
Indices: 46966--47028 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
46956 ATATAACCAT
46966 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
46989 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
47012 TACCTATTACATCATAT
1 TACCTATTACATTATAT
47029 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:47408 original size:21 final size:20
Alignment explanation
Indices: 47378--47432 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 20
47368 GATAGACACT
*
47378 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
47399 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
47422 TTACATTATAA
1 TTACATTATAA
47433 GGGCTACCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 2 0.07
21 8 0.28
22 1 0.03
23 14 0.48
24 4 0.14
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:47440 original size:21 final size:22
Alignment explanation
Indices: 47393--47453 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
47383 ATATAACCAT
47393 TACCTATTACATTATATAAACGA
1 TACCTATTACA-TATATAAACGA
** *
47416 TACCTATTACAT-TATAAGGGC
1 TACCTATTACATATATAAACGA
47437 TACCTATTACATCATAT
1 TACCTATTACAT-ATAT
47454 GTTTACCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 18 0.55
22 1 0.03
23 14 0.42
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (22 bp):
TACCTATTACATATATAAACGA
Found at i:49253 original size:184 final size:184
Alignment explanation
Indices: 48944--49605 Score: 1261
Period size: 184 Copynumber: 3.6 Consensus size: 184
48934 TTTTAAATGG
* **
48944 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGTTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
49009 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
49074 GATGTGTAAAATGTCGACACTTTTTTAAAACGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
49128 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
49193 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
49258 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
49312 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
49377 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
49442 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
*
49496 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGAGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
49561 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATT
49606 TTTATAATAT
Statistics
Matches: 470, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 470 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:50983 original size:3 final size:3
Alignment explanation
Indices: 50975--51061 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
50965 ACTTGTTTGG
* * * **
50975 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
51023 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
51062 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:50998 original size:18 final size:18
Alignment explanation
Indices: 50975--51076 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
50965 ACTTGTTTGG
50975 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
50993 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
51011 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
51029 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
51047 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
51065 AGCTTCATCTTC
1 ATCATCATCTTC
51077 TGCGACCGAT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:51042 original size:42 final size:42
Alignment explanation
Indices: 50983--51073 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
50973 GGATCATCAT
*
50983 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
51025 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
51067 CTTCATC
1 CTTCATC
51074 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:53052 original size:199 final size:199
Alignment explanation
Indices: 52538--53958 Score: 2677
Period size: 199 Copynumber: 7.1 Consensus size: 199
52528 TTTAAATTAG
* * *
52538 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
52603 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
52668 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG-GAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
52732 AAAA
196 AAAA
*
52736 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
52801 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
52866 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTTAATTCATTCTGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTG-TTTTTAATTCATTCTGGAAA
52931 AAAAA
195 AAAAA
52936 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
53000 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
53065 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
53130 AAAA
196 AAAA
53134 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
53199 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
53264 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAA
53329 AAAAA
195 AAAAA
53334 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
53399 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
53464 CGACACTTTTTATATATGGATCGACAC-TTATTGATGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
53528 AAAA
196 AAAA
53532 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
53597 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
53662 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
53727 AAAA
196 AAAA
53731 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
53796 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
53861 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
53926 AAAA
196 AAAA
*
53930 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
53959 TGACCCTTAA
Statistics
Matches: 1202, Mismatches: 16, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
198 442 0.37
199 507 0.42
200 253 0.21
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAA
Found at i:54067 original size:19 final size:19
Alignment explanation
Indices: 54040--54084 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
54030 ATTCACATAA
*
54040 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
54059 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
54078 AAAATTA
1 AAAATTA
54085 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:55916 original size:33 final size:33
Alignment explanation
Indices: 55879--55944 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
55869 CATCTTAATA
*
55879 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
55912 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
55945 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:58083 original size:24 final size:24
Alignment explanation
Indices: 58046--58098 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
58036 CCGTTCTATC
58046 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
58070 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
58094 TATTT
1 TATTT
58099 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:58289 original size:20 final size:19
Alignment explanation
Indices: 58243--58289 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
58233 TCCGGTATCA
*
58243 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
58262 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
58283 TTTTACC
1 TTTTACC
58290 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:58436 original size:20 final size:20
Alignment explanation
Indices: 58409--58455 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
58399 ACACTTTTAA
58409 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
58428 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
58449 TTTTACC
1 TTTTACC
58456 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:58942 original size:228 final size:226
Alignment explanation
Indices: 58521--58967 Score: 761
Period size: 228 Copynumber: 2.0 Consensus size: 226
58511 TTAAAACTGC
*
58521 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTTATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
* **
58586 TTAATTTTATAATTTAATTTACACAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTATT
66 TTAATTTAATAATTTAATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
* *
58651 TAGAATTTAAATTTAACAATATTAACCAAATATAATAATAATATGTTTTCAACAGTGAAATAAGT
131 TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAATATATTTTCAACAGTGAAATAAGT
*
58716 ATGGACACTTTTATAAAAATGATATATACTT
196 ATGGACACTTTTATAAAAAGGATATATACTT
*
58747 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
*
58812 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
65 ATTAATTTAATAATTTAATTTACAC-AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
* *
58877 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTC-ACAGTGAAATA
129 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT-AATATATTTTCAACAGTGAAATA
58941 AGTATGGACACTTTTATAAAAAGGATA
193 AGTATGGACACTTTTATAAAAAGGATA
58968 GATAATTTAC
Statistics
Matches: 207, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
226 4 0.02
227 81 0.39
228 112 0.54
229 10 0.05
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (226 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAATATATTTTCAACAGTGAAATAAGT
ATGGACACTTTTATAAAAAGGATATATACTT
Found at i:60262 original size:37 final size:37
Alignment explanation
Indices: 60186--60262 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
60176 TTTTTATATT
*
60186 TTTAATTTTGTACAAAAAATTAAATAAATATTATGAA
1 TTTAATTTTGTACAAAAAATTAAATAAATATTATCAA
* * *
60223 TTTAATTTTTTTA-AAAAAA-TATATAAATATTTTACAA
1 TTTAA-TTTTGTACAAAAAATTAAATAAATATTAT-CAA
60260 TTT
1 TTT
60263 GTAATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
36 12 0.35
37 16 0.47
38 6 0.18
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTACAAAAAATTAAATAAATATTATCAA
Found at i:60287 original size:18 final size:18
Alignment explanation
Indices: 60239--60287 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
60229 TTTTTTAAAA
*
60239 AAATATATAAATATTTTAC
1 AAATATAT-AATATTATAC
* *
60258 -AATTTGTAATATTATAC
1 AAATATATAATATTATAC
60275 AAATATATAATAT
1 AAATATATAATAT
60288 GGACAATTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
AAATATATAATATTATAC
Found at i:65864 original size:60 final size:60
Alignment explanation
Indices: 65737--65869 Score: 160
Period size: 60 Copynumber: 2.2 Consensus size: 60
65727 ATAGTAGAGT
** * *
65737 GACCATTTTGTAACTTTTAATAGTTGAGGAACTTAATAAAACAACATTCTACAACCAGAA
1 GACCATTTTGTAACTTTTAATAGTCAAAGAACTTAATAAAACAACAATCTACAACCAGAA
* * * * *
65797 GATCATTTTGTAACTTTTAATAGTCAAAGAACTTAATAAAGCAATAATCTATAATCGAGAA
1 GACCATTTTGTAACTTTTAATAGTCAAAGAACTTAATAAAACAACAATCTACAA-CCAGAA
65858 -ACCATTTGTGTA
1 GACCATTT-TGTA
65870 TTTTACCCTA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
60 52 0.85
61 9 0.15
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.32
Consensus pattern (60 bp):
GACCATTTTGTAACTTTTAATAGTCAAAGAACTTAATAAAACAACAATCTACAACCAGAA
Found at i:66478 original size:22 final size:22
Alignment explanation
Indices: 66450--66522 Score: 130
Period size: 22 Copynumber: 3.4 Consensus size: 22
66440 AAGAAATTTC
66450 GTTCGTTTAGTTGTTTGTGTTT
1 GTTCGTTTAGTTGTTTGTGTTT
66472 GTTCGTTTAGTT-TTTGTGTTT
1 GTTCGTTTAGTTGTTTGTGTTT
*
66493 GTTTGTTTAGTTGTTTGTGTTT
1 GTTCGTTTAGTTGTTTGTGTTT
66515 GTTCGTTT
1 GTTCGTTT
66523 GTTCGGTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.42
22 28 0.58
ACGTcount: A:0.04, C:0.04, G:0.26, T:0.66
Consensus pattern (22 bp):
GTTCGTTTAGTTGTTTGTGTTT
Found at i:67785 original size:15 final size:15
Alignment explanation
Indices: 67725--67804 Score: 52
Period size: 13 Copynumber: 5.9 Consensus size: 15
67715 AAAATCATTA
67725 TTATATATATATAAT
1 TTATATATATATAAT
* *
67740 ATTA-ATAAATTTAAT
1 -TTATATATATATAAT
67755 TTA-AT-T-TA-AAT
1 TTATATATATATAAT
*
67766 ATATATATA-AT-AT
1 TTATATATATATAAT
67779 TTATATAT-T-TAAT
1 TTATATATATATAAT
*
67792 TTAAATATATATA
1 TTATATATATATA
67805 TACCCGATCC
Statistics
Matches: 49, Mismatches: 7, Indels: 17
0.67 0.10 0.23
Matches are distributed among these distances:
11 5 0.10
12 4 0.08
13 20 0.41
14 6 0.12
15 11 0.22
16 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTATATATATATAAT
Found at i:69458 original size:57 final size:57
Alignment explanation
Indices: 69397--69509 Score: 154
Period size: 57 Copynumber: 2.0 Consensus size: 57
69387 TTATATTTTT
** * * ** *
69397 TATTAAATTGGATTCAATTTTATTTTAAATATTATTTAAATGTATTTGAGTTATTTG
1 TATTAAATTAAATTAAATTTTACTTTAAATATTATTTAAAAATATTTGAGTGATTTG
*
69454 TATTAAATTAAATTAAATTTTACTTTAAATGTTATTTAAAAATATTTGAGTGATTT
1 TATTAAATTAAATTAAATTTTACTTTAAATATTATTTAAAAATATTTGAGTGATTT
69510 TAATTTTTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (57 bp):
TATTAAATTAAATTAAATTTTACTTTAAATATTATTTAAAAATATTTGAGTGATTTG
Found at i:79826 original size:2 final size:2
Alignment explanation
Indices: 79819--79850 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
79809 TTAATATACT
79819 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
79851 AAATTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:82686 original size:31 final size:32
Alignment explanation
Indices: 82628--82688 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
82618 GTTTTTAACG
**
82628 ACTAAAATGAAATGAAAACTAAAAGTTTATGT
1 ACTAAAATGAAACCAAAACTAAAAGTTTATGT
* *
82660 ACTAAAAT-AAACCAAAACTGATAGTTTAT
1 ACTAAAATGAAACCAAAACTAAAAGTTTAT
82689 TGTATCTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (32 bp):
ACTAAAATGAAACCAAAACTAAAAGTTTATGT
Found at i:94166 original size:15 final size:15
Alignment explanation
Indices: 94146--94195 Score: 91
Period size: 15 Copynumber: 3.3 Consensus size: 15
94136 CCGTAGGACC
94146 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
*
94161 ACTACGTCCCGAAGA
1 ACTACGTCCCGAAGG
94176 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
94191 ACTAC
1 ACTAC
94196 AGAACCCTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.30, C:0.34, G:0.22, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:101032 original size:15 final size:15
Alignment explanation
Indices: 101012--101061 Score: 91
Period size: 15 Copynumber: 3.3 Consensus size: 15
101002 CCGTAGGACC
101012 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
*
101027 ACTACGTCCCGAAGA
1 ACTACGTCCCGAAGG
101042 ACTACGTCCCGAAGG
1 ACTACGTCCCGAAGG
101057 ACTAC
1 ACTAC
101062 AGAACCCTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.30, C:0.34, G:0.22, T:0.14
Consensus pattern (15 bp):
ACTACGTCCCGAAGG
Found at i:101685 original size:18 final size:18
Alignment explanation
Indices: 101662--101696 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
101652 TCCTTTAGGG
*
101662 GGGAATCGATTCCCCTGA
1 GGGAATCGATACCCCTGA
101680 GGGAATCGATACCCCTG
1 GGGAATCGATACCCCTG
101697 GACATTCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.29, G:0.29, T:0.20
Consensus pattern (18 bp):
GGGAATCGATACCCCTGA
Found at i:105032 original size:19 final size:19
Alignment explanation
Indices: 105005--105042 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
104995 TATTTTTGGA
105005 AATAATATTATC-AGAATGT
1 AATAATATT-TCGAGAATGT
*
105024 AATATTATTTCGAGAATGT
1 AATAATATTTCGAGAATGT
105043 TGTATTACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.39
Consensus pattern (19 bp):
AATAATATTTCGAGAATGT
Found at i:107596 original size:43 final size:42
Alignment explanation
Indices: 107531--107614 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 42
107521 TCTTCGAATC
*
107531 AGATCGAATGCAAGTTTTTATCTTAAAAATCGAGTTGAATTTT
1 AGATCGAATGCAAGTTTCTATCTTAAAAATCGAGTT-AATTTT
*
107574 AGATCGAATGCAAGTTTCTATCTTAAAAATTGAGTTAATTT
1 AGATCGAATGCAAGTTTCTATCTTAAAAATCGAGTTAATTT
107615 CTTATAAGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 5 0.13
43 34 0.87
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (42 bp):
AGATCGAATGCAAGTTTCTATCTTAAAAATCGAGTTAATTTT
Found at i:115956 original size:25 final size:25
Alignment explanation
Indices: 115922--115969 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
115912 GATACATATG
*
115922 GTTTAGGTATTAAAATGAACCAATA
1 GTTTAAGTATTAAAATGAACCAATA
*
115947 GTTTAAGTATTAAAATGGACCAA
1 GTTTAAGTATTAAAATGAACCAA
115970 ATCTAATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (25 bp):
GTTTAAGTATTAAAATGAACCAATA
Done.