Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 48 of 141
Found at i:14465476 original size:19 final size:18
Alignment explanation
Indices: 14465452--14465488 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
14465442 ATTTTTATTT
*
14465452 AAAATTATATAAAATTATA
1 AAAATTAT-TAAAAATATA
14465471 AAAATTATTAAAAATATA
1 AAAATTATTAAAAATATA
14465489 TAGAAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTATTAAAAATATA
Found at i:14465834 original size:24 final size:25
Alignment explanation
Indices: 14465807--14465858 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 25
14465797 TATTTATTAT
*
14465807 TAAAATTATATTTTT-TAATTTTAG
1 TAAAATTATATTTTTAAAATTTTAG
14465831 T-AAATTATATTTTTAAAATTTTAG
1 TAAAATTATATTTTTAAAATTTTAG
14465855 TAAA
1 TAAA
14465859 TTCTAAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 13 0.52
24 10 0.40
25 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (25 bp):
TAAAATTATATTTTTAAAATTTTAG
Found at i:14465839 original size:23 final size:24
Alignment explanation
Indices: 14465809--14465860 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
14465799 TTTATTATTA
*
14465809 AAATTATATTTTT-TAATTTTAGT
1 AAATTATATTTTTAAAATTTTAGT
14465832 AAATTATATTTTTAAAATTTTAGT
1 AAATTATATTTTTAAAATTTTAGT
14465856 AAATT
1 AAATT
14465861 CTAAATAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (24 bp):
AAATTATATTTTTAAAATTTTAGT
Found at i:14469715 original size:16 final size:15
Alignment explanation
Indices: 14469694--14469723 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14469684 AATTAAATAC
14469694 AACAACATTTATTAAT
1 AACAACATTT-TTAAT
14469710 AACAACATTTTTAA
1 AACAACATTTTTAA
14469724 GTTGCAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
AACAACATTTTTAAT
Found at i:14470452 original size:3 final size:3
Alignment explanation
Indices: 14470444--14470468 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14470434 ATAAAGAAGG
14470444 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
14470469 GGATTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14471983 original size:44 final size:44
Alignment explanation
Indices: 14471913--14471996 Score: 132
Period size: 44 Copynumber: 1.9 Consensus size: 44
14471903 CAAATAAGAA
* * *
14471913 TAAAATAAGCTACACTAATTAGAGTTTAAGTGGAAAACTACTAT
1 TAAAATAACCTACACTAATCAAAGTTTAAGTGGAAAACTACTAT
*
14471957 TAAAATAACCTACACTAATCAAAGTTTAAGTGGGAAACTA
1 TAAAATAACCTACACTAATCAAAGTTTAAGTGGAAAACTA
14471997 AAAACAAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.27
Consensus pattern (44 bp):
TAAAATAACCTACACTAATCAAAGTTTAAGTGGAAAACTACTAT
Found at i:14483383 original size:63 final size:63
Alignment explanation
Indices: 14483284--14483441 Score: 244
Period size: 63 Copynumber: 2.5 Consensus size: 63
14483274 TAGGTATAAT
* * ** *
14483284 GTGTAAGACCATGGATGAAAGACTTTATGACATTATATGATAGCACGCCAGGATGGAGGATCA
1 GTGTAAGACCATGGATGAAAGACTCTATGGCATTATATGATAGCAAACCAGGATGAAGGATCA
**
14483347 GTGTAAGACCATAAATGAAAGACTCTATGGCATTATATGATAGCAAACCAGGATGAAGGATCA
1 GTGTAAGACCATGGATGAAAGACTCTATGGCATTATATGATAGCAAACCAGGATGAAGGATCA
*
14483410 GTGTAATACCATGGATGAAAGACTCTATGGCA
1 GTGTAAGACCATGGATGAAAGACTCTATGGCA
14483442 CCCACAAAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 85 1.00
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (63 bp):
GTGTAAGACCATGGATGAAAGACTCTATGGCATTATATGATAGCAAACCAGGATGAAGGATCA
Found at i:14487244 original size:37 final size:35
Alignment explanation
Indices: 14487193--14487263 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
14487183 ATTCCAAAAA
*
14487193 TAATATTATTTTAATAGT-TTAATATTTAATTTAATT
1 TAATATTATCTTAATAGTATT-ATA-TTAATTTAATT
*
14487229 TAATACTTATCTTAATAGTATTTTATTAATTTAAT
1 TAATA-TTATCTTAATAGTATTATATTAATTTAAT
14487264 ATGAAAGTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 15 0.48
37 14 0.45
38 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (35 bp):
TAATATTATCTTAATAGTATTATATTAATTTAATT
Found at i:14489316 original size:26 final size:26
Alignment explanation
Indices: 14489285--14489336 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
14489275 ATCCATATCA
14489285 ATATGATTCAATCAAGAATAATCAGT
1 ATATGATTCAATCAAGAATAATCAGT
14489311 ATATGATTCAATCAAGAATAATCAGT
1 ATATGATTCAATCAAGAATAATCAGT
14489337 CTTCAATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (26 bp):
ATATGATTCAATCAAGAATAATCAGT
Found at i:14491633 original size:21 final size:20
Alignment explanation
Indices: 14491604--14491652 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 20
14491594 CTAGAAAAAG
14491604 ATTTATTTTTTT-TTCGAAA-A
1 ATTT-TTTTTTTGTTC-AAATA
14491624 ATTATTTTTTTTGTTCAAATA
1 ATT-TTTTTTTTGTTCAAATA
14491645 ATTTTTTT
1 ATTTTTTT
14491653 GTTTAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (20 bp):
ATTTTTTTTTTGTTCAAATA
Found at i:14491643 original size:18 final size:18
Alignment explanation
Indices: 14491622--14491666 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
14491612 TTTTTTCGAA
14491622 AAATTATTTTTTTTGTTC
1 AAATTATTTTTTTTGTTC
* *
14491640 AAA-TAATTTTTTTGTTT
1 AAATTATTTTTTTTGTTC
14491657 AAATTATTTT
1 AAATTATTTT
14491667 ATTCCACTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.64
Consensus pattern (18 bp):
AAATTATTTTTTTTGTTC
Found at i:14495289 original size:31 final size:32
Alignment explanation
Indices: 14495233--14495295 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
14495223 CCCCTGTCGC
*
14495233 CTTTTGTCCTTTTTCTGTTTTTTTATTTGTTT
1 CTTTTGTCATTTTTCTGTTTTTTTATTTGTTT
14495265 CTTTTGTCATTTTTCTG-TTTTTTATTTGTTT
1 CTTTTGTCATTTTTCTGTTTTTTTATTTGTTT
14495296 TTCTTTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 14 0.47
32 16 0.53
ACGTcount: A:0.05, C:0.11, G:0.10, T:0.75
Consensus pattern (32 bp):
CTTTTGTCATTTTTCTGTTTTTTTATTTGTTT
Found at i:14507639 original size:44 final size:44
Alignment explanation
Indices: 14507580--14507701 Score: 142
Period size: 45 Copynumber: 2.7 Consensus size: 44
14507570 GATCGCATCT
14507580 AGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGACT-AAGCA-AACA
1 AGTCTTATCTCCCTGAAGTTGCAGT-GAGAAGACTGAAG-ATAACA
* **
14507624 AGTCTTATC-CTCCTGAAGTTGCAGTGAGGTAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGA-GAAGACTGAAGATAACA
*
14507669 AATCTTATCTCCCTGAAGTTGCAGTCGAGAAGA
1 AGTCTTATCTCCCTGAAGTTGCAGT-GAGAAGA
14507702 TTAGAGCTGA
Statistics
Matches: 67, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
43 3 0.04
44 30 0.45
45 31 0.46
46 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGAGAAGACTGAAGATAACA
Found at i:14507690 original size:45 final size:44
Alignment explanation
Indices: 14507582--14508393 Score: 155
Period size: 44 Copynumber: 18.6 Consensus size: 44
14507572 TCGCATCTAG
*
14507582 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAAGCAAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAAGCAAACAAA
* **
14507626 TCTTATC-CTCCTGAAGTTGCAGT-GAGGTAGACTGAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GAAGACT-AAGCA-AACAAA
* * ** *
14507671 TCTTATCTCCCTGAAGTTGCAGTCGAGAAGATTAGAGCTGA-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTA-AGCAAACAAA
* * * * * **
14507715 TGC-TATCTCCCTAAAGTTGCAATGGAGCAGATTAA--AACCTTGGA
1 T-CTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAAGCAAAC--AAA
* * * * * * * *
14507759 TCTTATCTCTCTGAATTTGCAG-AGAGCAGA-T-CGC-ATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAAGCAAACAAA
* * ** *
14507799 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGTAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAAGCAAACAAA
* * * * **
14507843 TCCTATCAT-CCTGAAGTTACAGTGAAGCAGACTGAAG-ATGGCAAA
1 TCTTATC-TCCCTGAAGTTGCAGTGGAGAAGACT-AAGCA-AACAAA
* * * * ** **
14507888 TCTTATCTCCTTGAAGTGGCAGTGGAGCAGATTAAAGCCGA-TGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACT-AAGCAAACAAA
* ** * * **
14507932 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA--AACCTTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAAGCAAAC--AAA
* * * * * * * *
14507976 TCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-T--CCCATCCAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAAGCAAACAAA
* * * ** *
14508016 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGTAAGTAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAAGCAAACAAA
* * **
14508060 TCTTATC-CTCCTAAAGTTGCAGT-GAGGCAA-ATTGAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-G-AAGACT-AAGCA-AACAAA
* * * * * * * * *
14508105 TCTTATCTCTCTGAAGTTGTAG-AGAGCAG-GT-CGC-ATCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAAGCAAACAAA
* * * *
14508145 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAAGCAAACAA-A
* * * * **
14508190 T-TTGTC-CTCCTGAGGTTGTAGT-GAGGCAGACTGAAG-ATGTCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GAAGACT-AAGCA-AACAAA
* * * * ** * *
14508234 TCTTATCTCCCTGAAGTTGTAGTGGGGCAGATTAAAGCCGA-TAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACT-AAGCAAACAAA
* * * * *
14508278 TCTTATCTACTTGAATTTGCAGTGGAGCAGACTCAAG-AAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACT-AAGCAAA-CAAA
* * * ** **
14508323 TCTTATC-CCCTTGAAATTGCAGTGGGGTAGACTAAATAAATGAA
1 TCTTATCTCCC-TGAAGTTGCAGTGGAGAAGACTAAGCAAACAAA
*
14508367 TCTTATCTCCCTGAAGTTGAAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
14508394 CAGATTAAAG
Statistics
Matches: 567, Mismatches: 141, Indels: 120
0.68 0.17 0.14
Matches are distributed among these distances:
40 64 0.11
41 19 0.03
42 9 0.02
43 29 0.05
44 274 0.48
45 166 0.29
46 6 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAAGCAAACAAA
Found at i:14507877 original size:217 final size:217
Alignment explanation
Indices: 14507487--14508123 Score: 941
Period size: 217 Copynumber: 2.9 Consensus size: 217
14507477 GAACAGATCG
* * ** * * * *
14507487 AAAGCCAATGATCCTATCTCATTGAAGTTGCATTGAAGCAGATTAAAACCTTGGACCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAACCTTGGATCTTATCTCT
*
14507552 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAA
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
* ** *
14507617 GCAAACAAGTCTTATCCTCCTGAAGTTGCAGTGAGGTAGACTGAAGATGGCAAATCTTATCTCCC
131 GTAAGTAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCC
14507682 TGAAGTTGCAGTCGAGAAGATT
196 TGAAGTTGCAGTCGAGAAGATT
* * *
14507704 AGAGCTGATAATGCTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAACCTTGGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAACCTTGGATCTTATCTCT
*
14507769 CTGAATTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
* * * * *
14507834 GTAAGTAAGTCCTATCATCCTGAAGTTACAGTGAAGCAGACTGAAGATGGCAAATCTTATCTCCT
131 GTAAGTAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCC
* * *
14507899 TGAAGTGGCAGTGGAGCAGATT
196 TGAAGTTGCAGTCGAGAAGATT
* * * *
14507921 AAAGCCGATGATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCT
1 AAAGCCGATAATCCTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAACCTTGGATCTTATCTCT
* * * *
14507986 CTGAAGTTGCAGAGAGTAGATCCCATCCAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAA
66 CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
* * * *
14508051 GTAAGTAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAAATTGAAGATGGCAAATCTTATCTCTC
131 GTAAGTAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCC
14508116 TGAAGTTG
196 TGAAGTTG
14508124 TAGAGAGCAG
Statistics
Matches: 373, Mismatches: 47, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
217 373 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (217 bp):
AAAGCCGATAATCCTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAACCTTGGATCTTATCTCT
CTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
GTAAGTAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCC
TGAAGTTGCAGTCGAGAAGATT
Found at i:14507965 original size:44 final size:44
Alignment explanation
Indices: 14507496--14507997 Score: 166
Period size: 44 Copynumber: 11.5 Consensus size: 44
14507486 GAAAGCCAAT
** * * *
14507496 GATCCTATCTCATTGAAGTTGCATTGAAGCAGATTAAAACCTTG
1 GATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATG
* * *** * *
14507540 GA-CCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATC-TA
1 GATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATG
* * * * *
14507581 G-TCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAAGCAAACA-A
1 GATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCATG
* * * * *
14507625 G-TCTTATC-CTCCTGAAGTTGCAGT-GAGGTAGACT-GAA-GATG
1 GATCCTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAACCATG
* * * * * *
14507666 GCAAATCTTATCTCCCTGAAGTTGCAGTCGAGAAGATTAGAGCTGAT-
1 G---ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC-CATG
* * * * *
14507713 AATGCTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAACCTTG
1 GATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATG
* * * * *** * *
14507757 GATCTTATCTCTCTGAATTTGCAG-AGAGCAGA-TCGCATC-TA
1 GATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATG
* * ** *
14507798 G-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGTA-A
1 GATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCATG
* * * * *
14507842 G-TCCTATCAT-CCTGAAGTTACAGTGAAGCAGACT-GAA-GATG
1 GATCCTATC-TCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATG
* * * *
14507883 GCAAATCTTATCTCCTTGAAGTGGCAGTGGAGCAGATTAAAGCCGAT-
1 G---ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-ATG
* *
14507930 GATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTG
1 GATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATG
* *
14507974 GATCTTATCTCTCTGAAGTTGCAG
1 GATCCTATCTCCCTGAAGTTGCAG
14507998 AGAGTAGATC
Statistics
Matches: 342, Mismatches: 80, Indels: 72
0.69 0.16 0.15
Matches are distributed among these distances:
40 40 0.12
41 24 0.07
42 8 0.02
43 20 0.06
44 186 0.54
45 52 0.15
46 6 0.02
47 1 0.00
48 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
GATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATG
Found at i:14508153 original size:129 final size:129
Alignment explanation
Indices: 14507975--14508255 Score: 402
Period size: 129 Copynumber: 2.2 Consensus size: 129
14507965 AAAACCTTGG
* *
14507975 ATCTTATCTCTCTGAAGTTGCAGAGAGTAGATCCCATCCAGTCTTATCTCCCTGAAGTTGCAGTG
1 ATCTTATCTCTCTGAAGTTGTAGAGAGCAGATCCCATCCAGTCTTATCTCCCTGAAGTTGCAGTG
* *
14508040 AAGCAGACTAAGTAAGTAAG-TCTTATCCTCCTAAAGTTGCAGTGAGGCAAATTGAAGATGGCAA
66 AAGCAGACTAAGTAAGCAAGAT-TTATCCTCCTAAAGTTGCAGTGAGGCAAACTGAAGATGGCAA
* * * *
14508104 ATCTTATCTCTCTGAAGTTGTAGAGAGCAGGTCGCATCTAGTCTTATCTCCCTGAAGTTGTAGTG
1 ATCTTATCTCTCTGAAGTTGTAGAGAGCAGATCCCATCCAGTCTTATCTCCCTGAAGTTGCAGTG
* * * * * * *
14508169 GAGCAGACTAAGTAAGCAAGATTTGTCCTCCTGAGGTTGTAGTGAGGCAGACTGAAGATGTCAA
66 AAGCAGACTAAGTAAGCAAGATTTATCCTCCTAAAGTTGCAGTGAGGCAAACTGAAGATGGCAA
*
14508233 ATCTTATCTCCCTGAAGTTGTAG
1 ATCTTATCTCTCTGAAGTTGTAG
14508256 TGGGGCAGAT
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
129 134 0.99
130 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (129 bp):
ATCTTATCTCTCTGAAGTTGTAGAGAGCAGATCCCATCCAGTCTTATCTCCCTGAAGTTGCAGTG
AAGCAGACTAAGTAAGCAAGATTTATCCTCCTAAAGTTGCAGTGAGGCAAACTGAAGATGGCAA
Found at i:14510363 original size:19 final size:20
Alignment explanation
Indices: 14510322--14510363 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
14510312 ATTTCTATGC
* *
14510322 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
14510342 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
14510361 CAT
1 CAT
14510364 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:14514647 original size:15 final size:15
Alignment explanation
Indices: 14514627--14514670 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14514617 CTATGGTGGT
*
14514627 GGTGGTGGCTATGGG
1 GGTGGTGGCTATGGA
**
14514642 GGTGGTAACTATGGA
1 GGTGGTGGCTATGGA
*
14514657 GGTGGCGGCTATGG
1 GGTGGTGGCTATGG
14514671 CAGAAATGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.14, C:0.09, G:0.52, T:0.25
Consensus pattern (15 bp):
GGTGGTGGCTATGGA
Found at i:14516399 original size:46 final size:44
Alignment explanation
Indices: 14516344--14516436 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
14516334 GGTTCGCTGT
* * * *
14516344 AATGGAATAGAGGTGTAATAGGTAATCCTTTTGTTTGGTTGAATGG
1 AATGAAATAGAGGCGTAAT-GAT-ATCCTTGTGTTTGGTTGAATGG
*
14516390 AATGAAATAGAGGCGTAATGATATTCTTGTGTTTGGTTGAATGG
1 AATGAAATAGAGGCGTAATGATATCCTTGTGTTTGGTTGAATGG
14516434 AAT
1 AAT
14516437 AGAAGTGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 23 0.55
45 2 0.05
46 17 0.40
ACGTcount: A:0.30, C:0.04, G:0.29, T:0.37
Consensus pattern (44 bp):
AATGAAATAGAGGCGTAATGATATCCTTGTGTTTGGTTGAATGG
Found at i:14516639 original size:17 final size:17
Alignment explanation
Indices: 14516599--14516632 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14516589 TAATTATTAA
14516599 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
14516616 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
14516633 TATTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:14516763 original size:121 final size:117
Alignment explanation
Indices: 14516580--14516808 Score: 404
Period size: 121 Copynumber: 1.9 Consensus size: 117
14516570 ATTTAATCAT
14516580 ATTTTAACATAATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTATTAATATTAA
1 ATTTTAACATAATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTATTAATATTAA
*
14516645 ATATTCTTATATGAATTTATTAAAATCATAATATATAATACTATAAAATATA
66 ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
14516697 ATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTTAACAT-A--ATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTATTAATA
14516762 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
62 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
14516809 CAATACTTAC
Statistics
Matches: 106, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
117 10 0.09
118 1 0.01
120 20 0.19
121 75 0.71
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (117 bp):
ATTTTAACATAATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTATTAATATTAA
ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:14516926 original size:14 final size:15
Alignment explanation
Indices: 14516907--14516939 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
14516897 CTTTATTCTT
*
14516907 AAAATTCAAAAA-TA
1 AAAATTAAAAAATTA
14516921 AAAATTAAAAAATTA
1 AAAATTAAAAAATTA
14516936 AAAA
1 AAAA
14516940 ATTTAAAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAATTAAAAAATTA
Found at i:14518878 original size:49 final size:49
Alignment explanation
Indices: 14518787--14518890 Score: 140
Period size: 49 Copynumber: 2.1 Consensus size: 49
14518777 AGAAAAAAAC
** * *
14518787 AAAA-TAAAATTAAGTTTAATATCATGAATCAAAAGGGGAACACTTTAT
1 AAAATTAAAATTAAGTTTAATATCATGAATCAAAAACGCAACACTGTAT
*
14518835 AAAATTAAAATTAA-TTTCAATATCATGAATCAAAAACTCAACACTGTAT
1 AAAATTAAAATTAAGTTT-AATATCATGAATCAAAAACGCAACACTGTAT
14518884 AAAATTA
1 AAAATTA
14518891 TAACACATGA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
48 7 0.14
49 42 0.86
ACGTcount: A:0.52, C:0.11, G:0.08, T:0.30
Consensus pattern (49 bp):
AAAATTAAAATTAAGTTTAATATCATGAATCAAAAACGCAACACTGTAT
Found at i:14521283 original size:9 final size:10
Alignment explanation
Indices: 14521259--14521303 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
14521249 GAATGCAAGC
14521259 TTTATTATATA
1 TTTATTA-ATA
14521270 TTTATTAA-A
1 TTTATTAATA
14521279 TTTATTAATA
1 TTTATTAATA
*
14521289 --TATTTATA
1 TTTATTAATA
14521297 TTTATTA
1 TTTATTA
14521304 TGTATGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
8 7 0.24
9 9 0.31
10 6 0.21
11 7 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTATTAATA
Found at i:14522068 original size:12 final size:13
Alignment explanation
Indices: 14522039--14522076 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
14522029 ATGTACATTT
14522039 TTCAATTATAACA
1 TTCAATTATAACA
14522052 TTCAATT-TAAC-
1 TTCAATTATAACA
14522063 TATCAATTATAACA
1 T-TCAATTATAACA
14522077 AGTCTTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 1 0.05
12 10 0.45
13 11 0.50
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (13 bp):
TTCAATTATAACA
Found at i:14532342 original size:36 final size:36
Alignment explanation
Indices: 14532302--14532370 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
14532292 AGATTCTTGT
* *
14532302 CATCATAATACAGCTCTCTTACACCTAGGACATTGC
1 CATCATAATACAGCTCTCGTACACCCAGGACATTGC
*
14532338 CATCATAATACAGCTCTCGTAGACCCAGGACAT
1 CATCATAATACAGCTCTCGTACACCCAGGACAT
14532371 CAACAGATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (36 bp):
CATCATAATACAGCTCTCGTACACCCAGGACATTGC
Found at i:14536559 original size:14 final size:14
Alignment explanation
Indices: 14536540--14536571 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14536530 TTTTAAAATA
*
14536540 TTTTTAAAATACTT
1 TTTTTAAAATAATT
14536554 TTTTTAAAATAATT
1 TTTTTAAAATAATT
14536568 TTTT
1 TTTT
14536572 GGTGTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTAAAATAATT
Found at i:14537694 original size:23 final size:23
Alignment explanation
Indices: 14537664--14537720 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
14537654 GGACCCAAGA
*
14537664 TGAATTAATTTTGAATCAATTTG
1 TGAATTAATTCTGAATCAATTTG
14537687 TGAATTAATTCTGAATCAATTTG
1 TGAATTAATTCTGAATCAATTTG
14537710 TGAATTAATTC
1 TGAATTAATTC
14537721 ACTTGACATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.46
Consensus pattern (23 bp):
TGAATTAATTCTGAATCAATTTG
Found at i:14537696 original size:12 final size:12
Alignment explanation
Indices: 14537664--14537719 Score: 71
Period size: 11 Copynumber: 4.8 Consensus size: 12
14537654 GGACCCAAGA
14537664 TGAATTAATTT-
1 TGAATTAATTTG
*
14537675 TGAATCAATTTG
1 TGAATTAATTTG
*
14537687 TGAATTAA-TTC
1 TGAATTAATTTG
*
14537698 TGAATCAATTTG
1 TGAATTAATTTG
14537710 TGAATTAATT
1 TGAATTAATT
14537720 CACTTGACAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
11 19 0.51
12 18 0.49
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.46
Consensus pattern (12 bp):
TGAATTAATTTG
Found at i:14541764 original size:19 final size:20
Alignment explanation
Indices: 14541723--14541771 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
14541713 TAGGTTTGAA
*
14541723 GTACCAATACTTTTCTTTAG
1 GTACCAATACTTTCCTTTAG
*
14541743 GTACCTATACTTTCCTTT-G
1 GTACCAATACTTTCCTTTAG
*
14541762 GTATCAATAC
1 GTACCAATAC
14541772 CATTTTAGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.43
Consensus pattern (20 bp):
GTACCAATACTTTCCTTTAG
Found at i:14543250 original size:49 final size:49
Alignment explanation
Indices: 14543188--14543281 Score: 179
Period size: 49 Copynumber: 1.9 Consensus size: 49
14543178 GATACCACCA
14543188 TACGATGTTGCTATATGCAAAACGTGATGTTCGAAGCTCCGGGCCACAG
1 TACGATGTTGCTATATGCAAAACGTGATGTTCGAAGCTCCGGGCCACAG
*
14543237 TACGGTGTTGCTATATGCAAAACGTGATGTTCGAAGCTCCGGGCC
1 TACGATGTTGCTATATGCAAAACGTGATGTTCGAAGCTCCGGGCC
14543282 TTGTGGCCCG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (49 bp):
TACGATGTTGCTATATGCAAAACGTGATGTTCGAAGCTCCGGGCCACAG
Found at i:14546802 original size:39 final size:39
Alignment explanation
Indices: 14546746--14546925 Score: 229
Period size: 39 Copynumber: 4.6 Consensus size: 39
14546736 AACATGTTTT
* * *
14546746 TGAGTATTATGAAATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATATTATGTGATTATA
*
14546785 TGAGTATTGTGATATATGCTTGAACT-TTATGTGATTATA
1 TGAGTATTGTGATATATGCTT-AAATATTATGTGATTATA
* *
14546824 TGAGTATTGTGATATATGCTTGAATATTATGTAATTATA
1 TGAGTATTGTGATATATGCTTAAATATTATGTGATTATA
* * * *
14546863 TGTGTATTGTGTTATATGTTTAAATATTATGTAATTATA
1 TGAGTATTGTGATATATGCTTAAATATTATGTGATTATA
*
14546902 TGTA-TAATGTGATATATGCTTAAA
1 TG-AGTATTGTGATATATGCTTAAA
14546926 AGTGAATGTG
Statistics
Matches: 124, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
38 2 0.02
39 119 0.96
40 3 0.02
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.47
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATATTATGTGATTATA
Found at i:14550751 original size:21 final size:21
Alignment explanation
Indices: 14550719--14550759 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
14550709 AGGCTCGAGG
14550719 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
14550740 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
14550760 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:14558691 original size:20 final size:20
Alignment explanation
Indices: 14558666--14558703 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14558656 CAAATAACGA
14558666 TCCAAAGCAGAAATGAATTG
1 TCCAAAGCAGAAATGAATTG
*
14558686 TCCAAAGTAGAAATGAAT
1 TCCAAAGCAGAAATGAAT
14558704 CGAAAAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.21
Consensus pattern (20 bp):
TCCAAAGCAGAAATGAATTG
Found at i:14563489 original size:29 final size:29
Alignment explanation
Indices: 14563456--14563522 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
14563446 AATTAGATGC
* * *
14563456 ACTATTGTCGAGCACATATTTAACCTAAA
1 ACTATTGTCAAGCACAGATTCAACCTAAA
* **
14563485 ACTATTGTCAAGCATAGATTCAACCTCGA
1 ACTATTGTCAAGCACAGATTCAACCTAAA
14563514 ACTATTGTC
1 ACTATTGTC
14563523 TAACAAAGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (29 bp):
ACTATTGTCAAGCACAGATTCAACCTAAA
Found at i:14564958 original size:33 final size:33
Alignment explanation
Indices: 14564921--14564984 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
14564911 GAGCTCGCGG
* *
14564921 TATCGGCTCGCGGGAGTGGAAGAGAGCTCACTA
1 TATCGGCCCGCAGGAGTGGAAGAGAGCTCACTA
* *
14564954 TATCGGCCCGCAGGAGTTGAAGGGAGCTCAC
1 TATCGGCCCGCAGGAGTGGAAGAGAGCTCAC
14564985 GGTATCAGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.36, T:0.17
Consensus pattern (33 bp):
TATCGGCCCGCAGGAGTGGAAGAGAGCTCACTA
Found at i:14565129 original size:20 final size:20
Alignment explanation
Indices: 14565104--14565151 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
14565094 TCAATCCTAT
14565104 GAACAGTGGAGTTAGATCAA
1 GAACAGTGGAGTTAGATCAA
14565124 GAACAGTGGAGTTAGATCAA
1 GAACAGTGGAGTTAGATCAA
14565144 GAACAGTG
1 GAACAGTG
14565152 ATAATATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.10, G:0.31, T:0.19
Consensus pattern (20 bp):
GAACAGTGGAGTTAGATCAA
Found at i:14569837 original size:14 final size:14
Alignment explanation
Indices: 14569818--14569845 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14569808 GCACCGCCCG
14569818 TCCAAACTTATACA
1 TCCAAACTTATACA
14569832 TCCAAACTTATACA
1 TCCAAACTTATACA
14569846 GTTAGATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (14 bp):
TCCAAACTTATACA
Found at i:14571074 original size:92 final size:90
Alignment explanation
Indices: 14570930--14571106 Score: 205
Period size: 92 Copynumber: 1.9 Consensus size: 90
14570920 TCTTTTTTAA
* * * *
14570930 TAAATGTGTTTTTTTTTATTTTAAAAAATAATATTTATTTGGTGGAATCATATAGAAT-AGCGTC
1 TAAATGTGTTTTTTTTAATTTTAAAAAATAATATTTATTTGGTGGAACCATATAAAATGA-CGCC
14570994 ACCAGTATATTCTA-TATGTTTTGTT
65 ACCAGTATATTCTAGTATGTTTTGTT
*** **
14571019 TAAATGTGTTATTTTTTAAATTTTTTTAAATAATATTTTATTTGGTGGTGCCATATAAAATGACG
1 TAAATGTGTT-TTTTTT-AATTTTAAAAAATAATA-TTTATTTGGTGGAACCATATAAAATGACG
* *
14571084 CCACCAGTGTATTTTAGTATGTT
63 CCACCAGTATATTCTAGTATGTT
14571107 GCTTTTTAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
89 10 0.14
90 6 0.08
91 13 0.18
92 36 0.50
93 7 0.10
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (90 bp):
TAAATGTGTTTTTTTTAATTTTAAAAAATAATATTTATTTGGTGGAACCATATAAAATGACGCCA
CCAGTATATTCTAGTATGTTTTGTT
Found at i:14575938 original size:33 final size:33
Alignment explanation
Indices: 14575898--14576014 Score: 92
Period size: 33 Copynumber: 3.2 Consensus size: 33
14575888 CTCAATTTCC
14575898 TTGAAAATCCTAAATACGAGTATTATCTCAATT
1 TTGAAAATCCTAAATACGAGTATTATCTCAATT
** * *
14575931 TTGAAAATTTTAAA-ATCGAGTAAAAAATCAAGGCTCAATTTT
1 TTGAAAATCCTAAATA-CGAGT-----AT-TA-TCTCAA--TT
14575973 CTTGAAAATCCTAAATACGAGTATTATCTCAATT
1 -TTGAAAATCCTAAATACGAGTATTATCTCAATT
14576007 TTGAAAAT
1 TTGAAAAT
14576015 TTTAAAATCG
Statistics
Matches: 64, Mismatches: 8, Indels: 24
0.67 0.08 0.25
Matches are distributed among these distances:
32 1 0.02
33 25 0.39
34 2 0.03
36 5 0.08
37 1 0.02
38 4 0.06
39 1 0.02
40 5 0.08
42 2 0.03
43 17 0.27
44 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (33 bp):
TTGAAAATCCTAAATACGAGTATTATCTCAATT
Found at i:14575983 original size:76 final size:76
Alignment explanation
Indices: 14575886--14576033 Score: 287
Period size: 76 Copynumber: 1.9 Consensus size: 76
14575876 AATACGTTAG
14575886 GGCTCAATTTCCTTGAAAATCCTAAATACGAGTATTATCTCAATTTTGAAAATTTTAAAATCGAG
1 GGCTCAATTTCCTTGAAAATCCTAAATACGAGTATTATCTCAATTTTGAAAATTTTAAAATCGAG
14575951 TAAAAAATCAA
66 TAAAAAATCAA
*
14575962 GGCTCAATTTTCTTGAAAATCCTAAATACGAGTATTATCTCAATTTTGAAAATTTTAAAATCGAG
1 GGCTCAATTTCCTTGAAAATCCTAAATACGAGTATTATCTCAATTTTGAAAATTTTAAAATCGAG
14576027 TAAAAAA
66 TAAAAAA
14576034 ATGATGTAAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.34
Consensus pattern (76 bp):
GGCTCAATTTCCTTGAAAATCCTAAATACGAGTATTATCTCAATTTTGAAAATTTTAAAATCGAG
TAAAAAATCAA
Found at i:14576623 original size:23 final size:23
Alignment explanation
Indices: 14576580--14576626 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
14576570 TGTGTATAAA
*
14576580 ATATATATAAACATACGTATACT
1 ATATATATAAACATACATATACT
*
14576603 ATATATA-AAACA-ATATATA-T
1 ATATATATAAACATACATATACT
14576623 ATAT
1 ATAT
14576627 TACATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 5 0.23
22 5 0.23
23 7 0.32
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATATATAAACATACATATACT
Found at i:14577191 original size:21 final size:21
Alignment explanation
Indices: 14577165--14577257 Score: 140
Period size: 19 Copynumber: 4.6 Consensus size: 21
14577155 TCATATCTTT
14577165 TAAGATTGCATATATCATATC
1 TAAGATTGCATATATCATATC
*
14577186 TAAGATTGCATATATCACATC
1 TAAGATTGCATATATCATATC
14577207 TAAGATTGC--ATATCATATC
1 TAAGATTGCATATATCATATC
14577226 TAAGATTGCATA-A-CATATC
1 TAAGATTGCATATATCATATC
*
14577245 TAAGATTACATAT
1 TAAGATTGCATAT
14577258 CCTTGAAGAT
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
19 35 0.53
20 1 0.02
21 30 0.45
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (21 bp):
TAAGATTGCATATATCATATC
Found at i:14577220 original size:40 final size:38
Alignment explanation
Indices: 14577165--14577258 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 38
14577155 TCATATCTTT
14577165 TAAGATTGCATATATCATATCTAAGATTGCATATATCACATC
1 TAAGATTGC--ATATCATATCTAAGATTGCATA-A-CACATC
*
14577207 TAAGATTGCATATCATATCTAAGATTGCATAACATATC
1 TAAGATTGCATATCATATCTAAGATTGCATAACACATC
*
14577245 TAAGATTACATATC
1 TAAGATTGCATATC
14577259 CTTGAAGATT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
38 18 0.36
39 1 0.02
40 22 0.44
42 9 0.18
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (38 bp):
TAAGATTGCATATCATATCTAAGATTGCATAACACATC
Found at i:14580344 original size:15 final size:15
Alignment explanation
Indices: 14580322--14580356 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
14580312 AAAATTTTAA
*
14580322 ATTAAAAAAACAACAC
1 ATTAAAAAAA-TACAC
14580338 ATTAAAAAAATACAC
1 ATTAAAAAAATACAC
14580353 ATTA
1 ATTA
14580357 TACTGGCGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (15 bp):
ATTAAAAAAATACAC
Found at i:14582722 original size:11 final size:11
Alignment explanation
Indices: 14582706--14582730 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14582696 TGTTTTTCAC
14582706 TATTTTGCTAT
1 TATTTTGCTAT
14582717 TATTTTGCTAT
1 TATTTTGCTAT
14582728 TAT
1 TAT
14582731 ACTGATACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:14582924 original size:16 final size:16
Alignment explanation
Indices: 14582855--14582922 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
14582845 TTTGGTTCGC
14582855 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14582871 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14582887 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
14582903 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
14582919 TGTA
1 TGTA
14582923 ATAACAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:14582957 original size:45 final size:44
Alignment explanation
Indices: 14582903--14582997 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
14582893 GGATTAGAGG
* *
14582903 TGTAATGGAATAGAGGTGTAATAACAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAACAAAAC-ACTGTTTGGTTGAA
** **
14582948 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAACAAAACACTGTTTGGTTGAA
14582992 TGTAAT
1 TGTAAT
14582998 AGAGGTATAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAACAAAACACTGTTTGGTTGAA
Found at i:14583368 original size:47 final size:46
Alignment explanation
Indices: 14583317--14583477 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
14583307 GATTTAATAA
14583317 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
14583364 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
14583405 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
14583452 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
14583478 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:14589214 original size:18 final size:17
Alignment explanation
Indices: 14589186--14589234 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
14589176 TATTATGGCA
*
14589186 AACTGTGTTAATTTG-G
1 AACTGTATTAATTTGCG
*
14589202 TAATCTGTATTAATATGCG
1 -AA-CTGTATTAATTTGCG
14589221 AACTGTATTAATTT
1 AACTGTATTAATTT
14589235 ACCAAACTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 13 0.48
18 13 0.48
19 1 0.04
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (17 bp):
AACTGTATTAATTTGCG
Found at i:14605691 original size:100 final size:99
Alignment explanation
Indices: 14605440--14605838 Score: 487
Period size: 100 Copynumber: 4.0 Consensus size: 99
14605430 ACTTGCCATC
* *
14605440 TTCAGTCTTTTAAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCAC
1 TTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCAC
* *** *
14605505 TACACCGCTAGGGAAGTAAAATTTATCGTTTGCGGC
66 TACACCGCCAGGG-AGTAAAATTCGCCG-TTGCGGT
* * * *
14605541 TTCAATCTTTTTAATTACAATGTTGGGGAAACGAGATTCGCCGTCATAGCTTCAATCTATTCCAC
1 TTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCAC
* *
14605606 TACACCGCCAGGGAAGAAAAATTCGTCGTTGCGGT
66 TACACCGCCAGGG-AGTAAAATTCGCCGTTGCGGT
* *
14605641 TTCAATCTTTTTAATTGCAATGTTGGGGAAACTAGATTCGCCGTCGTAGCTTCAATCTGTTCTAC
1 TTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCAC
** *
14605706 TACATTGCCAAGGGAGTAAGATTCGCCGTTGCGGCT
66 TACACCGCC-AGGGAGTAAAATTCGCCGTTGCGG-T
* * * * * *
14605742 TT-AATATTTTTAATTGTAATATTGGGGAAACCAA-ATTTGCCGTCGTAGTTTCAATCTGTTCTA
1 TTCAATCTTTTTAATTGCAATGTTGGGGAAA-CAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
* *
14605805 CTACACAGCCAGAGGAGTAAGATTCGCCGTTGCG
65 CTACACCGCCAG-GGAGTAAAATTCGCCGTTGCG
14605839 ACTTTAATCT
Statistics
Matches: 265, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
99 2 0.01
100 171 0.65
101 92 0.35
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (99 bp):
TTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCAC
TACACCGCCAGGGAGTAAAATTCGCCGTTGCGGT
Found at i:14605695 original size:50 final size:50
Alignment explanation
Indices: 14605439--14605698 Score: 144
Period size: 50 Copynumber: 5.2 Consensus size: 50
14605429 AACTTGCCAT
* * *
14605439 CTTCAGTCTTTTAAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAG
1 CTTCAATCTTTTTAATTACAATGTTGGGGAAACAAGATTCGCCGTCGTAG
* ** * ** * * ** * *** * **
14605489 CTTCAATCTGTTCCACTACACCGCTAGGGAAGTAAAATTTATCGTTTGCGG
1 CTTCAATCTTTTTAATTACAATGTTGGGGAAACAAGATTCGCCG-TCGTAG
* *
14605540 CTTCAATCTTTTTAATTACAATGTTGGGGAAACGAGATTCGCCGTCATAG
1 CTTCAATCTTTTTAATTACAATGTTGGGGAAACAAGATTCGCCGTCGTAG
* ** * ** *** * * * **
14605590 CTTCAATCTATTCCACTACACCGCCAGGGAAGA-AAAATTCGTCGTTGCGG
1 CTTCAATCTTTTTAATTACAATGTTGGGGAA-ACAAGATTCGCCGTCGTAG
* * *
14605640 TTTCAATCTTTTTAATTGCAATGTTGGGGAAACTAGATTCGCCGTCGTAG
1 CTTCAATCTTTTTAATTACAATGTTGGGGAAACAAGATTCGCCGTCGTAG
14605690 CTTCAATCT
1 CTTCAATCT
14605699 GTTCTACTAC
Statistics
Matches: 135, Mismatches: 72, Indels: 6
0.63 0.34 0.03
Matches are distributed among these distances:
49 1 0.01
50 101 0.75
51 33 0.24
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (50 bp):
CTTCAATCTTTTTAATTACAATGTTGGGGAAACAAGATTCGCCGTCGTAG
Found at i:14606102 original size:167 final size:168
Alignment explanation
Indices: 14605855--14606166 Score: 410
Period size: 167 Copynumber: 1.9 Consensus size: 168
14605845 ATCTGCTCCC
* *
14605855 CTGTAATGCCAAAGAGATAGGATTCGCTGCCCATAGCTTCAATCCGCTCCACTTAAGCTAATCCA
1 CTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCACTCCACTTAAGCTAATCCA
* * * * *
14605920 AGCCTTAATGCCAGGGAGATAAAATTCACCGTCAT-GGCTTCAATCTTCTCCGCTACAATGTCAG
66 AGCCTTAACGCCAGGGAGATAAAATTCACCGCCATCAGCTTCAATCTGCTCCGCTACAACGTCAG
*
14605984 GGAAGTAAGATTCACCGTTTTGGCTTCAATCTATTTCA
131 AGAAGTAAGATTCACCGTTTTGGCTTCAATCTATTTCA
* * * ** * * *
14606022 CTGTAATGCCAAAGAGATAGGATTCGCTGCCTACAGCTTTAATCTACTCTGCTTCAGCTATTTCA
1 CTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCACTCCACTTAAGCTAATCCA
* * * * * * *
14606087 AGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTATAACGTCAG
66 AGCCTTAACGCCAGGGAGATAAAATTCACCGCCATCAGCTTCAATCTGCTCCGCTACAACGTCAG
14606152 AGAAGTAAGATTCAC
131 AGAAGTAAGATTCAC
14606167 AATCTTCAAC
Statistics
Matches: 121, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
167 83 0.69
168 38 0.31
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (168 bp):
CTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCACTCCACTTAAGCTAATCCA
AGCCTTAACGCCAGGGAGATAAAATTCACCGCCATCAGCTTCAATCTGCTCCGCTACAACGTCAG
AGAAGTAAGATTCACCGTTTTGGCTTCAATCTATTTCA
Found at i:14606325 original size:45 final size:45
Alignment explanation
Indices: 14606171--14606340 Score: 227
Period size: 44 Copynumber: 3.8 Consensus size: 45
14606161 ATTCACAATC
* * * * * *
14606171 TTCAACTTATTCCACTGCTAACCAAGGAGATATGACTCACAATCT
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATTT
* *
14606216 TT-AACCTATTCCACTGCTGACCAGGGAGATATGATTTACAA-TT
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATTT
* * *
14606259 TTCAAACTATTCCACTACTGACTAGGGAGATAGGACTTACAATTT
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATTT
14606304 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACT
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACT
14606341 GGGGTCATCG
Statistics
Matches: 109, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
43 3 0.03
44 68 0.62
45 38 0.35
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (45 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAATTT
Found at i:14612728 original size:19 final size:19
Alignment explanation
Indices: 14612704--14612795 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
14612694 TCATATCTTT
14612704 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
* *
14612723 TAAGATTACATATCATAGC
1 TAAGATTGCATATCATATC
14612742 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
*
14612761 TAAGATTACATATCATATC
1 TAAGATTGCATATCATATC
14612780 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
14612796 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:14612753 original size:38 final size:38
Alignment explanation
Indices: 14612704--14612795 Score: 175
Period size: 38 Copynumber: 2.4 Consensus size: 38
14612694 TCATATCTTT
14612704 TAAGATTGCATATCATATCTAAGATTACATATCATAGC
1 TAAGATTGCATATCATATCTAAGATTACATATCATAGC
*
14612742 TAAGATTGCATATCATATCTAAGATTACATATCATATC
1 TAAGATTGCATATCATATCTAAGATTACATATCATAGC
14612780 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
14612796 TGAAGATTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (38 bp):
TAAGATTGCATATCATATCTAAGATTACATATCATAGC
Found at i:14616888 original size:4 final size:4
Alignment explanation
Indices: 14616866--14616898 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
14616856 TCATTAAAAT
*
14616866 ATTA ATAA ATTA A-TA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
14616899 CTAAAATATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (4 bp):
ATTA
Found at i:14622685 original size:261 final size:261
Alignment explanation
Indices: 14622221--14622742 Score: 1044
Period size: 261 Copynumber: 2.0 Consensus size: 261
14622211 ATTGGTCTTT
14622221 TAACTTTTTCATATTTACACTTTAACCCCTAAACTTTTGAGTATTTACTCTTGGGTAACAAAACT
1 TAACTTTTTCATATTTACACTTTAACCCCTAAACTTTTGAGTATTTACTCTTGGGTAACAAAACT
14622286 TTTCTCACTTTTGCAATTTAATCCTTTCTTGAATTAATATGTCATAATATACTTCCCAATGTTGA
66 TTTCTCACTTTTGCAATTTAATCCTTTCTTGAATTAATATGTCATAATATACTTCCCAATGTTGA
14622351 CATAAATCAATTACCCTTTTTATCACTTTATTTCCTTATTTTTCCATATCAGGGATATTATCTTA
131 CATAAATCAATTACCCTTTTTATCACTTTATTTCCTTATTTTTCCATATCAGGGATATTATCTTA
14622416 CTTTCTCACAATAGAAATTTTCGGGATATTACAATTTCATAGCTAGTTAACCCTTCTAGCTTCTA
196 CTTTCTCACAATAGAAATTTTCGGGATATTACAATTTCATAGCTAGTTAACCCTTCTAGCTTCTA
14622481 G
261 G
14622482 TAACTTTTTCATATTTACACTTTAACCCCTAAACTTTTGAGTATTTACTCTTGGGTAACAAAACT
1 TAACTTTTTCATATTTACACTTTAACCCCTAAACTTTTGAGTATTTACTCTTGGGTAACAAAACT
14622547 TTTCTCACTTTTGCAATTTAATCCTTTCTTGAATTAATATGTCATAATATACTTCCCAATGTTGA
66 TTTCTCACTTTTGCAATTTAATCCTTTCTTGAATTAATATGTCATAATATACTTCCCAATGTTGA
14622612 CATAAATCAATTACCCTTTTTATCACTTTATTTCCTTATTTTTCCATATCAGGGATATTATCTTA
131 CATAAATCAATTACCCTTTTTATCACTTTATTTCCTTATTTTTCCATATCAGGGATATTATCTTA
14622677 CTTTCTCACAATAGAAATTTTCGGGATATTACAATTTCATAGCTAGTTAACCCTTCTAGCTTCTA
196 CTTTCTCACAATAGAAATTTTCGGGATATTACAATTTCATAGCTAGTTAACCCTTCTAGCTTCTA
14622742 G
261 G
14622743 AATTCAAATT
Statistics
Matches: 261, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
261 261 1.00
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (261 bp):
TAACTTTTTCATATTTACACTTTAACCCCTAAACTTTTGAGTATTTACTCTTGGGTAACAAAACT
TTTCTCACTTTTGCAATTTAATCCTTTCTTGAATTAATATGTCATAATATACTTCCCAATGTTGA
CATAAATCAATTACCCTTTTTATCACTTTATTTCCTTATTTTTCCATATCAGGGATATTATCTTA
CTTTCTCACAATAGAAATTTTCGGGATATTACAATTTCATAGCTAGTTAACCCTTCTAGCTTCTA
G
Found at i:14625518 original size:69 final size:69
Alignment explanation
Indices: 14625390--14625877 Score: 417
Period size: 69 Copynumber: 7.1 Consensus size: 69
14625380 TTGTCGTTTA
* * * * * * ** *
14625390 TAAAATGAAGGTTCGCAAGG-GAAGAGTCACAACCTCTAACACAGTTAGTAAGAGTAAAGCTCCT
1 TAAAATCAAGGTTCGC-AGGCGAAGAGCCGCGACCTCCAACACAATTAGCGAGAGCAAAGCTCCT
14625454 AGTTG
65 AGTTG
** * *
14625459 TAAAATCAAGGTTCATAGGTGAAGAGCCGCGACCTCCAACATAATTAGCGAGA-CGAAAGCT-CT
1 TAAAATCAAGGTTCGCAGGCGAAGAGCCGCGACCTCCAACACAATTAGCGAGAGC-AAAGCTCCT
*
14625522 CAATTG
65 -AGTTG
* * * ** ** * * *
14625528 TAAAATTAAGATTCGCAGACGAAGAGCCATGACCTCCAACACAATTAGTAAAAGCACAGCTCCCA
1 TAAAATCAAGGTTCGCAGGCGAAGAGCCGCGACCTCCAACACAATTAGCGAGAGCAAAGCTCCTA
**
14625593 ACTG
66 GTTG
* * ** * * * *
14625597 TAAAATCAAGATTCGCAGGCAAAGAATCGCGACCTCCAACACAGTTAGCGAGAACATAGCTCCCA
1 TAAAATCAAGGTTCGCAGGCGAAGAGCCGCGACCTCCAACACAATTAGCGAGAGCAAAGCTCCTA
14625662 GTTG
66 GTTG
* * * * * *
14625666 TAAAATCAAGGTTTGCAGGCAAAGAGTCACGACCTCTAACACAGTTAGCGAGAGCAAAGCTCCTA
1 TAAAATCAAGGTTCGCAGGCGAAGAGCCGCGACCTCCAACACAATTAGCGAGAGCAAAGCTCCTA
14625731 GTTG
66 GTTG
* * * * * * *
14625735 TAAAATCAAGGTTCGCAGGTGAAGAGCCGTGACCTCTAATACAGTTAGCGAGAGTAAAGCTCTTA
1 TAAAATCAAGGTTCGCAGGCGAAGAGCCGCGACCTCCAACACAATTAGCGAGAGCAAAGCTCCTA
*
14625800 GCTG
66 GTTG
* * * * * *
14625804 TAAAATCAAAGTTCGCAGGCGAAGAACCGCGCCCTTCAACAGAGA-TAGCAAGAGCAAAGCTCCT
1 TAAAATCAAGGTTCGCAGGCGAAGAGCCGCGACCTCCAACACA-ATTAGCGAGAGCAAAGCTCCT
*
14625868 AGCTG
65 AGTTG
14625873 TAAAA
1 TAAAA
14625878 CTAAGATTCG
Statistics
Matches: 339, Mismatches: 74, Indels: 12
0.80 0.17 0.03
Matches are distributed among these distances:
68 5 0.01
69 332 0.98
70 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (69 bp):
TAAAATCAAGGTTCGCAGGCGAAGAGCCGCGACCTCCAACACAATTAGCGAGAGCAAAGCTCCTA
GTTG
Found at i:14625807 original size:207 final size:207
Alignment explanation
Indices: 14625421--14625877 Score: 479
Period size: 207 Copynumber: 2.2 Consensus size: 207
14625411 AAGAGTCACA
* * * ** * **
14625421 ACCTCTAACACAGTTAGTAAGAGTAAAGCTCCTAGTTGTAAAATCAAGGTTCATAGGTGAAGAGC
1 ACCTCCAACACAGATAGCAAGAACAAAGCTCCTAGTTGTAAAATCAAGGTTCACAGGCAAAGAGC
* * *
14625486 CGCGACCTCCAACATAATTAGCGAGACGAAAGCTCTCAATTGTAAAATTAAGATTCGCAGACGAA
66 CACGACCTCCAACACAATTAGCGAGACGAAAGCTCTCAATTGTAAAATCAAGATTCGCAGACGAA
* *
14625551 GAGCCATGACCTCCAACACAATTAGTAAAAGCACAGCTCCCAACTGTAAAATC-AAGATTCGCAG
131 GAGCCATGACCTCCAACACAATTAGCAAAAGCAAAGCTCCCAACTGTAAAATCAAAG-TTCGCAG
*
14625615 GCAAAGAATCGCG
195 GCAAAGAACCGCG
* * * * ** *
14625628 ACCTCCAACACAGTTAGCGAGAACATAGCTCCCAGTTGTAAAATCAAGGTTTGCAGGCAAAGAGT
1 ACCTCCAACACAGATAGCAAGAACAAAGCTCCTAGTTGTAAAATCAAGGTTCACAGGCAAAGAGC
* * * * **
14625693 CACGACCTCTAACACAGTTAGCGAGA-GCAAAGCTC-CTAGTTGTAAAATCAAGGTTCGCAGGTG
66 CACGACCTCCAACACAATTAGCGAGACG-AAAGCTCTC-AATTGTAAAATCAAGATTCGCAGACG
* * * * * * * ** *
14625756 AAGAGCCGTGACCTCTAATACAGTTAGCGAGAGTAAAGCTCTTAGCTGTAAAATCAAAGTTCGCA
129 AAGAGCCATGACCTCCAACACAATTAGCAAAAGCAAAGCTCCCAACTGTAAAATCAAAGTTCGCA
*
14625821 GGCGAAGAACCGCG
194 GGCAAAGAACCGCG
* * * * *
14625835 CCCTTCAACAGAGATAGCAAGAGCAAAGCTCCTAGCTGTAAAA
1 ACCTCCAACACAGATAGCAAGAACAAAGCTCCTAGTTGTAAAA
14625878 CTAAGATTCG
Statistics
Matches: 202, Mismatches: 45, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
206 2 0.01
207 197 0.98
208 3 0.01
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (207 bp):
ACCTCCAACACAGATAGCAAGAACAAAGCTCCTAGTTGTAAAATCAAGGTTCACAGGCAAAGAGC
CACGACCTCCAACACAATTAGCGAGACGAAAGCTCTCAATTGTAAAATCAAGATTCGCAGACGAA
GAGCCATGACCTCCAACACAATTAGCAAAAGCAAAGCTCCCAACTGTAAAATCAAAGTTCGCAGG
CAAAGAACCGCG
Found at i:14638312 original size:63 final size:62
Alignment explanation
Indices: 14638213--14638336 Score: 203
Period size: 63 Copynumber: 2.0 Consensus size: 62
14638203 TAAATGCAAA
*
14638213 ATAAGTTTCGAAAATAAGTATATGTACAATTATGTATAATTTTTAAGTTTGAAAAAAAGGTAG
1 ATAAGTTTCAAAAATAAGTATATGTACAATTATGTATAATTTTTAAGTTTG-AAAAAAGGTAG
* * *
14638276 ATAAGTTTTAAAAATAAGTATATGTACAATTATGTATGATTTTTAAGTTTGATAAAAGGTA
1 ATAAGTTTCAAAAATAAGTATATGTACAATTATGTATAATTTTTAAGTTTGAAAAAAGGTA
14638337 TGTATATTGT
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
62 9 0.16
63 48 0.84
ACGTcount: A:0.44, C:0.02, G:0.15, T:0.39
Consensus pattern (62 bp):
ATAAGTTTCAAAAATAAGTATATGTACAATTATGTATAATTTTTAAGTTTGAAAAAAGGTAG
Found at i:14638695 original size:78 final size:78
Alignment explanation
Indices: 14638613--14638767 Score: 301
Period size: 78 Copynumber: 2.0 Consensus size: 78
14638603 TTTATAGATG
14638613 TTTGAATTGAATTGAAGATAGAATTTTATAAATTCTCTTATGTTTGAATATGATCTTTTACAATT
1 TTTGAATTGAATTGAAGATAGAATTTTATAAATTCTCTTATGTTTGAATATGATCTTTTACAATT
14638678 ATGTGATTACTTA
66 ATGTGATTACTTA
*
14638691 TTTGAATTGAATTGAAGATAGGATTTTATAAATTCTCTTATGTTTGAATATGATCTTTTACAATT
1 TTTGAATTGAATTGAAGATAGAATTTTATAAATTCTCTTATGTTTGAATATGATCTTTTACAATT
14638756 ATGTGATTACTT
66 ATGTGATTACTT
14638768 TAAAGAATTA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (78 bp):
TTTGAATTGAATTGAAGATAGAATTTTATAAATTCTCTTATGTTTGAATATGATCTTTTACAATT
ATGTGATTACTTA
Found at i:14638913 original size:41 final size:41
Alignment explanation
Indices: 14638868--14639012 Score: 272
Period size: 41 Copynumber: 3.5 Consensus size: 41
14638858 GACTTTAAGT
14638868 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
14638909 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
14638950 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
14638991 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
14639013 ATATGTTAAA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 102 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:14640515 original size:124 final size:126
Alignment explanation
Indices: 14640187--14640538 Score: 582
Period size: 126 Copynumber: 2.8 Consensus size: 126
14640177 TAATTTCGAG
** *
14640187 TTGACGTTTCTGATAAAATAGTCTAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
14640252 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGAAAGAAATAATTATTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGAAAGAAATAATTATTTTT
* *
14640313 TTGACATTTCTGAGCAAATAGTATAAAATCGTTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * *
14640378 AAATCGCGGCCTCGTAGACGCGCTTTTGCTACAGTAGGTCATGTAAGAAATAA-T-TTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGAAAGAAATAATTATTTTT
**
14640437 TTGACGTTTCTGAGCAAATAGTATAAAATTACTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
*
14640502 AAATCGCACCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
14640539 CATGTTTGGG
Statistics
Matches: 210, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
124 100 0.48
125 1 0.00
126 109 0.52
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (126 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCACGAAAGAAATAATTATTTTT
Found at i:14643520 original size:29 final size:29
Alignment explanation
Indices: 14643460--14643521 Score: 55
Period size: 23 Copynumber: 2.3 Consensus size: 29
14643450 TTAACTTAGT
14643460 TTAGGGTTTTTAATTAAATTA-G--A---
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
* *
14643483 TTAGGGTTTTTAATTAAATCAGGTTAAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
14643512 TTAGTGTTTT
1 TTAGGGTTTT
14643522 AAGTTAAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 20 0.65
24 1 0.03
26 1 0.03
29 9 0.29
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:14643528 original size:29 final size:28
Alignment explanation
Indices: 14643467--14643528 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 28
14643457 AGTTTAGGGT
*
14643467 TTTTAATTAAATTAGATT-AGG---GT-
1 TTTTAATTAAATTAGGTTAAGGTTAGTG
*
14643490 TTTTAATTAAATCAGGTTAAGGTTAGTG
1 TTTTAATTAAATTAGGTTAAGGTTAGTG
14643518 TTTTAAGTTAA
1 TTTTAA-TTAA
14643529 GGGTTTAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
23 16 0.52
24 3 0.10
27 2 0.06
28 6 0.19
29 4 0.13
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.47
Consensus pattern (28 bp):
TTTTAATTAAATTAGGTTAAGGTTAGTG
Found at i:14643571 original size:29 final size:29
Alignment explanation
Indices: 14643528--14643993 Score: 331
Period size: 29 Copynumber: 16.2 Consensus size: 29
14643518 TTTTAAGTTA
14643528 AGGGTTTAGGGTTTTTAATTAAATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
* *
14643558 AGGGTTAGGATTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
14643587 AGGGTTAGGGTGTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
14643616 A----T--GGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
14643639 AAGGTTAGGGTTTTTAAGTT-AA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
*
14643667 AGGGTT----TTTAATTAAATT--A-G--GTT
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
*
14643690 AGGGTTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
14643719 AGGGTTAGGGTCTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
** ** ** *
14643748 AGGGTTTTTAAAGTTAAGGTTT-AGGATTTTTAAGTT
1 AGGG---TTAGGGTT----TTTAATTA-AATTAGGTT
* ** * * * * * ** *
14643784 AAGGTTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGT-T
*
14643814 AGGGTTAGGATTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
14643843 AGGGTTAGGGTTTGTAATTAAATTCGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
14643872 AGGGGTAGGGTATTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
14643901 AGGGTTAGGGTTTGTAATTAAATGAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
14643930 AGGGGTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
14643959 AGGGTTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
14643988 AGGGTT
1 AGGGTT
14643994 TTTAATTAGG
Statistics
Matches: 343, Mismatches: 62, Indels: 63
0.73 0.13 0.13
Matches are distributed among these distances:
23 29 0.08
24 8 0.02
25 4 0.01
26 4 0.01
27 8 0.02
28 7 0.02
29 235 0.69
30 24 0.07
32 5 0.01
33 5 0.01
35 2 0.01
36 12 0.03
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.45
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:14643596 original size:58 final size:58
Alignment explanation
Indices: 14643528--14643993 Score: 505
Period size: 58 Copynumber: 8.1 Consensus size: 58
14643518 TTTTAAGTTA
* *
14643528 AGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGATTTTTAATTAATTTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
*
14643587 AGGGTTAGGGTGTTTAATTAAATTAGGTTA----T--GGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
14643639 AAGGTTAGGGTTTTTAAGTT--A--A-G---GGTTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
14643690 AGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTCTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
** * * *
14643748 AGGGTTTTTAAAGTTAAGGTTTAGGATT--TTTAAGTTAAGGTTTAGGGTTTTTAATTAAATTAG
1 AGGG---TTAGGGTT----TTTA--ATTAAATTAGGTT-AGGGTTAGGGTTTTTAATTAAATTAG
14643811 GTT
56 GTT
* * *
14643814 AGGGTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTGTAATTAAATTCGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
* * * * *
14643872 AGGGGTAGGGTATTTAATTAATTTAGGTTAGGGTTAGGGTTTGTAATTAAATGAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
14643930 AGGGGTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
14643988 AGGGTT
1 AGGGTT
14643994 TTTAATTAGG
Statistics
Matches: 347, Mismatches: 33, Indels: 55
0.80 0.08 0.13
Matches are distributed among these distances:
48 1 0.00
49 2 0.01
50 2 0.01
51 38 0.11
52 34 0.10
53 2 0.01
54 2 0.01
55 1 0.00
57 3 0.01
58 192 0.55
59 14 0.04
61 6 0.02
63 5 0.01
65 11 0.03
66 31 0.09
67 3 0.01
ACGTcount: A:0.27, C:0.00, G:0.28, T:0.45
Consensus pattern (58 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:14643671 original size:22 final size:20
Alignment explanation
Indices: 14643636--14643681 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
14643626 ATTAAATTAG
14643636 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
14643656 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
14643678 -TTAA
1 GTTAA
14643682 ATTAGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:14643690 original size:51 final size:49
Alignment explanation
Indices: 14643558--14644167 Score: 270
Period size: 52 Copynumber: 12.0 Consensus size: 49
14643548 AAATTAGGTT
* * *
14643558 AGGGTTAGGATTTTTAATTAATTTAGGTTAGGGTTAGGGTGTTTAATTAA
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-A
* * *
14643608 ATTAGGTTATGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTA
1 A--GGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTA
14643660 AGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTA
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTA
* ** * * **
14643710 ATTTAGGTTAGGGTTAGGGT-CTTTAATTAAATTA-GGTTAGGGTTTTTAAAGTTA
1 A---GGGTTAGGGTT--TTTAATTAAATTAGGTTAGGGTTAGGGTTTTT-AA-TTA
* *
14643764 AGGTTTAGGATTTTTAAGTT--A--AGGTTTAGGGTT----TTTAATTAAATTA
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TTAGGGTTAGGGTTT--TT-AATTA
* *
14643810 GGTTAGGGTTAGGATTTTTAATTAAATTAGGTTAGGGTTAGGGTTTGTAATTAA
1 ----AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-A
* * *
14643864 ATTCGGTTAGGGGTAGGGTATTTAATTAATTTAGGTTAGGGTTAGGGTTTGTAATTAA
1 A--GGGTTA-GGGT----T-TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-A
*
14643922 ATGAGGTTAGGGGTAGGGTTTTTAATTAATTTAGGTTAGGGTTAGGGTTTTTAATTA
1 A-G-GG-T-----TAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTA
* ** ** * *
14643979 ATTTAGGTTAGGGTTTTTAATTAGGGTTTAGGTTAGGGTT-TTGTATTAAATT-
1 A---GGGTTAGGGTTTTTAATTA--AATTAGGTTAGGGTTAGGGTTTTTAATTA
* *
14644031 A-GGTTAGGGTTTTT-A--AAGTTA----AGGTTTAGGGTTTTTAATTAA
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATT-A
*
14644073 ACTAGGTTAGGGTTTTGT-ATTAAATTA-G-T----TTAGGGTTTTTAAAGTTA
1 A--GGGTTAGGGTTTT-TAATTAAATTAGGTTAGGGTTAGGGTTTTT-AA-TTA
* *
14644120 AGGTTTAGGG-TTTTAAGTAAATTAGGTTA-GGTTAGGGTTTTTAATTA
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTA
14644167 A
1 A
14644168 ATTAGGTTAG
Statistics
Matches: 444, Mismatches: 48, Indels: 139
0.70 0.08 0.22
Matches are distributed among these distances:
39 5 0.01
40 8 0.02
42 1 0.00
43 4 0.01
44 11 0.02
45 24 0.05
46 17 0.04
47 15 0.03
48 25 0.06
49 19 0.04
50 24 0.05
51 51 0.11
52 91 0.20
53 34 0.08
54 21 0.05
56 3 0.01
57 5 0.01
58 77 0.17
59 3 0.01
63 4 0.01
64 2 0.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (49 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTA
Found at i:14643772 original size:22 final size:22
Alignment explanation
Indices: 14643746--14643801 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
14643736 TTAAATTAGG
14643746 TTAGGGTTTTTAAAGTTAAGGT
1 TTAGGGTTTTTAAAGTTAAGGT
*
14643768 TTAGGATTTTT-AAGTTAAGGT
1 TTAGGGTTTTTAAAGTTAAGGT
14643789 TTAGGGTTTTTAA
1 TTAGGGTTTTTAA
14643802 TTAAATTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (22 bp):
TTAGGGTTTTTAAAGTTAAGGT
Found at i:14643818 original size:23 final size:23
Alignment explanation
Indices: 14643450--14644181 Score: 305
Period size: 29 Copynumber: 28.8 Consensus size: 23
14643440 TGTAACATTG
* *
14643450 TTAACTTAGTTTAGGGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
*
14643473 TTAAATTAGATTAGGGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
* *
14643496 TTAAATCAGGTTAAGGTTAGTGTT--
1 TTAAATTAGGTTAGGGTT--T-TTAA
*
14643520 TTAAGTTAAGGGTTTAGGGTTTTTAA
1 TTAAATT-A-GG-TTAGGGTTTTTAA
14643546 TTAAATTAGGTTAGGGTTAGGATTTTTAA
1 TTAAATTAGGTTA--G---GG-TTTTTAA
*
14643575 TTAATTTAGGTTAGGGTTAGGGTGTTTAA
1 TTAA---A--TTA-GGTTAGGGTTTTTAA
*
14643604 TTAAATTAGGTTATGGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
*
14643627 TTAAATTAGGTTAAGGTTAGGGTTT--
1 TTAAATTAGGTTAGGGTT----TTTAA
*
14643652 TTAAGTTAAGGGTTTAGGGTTTTTAA
1 TTAAATT-A-GG-TTAGGGTTTTTAA
14643678 TTAAATTAGGTTAGGGTTAGGGTTTTTAA
1 TT-AA--A--TTA-GGTTAGGGTTTTTAA
*
14643707 TTAATTTAGGTTAGGGTTAGGGTCTTTAA
1 TTAA---A--TTA-GGTTAGGGTTTTTAA
14643736 TTAAATTAGGTTAGGGTTTTT-A
1 TTAAATTAGGTTAGGGTTTTTAA
* *
14643758 --AAGTTAAGGTTTAGGATTTTTAA
1 TTAAATT-AGG-TTAGGGTTTTTAA
14643781 GTT--A--AGGTTTAGGGTTTTTAA
1 -TTAAATTAGG-TTAGGGTTTTTAA
14643802 TTAAATTAGGTTAGGGTTAGGATTTTTAA
1 TTAAATTAGGTTA--G---GG-TTTTTAA
14643831 TTAAATTAGGTTAGGGTTAGGGTTTGTAA
1 TTAAATTAGGTTAGGG-T----TTT-TAA
*
14643860 TTAAATTCGGTTAGGGGTAGGGTATTTAA
1 TTAAATTAGGTTA-GGGT----T-TTTAA
*
14643889 TTAATTTAGGTTAGGGTTAGGGTTTGTAA
1 TTAA---A--TTA-GGTTAGGGTTTTTAA
*
14643918 TTAAATGAGGTTAGGGGTAGGGTTTTTAA
1 TT-AA--A--TTA-GGTTAGGGTTTTTAA
14643947 TTAATTTAGGTTAGGGTTAGGGTTTTTAA
1 TTAA---A--TTA-GGTTAGGGTTTTTAA
*
14643976 TTAATTTAGGTTAGGGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
**
14643999 TTAGGGTTTAGGTTAGGGTTTTGT-A
1 TTA--AATTAGGTTAGGGTTTT-TAA
14644024 TTAAATTAGGTTAGGGTTTTT-A
1 TTAAATTAGGTTAGGGTTTTTAA
*
14644046 --AAGTTAAGGTTTAGGGTTTTTAA
1 TTAAATT-AGG-TTAGGGTTTTTAA
*
14644069 TTAAACTAGGTTAGGGTTTTGT-A
1 TTAAATTAGGTTAGGGTTTT-TAA
*
14644092 TTAAATTAGTTTAGGGTTTTT-A
1 TTAAATTAGGTTAGGGTTTTTAA
*
14644114 --AAGTTAAGGTTTAGGGTTTTAAGTAAA
1 TTAAATT-AGG-TTAGGGTTTT---T-AA
**
14644141 TTAGGTTAGGTTAGGGTTTTTAA
1 TTAAATTAGGTTAGGGTTTTTAA
14644164 TTAAATTAGGTTAGGGTT
1 TTAAATTAGGTTAGGGTT
14644182 AGGGTTTTTA
Statistics
Matches: 580, Mismatches: 45, Indels: 168
0.73 0.06 0.21
Matches are distributed among these distances:
20 14 0.02
21 24 0.04
22 37 0.06
23 166 0.29
24 32 0.06
25 36 0.06
26 16 0.03
27 26 0.04
28 21 0.04
29 170 0.29
30 14 0.02
31 2 0.00
32 2 0.00
33 1 0.00
34 9 0.02
35 10 0.02
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.45
Consensus pattern (23 bp):
TTAAATTAGGTTAGGGTTTTTAA
Found at i:14644062 original size:22 final size:22
Alignment explanation
Indices: 14644034--14644133 Score: 93
Period size: 22 Copynumber: 4.5 Consensus size: 22
14644024 TTAAATTAGG
14644034 TTAGGGTTTTTAAAGTTAAGGT
1 TTAGGGTTTTTAAAGTTAAGGT
14644056 TTAGGGTTTTT-AA-TTAAACTAGG-
1 TTAGGGTTTTTAAAGTT--A--AGGT
*
14644079 TTAGGGTTTTGTATTAAATT-A-GT
1 TTAGGGTTTT-TA--AAGTTAAGGT
14644102 TTAGGGTTTTTAAAGTTAAGGT
1 TTAGGGTTTTTAAAGTTAAGGT
14644124 TTAGGGTTTT
1 TTAGGGTTTT
14644134 AAGTAAATTA
Statistics
Matches: 65, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
20 6 0.09
21 3 0.05
22 27 0.42
23 21 0.32
24 4 0.06
27 2 0.03
28 2 0.03
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.48
Consensus pattern (22 bp):
TTAGGGTTTTTAAAGTTAAGGT
Found at i:14644090 original size:68 final size:68
Alignment explanation
Indices: 14643961--14644181 Score: 284
Period size: 68 Copynumber: 3.1 Consensus size: 68
14643951 TTTAGGTTAG
* * *
14643961 GGTTAGGGTTTTTAATTAATTTAGG-TTAGGGTTTTTAATTAGGGTTTAGGTTAGGGTTTTGTAT
1 GGTTAGGGTTTTTAA--AGTTAAGGTTTAGGGTTTTTAATTA--GATTAGGTTAGGGTTTTGTAT
14644025 TAAATTA
62 TAAATTA
* *
14644032 GGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAATTAAACTAGGTTAGGGTTTTGTATTAAA
1 GGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAATTAGATTAGGTTAGGGTTTTGTATTAAA
14644097 TTA
66 TTA
* *
14644100 GTTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTAAGTAAATTAGGTTAGGTTAGGGTTTT-TAA
1 GGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTT---T-AATTAGATTAGGTTAGGGTTTTGT-A
14644164 TTAAATTA
61 TTAAATTA
14644172 GGTTAGGGTT
1 GGTTAGGGTT
14644182 AGGGTTTTTA
Statistics
Matches: 134, Mismatches: 10, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
68 58 0.43
69 6 0.04
70 16 0.12
71 17 0.13
72 37 0.28
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (68 bp):
GGTTAGGGTTTTTAAAGTTAAGGTTTAGGGTTTTTAATTAGATTAGGTTAGGGTTTTGTATTAAA
TTA
Found at i:14644148 original size:29 final size:29
Alignment explanation
Indices: 14644120--14644217 Score: 137
Period size: 29 Copynumber: 3.4 Consensus size: 29
14644110 TTTAAAGTTA
*
14644120 AGGTTTAGGG-TTTTAAGTAAATTAGGTT
1 AGGTTTAGGGTTTTTAATTAAATTAGGTT
14644148 AGG-TTAGGGTTTTTAATTAAATTAGGTT
1 AGGTTTAGGGTTTTTAATTAAATTAGGTT
* *
14644176 AGGGTTAGGGTTTTTAATTAATTTAGGTT
1 AGGTTTAGGGTTTTTAATTAAATTAGGTT
*
14644205 AGGGTTTAAGGTT
1 A-GGTTTAGGGTT
14644218 CAATTAGGTC
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 6 0.10
28 23 0.37
29 25 0.40
30 9 0.14
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.45
Consensus pattern (29 bp):
AGGTTTAGGGTTTTTAATTAAATTAGGTT
Found at i:14644333 original size:25 final size:25
Alignment explanation
Indices: 14644301--14644395 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
14644291 AAAATTTTTT
*
14644301 TATTTTATTACATCAAATAAACTTA
1 TATTTTATTACATCAAATAAACTTC
* *
14644326 TATTTTATTGCATCAAATCAACTTC
1 TATTTTATTACATCAAATAAACTTC
14644351 TATTTTATTACATCAAATAAACTTC
1 TATTTTATTACATCAAATAAACTTC
*
14644376 TATTTTTTTACATCAAATAA
1 TATTTTATTACATCAAATAA
14644396 TATCAAAATA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.39, C:0.15, G:0.01, T:0.45
Consensus pattern (25 bp):
TATTTTATTACATCAAATAAACTTC
Found at i:14644426 original size:44 final size:45
Alignment explanation
Indices: 14644363--14644449 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 45
14644353 TTTTATTACA
*
14644363 TCAAATAAACTTCTATTTTTTTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTTTTACATAAAATAATATCAAAATAAC
*
14644408 TCAAA-AAATTTCTATTTTTTTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTTTTACATAAAATAATATCAAAATA
14644450 TTCAAAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 35 0.88
45 5 0.12
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTTTTACATAAAATAATATCAAAATAAC
Found at i:14652154 original size:11 final size:11
Alignment explanation
Indices: 14652140--14652198 Score: 64
Period size: 11 Copynumber: 5.4 Consensus size: 11
14652130 ATATCCAAAC
14652140 AATAACAACAA
1 AATAACAACAA
*
14652151 AATAATAACAA
1 AATAACAACAA
* *
14652162 TATAATAACAA
1 AATAACAACAA
*
14652173 AATGACAACAA
1 AATAACAACAA
* *
14652184 AACAACATCAA
1 AATAACAACAA
14652195 AATA
1 AATA
14652199 GCAGCACAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.68, C:0.15, G:0.02, T:0.15
Consensus pattern (11 bp):
AATAACAACAA
Found at i:14655605 original size:15 final size:15
Alignment explanation
Indices: 14655585--14655615 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14655575 ATCATGTTGC
*
14655585 ATACGAGCTATGTGT
1 ATACGAACTATGTGT
14655600 ATACGAACTATGTGT
1 ATACGAACTATGTGT
14655615 A
1 A
14655616 ATGCGAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (15 bp):
ATACGAACTATGTGT
Found at i:14672233 original size:15 final size:15
Alignment explanation
Indices: 14672213--14672242 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14672203 TTTAAAAAAG
14672213 AATATTTAAAGGAAA
1 AATATTTAAAGGAAA
*
14672228 AATATTTAATGGAAA
1 AATATTTAAAGGAAA
14672243 TTAAATGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (15 bp):
AATATTTAAAGGAAA
Found at i:14673708 original size:63 final size:64
Alignment explanation
Indices: 14673641--14673774 Score: 162
Period size: 63 Copynumber: 2.1 Consensus size: 64
14673631 TTGCGCACTT
* * * ** *
14673641 AGTGAGTCACATGGCTTGGGAACAAGCTTGTGTCCCTGGCC-GTATGTCTCTAAGTTGTGAATC
1 AGTGAGTCACATGACCTAGGAACAAGCCCGTGTCCCTGGCCTGTATGTCTCTAAATTGTGAATC
* * * * *
14673704 AGTGAGTTACATGACCTAGGCACACGCCCGTGTCCTTGGCCTGTGTGTCTCTAAATTGTGAATC
1 AGTGAGTCACATGACCTAGGAACAAGCCCGTGTCCCTGGCCTGTATGTCTCTAAATTGTGAATC
14673768 AGTGAGT
1 AGTGAGT
14673775 TATACTGTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
63 32 0.54
64 27 0.46
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.30
Consensus pattern (64 bp):
AGTGAGTCACATGACCTAGGAACAAGCCCGTGTCCCTGGCCTGTATGTCTCTAAATTGTGAATC
Found at i:14674637 original size:29 final size:30
Alignment explanation
Indices: 14674600--14674656 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
14674590 TCCGAGCCTT
*
14674600 GGGGAAAAAT-GTAATTATGTAAAAGTTTA
1 GGGGAAAAATCGTAATTATGAAAAAGTTTA
* *
14674629 GGGGCAAAATCGTAATTTTGAAAAAGTT
1 GGGGAAAAATCGTAATTATGAAAAAGTT
14674657 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.42, C:0.04, G:0.25, T:0.30
Consensus pattern (30 bp):
GGGGAAAAATCGTAATTATGAAAAAGTTTA
Found at i:14675075 original size:50 final size:50
Alignment explanation
Indices: 14674993--14675186 Score: 244
Period size: 50 Copynumber: 3.9 Consensus size: 50
14674983 CATTTGGGTA
*
14674993 GAGAGATCCCATGTAAGACCATGTCTGAGACATGGCGTTGGCACCGAGAT
1 GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * *
14675043 GAGAGGTCCTATGTAAGACCATGTTTGGGACATGGCGTTTGCACCGAGAT
1 GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * *
14675093 GAGAGGTCCCCCGTAAGACCATGTCTGGAACATGGCATGGGCACCGATAT
1 GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * *
14675143 GAGAACATCCCATGTCAGACCATGTCTGGGACATGGCTTTGGCA
1 GAG-AGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
14675187 TGTTATGATC
Statistics
Matches: 121, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 89 0.74
51 32 0.26
ACGTcount: A:0.26, C:0.23, G:0.30, T:0.22
Consensus pattern (50 bp):
GAGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:14677032 original size:26 final size:28
Alignment explanation
Indices: 14677003--14677067 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 28
14676993 AAACACAGTC
14677003 AAAAAGAAAAAATCAAAAG-AAAGA-A-G
1 AAAAAGAAAAAA-CAAAAGAAAAGAGAGG
* *
14677029 AAAAATG-TAAAAGAAAAGAAAAGAGAGG
1 AAAAA-GAAAAAACAAAAGAAAAGAGAGG
14677057 AAAAAGAAAAA
1 AAAAAGAAAAA
14677068 GAAAAAAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
25 5 0.16
26 14 0.45
27 3 0.10
28 9 0.29
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (28 bp):
AAAAAGAAAAAACAAAAGAAAAGAGAGG
Found at i:14677060 original size:27 final size:25
Alignment explanation
Indices: 14677003--14677072 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 25
14676993 AAACACAGTC
*
14677003 AAAAAGAAAAAATCAAAAGAAAGAAGA
1 AAAAAG-AAAAA-GAAAAGAAAGAAGA
* * *
14677030 AAAATGTAAAAGAAAAGAAAAGAGAGG
1 AAAAAGAAAAAGAAAAG-AAAGA-AGA
14677057 AAAAAGAAAAAGAAAA
1 AAAAAGAAAAAGAAAA
14677073 AAACGTTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
25 5 0.14
26 9 0.26
27 21 0.60
ACGTcount: A:0.76, C:0.01, G:0.19, T:0.04
Consensus pattern (25 bp):
AAAAAGAAAAAGAAAAGAAAGAAGA
Found at i:14677067 original size:6 final size:6
Alignment explanation
Indices: 14677003--14677073 Score: 51
Period size: 6 Copynumber: 11.8 Consensus size: 6
14676993 AAACACAGTC
*
14677003 AAAAAG AAAAA- ATCAAAAG AAAGAAG AAAAATG TAAAAG -AAAAG -AAAAG
1 AAAAAG AAAAAG A--AAAAG AAA-AAG AAAAA-G AAAAAG AAAAAG AAAAAG
* *
14677052 -AGAGG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAA
14677074 AACGTTTTAG
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
5 14 0.26
6 24 0.44
7 15 0.28
8 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:14680473 original size:20 final size:19
Alignment explanation
Indices: 14680437--14680475 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14680427 AAAATATTTT
*
14680437 TATTTTTTTATTTTTAAAA
1 TATTTTTGTATTTTTAAAA
*
14680456 TATTTTTGTGTTTATTAAAA
1 TATTTTTGTATTT-TTAAAA
14680476 ACCGGGCCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TATTTTTGTATTTTTAAAA
Found at i:14687396 original size:19 final size:19
Alignment explanation
Indices: 14687343--14687399 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 19
14687333 ACCATAATTC
* *
14687343 TAAAAA-ATTAAAAAATCT
1 TAAAAATATTAAAAATTAT
* **
14687361 TTAAAATAAAAATAAATTAT
1 TAAAAATATTAA-AAATTAT
14687381 TAAAAATATTAAAAATTAT
1 TAAAAATATTAAAAATTAT
14687400 ATTAACATGT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
18 5 0.17
19 10 0.34
20 14 0.48
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAAATATTAAAAATTAT
Found at i:14693306 original size:21 final size:20
Alignment explanation
Indices: 14693277--14693315 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
14693267 TTATGCTATA
14693277 TATTATAAAAATAATATATT
1 TATTATAAAAATAATATATT
*
14693297 TATTCATAAAAATATTATA
1 TATT-ATAAAAATAATATA
14693316 GTTTTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TATTATAAAAATAATATATT
Found at i:14693982 original size:43 final size:43
Alignment explanation
Indices: 14693613--14693979 Score: 352
Period size: 42 Copynumber: 8.6 Consensus size: 43
14693603 GAGTCTTTCG
* * **
14693613 CGGCGCTTATGCAAAAAACGCCACTACAGATCGGGTTTCTTTAC
1 CGGCGCTTATACAAAAAACGCCACTATAGATATGG-TTCTTTAC
* * * * * * *
14693657 CGGCGTTTGTACAGAAAACGCCACAATAGATAT-CTGCTCTAC
1 CGGCGCTTATACAAAAAACGCCACTATAGATATGGTTCTTTAC
* * * * *
14693699 CGGCGCTTATACAAAAAACGCCACTATAGCT-CGGGTCTATAG
1 CGGCGCTTATACAAAAAACGCCACTATAGATATGGTTCTTTAC
* * * *
14693741 CGGCGCTTATACAAAAAACGCCACTATAGCT-CGGTTCTATAA
1 CGGCGCTTATACAAAAAACGCCACTATAGATATGGTTCTTTAC
*
14693783 CGGCGCTTATACAAAAAACGCCACTATAGATATGTTTCTTTAC
1 CGGCGCTTATACAAAAAACGCCACTATAGATATGGTTCTTTAC
* * *
14693826 CGGCGCTTATA-AAGAAACGCCACTATAGATATGGCTCTGTAC
1 CGGCGCTTATACAAAAAACGCCACTATAGATATGGTTCTTTAC
* **
14693868 CGGCGCTTATGCAAAAAACGCCACTATAGAT-TGGAGTT-TTTTG
1 CGGCGCTTATACAAAAAACGCCACTATAGATAT-G-GTTCTTTAC
* * * *
14693911 CGGCGCTTATACACAAAACGCCACTAGAGAT-TGGTGGCTTTAG
1 CGGCGCTTATACAAAAAACGCCACTATAGATATGGT-TCTTTAC
* *
14693954 CGGCGCTTATGCATAAAACGCCACTA
1 CGGCGCTTATACAAAAAACGCCACTA
14693980 GAGGCGGGTT
Statistics
Matches: 270, Mismatches: 46, Indels: 15
0.82 0.14 0.05
Matches are distributed among these distances:
41 2 0.01
42 145 0.54
43 96 0.36
44 27 0.10
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
CGGCGCTTATACAAAAAACGCCACTATAGATATGGTTCTTTAC
Found at i:14694013 original size:43 final size:42
Alignment explanation
Indices: 14693564--14694005 Score: 248
Period size: 42 Copynumber: 10.4 Consensus size: 42
14693554 TAGAATACCG
* * * * *
14693564 TCTTTAGTGGCGCTTA--CACAGAAACGCCACTATAGGTGGGAG
1 TCTTTAGCGGCGCTTATGCATA-AAACGCCACTAGAGATGGG-T
* * *
14693606 TCTTTCGCGGCGCTTATGCAAAAAACGCCACTACAGATCGGGTT
1 TCTTTAGCGGCGCTTATGCATAAAACGCCACTAGAGAT-GGG-T
* * * * * * * ***
14693650 TCTTTACCGGCGTTTGTACAGAAAACGCCACAATAGATATCT
1 TCTTTAGCGGCGCTTATGCATAAAACGCCACTAGAGATGGGT
* * * * * * *
14693692 GCTCTACCGGCGCTTATACAAAAAACGCCACTATAGCTCGGG-
1 TCTTTAGCGGCGCTTATGCATAAAACGCCACTAGAGAT-GGGT
* * * * * *
14693734 TCTATAGCGGCGCTTATACAAAAAACGCCACTATAGCTCGGT
1 TCTTTAGCGGCGCTTATGCATAAAACGCCACTAGAGATGGGT
* * * * * * *
14693776 TCTATAACGGCGCTTATACAAAAAACGCCACTATAGATATGTT
1 TCTTTAGCGGCGCTTATGCATAAAACGCCACTAGAGAT-GGGT
* * * * *
14693819 TCTTTACCGGCGCTTAT--AAAGAAACGCCACTATAGATATGGC
1 TCTTTAGCGGCGCTTATGCATA-AAACGCCACTAGAGAT-GGGT
* * * *
14693861 TCTGTACCGGCGCTTATGCAAAAAACGCCACTATAGATTGGAGT
1 TCTTTAGCGGCGCTTATGCATAAAACGCCACTAGAGA-TGG-GT
* * * *
14693905 T-TTTTGCGGCGCTTATACACAAAACGCCACTAGAGATTGGT
1 TCTTTAGCGGCGCTTATGCATAAAACGCCACTAGAGATGGGT
* **
14693946 GGCTTTAGCGGCGCTTATGCATAAAACGCCACTAGAGGCGGGT
1 -TCTTTAGCGGCGCTTATGCATAAAACGCCACTAGAGATGGGT
*
14693989 TCTTTAGTGGCGCTTAT
1 TCTTTAGCGGCGCTTAT
14694006 CCAATAAACG
Statistics
Matches: 328, Mismatches: 59, Indels: 26
0.79 0.14 0.06
Matches are distributed among these distances:
41 7 0.02
42 169 0.52
43 110 0.34
44 42 0.13
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (42 bp):
TCTTTAGCGGCGCTTATGCATAAAACGCCACTAGAGATGGGT
Found at i:14694364 original size:21 final size:21
Alignment explanation
Indices: 14694340--14694381 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
14694330 CCCTCATTTT
14694340 AGCCTCTGATTCCCTCGCTGC
1 AGCCTCTGATTCCCTCGCTGC
* *
14694361 AGCCTCTGCTTCTCTCGCTGC
1 AGCCTCTGATTCCCTCGCTGC
14694382 TGCATCTGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.43, G:0.19, T:0.31
Consensus pattern (21 bp):
AGCCTCTGATTCCCTCGCTGC
Found at i:14694389 original size:21 final size:21
Alignment explanation
Indices: 14694344--14694392 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
14694334 CATTTTAGCC
* *
14694344 TCTGATTCCCTCGCTGCAGCC
1 TCTGCTTCCCTCGCTGCAGCA
* *
14694365 TCTGCTTCTCTCGCTGCTGCA
1 TCTGCTTCCCTCGCTGCAGCA
14694386 TCTGCTT
1 TCTGCTT
14694393 TAAGCTGCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.06, C:0.39, G:0.18, T:0.37
Consensus pattern (21 bp):
TCTGCTTCCCTCGCTGCAGCA
Found at i:14694446 original size:87 final size:87
Alignment explanation
Indices: 14694353--14694530 Score: 252
Period size: 87 Copynumber: 2.0 Consensus size: 87
14694343 CTCTGATTCC
* *
14694353 CTCGCTGCAGCCTCTGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGCT-GCTGAAGTTCTTCAT
1 CTCGCTGCAGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TACCTGAAGTTCTTCAT
14694417 A-CTTTCGTTGAACCTCAGCTTCT
65 ATCTTT-GTTGAACCTCAGCTTCT
* * * * *
14694440 CTCGCTGCTGCCTCTGCTTCTCTCGTTGCCGCATCTGCTTTAAGTTGTACCTGGAGTTTTTCATA
1 CTCGCTGCAGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTACCTGAAGTTCTTCATA
*
14694505 TCTTTTTTGAACCTCAGCTTCT
66 TCTTTGTTGAACCTCAGCTTCT
14694527 CTCG
1 CTCG
14694531 ATGTTGCCTC
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
86 1 0.01
87 76 0.94
88 4 0.05
ACGTcount: A:0.12, C:0.31, G:0.18, T:0.39
Consensus pattern (87 bp):
CTCGCTGCAGCCTCTGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTACCTGAAGTTCTTCATA
TCTTTGTTGAACCTCAGCTTCT
Found at i:14694476 original size:21 final size:21
Alignment explanation
Indices: 14694434--14694479 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
14694424 TTGAACCTCA
* *
14694434 GCTTCTCTCGCTGCTGCCTCT
1 GCTTCTCTCGCTGCCGCATCT
*
14694455 GCTTCTCTCGTTGCCGCATCT
1 GCTTCTCTCGCTGCCGCATCT
14694476 GCTT
1 GCTT
14694480 TAAGTTGTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.39, G:0.20, T:0.39
Consensus pattern (21 bp):
GCTTCTCTCGCTGCCGCATCT
Found at i:14700232 original size:13 final size:13
Alignment explanation
Indices: 14700214--14700243 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14700204 ATATAAGTTG
14700214 ATGTAAGTTATGA
1 ATGTAAGTTATGA
*
14700227 ATGTAAGTTATGT
1 ATGTAAGTTATGA
14700240 ATGT
1 ATGT
14700244 TATGTAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.23, T:0.43
Consensus pattern (13 bp):
ATGTAAGTTATGA
Found at i:14700245 original size:9 final size:9
Alignment explanation
Indices: 14700227--14700297 Score: 62
Period size: 9 Copynumber: 8.2 Consensus size: 9
14700217 TAAGTTATGA
14700227 ATGTAAGTT
1 ATGTAAGTT
*
14700236 ATGTATGTT
1 ATGTAAGTT
14700245 ATGTAAG-T
1 ATGTAAGTT
14700253 -TGTAAGTT
1 ATGTAAGTT
*
14700261 AT-TATGTATT
1 ATGTAAG--TT
*
14700271 ATGTATGTT
1 ATGTAAGTT
14700280 ATGTAAG-T
1 ATGTAAGTT
14700288 -TGTAAGTT
1 ATGTAAGTT
14700296 AT
1 AT
14700298 TAAAACTGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
7 12 0.24
8 7 0.14
9 24 0.47
10 4 0.08
11 4 0.08
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:14701780 original size:2 final size:2
Alignment explanation
Indices: 14701773--14701806 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
14701763 CATCACCAAA
14701773 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
14701807 CCATATACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14702871 original size:16 final size:16
Alignment explanation
Indices: 14702850--14702880 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14702840 CGTTTATGAG
14702850 TTAGGGATTTCAGAAC
1 TTAGGGATTTCAGAAC
*
14702866 TTAGGGATTTTAGAA
1 TTAGGGATTTCAGAA
14702881 TAGGGAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (16 bp):
TTAGGGATTTCAGAAC
Found at i:14705339 original size:41 final size:41
Alignment explanation
Indices: 14705293--14705389 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 41
14705283 GTTCTTACAC
* *
14705293 AAACGCCGCTATCGACC-CAAGATTTACCGGCGCTTCTCCAG
1 AAACGCCGCTATAGACCGCAA-ATTTACCGGCGATTCTCCAG
* * * *
14705334 GAACGCCGCTATAGACCGGAAATTTAGCGGCGATTCTCCAT
1 AAACGCCGCTATAGACCGCAAATTTACCGGCGATTCTCCAG
*
14705375 AAACGCCGCTTTAGA
1 AAACGCCGCTATAGA
14705390 GCGGAGCATC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 45 0.96
42 2 0.04
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.21
Consensus pattern (41 bp):
AAACGCCGCTATAGACCGCAAATTTACCGGCGATTCTCCAG
Found at i:14705772 original size:113 final size:111
Alignment explanation
Indices: 14705498--14705845 Score: 439
Period size: 113 Copynumber: 3.1 Consensus size: 111
14705488 CGCTTAACGC
* * * * *
14705498 AAAACGCTGCTGTAGAACGG-GTTATTAGCGGCGTTTGGGAAAATACTGCCACTAGTGTTCCAAA
1 AAAACGCCGCTGTAGAACGGAGTT-TTAGCGGCGCTTGGGAAAA-ACCGCCACTAATGTTCC-CA
** * *
14705562 ATATACAAAAACGGCGTCGTTCTGTGTTACTGTATTTGCGACGCATTTTGT
63 ATATATGAAAACGGCGTCGTTCTGTGTTACTCTA-TTGCGGCGC-TTTTGT
* * * *
14705613 AAAACGCCGCTGAAGAATGGAGTATTAGCGGCGCTTGGGCAAAACCGCCACTAATGTTCCCAGAT
1 AAAACGCCGCTGTAGAACGGAGTTTTAGCGGCGCTTGGGAAAAACCGCCACTAATGTTCCCA-AT
* * *
14705678 ATATGAAAACGGCGTCGTTCTGTATTACTCCATTGCGGCGCTTTGTAT
65 ATATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTT-TGT
14705726 AAAACGCCGCTGTAGAACGGAGTTTTAGCGGCGCTT-GGAAATAACCGCCACTAATGTTCCCAAC
1 AAAACGCCGCTGTAGAACGGAGTTTTAGCGGCGCTTGGGAAA-AACCGCCACTAATGTTCCCAA-
*
14705790 TATATGAAAACGGCGTCGTTCTGTGTGACTCTATTGCGGCGCTTTTTGT
64 TATATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGC-TTTTGT
14705839 AAAACGC
1 AAAACGC
14705846 TGTTAATGCT
Statistics
Matches: 203, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
112 8 0.04
113 112 0.55
114 47 0.23
115 34 0.17
116 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (111 bp):
AAAACGCCGCTGTAGAACGGAGTTTTAGCGGCGCTTGGGAAAAACCGCCACTAATGTTCCCAATA
TATGAAAACGGCGTCGTTCTGTGTTACTCTATTGCGGCGCTTTTGT
Found at i:14708123 original size:3 final size:3
Alignment explanation
Indices: 14708115--14708148 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
14708105 TATATTTCTG
14708115 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA T
14708149 TTACCACTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:14713835 original size:69 final size:69
Alignment explanation
Indices: 14713753--14713889 Score: 231
Period size: 69 Copynumber: 2.0 Consensus size: 69
14713743 CGAGGGATGA
*
14713753 GATCCCACACAGTATAG-TTTGCATAGAATAAAGCTTCCGTAACTTAAATATACACTCAAAACAT
1 GATCCCACACAGTA-AGATTTGCATAGAATAAAGCTTCCCTAACTTAAATATACACTCAAAACAT
14713817 GATTT
65 GATTT
* *
14713822 GATCCCACACAGTACGATTTGCATAGAATAAAGCTTCCCTAACTTAAATATACGCTCAAAACATG
1 GATCCCACACAGTAAGATTTGCATAGAATAAAGCTTCCCTAACTTAAATATACACTCAAAACATG
14713887 ATT
66 ATT
14713890 CGTGAACAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 1 0.02
69 63 0.98
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.28
Consensus pattern (69 bp):
GATCCCACACAGTAAGATTTGCATAGAATAAAGCTTCCCTAACTTAAATATACACTCAAAACATG
ATTT
Found at i:14723666 original size:13 final size:15
Alignment explanation
Indices: 14723633--14723674 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14723623 ACTTTTGAAA
*
14723633 TTAAAAAGAATAAAT
1 TTAAAAAGAATAAAC
14723648 TTAAAAA-AA-AAAC
1 TTAAAAAGAATAAAC
*
14723661 TTAAAATGAATAAA
1 TTAAAAAGAATAAA
14723675 TTATTGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.39
14 4 0.17
15 10 0.43
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (15 bp):
TTAAAAAGAATAAAC
Found at i:14725355 original size:15 final size:15
Alignment explanation
Indices: 14725335--14725367 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
14725325 TTCTATCTCT
*
14725335 AAGAATCTCTATACC
1 AAGAATCTCCATACC
14725350 AAGAATCTCCATACC
1 AAGAATCTCCATACC
14725365 AAG
1 AAG
14725368 TATTTTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.27, G:0.09, T:0.21
Consensus pattern (15 bp):
AAGAATCTCCATACC
Found at i:14734123 original size:2 final size:2
Alignment explanation
Indices: 14734116--14734145 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14734106 GCAAATGCAT
*
14734116 AG AG AG AG AG AG AG AG AA AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
14734146 GAGGTACTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14745042 original size:22 final size:23
Alignment explanation
Indices: 14744984--14745042 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
14744974 ATATGTATAC
14744984 TAAAATAAATATA-TACATATAGA
1 TAAAA-AAATATATTACATATAGA
14745007 TAAAAAAATA-ATTACATATA-A
1 TAAAAAAATATATTACATATAGA
14745028 -AAAAAAATTATATTA
1 TAAAAAAA-TATATTA
14745043 TACTACAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
20 7 0.21
21 4 0.12
22 17 0.52
23 5 0.15
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (23 bp):
TAAAAAAATATATTACATATAGA
Found at i:14745089 original size:21 final size:21
Alignment explanation
Indices: 14745050--14745090 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14745040 TTATACTACA
* *
14745050 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
14745071 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
14745091 ATTTTTTAAA
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:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:14745138 original size:30 final size:29
Alignment explanation
Indices: 14745098--14745154 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
14745088 TATATTTTTT
*
14745098 AAAAAATAATTAAATATAAAA-AAAGAATA
1 AAAAAATAATT-AATAAAAAATAAAGAATA
14745127 AAAAAACTAATTAATAAAAAATAAAGAA
1 AAAAAA-TAATTAATAAAAAATAAAGAA
14745155 AATGAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (29 bp):
AAAAAATAATTAATAAAAAATAAAGAATA
Found at i:14745674 original size:22 final size:21
Alignment explanation
Indices: 14745639--14745715 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 21
14745629 AAAGGGTATC
* *
14745639 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
14745660 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
14745683 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
14745702 TATATATCATATCT
1 TACAAATCATATCT
14745716 AAAATTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 17 0.37
21 4 0.09
22 15 0.33
23 10 0.22
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:14745682 original size:23 final size:22
Alignment explanation
Indices: 14745639--14745696 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
14745629 AAAGGGTATC
* *
14745639 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
14745660 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
14745683 TGCATATCATATCT
1 TACAAATCATATCT
14745697 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:14745699 original size:19 final size:19
Alignment explanation
Indices: 14745675--14745785 Score: 159
Period size: 19 Copynumber: 5.8 Consensus size: 19
14745665 AATCATATCT
14745675 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
14745694 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
*
14745713 TCTAAAATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
14745732 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
*
14745751 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
14745770 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
14745786 CCTGAAGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:14745723 original size:38 final size:38
Alignment explanation
Indices: 14745675--14745778 Score: 181
Period size: 38 Copynumber: 2.7 Consensus size: 38
14745665 AATCATATCT
14745675 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
* *
14745713 TCTAAAATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
14745751 TCTAAGATTGTATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
14745779 GCATATCCCT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:14747757 original size:27 final size:28
Alignment explanation
Indices: 14747727--14747788 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
14747717 ACATTCACAT
14747727 AGATAA-TTCGTAGAGACAGTAAACACG
1 AGATAAGTTCGTAGAGACAGTAAACACG
* * *
14747754 AGATAAAGTTTGTTGGGACAGTAAACACG
1 AGAT-AAGTTCGTAGAGACAGTAAACACG
14747783 AGATAA
1 AGATAA
14747789 AGTCTGTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 4 0.13
28 4 0.13
29 22 0.73
ACGTcount: A:0.44, C:0.11, G:0.24, T:0.21
Consensus pattern (28 bp):
AGATAAGTTCGTAGAGACAGTAAACACG
Found at i:14747775 original size:29 final size:29
Alignment explanation
Indices: 14747736--14747917 Score: 138
Period size: 29 Copynumber: 6.3 Consensus size: 29
14747726 TAGATAATTC
* *
14747736 GTAGAGACAGTAAACACGAGATAAAGTTT
1 GTAGGGACAGTAAACACGAGATAAAGTCT
*
14747765 GTTGGGACAGTAAACACGAGATAAAGTCT
1 GTAGGGACAGTAAACACGAGATAAAGTCT
* * * *
14747794 GTCA-AGATAGTAAACATGGGATAAAGTCT
1 GT-AGGGACAGTAAACACGAGATAAAGTCT
* * *
14747823 GTAGGGATAGTAAACACAAGACAAAGTCT
1 GTAGGGACAGTAAACACGAGATAAAGTCT
** * * *
14747852 GCCGGGACAATAAATA-GAAGATAAAGTCC
1 GTAGGGACAGTAAACACG-AGATAAAGTCT
* * *
14747881 GTCA-GGACAATAAACATGAGGT-AAGTCT
1 GT-AGGGACAGTAAACACGAGATAAAGTCT
*
14747909 GTTGGGACA
1 GTAGGGACA
14747918 AGAGAAACAA
Statistics
Matches: 120, Mismatches: 27, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
28 13 0.11
29 106 0.88
30 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.20
Consensus pattern (29 bp):
GTAGGGACAGTAAACACGAGATAAAGTCT
Found at i:14749192 original size:35 final size:35
Alignment explanation
Indices: 14749146--14749219 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
14749136 TTTTGAGGTG
*
14749146 AAAAAGAAAATTTCTCTTCTTTAATAGAAACCAGT
1 AAAAAGAAAATTTCTCTTCTTTAATAAAAACCAGT
14749181 AAAAAGAAAATTTCTCTTCTTTAATAAAAACCAGT
1 AAAAAGAAAATTTCTCTTCTTTAATAAAAACCAGT
14749216 AAAA
1 AAAA
14749220 TTGTTATTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.30
Consensus pattern (35 bp):
AAAAAGAAAATTTCTCTTCTTTAATAAAAACCAGT
Found at i:14750850 original size:24 final size:24
Alignment explanation
Indices: 14750821--14750867 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
14750811 GACTAAGGAC
*
14750821 ATGTTTAGGTTTATTTAATAATAT
1 ATGTTTAGGTTCATTTAATAATAT
14750845 ATGTTTAGGTTCATTTAATAATA
1 ATGTTTAGGTTCATTTAATAATA
14750868 CCTTTTAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.02, G:0.13, T:0.51
Consensus pattern (24 bp):
ATGTTTAGGTTCATTTAATAATAT
Found at i:14754952 original size:19 final size:19
Alignment explanation
Indices: 14754928--14754985 Score: 89
Period size: 19 Copynumber: 2.9 Consensus size: 19
14754918 ATAAAATAAT
14754928 TACAATATTCATACAAAAC
1 TACAATATTCATACAAAAC
*
14754947 TACAATATTCATACAAAAAAT
1 TACAATATTCATAC--AAAAC
14754968 TACAATATTCATACAAAA
1 TACAATATTCATACAAAA
14754986 TACTAATCCA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 18 0.50
21 18 0.50
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (19 bp):
TACAATATTCATACAAAAC
Found at i:14754971 original size:21 final size:21
Alignment explanation
Indices: 14754920--14755187 Score: 133
Period size: 21 Copynumber: 12.2 Consensus size: 21
14754910 AATTAATTAT
14754920 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
*
14754942 --AAAACTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
14754961 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
* * *
14754982 --AAAA-TACTA-ATCCAAAAC
1 AAAAAATTACAATATTC-ATAC
* * * *
14755000 TATAAA-TACAA-ATTTAATTAT
1 AAAAAATTACAATA-TTCA-TAC
*
14755021 AAAATAATTACAATATTCATGC
1 AAAA-AATTACAATATTCATAC
14755043 AAAAAATTACAATATTACAATATATC
1 AAAAAATTACAATATT-C---ATA-C
*** *
14755069 CCGACATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
*
14755090 --AAAATTACAAAATTACAATATTC
1 AAAAAATTACAATATT-C-ATA--C
*
14755113 ATACAAAATTATAATATTACAATATTC
1 A-A-AAAATTACAATATT-C-ATA--C
14755140 ATACAAAATTACAATATTCATAC
1 A-A-AAAATTACAATATTCATAC
14755163 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
14755184 AAAA
1 AAAA
14755188 TACTAATCCA
Statistics
Matches: 196, Mismatches: 27, Indels: 47
0.73 0.10 0.17
Matches are distributed among these distances:
17 3 0.02
18 7 0.04
19 31 0.16
20 12 0.06
21 61 0.31
22 12 0.06
23 11 0.06
24 1 0.01
25 6 0.03
26 14 0.07
27 38 0.19
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Done.