Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000572.1 Hibiscus syriacus cultivar Beakdansim tig00001120_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2399138
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 9
Found at i:618627 original size:21 final size:19
Alignment explanation
Indices: 618589--618627 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
618579 ACACTTGAAT
*
618589 AAAAATATAATAATATTAC
1 AAAAATATAATAAAATTAC
618608 AAAAATAATATATAAAATTA
1 AAAAAT-ATA-ATAAAATTA
618628 GAGTAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 3 0.18
21 8 0.47
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATATAATAAAATTAC
Found at i:624983 original size:6 final size:6
Alignment explanation
Indices: 624965--625010 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
624955 TCTGATAAAA
* * *
624965 CCAAAG TCCAAAG CCAAAG CCAAAT CCAAGG CCAAAC CCAAAG CCA
1 CCAAAG -CCAAAG CCAAAG CCAAAG CCAAAG CCAAAG CCAAAG CCA
625011 CGAATCAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
6 27 0.82
7 6 0.18
ACGTcount: A:0.46, C:0.37, G:0.13, T:0.04
Consensus pattern (6 bp):
CCAAAG
Found at i:625425 original size:3 final size:3
Alignment explanation
Indices: 625419--625448 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
625409 TTTTTTTATT
625419 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
625449 AATCCAATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:625681 original size:14 final size:14
Alignment explanation
Indices: 625662--625700 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
625652 TAATGGGGAG
625662 TAATCCCTGCAAAA
1 TAATCCCTGCAAAA
*
625676 TAATCCCTGCGAAA
1 TAATCCCTGCAAAA
* *
625690 GAATCTCTGCA
1 TAATCCCTGCA
625701 TATAGACAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (14 bp):
TAATCCCTGCAAAA
Found at i:639652 original size:18 final size:18
Alignment explanation
Indices: 639629--639664 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
639619 CATACTTCCC
639629 TACTTATTCTAAGTCACT
1 TACTTATTCTAAGTCACT
639647 TACTTATTCTAAGTCACT
1 TACTTATTCTAAGTCACT
639665 GACGCACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (18 bp):
TACTTATTCTAAGTCACT
Found at i:645179 original size:45 final size:46
Alignment explanation
Indices: 645115--645222 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 46
645105 CAGTGCACTA
* *
645115 AGAGTGCATCAATGCATCAAGTGCATTCGATG-TTTCA-AAATAGCC
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-AGCC
* *
645160 AGAGTGCATCGATGCATCAAATGTATTCGATGTTTTCATAAAATCC
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCC
**
645206 TCAGTGCATCGATGCAT
1 AGAGTGCATCGATGCAT
645223 GGTATGTTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
45 29 0.53
46 23 0.42
47 3 0.05
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (46 bp):
AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCC
Found at i:649228 original size:23 final size:23
Alignment explanation
Indices: 649202--649254 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
649192 AGAAGGGAAT
*
649202 CGATACCTCAGTTAGGGGTGTAC
1 CGATACCTCAATTAGGGGTGTAC
649225 CGATACCTCAATTAGGGGTGTAC
1 CGATACCTCAATTAGGGGTGTAC
*
649248 CGGTACC
1 CGATACC
649255 CTATAAAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (23 bp):
CGATACCTCAATTAGGGGTGTAC
Found at i:649264 original size:23 final size:23
Alignment explanation
Indices: 649202--649275 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
649192 AGAAGGGAAT
* *
649202 CGATACCTCAGTTAGGGGTGTAC
1 CGATACCTCAATAAGGGGTGTAC
*
649225 CGATACCTCAATTAGGGGTGTAC
1 CGATACCTCAATAAGGGGTGTAC
* * *
649248 CGGTACC-CTATAA-AGG-GTAC
1 CGATACCTCAATAAGGGGTGTAC
649268 CGATACCT
1 CGATACCT
649276 ACGTTAAACA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
20 10 0.23
21 2 0.05
22 4 0.09
23 28 0.64
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (23 bp):
CGATACCTCAATAAGGGGTGTAC
Found at i:651346 original size:12 final size:12
Alignment explanation
Indices: 651329--651367 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
651319 ATTTAGCATT
651329 CGGTACTGTTCA
1 CGGTACTGTTCA
651341 CGGTACTGTTCA
1 CGGTACTGTTCA
651353 C--TACTGTTCA
1 CGGTACTGTTCA
*
651363 TGGTA
1 CGGTA
651368 TTGTACATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (12 bp):
CGGTACTGTTCA
Found at i:678315 original size:12 final size:12
Alignment explanation
Indices: 678298--678356 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
678288 ATTTTTCTCC
678298 CTTTCTTCTTTT
1 CTTTCTTCTTTT
678310 CTTTCTT-TATTT
1 CTTTCTTCT-TTT
*
678322 CTTCCTTCTTTT
1 CTTTCTTCTTTT
*
678334 -TTTCTT-TTCT
1 CTTTCTTCTTTT
*
678344 -TTTCTACTTTT
1 CTTTCTTCTTTT
678355 CT
1 CT
678357 CTACCAACTC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
10 8 0.21
11 9 0.24
12 20 0.53
13 1 0.03
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (12 bp):
CTTTCTTCTTTT
Found at i:678495 original size:16 final size:16
Alignment explanation
Indices: 678476--678507 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
678466 TCAAGTAAGA
678476 AATGTTCCTCAAATGC
1 AATGTTCCTCAAATGC
678492 AATGTTCCTCAAATGC
1 AATGTTCCTCAAATGC
678508 TCATTTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (16 bp):
AATGTTCCTCAAATGC
Found at i:683912 original size:24 final size:25
Alignment explanation
Indices: 683884--683934 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
683874 TTCCAACTTG
683884 TTTGG-TATAA-TAGATATTTATATT
1 TTTGGATATAATTAGATATTTA-ATT
683908 TTTGGATATAATTAGATATTTAATT
1 TTTGGATATAATTAGATATTTAATT
683933 TT
1 TT
683935 AAAATGCTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 5 0.20
25 10 0.40
26 10 0.40
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (25 bp):
TTTGGATATAATTAGATATTTAATT
Found at i:689746 original size:29 final size:30
Alignment explanation
Indices: 689713--689773 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
689703 TAAATGTATC
689713 AAAGACTTCTGA-TTTTTCTTCAGAAAATA
1 AAAGACTTCTGATTTTTTCTTCAGAAAATA
689742 AAAGACTTCTGATTTTTTCTTCAGAAAATA
1 AAAGACTTCTGATTTTTTCTTCAGAAAATA
689772 AA
1 AA
689774 CCCACACCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 12 0.39
30 19 0.61
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (30 bp):
AAAGACTTCTGATTTTTTCTTCAGAAAATA
Found at i:693348 original size:16 final size:18
Alignment explanation
Indices: 693329--693363 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
693319 ATATTTAGAT
693329 TAATTT-AAAT-TTAATA
1 TAATTTCAAATATTAATA
693345 TAATTTCAAATATTAATA
1 TAATTTCAAATATTAATA
693363 T
1 T
693364 TAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 4 0.24
18 7 0.41
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATTTCAAATATTAATA
Found at i:693509 original size:13 final size:13
Alignment explanation
Indices: 693481--693513 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
693471 TATTCAATTA
693481 TTATTTT-TTTTC
1 TTATTTTATTTTC
*
693493 TTATTTTATTTTT
1 TTATTTTATTTTC
693506 TTATTTTA
1 TTATTTTA
693514 AACATATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (13 bp):
TTATTTTATTTTC
Found at i:703870 original size:2 final size:2
Alignment explanation
Indices: 703863--703891 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
703853 CCCATTGTAA
703863 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
703892 ATATATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:703896 original size:2 final size:2
Alignment explanation
Indices: 703891--703925 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
703881 TCTCTCTCTC
703891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
703926 GTATCGTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:706454 original size:29 final size:29
Alignment explanation
Indices: 706409--706466 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
706399 GTGTTGGTCG
*
706409 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
* *
706438 TAGGTCGCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
706467 AAGAGATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.14, C:0.36, G:0.28, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGACCTAC
Found at i:706530 original size:13 final size:14
Alignment explanation
Indices: 706512--706549 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
706502 TGGGCATCCG
706512 AGGCCATCCGACC-
1 AGGCCATCCGACCA
706525 AGGCCATCCGACCA
1 AGGCCATCCGACCA
*
706539 AGGCAATCCGA
1 AGGCCATCCGA
706550 GAGCATCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.29, C:0.39, G:0.24, T:0.08
Consensus pattern (14 bp):
AGGCCATCCGACCA
Found at i:706659 original size:29 final size:29
Alignment explanation
Indices: 706624--706680 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
706614 GAGCGAGGGT
*
706624 AGGTCGCCCGGAGGGCATGGCGACCTACA
1 AGGTCGCCCGGAAGGCATGGCGACCTACA
706653 AGGTCGCCCGGAAGGCATGGCGACCTAC
1 AGGTCGCCCGGAAGGCATGGCGACCTAC
706681 GACCAACACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.32, G:0.37, T:0.11
Consensus pattern (29 bp):
AGGTCGCCCGGAAGGCATGGCGACCTACA
Found at i:708249 original size:23 final size:23
Alignment explanation
Indices: 708223--708267 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
708213 CACCACAACT
*
708223 CGTATAAATGCACCGA-AGTGCCG
1 CGTAGAAATGCACC-ATAGTGCCG
*
708246 CGTAGAATTGCACCATAGTGCC
1 CGTAGAAATGCACCATAGTGCC
708268 ATATAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCATAGTGCCG
Found at i:708432 original size:150 final size:149
Alignment explanation
Indices: 708235--708550 Score: 535
Period size: 150 Copynumber: 2.1 Consensus size: 149
708225 TATAAATGCA
*
708235 CCGAAGTG-CCGCGTAGAATTGCACCATAGTGCCATATAATGATGTCCATAAGGACCACATATAA
1 CCGAAG-GACCGCGTAGAATTGCACCATAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
* *
708299 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGT
65 TTCCTTAAGAATCATATACATATACTAAGGATCAAGTATATGTCTTT-CAAGACTTCACACATGT
* *
708364 TCCACAGAATATATATATATC
129 TCCAAAGAATATACATATATC
*
708385 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCATAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
*
708450 TCCTTAAGAATCATATACATATACTAAGGATCAAGTATATGTCTTTTAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAAGGATCAAGTATATGTCTTTCAAGACTTCACACATGTTC
*
708515 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
708534 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
708551 CCCTCTACCC
Statistics
Matches: 157, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
149 52 0.33
150 105 0.67
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCATAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAAGGATCAAGTATATGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:718301 original size:2 final size:2
Alignment explanation
Indices: 718290--718326 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
718280 GTGATTTAAT
718290 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
718327 ATTATCCATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:721942 original size:18 final size:19
Alignment explanation
Indices: 721905--721943 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
721895 GGTTAGAAAT
*
721905 TATTTTATAATAAATTAAA
1 TATTTTATAATAAATAAAA
*
721924 TATTTT-TAATAAGTAAAA
1 TATTTTATAATAAATAAAA
721942 TA
1 TA
721944 ACACAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTTTATAATAAATAAAA
Found at i:722918 original size:24 final size:24
Alignment explanation
Indices: 722889--722943 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
722879 ACAACCATCT
722889 AAATAACATCA-ACAATCCCAACCA
1 AAATAAC-TCACACAATCCCAACCA
*
722913 AAATAACTGACACAATCCCAACCA
1 AAATAACTCACACAATCCCAACCA
722937 AAATAAC
1 AAATAAC
722944 CGAAACCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.55, C:0.31, G:0.02, T:0.13
Consensus pattern (24 bp):
AAATAACTCACACAATCCCAACCA
Found at i:726835 original size:2 final size:2
Alignment explanation
Indices: 726828--726892 Score: 91
Period size: 2 Copynumber: 34.0 Consensus size: 2
726818 AAATAATTAA
*
726828 AT AT AT AT AA AT AT AT AT AT AT -T AT A- AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
726867 AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
726893 CATTTATACA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
1 3 0.05
2 53 0.95
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:727273 original size:21 final size:21
Alignment explanation
Indices: 727247--727389 Score: 64
Period size: 22 Copynumber: 6.9 Consensus size: 21
727237 TATATATTTT
727247 TATTTATTTTTTAATATTTAA
1 TATTTATTTTTTAATATTTAA
* * * *
727268 TATTTATTGCTATAATATATAT
1 TATTTATT-TTTTAATATTTAA
**
727290 TATTT-TTTTAAAAT-TTTAA
1 TATTTATTTTTTAATATTTAA
* *
727309 TA-ATATTTTTTAGCATTTTTAA
1 TATTTATTTTTTA--ATATTTAA
* * **
727331 TATATATATAGT-A-ATTTAA
1 TATTTATTTTTTAATATTTAA
* * *
727350 TTTTTA-TTTTTAGTATTTTTA
1 TATTTATTTTTTAATA-TTTAA
*
727371 TATTTATTTTTCAATATTT
1 TATTTATTTTTTAATATTT
727390 TTATATTTTT
Statistics
Matches: 87, Mismatches: 25, Indels: 20
0.66 0.19 0.15
Matches are distributed among these distances:
18 3 0.03
19 19 0.22
20 7 0.08
21 24 0.28
22 28 0.32
23 6 0.07
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (21 bp):
TATTTATTTTTTAATATTTAA
Found at i:727388 original size:10 final size:8
Alignment explanation
Indices: 727350--727405 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 8
727340 AGTAATTTAA
727350 TTTT-TAT
1 TTTTATAT
727357 TTTTAGTAT
1 TTTTA-TAT
727366 TTTTATA-
1 TTTTATAT
727373 -TTTAT-T
1 TTTTATAT
*
727379 TTTCAATAT
1 TTT-TATAT
727388 TTTTATAT
1 TTTTATAT
727396 TTTTATAT
1 TTTTATAT
727404 TT
1 TT
727406 AAAATTTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
6 5 0.12
7 6 0.15
8 18 0.44
9 12 0.29
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTTATAT
Found at i:727390 original size:21 final size:21
Alignment explanation
Indices: 727352--727397 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
727342 TAATTTAATT
*
727352 TTTATTTTTAGTATTTTTATA
1 TTTATTTTTAATATTTTTATA
727373 TTTATTTTTCAATATTTTTATA
1 TTTATTTTT-AATATTTTTATA
727395 TTT
1 TTT
727398 TTATATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTATTTTTAATATTTTTATA
Found at i:728607 original size:19 final size:21
Alignment explanation
Indices: 728572--728612 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
728562 TCTAAAATAT
728572 TTAAAAATTATAAAATATTAA
1 TTAAAAATTATAAAATATTAA
728593 TTAAAAA-TA-AAAATATTAA
1 TTAAAAATTATAAAATATTAA
728612 T
1 T
728613 CAATCTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 11 0.55
20 2 0.10
21 7 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TTAAAAATTATAAAATATTAA
Found at i:729349 original size:12 final size:11
Alignment explanation
Indices: 729332--729370 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
729322 CAAATACCTA
729332 AAAATACATTTT
1 AAAATA-ATTTT
*
729344 AAAATAAATTTA
1 AAAAT-AATTTT
729356 AAAATAATTTT
1 AAAATAATTTT
729367 AAAA
1 AAAA
729371 GATAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 9 0.38
12 14 0.58
13 1 0.04
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:735488 original size:91 final size:91
Alignment explanation
Indices: 735328--735504 Score: 306
Period size: 91 Copynumber: 1.9 Consensus size: 91
735318 AGGAAAAATG
735328 ACCTTATATCGTTCGGGGTTTTCGGGATTGTGATCGGCGTTTGCGGGCTGCCATTGATTGGATTA
1 ACCTTATATCGTTCGGGGTTTTCGGGATTGTGATCGGCGTTTGCGGGCTGCCATTGATTGGATTA
735393 CGGAGACGAGAGGCGGCACAATTGTGAC
66 CGGAGAC--GAGGCGGCACAATTGTGAC
735421 ACCTTATATCGTTC-GGG-TTTCGGGATTGTGATCGGCGTTTGC-GGCTGCCATTGATTGGATTA
1 ACCTTATATCGTTCGGGGTTTTCGGGATTGTGATCGGCGTTTGCGGGCTGCCATTGATTGGATTA
735483 CCGGAGACGAGGCGGCACAATT
66 -CGGAGACGAGGCGGCACAATT
735505 TGTACACAAT
Statistics
Matches: 83, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
89 14 0.17
90 20 0.24
91 32 0.39
92 3 0.04
93 14 0.17
ACGTcount: A:0.18, C:0.19, G:0.33, T:0.29
Consensus pattern (91 bp):
ACCTTATATCGTTCGGGGTTTTCGGGATTGTGATCGGCGTTTGCGGGCTGCCATTGATTGGATTA
CGGAGACGAGGCGGCACAATTGTGAC
Found at i:735862 original size:20 final size:20
Alignment explanation
Indices: 735748--735881 Score: 69
Period size: 20 Copynumber: 6.7 Consensus size: 20
735738 CGCGAAATAA
**
735748 AAATCGCAACGCGA-TCCCC
1 AAATCGCAACGCGATTTTCC
** *
735767 AGAATCGCAAATC-ATTTTCA
1 A-AATCGCAACGCGATTTTCC
*
735787 AAATCGCAACGCGATTCTT-G
1 AAATCGCAACGCGATT-TTCC
* * *
735807 AAATCGCAATGCGATAGTACAC
1 AAATCGCAACGCGAT-TTTC-C
* **
735829 AATTCGCATTGCGATTTTCC
1 AAATCGCAACGCGATTTTCC
* * *
735849 AAATCGCAACGCGAATAT-G
1 AAATCGCAACGCGATTTTCC
735868 AAATCGCAACGCGA
1 AAATCGCAACGCGA
735882 ACACATAAAT
Statistics
Matches: 86, Mismatches: 22, Indels: 14
0.70 0.18 0.11
Matches are distributed among these distances:
19 25 0.29
20 44 0.51
21 4 0.05
22 13 0.15
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (20 bp):
AAATCGCAACGCGATTTTCC
Found at i:735916 original size:59 final size:59
Alignment explanation
Indices: 735849--736040 Score: 231
Period size: 59 Copynumber: 3.2 Consensus size: 59
735839 GCGATTTTCC
** * *
735849 AAATCGCAACGCGAATATGAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGTAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * * *** *
735908 AAATCGCAACGTGTATCCGTAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGTAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * * **
735967 ATATCGCAACGCGTATCCGTAATCGCAATGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGTAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
736027 AAATCGCAACGCGA
1 AAATCGCAACGCGA
736041 TATTTAAAGC
Statistics
Matches: 109, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
59 78 0.72
60 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (59 bp):
AAATCGCAACGCGAATCCGTAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:735923 original size:20 final size:20
Alignment explanation
Indices: 735849--736039 Score: 194
Period size: 20 Copynumber: 9.7 Consensus size: 20
735839 GCGATTTTCC
* **
735849 AAATCGCAACGCGAATATG-
1 AAATCGCAACGCGTATCCGT
* *
735868 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
735888 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
735908 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
735928 -AATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
735947 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
735967 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * * *
735987 -AATCGCAATG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
736006 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
736027 AAATCGCAACGCG
1 AAATCGCAACGCG
736040 ATATTTAAAG
Statistics
Matches: 140, Mismatches: 24, Indels: 15
0.78 0.13 0.08
Matches are distributed among these distances:
18 2 0.01
19 41 0.29
20 81 0.58
21 15 0.11
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:735932 original size:39 final size:39
Alignment explanation
Indices: 735889--736037 Score: 178
Period size: 39 Copynumber: 3.8 Consensus size: 39
735879 CGAACACATA
735889 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
** * *
735928 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
* *
735967 ATATCGCAACGCGTATCCGT-AATCGCAA--TGATAATACAT
1 A-ATCGCAACGCGTATCCGTAAATCGCAACGTG-T-ATCCGT
736006 AAAATCGCAACGCGTATCCGTAAATCGCAACG
1 --AATCGCAACGCGTATCCGTAAATCGCAACG
736038 CGATATTTAA
Statistics
Matches: 93, Mismatches: 9, Indels: 12
0.82 0.08 0.11
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 48 0.52
40 34 0.37
41 9 0.10
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
Found at i:736469 original size:32 final size:31
Alignment explanation
Indices: 736409--736478 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 31
736399 ATTTCACTTA
*
736409 GATTTCATTTCGCGTTTGATTCTGTCGTTGC
1 GATTTCATTTCGCGTTTGATTCTCTCGTTGC
736440 GATTTCATTTCGCG-TTGCTATTCTCTCGTTGC
1 GATTTCATTTCGCGTTTG--ATTCTCTCGTTGC
736472 GATTTCA
1 GATTTCA
736479 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
30 3 0.08
31 14 0.39
32 19 0.53
ACGTcount: A:0.11, C:0.21, G:0.20, T:0.47
Consensus pattern (31 bp):
GATTTCATTTCGCGTTTGATTCTCTCGTTGC
Found at i:736584 original size:21 final size:20
Alignment explanation
Indices: 736558--736661 Score: 91
Period size: 21 Copynumber: 5.5 Consensus size: 20
736548 TGCAGAAGAG
736558 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
***
736579 TCGCAACGAG--AATGACTG
1 TCGCAACGAGAAAATGAAAA
736597 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
736618 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
736632 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
736651 TCGCAACGAGA
1 TCGCAACGAGA
736662 GAATCGCAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
14 11 0.17
16 2 0.03
17 2 0.03
18 15 0.23
19 11 0.17
21 25 0.38
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:736613 original size:39 final size:36
Alignment explanation
Indices: 736551--736672 Score: 153
Period size: 33 Copynumber: 3.4 Consensus size: 36
736541 TTCAATTTGC
*
736551 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACG
1 AGAAGAGTCGCAACGAGAGAAATGAAAATCGCAACG
736587 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACG
1 AGAA-GA--GTCGCAACGAGAGAAATGAAAATCGCAACG
* *
736626 AG-AGAATCGCAAC--GCGAAATGAAAATCGCAACG
1 AGAAGAGTCGCAACGAGAGAAATGAAAATCGCAACG
*
736659 AG-AGAATCGCAACG
1 AGAAGAGTCGCAACG
736673 CGAAACCAAA
Statistics
Matches: 79, Mismatches: 3, Indels: 10
0.86 0.03 0.11
Matches are distributed among these distances:
33 32 0.41
35 7 0.09
36 4 0.05
37 4 0.05
38 1 0.01
39 31 0.39
ACGTcount: A:0.45, C:0.19, G:0.25, T:0.11
Consensus pattern (36 bp):
AGAAGAGTCGCAACGAGAGAAATGAAAATCGCAACG
Found at i:736635 original size:14 final size:14
Alignment explanation
Indices: 736616--736672 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
736606 GAGAAATGAA
736616 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
736630 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
736649 AATCGCAACGAGAG
1 AATCGCAACGAGAG
736663 AATCGCAACG
1 AATCGCAACG
736673 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:736648 original size:33 final size:33
Alignment explanation
Indices: 736570--736688 Score: 148
Period size: 33 Copynumber: 3.4 Consensus size: 33
736560 GCAACGAGAT
* *
736570 AAATGAAAATCGCAACGAGAATGACTGTCGCAACGAGAG
1 AAATGAAAATCGCAACGAG-A-GA--ATCGCAAC--GCG
736609 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
736642 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
**
736675 AAACCAAAATCGCA
1 AAATGAAAATCGCA
736689 TTGCGATTTT
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
33 47 0.62
35 7 0.09
37 2 0.03
38 1 0.01
39 19 0.25
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
AAATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:736706 original size:19 final size:19
Alignment explanation
Indices: 736684--736781 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
736674 GAAACCAAAA
*
736684 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
736703 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
736717 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
736736 TCGCGTTGCGA--TT-A--
1 TCGCGTTGCGATTTTCATT
* *
736750 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
736769 TCGCGTTGCGATT
1 TCGCGTTGCGATT
736782 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:736725 original size:14 final size:14
Alignment explanation
Indices: 736706--736795 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
736696 TTTCATTTCG
736706 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
736720 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
736739 CGTTGCGATTATCT
1 CGTTGCGATTCTCT
*
736753 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
736772 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
736786 CGTTGCGATT
1 CGTTGCGATT
736796 TCATTTCAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 30 0.50
15 1 0.02
16 4 0.07
17 4 0.07
18 1 0.02
19 20 0.33
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:736731 original size:33 final size:33
Alignment explanation
Indices: 736689--736802 Score: 203
Period size: 33 Copynumber: 3.5 Consensus size: 33
736679 CAAAATCGCA
736689 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
736722 TTGCGATTTTCATTTCGCGTTGCGATTATCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
736755 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
736788 TTGCGA-TTTCATTTC
1 TTGCGATTTTCATTTC
736803 AACCAAAAGA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 8 0.10
33 69 0.90
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:738697 original size:92 final size:93
Alignment explanation
Indices: 738475--738754 Score: 514
Period size: 92 Copynumber: 3.1 Consensus size: 93
738465 TAGATTGCTT
*
738475 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
738540 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
738568 AGTAAATTTGTTCGGTTGCTGCCGATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
738633 TTTGTCTTTG-TTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
738660 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
738725 TTTGTCTTTGTTTTGTC--TTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
738750 AGTAA
1 AGTAA
738755 TGCAATCCAT
Statistics
Matches: 183, Mismatches: 3, Indels: 5
0.96 0.02 0.03
Matches are distributed among these distances:
90 6 0.03
91 7 0.04
92 91 0.50
93 79 0.43
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:738841 original size:19 final size:19
Alignment explanation
Indices: 738801--738929 Score: 107
Period size: 19 Copynumber: 7.3 Consensus size: 19
738791 ATATTTACTT
* *
738801 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
738821 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
738840 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
* *
738859 TCGCAA--TG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
738873 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
* *
738892 TCGCAA--CG--A-TAAGA
1 TCGCAACGCGAAACCAAAA
738906 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
738925 TCGCA
1 TCGCA
738930 TTGCGATTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
14 18 0.21
15 2 0.02
16 3 0.03
17 3 0.03
18 2 0.02
19 45 0.52
20 13 0.15
ACGTcount: A:0.46, C:0.27, G:0.17, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:738880 original size:33 final size:32
Alignment explanation
Indices: 738837--738929 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 32
738827 CGCGAAACCA
** *
738837 AAATCGCAACGCGAAATGAAAATCGCAATGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
*
738869 AGAATCGCAACGCGAAACCAAAATCGCAACGAT
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
738902 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
738930 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
32 2 0.04
33 53 0.96
ACGTcount: A:0.46, C:0.26, G:0.18, T:0.10
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:738927 original size:52 final size:51
Alignment explanation
Indices: 738801--738929 Score: 129
Period size: 52 Copynumber: 2.5 Consensus size: 51
738791 ATATTTACTT
* * *
738801 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGCGAAACCAAAATCGCAACGAGAAA
* * *
738853 T-GAAAATCGC-AATGA-CAGAATCGCAACGCGAAACCAAAATCGCAACGATAAGA
1 TCG-CAA-CGCGAA--ACCAAAATCGCAACGCGAAACCAAAATCGCAACGAGAA-A
738906 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACGCGAAACCAAAATCGCA
738930 TTGCGATTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
51 2 0.03
52 49 0.80
53 8 0.13
54 2 0.03
ACGTcount: A:0.46, C:0.27, G:0.17, T:0.10
Consensus pattern (51 bp):
TCGCAACGCGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGAGAAA
Found at i:738947 original size:19 final size:19
Alignment explanation
Indices: 738925--739059 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
738915 GAAACCAAAA
*
738925 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
738944 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
738960 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
738977 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
738993 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
739010 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
739029 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
739049 TCGTGTTGCGA
1 TCGCGTTGCGA
739060 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:738966 original size:14 final size:14
Alignment explanation
Indices: 738947--739003 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
738937 TTTCATTTCG
738947 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
738961 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
738978 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
738994 CGTTGCGATT
1 CGTTGCGATT
739004 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:738972 original size:33 final size:33
Alignment explanation
Indices: 738930--739022 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
738920 CAAAATCGCA
*
738930 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
738963 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
738996 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
739023 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:740991 original size:14 final size:14
Alignment explanation
Indices: 740972--741007 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
740962 ATTGTTTAAT
740972 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
740986 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
741000 TGATTTGT
1 TGATTTGT
741008 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:741130 original size:19 final size:19
Alignment explanation
Indices: 741114--741210 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
741104 AAAAATGACT
741114 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
741133 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
741152 ATCGCAA--CG--A-G-AG
1 ATCGCAATGCGAAATGAAA
741165 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
741184 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
741204 ATCGCAA
1 ATCGCAA
741211 CGAGAGAATC
Statistics
Matches: 69, Mismatches: 2, Indels: 13
0.82 0.02 0.15
Matches are distributed among these distances:
13 8 0.12
14 1 0.01
15 3 0.04
17 3 0.04
18 1 0.01
19 37 0.54
20 16 0.23
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:741190 original size:51 final size:53
Alignment explanation
Indices: 741114--741228 Score: 216
Period size: 51 Copynumber: 2.2 Consensus size: 53
741104 AAAAATGACT
741114 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAG-
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
741165 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
741218 ATCGCAATGCG
1 ATCGCAATGCG
741229 TTTATAATTT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
51 29 0.47
52 22 0.35
53 11 0.18
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:741272 original size:33 final size:33
Alignment explanation
Indices: 741235--741537 Score: 167
Period size: 33 Copynumber: 8.9 Consensus size: 33
741225 TGCGTTTATA
741235 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* * *
741268 ATTTCGCATTGCGATT-T-TCATTTCGCA-TTGC
1 ATTTCGCATTGCGATTCTCTCGTTGCG-ATTTTC
* * * *
741299 GATTCTCTCGTTGTGATTCATTTCGCATTGCGATTTTC
1 -ATT-TCGCATTGCGATTC-TCTCG--TTGCGATTTTC
* *
741337 ATTTCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC---TCTCGTTGCGATT-T-TC
* * * * *
741377 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTCTCTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATT-T-TC
* * * * *
741410 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
*
741441 ATTTCGCATTGCGATTCTCTCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
741474 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTC
741508 ATTTCGCATTGCGATTCTCTCGTTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATT
741538 GTAATTTCCG
Statistics
Matches: 220, Mismatches: 28, Indels: 44
0.75 0.10 0.15
Matches are distributed among these distances:
31 18 0.08
32 11 0.05
33 112 0.51
34 28 0.13
35 2 0.01
36 11 0.05
37 6 0.03
38 18 0.08
39 2 0.01
40 12 0.05
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:741281 original size:19 final size:19
Alignment explanation
Indices: 741257--741523 Score: 264
Period size: 19 Copynumber: 15.4 Consensus size: 19
741247 GATTCTCTCG
741257 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
741276 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
741295 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
741309 TTGTGA--TTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
741326 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
*
741345 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
*
741364 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
741378 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
741397 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
741411 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
741430 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
741449 TTGCGA--TTC---TCTCA
1 TTGCGATTTTCATTTCGCA
741463 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
741483 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
741497 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
741516 TTGCGATT
1 TTGCGATT
741524 CTCTCGTTGC
Statistics
Matches: 209, Mismatches: 13, Indels: 52
0.76 0.05 0.19
Matches are distributed among these distances:
14 41 0.20
15 4 0.02
16 23 0.11
17 26 0.12
18 1 0.00
19 99 0.47
20 15 0.07
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:741292 original size:52 final size:52
Alignment explanation
Indices: 741235--741495 Score: 377
Period size: 52 Copynumber: 5.0 Consensus size: 52
741225 TGCGTTTATA
741235 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
741287 ATTTCGCATTGCGATTCTCTCGTTGTGA--TTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* * * ** * * *
741337 ATTTCGCGTTGCGATT-T-TCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC-ATT-TCGCATTGCGATTTTC
741389 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
741441 ATTTCGCATTGCGATTCTCTCATTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
741494 AT
1 AT
741496 GTTGGGATTT
Statistics
Matches: 184, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
48 5 0.03
49 1 0.01
50 39 0.21
51 3 0.02
52 106 0.58
53 21 0.11
54 9 0.05
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:741416 original size:14 final size:14
Alignment explanation
Indices: 741362--741418 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
741352 TTTCATTTCG
741362 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
741376 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TCT
741393 CGCATTGCGATTCTCT
1 CG--TTGCGATTCTCT
741409 CGTTGCGATT
1 CGTTGCGATT
741419 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 16 0.44
16 7 0.19
17 7 0.19
19 6 0.17
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:743825 original size:12 final size:12
Alignment explanation
Indices: 743808--743832 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
743798 TCTTCGGGGA
743808 CTTTTTCTTCTT
1 CTTTTTCTTCTT
743820 CTTTTTCTTCTT
1 CTTTTTCTTCTT
743832 C
1 C
743833 AGATTATGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:744037 original size:24 final size:24
Alignment explanation
Indices: 744003--744049 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
743993 CTGAAACATC
744003 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
744027 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
744050 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:744758 original size:20 final size:20
Alignment explanation
Indices: 744730--744959 Score: 228
Period size: 20 Copynumber: 11.5 Consensus size: 20
744720 AAATTTCAGT
* ** *
744730 GTTGTGATTTACAAATTCTC
1 GTTGCGATTTACGGATTCGC
**
744750 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
744770 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
744790 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
744810 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
744830 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
744850 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
744870 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
744890 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
744910 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
744930 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
744950 GTTGCGATTT
1 GTTGCGATTT
744960 TGGAAAATCG
Statistics
Matches: 181, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
20 180 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:744976 original size:21 final size:21
Alignment explanation
Indices: 744946--745028 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
744936 ATTTTCATAT
*
744946 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
744967 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
744988 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
745009 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
745029 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:745019 original size:42 final size:43
Alignment explanation
Indices: 744926--745024 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
744916 ATTTATGTGT
* *
744926 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
744967 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
745009 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
745025 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:745330 original size:40 final size:40
Alignment explanation
Indices: 745286--745603 Score: 323
Period size: 40 Copynumber: 7.9 Consensus size: 40
745276 TTTGCGGTGT
* * * *
745286 TTTTTAAACAAACGCCACTAAATACTGTAGTTTAGTGGCC
1 TTTTTATACAAACGCCGCTAAATACTGTACTTTAGTGGCG
* * * * * **
745326 TTTTTGTACAAATGCTGCTAAATAATGTAGTTTAGTGGTA
1 TTTTTATACAAACGCCGCTAAATACTGTACTTTAGTGGCG
* *
745366 TTTTTGTACAAACGCCGCTAAATACTTGTACTTTAGTAGCG
1 TTTTTATACAAACGCCGCTAAATAC-TGTACTTTAGTGGCG
* * * *
745407 TTTTTATATAAACGCCGCTAAATACTATACATTAGTGTCG
1 TTTTTATACAAACGCCGCTAAATACTGTACTTTAGTGGCG
* ** * *
745447 TTTTTATATAAATACCGCTAAATACTAGTACTTTAGTGACA
1 TTTTTATACAAACGCCGCTAAATACT-GTACTTTAGTGGCG
*
745488 TTTTT-TACAAACGCCGCTAAATACTCATACTTTAGTGGCG
1 TTTTTATACAAACGCCGCTAAATACT-GTACTTTAGTGGCG
* * * * *
745528 TTTTTATATAAACGCCGCTAAAAATTATACTTTAGTGGTG
1 TTTTTATACAAACGCCGCTAAATACTGTACTTTAGTGGCG
* * *
745568 TTTTTATATAAATGCCGCTAAATCCTGTACTTTAGT
1 TTTTTATACAAACGCCGCTAAATACTGTACTTTAGT
745604 CTTTACTTTT
Statistics
Matches: 232, Mismatches: 43, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
40 166 0.72
41 66 0.28
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (40 bp):
TTTTTATACAAACGCCGCTAAATACTGTACTTTAGTGGCG
Found at i:745429 original size:81 final size:81
Alignment explanation
Indices: 745281--745603 Score: 321
Period size: 81 Copynumber: 4.0 Consensus size: 81
745271 GGATTTTTGC
* * * * * * *
745281 GGTGTTTTTTAAACAAACGCCACTAAATAC-TGTAGTTTAGTGGCCTTTTTGTACAAATGCTGCT
1 GGTG-TTTTTATACAAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATACAAACGCCGCT
* * *
745345 AAATAATGTAGTTTAGT
65 AAATACTATACTTTAGT
* * * *
745362 GGTATTTTTGTACAAACGCCGCTAAATACTTGTACTTTAGTAGCGTTTTTATATAAACGCCGCTA
1 GGTGTTTTTATACAAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATACAAACGCCGCTA
*
745427 AATACTATACATTAGT
66 AATACTATACTTTAGT
* ** * * *
745443 -GTCGTTTTTATATAAATACCGCTAAATACTAGTACTTTAGTGACATTTTT-TACAAACGCCGCT
1 GGT-GTTTTTATACAAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATACAAACGCCGCT
745506 AAATACTCATACTTTAGT
65 AAATACT-ATACTTTAGT
* * * * * * *
745524 GGCGTTTTTATATAAACGCCGCTAAA-AATTATACTTTAGTGGTGTTTTTATATAAATGCCGCTA
1 GGTGTTTTTATACAAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATACAAACGCCGCTA
* *
745588 AATCCTGTACTTTAGT
66 AATACTATACTTTAGT
745604 CTTTACTTTT
Statistics
Matches: 198, Mismatches: 39, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
80 69 0.35
81 128 0.65
82 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (81 bp):
GGTGTTTTTATACAAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATACAAACGCCGCTA
AATACTATACTTTAGT
Found at i:745442 original size:121 final size:121
Alignment explanation
Indices: 745286--745603 Score: 397
Period size: 121 Copynumber: 2.6 Consensus size: 121
745276 TTTGCGGTGT
* * * * * * * * *
745286 TTTTTAAACAAACGCCACTAAATACTGTAGTTTAGTGGCCTTTTTGTACAAATGCTGCTAAATAA
1 TTTTTATATAAACGCCGCTAAATACTATACTTTAGTGGCGTTTTTATATAAATGCCGCTAAATAA
* ** **
745351 T-GTAGTTTAGTGGTATTTTTGTACAAACGCCGCTAAATACTTGTACTTTAGTAGCG
66 TAGTACTTTAGTGACATTTTT-TACAAACGCCGCTAAATACTCATACTTTAGTAGCG
* * * *
745407 TTTTTATATAAACGCCGCTAAATACTATACATTAGTGTCGTTTTTATATAAATACCGCTAAATAC
1 TTTTTATATAAACGCCGCTAAATACTATACTTTAGTGGCGTTTTTATATAAATGCCGCTAAATAA
*
745472 TAGTACTTTAGTGACATTTTTTACAAACGCCGCTAAATACTCATACTTTAGTGGCG
66 TAGTACTTTAGTGACATTTTTTACAAACGCCGCTAAATACTCATACTTTAGTAGCG
* * * **
745528 TTTTTATATAAACGCCGCTAAAAATTATACTTTAGTGGTGTTTTTATATAAATGCCGCTAAATCC
1 TTTTTATATAAACGCCGCTAAATACTATACTTTAGTGGCGTTTTTATATAAATGCCGCTAAATAA
745593 T-GTACTTTAGT
66 TAGTACTTTAGT
745604 CTTTACTTTT
Statistics
Matches: 170, Mismatches: 26, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
120 10 0.06
121 144 0.85
122 16 0.09
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (121 bp):
TTTTTATATAAACGCCGCTAAATACTATACTTTAGTGGCGTTTTTATATAAATGCCGCTAAATAA
TAGTACTTTAGTGACATTTTTTACAAACGCCGCTAAATACTCATACTTTAGTAGCG
Found at i:749315 original size:30 final size:30
Alignment explanation
Indices: 749281--749338 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
749271 GAAGGACCTA
* *
749281 TCCATATATTCCGGAGAACATAGGTAACTG
1 TCCATATATCCCGAAGAACATAGGTAACTG
* *
749311 TCCATATGTCCCGAAGGACATAGGTAAC
1 TCCATATATCCCGAAGAACATAGGTAAC
749339 CCTCGACTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (30 bp):
TCCATATATCCCGAAGAACATAGGTAACTG
Found at i:749628 original size:12 final size:13
Alignment explanation
Indices: 749611--749639 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
749601 CTTTAATCAA
749611 ATATCATAT-AAC
1 ATATCATATAAAC
749623 ATATCATATAAAC
1 ATATCATATAAAC
749636 ATAT
1 ATAT
749640 ATAACTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (13 bp):
ATATCATATAAAC
Found at i:751695 original size:42 final size:42
Alignment explanation
Indices: 751639--751916 Score: 279
Period size: 42 Copynumber: 6.6 Consensus size: 42
751629 GTTTTTATAA
*
751639 AAAAACGCCGCTATAGATCTGACCATTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
* * * *
751681 AAAAACACTGCTATAAATCTGACCTTTTGCGACGTTTGTTCC
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
* * *
751723 AAAAACGCCGCTATAGATCTCAATCTTTTGCGGTGTTTGTTCC
1 AAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTTCC
* * * ***
751766 AAAAACGCCGCTATAGATTTGACATTTTGTGATATTTGTTCC
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
* * * * * *
751808 AAAAACGTCGATATATATATGACCTTTTACGGTGTTTGTTCC
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
* * ** **
751850 AAAAATGGCTTTATAGATCTCGATGTTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTTCC
*
751893 -AAAACGCCGCTATAAATCTTGACC
1 AAAAACGCCGCTATAGATC-TGACC
751917 AATTGCAGCG
Statistics
Matches: 188, Mismatches: 45, Indels: 6
0.79 0.19 0.03
Matches are distributed among these distances:
42 132 0.70
43 56 0.30
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (42 bp):
AAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCC
Found at i:751771 original size:85 final size:84
Alignment explanation
Indices: 751639--751916 Score: 299
Period size: 85 Copynumber: 3.3 Consensus size: 84
751629 GTTTTTATAA
* * * *
751639 AAAAACGCCGCTATAGATCTGACCATTTGCGGCGTTTGTTCCAAAAACACTGCTATAAATCTGAC
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGTGTTTGTTCCAAAAACGCTGCTATAGATCTGAC
*
751704 CTTTTGCGACGTTTGTTCC
66 ATTTTGCGACGTTTGTTCC
* * * *
751723 AAAAACGCCGCTATAGATCTCAATCTTTTGCGGTGTTTGTTCCAAAAACGCCGCTATAGATTTGA
1 AAAAACGCCGCTATAGATCT-GACCTTTTGCGGTGTTTGTTCCAAAAACGCTGCTATAGATCTGA
* **
751788 CATTTTGTGATATTTGTTCC
65 CATTTTGCGACGTTTGTTCC
* * * * * * *
751808 AAAAACGTCGATATATATATGACCTTTTACGGTGTTTGTTCCAAAAATGGCT-TTATAGATCTCG
1 AAAAACGCCGCTATAGATCTGACCTTTTGCGGTGTTTGTTCCAAAAA-CGCTGCTATAGATCT-G
** *
751872 ATGTTTTGCGGCGTTTGTTCC
64 ACATTTTGCGACGTTTGTTCC
*
751893 -AAAACGCCGCTATAAATCTTGACC
1 AAAAACGCCGCTATAGATC-TGACC
751917 AATTGCAGCG
Statistics
Matches: 157, Mismatches: 33, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
84 66 0.42
85 91 0.58
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (84 bp):
AAAAACGCCGCTATAGATCTGACCTTTTGCGGTGTTTGTTCCAAAAACGCTGCTATAGATCTGAC
ATTTTGCGACGTTTGTTCC
Found at i:751865 original size:127 final size:126
Alignment explanation
Indices: 751639--751915 Score: 324
Period size: 127 Copynumber: 2.2 Consensus size: 126
751629 GTTTTTATAA
* * * * *
751639 AAAAACGCCGCTATAGATCTGACCATTTGCGGCGTTTGTTCCAAAAACACTGCTATAAATCTGAC
1 AAAAACGCCGCTATAGATTTGA-CATTTGCGACATTTGTTCCAAAAACACTGATATAAATATGAC
* *
751704 CTTTTGCGACGTTTGTTCCAAAAACGCCGCTATAGATCTCAATCTTTTGCGGTGTTTGTTCC
65 CTTTTACGACGTTTGTTCCAAAAACGCCGCTATAGATCTCAATCTTTTGCGGCGTTTGTTCC
* * * *
751766 AAAAACGCCGCTATAGATTTGACATTTTGTGATATTTGTTCCAAAAAC-GTCGATATATATATGA
1 AAAAACGCCGCTATAGATTTGACA-TTTGCGACATTTGTTCCAAAAACACT-GATATAAATATGA
** * * ** * *
751830 CCTTTTACGGTGTTTGTTCCAAAAATGGCTTTATAGATCTCGATGTTTTGCGGCGTTTGTTCC
64 CCTTTTACGACGTTTGTTCCAAAAACGCCGCTATAGATCTCAATCTTTTGCGGCGTTTGTTCC
*
751893 -AAAACGCCGCTATAAATCTTGAC
1 AAAAACGCCGCTATAGAT-TTGAC
751916 CAATTGCAGC
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
126 19 0.15
127 108 0.85
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (126 bp):
AAAAACGCCGCTATAGATTTGACATTTGCGACATTTGTTCCAAAAACACTGATATAAATATGACC
TTTTACGACGTTTGTTCCAAAAACGCCGCTATAGATCTCAATCTTTTGCGGCGTTTGTTCC
Found at i:754882 original size:2 final size:2
Alignment explanation
Indices: 754875--754964 Score: 152
Period size: 2 Copynumber: 47.0 Consensus size: 2
754865 AAAAAGAGGA
754875 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
754917 -T AT AT A- AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
754955 AT AT AT AT AT
1 AT AT AT AT AT
754965 GCATGTAGCC
Statistics
Matches: 84, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
1 4 0.05
2 80 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:757797 original size:29 final size:29
Alignment explanation
Indices: 757748--757820 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
757738 AATATATCAT
* * *
757748 ATTTAGAATATTAGAGTTTTATATTTTAAG
1 ATTTAGAAT-TTAGAGTTTTAGAGTTTAAA
757778 ATTTAGAATTTATGA-TTTTAGAGTTTAAA
1 ATTTAGAATTTA-GAGTTTTAGAGTTTAAA
757807 ATTTAGAATTTAGA
1 ATTTAGAATTTAGA
757821 TGTTAAGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 2 0.05
29 26 0.67
30 11 0.28
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (29 bp):
ATTTAGAATTTAGAGTTTTAGAGTTTAAA
Found at i:757826 original size:21 final size:22
Alignment explanation
Indices: 757776--757832 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
757766 TTATATTTTA
* *
757776 AGAT-TTAGAATTTATGATTTT
1 AGATGTTAAAATTTATGAATTT
757797 AGA-GTTTAAAATTTA-GAATTT
1 AGATG-TTAAAATTTATGAATTT
*
757818 AGATGTTAAGATTTA
1 AGATGTTAAAATTTA
757833 ATAAAAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.46
Consensus pattern (22 bp):
AGATGTTAAAATTTATGAATTT
Found at i:762735 original size:31 final size:30
Alignment explanation
Indices: 762700--762773 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 30
762690 TCGGGCCGTG
*
762700 GGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGCCTACCTAAGAA-ACATCTCAGGGCCGCA
* **
762731 GGCCTACC-CAGAATGATCTCAGGGCCGCA
1 GGCCTACCTAAGAAACATCTCAGGGCCGCA
762760 GAGCCTACCTAAGA
1 G-GCCTACCTAAGA
762774 GTCACATTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 14 0.39
30 11 0.31
31 11 0.31
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.15
Consensus pattern (30 bp):
GGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:762766 original size:61 final size:61
Alignment explanation
Indices: 762654--762773 Score: 149
Period size: 61 Copynumber: 2.0 Consensus size: 61
762644 CCCTAAGGGA
* * *
762654 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGCCGTGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCGGGCCGAGAGCCTACCTAAGAAC
762715 ACATCTTAGGGCC-GCAG-GCCTACCC-AGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTC-GGGCCG-AGAGCCTACCTAAGA
762774 GTCACATTAG
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
58 1 0.02
59 8 0.15
60 15 0.29
61 28 0.54
ACGTcount: A:0.27, C:0.30, G:0.26, T:0.17
Consensus pattern (61 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCGGGCCGAGAGCCTACCTAAGAAC
Found at i:763652 original size:13 final size:13
Alignment explanation
Indices: 763630--763668 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
763620 AAGAAAGTCA
763630 ACGGTCAACGGTC
1 ACGGTCAACGGTC
*
763643 ACGGTTAACGGTC
1 ACGGTCAACGGTC
763656 ACGGTCAACGGTC
1 ACGGTCAACGGTC
763669 GGGTCGGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.23, C:0.28, G:0.31, T:0.18
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:763680 original size:17 final size:17
Alignment explanation
Indices: 763658--763695 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
763648 TAACGGTCAC
763658 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
763675 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
763692 GGTC
1 GGTC
763696 GGGTCAACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.24, G:0.47, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:763685 original size:7 final size:7
Alignment explanation
Indices: 763626--763668 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
763616 GTCAAAGAAA
763626 GTCAACG
1 GTCAACG
763633 GTCAACG
1 GTCAACG
763640 GTC-ACG
1 GTCAACG
*
763646 GTTAACG
1 GTCAACG
763653 GTC-ACG
1 GTCAACG
763659 GTCAACG
1 GTCAACG
763666 GTC
1 GTC
763669 GGGTCGGGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 11 0.34
7 21 0.66
ACGTcount: A:0.23, C:0.28, G:0.30, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:763692 original size:22 final size:22
Alignment explanation
Indices: 763665--763717 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
763655 CACGGTCAAC
*
763665 GGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCGGGTCAACAGTCG
763687 GGTCGGGTCGGGTCAACAGTCG
1 GGTCGGGTCGGGTCAACAGTCG
763709 GGTCGGGTC
1 GGTCGGGTC
763718 AACCCGGTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (22 bp):
GGTCGGGTCGGGTCAACAGTCG
Found at i:763708 original size:17 final size:17
Alignment explanation
Indices: 763688--763720 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
763678 CAACGGTCGG
763688 GTCGGGTCGGGTCAACA
1 GTCGGGTCGGGTCAACA
763705 GTCGGGTCGGGTCAAC
1 GTCGGGTCGGGTCAAC
763721 CCGGTTCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.15, C:0.24, G:0.42, T:0.18
Consensus pattern (17 bp):
GTCGGGTCGGGTCAACA
Found at i:763738 original size:19 final size:19
Alignment explanation
Indices: 763714--763785 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
763704 AGTCGGGTCG
*
763714 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
763733 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
763752 GGTCAAACCGGTTC-GAACC
1 GGTCAAACCGGTTCAG-ACC
763771 GGTCAAACCGGTTCA
1 GGTCAAACCGGTTCA
763786 AAACTGGTTA
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
18 1 0.02
19 49 0.98
ACGTcount: A:0.25, C:0.32, G:0.26, T:0.17
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:763744 original size:9 final size:9
Alignment explanation
Indices: 763714--763802 Score: 79
Period size: 9 Copynumber: 9.3 Consensus size: 9
763704 AGTCGGGTCG
*
763714 GGTCAACCC
1 GGTCAAACC
*
763723 GGTTCAGACC
1 GG-TCAAACC
763733 GGTCAAACC
1 GGTCAAACC
*
763742 GGTTCAGACC
1 GG-TCAAACC
763752 GGTCAAACC
1 GGTCAAACC
*
763761 GGTTCGAACC
1 GG-TCAAACC
763771 GGTCAAACC
1 GGTCAAACC
*
763780 GGTTCAAAACT
1 GG-TC-AAACC
*
763791 GGTTAAACC
1 GGTCAAACC
763800 GGT
1 GGT
763803 TTTTTCCAGC
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
9 33 0.51
10 26 0.40
11 6 0.09
ACGTcount: A:0.27, C:0.29, G:0.26, T:0.18
Consensus pattern (9 bp):
GGTCAAACC
Found at i:763763 original size:38 final size:39
Alignment explanation
Indices: 763714--763803 Score: 121
Period size: 38 Copynumber: 2.3 Consensus size: 39
763704 AGTCGGGTCG
* *
763714 GGTCAACCCGGTTC-AGACCGGTCAAACCGGTTC-AGACC
1 GGTCAAACCGGTTCGA-ACCGGTCAAACCGGTTCAAAACC
*
763752 GGTCAAACCGGTTCGAACCGGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTCGAACCGGTCAAACCGGTTCAAAACC
*
763791 GGTTAAACCGGTT
1 GGTCAAACCGGTT
763804 TTTTCCAGCA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
38 30 0.65
39 16 0.35
ACGTcount: A:0.27, C:0.29, G:0.26, T:0.19
Consensus pattern (39 bp):
GGTCAAACCGGTTCGAACCGGTCAAACCGGTTCAAAACC
Found at i:770067 original size:63 final size:63
Alignment explanation
Indices: 769961--770082 Score: 140
Period size: 63 Copynumber: 1.9 Consensus size: 63
769951 CCCTAAGGGA
* * * ** *
769961 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAATAAC
1 ACATCTTAAGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAATAAC
* *
770024 ACATCTTAAGGCC-GCAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAA
1 ACATCTTAAGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAA
770083 GAGTCACATT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
62 2 0.04
63 47 0.96
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.18
Consensus pattern (63 bp):
ACATCTTAAGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAATAAC
Found at i:770973 original size:13 final size:13
Alignment explanation
Indices: 770955--770980 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
770945 AAGAAAGTCA
770955 ACGGTCAACGGTC
1 ACGGTCAACGGTC
770968 ACGGTCAACGGTC
1 ACGGTCAACGGTC
770981 GGGTCGGGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:770992 original size:17 final size:17
Alignment explanation
Indices: 770970--771010 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
770960 CAACGGTCAC
770970 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
770987 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
771004 GGTCAAC
1 GGTCAAC
771011 CCGGTTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.15, C:0.24, G:0.44, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:770997 original size:7 final size:7
Alignment explanation
Indices: 770951--770980 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
770941 GTCAAAGAAA
770951 GTCAACG
1 GTCAACG
770958 GTCAACG
1 GTCAACG
770965 GTC-ACG
1 GTCAACG
770971 GTCAACG
1 GTCAACG
770978 GTC
1 GTC
770981 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:771024 original size:10 final size:10
Alignment explanation
Indices: 771006--771074 Score: 72
Period size: 9 Copynumber: 7.1 Consensus size: 10
770996 TCGGGTCGGG
*
771006 TCAACCCGGT
1 TCAAACCGGT
*
771016 TCAGACCGG-
1 TCAAACCGGT
771025 TCAAACCGGT
1 TCAAACCGGT
*
771035 TCGAACCGG-
1 TCAAACCGGT
771044 TCAAACCGGT
1 TCAAACCGGT
*
771054 TCAAAACTGGT
1 TC-AAACCGGT
771065 T-AAACCGGT
1 TCAAACCGGT
771074 T
1 T
771075 TTCCAGCAGC
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
9 24 0.49
10 17 0.35
11 8 0.16
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:771026 original size:19 final size:20
Alignment explanation
Indices: 771004--771074 Score: 92
Period size: 19 Copynumber: 3.6 Consensus size: 20
770994 GGTCGGGTCG
*
771004 GGTCAACCCGGTTCAG-ACC
1 GGTCAAACCGGTTCAGAACC
771023 GGTCAAACCGGTTC-GAACC
1 GGTCAAACCGGTTCAGAACC
* *
771042 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTCAGAACC
*
771062 GGTTAAACCGGTT
1 GGTCAAACCGGTT
771075 TTCCAGCAGC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
18 1 0.02
19 30 0.65
20 15 0.33
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (20 bp):
GGTCAAACCGGTTCAGAACC
Found at i:773320 original size:2 final size:2
Alignment explanation
Indices: 773313--773344 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
773303 CCCTTACTTT
*
773313 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
773345 ATTGTGGTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:774347 original size:334 final size:338
Alignment explanation
Indices: 773736--774409 Score: 1063
Period size: 334 Copynumber: 2.0 Consensus size: 338
773726 AACTCGGTAA
* * * * * * *
773736 ATTTTGATTTTTGTATAAAATTATACAATATATATAATCTAGTATAGGAAAACTTTGAGGGTAAG
1 ATTTTGATTTTTGCATAAAATTACACAATACATAGAATCTAATATAGAAAAACTTTGAGGGTAAA
* *
773801 TATTTTAAAATATGAATAATTTTATAAAAATTTTATAACTAATTTTCTTTTACAAAATGATGATG
66 TATTTTAAAATATGAATAATTTAATAAAAATTTTATAACCAATTTTCTTTTACAAAATGATGATG
** * **
773866 ATGATGATAATAAATATTTAATAATTTAAAACATTATAAATTTCATATATTTTTGAAATTTTTAT
131 ATGATGATAATAAATATTTAATAATTTAAAACAACATAAATTTCAAATATTTTTGAAAAATTTAT
*
773931 TGACTTTTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAGATTTTTAATTACAATTGA
196 TGACTTTTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAATTTTTAATTACAATTGA
*
773996 GGGATCAAATAAATTATTATTCATTAATTATTA-TTATTAAC-ACA-ATAATAATGTTTATTCAT
261 GAGATCAAATAAATTATTATTCATTAATTATTAGTTATTAACAACATATAATAATGTTTATTCAT
774058 TTTTAATAAAATT
326 TTTTAATAAAATT
* *
774071 ATTTTGA-TTTTGCATGAAATTACACAATACGTAGAATCTAATATAGAAAAACTTTGAGGGTAAA
1 ATTTTGATTTTTGCATAAAATTACACAATACATAGAATCTAATATAGAAAAACTTTGAGGGTAAA
* *
774135 TATTTTAAAATATTAATAATTTAATAAAAAGTTTTATAACCATTATTTCTTTTACAAAATGATGA
66 TATTTTAAAATATGAATAATTTAATAAAAA-TTTTATAACCAAT-TTTCTTTTACAAAATGATGA
* *
774200 TGATGATGATGATAAATATTTTATAATTTAAAA-AACATAAATTTCAAATATTTTTGAAAAATTT
129 TGATGATGATAATAAATATTTAATAATTTAAAACAACATAAATTTCAAATATTTTTGAAAAATTT
774264 ATTGACTTTTAAAATTAATTGTTTAAAAATAT-AAAAATATTAAAATAAATTTTTAATTACAATT
194 ATTGACTTTTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAATTTTTAATTACAATT
* * *
774328 GAGAGATCAAATGAATTATTATTCATTAATTATTAGTTTTTAACAACATTTAATAATGTTTATTC
259 GAGAGATCAAATAAATTATTATTCATTAATTATTAGTTATTAACAACATATAATAATGTTTATTC
774393 ATTTTTAATAAAATT
324 ATTTTTAATAAAATT
774408 AT
1 AT
774410 AATTTAACAT
Statistics
Matches: 309, Mismatches: 25, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
334 140 0.45
335 83 0.27
336 54 0.17
337 32 0.10
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (338 bp):
ATTTTGATTTTTGCATAAAATTACACAATACATAGAATCTAATATAGAAAAACTTTGAGGGTAAA
TATTTTAAAATATGAATAATTTAATAAAAATTTTATAACCAATTTTCTTTTACAAAATGATGATG
ATGATGATAATAAATATTTAATAATTTAAAACAACATAAATTTCAAATATTTTTGAAAAATTTAT
TGACTTTTAAAATTAATTGTTTAAAAATATAAAAAATATTAAAATAAATTTTTAATTACAATTGA
GAGATCAAATAAATTATTATTCATTAATTATTAGTTATTAACAACATATAATAATGTTTATTCAT
TTTTAATAAAATT
Found at i:774523 original size:21 final size:21
Alignment explanation
Indices: 774499--774554 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
774489 TTACATTCTT
*
774499 TTTTAATTGAATTTTATT-CA
1 TTTTAATTGATTTTTATTACA
774519 CTTTTAATT-ATTTTTATTACA
1 -TTTTAATTGATTTTTATTACA
*
774540 TTTTTATTGATTTTT
1 TTTTAATTGATTTTT
774555 TAAAAAATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.25, C:0.05, G:0.04, T:0.66
Consensus pattern (21 bp):
TTTTAATTGATTTTTATTACA
Found at i:789499 original size:19 final size:19
Alignment explanation
Indices: 789465--789501 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
789455 ATGACCAACA
*
789465 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
*
789484 AAATCGCAACGTGATCTC
1 AAATCGCAACGCGATCTC
789502 CATTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:789612 original size:20 final size:20
Alignment explanation
Indices: 789587--789659 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
789577 GATTTTAGAT
789587 AATCGCAATACGAATATGTA
1 AATCGCAATACGAATATGTA
*
789607 AATCGCAATGCGAATATGTA
1 AATCGCAATACGAATATGTA
*
789627 AATCGCAATGCGAATATGTA
1 AATCGCAATACGAATATGTA
*
789647 AATCGCAACACGA
1 AATCGCAATACGA
789660 TTCGGACTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (20 bp):
AATCGCAATACGAATATGTA
Found at i:789680 original size:20 final size:20
Alignment explanation
Indices: 789648--789814 Score: 201
Period size: 20 Copynumber: 8.3 Consensus size: 20
789638 GAATATGTAA
* *
789648 ATCGCAACACGATTCGGACT
1 ATCGCAACGCGATTCTGACT
* * *
789668 ATCACAACGCGATTCGGGCT
1 ATCGCAACGCGATTCTGACT
*
789688 ATCGCAACGCGATTCGGACT
1 ATCGCAACGCGATTCTGACT
789708 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
* * *
789728 ATCGCAACGAGGTTCTTACT
1 ATCGCAACGCGATTCTGACT
**
789748 ATCGCAACGCGATAAT-ACGT
1 ATCGCAACGCGATTCTGAC-T
789768 GATCGCAACGCGATTCTGACT
1 -ATCGCAACGCGATTCTGACT
789789 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
789809 AACGCA
1 ATCGCA
789815 TCACTGAATT
Statistics
Matches: 128, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
19 2 0.02
20 109 0.85
21 15 0.12
22 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:789693 original size:60 final size:60
Alignment explanation
Indices: 789628--789814 Score: 182
Period size: 60 Copynumber: 3.1 Consensus size: 60
789618 GAATATGTAA
* * * * *
789628 ATCGCAATGCGAATATGTAAATCGCAACACGATTCGGACTATCACAACGCGATTCGGGCT
1 ATCGCAACGCGAATATGTAAATCGCAACGCGATTCTGACTATCGCAACGCGATTCGGACT
* * * * **
789688 ATCGCAACGCG-AT-TCGGACTATCGCAACGCGATTCTGACTATCGCAACGAGGTTCTTACT
1 ATCGCAACGCGAATAT-GTA-AATCGCAACGCGATTCTGACTATCGCAACGCGATTCGGACT
* * *
789748 ATCGCAACGCGATAATACGT-GATCGCAACGCGATTCTGACTATCGCAACGCGATTCTGACT
1 ATCGCAACGCG--AATATGTAAATCGCAACGCGATTCTGACTATCGCAACGCGATTCGGACT
*
789809 AACGCA
1 ATCGCA
789815 TCACTGAATT
Statistics
Matches: 103, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
58 1 0.01
59 4 0.04
60 53 0.51
61 42 0.41
63 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (60 bp):
ATCGCAACGCGAATATGTAAATCGCAACGCGATTCTGACTATCGCAACGCGATTCGGACT
Found at i:790687 original size:24 final size:24
Alignment explanation
Indices: 790629--790675 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
790619 AGTCGGTATT
*
790629 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATCTTGGTCAATACC
790653 CGAACTTTGATCTTGGTCAATAC
1 CGAACTTTGATCTTGGTCAATAC
790676 TCGGATTTTG
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:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATCTTGGTCAATACC
Found at i:793156 original size:20 final size:20
Alignment explanation
Indices: 793131--793373 Score: 226
Period size: 20 Copynumber: 12.8 Consensus size: 20
793121 TTACACATTC
*
793131 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
793151 ATTTGAATATCGCAACG-GG
1 ATTTGACTATCGCAACGCGA
*
793170 A--T-A--ATCGCAATGCGA
1 ATTTGACTATCGCAACGCGA
**
793185 AAATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
793205 ATTTGACTATCGCAACG-GG
1 ATTTGACTATCGCAACGCGA
*
793224 A--T-A--ATCGCAATGCGA
1 ATTTGACTATCGCAACGCGA
**
793239 AAATGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
793259 A-ATGACTATCGTAAAGCGA
1 ATTTGACTATCGCAACGCGA
*
793278 ATTTAACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
793298 ATTTGACTATCGCAACGCG-
1 ATTTGACTATCGCAACGCGA
*
793317 ATTTGACTATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
793337 ATTTGATTATCGCAACGGGA
1 ATTTGACTATCGCAACGCGA
*
793357 ATTTGACTATTGCAACG
1 ATTTGACTATCGCAACG
793374 AGAAAATCAC
Statistics
Matches: 185, Mismatches: 24, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
14 16 0.09
15 4 0.02
16 2 0.01
17 4 0.02
18 2 0.01
19 39 0.21
20 118 0.64
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:793256 original size:54 final size:54
Alignment explanation
Indices: 793134--793333 Score: 242
Period size: 54 Copynumber: 3.6 Consensus size: 54
793124 CACATTCATT
* *
793134 TGACTATCGCAACGAGAATTTGAATATCGCAACGGGATAATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAA
793188 TGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAA
* * * * * **
793242 TGACTATCGCAACGCGAA-ATGACTATCGTAAAGCGAATTTAACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATTTGACTATCGCAACG-GGA--T-A--ATCGCAATGCGAAAA
*
793301 TGACTATCGCAACGCG-ATTTGACTATCACAACG
1 TGACTATCGCAACGCGAATTTGACTATCGCAACG
793334 CGAATTTGAT
Statistics
Matches: 126, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
53 12 0.10
54 72 0.57
56 1 0.01
57 1 0.01
58 1 0.01
59 39 0.31
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (54 bp):
TGACTATCGCAACGCGAATTTGACTATCGCAACGGGATAATCGCAATGCGAAAA
Found at i:793289 original size:39 final size:39
Alignment explanation
Indices: 793173--793378 Score: 208
Period size: 39 Copynumber: 5.4 Consensus size: 39
793163 CAACGGGATA
*
793173 ATCGCAATGCGAAAATGACTATCGCAACGCGAATTTGACT
1 ATCGCAACGCG-AAATGACTATCGCAACGCGAATTTGACT
* * **
793213 ATCGCAACG-G-GAT-A--ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAATGACTATCGCAACGCGAATTTGACT
* * *
793247 ATCGCAACGCGAAATGACTATCGTAAAGCGAATTTAACT
1 ATCGCAACGCGAAATGACTATCGCAACGCGAATTTGACT
*
793286 ATCGCAACGCGAATTTGACTATCGCAACGCG-ATTTGACT
1 ATCGCAACGCGAA-ATGACTATCGCAACGCGAATTTGACT
* * * *
793325 ATCACAACGCGAATTTGATTATCGCAACGGGAATTTGACT
1 ATCGCAACGCGAA-ATGACTATCGCAACGCGAATTTGACT
* *
793365 ATTGCAACGAGAAA
1 ATCGCAACGCGAAA
793379 ATCACAAAGT
Statistics
Matches: 137, Mismatches: 22, Indels: 15
0.79 0.13 0.09
Matches are distributed among these distances:
34 26 0.19
35 1 0.01
36 3 0.02
37 3 0.02
39 64 0.47
40 40 0.29
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (39 bp):
ATCGCAACGCGAAATGACTATCGCAACGCGAATTTGACT
Found at i:793324 original size:59 final size:57
Alignment explanation
Indices: 793134--793373 Score: 217
Period size: 59 Copynumber: 4.2 Consensus size: 57
793124 CACATTCATT
* * * *
793134 TGACTATCGCAACGAGAATTTGAATATCGCAACG-GGA--TA-ATCGCAATGCGAAAA
1 TGACTATCGCAACGCG-ATTTGACTATCGCAACGCGAATTTATATCGCAACGCGAAAA
* *
793188 TGACTATCGCAACGCGAATTTGACTATCGCAACG-GGA--TA-ATCGCAATGCGAAAA
1 TGACTATCGCAACGCG-ATTTGACTATCGCAACGCGAATTTATATCGCAACGCGAAAA
** * * **
793242 TGACTATCGCAACGCGAAATGACTATCGTAAAGCGAATTTAACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGATTTGACTATCGCAACGCGAATTT-A-TATCGCAACGCGAAAA
* * **
793301 TGACTATCGCAACGCGATTTGACTATCACAACGCGAATTTGATTATCGCAACGGGAATT
1 TGACTATCGCAACGCGATTTGACTATCGCAACGCGAATTT-A-TATCGCAACGCGAAAA
*
793360 TGACTATTGCAACG
1 TGACTATCGCAACG
793374 AGAAAATCAC
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
53 13 0.08
54 70 0.43
56 1 0.01
57 1 0.01
59 76 0.47
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (57 bp):
TGACTATCGCAACGCGATTTGACTATCGCAACGCGAATTTATATCGCAACGCGAAAA
Found at i:793548 original size:36 final size:34
Alignment explanation
Indices: 793508--793587 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 34
793498 TCAACTTTTA
*
793508 ATCAATTAAACAAGCACAAATAATAATTATTTACAC
1 ATCAATTAAACAA--ACAAATAAGAATTATTTACAC
793544 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAATTATTTACAC
*
793574 ATAAATTAAACAAA
1 ATCAATTAAACAAA
793588 TCAACTCTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
30 26 0.68
32 2 0.05
34 3 0.08
36 7 0.18
ACGTcount: A:0.56, C:0.14, G:0.03, T:0.28
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAATTATTTACAC
Found at i:793558 original size:30 final size:30
Alignment explanation
Indices: 793523--793588 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
793513 TTAAACAAGC
* *
793523 ACAAATAATAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATAAATTAA
793553 ACAAATAAGAATTATTTACACATAAATTAA
1 ACAAATAAGAATTATTTACACATAAATTAA
793583 ACAAAT
1 ACAAAT
793589 CAACTCTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATAAATTAA
Found at i:794992 original size:21 final size:21
Alignment explanation
Indices: 794963--795070 Score: 101
Period size: 21 Copynumber: 5.1 Consensus size: 21
794953 TAATGTTGGG
* *
794963 AGGGACCTCTTCAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
**
794984 AGGGGCCTCTTGAACGATGGG
1 AGGGGCCTCTTGAACGATGAC
* ** *
795005 AGGGGACTCTTGAGGGATGAT
1 AGGGGCCTCTTGAACGATGAC
* *
795026 AGGGGCCTCTTGAATGAT-AGG
1 AGGGGCCTCTTGAACGATGA-C
*
795047 AGAGGCCTCTTGAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
795068 AGG
1 AGG
795071 TGAGTCGGGC
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
20 1 0.01
21 66 0.97
22 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.36, T:0.20
Consensus pattern (21 bp):
AGGGGCCTCTTGAACGATGAC
Found at i:795024 original size:42 final size:42
Alignment explanation
Indices: 794961--795070 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
794951 TATAATGTTG
* *
794961 GGAG-GGACCTCTTCAACGATGACAGGGGCCTCTTGAACGATG
1 GGAGAGGA-CTCTTGAACGATGACAGGGGCCTCTTGAACGATA
* ** * *
795003 GGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAATGATA
1 GGAGAGGACTCTTGAACGATGACAGGGGCCTCTTGAACGATA
*
795045 GGAGAGGCCTCTTGAACGATGACAGG
1 GGAGAGGACTCTTGAACGATGACAGG
795071 TGAGTCGGGC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 53 0.95
43 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.37, T:0.20
Consensus pattern (42 bp):
GGAGAGGACTCTTGAACGATGACAGGGGCCTCTTGAACGATA
Found at i:795572 original size:20 final size:20
Alignment explanation
Indices: 795547--795590 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
795537 AATAGTTTCT
795547 GAAACTTAAAATCGTAACAC
1 GAAACTTAAAATCGTAACAC
795567 GAAACTTAAAATCGTAACAC
1 GAAACTTAAAATCGTAACAC
795587 GAAA
1 GAAA
795591 ATGATTATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.18, G:0.11, T:0.18
Consensus pattern (20 bp):
GAAACTTAAAATCGTAACAC
Found at i:795609 original size:20 final size:20
Alignment explanation
Indices: 795586--795663 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 20
795576 AATCGTAACA
*
795586 CGAAAATGATTATCGCAACG
1 CGAAAATGACTATCGCAACG
**
795606 CGAATTTGACTATCGCAA--
1 CGAAAATGACTATCGCAACG
*
795624 CG-AGAT-A--ATCGCAACG
1 CGAAAATGACTATCGCAACG
795640 CG-AAATGACTATCGCAACG
1 CGAAAATGACTATCGCAACG
795659 CGAAA
1 CGAAA
795664 CTAAATTCGC
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
14 7 0.15
16 6 0.13
17 3 0.07
18 2 0.04
19 11 0.24
20 17 0.37
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (20 bp):
CGAAAATGACTATCGCAACG
Found at i:795655 original size:19 final size:19
Alignment explanation
Indices: 795589--795663 Score: 79
Period size: 19 Copynumber: 4.2 Consensus size: 19
795579 CGTAACACGA
*
795589 AAATGATTATCGCAACGCG
1 AAATGACTATCGCAACGCG
*
795608 AATTTGACTATCGCAA--CG
1 AA-ATGACTATCGCAACGCG
*
795626 AGAT-A--ATCGCAACGCG
1 AAATGACTATCGCAACGCG
795642 AAATGACTATCGCAACGCG
1 AAATGACTATCGCAACGCG
795661 AAA
1 AAA
795664 CTAAATTCGC
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
14 7 0.16
16 6 0.13
17 2 0.04
18 3 0.07
19 16 0.36
20 11 0.24
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.19
Consensus pattern (19 bp):
AAATGACTATCGCAACGCG
Found at i:795673 original size:19 final size:19
Alignment explanation
Indices: 795631--795673 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
795621 CAACGAGATA
* *
795631 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATAAAT
795650 ATCGCAACGCGAAACTAAAT
1 ATCGCAACGCGAAA-TAAAT
795670 -TCGC
1 ATCGC
795674 GTTGCGATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.37, C:0.28, G:0.19, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATAAAT
Found at i:795698 original size:20 final size:20
Alignment explanation
Indices: 795669--795828 Score: 146
Period size: 20 Copynumber: 8.6 Consensus size: 20
795659 CGAAACTAAA
795669 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
795689 TTCGCATTGCGAT--T-A--
1 TTCGCGTTGCGATAGTCATT
* **
795704 -TCCCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
795723 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
795743 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCATT
*
795763 TTCGCATTGCGAT--T-A--
1 TTCGCGTTGCGATAGTCATT
* **
795778 -TCCCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCATT
*
795797 TTCGCGTTGCGATAATCATT
1 TTCGCGTTGCGATAGTCATT
*
795817 TTCGTGTTGCGA
1 TTCGCGTTGCGA
795829 CTATTCTTCT
Statistics
Matches: 114, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
14 20 0.18
16 2 0.02
17 4 0.04
18 2 0.02
20 86 0.75
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCATT
Found at i:795790 original size:74 final size:74
Alignment explanation
Indices: 795669--795828 Score: 302
Period size: 74 Copynumber: 2.2 Consensus size: 74
795659 CGAAACTAAA
795669 TTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCG
1 TTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCG
*
795734 ATAGTCATT
66 ATAATCATT
795743 TTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCG
1 TTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCG
795808 ATAATCATT
66 ATAATCATT
*
795817 TTCGTGTTGCGA
1 TTCGCGTTGCGA
795829 CTATTCTTCT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
74 84 1.00
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (74 bp):
TTCGCGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCGTTGCG
ATAATCATT
Found at i:797836 original size:20 final size:20
Alignment explanation
Indices: 797813--797868 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
797803 TCTGAAACTT
797813 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
*
797833 AAAATCACAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
797853 ATTATCGCAACGCGAA
1 AAAATCGCAACACGAA
797869 TTTGACTATC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.52, C:0.21, G:0.14, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:797921 original size:33 final size:34
Alignment explanation
Indices: 797856--797936 Score: 128
Period size: 33 Copynumber: 2.4 Consensus size: 34
797846 GAAAATGATT
*
797856 ATCGCAACGCGAATTTGACTATCGCAACGAGATA
1 ATCGCAACGCGAATATGACTATCGCAACGAGATA
* *
797890 ATCGCAACGCGAA-ATGGCTATTGCAACGAGATA
1 ATCGCAACGCGAATATGACTATCGCAACGAGATA
797923 ATCGCAACGCGAAT
1 ATCGCAACGCGAAT
797937 TTTTTCGTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
33 30 0.70
34 13 0.30
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (34 bp):
ATCGCAACGCGAATATGACTATCGCAACGAGATA
Found at i:798285 original size:22 final size:22
Alignment explanation
Indices: 798258--798330 Score: 110
Period size: 22 Copynumber: 3.3 Consensus size: 22
798248 GATGGAGATA
798258 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
798280 GACGGATTTCGCCGGAAATGGG
1 GACGGATTTCGCCGGAGATGGG
* * *
798302 GATGGATTTCGTCGGAGATGAG
1 GACGGATTTCGCCGGAGATGGG
798324 GACGGAT
1 GACGGAT
798331 GTCGTCGTAG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.22, C:0.15, G:0.42, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:798539 original size:20 final size:20
Alignment explanation
Indices: 798500--798585 Score: 93
Period size: 20 Copynumber: 4.2 Consensus size: 20
798490 TTATCGCAAC
**
798500 GCGATAGTCAGAATTTCGTT
1 GCGATAGTCAGAATCGCGTT
798520 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
* **
798540 GCCATCACGT-ATTATCGCGTT
1 GCGAT-A-GTCAGAATCGCGTT
*
798561 GCGATAGTCAGAATCGTGTT
1 GCGATAGTCAGAATCGCGTT
798581 GCGAT
1 GCGAT
798586 CACGTGTTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
19 2 0.04
20 36 0.67
21 14 0.26
22 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:798558 original size:21 final size:21
Alignment explanation
Indices: 798532--798606 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
798522 GATAGTCAGA
*
798532 ATCGCGTTGCCATCACGTATT
1 ATCGCGTTGCGATCACGTATT
**
798553 ATCGCGTTGCGAT-A-GTCAGA
1 ATCGCGTTGCGATCACGT-ATT
* *
798573 ATCGTGTTGCGATCACGTGTT
1 ATCGCGTTGCGATCACGTATT
798594 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
798607 TTACATATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.05
20 14 0.33
21 25 0.58
22 2 0.05
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.32
Consensus pattern (21 bp):
ATCGCGTTGCGATCACGTATT
Found at i:798561 original size:41 final size:41
Alignment explanation
Indices: 798516--798606 Score: 155
Period size: 41 Copynumber: 2.2 Consensus size: 41
798506 GTCAGAATTT
798516 CGTTGCGATAGTCAGAATCGCGTTGCCATCACGTATTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCCATCACGTATTATCG
* * *
798557 CGTTGCGATAGTCAGAATCGTGTTGCGATCACGTGTTATCG
1 CGTTGCGATAGTCAGAATCGCGTTGCCATCACGTATTATCG
798598 CGTTGCGAT
1 CGTTGCGAT
798607 TTACATATTC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (41 bp):
CGTTGCGATAGTCAGAATCGCGTTGCCATCACGTATTATCG
Found at i:798629 original size:20 final size:20
Alignment explanation
Indices: 798595--798647 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
798585 TCACGTGTTA
*
798595 TCGCGTTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* *
798615 TCGTATTGCGCTTTACATAT
1 TCGCATTGCGATTTACATAT
798635 TCGCATTGCGATT
1 TCGCATTGCGATT
798648 ATCTAAAATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:812022 original size:16 final size:17
Alignment explanation
Indices: 811990--812022 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
811980 AACTGGTATG
*
811990 ATATTTATCTGAACTTA
1 ATATTTACCTGAACTTA
812007 ATATTTACCT-AACTTA
1 ATATTTACCTGAACTTA
812023 TAAGTTACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.15, G:0.03, T:0.45
Consensus pattern (17 bp):
ATATTTACCTGAACTTA
Done.