Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007980.1 Hibiscus syriacus cultivar Beakdansim tig00110419_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: 1499237
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:584430 original size:23 final size:24
Alignment explanation
Indices: 584404--584457 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
584394 ATGATTTTCG
* *
584404 AAAATTTAT-ATTTATAGTTTTTA
1 AAAATTTATAATATATAGTTTTGA
*
584427 AAAA-CTATAATATATAGTTTTGA
1 AAAATTTATAATATATAGTTTTGA
584450 AAACATTT
1 AAA-ATTT
584458 TGAAACCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 3 0.12
23 19 0.79
24 1 0.04
25 1 0.04
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (24 bp):
AAAATTTATAATATATAGTTTTGA
Found at i:584479 original size:35 final size:33
Alignment explanation
Indices: 584422--584619 Score: 129
Period size: 35 Copynumber: 5.8 Consensus size: 33
584412 TATTTATAGT
* *
584422 TTTTAAAAACTATA-ATATATAGTTTTGAAAACA
1 TTTTGAAAAC-ATATATATATAGTTTTAAAAACA
* *
584455 TTTTGAAACCGTTTATATATATAGTTTTTAAAAACA
1 TTTTGAAAAC--ATATATATATAG-TTTTAAAAACA
584491 TTTTGAAAACATATAGTATATAGTTTTAAAAAACA
1 TTTTGAAAACATATA-TATATAGTTTT-AAAAACA
** * *
584526 TTTTTTGTGAA-TTATATATATAG-TTTAAAAATA
1 --TTTTGAAAACATATATATATAGTTTTAAAAACA
* * *
584559 TTTTTTTGAAAACTTATATA-ATA-TTTT-AAAGCG
1 ---TTTTGAAAACATATATATATAGTTTTAAAAACA
*
584592 TTTTGAAAACTATGTAATATATAGTTTT
1 TTTTGAAAAC-ATAT-ATATATAGTTTT
584620 GGATTTTTTT
Statistics
Matches: 134, Mismatches: 17, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
30 10 0.07
31 2 0.01
32 3 0.02
33 20 0.15
34 33 0.25
35 36 0.27
36 23 0.17
37 7 0.05
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (33 bp):
TTTTGAAAACATATATATATAGTTTTAAAAACA
Found at i:584766 original size:12 final size:11
Alignment explanation
Indices: 584743--584773 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
584733 TTTCTTTTCA
584743 GGTCCAAAACG
1 GGTCCAAAACG
584754 GGTCCAGAAACG
1 GGTCCA-AAACG
584766 GGTCCAAA
1 GGTCCAAA
584774 TCCAGTCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.35, C:0.26, G:0.29, T:0.10
Consensus pattern (11 bp):
GGTCCAAAACG
Found at i:587986 original size:19 final size:19
Alignment explanation
Indices: 587959--588023 Score: 121
Period size: 19 Copynumber: 3.4 Consensus size: 19
587949 ATTTAGACAT
*
587959 TTTGTATTTTGTTATTTTC
1 TTTGCATTTTGTTATTTTC
587978 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTGTTATTTTC
587997 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTGTTATTTTC
588016 TTTGCATT
1 TTTGCATT
588024 CACATAAACT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.11, C:0.09, G:0.11, T:0.69
Consensus pattern (19 bp):
TTTGCATTTTGTTATTTTC
Found at i:591120 original size:84 final size:84
Alignment explanation
Indices: 590926--591709 Score: 854
Period size: 84 Copynumber: 9.5 Consensus size: 84
590916 TTAAAACCAA
* * * ** *
590926 ATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATT
1 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
* * *
590987 ACACTCAGCTTCGAGGGCAC
66 ACGCTCAGC-TCCAAGGCAC
* *
591007 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTTGGCT
1 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
*
591072 ACGCTCAGCTCCAAGGCAT
66 ACGCTCAGCTCCAAGGCAC
* * * * * *
591091 ATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGGCAACAAAAGACCTTTGAGTTCGACT
1 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
591156 ACGCTCAGCT-CAACGGCAC
66 ACGCTCAGCTCCAA-GGCAC
* * * ** * *
591175 ATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGATCGATT
1 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
* * * *
591236 ACACTCATCTTCGAGGGCAC
66 ACGCTCAGC-TCCAAGGCAC
* *
591256 GTCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
591321 ACGCTCAGCTCCAAGGCAC
66 ACGCTCAGCTCCAAGGCAC
* * ** *
591340 ATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATT
1 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
* * * *
591401 ACACTCATCTTCGAGGGCAC
66 ACGCTCAGC-TCCAAGGCAC
* * *
591421 GTTATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
591486 ACGCTCAGCTCCAAGGCAC
66 ACGCTCAGCTCCAAGGCAC
* * * * *
591505 ATCATTTGCAGCATAGCTTAAGTC--GAAGGGCTATCTG----CCAAAGACC-CCCAGTTCGATT
1 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
* * *
591563 ACACTCAGCTTCGAGGGCAC
66 ACGCTCAGC-TCCAAGGCAC
* * * *
591583 CTCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACA
1 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
*
591648 ACGCTCAGCT-CAACGGTAC
66 ACGCTCAGCTCCAA-GGCAC
*
591667 ATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCCAA
1 ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
591710 AGAGTTCGAT
Statistics
Matches: 578, Mismatches: 100, Indels: 47
0.80 0.14 0.06
Matches are distributed among these distances:
77 17 0.03
78 38 0.07
80 61 0.11
81 118 0.20
82 12 0.02
83 4 0.01
84 237 0.41
85 91 0.16
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (84 bp):
ATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACT
ACGCTCAGCTCCAAGGCAC
Found at i:591317 original size:165 final size:164
Alignment explanation
Indices: 590927--591751 Score: 1086
Period size: 165 Copynumber: 5.1 Consensus size: 164
590917 TAAAACCAAA
* * * * ** *
590927 TCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCCCGAGTTCGATTA
1 TCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
* * * *
590988 CACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCA
66 CGCTCAGC-TC-AAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCA
** * ** * * * **
591053 AAGACCTTCGAGTTTGGCTACGCTCAGC-TCCAAGGCATA
125 AAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACG
* * * * *
591092 TCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGGCAACAAAAGACCTTTGAGTTCGACTA
1 TCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
*
591157 CGCTCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
66 CGCTCAGCTCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
* *
591222 CCCCGAGATCGATTACACTCATCTTCGAGGGCACG
130 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACG
591257 TCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
1 TCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
591322 CGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
66 CGCTCAGCT-CAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
*
591387 CCCCGAGTTCGATTACACTCATCTTCGAGGGCACG
130 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACG
* * *
591422 TTATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTA
1 TCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
591487 CGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTC--GAAGGGCTATCTGCCAAAGAC
66 CGCTCAGCT-CAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
*
591550 CCCC-AGTTCGATTACACTCAGCTTCGAGGGCACC
130 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACG
* *
591584 TCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACAA
1 TCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
* *
591649 CGCTCAGCTCAACGGTACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC-AA-A-
66 CGCTCAGCTCAA-GGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC
* * *
591711 ----GAGTTCGATTGCACTCAACTTCGAGGGCACA
130 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACG
591742 TCATTTGCAG
1 TCATTTGCAG
591752 TATAGCTCAA
Statistics
Matches: 599, Mismatches: 50, Indels: 29
0.88 0.07 0.04
Matches are distributed among these distances:
158 37 0.06
161 3 0.01
162 126 0.21
163 27 0.05
164 37 0.06
165 297 0.50
166 3 0.01
167 1 0.00
168 43 0.07
169 25 0.04
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (164 bp):
TCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTA
CGCTCAGCTCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
CCCGAGTTCGATTACACTCAGCTTCGAGGGCACG
Found at i:591371 original size:249 final size:248
Alignment explanation
Indices: 590926--591776 Score: 1027
Period size: 249 Copynumber: 3.5 Consensus size: 248
590916 TTAAAACCAA
*
590926 ATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACAC
1 ATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACAC
590991 TCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
66 TCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
* * * *
591056 ACCTTCGAGTTTGGCTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAG
131 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGTCGAGAAG
*
591121 GGTTGTCTGGCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCAC
196 GGTTATCTGGCAAC-AAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCAC
* *
591175 ATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGATCGATTACAC
1 ATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACAC
* * *
591240 TCATCTTCGAGGGCACGTCATTTGCAGCACAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
66 TCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
* *
591305 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAG
131 ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGTCGAGAAG
* *** * * * * *
591370 GGCTATCT-GC--CAAAGACCCCCGAGTTCGATTACACTCATCTTCGAGGGCAC
196 GGTTATCTGGCAACAAAGACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCAC
* * * * * ** *
591421 GTTATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACT
1 ATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT----GCCAAAGACCCCCGAGTTCGATT
* * * * *
591486 ACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTC--GAAGGGCTATCTG----CC
62 ACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC
* * * * * * *
591544 AAAGACC-CCCAGTTCGATTACACTCAGCTTCGAGGGCACCTCATTTGCAGCACAACTTAAGTCG
127 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCACAACTTAAGTCG
* * *
591608 AGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACAACGCTCAGCTCAACGGTAC
191 AGAAGGGTTATCTGGCAA-CAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCAC
* *
591667 ATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC-AA-A-----GAGTTCGATTGCAC
1 ATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACAC
* * * * * *
591725 TCAACTTCGAGGGCACATCATTTGCAGTATAGCTCAAGGCAAGAAGGGTTAT
66 TCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
591777 ATGTCAATAA
Statistics
Matches: 516, Mismatches: 73, Indels: 37
0.82 0.12 0.06
Matches are distributed among these distances:
235 15 0.03
236 29 0.06
238 9 0.02
240 1 0.00
241 2 0.00
242 19 0.04
243 51 0.10
244 1 0.00
245 23 0.04
246 84 0.16
247 35 0.07
248 2 0.00
249 220 0.43
250 25 0.05
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (248 bp):
ATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACAC
TCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
ACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCACAACTTAAGTCGAGAAG
GGTTATCTGGCAACAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCAC
Found at i:592567 original size:35 final size:36
Alignment explanation
Indices: 592430--592584 Score: 151
Period size: 37 Copynumber: 4.3 Consensus size: 36
592420 AGTTTTTAAA
* *
592430 TATATATATATAGTTTT-GAAAACA-TTTTGAAACCGTT
1 TATATA-ATATAGTTTTAAAAAACATTTTTGAAAAC--T
* * *
592467 TATATTATATAGTTTTTAAAAACA-TTTTGAAAACA
1 TATATAATATAGTTTTAAAAAACATTTTTGAAAACT
*
592502 TATATAGTATATAGTTTTAAAAAACATTTTTGTGAAA-T
1 TATATA--ATATAGTTTTAAAAAACATTTTTG-AAAACT
592540 TATATAATATA-TTTT-AAAAACATTTTTTGAAAACT
1 TATATAATATAGTTTTAAAAAACA-TTTTTGAAAACT
592575 TATATAATAT
1 TATATAATAT
592585 TTTAAAGCGT
Statistics
Matches: 102, Mismatches: 9, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
34 10 0.10
35 26 0.25
36 15 0.15
37 37 0.36
38 11 0.11
39 3 0.03
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (36 bp):
TATATAATATAGTTTTAAAAAACATTTTTGAAAACT
Found at i:592666 original size:34 final size:32
Alignment explanation
Indices: 592607--592679 Score: 76
Period size: 32 Copynumber: 2.2 Consensus size: 32
592597 GAAAACTATG
* * * *
592607 TAATATATAGTTTTGGAAATTTTTTTTAAGTA
1 TAATATATAGTTTTGAAAATATTTTTGAAATA
*
592639 TAATATATAGTTTTCTAAACATATTTTTGAAATA
1 TAATATATAGTTTT-GAAA-ATATTTTTGAAATA
592673 T-ATATAT
1 TAATATAT
592680 TATATAGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 14 0.41
33 8 0.24
34 12 0.35
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.51
Consensus pattern (32 bp):
TAATATATAGTTTTGAAAATATTTTTGAAATA
Found at i:592703 original size:5 final size:5
Alignment explanation
Indices: 592695--592723 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
592685 AGTTATATCA
592695 TATTT TATTT TATTT TATTT TATTT TATT
1 TATTT TATTT TATTT TATTT TATTT TATT
592724 AATTTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:592778 original size:12 final size:12
Alignment explanation
Indices: 592761--592792 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
592751 TTTCTTTTCA
592761 GGTCCAAAAACG
1 GGTCCAAAAACG
*
592773 GGTCCAGAAACG
1 GGTCCAAAAACG
592785 GGTCCAAA
1 GGTCCAAA
592793 TCCAGTCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.38, C:0.25, G:0.28, T:0.09
Consensus pattern (12 bp):
GGTCCAAAAACG
Found at i:593498 original size:23 final size:22
Alignment explanation
Indices: 593448--593502 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
593438 CAAACAATCC
* *
593448 AAAAA-CATAGCCAACACAAAC
1 AAAAACCATAGCCAAAACAAAA
*
593469 AACAACCATAGCCAAAACCAAAA
1 AAAAACCATAGCCAAAA-CAAAA
593492 AAAAACCATAG
1 AAAAACCATAG
593503 TATACCACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 4 0.14
22 10 0.36
23 14 0.50
ACGTcount: A:0.62, C:0.27, G:0.05, T:0.05
Consensus pattern (22 bp):
AAAAACCATAGCCAAAACAAAA
Found at i:594808 original size:6 final size:6
Alignment explanation
Indices: 594797--594826 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
594787 GTGGACTTCC
594797 CCCCCA CCCCCA CCCCCA CCCCCA CCCCCA
1 CCCCCA CCCCCA CCCCCA CCCCCA CCCCCA
594827 GAAATGAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.83, G:0.00, T:0.00
Consensus pattern (6 bp):
CCCCCA
Found at i:595116 original size:31 final size:31
Alignment explanation
Indices: 595081--595139 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
595071 AGATACATGT
*
595081 AGATCCGTCACT-GACTGAGATTACTTGACGG
1 AGATCCGTC-CTGGACTAAGATTACTTGACGG
*
595112 AGATCCGTCCTGGACTAAGGTTACTTGA
1 AGATCCGTCCTGGACTAAGATTACTTGA
595140 TGGATTCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (31 bp):
AGATCCGTCCTGGACTAAGATTACTTGACGG
Found at i:596241 original size:28 final size:28
Alignment explanation
Indices: 596167--596226 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
596157 TTAAATTGAT
596167 ATCACTATCAATTGTTATAGTTGAAGTG
1 ATCACTATCAATTGTTATAGTTGAAGTG
*
596195 CTCACTATCAATTGTTATAGTTGAAGTG
1 ATCACTATCAATTGTTATAGTTGAAGTG
596223 ATCA
1 ATCA
596227 TATGATATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (28 bp):
ATCACTATCAATTGTTATAGTTGAAGTG
Found at i:598073 original size:60 final size:59
Alignment explanation
Indices: 597952--598124 Score: 190
Period size: 60 Copynumber: 2.9 Consensus size: 59
597942 AAGGGTATTT
* * * * *
597952 ATAGTTTTGAGATGAAATTGGAATGTTTAAAAAGTTTAGGGACAAATTTAGAA-GAATATC
1 ATAGTTTTGGGATGAAATTGAAATG-TT-AAAAGTTTAAGGACTAATTTAAAATGAATATC
*
598012 ATAGTTTGGGGATGAAATTGAAATGTTCAAAAGTTTAAGGACTAATTTAAAATG-ATAATC
1 ATAGTTTTGGGATGAAATTGAAATGTT-AAAAGTTTAAGGACTAATTTAAAATGAAT-ATC
* * *
598072 ATAGTTTTGGGATGAAATTAAAACATG-TAAAAGTTGAAGAACTAATTTAAAAT
1 ATAGTTTTGGGATGAAATT-GAA-ATGTTAAAAGTTTAAGGACTAATTTAAAAT
598125 AAATGCCATA
Statistics
Matches: 98, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
59 25 0.26
60 67 0.68
61 3 0.03
62 3 0.03
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (59 bp):
ATAGTTTTGGGATGAAATTGAAATGTTAAAAGTTTAAGGACTAATTTAAAATGAATATC
Found at i:599924 original size:12 final size:12
Alignment explanation
Indices: 599907--599951 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
599897 ATTATACTGT
599907 ATGAACAGTACC
1 ATGAACAGTACC
*
599919 ATGAACATTA--
1 ATGAACAGTACC
*
599929 ATAAACAGTACC
1 ATGAACAGTACC
599941 ATG-ACAGTACC
1 ATGAACAGTACC
599952 CGAATGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
10 8 0.30
11 8 0.30
12 11 0.41
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.20
Consensus pattern (12 bp):
ATGAACAGTACC
Found at i:600012 original size:21 final size:21
Alignment explanation
Indices: 599982--600024 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
599972 AATGCTGGAG
*
599982 GGGTATCGATACCCTGCTACA
1 GGGTACCGATACCCTGCTACA
*
600003 GGGTACCGATACCTTGCTACA
1 GGGTACCGATACCCTGCTACA
600024 G
1 G
600025 TACCTCAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.28, G:0.26, T:0.23
Consensus pattern (21 bp):
GGGTACCGATACCCTGCTACA
Found at i:600924 original size:32 final size:32
Alignment explanation
Indices: 600829--600929 Score: 100
Period size: 31 Copynumber: 3.2 Consensus size: 32
600819 CCGAAGAACC
* * *
600829 TAGGTAA-ATTGTTCATATGTTCCTTAGAACA
1 TAGGTAATATTGTTCATATGTTTCGTAAAACA
* * *
600860 TAGGT-ATATTGTCCGTATGTCTCG-AAAGACA
1 TAGGTAATATTGTTCATATGTTTCGTAAA-ACA
* *
600891 TAGGTAATTTTGTTCATATGTTTCGTATAACA
1 TAGGTAATATTGTTCATATGTTTCGTAAAACA
600923 TAGGTAA
1 TAGGTAA
600930 ACCCTCGACT
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
30 3 0.05
31 25 0.45
32 25 0.45
33 2 0.04
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.39
Consensus pattern (32 bp):
TAGGTAATATTGTTCATATGTTTCGTAAAACA
Found at i:604808 original size:43 final size:43
Alignment explanation
Indices: 604713--604910 Score: 283
Period size: 43 Copynumber: 4.6 Consensus size: 43
604703 AGCAGGTTCT
* *
604713 TTTGCTGTGTGCAAGTGTAAGCCTTACAGTTT-CACAGGTCCC
1 TTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCC
604755 TTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCC
1 TTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCC
* *
604798 TTTACTGTGTGCAATGGTAAGCCTTACAGTTTCCCCAGGTCCC
1 TTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCC
* * *
604841 TTTGTTGTGTGCAATGGTAAGCCTTACAGTTTCCCCAGG-CTCT
1 TTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTC-CC
* *
604884 TTTGCTATGTGCAAGGATAAGACCTTA
1 TTTGCTGTGTGCAAGGGTAAG-CCTTA
604911 TCGTTTTTGC
Statistics
Matches: 142, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
42 32 0.23
43 105 0.74
44 5 0.04
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.33
Consensus pattern (43 bp):
TTTGCTGTGTGCAAGGGTAAGCCTTACAGTTTCCCCAGGTCCC
Found at i:606841 original size:3 final size:3
Alignment explanation
Indices: 606835--606861 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
606825 GAGGAGGAAA
606835 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
606862 GGAGAAGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:607732 original size:32 final size:33
Alignment explanation
Indices: 607663--607734 Score: 128
Period size: 34 Copynumber: 2.2 Consensus size: 33
607653 TTCAAAAGGA
607663 TGGATAATACAAGCATGTTAGAAGTCATATTATT
1 TGGATAATACAAGCATGTTAGAAGTCA-ATTATT
607697 TGGATAATACAAGCATGTTAGAAGTC-ATTATT
1 TGGATAATACAAGCATGTTAGAAGTCAATTATT
607729 TGGATA
1 TGGATA
607735 TTATAACAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
32 12 0.32
34 26 0.68
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (33 bp):
TGGATAATACAAGCATGTTAGAAGTCAATTATT
Found at i:621910 original size:19 final size:19
Alignment explanation
Indices: 621886--621937 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
621876 CTCTATTTAA
621886 AATTTATAATTTAATCCTT
1 AATTTATAATTTAATCCTT
* * * *
621905 AATTTAAAATGTAAACTTT
1 AATTTATAATTTAATCCTT
*
621924 AATTT-TTATTTAAT
1 AATTTATAATTTAAT
621938 TTAATCATAA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (19 bp):
AATTTATAATTTAATCCTT
Found at i:624977 original size:18 final size:17
Alignment explanation
Indices: 624949--624982 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
624939 ACTTAAATGT
*
624949 TTTAAAATTTTGTTTTA
1 TTTAAAATTTTCTTTTA
624966 TTTAATAATTTTCTTTT
1 TTTAA-AATTTTCTTTT
624983 TAACTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTAAAATTTTCTTTTA
Found at i:625998 original size:18 final size:19
Alignment explanation
Indices: 625975--626060 Score: 128
Period size: 18 Copynumber: 4.8 Consensus size: 19
625965 TTAATCTACG
625975 TCTGATAACTGTAAAA-CA
1 TCTGATAACTGTAAAATCA
*
625993 TCTGATAACTG-AAAATCG
1 TCTGATAACTGTAAAATCA
626011 TCTGATAACTGT-AAAT-A
1 TCTGATAACTGTAAAATCA
626028 TCTGATAACTG-AAAATCA
1 TCTGATAACTGTAAAATCA
626046 TCTGATAACTGTAAA
1 TCTGATAACTGTAAA
626061 CATTTAGAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
17 19 0.31
18 39 0.64
19 3 0.05
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (19 bp):
TCTGATAACTGTAAAATCA
Found at i:626038 original size:35 final size:35
Alignment explanation
Indices: 625973--626063 Score: 155
Period size: 35 Copynumber: 2.6 Consensus size: 35
625963 TATTAATCTA
625973 CGTCTGATAACTGTAAAACATCTGATAACTGAAAAT
1 CGTCTGATAACTGT-AAACATCTGATAACTGAAAAT
*
626009 CGTCTGATAACTGTAAATATCTGATAACTGAAAAT
1 CGTCTGATAACTGTAAACATCTGATAACTGAAAAT
*
626044 CATCTGATAACTGTAAACAT
1 CGTCTGATAACTGTAAACAT
626064 TTAGAATTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 38 0.73
36 14 0.27
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (35 bp):
CGTCTGATAACTGTAAACATCTGATAACTGAAAAT
Found at i:627051 original size:70 final size:69
Alignment explanation
Indices: 626952--627088 Score: 181
Period size: 68 Copynumber: 2.0 Consensus size: 69
626942 TATTCAAACT
**
626952 TAAACAAATATTATTTTAATTTGAAATATTCAAAAGTATATAATTAT-CTTTTAATATTCAAATT
1 TAAACAAATATTATTTTAATTTGAAATATT-AAAA-TA-ATAATTATCCTACTAATATTCAAATT
627016 AAATAGA
63 AAATAGA
* *
627023 TAAA-AAATATCT-TTTTAATTTGACATATTTAAATAATAATTATCCTACTAATATTCAAATTAA
1 TAAACAAATAT-TATTTTAATTTGAAATATTAAAATAATAATTATCCTACTAATATTCAAATTAA
627086 ATA
65 ATA
627089 ATATCTTTTA
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
67 8 0.13
68 22 0.37
69 3 0.05
70 22 0.37
71 5 0.08
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (69 bp):
TAAACAAATATTATTTTAATTTGAAATATTAAAATAATAATTATCCTACTAATATTCAAATTAAA
TAGA
Found at i:633458 original size:298 final size:298
Alignment explanation
Indices: 632920--633519 Score: 1128
Period size: 298 Copynumber: 2.0 Consensus size: 298
632910 AATGTTTTCT
* *
632920 AAATTTGGTTAAATTGGTTGAAGTTCAGTTTGGGAAAAAGATTAAGGCCCTGTAAAGTAATGGTG
1 AAATTTGGTTAAATTGGTTGAAGTTCAGTTTGAGAAAAAGATTAAGGCCCTGCAAAGTAATGGTG
*
632985 GGGGTGAATATCAAGCTCTAAAGAGTTGGTTTTTGACTAATGGGGTTCAACATCAAAATTTATGT
66 GGGGTGAATATCAAGCTCTAAAGAATTGGTTTTTGACTAATGGGGTTCAACATCAAAATTTATGT
633050 CCTAGTATATCAGAGCAAAATGGGAAGGCTGAGCACAAGCATCGACACGTTGTTGAAATCGAACT
131 CCTAGTATATCAGAGCAAAATGGGAAGGCTGAGCACAAGCATCGACACGTTGTTGAAATCGAACT
*
633115 AGCTATGATGGCTCAAGCATCGTTACCAACAAAGTTCTGGAGTCATGCATTTACTATGGCAGTAT
196 AGCTATGATGGCTCAAGCATCGTTACCAACAAAGTTCTAGAGTCATGCATTTACTATGGCAGTAT
* *
633180 ATATCATTAATCGGCTACCAACCGAGACTATGTCAGGC
261 ATATCATTAATAGGCTACCAACCGAGACTATGTCAGGA
633218 AAATTTGGTTAAATTGGTTGAAGTTCAGTTTGAGAAAAAGATTAAGGCCCTGCAAAGTAATGGTG
1 AAATTTGGTTAAATTGGTTGAAGTTCAGTTTGAGAAAAAGATTAAGGCCCTGCAAAGTAATGGTG
*
633283 GGGGTGAATATCAAGCTCTAAAGAATTGGTTTTTGACTAATGGGGTTCAACATCAAAATTTTTGT
66 GGGGTGAATATCAAGCTCTAAAGAATTGGTTTTTGACTAATGGGGTTCAACATCAAAATTTATGT
*
633348 CCTAGTATATCAGAGCAAAATGGGAAGGCTGAGCACAAGCATCGACACGTTGTTGAAATCGGACT
131 CCTAGTATATCAGAGCAAAATGGGAAGGCTGAGCACAAGCATCGACACGTTGTTGAAATCGAACT
633413 AGCTATGATGGCTCAAGCATCGTTACCAACAAAGTTCTAGAGTCATGCATTTACTATGGCAGTAT
196 AGCTATGATGGCTCAAGCATCGTTACCAACAAAGTTCTAGAGTCATGCATTTACTATGGCAGTAT
633478 ATATCATTAATAGGCTACCAACCGAGACTATGTCAGGA
261 ATATCATTAATAGGCTACCAACCGAGACTATGTCAGGA
633516 AAAT
1 AAAT
633520 ATCCATTTGA
Statistics
Matches: 294, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
298 294 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (298 bp):
AAATTTGGTTAAATTGGTTGAAGTTCAGTTTGAGAAAAAGATTAAGGCCCTGCAAAGTAATGGTG
GGGGTGAATATCAAGCTCTAAAGAATTGGTTTTTGACTAATGGGGTTCAACATCAAAATTTATGT
CCTAGTATATCAGAGCAAAATGGGAAGGCTGAGCACAAGCATCGACACGTTGTTGAAATCGAACT
AGCTATGATGGCTCAAGCATCGTTACCAACAAAGTTCTAGAGTCATGCATTTACTATGGCAGTAT
ATATCATTAATAGGCTACCAACCGAGACTATGTCAGGA
Found at i:635660 original size:24 final size:24
Alignment explanation
Indices: 635629--635676 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
635619 GTATTGAAGT
635629 AGTTTTTGA-AGTTGAAGTTTGCAA
1 AGTTTTTGAGA-TTGAAGTTTGCAA
635653 AGTTTTTGAGATTGAAGTTTGCAA
1 AGTTTTTGAGATTGAAGTTTGCAA
635677 GGAGGATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (24 bp):
AGTTTTTGAGATTGAAGTTTGCAA
Found at i:636009 original size:21 final size:22
Alignment explanation
Indices: 635976--636016 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
635966 GGTTAAAATA
635976 AAAAATAAGAATTAAATAAAAG
1 AAAAATAAGAATTAAATAAAAG
*
635998 AAAAA-AATAATTAAATAAA
1 AAAAATAAGAATTAAATAAA
636017 CAAACAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (22 bp):
AAAAATAAGAATTAAATAAAAG
Found at i:636502 original size:12 final size:12
Alignment explanation
Indices: 636487--636516 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
636477 AAAAGTATGC
636487 GAAAAATAGAGA
1 GAAAAATAGAGA
*
636499 GAAAACTAGAGA
1 GAAAAATAGAGA
636511 GAAAAA
1 GAAAAA
636517 GAAGATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.07
Consensus pattern (12 bp):
GAAAAATAGAGA
Found at i:636736 original size:75 final size:76
Alignment explanation
Indices: 636669--636833 Score: 235
Period size: 76 Copynumber: 2.2 Consensus size: 76
636659 AAAAAATAAT
* *
636669 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATAAAAAGATAAAGAT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATAAAAAGATAAAGAT
636733 AAAATATAAAA
66 AAAATATAAAA
* *
636744 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAA-AT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATAAAAAGATAAAGAT
* * *
636808 ATAATGTTTAAA
66 AAAAT-ATAAAA
*
636820 ATATTATCCTAAAA
1 ATAATATCCTAAAA
636834 TTTGAGTTTA
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 32 0.40
76 48 0.60
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATAAAAAGATAAAGAT
AAAATATAAAA
Found at i:638823 original size:50 final size:50
Alignment explanation
Indices: 638769--638869 Score: 159
Period size: 50 Copynumber: 2.0 Consensus size: 50
638759 AATTTATAAT
638769 TCTAGTAGTAACT-CTCCATTATAATTTTAATTATTTACTTATTTTAAAAC
1 TCTAGTAGTAACTCCT-CATTATAATTTTAATTATTTACTTATTTTAAAAC
* * *
638819 TCTAGTTGTAACTCCTCATTATAATTTTAATTATTTCCTTGTTTTAAAAC
1 TCTAGTAGTAACTCCTCATTATAATTTTAATTATTTACTTATTTTAAAAC
638869 T
1 T
638870 ATAATTATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 45 0.96
51 2 0.04
ACGTcount: A:0.31, C:0.15, G:0.05, T:0.50
Consensus pattern (50 bp):
TCTAGTAGTAACTCCTCATTATAATTTTAATTATTTACTTATTTTAAAAC
Found at i:643949 original size:15 final size:16
Alignment explanation
Indices: 643926--643973 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
643916 TATAAGGTAA
*
643926 TTTTGTTATAATT-TT
1 TTTTATTATAATTATT
*
643941 TTTTATTATACTTATT
1 TTTTATTATAATTATT
* *
643957 GTTTATTATGATTATT
1 TTTTATTATAATTATT
643973 T
1 T
643974 GAAAAAATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTTATTATAATTATT
Found at i:646649 original size:9 final size:9
Alignment explanation
Indices: 646614--646670 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
646604 TTTATATCTG
*
646614 TAAAAAAAT
1 TAAATAAAT
*
646623 TAAAT-AAG
1 TAAATAAAT
*
646631 TAAA-ATAT
1 TAAATAAAT
646639 TAAATAAAT
1 TAAATAAAT
*
646648 TAAAT-ACT
1 TAAATAAAT
646656 TAAATAAAT
1 TAAATAAAT
646665 TAAATA
1 TAAATA
646671 CAAAATATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
8 18 0.47
9 20 0.53
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (9 bp):
TAAATAAAT
Found at i:646651 original size:17 final size:17
Alignment explanation
Indices: 646616--646668 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
646606 TATATCTGTA
* *
646616 AAAAAATTAAAT-AAGT
1 AAAATATTAAATAAATT
646632 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
646649 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
646666 AAA
1 AAA
646669 TACAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 16 0.50
17 14 0.44
18 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:646659 original size:25 final size:26
Alignment explanation
Indices: 646614--646670 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
646604 TTTATATCTG
* *
646614 TAAAAAAATTAAATAAGTAAA-ATAT
1 TAAATAAATTAAATAAGTAAATAAAT
**
646639 TAAATAAATTAAATACTTAAATAAAT
1 TAAATAAATTAAATAAGTAAATAAAT
646665 TAAATA
1 TAAATA
646671 CAAAATATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 18 0.67
26 9 0.33
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (26 bp):
TAAATAAATTAAATAAGTAAATAAAT
Found at i:646669 original size:17 final size:17
Alignment explanation
Indices: 646622--646671 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
646612 TGTAAAAAAA
* *
646622 TTAAATAAGTAAAATA-
1 TTAAATAAATTAAATAC
646638 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
646655 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
646672 AAAATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:647100 original size:30 final size:29
Alignment explanation
Indices: 647038--647100 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
647028 TACTGCTAAG
*
647038 GGTGTTAGATCGGGAAATATAGTCTGACC
1 GGTGTTAGATCGGGAAATATAGTCTCACC
*
647067 GGTGTTAGATCGGTAAATATA-TCGGTCACC
1 GGTGTTAGATCGGGAAATATAGTC--TCACC
647097 GGTG
1 GGTG
647101 ATTTTTTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 2 0.07
29 20 0.67
30 8 0.27
ACGTcount: A:0.25, C:0.14, G:0.32, T:0.29
Consensus pattern (29 bp):
GGTGTTAGATCGGGAAATATAGTCTCACC
Found at i:649239 original size:21 final size:21
Alignment explanation
Indices: 649215--649271 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
649205 CCCACCTTCT
*
649215 ATAGTATCGATCATCTCGTGA
1 ATAGTATCGATCATCTCGTCA
* * * * * *
649236 ATAGGAACGATCTTGTCTTCT
1 ATAGTATCGATCATCTCGTCA
649257 ATAGTATCGATCATC
1 ATAGTATCGATCATC
649272 AGGTGAGTAG
Statistics
Matches: 25, Mismatches: 11, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (21 bp):
ATAGTATCGATCATCTCGTCA
Found at i:649241 original size:42 final size:42
Alignment explanation
Indices: 649051--649286 Score: 240
Period size: 42 Copynumber: 5.6 Consensus size: 42
649041 GTCTCCTGTT
* * * * *
649051 GTACCGATCTTCTGGTGAGCATGAACAATCCCACCTTCTGTA
1 GTACCGATCATCTGGTGAGTAGGAACGATCCCACCTTCTATA
* * * *
649093 GTACCGATCTTCTGGTGAGCAGGAACAATCCCTCCTTCTATA
1 GTACCGATCATCTGGTGAGTAGGAACGATCCCACCTTCTATA
* * * * * *
649135 GTACCAATCTTCTGGTGAGTAGGAAAGATCCCTCCTCCTGTA
1 GTACCGATCATCTGGTGAGTAGGAACGATCCCACCTTCTATA
*
649177 GTACC-ATCATCAGGTGAGTAGGAACGATCCCACCTTCTATA
1 GTACCGATCATCTGGTGAGTAGGAACGATCCCACCTTCTATA
* * * ****
649218 GTATCGATCATCTCGTGAATAGGAACGATCTTGTCTTCTATA
1 GTACCGATCATCTGGTGAGTAGGAACGATCCCACCTTCTATA
* *
649260 GTATCGATCATCAGGTGAGTAGGAACG
1 GTACCGATCATCTGGTGAGTAGGAACG
649287 GTCTTGCCTA
Statistics
Matches: 167, Mismatches: 26, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
41 34 0.20
42 133 0.80
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (42 bp):
GTACCGATCATCTGGTGAGTAGGAACGATCCCACCTTCTATA
Found at i:649241 original size:83 final size:83
Alignment explanation
Indices: 649078--649286 Score: 231
Period size: 83 Copynumber: 2.5 Consensus size: 83
649068 AGCATGAACA
* * * * * *
649078 ATCCCACCTTCTGTAGTACCGATCTTCTGGTGAGCAGGAACAATCCCTCCTTCTATAGTACCAAT
1 ATCCCTCCTTCTGTAGTACC-ATCATCAGGTGAGTAGGAACGATCCCACCTTCTATAGTACCAAT
* * *
649143 CTTCTGGTGAGTAGGAAAG
65 CATCTCGTGAATAGGAAAG
* * *
649162 ATCCCTCCTCCTGTAGTACCATCATCAGGTGAGTAGGAACGATCCCACCTTCTATAGTATCGATC
1 ATCCCTCCTTCTGTAGTACCATCATCAGGTGAGTAGGAACGATCCCACCTTCTATAGTACCAATC
*
649227 ATCTCGTGAATAGGAACG
66 ATCTCGTGAATAGGAAAG
* * * *
649245 AT-CTTGTCTTCTATAGTATCGATCATCAGGTGAGTAGGAACG
1 ATCCCT-CCTTCTGTAGTA-CCATCATCAGGTGAGTAGGAACG
649287 GTCTTGCCTA
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
82 2 0.02
83 63 0.60
84 40 0.38
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (83 bp):
ATCCCTCCTTCTGTAGTACCATCATCAGGTGAGTAGGAACGATCCCACCTTCTATAGTACCAATC
ATCTCGTGAATAGGAAAG
Found at i:649242 original size:125 final size:126
Alignment explanation
Indices: 649043--649284 Score: 290
Period size: 125 Copynumber: 1.9 Consensus size: 126
649033 CTTGTACCGT
* * * * * * *
649043 CTCCTGTTGTACCGATCTTCTGGTGAGCATGAACAATCCCACCTTCTGTAGTACCGATCTTCTGG
1 CTCCTGTAGTACCGATCATCAGGTGAGCAGGAACAATCCCACCTTCTATAGTACCGATCATCTCG
* * *
649108 TGAGCAGGAACAATCCCT-CCTTCTATAGTACCAATCTTCTGGTGAGTAGGAAAGATCCCTC
66 TGAACAGGAACAAT-CCTGCCTTCTATAGTACCAATCATCAGGTGAGTAGGAAAGATCCCTC
* * *
649169 CTCCTGTAGTACC-ATCATCAGGTGAGTAGGAACGATCCCACCTTCTATAGTATCGATCATCTCG
1 CTCCTGTAGTACCGATCATCAGGTGAGCAGGAACAATCCCACCTTCTATAGTACCGATCATCTCG
* * * * * *
649233 TGAATAGGAACGATCTTGTCTTCTATAGTATCGATCATCAGGTGAGTAGGAA
66 TGAACAGGAACAATCCTGCCTTCTATAGTACCAATCATCAGGTGAGTAGGAA
649285 CGGTCTTGCC
Statistics
Matches: 96, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
124 2 0.02
125 82 0.85
126 12 0.12
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (126 bp):
CTCCTGTAGTACCGATCATCAGGTGAGCAGGAACAATCCCACCTTCTATAGTACCGATCATCTCG
TGAACAGGAACAATCCTGCCTTCTATAGTACCAATCATCAGGTGAGTAGGAAAGATCCCTC
Found at i:665806 original size:35 final size:35
Alignment explanation
Indices: 665760--665832 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
665750 TCCATTGAAA
665760 TGTAACCATACTTCGGATGATATTTTATATTTGTT
1 TGTAACCATACTTCGGATGATATTTTATATTTGTT
665795 TGTAACCATACTTCGGATGATATTTTATATTTGTT
1 TGTAACCATACTTCGGATGATATTTTATATTTGTT
665830 TGT
1 TGT
665833 TTTTTTTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.25, C:0.11, G:0.15, T:0.49
Consensus pattern (35 bp):
TGTAACCATACTTCGGATGATATTTTATATTTGTT
Found at i:666362 original size:22 final size:23
Alignment explanation
Indices: 666334--666393 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
666324 ATATTTTATA
666334 TATATTAACTTAAAAATAT-ATT
1 TATATTAACTTAAAAATATGATT
* * *
666356 TATATTAATTTATTAAATATGTTT
1 TATATTAACTTA-AAAATATGATT
666380 TATTATTAACTTAA
1 TA-TATTAACTTAA
666394 TTTAAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 11 0.37
23 6 0.20
24 4 0.13
25 9 0.30
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (23 bp):
TATATTAACTTAAAAATATGATT
Found at i:666371 original size:25 final size:25
Alignment explanation
Indices: 666323--666431 Score: 87
Period size: 27 Copynumber: 4.2 Consensus size: 25
666313 TTAAATTCAT
* *
666323 AATATTTTATA-TATATTAACTTAAA
1 AATATTTTATATTA-ATTTATTTAAA
666348 AATATATTTATATTAATTTA-TTAAA
1 AATAT-TTTATATTAATTTATTTAAA
* * *
666373 TATGTTTTATTATTAACTTAATTTAAA
1 AATATTTTA-TATTAA-TTTATTTAAA
* *
666400 AATATTTTATTTCTATTTTCATTTAAA
1 AATATTTTATAT-TAATTT-ATTTAAA
666427 AATAT
1 AATAT
666432 ATATTTTATG
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
24 4 0.06
25 19 0.28
26 17 0.25
27 28 0.41
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (25 bp):
AATATTTTATATTAATTTATTTAAA
Found at i:666648 original size:29 final size:29
Alignment explanation
Indices: 666565--666661 Score: 105
Period size: 24 Copynumber: 3.4 Consensus size: 29
666555 TAAATTAGGA
* *
666565 TGATTACATCTTAATTAAATAAAAATGAAAG
1 TGATTATATCTTAATT-AA-AAAAATAAAAG
* *
666596 TAATCATATCTTAATT----AAA-AAAAG
1 TGATTATATCTTAATTAAAAAAATAAAAG
666620 TGATTATATCTTAATTAAAAAAATAAAAG
1 TGATTATATCTTAATTAAAAAAATAAAAG
666649 TGATTATATCTTA
1 TGATTATATCTTA
666662 TGTTTTTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
24 18 0.33
25 3 0.05
28 3 0.05
29 18 0.33
31 13 0.24
ACGTcount: A:0.51, C:0.06, G:0.07, T:0.36
Consensus pattern (29 bp):
TGATTATATCTTAATTAAAAAAATAAAAG
Found at i:667459 original size:25 final size:26
Alignment explanation
Indices: 667366--667513 Score: 81
Period size: 25 Copynumber: 5.5 Consensus size: 26
667356 ATTATATATA
* *
667366 TATTAATTTTAAGAAATATTTTTATAT
1 TATT-ATTTTAAAAAATATTTTTTTAT
* * *
667393 TA--ATTTATTAAATATATTTTATTAT
1 TATTATTT-TAAAAAATATTTTTTTAT
*
667418 TAACTTAATTTAAAAAAATATTTTTTTAT
1 T-A-TT-ATTTTAAAAAATATTTTTTTAT
*
667447 T-TTATTTTAAAAAATATATTTTATTCT
1 TATTATTTTAAAAAATAT-TTTT-TTAT
* *
667474 TATCTAAACTTTT-AAATATA-TATTTTAT
1 TAT-T--A-TTTTAAAAAATATTTTTTTAT
667502 TATTATTTTAAA
1 TATTATTTTAAA
667514 TTTCCAAAGT
Statistics
Matches: 93, Mismatches: 14, Indels: 30
0.68 0.10 0.22
Matches are distributed among these distances:
24 8 0.09
25 30 0.32
26 7 0.08
27 7 0.08
28 7 0.08
29 19 0.20
30 4 0.04
31 7 0.08
32 4 0.04
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.56
Consensus pattern (26 bp):
TATTATTTTAAAAAATATTTTTTTAT
Found at i:667467 original size:27 final size:27
Alignment explanation
Indices: 667384--667468 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
667374 TTAAGAAATA
* **
667384 TTTTTATATTAATTTATTAAATATATT
1 TTTTTATTTTAATTTAAAAAATATATT
*
667411 TTATTATTAACTTAATTTAAAAAA-ATATT
1 TTTTTATT---TTAATTTAAAAAATATATT
*
667440 TTTTTATTTTATTTTAAAAAATATATT
1 TTTTTATTTTAATTTAAAAAATATATT
667467 TT
1 TT
667469 ATTCTTATCT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
26 12 0.25
27 13 0.27
29 12 0.25
30 11 0.23
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTTTATTTTAATTTAAAAAATATATT
Found at i:667481 original size:24 final size:25
Alignment explanation
Indices: 667430--667481 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
667420 ACTTAATTTA
* *
667430 AAAAAATATTTTTTTATTTTATTTT
1 AAAAAATATTATTTTATTTTATTCT
667455 AAAAAATA-TATTTTATTCTTA-TCT
1 AAAAAATATTATTTTATT-TTATTCT
667479 AAA
1 AAA
667482 CTTTTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (25 bp):
AAAAAATATTATTTTATTTTATTCT
Found at i:667498 original size:31 final size:31
Alignment explanation
Indices: 667450--667543 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 31
667440 TTTTTATTTT
*
667450 ATTTTAAAAAATATATTTTATTCTTA-TCTAA
1 ATTTT-AAATATATATTTTATTCTTAGTCTAA
* * *
667481 ACTTTTAAATATATATTTTATTATTATTTTAA
1 A-TTTTAAATATATATTTTATTCTTAGTCTAA
*
667513 ATTTCCAAAGTATATATTTTA-TCTTAGTCTA
1 ATTT-TAAA-TATATATTTTATTCTTAGTCTA
667544 CTAAATATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
31 22 0.42
32 19 0.37
33 11 0.21
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (31 bp):
ATTTTAAATATATATTTTATTCTTAGTCTAA
Found at i:667508 original size:56 final size:55
Alignment explanation
Indices: 667370--667513 Score: 150
Period size: 56 Copynumber: 2.6 Consensus size: 55
667360 TATATATATT
* ** *
667370 AATTTTAAGAAATAT-TTTTA-TATTAATTTATTAAATATATTTTATTATTAACTT
1 AATTTTAA-AAATATATTTTATTATTATTTTAAAAAATATATTTTATTATTAACTA
* * * *
667424 AA-TTTAAAAAAATATTTTTTTATTTTATTTTAAAAAATATATTTTATTCTTATCTA
1 AATTTTAAAAATATATTTTATTA--TTATTTTAAAAAATATATTTTATTATTAACTA
*
667480 AACTTTTAAATATATATTTTATTATTATTTTAAA
1 AA-TTTTAAAAATATATTTTATTATTATTTTAAA
667514 TTTCCAAAGT
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
52 5 0.07
53 9 0.12
54 4 0.05
56 38 0.52
58 17 0.23
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.56
Consensus pattern (55 bp):
AATTTTAAAAATATATTTTATTATTATTTTAAAAAATATATTTTATTATTAACTA
Found at i:667654 original size:23 final size:24
Alignment explanation
Indices: 667608--667658 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
667598 TTAAAACATT
* *
667608 TTAACATAAAATATATATTTTAAA
1 TTAAAATAAAATATAAATTTTAAA
667632 TTAAAATAAAATA-AAATTTTAAA
1 TTAAAATAAAATATAAATTTTAAA
667655 TTAA
1 TTAA
667659 GTTAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TTAAAATAAAATATAAATTTTAAA
Found at i:682789 original size:70 final size:71
Alignment explanation
Indices: 682671--682806 Score: 177
Period size: 70 Copynumber: 1.9 Consensus size: 71
682661 CTGTGTGTAT
* * * *
682671 AGCTCTTTTCAAGTTTGATATTTATCCCCATTTTAATGGTTAAAATTTGCTTGTAGATGTATTAA
1 AGCTCTTTTCAAGGTTGATATTTATCCCCACTTTAATAGTCAAAATTTGCTTGTAGATGTATTAA
682736 AGGCTC
66 AGGCTC
* ** *
682742 AGCTC-TTTCAAGGTTGATATTTATCCTCACTTTAGA-AGTCATTATTTGTTTGTAGATGTATTA
1 AGCTCTTTTCAAGGTTGATATTTATCCCCACTTTA-ATAGTCAAAATTTGCTTGTAGATGTATTA
682805 AA
65 AA
682807 TGTGAACCAG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
70 50 0.89
71 6 0.11
ACGTcount: A:0.27, C:0.13, G:0.15, T:0.44
Consensus pattern (71 bp):
AGCTCTTTTCAAGGTTGATATTTATCCCCACTTTAATAGTCAAAATTTGCTTGTAGATGTATTAA
AGGCTC
Found at i:683269 original size:34 final size:34
Alignment explanation
Indices: 683231--683300 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
683221 TACTACTTGA
683231 AGCTTAATTGTTTGGATTATTTTCTATAACATGC
1 AGCTTAATTGTTTGGATTATTTTCTATAACATGC
*
683265 AGCTTAATTTTTTGGATTATTTTCTATAACATGC
1 AGCTTAATTGTTTGGATTATTTTCTATAACATGC
683299 AG
1 AG
683301 TATGCATGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.47
Consensus pattern (34 bp):
AGCTTAATTGTTTGGATTATTTTCTATAACATGC
Found at i:685089 original size:31 final size:28
Alignment explanation
Indices: 685041--685123 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 28
685031 TACCCCTATA
685041 TTTGTTTCTTTGTTTTTGTTGTGATGGGCT
1 TTTGTTTCTTTG-TTTTGTTGTGA-GGGCT
* *
685071 TTTGTTTCCTTTGCTTTTGCTGTGAGGGTT
1 TTTGTTT-CTTTG-TTTTGTTGTGAGGGCT
*
685101 TTTGTTTTCTTTGGTTTGTTGTG
1 TTTG-TTTCTTTGTTTTGTTGTG
685124 GTCGGTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.17
30 20 0.43
31 18 0.39
ACGTcount: A:0.02, C:0.08, G:0.27, T:0.63
Consensus pattern (28 bp):
TTTGTTTCTTTGTTTTGTTGTGAGGGCT
Found at i:685131 original size:30 final size:30
Alignment explanation
Indices: 685041--685148 Score: 82
Period size: 30 Copynumber: 3.6 Consensus size: 30
685031 TACCCCTATA
** * *
685041 TTTG-TTTCTTTGTTTTTGTTGTGATGGGCT
1 TTTGTTTTCTTTGCGTTTGTTGTGGT-GGTT
* * *
685071 TTTGTTTCCTTTGCTTTTGCTGTGAG-GGTT
1 TTTGTTTTCTTTGCGTTTGTTGTG-GTGGTT
685101 TTTGTTTTCTTTG-GTTTGTTGTGGTCGGTT
1 TTTGTTTTCTTTGCGTTTGTTGTGGT-GGTT
685131 TTT-TCTTTCTTTG-GTTTG
1 TTTGT-TTTCTTTGCGTTTG
685149 CTTTCATGGG
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
28 1 0.02
29 9 0.14
30 39 0.60
31 16 0.25
ACGTcount: A:0.02, C:0.09, G:0.26, T:0.63
Consensus pattern (30 bp):
TTTGTTTTCTTTGCGTTTGTTGTGGTGGTT
Found at i:690610 original size:12 final size:12
Alignment explanation
Indices: 690593--690617 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
690583 TATCTAAAGT
690593 TAATATATACAA
1 TAATATATACAA
690605 TAATATATACAA
1 TAATATATACAA
690617 T
1 T
690618 TCTGTCCCGG
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATATATACAA
Found at i:707263 original size:21 final size:21
Alignment explanation
Indices: 707239--707328 Score: 74
Period size: 23 Copynumber: 4.1 Consensus size: 21
707229 AGAATAATTA
707239 TTATGTCTTTATGATATATTT
1 TTATGTCTTTATGATATATTT
*
707260 TTATGTCTTTATGGTATATCTAT
1 TTATGTCTTTATGATATAT-T-T
* * * *
707283 ATATG-CTTGTGTGACACATTT
1 TTATGTCTT-TATGATATATTT
*
707304 TTATGTGTTTTTATGATATATTT
1 TTA--TGTCTTTATGATATATTT
707327 TT
1 TT
707329 TTTGTGTGGC
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
21 21 0.40
22 5 0.10
23 24 0.46
24 2 0.04
ACGTcount: A:0.22, C:0.07, G:0.13, T:0.58
Consensus pattern (21 bp):
TTATGTCTTTATGATATATTT
Found at i:709500 original size:19 final size:19
Alignment explanation
Indices: 709476--709513 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
709466 CTATATTTAT
709476 TAATATTTCTAATAATATA
1 TAATATTTCTAATAATATA
* *
709495 TAATATTTTTAATATTATA
1 TAATATTTCTAATAATATA
709514 AAAAATAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATATTTCTAATAATATA
Found at i:709612 original size:23 final size:23
Alignment explanation
Indices: 709555--709616 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
709545 TATTATTTTG
*
709555 ATAATATTATAAATT-A-TTAAAA
1 ATAATATTAT-TATTAATTTAAAA
*
709577 A-ATTATTATTTATTAATTTAAAA
1 ATAATATTA-TTATTAATTTAAAA
709600 ATAATATTATTATTAAT
1 ATAATATTATTATTAAT
709617 AATGATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 9 0.27
22 3 0.09
23 15 0.45
24 6 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATAATATTATTATTAATTTAAAA
Found at i:709831 original size:28 final size:29
Alignment explanation
Indices: 709790--709844 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
709780 TTTATTAATA
*
709790 AAATTATATAAATA-TTTTAATAATAAAT
1 AAATTATATAAATATTTTTAAAAATAAAT
* *
709818 AAATTATTTGAATATTTTTAAAAATAA
1 AAATTATATAAATATTTTTAAAAATAA
709845 TAATAATAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (29 bp):
AAATTATATAAATATTTTTAAAAATAAAT
Found at i:709846 original size:28 final size:27
Alignment explanation
Indices: 709785--709847 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
709775 ATATTTTTAT
*
709785 TAATAAAATTATATAAATATTTTAATAA
1 TAAT-AAATTATATAAATATTTTAAAAA
* *
709813 TAAATAAATTATTTGAATATTTTTAAAAA
1 T-AATAAATTATATAAATA-TTTTAAAAA
709842 TAATAA
1 TAATAA
709848 TAATAAGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (27 bp):
TAATAAATTATATAAATATTTTAAAAA
Found at i:713464 original size:55 final size:55
Alignment explanation
Indices: 713391--713844 Score: 522
Period size: 55 Copynumber: 8.3 Consensus size: 55
713381 GAAAAATGGA
* ** * *
713391 ACTCAAAC-ATCTTCAACAATCGTATCTGCTCTCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* **
713445 ACTCGAATC-ATCTTCAACAAACTTGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAA-CAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * * **
713500 AATCGAACCATCTTCAATAAACTTGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
713555 ACTCGAACCATCTTCAATAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
1 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * *
713610 AC-C-TACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGTGTATAAG
1 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * * *
713663 ACTCGAACAATTTTCAACAATCGCGCCTGCTCCCTATATCTTCAGAGAGTAAAAG
1 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * * * * *
713718 ACTCGAACAATTTTTAACAATCGCGCCTGCTCCATATATCTTCAGAGAGTAAAAG
1 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
* * * * *
713773 ACTAGAACAATCTTCAACAGTCGCGCCTGCTCCCTATATCTTCAGAGAGTA-AAGG
1 ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAA-G
713828 ACTCGAACAATCTTCAA
1 ACTCGAACAATCTTCAA
713845 ACGGGTTCGC
Statistics
Matches: 362, Mismatches: 33, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
53 46 0.13
54 11 0.03
55 305 0.84
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (55 bp):
ACTCGAACAATCTTCAACAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAG
Found at i:713788 original size:218 final size:218
Alignment explanation
Indices: 713399--713823 Score: 519
Period size: 218 Copynumber: 1.9 Consensus size: 218
713389 GAACTCAAAC
* * *
713399 ATCTTCAACAATCGTATCTGCTCTCTATTTCTTCAGAGAGTATAAGACTCGAATCATCTTCAACA
1 ATCTTCAACAATCGCATCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAATCATCTTCAACA
** * * * * * ** *
713464 AACTTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGAATCGAACCATCTTCAATAAACTTGTCTG
66 AACGCGCCTGCCCCCTATATCTTCAGAGAGTAAAAGAATCGAACAATCTTCAACAAACGCGCCTG
* * * * * * * * *
713529 CCCCCTATTTCTTCAGAGAGTATAAGACTCGAACCATCTTCAATAATCGTGTCTGCCCCCTATTT
131 CCCCATATATCTTCAGAGAGTAAAAGACTAGAACAATCTTCAACAATCGCGCCTGCCCCCTATAT
713594 CTTCAGAGAGTATAAGACCTACA
196 CTTCAGAGAGTATAAGACCTACA
* * * *
713617 ATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGTGTATAAGACTCGAA-CAATTTTCAAC
1 ATCTTCAACAATCGCATCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAATC-ATCTTCAAC
* * * * * *
713681 AATCGCGCCTGCTCCCTATATCTTCAGAGAGTAAAAGACTCGAACAATTTTTAACAATCGCGCCT
65 AAACGCGCCTGCCCCCTATATCTTCAGAGAGTAAAAGAATCGAACAATCTTCAACAAACGCGCCT
* * *
713746 GCTCCATATATCTTCAGAGAGTAAAAGACTAGAACAATCTTCAACAGTCGCGCCTGCTCCCTATA
130 GCCCCATATATCTTCAGAGAGTAAAAGACTAGAACAATCTTCAACAATCGCGCCTGCCCCCTATA
713811 TCTTCAGAGAGTA
195 TCTTCAGAGAGTA
713824 AAGGACTCGA
Statistics
Matches: 171, Mismatches: 35, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
217 1 0.01
218 170 0.99
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (218 bp):
ATCTTCAACAATCGCATCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAATCATCTTCAACA
AACGCGCCTGCCCCCTATATCTTCAGAGAGTAAAAGAATCGAACAATCTTCAACAAACGCGCCTG
CCCCATATATCTTCAGAGAGTAAAAGACTAGAACAATCTTCAACAATCGCGCCTGCCCCCTATAT
CTTCAGAGAGTATAAGACCTACA
Found at i:713915 original size:54 final size:54
Alignment explanation
Indices: 713838--714145 Score: 251
Period size: 54 Copynumber: 5.8 Consensus size: 54
713828 ACTCGAACAA
* * *
713838 TCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACATCT
1 TCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATGGAACTCGAACATCT
* * * * * *
713892 TCTTTAAACGGGTTCGCTTCCTCTTTCTTCAGGAAGTATAGAACTC-CA-AT-A
1 TCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATGGAACTCGAACATCT
* * * * * * *
713943 ACTTCACATGGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTC-CA-AT-A
1 TCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATGGAACTCGAACATCT
* * *
713994 ACTTCACACGGGTTCGCTCCCTCTTTC-TCTAGGGAGTATGGAACTCGAAAATCT
1 TCTTCAAACGGGTTCGCTCCCTCTTTCTTC-AGGGAGTATGGAACTCGAACATCT
** * *
714048 T-TTGCCTACGGGTTCGCTCCCTCTTTCTTTAGGGAGTA-AGAACTCGAACGATCT
1 TCTT-CAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATGGAACTCGAAC-ATCT
* ** * *
714102 TATGT-TTACGGGTTCACTCCCTCTTTCTTTAGGGAGTA-GGAACT
1 TCT-TCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATGGAACT
714146 AGGGTGTAGG
Statistics
Matches: 222, Mismatches: 23, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
50 2 0.01
51 86 0.39
52 3 0.01
53 14 0.06
54 114 0.51
55 2 0.01
56 1 0.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (54 bp):
TCTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGGAGTATGGAACTCGAACATCT
Found at i:713977 original size:51 final size:51
Alignment explanation
Indices: 713839--714092 Score: 282
Period size: 51 Copynumber: 4.9 Consensus size: 51
713829 CTCGAACAAT
* * **
713839 CTTCAAACGGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACATCTT
1 CTTCACACGGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTC-CA-AT-AA
* * *
713893 CTTTAAACGGGTTCGCTTCCTCTTTCTTCAGGAAGTATAGAACTCCAATAA
1 CTTCACACGGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCCAATAA
*
713944 CTTCACATGGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCCAATAA
1 CTTCACACGGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCCAATAA
* * *
713995 CTTCACACGGGTTCGCTCCCTCTTTC-TCTAGGGAGTATGGAACTCGAA-AA
1 CTTCACACGGGTTCGCTCCCTCTTTCTTC-AGGAAGTATAGAACTCCAATAA
* *
714045 TCTTTTGC-CTACGGGTTCGCTCCCTCTTTCTTTAGGGAGTA-AGAACTC
1 -C--TT-CAC-ACGGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTC
714093 GAACGATCTT
Statistics
Matches: 178, Mismatches: 15, Indels: 15
0.86 0.07 0.07
Matches are distributed among these distances:
50 4 0.02
51 89 0.50
52 2 0.01
53 10 0.06
54 72 0.40
55 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (51 bp):
CTTCACACGGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCCAATAA
Found at i:714190 original size:68 final size:68
Alignment explanation
Indices: 714077--714213 Score: 204
Period size: 68 Copynumber: 2.0 Consensus size: 68
714067 CCTCTTTCTT
* *
714077 TAGGGAGTAAGAACTCGAACGATCTTATGTTTACGGGTTCACTCCCTCTTTCTTTAGGGAGTAGG
1 TAGGGAGTAAGAACTCGAACAATCTTATGTTTACAGGTTCACTCCCTCTTTCTTTAGGGAGTAGG
714142 AAC
66 AAC
* * * *
714145 TAGGGTGTAGGAACTCGAACAATCTTCTGCTTT-CAGGTTCGCTCCCTCTTTCTTTAGGGAGTAG
1 TAGGGAGTAAGAACTCGAACAATCTTATG-TTTACAGGTTCACTCCCTCTTTCTTTAGGGAGTAG
714209 GAAC
65 GAAC
714213 T
1 T
714214 CGAACAATCT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
68 59 0.95
69 3 0.05
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (68 bp):
TAGGGAGTAAGAACTCGAACAATCTTATGTTTACAGGTTCACTCCCTCTTTCTTTAGGGAGTAGG
AAC
Found at i:714210 original size:54 final size:54
Alignment explanation
Indices: 714145--715069 Score: 928
Period size: 54 Copynumber: 17.5 Consensus size: 54
714135 GAGTAGGAAC
* * *
714145 TAGGGTGTA-GGAACTCGAACAATCTTCTGCTTTCAGGTTCGCTCCCTCTTTCTT
1 TAGGGAGTATGGAACTCGAACAATCTTCT-CTTACGGGTTCGCTCCCTCTTTCTT
*
714199 TAGGGAGTA-GGAACTCGAACAATCTTCTCCTTTCGGGTTCGCTCCCTCTTTCTT
1 TAGGGAGTATGGAACTCGAACAATCTTCT-CTTACGGGTTCGCTCCCTCTTTCTT
* *
714253 TAGGGAGTA-GGAACTCGAACGATCTTCTGCTTACGGGTTCGCTCCATCTTTCTT
1 TAGGGAGTATGGAACTCGAACAATCTTCT-CTTACGGGTTCGCTCCCTCTTTCTT
* * *
714307 TAGGGAGTA-GGAACTCGAACGATCTTATGCTTTCGGGTTCGCTCCCTCTTTCTT
1 TAGGGAGTATGGAACTCGAACAATCTTCT-CTTACGGGTTCGCTCCCTCTTTCTT
*
714361 TAGGGAGTA-GGAACTCGAACAATCTTCTCCTTTCGGGTTCGCTCCCTCTTTCTT
1 TAGGGAGTATGGAACTCGAACAATCTTCT-CTTACGGGTTCGCTCCCTCTTTCTT
*
714415 TAGGGAGTA-GGAACTCGAACAATCTTCTCCTTTCGGGTTCGCTCCCTCTTTCTT
1 TAGGGAGTATGGAACTCGAACAATCTTCT-CTTACGGGTTCGCTCCCTCTTTCTT
* * * * * *
714469 TAGGAAGTATAGAACTCCAATAA-CTTCAC--ACGGGTTCGCTCCCTCTTTCTC
1 TAGGGAGTATGGAACTCGAACAATCTTCTCTTACGGGTTCGCTCCCTCTTTCTT
*
714520 TAGGGAGTATGGAACTCGAAC-ATCTTCT-TTAAACGGGTTCTCTCCCTCTTTCTT
1 TAGGGAGTATGGAACTCGAACAATCTTCTCTT--ACGGGTTCGCTCCCTCTTTCTT
* * * **
714574 CAGGAAGTATAGAACTC-AGAC-ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTT
1 TAGGGAGTATGGAACTCGA-ACAATCTTC-TCTTACGGGTTCGCTCCCTCTTTCTT
* * * * * * *
714628 CAGGAAGTATAGAACTCCAATAA-CTTCAC--ACGGGTTCGCTCCCTCTTTCTC
1 TAGGGAGTATGGAACTCGAACAATCTTCTCTTACGGGTTCGCTCCCTCTTTCTT
**
714679 TAGGGAGTATGGAACTCGAAC-ATCTTCTTCAAACGGGTTCGCTCCCTCTTTCTT
1 TAGGGAGTATGGAACTCGAACAATCTTC-TCTTACGGGTTCGCTCCCTCTTTCTT
* * * * ** *
714733 CAGGAAGTATAGAACTCGGAC-ATCTTCTTCAAACGGGTTCGCTTCCTCTTTCTT
1 TAGGGAGTATGGAACTCGAACAATCTTC-TCTTACGGGTTCGCTCCCTCTTTCTT
* * * * * *
714787 CAGGAAGTATAGAACTCCAATAA-CTTCTC--ACGGGTTCGCTCCCTCTTTCTC
1 TAGGGAGTATGGAACTCGAACAATCTTCTCTTACGGGTTCGCTCCCTCTTTCTT
* **
714838 TAGGGAGTATGGAACTCGGAC-ATC-T-TCAAACGGGTTCGCTCCCTCTTTCTT
1 TAGGGAGTATGGAACTCGAACAATCTTCTCTTACGGGTTCGCTCCCTCTTTCTT
* * * * * * * *
714889 CAGGAAGTATAGAACTCCAATAA-CTTCAC--ACGGGTTCTCTCCCTCTTTCTC
1 TAGGGAGTATGGAACTCGAACAATCTTCTCTTACGGGTTCGCTCCCTCTTTCTT
* * * *
714940 TAGGGAGTATGGAACTCCAATAA-CTTCAC--ACGGGTTCACTCCCTCTTTCTT
1 TAGGGAGTATGGAACTCGAACAATCTTCTCTTACGGGTTCGCTCCCTCTTTCTT
* ** *
714991 TAGGGAGTATGGAACTCGGAC-ATC-T-TCAAACGGGTTCGCTCCCTCTTTCTC
1 TAGGGAGTATGGAACTCGAACAATCTTCTCTTACGGGTTCGCTCCCTCTTTCTT
715042 TAGGGAGTATGGAACTCGAAC-ATCTTCT
1 TAGGGAGTATGGAACTCGAACAATCTTCT
715070 TCCGCTTCAC
Statistics
Matches: 763, Mismatches: 81, Indels: 55
0.85 0.09 0.06
Matches are distributed among these distances:
49 3 0.00
50 6 0.01
51 283 0.37
52 4 0.01
53 7 0.01
54 446 0.58
55 14 0.02
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.33
Consensus pattern (54 bp):
TAGGGAGTATGGAACTCGAACAATCTTCTCTTACGGGTTCGCTCCCTCTTTCTT
Found at i:714599 original size:159 final size:159
Alignment explanation
Indices: 713839--715069 Score: 1310
Period size: 159 Copynumber: 7.7 Consensus size: 159
713829 CTCGAACAAT
* * * *
713839 CTTCAAACGGGTTCGCTCCCTCTTTCT-TCAGGAAGTATAGAACTCGGACATCTTCTTTAAACGG
1 CTTCACACGGGTTCGCTCCCTCTTTCTCT-AGGGAGTATGGAACTCGAACATCTTCTTTAAACGG
* * * * *
713903 GTTCGCTTCCTCTTTCTTCAGGAAGTATAGAACTCCAATAACTTC-AC--ATGGGTTCGCTCCCT
65 GTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGAACATCTTCTACTAACGGGTTCGCTCCCT
*
713965 CTTTCTTCAGGAAGTATAGAACTCCAATAA
130 CTTTCTTTAGGAAGTATAGAACTCCAATAA
* ***
713995 CTTCACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAAATCTT-TTGCCTACGG
1 CTTCACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTT-TAAACGG
* * * ** * *
714059 GTTCGCTCCCTCTTTCTTTAGGGAGTA-AGAACTCGAACGATCTTATGTTTACGGGTTCACTCCC
65 GTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGAAC-ATCTTCTACTAACGGGTTCGCTCCC
* *
714123 TCTTTCTTTAGGGAGTAGGAACTAGGGTGTAGGAACTCGAACAA
129 TCTTTCTTTA-GGA--A-G---TA-----TA-GAACTCCAATAA
* * * *
714167 TCTTCTGCTTTCAGGTTCGCTCCCTCTTTCTTTAGGGAGTA-GGAACTCGAACAATCTTCTCCTT
1 -CTTC-AC--ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAC-ATCTTCT--TT
* * * * * *
714231 --TCGGGTTCGCTCCCTCTTTCTTTAGGGAGTA-GGAACTCGAACGATCTTCTGCTTACGGGTTC
59 AAACGGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGAAC-ATCTTCTACTAACGGGTTC
* * * * * *
714293 GCTCCATCTTTCTTTAGGGAGTA-GGAACTCGAACGAT
123 GCTCCCTCTTTCTTTAGGAAGTATAGAACTCCAA-TAA
* *
714330 CTT-ATGCTTTCGGGTTCGCTCCCTCTTTCTTTAGGGAGTA-GGAACTCGAACAATCTTCTCCTT
1 CTTCA--C--ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAAC-ATCTTCT--TT
* * * * * **
714393 --TCGGGTTCGCTCCCTCTTTCTTTAGGGAGTA-GGAACTCGAACAATCTTCTCCTTTCGGGTTC
59 AAACGGGTTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGAAC-ATCTTCTACTAACGGGTTC
714455 GCTCCCTCTTTCTTTAGGAAGTATAGAACTCCAATAA
123 GCTCCCTCTTTCTTTAGGAAGTATAGAACTCCAATAA
714492 CTTCACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTTAAACGGG
1 CTTCACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTTAAACGGG
* * *
714557 TTCTCTCCCTCTTTCTTCAGGAAGTATAGAACTC-AGACATCTTCTTCAAACGGGTTCGCTCCCT
66 TTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGA-ACATCTTCTACTAACGGGTTCGCTCCCT
*
714621 CTTTCTTCAGGAAGTATAGAACTCCAATAA
130 CTTTCTTTAGGAAGTATAGAACTCCAATAA
*
714651 CTTCACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTCAAACGGG
1 CTTCACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTTAAACGGG
* * * *
714716 TTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGGACATCTTCTTCAAACGGGTTCGCTTCCTC
66 TTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGAACATCTTCTACTAACGGGTTCGCTCCCTC
*
714781 TTTCTTCAGGAAGTATAGAACTCCAATAA
131 TTTCTTTAGGAAGTATAGAACTCCAATAA
* *
714810 CTTCTCACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGGACATCTTC---AAACGGG
1 CTTCACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTTAAACGGG
* * * *
714872 TTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCCAATAACTTC-AC--ACGGGTTCTCTCCCTC
66 TTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGAACATCTTCTACTAACGGGTTCGCTCCCTC
* * *
714934 TTTCTCTAGGGAGTATGGAACTCCAATAA
131 TTTCTTTAGGAAGTATAGAACTCCAATAA
* * *
714963 CTTCACACGGGTTCACTCCCTCTTTCTTTAGGGAGTATGGAACTCGGACATCTTC---AAACGGG
1 CTTCACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTTAAACGGG
* *
715025 TTCGCTCCCTCTTTC-TCTAGGGAGTATGGAACTCGAACATCTTCT
66 TTCGCTCCCTCTTTCTTC-AGGAAGTATAGAACTCGAACATCTTCT
715070 TCCGCTTCAC
Statistics
Matches: 949, Mismatches: 86, Indels: 82
0.85 0.08 0.07
Matches are distributed among these distances:
152 2 0.00
153 134 0.14
155 12 0.01
156 126 0.13
157 3 0.00
159 343 0.36
160 22 0.02
161 1 0.00
162 153 0.16
163 11 0.01
166 2 0.00
169 2 0.00
171 2 0.00
172 11 0.01
173 5 0.01
174 1 0.00
175 12 0.01
176 105 0.11
177 1 0.00
179 1 0.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (159 bp):
CTTCACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCGAACATCTTCTTTAAACGGG
TTCGCTCCCTCTTTCTTCAGGAAGTATAGAACTCGAACATCTTCTACTAACGGGTTCGCTCCCTC
TTTCTTTAGGAAGTATAGAACTCCAATAA
Found at i:716385 original size:10 final size:10
Alignment explanation
Indices: 716372--716404 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
716362 TTCTTTCTTT
716372 TTTTTTGTTC
1 TTTTTTGTTC
716382 TTTTTTGTTC
1 TTTTTTGTTC
716392 --TTTTGTTC
1 TTTTTTGTTC
716400 TTTTT
1 TTTTT
716405 CATTTTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (10 bp):
TTTTTTGTTC
Found at i:716397 original size:18 final size:16
Alignment explanation
Indices: 716362--716404 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 16
716352 AACCCTCCTT
716362 TTCTTTCTTTTTTTTTG
1 TTCTTT-TTTTTTTTTG
716379 TTCTTTTTTGTTCTTTTG
1 TTCTTTTTT-TT-TTTTG
716397 TTCTTTTT
1 TTCTTTTT
716405 CATTTTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.12
17 8 0.33
18 13 0.54
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.81
Consensus pattern (16 bp):
TTCTTTTTTTTTTTTG
Found at i:724717 original size:21 final size:22
Alignment explanation
Indices: 724693--724775 Score: 89
Period size: 21 Copynumber: 3.8 Consensus size: 22
724683 TTGGTGCAGA
*
724693 GGGAATCGATTCCCCCCTTGA-
1 GGGAACCGATTCCCCCCTTGAG
*
724714 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCTTG-AG
**
724737 GGGAACCGATTCCCCCC-ACAG
1 GGGAACCGATTCCCCCCTTGAG
* *
724758 GGGAATCGATACCCCCCT
1 GGGAACCGATTCCCCCCT
724776 GGGTTCTGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
21 35 0.67
22 1 0.02
23 16 0.31
ACGTcount: A:0.22, C:0.36, G:0.24, T:0.18
Consensus pattern (22 bp):
GGGAACCGATTCCCCCCTTGAG
Found at i:724744 original size:23 final size:21
Alignment explanation
Indices: 724691--724753 Score: 90
Period size: 21 Copynumber: 2.9 Consensus size: 21
724681 TTTTGGTGCA
*
724691 GAGGGAATCGATTCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
724712 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
724733 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
724754 ACAGGGGAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 20 0.54
22 1 0.03
23 16 0.43
ACGTcount: A:0.21, C:0.35, G:0.25, T:0.19
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:734583 original size:3 final size:3
Alignment explanation
Indices: 734577--734615 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
734567 ATATTATTAT
734577 TAA TAA TAA -AA TAA TAA T-A TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
734616 TCCCGGACAA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 4 0.12
3 30 0.88
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:734593 original size:11 final size:11
Alignment explanation
Indices: 734577--734615 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
734567 ATATTATTAT
734577 TAATAATAAAA
1 TAATAATAAAA
*
734588 TAATAATATAA
1 TAATAATAAAA
734599 TAATAATAATAA
1 TAATAATAA-AA
734611 TAATA
1 TAATA
734616 TCCCGGACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:736221 original size:21 final size:21
Alignment explanation
Indices: 736196--736283 Score: 71
Period size: 21 Copynumber: 4.5 Consensus size: 21
736186 AAAATAAATT
*
736196 ATTGGAATTTGAATTATTGGA
1 ATTGGAATTTGAATTACTGGA
**
736217 ATTGGAAAATGAATTAC----
1 ATTGGAATTTGAATTACTGGA
736234 --TGGAATTTGAATTACTGGA
1 ATTGGAATTTGAATTACTGGA
* **
736253 ACTGGAAAATGAATTACTGGA
1 ATTGGAATTTGAATTACTGGA
*
736274 ATTTGAATTT
1 ATTGGAATTT
736284 TAGAAAATGA
Statistics
Matches: 50, Mismatches: 11, Indels: 12
0.68 0.15 0.16
Matches are distributed among these distances:
15 13 0.26
21 37 0.74
ACGTcount: A:0.38, C:0.05, G:0.22, T:0.36
Consensus pattern (21 bp):
ATTGGAATTTGAATTACTGGA
Found at i:736226 original size:36 final size:36
Alignment explanation
Indices: 736186--736282 Score: 158
Period size: 36 Copynumber: 2.7 Consensus size: 36
736176 GGTTTTCCGA
* * * *
736186 AAAATAAATTATTGGAATTTGAATTATTGGAATTGG
1 AAAATGAATTACTGGAATTTGAATTACTGGAACTGG
736222 AAAATGAATTACTGGAATTTGAATTACTGGAACTGG
1 AAAATGAATTACTGGAATTTGAATTACTGGAACTGG
736258 AAAATGAATTACTGGAATTTGAATT
1 AAAATGAATTACTGGAATTTGAATT
736283 TTAGAAAATG
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (36 bp):
AAAATGAATTACTGGAATTTGAATTACTGGAACTGG
Found at i:736273 original size:15 final size:15
Alignment explanation
Indices: 736219--736253 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
736209 TTATTGGAAT
736219 TGGAAAATGAATTAC
1 TGGAAAATGAATTAC
**
736234 TGGAATTTGAATTAC
1 TGGAAAATGAATTAC
736249 TGGAA
1 TGGAA
736254 CTGGAAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (15 bp):
TGGAAAATGAATTAC
Found at i:736565 original size:29 final size:28
Alignment explanation
Indices: 736522--736578 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
736512 ATTCAATATT
*
736522 ATTTTTATAATTTTATTAATAAAAAAATA
1 ATTTTTATAATTTTAGTAA-AAAAAAATA
*
736551 ATTTTTAT-ATATTTAGTAAAATAAAATA
1 ATTTTTATAAT-TTTAGTAAAAAAAAATA
736579 TTATAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
29 15 0.60
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (28 bp):
ATTTTTATAATTTTAGTAAAAAAAAATA
Found at i:736664 original size:23 final size:23
Alignment explanation
Indices: 736624--736681 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
736614 GTTATATTAT
* **
736624 TTTTAAAAATATTAATTAGTATA
1 TTTTAAATATATTAATTAAAATA
* *
736647 TTTTAAATATCTTTATTAAAATA
1 TTTTAAATATATTAATTAAAATA
*
736670 TTATAAATATAT
1 TTTTAAATATAT
736682 AAATAATATT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTTAAATATATTAATTAAAATA
Found at i:736825 original size:31 final size:28
Alignment explanation
Indices: 736695--736830 Score: 111
Period size: 28 Copynumber: 4.8 Consensus size: 28
736685 TAATATTCAT
* * *
736695 TATTAAATATATAAAATTTTTATTATATA
1 TATTAAAAATATAATATTATT-TTATATA
* * *
736724 TTATT-AAAATAAAATAATATCTTATAT-
1 -TATTAAAAATATAATATTATTTTATATA
*
736751 TATT-ATAATATAATTGATTATTTTATATA
1 TATTAAAAATATAA-T-ATTATTTTATATA
736780 TATTAAAAATATAATATTATTATTATA-A
1 TATTAAAAATATAATATTATT-TTATATA
*
736808 TATTAATAAATA-AATAATATTTT
1 TATTAA-AAATATAATATTATTTT
736831 GATGAAAATG
Statistics
Matches: 88, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
26 11 0.12
27 3 0.03
28 37 0.42
29 25 0.28
30 12 0.14
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
TATTAAAAATATAATATTATTTTATATA
Found at i:740592 original size:31 final size:31
Alignment explanation
Indices: 740511--740593 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 31
740501 TTTTGAAAAA
* * *
740511 AAAAATGAAAGTTTATGTACTAAAATAGACC
1 AAAAATGATAGTTTATGTACTAAAACAAACC
740542 AAAAAT--TAGTTTA-GATACTAAAACAAACC
1 AAAAATGATAGTTTATG-TACTAAAACAAACC
*
740571 AAAATTGATAGTTTATGTACTAA
1 AAAAATGATAGTTTATGTACTAA
740594 CGACGAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
28 1 0.02
29 23 0.52
31 19 0.43
32 1 0.02
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.29
Consensus pattern (31 bp):
AAAAATGATAGTTTATGTACTAAAACAAACC
Found at i:741062 original size:15 final size:15
Alignment explanation
Indices: 741042--741071 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
741032 AATATTTTTG
741042 TTTTAATATTATAAT
1 TTTTAATATTATAAT
*
741057 TTTTAATATTTTAAT
1 TTTTAATATTATAAT
741072 AATATTCTTA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTAATATTATAAT
Found at i:741170 original size:24 final size:24
Alignment explanation
Indices: 741143--741195 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
741133 ATTATTAATG
741143 TAATTTATAATAATTTTA-TTTTAA
1 TAATTT-TAATAATTTTATTTTTAA
* *
741167 TAATCTTAATATTTTTATTTTTAA
1 TAATTTTAATAATTTTATTTTTAA
741191 TAATT
1 TAATT
741196 AATCTTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TAATTTTAATAATTTTATTTTTAA
Found at i:741182 original size:23 final size:24
Alignment explanation
Indices: 741150--741194 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
741140 ATGTAATTTA
741150 TAATAATTTTA-TTTTAATAATCT
1 TAATAATTTTATTTTTAATAATCT
*
741173 TAATATTTTTATTTTTAATAAT
1 TAATAATTTTATTTTTAATAAT
741195 TAATCTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TAATAATTTTATTTTTAATAATCT
Found at i:741439 original size:19 final size:20
Alignment explanation
Indices: 741415--741453 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
741405 AATATTAAAT
741415 AAATTACTA-TAATATTTTA
1 AAATTACTATTAATATTTTA
* *
741434 AAATTATTATTATTATTTTA
1 AAATTACTATTAATATTTTA
741454 TTAATAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATTACTATTAATATTTTA
Found at i:746089 original size:27 final size:27
Alignment explanation
Indices: 746051--746105 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
746041 TACAAAAAGC
746051 TTTGTATGGACTTTGCCAAGCCCCGCG
1 TTTGTATGGACTTTGCCAAGCCCCGCG
746078 TTTGTATGGACTTTGCCAAGCCCCGCG
1 TTTGTATGGACTTTGCCAAGCCCCGCG
746105 T
1 T
746106 AACTGGTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.29, G:0.25, T:0.31
Consensus pattern (27 bp):
TTTGTATGGACTTTGCCAAGCCCCGCG
Found at i:747239 original size:28 final size:28
Alignment explanation
Indices: 747196--747255 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
747186 AGCTCTTGCT
*
747196 TTGAAGAGTTGGAGCAGCAGGAAGGATG
1 TTGAAGAGTTGAAGCAGCAGGAAGGATG
* *
747224 TTGAAGAGTTGAAGCATCAGGGAGGATG
1 TTGAAGAGTTGAAGCAGCAGGAAGGATG
747252 TTGA
1 TTGA
747256 GTATATTCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.40, T:0.22
Consensus pattern (28 bp):
TTGAAGAGTTGAAGCAGCAGGAAGGATG
Found at i:752870 original size:20 final size:21
Alignment explanation
Indices: 752833--752873 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
752823 GAACGTTTAC
*
752833 AAAATAATCTTAAAAATAAAT
1 AAAATAATCATAAAAATAAAT
*
752854 AAAA-AATCATAATAATAAAT
1 AAAATAATCATAAAAATAAAT
752874 TTATCTCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAATAATCATAAAAATAAAT
Found at i:755254 original size:23 final size:21
Alignment explanation
Indices: 755224--755266 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
755214 CAGTTAACTA
755224 AATTTATATAAAAATAAAATGAT
1 AATTTATA-AAAAA-AAAATGAT
755247 AATTTATAAAAAAAAAATGA
1 AATTTATAAAAAAAAAATGA
755267 GACACGAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
AATTTATAAAAAAAAAATGAT
Found at i:763350 original size:47 final size:47
Alignment explanation
Indices: 763296--763436 Score: 246
Period size: 47 Copynumber: 3.0 Consensus size: 47
763286 ATAATTTTAT
763296 ATGGTCTAACCTTAATAATTTCTTACATTTGTTAAAAGAGGACATGA
1 ATGGTCTAACCTTAATAATTTCTTACATTTGTTAAAAGAGGACATGA
763343 ATGGTCTAACCTTAATAATTTCTTACATTTGTTAAAAGAGGACATGA
1 ATGGTCTAACCTTAATAATTTCTTACATTTGTTAAAAGAGGACATGA
* * * *
763390 ATGGTCTAACCTAAATAATTTCTTACGTTTGTCAAAAGAGGAAATGA
1 ATGGTCTAACCTTAATAATTTCTTACATTTGTTAAAAGAGGACATGA
763437 TAAGAGAATC
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 90 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (47 bp):
ATGGTCTAACCTTAATAATTTCTTACATTTGTTAAAAGAGGACATGA
Found at i:766335 original size:26 final size:26
Alignment explanation
Indices: 766306--766358 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
766296 TCTGTATACG
*
766306 ACATGTGACCTCCTGGATTCGGGTCT
1 ACATGTGACCTCCTGGATTCAGGTCT
*
766332 ACATGTGATCTCCTGGATTCAGGTCT
1 ACATGTGACCTCCTGGATTCAGGTCT
766358 A
1 A
766359 GTGTCTAGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.32
Consensus pattern (26 bp):
ACATGTGACCTCCTGGATTCAGGTCT
Found at i:768427 original size:30 final size:29
Alignment explanation
Indices: 768393--768476 Score: 100
Period size: 27 Copynumber: 2.9 Consensus size: 29
768383 ATTATAGGAA
768393 TAAGGAATTAAAAAAATTCGAAGAAAAGAT
1 TAAGGAATTAAAAAAATTCGAA-AAAAGAT
* *
768423 TAAGGAATT-AAAAAATTCG-AATAAGGT
1 TAAGGAATTAAAAAAATTCGAAAAAAGAT
* *
768450 TATGGAATTAAAAAAAATCGAACAAAA
1 TAAGGAATTAAAAAAATTCGAA-AAAA
768477 AGATGAAATG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
27 13 0.28
28 10 0.22
29 11 0.24
30 12 0.26
ACGTcount: A:0.58, C:0.05, G:0.15, T:0.21
Consensus pattern (29 bp):
TAAGGAATTAAAAAAATTCGAAAAAAGAT
Found at i:776694 original size:30 final size:31
Alignment explanation
Indices: 776660--776722 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
776650 AAAGGTCATA
776660 AAGAACCT-CG-ACAACTGTCCATAGGTCCCG
1 AAGAACCTACGTA-AACTGTCCATAGGTCCCG
* *
776690 AAGAACCTAGGTAAACTGTCCATATGTCCCG
1 AAGAACCTACGTAAACTGTCCATAGGTCCCG
776721 AA
1 AA
776723 AAACACAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 8 0.28
31 20 0.69
32 1 0.03
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (31 bp):
AAGAACCTACGTAAACTGTCCATAGGTCCCG
Found at i:776746 original size:32 final size:31
Alignment explanation
Indices: 776672--776766 Score: 111
Period size: 31 Copynumber: 3.0 Consensus size: 31
776662 GAACCTCGAC
* *
776672 AACTGTCCATAGGTCCCGAAGAAC-CTAGGTA
1 AACTGTCCATATGTCCCGAAAAACAC-AGGTA
776703 AACTGTCCATATGTCCCGAAAAACACAGGTA
1 AACTGTCCATATGTCCCGAAAAACACAGGTA
* * * *
776734 ATCCTGTCCATATGTCTCGAAAGACATAGGTA
1 A-ACTGTCCATATGTCCCGAAAAACACAGGTA
776766 A
1 A
776767 CCCTCGACTC
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
31 28 0.50
32 28 0.50
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAAAACACAGGTA
Found at i:777070 original size:2 final size:2
Alignment explanation
Indices: 777063--777168 Score: 205
Period size: 2 Copynumber: 53.5 Consensus size: 2
777053 AATTATGTAA
777063 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
777105 -C AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
777146 AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC A
777169 TATATATATA
Statistics
Matches: 103, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 102 0.99
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:781400 original size:31 final size:31
Alignment explanation
Indices: 781357--781447 Score: 92
Period size: 31 Copynumber: 2.9 Consensus size: 31
781347 AAGAACCTCG
*
781357 AAAACTGTCCATAGGTCCCAAAAAACCTAGGT
1 AAAA-TGTCCATAGGTCCCGAAAAACCTAGGT
* ** **
781389 AAAATGTCCATATGTCCCGAAGGATATAGGT
1 AAAATGTCCATAGGTCCCGAAAAACCTAGGT
**
781420 AATCCTGTCCATAGGTCCCGAAAAACCT
1 AA-AATGTCCATAGGTCCCGAAAAACCT
781448 TAGCCTTGCT
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
31 23 0.51
32 22 0.49
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (31 bp):
AAAATGTCCATAGGTCCCGAAAAACCTAGGT
Found at i:783509 original size:14 final size:14
Alignment explanation
Indices: 783490--783538 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
783480 AAATTCAGGG
783490 GTGTATCGATACCT
1 GTGTATCGATACCT
*
783504 GTGTATCGATACAT
1 GTGTATCGATACCT
783518 AAGTATGTATCGATACCT
1 --G--TGTATCGATACCT
783536 GTG
1 GTG
783539 AATTTTGAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 15 0.52
16 2 0.07
18 12 0.41
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (14 bp):
GTGTATCGATACCT
Found at i:785187 original size:23 final size:23
Alignment explanation
Indices: 785157--785224 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
785147 GATCTTATAT
*
785157 GGCACTTCGGTGCATTTTTACGC
1 GGCACTTCGGTGCATTTATACGC
* * **
785180 GGCACTTCGGTGCAATTCTACAT
1 GGCACTTCGGTGCATTTATACGC
785203 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTATACG
785225 AGCTGTGATG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTATACGC
Found at i:788048 original size:749 final size:749
Alignment explanation
Indices: 786605--788872 Score: 4351
Period size: 749 Copynumber: 3.0 Consensus size: 749
786595 TATATTTCAT
* *
786605 TTGTGGATGCATTTACTCGCCACACTTGGATCTATCTTTTGAAACATAAGGATGAAGTGTTGTTA
1 TTGTTGATGCATTTACTCACCACACTTGGATCTATCTTTTGAAACATAAGGATGAAGTGTTGTTA
* *
786670 ACATTTCAACTATTTCAGAAACTTGTAGCTAATCAATTTGGACGTACTATCAAGGCATTACAAAT
66 ACATTTCAACTAATTCTGAAACTTGTAGCTAATCAATTTGGACGTACTATCAAGGCATTACAAAT
786735 AGACTGGGGTGGTGAGTTTCGAAGCATATCACCAGTATTGGATCGAGATGGGATTATGCAGAGAC
131 AGACTGGGGTGGTGAGTTTCGAAGCATATCACCAGTATTGGATCGAGATGGGATTATGCAGAGAC
786800 TGACATGTCCTCATACTTCTGAGCAGTATGGTGTTGTAGAGCGAAACCATCGTCATATTATTGAA
196 TGACATGTCCTCATACTTCTGAGCAGTATGGTGTTGTAGAGCGAAACCATCGTCATATTATTGAA
*
786865 CTAGCACTGGTTATGTTAGCTCAGACATCTCTACCAATTAAATATTGGCCATATGCAGTTATCTC
261 CTAGCACTGGTTATGTTAGCTCAGGCATCTCTACCAATTAAATATTGGCCATATGCAGTTATCTC
786930 TGCAGTTTATTTAATCAGTTGTCTGCCTACTAAGGTTCTACAAGGCTTGTCACCATTTGAGAAAC
326 TGCAGTTTATTTAATCAGTTGTCTGCCTACTAAGGTTCTACAAGGCTTGTCACCATTTGAGAAAC
786995 TCTTTGGAAAAAACCTGAGTATTCCATGATAAAGGTTTTCGTGTGTCAATGCTTTTCTCACTTAA
391 TCTTTGGAAAAAACCTGAGTATTCCATGATAAAGGTTTTCGTGTGTCAATGCTTTTCTCACTTAA
787060 GGATGTTTTAAAAGTATAAGTTGTCCTTTAGATCTCAAGTATGCACTTACCTGGGTGTTAGTCCT
456 GGATGTTTTAAAAGTATAAGTTGTCCTTTAGATCTCAAGTATGCACTTACCTGGGTGTTAGTCCT
*
787125 CAGCACAAAGGTTTTCAATGTTTAGCACTTGATGGAAGAGTATATGTTTCTTGACATGTTGTATT
521 CAGCACAAAGGTTTTCAATGTTTGGCACTTGATGGAAGAGTATATGTTTCTTGACATGTTGTATT
787190 TAATGAATCTGTTTTTCAGTTTGCAGGAAAATAGACTTATGATTCGTTGGATTCTGCTGTGAACA
586 TAATGAATCTGTTTTTCAGTTTGCAGGAAAATAGACTTATGATTCGTTGGATTCTGCTGTGAACA
787255 CTAGTTCGACTGTTCAGTCCTTACGAGTTGTTACTGATGTCAGGAATTCTTGTTTTTAGTCTCTG
651 CTAGTTCGACTGTTCAGTCCTTACGAGTTGTTACTGATGTCAGGAATTCTTGTTTTTAGTCTCTG
787320 CATGATGCCCCAAATACAACTACTATGCATAAGG
716 CATGATGCCCCAAATACAACTACTATGCATAAGG
787354 TTGTTGATGCATTTACTCACCACACTTGGATCTATCTTTTGAAACATAAGGATGAAGTGTTGTTA
1 TTGTTGATGCATTTACTCACCACACTTGGATCTATCTTTTGAAACATAAGGATGAAGTGTTGTTA
*
787419 ACATTTCAACTAATTCTGAAACTTGTAGCTAATCAATTTGGACGTACAATCAAGGCATTACAAAT
66 ACATTTCAACTAATTCTGAAACTTGTAGCTAATCAATTTGGACGTACTATCAAGGCATTACAAAT
787484 AGACTGGGGTGGTGAGTTTCGAAGCATATCACCAGTATTGGATCGAGATGGGATTATGCAGAGAC
131 AGACTGGGGTGGTGAGTTTCGAAGCATATCACCAGTATTGGATCGAGATGGGATTATGCAGAGAC
787549 TGACATGTCCTCATACTTCTGAGCAGTATGGTGTTGTAGAGCGAAACCATCGTCATATTATTGAA
196 TGACATGTCCTCATACTTCTGAGCAGTATGGTGTTGTAGAGCGAAACCATCGTCATATTATTGAA
787614 CTAGCACTGGTTATGTTAGCTCAGGCATCTCTACCAATTAAATATTGGCCATATGCAGTTATCTC
261 CTAGCACTGGTTATGTTAGCTCAGGCATCTCTACCAATTAAATATTGGCCATATGCAGTTATCTC
787679 TGCAGTTTATTTAATCAGTTGTCTGCCTACTAAGGTTCTACAAGGCTTGTCACCATTTGAGAAAC
326 TGCAGTTTATTTAATCAGTTGTCTGCCTACTAAGGTTCTACAAGGCTTGTCACCATTTGAGAAAC
*
787744 TCTTTGGAAAAAACCTGAGTATTCCATGATAAAGGTTTTCGTGTGTCAATGCTTTTCTTACTTAA
391 TCTTTGGAAAAAACCTGAGTATTCCATGATAAAGGTTTTCGTGTGTCAATGCTTTTCTCACTTAA
787809 GGATGTTTTAAAAGTATAAGTTGTCCTTTAGATCTCAAGTATGCACTTACCTGGGTGTTAGTCCT
456 GGATGTTTTAAAAGTATAAGTTGTCCTTTAGATCTCAAGTATGCACTTACCTGGGTGTTAGTCCT
*
787874 CAGCACAAAGGTTTTCAATGTTTGGCACTTGATGGAAGAGTATATGTTTATTGACATGTTGTATT
521 CAGCACAAAGGTTTTCAATGTTTGGCACTTGATGGAAGAGTATATGTTTCTTGACATGTTGTATT
787939 TAATGAATCTGTTTTTCAGTTTGCAGGAAAATAGACTTATGATTCGTTGGATTCTGCTGTGAACA
586 TAATGAATCTGTTTTTCAGTTTGCAGGAAAATAGACTTATGATTCGTTGGATTCTGCTGTGAACA
*
788004 CTAGTTCGACTGTTCAGTCCTTACGAGTTGTTACTGATGTCAGGAATTCTTATTTTTAGTCTCTG
651 CTAGTTCGACTGTTCAGTCCTTACGAGTTGTTACTGATGTCAGGAATTCTTGTTTTTAGTCTCTG
788069 CATGATGCCCCAAATACAACTACTATGCATAAGG
716 CATGATGCCCCAAATACAACTACTATGCATAAGG
*
788103 TTGTTGATGCATTTACTCGCCACACTTGGATCTATCTTTTGAAACATAAGGATGAAGTGTTGTTA
1 TTGTTGATGCATTTACTCACCACACTTGGATCTATCTTTTGAAACATAAGGATGAAGTGTTGTTA
788168 ACATTTCAACTAATTCTGAAACTTGTAGCTAATCAATTTGGACGTACTATCAAGGCATTACAAAT
66 ACATTTCAACTAATTCTGAAACTTGTAGCTAATCAATTTGGACGTACTATCAAGGCATTACAAAT
788233 AGACTGGGGTGGTGAGTTTCGAAGCATATCACCAGTATTGGATCGAGATGGGATTATGCAGAGAC
131 AGACTGGGGTGGTGAGTTTCGAAGCATATCACCAGTATTGGATCGAGATGGGATTATGCAGAGAC
*
788298 TGACATGTCCTTATACTTCTGAGCAGTATGGTGTTGTAGAGCGAAACCATCGTCATATTATTGAA
196 TGACATGTCCTCATACTTCTGAGCAGTATGGTGTTGTAGAGCGAAACCATCGTCATATTATTGAA
788363 CTAGCACTGGTTATGTTAGCTCAGGCATCTCTACCAATTAAATATTGGCCATATGCAGTTATCTC
261 CTAGCACTGGTTATGTTAGCTCAGGCATCTCTACCAATTAAATATTGGCCATATGCAGTTATCTC
*
788428 TGCAGTTTATTTAATCAGTTGTCTGCCTACTAAGGTTCTACAAGGCCTGTCACCATTTGAGAAAC
326 TGCAGTTTATTTAATCAGTTGTCTGCCTACTAAGGTTCTACAAGGCTTGTCACCATTTGAGAAAC
788493 TCTTTGGAAAAAACCTGAGTATTCCATGATAAAGGTTTTCGTGTGTCAATGCTTTTCTCACTTAA
391 TCTTTGGAAAAAACCTGAGTATTCCATGATAAAGGTTTTCGTGTGTCAATGCTTTTCTCACTTAA
* *
788558 GGATGTTTTAAAAGCATAAGTTGTCCTTTAGATCTCAAGTATGCACTTACCTGGGTGTTAGTCAT
456 GGATGTTTTAAAAGTATAAGTTGTCCTTTAGATCTCAAGTATGCACTTACCTGGGTGTTAGTCCT
788623 CAGCACAAAGGTTTTCAATGTTTGGCACTTGATGGAAGAGTATATGTTTCTTGACATGTTGTATT
521 CAGCACAAAGGTTTTCAATGTTTGGCACTTGATGGAAGAGTATATGTTTCTTGACATGTTGTATT
* *
788688 TAA-AAATCTGTTTTTTAGTTTGCAGGAAAATAGACTTATGATTCGTTGGATTCTGCTGTGAACA
586 TAATGAATCTGTTTTTCAGTTTGCAGGAAAATAGACTTATGATTCGTTGGATTCTGCTGTGAACA
788752 CTAGTTCGACTGTTCAGTCCTTACGAGTTGTTACTGATGTCAGGAATTCTTGTTTTTAGTCTCTG
651 CTAGTTCGACTGTTCAGTCCTTACGAGTTGTTACTGATGTCAGGAATTCTTGTTTTTAGTCTCTG
788817 CATGATGCCCCAAATACAACTACTATGCATAAGG
716 CATGATGCCCCAAATACAACTACTATGCATAAGG
788851 TTGTTGATG-ATTCTACATCACC
1 TTGTTGATGCATT-TAC-TCACC
788873 TACTGTGAAT
Statistics
Matches: 1495, Mismatches: 22, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
747 3 0.00
748 169 0.11
749 1323 0.88
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (749 bp):
TTGTTGATGCATTTACTCACCACACTTGGATCTATCTTTTGAAACATAAGGATGAAGTGTTGTTA
ACATTTCAACTAATTCTGAAACTTGTAGCTAATCAATTTGGACGTACTATCAAGGCATTACAAAT
AGACTGGGGTGGTGAGTTTCGAAGCATATCACCAGTATTGGATCGAGATGGGATTATGCAGAGAC
TGACATGTCCTCATACTTCTGAGCAGTATGGTGTTGTAGAGCGAAACCATCGTCATATTATTGAA
CTAGCACTGGTTATGTTAGCTCAGGCATCTCTACCAATTAAATATTGGCCATATGCAGTTATCTC
TGCAGTTTATTTAATCAGTTGTCTGCCTACTAAGGTTCTACAAGGCTTGTCACCATTTGAGAAAC
TCTTTGGAAAAAACCTGAGTATTCCATGATAAAGGTTTTCGTGTGTCAATGCTTTTCTCACTTAA
GGATGTTTTAAAAGTATAAGTTGTCCTTTAGATCTCAAGTATGCACTTACCTGGGTGTTAGTCCT
CAGCACAAAGGTTTTCAATGTTTGGCACTTGATGGAAGAGTATATGTTTCTTGACATGTTGTATT
TAATGAATCTGTTTTTCAGTTTGCAGGAAAATAGACTTATGATTCGTTGGATTCTGCTGTGAACA
CTAGTTCGACTGTTCAGTCCTTACGAGTTGTTACTGATGTCAGGAATTCTTGTTTTTAGTCTCTG
CATGATGCCCCAAATACAACTACTATGCATAAGG
Found at i:788876 original size:36 final size:36
Alignment explanation
Indices: 788848--788931 Score: 132
Period size: 36 Copynumber: 2.3 Consensus size: 36
788838 ACTATGCATA
*
788848 AGGTTGTTGATGATTCTACATCACCTACTGTGAATG
1 AGGTGGTTGATGATTCTACATCACCTACTGTGAATG
* * *
788884 ACGTGGTTGATGCTTCTGCATCACCTACTGTGAATG
1 AGGTGGTTGATGATTCTACATCACCTACTGTGAATG
788920 AGGTGGTTGATG
1 AGGTGGTTGATG
788932 GTGACTCCCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (36 bp):
AGGTGGTTGATGATTCTACATCACCTACTGTGAATG
Found at i:795665 original size:3 final size:3
Alignment explanation
Indices: 795659--795689 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
795649 ATTTATTATT
795659 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
795690 TAAAAACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:795681 original size:17 final size:17
Alignment explanation
Indices: 795659--795692 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
795649 ATTTATTATT
795659 TAATAATAATAATATAA
1 TAATAATAATAATATAA
795676 TAATAATAATAATATAA
1 TAATAATAATAATATAA
795693 AAACATAAGC
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TAATAATAATAATATAA
Found at i:795692 original size:14 final size:14
Alignment explanation
Indices: 795659--795686 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
795649 ATTTATTATT
795659 TAATAATAATAATA
1 TAATAATAATAATA
795673 TAATAATAATAATA
1 TAATAATAATAATA
795687 ATATAAAAAC
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATAATAATAATA
Found at i:796132 original size:53 final size:53
Alignment explanation
Indices: 795969--796192 Score: 237
Period size: 53 Copynumber: 4.4 Consensus size: 53
795959 ATAACGTGGC
* * * * *
795969 TCCTTCGTGATGAGGACTTCTGG---TCAAAAGAT-AATTGAAATAACA-A-T
1 TCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGATTTGAGATAACACAGT
* ** ** * * *
796016 TCCTTCGTGATGATGATGTCTAACTATCTAAAGATGA-TTGGGATAACACGGT
1 TCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGATTTGAGATAACACAGT
* *
796068 TCCTTCATGATGAAGACATCTGGCTATCTAAGGATGATTTGAGATAACACAGT
1 TCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGATTTGAGATAACACAGT
* **
796121 TCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGATATGAGATAACATTGT
1 TCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGATTTGAGATAACACAGT
796174 TCCTTCGTGATGAGGACAT
1 TCCTTCGTGATGAGGACAT
796193 ATGGTCATCT
Statistics
Matches: 147, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
47 18 0.12
50 17 0.12
51 1 0.01
52 31 0.21
53 80 0.54
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.31
Consensus pattern (53 bp):
TCCTTCGTGATGAGGACATCTGGCTATCTAAGGATGATTTGAGATAACACAGT
Found at i:797633 original size:19 final size:19
Alignment explanation
Indices: 797609--797666 Score: 107
Period size: 19 Copynumber: 3.1 Consensus size: 19
797599 AAGTCCAAAC
797609 ATTCTAAGTTGTAAGGCTT
1 ATTCTAAGTTGTAAGGCTT
*
797628 ATTCTAAGTTGTAAGACTT
1 ATTCTAAGTTGTAAGGCTT
797647 ATTCTAAGTTGTAAGGCTT
1 ATTCTAAGTTGTAAGGCTT
797666 A
1 A
797667 CTTGCAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.41
Consensus pattern (19 bp):
ATTCTAAGTTGTAAGGCTT
Found at i:801425 original size:16 final size:17
Alignment explanation
Indices: 801396--801428 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
801386 ATAAATACAA
801396 ATATAAAGATGCAAAAT
1 ATATAAAGATGCAAAAT
801413 ATATAAA-ATGCAAAAT
1 ATATAAAGATGCAAAAT
801429 TGCAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.24
Consensus pattern (17 bp):
ATATAAAGATGCAAAAT
Found at i:805526 original size:9 final size:9
Alignment explanation
Indices: 805512--805540 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
805502 AAATATTTTT
805512 ATTTTTAAA
1 ATTTTTAAA
805521 ATTTTTAAA
1 ATTTTTAAA
805530 ATTTTTAAA
1 ATTTTTAAA
805539 AT
1 AT
805541 AAATTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:805811 original size:30 final size:27
Alignment explanation
Indices: 805777--805830 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
805767 TTATTTTTAA
805777 ATAT-TTTAAAAATTAAATTTTATTAAAT
1 ATATATTTAAAAATT--ATTTTATTAAAT
*
805805 ATATATTTCAAAATTATTTTATTAAA
1 ATATATTTAAAAATTATTTTATTAAA
805831 ATTTTCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 11 0.46
28 4 0.17
29 9 0.38
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
ATATATTTAAAAATTATTTTATTAAAT
Found at i:805858 original size:24 final size:23
Alignment explanation
Indices: 805766--805859 Score: 66
Period size: 24 Copynumber: 3.8 Consensus size: 23
805756 ATTGTCCATG
* *
805766 ATTATTTT-TAAATATTTTAAAA
1 ATTATTTTATTAATATTTTCAAA
805788 ATTAAATTTTATTAAATATATATTTCAAA
1 ATT--ATTTTATT--A-ATAT-TTTCAAA
*
805817 ATTATTTTATTAAAATTTTCTAAA
1 ATTATTTTATTAATATTTTC-AAA
*
805841 ATATATTTT-TTCATATTTT
1 AT-TATTTTATTAATATTTT
805860 TATCAATAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
22 3 0.05
23 4 0.07
24 21 0.36
25 8 0.14
27 9 0.16
28 4 0.07
29 9 0.16
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (23 bp):
ATTATTTTATTAATATTTTCAAA
Found at i:806035 original size:2 final size:2
Alignment explanation
Indices: 806028--806083 Score: 57
Period size: 2 Copynumber: 29.5 Consensus size: 2
806018 TATTTTATCA
* *
806028 AT AT AT AT AT -T AT AT -T AA AT AT -T TT AT GAT 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
806068 AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT A
806084 AAGTACTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
1 4 0.09
2 40 0.87
3 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
AT
Found at i:806070 original size:29 final size:29
Alignment explanation
Indices: 805998--806073 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
805988 TTTTGACAAA
* ** *
805998 AATATAAATATTGCATTTAATATTTTATC
1 AATATATATATTATATTAAATATTTTATC
*
806027 AATATATATATTATATTAAATATTTTATG
1 AATATATATATTATATTAAATATTTTATC
806056 ATATATATATATATATAT
1 A-ATATATATAT-TATAT
806074 ATATTATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 25 0.62
30 10 0.25
31 5 0.12
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (29 bp):
AATATATATATTATATTAAATATTTTATC
Found at i:807081 original size:72 final size:72
Alignment explanation
Indices: 807005--807152 Score: 269
Period size: 72 Copynumber: 2.1 Consensus size: 72
806995 GACTTAATTT
* *
807005 GTTATTTGTTAAGTTTGTTAAAATTTTATTTAACTCATGCTCGTTAAAAAAGTTATTACCCGACT
1 GTTATTTATTAAGTTTGTTAAAATTTTATTTAACTCATGCTCGTTAAAAAAGTTATTACCCAACT
807070 CGTATTC
66 CGTATTC
*
807077 GTTATTTATTAAGTTTGTTAAAATTTTATTTGACTCATGCTCGTTAAAAAAGTTATTACCCAACT
1 GTTATTTATTAAGTTTGTTAAAATTTTATTTAACTCATGCTCGTTAAAAAAGTTATTACCCAACT
807142 CGTATTC
66 CGTATTC
807149 GTTA
1 GTTA
807153 AACTCATTAA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.45
Consensus pattern (72 bp):
GTTATTTATTAAGTTTGTTAAAATTTTATTTAACTCATGCTCGTTAAAAAAGTTATTACCCAACT
CGTATTC
Found at i:807540 original size:16 final size:16
Alignment explanation
Indices: 807515--807554 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
807505 TCGAGTATTG
* *
807515 ATCAAGTTTTGATCAA
1 ATCAAATTTTAATCAA
*
807531 ATCAAATTTTAATTAA
1 ATCAAATTTTAATCAA
807547 ATCAAATT
1 ATCAAATT
807555 CGAATAACTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (16 bp):
ATCAAATTTTAATCAA
Found at i:809938 original size:21 final size:21
Alignment explanation
Indices: 809914--809970 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
809904 GAATAGGCTT
809914 CGGTTATAACAACCTCCAAAA
1 CGGTTATAACAACCTCCAAAA
809935 CGGTTATAACAACCTCCAAAA
1 CGGTTATAACAACCTCCAAAA
809956 CGGTTATAACAACCT
1 CGGTTATAACAACCT
809971 TTAACATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.40, C:0.28, G:0.11, T:0.21
Consensus pattern (21 bp):
CGGTTATAACAACCTCCAAAA
Found at i:811408 original size:23 final size:23
Alignment explanation
Indices: 811390--811448 Score: 100
Period size: 23 Copynumber: 2.6 Consensus size: 23
811380 CTCATATAAA
*
811390 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
*
811413 TGCACCGTAGTGCCGCATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
811436 TGCACCGTAGTGC
1 TGCACCGTAGTGC
811449 TATATAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:812490 original size:21 final size:21
Alignment explanation
Indices: 812466--812510 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
812456 TTTTGTTCGT
* *
812466 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
812487 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
812508 TTG
1 TTG
812511 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:814358 original size:24 final size:24
Alignment explanation
Indices: 814321--814374 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
814311 TGAATTTTTG
814321 AGATGAAGACGATATAT-GTGGT-GA
1 AGATGAAGACGATA-ATGGT-GTAGA
* *
814345 AGATGACGATGATAATGGTGTAGA
1 AGATGAAGACGATAATGGTGTAGA
814369 AGATGA
1 AGATGA
814375 TGAATTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.39, C:0.04, G:0.33, T:0.24
Consensus pattern (24 bp):
AGATGAAGACGATAATGGTGTAGA
Found at i:816214 original size:24 final size:24
Alignment explanation
Indices: 816182--816268 Score: 102
Period size: 24 Copynumber: 3.4 Consensus size: 24
816172 AGAAAAGTGT
816182 GGTGCAGAAAATTGAGGAATTTGA
1 GGTGCAGAAAATTGAGGAATTTGA
*
816206 GGTGCAGAAAATTGGTGTGTAGAAATTTGA
1 GGTGCAGAAAA----T-TG-AGGAATTTGA
*
816236 GGTGCAGAAAATTGAGGAATTTGT
1 GGTGCAGAAAATTGAGGAATTTGA
816260 GGTGCAGAA
1 GGTGCAGAA
816269 CGTGTATAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
24 28 0.52
25 2 0.04
26 1 0.02
28 1 0.02
29 2 0.04
30 20 0.37
ACGTcount: A:0.34, C:0.05, G:0.34, T:0.26
Consensus pattern (24 bp):
GGTGCAGAAAATTGAGGAATTTGA
Done.