Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007855.1 Hibiscus syriacus cultivar Beakdansim tig00110216_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: 312932
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:1602 original size:16 final size:17
Alignment explanation
Indices: 1581--1631 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 17
1571 TTTTAATTTT
1581 ATTACT-TAACTTTCAA
1 ATTACTCTAACTTTCAA
1597 ATTACTCATAA-TTT--A
1 ATTACTC-TAACTTTCAA
*
1612 ATCACTCTAACTTTCAA
1 ATTACTCTAACTTTCAA
1629 ATT
1 ATT
1632 TAATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
14 3 0.11
15 10 0.36
16 6 0.21
17 6 0.21
18 3 0.11
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTACTCTAACTTTCAA
Found at i:6443 original size:21 final size:22
Alignment explanation
Indices: 6393--6443 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
6383 CGGAAATTAG
6393 GTAGCAAAATTAACATTTCCAA
1 GTAGCAAAATTAACATTTCCAA
6415 -TAGCAAAATTAACATTT-CAA
1 GTAGCAAAATTAACATTTCCAA
*
6435 GTAGAAAAA
1 GTAGCAAAA
6444 AATAAAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.51, C:0.14, G:0.10, T:0.25
Consensus pattern (22 bp):
GTAGCAAAATTAACATTTCCAA
Found at i:11360 original size:14 final size:13
Alignment explanation
Indices: 11341--11374 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
11331 AAAAAATAAT
11341 ATATTTAATATTTA
1 ATATTTAAT-TTTA
11355 ATATTTAATTTTA
1 ATATTTAATTTTA
*
11368 ATTTTTA
1 ATATTTA
11375 TATGTTGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATATTTAATTTTA
Found at i:11369 original size:6 final size:7
Alignment explanation
Indices: 11341--11374 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
11331 AAAAAATAAT
11341 ATATTTA
1 ATATTTA
11348 ATATTTA
1 ATATTTA
11355 ATATTTA
1 ATATTTA
11362 AT-TTTA
1 ATATTTA
*
11368 ATTTTTA
1 ATATTTA
11375 TATGTTGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
ATATTTA
Found at i:27127 original size:43 final size:43
Alignment explanation
Indices: 27075--27326 Score: 360
Period size: 43 Copynumber: 5.9 Consensus size: 43
27065 TGGTAACAAA
*** * * * ** *
27075 AAACGCCGCAATAGGTAACGATATATAGCGGCGTTTGTCTAAT
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
* * * *
27118 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTTCAAC
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
* *
27161 AAACGCCGCAATAGGTGTTGAGATTTAGCGGAGTTTTTCCCAC
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
27204 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
27247 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
*
27290 AAACGCCGCAATAGGTCTTGAGATTTAGTGGCGTTTT
1 AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTT
27327 CTACTCTTTT
Statistics
Matches: 194, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 194 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (43 bp):
AAACGCCGCAATAGGTCTTGAGATTTAGCGGCGTTTTTCCCAC
Found at i:27439 original size:21 final size:21
Alignment explanation
Indices: 27413--27471 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
27403 ATTTTCCAAT
*
27413 AAACTTGACATCCATAACAAC
1 AAACTTGAAATCCATAACAAC
* * *
27434 AAACTTAAAATCAATAACAAG
1 AAACTTGAAATCCATAACAAC
**
27455 AAAAATGAAATCCATAA
1 AAACTTGAAATCCATAA
27472 TAATAAATCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.58, C:0.19, G:0.05, T:0.19
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAC
Found at i:30944 original size:16 final size:14
Alignment explanation
Indices: 30923--30952 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
30913 TAATAGTTTT
30923 AAAAAAATATGAGAG
1 AAAAAAATA-GAGAG
30938 AAAAAAATAGAGAG
1 AAAAAAATAGAGAG
30952 A
1 A
30953 GAGCGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (14 bp):
AAAAAAATAGAGAG
Found at i:31352 original size:41 final size:41
Alignment explanation
Indices: 31285--31668 Score: 479
Period size: 41 Copynumber: 9.4 Consensus size: 41
31275 TTTAAAAAAC
* *
31285 AAACGCCACTAAAGTACAAGTC--TAGCGGCGTTTTTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
*
31324 AAACGCCACTAATGTACGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
31365 AAACACCACTAATGTACGAGTCTATAGCGGTGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
31406 AAACGCCACTAAAGTACAAGCCTATAGCGGCGTTTGTAAACA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATA-A
* *
31448 CAAACGCCACAAAATTA-GAGTCTATAGCGGCGTTTGTATAA
1 -AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
* * *
31489 AAACGCCACTAAAGTACTACTCTATCGCGGCGTTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCG-TTTGTATAA
* *
31531 AAACACCGCTAAAGT-CGAGTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
** * * * * *
31571 AAACGCTGCTAAAGTACTACTCTATTGTGGCGTTTTATATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCG-TTTGTATAA
*
31613 AAACGCCACTAAAGTACGAGTCTATAACGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
*
31654 AAACGCCGCTAAAGT
1 AAACGCCACTAAAGT
31669 TACCATTTTG
Statistics
Matches: 295, Mismatches: 42, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
39 20 0.07
40 36 0.12
41 149 0.51
42 76 0.26
43 14 0.05
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (41 bp):
AAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAA
Found at i:31552 original size:165 final size:165
Alignment explanation
Indices: 31268--31668 Score: 535
Period size: 165 Copynumber: 2.4 Consensus size: 165
31258 TTTTAAACTT
* *
31268 GCGGCGTTTTAAAAAACAAACGCCACTAAAGTACAAGTC--TAGCGGCGTTTTTATAAAAACGCC
1 GCGGCGTTTT-AAAAACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCC
* * * *
31331 ACTAATGTACGAGTCTATAGCGGCGTTTGTATAAAAACACCACTAATGTACGAGTCTATAGCGGT
65 ACTAAAGTACGACTCTATAGCGGCGTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGGC
31396 GTTTGTATAAAAACGCCACTAAAGTACAAGC-CTATA
130 GTTTGTATAAAAACGCCACTAAAGTACAA-CTCTATA
* * *
31432 GCGGCGTTTGTAAACACAAACGCCACAAAATTA-GAGTCTATAGCGGCGTTTGTATAAAAACGCC
1 GCGGCGTTT-TAAAAACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCC
* * *
31496 ACTAAAGTACTACTCTATCGCGGCGTTTTGTATAAAAACACCGCTAAAGT-CGAGTCTATAGCGG
65 ACTAAAGTACGACTCTATAGCGGCG-TTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGG
** * *
31560 CGTTTGTATAAAAACGCTGCTAAAGTACTACTCTATT
129 CGTTTGTATAAAAACGCCACTAAAGTACAACTCTATA
* * *
31597 GTGGCGTTTTATATAA-AAACGCCACTAAAGTACGAGTCTATAACGGCGTTTGTATAAAAACGCC
1 GCGGCGTTTTA-AAAACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCC
*
31661 GCTAAAGT
65 ACTAAAGT
31669 TACCATTTTG
Statistics
Matches: 207, Mismatches: 23, Indels: 13
0.85 0.09 0.05
Matches are distributed among these distances:
163 4 0.02
164 45 0.22
165 136 0.66
166 22 0.11
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (165 bp):
GCGGCGTTTTAAAAACAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATAAAAACGCCA
CTAAAGTACGACTCTATAGCGGCGTTTGTATAAAAACACCACTAAAGTACGAGTCTATAGCGGCG
TTTGTATAAAAACGCCACTAAAGTACAACTCTATA
Found at i:34734 original size:21 final size:21
Alignment explanation
Indices: 34708--34782 Score: 114
Period size: 21 Copynumber: 3.6 Consensus size: 21
34698 GTTTCCAGAT
*
34708 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
34729 TCGCAATACGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
34750 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
34771 TCGCAATACGAA
1 TCGCAATGCGAA
34783 TATGTAAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:37578 original size:171 final size:170
Alignment explanation
Indices: 37267--37611 Score: 521
Period size: 171 Copynumber: 2.0 Consensus size: 170
37257 AAACTCTTTC
*
37267 TATCAAATTTCATGCGAAAGAATGTGGAGAAATCAAACATTTTATTAGACTAAAAGTAGAATACA
1 TATCAAATTTCATGCGAAAGAACGTGGAGAAATCAAACATTTTATTAGACTAAAAGTAGAATACA
* * *
37332 TGAAGAAAAGATTATTTTTGAGACAATAGAAATATACAAAGGTTTTTTTAACAAATGTATCTACT
66 TAAAGAAAAGATTATTTTTGAGACAATAAAAATATACAAAGGTTTTTTTAACAAAAGTATCTACT
* *
37397 ATGTGAATCCTAATCTAAAACTATGAACATAAGAAAGAAAA
131 A-GAGAATCCTAATCTAAAACAATGAACATAAGAAAGAAAA
* * * * * * * *
37438 TATCAAATTTCATGCTAATGAACGTGGATAAATTAAACATTTTCTTAGACTCAGAGTAGAATGCA
1 TATCAAATTTCATGCGAAAGAACGTGGAGAAATCAAACATTTTATTAGACTAAAAGTAGAATACA
*
37503 TAAAGAAAATATTATTTTTGAGACAATAAAAATATACAAAGGTTTTTTTTAAACAAAAGTATCTA
66 TAAAGAAAAGATTATTTTTGAGACAATAAAAATATACAAAGG-TTTTTTT-AACAAAAGTATCTA
37568 CTA-AGAATCCTAATCTAAAACAATGAACATAAGAAAGAAAA
129 CTAGAGAATCCTAATCTAAAACAATGAACATAAGAAAGAAAA
37609 TAT
1 TAT
37612 TTAGAAGATG
Statistics
Matches: 157, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
171 134 0.85
172 7 0.04
173 16 0.10
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (170 bp):
TATCAAATTTCATGCGAAAGAACGTGGAGAAATCAAACATTTTATTAGACTAAAAGTAGAATACA
TAAAGAAAAGATTATTTTTGAGACAATAAAAATATACAAAGGTTTTTTTAACAAAAGTATCTACT
AGAGAATCCTAATCTAAAACAATGAACATAAGAAAGAAAA
Found at i:40357 original size:17 final size:17
Alignment explanation
Indices: 40331--40365 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
40321 AATTCGTCCC
*
40331 CCTAATATAAAATTTTA
1 CCTAACATAAAATTTTA
40348 CCTAACATAAAATTTTA
1 CCTAACATAAAATTTTA
40365 C
1 C
40366 GACCGCCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (17 bp):
CCTAACATAAAATTTTA
Found at i:43336 original size:5 final size:5
Alignment explanation
Indices: 43326--43350 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
43316 TTACTTGCAC
43326 TTAAT TTAAT TTAAT TTAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT
43351 CTACATCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTAAT
Found at i:47292 original size:5 final size:5
Alignment explanation
Indices: 47282--47309 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
47272 TTCTTAAATA
47282 AGGAT AGGAT AGGAT AGGAT AGGAT AGG
1 AGGAT AGGAT AGGAT AGGAT AGGAT AGG
47310 TTAGTTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.43, T:0.18
Consensus pattern (5 bp):
AGGAT
Found at i:53428 original size:14 final size:14
Alignment explanation
Indices: 53406--53445 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
53396 TAGGTATGTC
53406 ATAAATTTAATTAA
1 ATAAATTTAATTAA
* *
53420 TTTAATTTAATTAA
1 ATAAATTTAATTAA
53434 ATAAATTTAATT
1 ATAAATTTAATT
53446 TTCAAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAAATTTAATTAA
Found at i:54855 original size:149 final size:149
Alignment explanation
Indices: 54666--54969 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
54656 CGAAGTGCCC
* *
54666 CGTAGAATTGCACCGTAGTGTCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
54731 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
54796 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
54815 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
54880 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
54945 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
54964 CGTAGA
1 CGTAGA
54970 CCCTCGACTC
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Found at i:55864 original size:18 final size:18
Alignment explanation
Indices: 55843--55877 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
55833 TCCCATCTAG
55843 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
55861 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
55878 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:56488 original size:21 final size:21
Alignment explanation
Indices: 56458--56502 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
56448 ATTTTGTTGT
* *
56458 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
56479 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
56500 TTG
1 TTG
56503 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:59984 original size:149 final size:149
Alignment explanation
Indices: 59795--60098 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
59785 CGAAGTGCCC
* *
59795 CGTAGAATTGCACCGTAGTGTCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
59860 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
59925 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
*
59944 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
*
60009 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATG
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
60074 CATATGTCCCGAAGAACCG
131 CATATGTCCCGAAGAACCG
60093 CGTAGA
1 CGTAGA
60099 CCCTCGACTC
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCCGAAGAACCG
Found at i:60999 original size:18 final size:18
Alignment explanation
Indices: 60978--61012 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
60968 TCCCATCTAG
60978 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
60996 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
61013 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:61623 original size:21 final size:21
Alignment explanation
Indices: 61593--61637 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
61583 ATTTTGTCGT
* *
61593 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
61614 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
61635 TTG
1 TTG
61638 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:63964 original size:30 final size:31
Alignment explanation
Indices: 63905--63966 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
63895 AATTTAGTGA
*
63905 ATTCAATATGTCCTTCTCACTAGGAACTCCC
1 ATTCAATATGTCCTTCTCAATAGGAACTCCC
63936 ATTCAATATGTCCTTCTCAATA-GAACTCCC
1 ATTCAATATGTCCTTCTCAATAGGAACTCCC
63966 A
1 A
63967 AACTCTTGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (31 bp):
ATTCAATATGTCCTTCTCAATAGGAACTCCC
Found at i:65357 original size:14 final size:14
Alignment explanation
Indices: 65340--65369 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
65330 TACCATTGTT
65340 CTCATATAGATCTC
1 CTCATATAGATCTC
*
65354 CTCATCTAGATCTC
1 CTCATATAGATCTC
65368 CT
1 CT
65370 TTCAAAAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (14 bp):
CTCATATAGATCTC
Found at i:67437 original size:9 final size:9
Alignment explanation
Indices: 67423--67449 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
67413 TGCACTTATA
67423 AATGCAAAC
1 AATGCAAAC
67432 AATGCAAAC
1 AATGCAAAC
67441 AATGCAAAC
1 AATGCAAAC
67450 GTCAAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.11, T:0.11
Consensus pattern (9 bp):
AATGCAAAC
Found at i:77775 original size:116 final size:115
Alignment explanation
Indices: 77571--77798 Score: 384
Period size: 116 Copynumber: 2.0 Consensus size: 115
77561 TAGGTTAATT
* **
77571 GGCATGTCTTATTTGTATTTTCTATTAATGATCTAATTCTGTGCCTTTAAAATTTTAAATCTAAC
1 GGCATGTCTTATTTGTATTTTCTATTAATGATATAATTCTGCACCTTTAAAATTTTAAATCTAAC
77636 TTTCGAAGTTTACGCCCTTGATATAAATTTTTATATCCGTCCTTGAATATA
66 TTTCGAAGTTTACGCCCTTGATATAAATTTTT-TATCCGTCCTTGAATATA
* *
77687 GGCATGTCTTATTTGTATTTTCTATTAATGGTATAATTTTGCACCTTTAAAATTTTAAATCTAAC
1 GGCATGTCTTATTTGTATTTTCTATTAATGATATAATTCTGCACCTTTAAAATTTTAAATCTAAC
* *
77752 TTTTGAAGTTTACGCCTTTGATATAAATTTTTTATCCGTCCTTGAAT
66 TTTCGAAGTTTACGCCCTTGATATAAATTTTTTATCCGTCCTTGAAT
77799 TTAGCTGGAA
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
115 15 0.14
116 90 0.86
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.47
Consensus pattern (115 bp):
GGCATGTCTTATTTGTATTTTCTATTAATGATATAATTCTGCACCTTTAAAATTTTAAATCTAAC
TTTCGAAGTTTACGCCCTTGATATAAATTTTTTATCCGTCCTTGAATATA
Found at i:82768 original size:29 final size:29
Alignment explanation
Indices: 82728--82805 Score: 111
Period size: 31 Copynumber: 2.6 Consensus size: 29
82718 CTTTTTCATT
82728 TAAGTACCTAAAGTATTTTTTGATCAAAA
1 TAAGTACCTAAAGTATTTTTTGATCAAAA
*
82757 TAAGTACCTAAAGTTATCTTTTTGGTCAAAA
1 TAAGTACCTAAAG-TAT-TTTTTGATCAAAA
* *
82788 TATGTAACTAAAGTATTT
1 TAAGTACCTAAAGTATTT
82806 AATCTTTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 15 0.34
30 6 0.14
31 23 0.52
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (29 bp):
TAAGTACCTAAAGTATTTTTTGATCAAAA
Found at i:93539 original size:40 final size:40
Alignment explanation
Indices: 93484--93563 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
93474 ATTATCGACA
93484 AAGGAGGAGGTCTTTAAACTCTATTTTCAAATATCATTGT
1 AAGGAGGAGGTCTTTAAACTCTATTTTCAAATATCATTGT
93524 AAGGAGGAGGTCTTTAAACTCTATTTTCAAATATCATTGT
1 AAGGAGGAGGTCTTTAAACTCTATTTTCAAATATCATTGT
93564 GTTAATTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (40 bp):
AAGGAGGAGGTCTTTAAACTCTATTTTCAAATATCATTGT
Found at i:97145 original size:19 final size:19
Alignment explanation
Indices: 97121--97164 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
97111 AAATCGTAAT
97121 GCGATCGATAATTTGCAAC
1 GCGATCGATAATTTGCAAC
97140 GCGATCGATAATTTGCAAC
1 GCGATCGATAATTTGCAAC
97159 GCGATC
1 GCGATC
97165 TCTGGTATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (19 bp):
GCGATCGATAATTTGCAAC
Found at i:97261 original size:21 final size:21
Alignment explanation
Indices: 97235--97390 Score: 149
Period size: 21 Copynumber: 7.4 Consensus size: 21
97225 TTTCCAAATT
97235 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
*
97256 CGTTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
* *
97277 CGTTGCGATTTATTCCAAATT--
1 CGTTGCGA--TAGTCCAAGTTCG
* *
97298 CGTTGCGATAGTTCAAGTTAG
1 CGTTGCGATAGTCCAAGTTCG
* *
97319 CGTTGCGATAGTCGAAGTTTG
1 CGTTGCGATAGTCCAAGTTCG
* *
97340 CGTTACGATTTATTCCAAGTT--
1 CGTTGCGA--TAGTCCAAGTTCG
* *
97361 CATTGCGATAGTCGAAGTTCG
1 CGTTGCGATAGTCCAAGTTCG
97382 CGTTGCGAT
1 CGTTGCGAT
97391 TTATTTCAAA
Statistics
Matches: 109, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
19 17 0.16
21 75 0.69
23 17 0.16
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCG
Found at i:97301 original size:63 final size:63
Alignment explanation
Indices: 97219--97390 Score: 267
Period size: 63 Copynumber: 2.8 Consensus size: 63
97209 ACTATCGCAA
97219 TGCGA-TT-TTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGT
* * *
97280 TGCGATTTATTCCAAATTCGTTGCGATAGTTCAAGTTAGCGTTGCGATAGTCGAAGTTTGCGT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGT
* * * *
97343 TACGATTTATTCCAAGTTCATTGCGATAGTCGAAGTTCGCGTTGCGAT
1 TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGAT
97391 TTATTTCAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
61 5 0.05
62 2 0.02
63 93 0.93
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.35
Consensus pattern (63 bp):
TGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGT
Found at i:97391 original size:42 final size:42
Alignment explanation
Indices: 97321--97414 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
97311 CAAGTTAGCG
* *
97321 TTGCGATAGTCGAAGTTTGCGTTACGATTTATTCCAAGTTCA
1 TTGCGATAGTCGAAGTTCGCGTTACGATTTATTCCAAATTCA
* * *
97363 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTTCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTACGATTTATTCCAAATTCA
*
97405 TTACGATAGT
1 TTGCGATAGT
97415 TCAAAATCGC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.38
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTACGATTTATTCCAAATTCA
Found at i:103423 original size:145 final size:145
Alignment explanation
Indices: 103159--103446 Score: 470
Period size: 145 Copynumber: 2.0 Consensus size: 145
103149 GTTCTTAACC
* *
103159 TTGAGGTCATGGGATCGAATCTTATGGAAGGCATTTCATAATTTAGAGGTCTCCTACGGAAGCTG
1 TTGAGGTCATGAGATCGAATCCTATGGAAGGCATTTCATAATTTAGAGGTCTCCTACGGAAGCTG
* *
103224 CTCTCAACCTAGTGTTGGGGGCAGCCTATTATCTTACCTCTCCCTTACCTCATTACATATGGGAA
66 CTCTCAACCTAGTGTTGGGGGCAGCCTACTATCTTACCTCCCCCTTACCTCATTACATATGGGAA
* *
103289 TAAGGGATAACCATT
131 CAAGGGACAACCATT
* * * *
103304 TTGAGGTCGTGAGATCGAGTCCTATGGAGGGCATTTCATAATTTGGAGGTCTCCTACGGAAGCTG
1 TTGAGGTCATGAGATCGAATCCTATGGAAGGCATTTCATAATTTAGAGGTCTCCTACGGAAGCTG
103369 CTCTCAACCTAGTGTTGGGGGCAGCCTACTATCTTACCTCCCCCTTA-CTCCATTACATATGGGA
66 CTCTCAACCTAGTGTTGGGGGCAGCCTACTATCTTACCTCCCCCTTACCT-CATTACATATGGGA
103433 ACAAGGGACAACCA
130 ACAAGGGACAACCA
103447 ACCACATAAG
Statistics
Matches: 132, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
144 2 0.02
145 130 0.98
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (145 bp):
TTGAGGTCATGAGATCGAATCCTATGGAAGGCATTTCATAATTTAGAGGTCTCCTACGGAAGCTG
CTCTCAACCTAGTGTTGGGGGCAGCCTACTATCTTACCTCCCCCTTACCTCATTACATATGGGAA
CAAGGGACAACCATT
Found at i:113470 original size:5 final size:5
Alignment explanation
Indices: 113460--113487 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
113450 ACGTCCATAT
113460 GTGGA GTGGA GTGGA GTGGA GTGGA GTG
1 GTGGA GTGGA GTGGA GTGGA GTGGA GTG
113488 TATATAATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.61, T:0.21
Consensus pattern (5 bp):
GTGGA
Found at i:115221 original size:2 final size:2
Alignment explanation
Indices: 115214--115242 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
115204 TATTTTAGGC
115214 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
115243 GACCAATCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:115499 original size:18 final size:19
Alignment explanation
Indices: 115464--115499 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
115454 ATAATTTAAT
*
115464 CTTTAAAAATGTGTGTATG
1 CTTTAAAAATGTGAGTATG
115483 CTTTAAAAATGT-AGTAT
1 CTTTAAAAATGTGAGTAT
115500 TTTATGCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.36, C:0.06, G:0.17, T:0.42
Consensus pattern (19 bp):
CTTTAAAAATGTGAGTATG
Found at i:116059 original size:121 final size:119
Alignment explanation
Indices: 115843--116110 Score: 383
Period size: 121 Copynumber: 2.2 Consensus size: 119
115833 TAGATTTTTA
* *
115843 AACATTTCCATTTCATCCCTAAACTATAACTATCATACTAGATTAGTCCTCAAACTTTTGAATAT
1 AACATTTCAATTTCAT-CCTAAATTATAACTATCATACTAGATTAGTCCTCAAACTTTTGAATAT
* * *
115908 TTTAGTTCTGTCCCCAAACTATGATATTCATTCTAAATCAGTCCTCAAAAACTTTG
65 TTTAGTTATATCCACAAACTATGATATTCATTCTAAATCAGTCCTC-AAAACTTTG
* *
115964 AACATTTCAATTTCATCACTAAATTATAACTATCATTCTAGATTAGTCCTTAAACTTTTGAATAT
1 AACATTTCAATTTCATC-CTAAATTATAACTATCATACTAGATTAGTCCTCAAACTTTTGAATAT
* * * **
116029 TTTAGTTATATCCACAAACTTTGATCTTCATTCTAAATTAGTCCTCAAATTTTTG
65 TTTAGTTATATCCACAAACTATGATATTCATTCTAAATCAGTCCTCAAAACTTTG
* *
116084 AACATTTCGATTTCATCCCAAATTATA
1 AACATTTCAATTTCATCCTAAATTATA
116111 TGTATATACT
Statistics
Matches: 132, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
119 9 0.07
120 24 0.18
121 99 0.75
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.40
Consensus pattern (119 bp):
AACATTTCAATTTCATCCTAAATTATAACTATCATACTAGATTAGTCCTCAAACTTTTGAATATT
TTAGTTATATCCACAAACTATGATATTCATTCTAAATCAGTCCTCAAAACTTTG
Found at i:116063 original size:60 final size:59
Alignment explanation
Indices: 115875--116090 Score: 197
Period size: 60 Copynumber: 3.6 Consensus size: 59
115865 ACTATAACTA
* * * * * * *
115875 TCATACTAGATTAGTCCTCAAACTTTTGAATATTTTAGTTCTGTCCCCAAACTATGATAT
1 TCATTCTAAATTAGTCCTCAAACTTTTGAACATTTTAGTT-TATCCACAAACTTTGATCT
* * * *
115935 TCATTCTAAATCAGTCCTCAAAAAC-TTTGAACATTTCAATTTCAT-CACTAAA-TTAT-AACT
1 TCATTCTAAATTAGTCCTC--AAACTTTTGAACATTTTAGTTT-ATCCAC-AAACTT-TGATCT
* * *
115995 ATCATTCTAGATTAGTCCTTAAACTTTTGAATATTTTAGTTATATCCACAAACTTTGATCT
1 -TCATTCTAAATTAGTCCTCAAACTTTTGAACATTTTAGTT-TATCCACAAACTTTGATCT
*
116056 TCATTCTAAATTAGTCCTCAAATTTTTGAACATTT
1 TCATTCTAAATTAGTCCTCAAACTTTTGAACATTT
116091 CGATTTCATC
Statistics
Matches: 123, Mismatches: 22, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
59 4 0.03
60 72 0.59
61 43 0.35
62 4 0.03
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.41
Consensus pattern (59 bp):
TCATTCTAAATTAGTCCTCAAACTTTTGAACATTTTAGTTTATCCACAAACTTTGATCT
Found at i:116640 original size:2 final size:2
Alignment explanation
Indices: 116633--116663 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
116623 AATGCATGCT
116633 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
116664 TAGTTAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:116780 original size:60 final size:59
Alignment explanation
Indices: 116698--116865 Score: 178
Period size: 60 Copynumber: 2.8 Consensus size: 59
116688 AAACTATAAC
* *
116698 TCTCTTT-TAAATTGGTCTTTAAACTTTTAAATATTCTCATTTCATCCCCAAACTATGAA
1 TCTCTTTCTAAATTGGTCCTTAAACTTTTAAATATT-TCATTTCATCCCCAAACTAAGAA
* * * * *
116757 TCT-TATTCTAAATTAGTCCTTAAACTTTTAAACATTATAATTTCATCCCTAAACTAAGAC
1 TCTCT-TTCTAAATTGGTCCTTAAACTTTTAAATATT-TCATTTCATCCCCAAACTAAGAA
* * ** *
116817 TCTCTTTCTAATTTGGTCCCTGGACTTTTTAATATTTCAATTTCATCCC
1 TCTCTTTCTAAATTGGTCCTTAAACTTTTAAATATTTC-ATTTCATCCC
116866 TAAATTCATC
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
58 1 0.01
59 6 0.07
60 81 0.91
61 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.05, T:0.44
Consensus pattern (59 bp):
TCTCTTTCTAAATTGGTCCTTAAACTTTTAAATATTTCATTTCATCCCCAAACTAAGAA
Found at i:117572 original size:20 final size:22
Alignment explanation
Indices: 117526--117573 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 22
117516 TTATAAAATT
117526 TTAT-AAAAATAAAAAACATAA
1 TTATAAAAAATAAAAAACATAA
*
117547 TT-TAAAAAAT-AAAAAC-TAG
1 TTATAAAAAATAAAAAACATAA
117566 TTATAAAA
1 TTATAAAA
117574 TTCAGAAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 12 0.50
21 8 0.33
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (22 bp):
TTATAAAAAATAAAAAACATAA
Found at i:127118 original size:15 final size:16
Alignment explanation
Indices: 127098--127129 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
127088 TAATAGTAAT
127098 ATTTTAAAA-ATTTTA
1 ATTTTAAAATATTTTA
127113 ATTTTAAAATATTTTA
1 ATTTTAAAATATTTTA
127129 A
1 A
127130 AAGTATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTAAAATATTTTA
Found at i:135747 original size:3 final size:3
Alignment explanation
Indices: 135741--135773 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
135731 TCCCATCATC
135741 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
135774 GAATACAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:145080 original size:90 final size:87
Alignment explanation
Indices: 144929--145105 Score: 318
Period size: 90 Copynumber: 2.0 Consensus size: 87
144919 TTTTGATATT
*
144929 ATAAATGATTTTTATATATTTAATTTTGATTGATTGATTAATAATAAATTAGATGTTTGTAATTA
1 ATAAATGATTTTTAAATATTTAATTTTGATTGATTGATTAATAATAAATTAGATGTTTGTAATTA
144994 TAAAAAAAATTAAGTGTAAATTA
66 T-AAAAAAATTAAGTGTAAATTA
145017 ATAAATGATTTTTTACAATATTTAATTTTGATTGATTGATTAATAATAAATTAGATGTTTGTAAT
1 ATAAATGA-TTTTTA-AATATTTAATTTTGATTGATTGATTAATAATAAATTAGATGTTTGTAAT
145082 TATAAAAAAATTAAGTGTAAATTA
64 TATAAAAAAATTAAGTGTAAATTA
145106 TATGAGTAAA
Statistics
Matches: 86, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
88 8 0.09
89 27 0.31
90 51 0.59
ACGTcount: A:0.44, C:0.01, G:0.10, T:0.45
Consensus pattern (87 bp):
ATAAATGATTTTTAAATATTTAATTTTGATTGATTGATTAATAATAAATTAGATGTTTGTAATTA
TAAAAAAATTAAGTGTAAATTA
Found at i:151535 original size:21 final size:21
Alignment explanation
Indices: 151505--151552 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
151495 GATTTTGACT
151505 ATCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTCCAAA
* * *
151526 TTCGCGTTGCGATTTTCTAAA
1 ATCGCATTGCGATTTTCCAAA
151547 ATCGCA
1 ATCGCA
151553 ACGCGAATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (21 bp):
ATCGCATTGCGATTTTCCAAA
Found at i:151558 original size:21 final size:21
Alignment explanation
Indices: 151463--151579 Score: 71
Period size: 20 Copynumber: 5.8 Consensus size: 21
151453 AATGACCAAC
* *
151463 AAAATCGCAATGCGA-TCTCT
1 AAAATCGCAACGCGATTTTCT
*
151483 -AAATCGCAACGCGATTTT-G
1 AAAATCGCAACGCGATTTTCT
** ** *
151502 ACTATCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCT
* ***
151523 AAATTCGCGTTGCGATTTTCT
1 AAAATCGCAACGCGATTTTCT
* * *
151544 AAAATCGCAACGCGAATATGT
1 AAAATCGCAACGCGATTTTCT
151565 -AAATCGCAACGCGAT
1 AAAATCGCAACGCGAT
151580 CTCCAGTATC
Statistics
Matches: 73, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
19 13 0.18
20 30 0.41
21 30 0.41
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCT
Found at i:151680 original size:42 final size:41
Alignment explanation
Indices: 151608--151737 Score: 163
Period size: 41 Copynumber: 3.1 Consensus size: 41
151598 GTTTCCAGAT
** *
151608 TCGCAACGCGATTCTGACTATCGCAACGCGATAATACATAA
1 TCGCAACGCGATAATAACTATCGCAACGCGATAATACATAA
*
151649 TCGCAACGCGATAAT-ACATAATCGCAACGCGATAATTCATAA
1 TCGCAACGCGATAATAAC-T-ATCGCAACGCGATAATACATAA
** * *
151691 TCGCAACGCGATTCTAACTATCGCAATGCGATAATACAAAA
1 TCGCAACGCGATAATAACTATCGCAACGCGATAATACATAA
151732 TCGCAA
1 TCGCAA
151738 TACGATTTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
40 2 0.03
41 39 0.50
42 35 0.45
43 2 0.03
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (41 bp):
TCGCAACGCGATAATAACTATCGCAACGCGATAATACATAA
Found at i:151743 original size:21 final size:21
Alignment explanation
Indices: 151627--151737 Score: 154
Period size: 21 Copynumber: 5.3 Consensus size: 21
151617 GATTCTGACT
151627 ATCGCAACGCGATAATACATA
1 ATCGCAACGCGATAATACATA
151648 ATCGCAACGCGATAATACATA
1 ATCGCAACGCGATAATACATA
*
151669 ATCGCAACGCGATAATTCATA
1 ATCGCAACGCGATAATACATA
**
151690 ATCGCAACGCGATTCTA-ACT-
1 ATCGCAACGCGATAATACA-TA
* *
151710 ATCGCAATGCGATAATACAAA
1 ATCGCAACGCGATAATACATA
151731 ATCGCAA
1 ATCGCAA
151738 TACGATTTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
20 15 0.19
21 64 0.81
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (21 bp):
ATCGCAACGCGATAATACATA
Found at i:151783 original size:19 final size:21
Alignment explanation
Indices: 151759--151799 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
151749 AAATTTACGT
151759 TAGTCCAA-ATT-CGTTGCGA
1 TAGTCCAAGATTACGTTGCGA
*
151778 TAGTCCAAGTTTACGTTGCGA
1 TAGTCCAAGATTACGTTGCGA
151799 T
1 T
151800 TTCTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 9 0.47
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (21 bp):
TAGTCCAAGATTACGTTGCGA
Found at i:154646 original size:21 final size:20
Alignment explanation
Indices: 154620--154661 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
154610 TAACGGTAAC
154620 GGTCAACGGTCGGTCGGGTCG
1 GGTCAACGGTCGGTC-GGTCG
*
154641 GGTCAAGGGTCGGTCGGTCG
1 GGTCAACGGTCGGTCGGTCG
154661 G
1 G
154662 TTAGACCGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.10, C:0.21, G:0.50, T:0.19
Consensus pattern (20 bp):
GGTCAACGGTCGGTCGGTCG
Found at i:154688 original size:19 final size:18
Alignment explanation
Indices: 154659--154720 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 18
154649 GTCGGTCGGT
*
154659 CGGTTAGACCGGTCAAGC
1 CGGTTAGACCGGTCAAAC
154677 CGGTTCAGACCGGTCAAAC
1 CGGTT-AGACCGGTCAAAC
*
154696 CGGTTGAAACCGGTCAGAAC
1 CGGTT-AGACCGGTCA-AAC
154716 CGGTT
1 CGGTT
154721 GAAAACCGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
18 5 0.13
19 26 0.67
20 8 0.21
ACGTcount: A:0.24, C:0.27, G:0.31, T:0.18
Consensus pattern (18 bp):
CGGTTAGACCGGTCAAAC
Found at i:154705 original size:10 final size:10
Alignment explanation
Indices: 154692--154741 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
154682 CAGACCGGTC
154692 AAACCGGTTG
1 AAACCGGTTG
*
154702 AAACCGG-TC
1 AAACCGGTTG
154711 AGAACCGGTTG
1 A-AACCGGTTG
*
154722 AAAACCGGTTT
1 -AAACCGGTTG
154733 AAACCGGTT
1 AAACCGGTT
154742 TCCAGTAGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 22 0.65
11 9 0.26
12 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (10 bp):
AAACCGGTTG
Found at i:154737 original size:21 final size:19
Alignment explanation
Indices: 154666--154741 Score: 89
Period size: 19 Copynumber: 3.8 Consensus size: 19
154656 GGTCGGTTAG
* * *
154666 ACCGGTCAAGCCGGTTCAG
1 ACCGGTCAAACCGGTTGAA
154685 ACCGGTCAAACCGGTTGAA
1 ACCGGTCAAACCGGTTGAA
154704 ACCGGTCAGAACCGGTTGAAA
1 ACCGGTCA-AACCGGTTG-AA
*
154725 ACCGGTTTAAACCGGTT
1 ACCGG-TCAAACCGGTT
154742 TCCAGTAGCC
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 24 0.48
20 9 0.18
21 15 0.30
22 2 0.04
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTGAA
Found at i:161870 original size:7 final size:7
Alignment explanation
Indices: 161855--161885 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
161845 GTCAAAGCAA
161855 GTCAACG
1 GTCAACG
*
161862 GTTAACG
1 GTCAACG
161869 GTCAACG
1 GTCAACG
161876 GTCAACG
1 GTCAACG
161883 GTC
1 GTC
161886 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:161892 original size:5 final size:5
Alignment explanation
Indices: 161882--161916 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
161872 AACGGTCAAC
161882 GGTCG GGTCG GGTCG GGTCAAG GGTCG GGTCG GGT
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGT
161917 TAGACCGGTC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.82
7 5 0.18
ACGTcount: A:0.06, C:0.17, G:0.57, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:161907 original size:22 final size:22
Alignment explanation
Indices: 161875--161916 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
161865 AACGGTCAAC
161875 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
*
161897 GGTCAAGGGTCGGGTCGGGT
1 GGTCAACGGTCGGGTCGGGT
161917 TAGACCGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.10, C:0.19, G:0.52, T:0.19
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:161940 original size:19 final size:18
Alignment explanation
Indices: 161914--161994 Score: 81
Period size: 19 Copynumber: 4.2 Consensus size: 18
161904 GGTCGGGTCG
*
161914 GGTTAGACCGGTCAAGCC
1 GGTTAGACCGGTCAAACC
161932 GGTTCAGACCGGTCAAACC
1 GGTT-AGACCGGTCAAACC
*
161951 GGTTGAAACCGGTCAGAACC
1 GGTT-AGACCGGTCA-AACC
* *
161971 GGTTGAAAACCGGTTAAACC
1 GGTT--AGACCGGTCAAACC
161991 GGTT
1 GGTT
161995 TCCAGTAGCC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
18 4 0.07
19 26 0.47
20 16 0.29
21 9 0.16
ACGTcount: A:0.27, C:0.25, G:0.30, T:0.19
Consensus pattern (18 bp):
GGTTAGACCGGTCAAACC
Found at i:161983 original size:11 final size:10
Alignment explanation
Indices: 161946--161994 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
161936 CAGACCGGTC
161946 AAACCGGTTG
1 AAACCGGTTG
*
161956 AAACCGG-TC
1 AAACCGGTTG
161965 AGAACCGGTTG
1 A-AACCGGTTG
161976 AAAACCGGTT-
1 -AAACCGGTTG
161986 AAACCGGTT
1 AAACCGGTT
161995 TCCAGTAGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
9 11 0.32
10 13 0.38
11 9 0.26
12 1 0.03
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (10 bp):
AAACCGGTTG
Found at i:161994 original size:9 final size:9
Alignment explanation
Indices: 161914--161994 Score: 63
Period size: 9 Copynumber: 8.4 Consensus size: 9
161904 GGTCGGGTCG
*
161914 GGTTAGACC
1 GGTTAAACC
* *
161923 GGTCAAGCC
1 GGTTAAACC
*
161932 GGTTCAGACC
1 GGTT-AAACC
*
161942 GGTCAAACC
1 GGTTAAACC
161951 GGTTGAAACC
1 GGTT-AAACC
*
161961 GGTCAGAACC
1 GGTTA-AACC
161971 GGTTGAAAACC
1 GGTT--AAACC
161982 GGTTAAACC
1 GGTTAAACC
161991 GGTT
1 GGTT
161995 TCCAGTAGCC
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
9 26 0.46
10 21 0.38
11 8 0.14
12 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.30, T:0.19
Consensus pattern (9 bp):
GGTTAAACC
Found at i:176421 original size:29 final size:29
Alignment explanation
Indices: 176376--176433 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
176366 GTGTTGGTCG
*
176376 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
* *
176405 TAGGTCGCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
176434 AAGAGATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.14, C:0.36, G:0.28, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGACCTAC
Found at i:176496 original size:23 final size:23
Alignment explanation
Indices: 176469--176519 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
176459 CTCAACAATC
176469 CGAGGCCA-TCCGAACGAGCTATG
1 CGAGGCCAGT-CGAACGAGCTATG
* *
176492 CGAGGGCAGTCGAGCGAGCTATG
1 CGAGGCCAGTCGAACGAGCTATG
*
176515 GGAGG
1 CGAGG
176520 GAATCCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.24, C:0.24, G:0.41, T:0.12
Consensus pattern (23 bp):
CGAGGCCAGTCGAACGAGCTATG
Found at i:176528 original size:23 final size:24
Alignment explanation
Indices: 176476--176528 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
176466 ATCCGAGGCC
*
176476 ATCCGAACGAGCTATGCGAGGGCA
1 ATCCGAGCGAGCTATGCGAGGGCA
* *
176500 GT-CGAGCGAGCTATGGGAGGG-A
1 ATCCGAGCGAGCTATGCGAGGGCA
176522 ATCCGAG
1 ATCCGAG
176529 GGCAGCCGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 2 0.08
23 21 0.88
24 1 0.04
ACGTcount: A:0.26, C:0.21, G:0.40, T:0.13
Consensus pattern (24 bp):
ATCCGAGCGAGCTATGCGAGGGCA
Found at i:176539 original size:33 final size:33
Alignment explanation
Indices: 176492--176561 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
176482 ACGAGCTATG
* *
176492 CGAGGGCAGTCGAGCGAGCTATGGGAGGGAATC
1 CGAGGGCAGCCGAGCGAGCTATGCGAGGGAATC
*
176525 CGAGGGCAGCCGAGCGAGCTATGCGAGGGCATC
1 CGAGGGCAGCCGAGCGAGCTATGCGAGGGAATC
176558 CGAG
1 CGAG
176562 CGAGCGAGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.23, C:0.23, G:0.44, T:0.10
Consensus pattern (33 bp):
CGAGGGCAGCCGAGCGAGCTATGCGAGGGAATC
Found at i:176623 original size:29 final size:29
Alignment explanation
Indices: 176577--176632 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
176567 GAGCAAGGGT
*
176577 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGGGCATGGCGACCTACA
176606 AGGTCGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGGGCATGGCGACCTA
176633 TGTGTTGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.30, G:0.38, T:0.12
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGGCGACCTACA
Found at i:187377 original size:3 final size:3
Alignment explanation
Indices: 187359--187406 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
187349 ACTACTACTA
* * *
187359 CTT CCT CTT CTA CTT CTT CTA CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
187407 TGTTGTTGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.04, C:0.35, G:0.00, T:0.60
Consensus pattern (3 bp):
CTT
Found at i:189493 original size:26 final size:27
Alignment explanation
Indices: 189464--189683 Score: 165
Period size: 29 Copynumber: 7.7 Consensus size: 27
189454 TAGTCCATAG
189464 TAAAAAATTA-CAGAAATATCAAT-TTT
1 TAAAAAATTACCA-AAATATCAATGTTT
*
189490 TAAACAATTACCAAAATATCAATGTTTT
1 TAAAAAATTACCAAAATATCAATG-TTT
* **
189518 TAACAATAATTGCCAAAATATCACCGTTT
1 TAA-AA-AATTACCAAAATATCAATGTTT
**
189547 TAACAATAATTACCAAAATATCACCGTTT
1 TAA-AA-AATTACCAAAATATCAATGTTT
* **
189576 TAACAATAATTACCAAAATAGCACCGTTT
1 TAA-AA-AATTACCAAAATATCAATGTTT
*
189605 TAACAATAATTACCAAAATATCACTGTTT
1 TAA-AA-AATTACCAAAATATCAATGTTT
* **
189634 TAATAATAATTGCCAAAAATATCACCGTTT
1 TAA-AA-AATTACC-AAAATATCAATGTTT
*
189664 TAAAAGTAATTACGAAAATA
1 TAAAA--AATTACCAAAATA
189684 ACACCCTTTT
Statistics
Matches: 173, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
26 19 0.11
27 2 0.01
28 6 0.03
29 107 0.62
30 39 0.23
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (27 bp):
TAAAAAATTACCAAAATATCAATGTTT
Found at i:189718 original size:30 final size:29
Alignment explanation
Indices: 189495--189705 Score: 280
Period size: 29 Copynumber: 7.2 Consensus size: 29
189485 ATTTTTAAAC
**
189495 AATTACCAAAATATCAATGTTTTTAACAAT
1 AATTACCAAAATATCACCG-TTTTAACAAT
*
189525 AATTGCCAAAATATCACCGTTTTAACAAT
1 AATTACCAAAATATCACCGTTTTAACAAT
189554 AATTACCAAAATATCACCGTTTTAACAAT
1 AATTACCAAAATATCACCGTTTTAACAAT
*
189583 AATTACCAAAATAGCACCGTTTTAACAAT
1 AATTACCAAAATATCACCGTTTTAACAAT
* *
189612 AATTACCAAAATATCACTGTTTTAATAAT
1 AATTACCAAAATATCACCGTTTTAACAAT
*
189641 AATTGCCAAAAATATCACCGTTTTAA-AAGT
1 AATTACC-AAAATATCACCGTTTTAACAA-T
* * * *
189671 AATTACGAAAATAACACCCTTTTTAAAAAT
1 AATTACCAAAATATCA-CCGTTTTAACAAT
189701 AATTA
1 AATTA
189706 TGAAAATAAC
Statistics
Matches: 163, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
29 108 0.66
30 53 0.33
31 2 0.01
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.32
Consensus pattern (29 bp):
AATTACCAAAATATCACCGTTTTAACAAT
Found at i:190277 original size:21 final size:20
Alignment explanation
Indices: 190239--190296 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
190229 CATTATATTT
*
190239 TATTCATAATGCTATTATAA
1 TATTTATAATGCTATTATAA
**
190259 TATTTATAATGCTTATTATTT
1 TATTTATAATGC-TATTATAA
*
190280 TATTTATAGTGCTATTA
1 TATTTATAATGCTATTA
190297 GTTTATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (20 bp):
TATTTATAATGCTATTATAA
Found at i:190310 original size:20 final size:19
Alignment explanation
Indices: 190237--190307 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 19
190227 TTCATTATAT
*
190237 TTTATTCATAATGCTATTA
1 TTTATTTATAATGCTATTA
*
190256 TAATATTTATAATGCTTATTA
1 T-TTATTTATAATGC-TATTA
*
190277 TTTTATTTATAGTGCTATTA
1 -TTTATTTATAATGCTATTA
190297 GTTTATTTATA
1 -TTTATTTATA
190308 GTGATATAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
19 1 0.02
20 26 0.59
21 16 0.36
22 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.07, T:0.56
Consensus pattern (19 bp):
TTTATTTATAATGCTATTA
Found at i:196865 original size:29 final size:29
Alignment explanation
Indices: 196803--196996 Score: 203
Period size: 29 Copynumber: 6.6 Consensus size: 29
196793 ATTTTTAAAC
* **
196803 AATTACCAAAATATCATTGTTTTTAACAAT
1 AATTACCAAAATAACACCG-TTTTAACAAT
*
196833 AATTACCAAAATATCACCGTTTTAACAAT
1 AATTACCAAAATAACACCGTTTTAACAAT
* *
196862 AATTACCAAAATAGCACTGTTTTAACAAT
1 AATTACCAAAATAACACCGTTTTAACAAT
* *
196891 AATTACCAAAATATCATCGTTTTAA-AATT
1 AATTACCAAAATAACACCGTTTTAACAA-T
* * *
196920 AATTACGAAAATAACACCCTTTTTAAAAAT
1 AATTACCAAAATAACA-CCGTTTTAACAAT
* * *
196950 AAATACAAAAATAACACAC-TTTTAAAAAT
1 AATTACCAAAATAACAC-CGTTTTAACAAT
*
196979 AATTACGAAAATAACACC
1 AATTACCAAAATAACACC
196997 ATAACTGAAA
Statistics
Matches: 145, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
28 3 0.02
29 100 0.69
30 40 0.28
31 2 0.01
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (29 bp):
AATTACCAAAATAACACCGTTTTAACAAT
Found at i:196944 original size:88 final size:88
Alignment explanation
Indices: 196803--196991 Score: 238
Period size: 88 Copynumber: 2.1 Consensus size: 88
196793 ATTTTTAAAC
* * * *
196803 AATTACCAAAATATCATTGTTTTTAACAATAATTACCAAAATATCACCGTTTTAACAATAATTAC
1 AATTACCAAAATATCATCGTTTTTAACAATAATTACCAAAATAACACCGTTTTAAAAATAAATAC
* * ** *
196868 CAAAATAGCACTGTTTTAACAAT
66 AAAAATAACACACTTTTAAAAAT
* *
196891 AATTACCAAAATATCATCG-TTTTAA-AATTAATTACGAAAATAACACCCTTTTTAAAAATAAAT
1 AATTACCAAAATATCATCGTTTTTAACAA-TAATTACCAAAATAACA-CCGTTTTAAAAATAAAT
196954 ACAAAAATAACACACTTTTAAAAAT
64 ACAAAAATAACACACTTTTAAAAAT
*
196979 AATTACGAAAATA
1 AATTACCAAAATA
196992 ACACCATAAC
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
86 2 0.02
87 21 0.24
88 64 0.74
ACGTcount: A:0.49, C:0.15, G:0.04, T:0.32
Consensus pattern (88 bp):
AATTACCAAAATATCATCGTTTTTAACAATAATTACCAAAATAACACCGTTTTAAAAATAAATAC
AAAAATAACACACTTTTAAAAAT
Found at i:199819 original size:255 final size:255
Alignment explanation
Indices: 199368--199877 Score: 1020
Period size: 255 Copynumber: 2.0 Consensus size: 255
199358 CCCTGTACTC
199368 TTTCCTTTGGATTTTTCTCTACTTTTATTTTAAGGAATTTAATTTCTATACTTTTCAAATTTAAA
1 TTTCCTTTGGATTTTTCTCTACTTTTATTTTAAGGAATTTAATTTCTATACTTTTCAAATTTAAA
199433 AATTCAAATCTAGTTGTGTTAAAAAACCTATTAAATTTATGTTTATTACAAAATTAATTTTATGG
66 AATTCAAATCTAGTTGTGTTAAAAAACCTATTAAATTTATGTTTATTACAAAATTAATTTTATGG
199498 TTACATGACTTCGAAGTTAATAATTTTTTTATTAAAAAAATCACATTTGAATTTACCAATATATT
131 TTACATGACTTCGAAGTTAATAATTTTTTTATTAAAAAAATCACATTTGAATTTACCAATATATT
199563 TTTATGATATTAATAATTGGATTTGAATTTAACTAAATTCTTAGAAATGAAATTAGAAGG
196 TTTATGATATTAATAATTGGATTTGAATTTAACTAAATTCTTAGAAATGAAATTAGAAGG
199623 TTTCCTTTGGATTTTTCTCTACTTTTATTTTAAGGAATTTAATTTCTATACTTTTCAAATTTAAA
1 TTTCCTTTGGATTTTTCTCTACTTTTATTTTAAGGAATTTAATTTCTATACTTTTCAAATTTAAA
199688 AATTCAAATCTAGTTGTGTTAAAAAACCTATTAAATTTATGTTTATTACAAAATTAATTTTATGG
66 AATTCAAATCTAGTTGTGTTAAAAAACCTATTAAATTTATGTTTATTACAAAATTAATTTTATGG
199753 TTACATGACTTCGAAGTTAATAATTTTTTTATTAAAAAAATCACATTTGAATTTACCAATATATT
131 TTACATGACTTCGAAGTTAATAATTTTTTTATTAAAAAAATCACATTTGAATTTACCAATATATT
199818 TTTATGATATTAATAATTGGATTTGAATTTAACTAAATTCTTAGAAATGAAATTAGAAGG
196 TTTATGATATTAATAATTGGATTTGAATTTAACTAAATTCTTAGAAATGAAATTAGAAGG
199878 ACTAAATTTT
Statistics
Matches: 255, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
255 255 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.45
Consensus pattern (255 bp):
TTTCCTTTGGATTTTTCTCTACTTTTATTTTAAGGAATTTAATTTCTATACTTTTCAAATTTAAA
AATTCAAATCTAGTTGTGTTAAAAAACCTATTAAATTTATGTTTATTACAAAATTAATTTTATGG
TTACATGACTTCGAAGTTAATAATTTTTTTATTAAAAAAATCACATTTGAATTTACCAATATATT
TTTATGATATTAATAATTGGATTTGAATTTAACTAAATTCTTAGAAATGAAATTAGAAGG
Found at i:208407 original size:22 final size:22
Alignment explanation
Indices: 208361--208415 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
208351 TTTCTATATT
* *
208361 ATATTTTT-TT-AATTAAATTA
1 ATATTTTTATTAAATAAAAATA
208381 ATATTTTTATTAAATAAAAATA
1 ATATTTTTATTAAATAAAAATA
208403 ATATTTTTTATTA
1 ATA-TTTTTATTA
208416 TTTTGGGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 8 0.27
21 2 0.07
22 11 0.37
23 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATTTTTATTAAATAAAAATA
Found at i:209506 original size:82 final size:82
Alignment explanation
Indices: 209332--209507 Score: 289
Period size: 82 Copynumber: 2.1 Consensus size: 82
209322 AGAGTTGAAT
* * * *
209332 TATAGTCGTTGGGAGTTTAATTCTTGCAAAAGAAGTTGCTTATAACAGAGTAGTATCGATACTAC
1 TATAGTCGTTGGGAGTTTAATTCTTGCAAAAGAAGCTACTTAGAACACAGTAGTATCGATACTAC
*
209397 TTGTTTAAAATTAAAAC
66 CTGTTTAAAATTAAAAC
*
209414 TATAATCGTTGGGAGTTTAATTCTTGCAAAAGAAGCTACTTAGAACACAGTAGTATCGATACTAC
1 TATAGTCGTTGGGAGTTTAATTCTTGCAAAAGAAGCTACTTAGAACACAGTAGTATCGATACTAC
209479 CTGTTTAAAATTAAAAC
66 CTGTTTAAAATTAAAAC
*
209496 TATAGCCGTTGG
1 TATAGTCGTTGG
209508 ATTATGACAG
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 86 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (82 bp):
TATAGTCGTTGGGAGTTTAATTCTTGCAAAAGAAGCTACTTAGAACACAGTAGTATCGATACTAC
CTGTTTAAAATTAAAAC
Found at i:212547 original size:20 final size:20
Alignment explanation
Indices: 212522--212559 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
212512 AACACGCTGG
212522 GCATCCGAGGCCATCCGAGA
1 GCATCCGAGGCCATCCGAGA
212542 GCATCCGAGGCCATCCGA
1 GCATCCGAGGCCATCCGA
212560 CCGAGGCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.37, G:0.29, T:0.11
Consensus pattern (20 bp):
GCATCCGAGGCCATCCGAGA
Found at i:212565 original size:14 final size:14
Alignment explanation
Indices: 212546--212578 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
212536 CCGAGAGCAT
212546 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
212560 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
212574 ACGAG
1 CCGAG
212579 CTATGCGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.30, T:0.06
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:212573 original size:10 final size:10
Alignment explanation
Indices: 212523--212559 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
212513 ACACGCTGGG
212523 CATCCGAGGC
1 CATCCGAGGC
212533 CATCCGAGAG-
1 CATCCGAG-GC
212543 CATCCGAGGC
1 CATCCGAGGC
212553 CATCCGA
1 CATCCGA
212560 CCGAGGCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 1 0.04
10 23 0.92
11 1 0.04
ACGTcount: A:0.24, C:0.38, G:0.27, T:0.11
Consensus pattern (10 bp):
CATCCGAGGC
Found at i:218313 original size:29 final size:29
Alignment explanation
Indices: 218250--218316 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
218240 AAAATCAGTT
* * *
218250 AATTCGGTTTTGTTAATAATTTTCAAATT
1 AATTTGGTTTAGTTAATAATTTTCAAATA
218279 AATTTGGTTTAGTTAATAATTTT-AAATA
1 AATTTGGTTTAGTTAATAATTTTCAAATA
218307 AAGTTTGGTT
1 AA-TTTGGTT
218317 CGATTAACGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 6 0.18
29 28 0.82
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (29 bp):
AATTTGGTTTAGTTAATAATTTTCAAATA
Found at i:218360 original size:135 final size:136
Alignment explanation
Indices: 218121--218496 Score: 481
Period size: 136 Copynumber: 2.8 Consensus size: 136
218111 AATTTGTCGG
* * * * *
218121 TTCGATTAATAATTTTCAAATTAATTCGATTCAATTAATAATTTTCAAATAAATTTTGGTTCGAT
1 TTCGGTTAATAATTTTCAAATTAATTTGGTTTAGTTAATAATTTT-AAATAAATTTTGGTTCGAT
* * * *
218186 TATCGAACCGAATTAACCGAGTTTTTGCTTCAAATAATTCAATTAATAA-TTTAAAAAATCAGTT
65 TAACGAACCGAATTAACCGAATTTTTGCTTCGATTAATTCAATTAATAATTTTAAAAAATCAGTT
*
218250 AATTCGG
130 AATTCGA
** *
218257 TTTTGTTAATAATTTTCAAATTAATTTGGTTTAGTTAATAATTTTAAATAAAGTTTGGTTCGATT
1 TTCGGTTAATAATTTTCAAATTAATTTGGTTTAGTTAATAATTTTAAATAAATTTTGGTTCGATT
* **
218322 AACGAACCGAATTAACCGAATTTTTGCTACGATTAATTCAATTAATAATTTTAAAAAATTGGTTA
66 AACGAACCGAATTAACCGAATTTTTGCTTCGATTAATTCAATTAATAATTTTAAAAAATCAGTTA
218387 ATTCGA
131 ATTCGA
* * *
218393 TTCGGTTAATAATTTTAAAATT-ATTTCGGGTTGGTTAATAATTTCT-AATAAATTTTGGTT-GA
1 TTCGGTTAATAATTTTCAAATTAATTT-GGTTTAGTTAATAATTT-TAAATAAATTTTGGTTCGA
* * * *
218455 TTAACCGAACTGAGTTATCCTAATTTTTGCTTCGATTAATTC
64 TTAA-CGAACCGAATTAACCGAATTTTTGCTTCGATTAATTC
218497 GGTTAATTCG
Statistics
Matches: 209, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
135 72 0.34
136 136 0.65
137 1 0.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (136 bp):
TTCGGTTAATAATTTTCAAATTAATTTGGTTTAGTTAATAATTTTAAATAAATTTTGGTTCGATT
AACGAACCGAATTAACCGAATTTTTGCTTCGATTAATTCAATTAATAATTTTAAAAAATCAGTTA
ATTCGA
Found at i:218567 original size:30 final size:28
Alignment explanation
Indices: 218501--218574 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
218491 TAATTCGGTT
* *
218501 AATTCGGTTCGGTTAATAATTTTAAATT
1 AATTTGGTTCGGTTAATAATTTTAAATA
218529 AATTTGGTTCGGTTAATAATTTTCAAATA
1 AATTTGGTTCGGTTAATAATTTT-AAATA
*
218558 AATTTTGGTTCGATTAA
1 AA-TTTGGTTCGGTTAA
218575 CCGAACCGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 22 0.54
29 6 0.15
30 13 0.32
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.46
Consensus pattern (28 bp):
AATTTGGTTCGGTTAATAATTTTAAATA
Found at i:223085 original size:20 final size:22
Alignment explanation
Indices: 223060--223113 Score: 78
Period size: 20 Copynumber: 2.6 Consensus size: 22
223050 TTATCCTGAT
223060 TTTTTTTCTTTATCGTC-TT-A
1 TTTTTTTCTTTATCGTCTTTAA
223080 TTTTTTTCTTT-TCGTCTTTAA
1 TTTTTTTCTTTATCGTCTTTAA
*
223101 TTTTTTTATTTAT
1 TTTTTTTCTTTAT
223114 TCCATTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 5 0.17
20 13 0.43
21 11 0.37
22 1 0.03
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTTTTTCTTTATCGTCTTTAA
Found at i:230891 original size:29 final size:29
Alignment explanation
Indices: 230822--230892 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
230812 TCTGCCAAAT
* *
230822 ATGTTTCTTTTTTATGAGATTTGAGCGGC
1 ATGTTACTTTTTTATGAGATTTGAGCAGC
*
230851 TATGTTTC-TTTTTATGAGATTTGAGCAGC
1 -ATGTTACTTTTTTATGAGATTTGAGCAGC
*
230880 -TGTTACGTTTTTA
1 ATGTTACTTTTTTA
230893 AAGACTTGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 5 0.13
28 6 0.16
29 20 0.53
30 7 0.18
ACGTcount: A:0.18, C:0.10, G:0.21, T:0.51
Consensus pattern (29 bp):
ATGTTACTTTTTTATGAGATTTGAGCAGC
Found at i:236344 original size:11 final size:11
Alignment explanation
Indices: 236330--236363 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
236320 AATAGCCTTT
236330 TAGCAGCCCCC
1 TAGCAGCCCCC
* *
236341 TAGCAACCCCT
1 TAGCAGCCCCC
236352 TAGCAGCCCCC
1 TAGCAGCCCCC
236363 T
1 T
236364 TGTTGAACAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.21, C:0.50, G:0.15, T:0.15
Consensus pattern (11 bp):
TAGCAGCCCCC
Found at i:247198 original size:19 final size:19
Alignment explanation
Indices: 247162--247210 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
247152 AACATATAAA
*
247162 TTATTAAAAATTGTAAAAT
1 TTATTAAAAATTGAAAAAT
* *
247181 TTATTAAAATATTAAAAAAA
1 TTATTAAAA-ATTGAAAAAT
247201 TTATCTAAAA
1 TTAT-TAAAA
247211 GGGAAAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 11 0.44
21 5 0.20
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TTATTAAAAATTGAAAAAT
Found at i:249566 original size:39 final size:39
Alignment explanation
Indices: 249512--249595 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
249502 TATCATTTTT
249512 GTAACCCAACTTTTAATCGTTTGTAGTAAGGTCCCTATC
1 GTAACCCAACTTTTAATCGTTTGTAGTAAGGTCCCTATC
*
249551 GTAACCCAACTTTTAATCGTTTGTAGTAAGGTTCCTATC
1 GTAACCCAACTTTTAATCGTTTGTAGTAAGGTCCCTATC
249590 GTAACC
1 GTAACC
249596 ATTTGCTGGC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (39 bp):
GTAACCCAACTTTTAATCGTTTGTAGTAAGGTCCCTATC
Found at i:280727 original size:53 final size:51
Alignment explanation
Indices: 280659--280770 Score: 136
Period size: 53 Copynumber: 2.2 Consensus size: 51
280649 TCAGATTCTT
* * * *
280659 CTTCGGAGGATAACGTCTTCATCTTGATTTCAAT-TTCTTTTGTTTAGGTTACA
1 CTTCAGAGGATAACGTCCTCATCCTAATTTC--TGTT-TTTTGTTTAGGTTACA
* *
280712 CTTCAGAGGATAACGTCCTCTTCCTAATTTCTGTTTTTTGTTTAGGTTACT
1 CTTCAGAGGATAACGTCCTCATCCTAATTTCTGTTTTTTGTTTAGGTTACA
280763 CTTCAGAG
1 CTTCAGAG
280771 AGTAAAGTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
51 24 0.46
52 2 0.04
53 26 0.50
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.45
Consensus pattern (51 bp):
CTTCAGAGGATAACGTCCTCATCCTAATTTCTGTTTTTTGTTTAGGTTACA
Found at i:281506 original size:7 final size:7
Alignment explanation
Indices: 281494--281521 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
281484 TATTACATTG
281494 AAATTTT
1 AAATTTT
281501 AAATTTT
1 AAATTTT
281508 AAATTTT
1 AAATTTT
281515 AAATTTT
1 AAATTTT
281522 GAATAAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AAATTTT
Found at i:287335 original size:15 final size:15
Alignment explanation
Indices: 287317--287372 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
287307 TACGTAAGGT
287317 GGAGGCTTTACGACC
1 GGAGGCTTTACGACC
* *
287332 GGAGGTTTGGGTACGTA-G
1 GGAGGCTT---TACG-ACC
287350 GGAGGCTTTACGACC
1 GGAGGCTTTACGACC
287365 GGAGGCTT
1 GGAGGCTT
287373 AGGTGGCTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
14 1 0.03
15 19 0.59
18 11 0.34
19 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.41, T:0.23
Consensus pattern (15 bp):
GGAGGCTTTACGACC
Found at i:287359 original size:33 final size:36
Alignment explanation
Indices: 287280--287369 Score: 134
Period size: 36 Copynumber: 2.6 Consensus size: 36
287270 AATAAGGTGT
*
287280 TGGAGG-TTTAACCACCGGAGGTTTGGGTACGTAAGG
1 TGGAGGCTTT-ACGACCGGAGGTTTGGGTACGTAAGG
287316 TGGAGGCTTTACGACCGGAGGTTTGGGTACGT-A-G
1 TGGAGGCTTTACGACCGGAGGTTTGGGTACGTAAGG
287350 -GGAGGCTTTACGACCGGAGG
1 TGGAGGCTTTACGACCGGAGG
287370 CTTAGGTGGC
Statistics
Matches: 52, Mismatches: 1, Indels: 5
0.90 0.02 0.09
Matches are distributed among these distances:
33 20 0.38
34 1 0.02
35 1 0.02
36 27 0.52
37 3 0.06
ACGTcount: A:0.20, C:0.16, G:0.41, T:0.23
Consensus pattern (36 bp):
TGGAGGCTTTACGACCGGAGGTTTGGGTACGTAAGG
Found at i:287387 original size:33 final size:33
Alignment explanation
Indices: 287293--287376 Score: 105
Period size: 33 Copynumber: 2.5 Consensus size: 33
287283 AGGTTTAACC
* *
287293 ACCGGAGGTTTGGGTACGTAAGGTGGAGGCTTTACG
1 ACCGGAGGCTTAGGTACGT-A-G-GGAGGCTTTACG
* *
287329 ACCGGAGGTTTGGGTACGTAGGGAGGCTTTACG
1 ACCGGAGGCTTAGGTACGTAGGGAGGCTTTACG
287362 ACCGGAGGCTTAGGT
1 ACCGGAGGCTTAGGT
287377 GGCTTGGGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
33 25 0.54
34 1 0.02
35 1 0.02
36 19 0.41
ACGTcount: A:0.19, C:0.15, G:0.42, T:0.24
Consensus pattern (33 bp):
ACCGGAGGCTTAGGTACGTAGGGAGGCTTTACG
Found at i:287563 original size:65 final size:65
Alignment explanation
Indices: 287435--287563 Score: 177
Period size: 65 Copynumber: 2.0 Consensus size: 65
287425 GGGTTAACAA
* * *
287435 CCGGAGGTTTCGGCGGTTTGGGAAGATGCGGTGGATGTTTAGATGGTTTAGGATGATATGGAGGG
1 CCGGAGGTTTCGGCGGTTTGGGAAGATGCGGTGGATGTTTAGACGGTTTAGGATGAAACGGAGGG
** * * * *
287500 CCGGAGGTTTCGGTTGTTTGGGAGGATGCGGTGGATGTTTGGGCGGTTTAGGGTGAAACGGAGG
1 CCGGAGGTTTCGGCGGTTTGGGAAGATGCGGTGGATGTTTAGACGGTTTAGGATGAAACGGAGG
287564 TTTCACAATG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.16, C:0.09, G:0.47, T:0.29
Consensus pattern (65 bp):
CCGGAGGTTTCGGCGGTTTGGGAAGATGCGGTGGATGTTTAGACGGTTTAGGATGAAACGGAGGG
Found at i:296007 original size:6 final size:6
Alignment explanation
Indices: 295693--296000 Score: 501
Period size: 6 Copynumber: 52.2 Consensus size: 6
295683 ATGTAATAAC
295693 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTT- TATATTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TAT-TTA
295741 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
295789 TATTT- TA-TT- TATTTA TATTTA TTTATTTA TATTTA TATTTA TATTTA
1 TATTTA TATTTA TATTTA TATTTA --TATTTA TATTTA TATTTA TATTTA
295836 TATTTA TATTTA TA-TT- TATTTA TATTTA TATTTA TATTTA TA-TT-
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
295880 TATTTA TATTTA TATATTA TATTTA TATTTA TATTTA TATTTA TATTTA
1 TATTTA TATTTA TAT-TTA TATTTA TATTTA TATTTA TATTTA TATTTA
295929 TATTTA TATATTA TATTTA TATTTA TA--TA TATTTA TATTTA TATTTA
1 TATTTA TAT-TTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA
295976 TATTTA TATTTA TATTTA TATTTA T
1 TATTTA TATTTA TATTTA TATTTA T
296001 TTATATTATT
Statistics
Matches: 288, Mismatches: 0, Indels: 28
0.91 0.00 0.09
Matches are distributed among these distances:
4 12 0.04
5 15 0.05
6 240 0.83
7 15 0.05
8 6 0.02
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATTTA
Found at i:296297 original size:2 final size:2
Alignment explanation
Indices: 296290--296317 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
296280 TGATTCTACA
296290 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
296318 GAGAAGGGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.