Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002773.1 Hibiscus syriacus cultivar Beakdansim tig00005713_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: 134996
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:379 original size:137 final size:139
Alignment explanation
Indices: 138--413 Score: 463
Period size: 138 Copynumber: 2.0 Consensus size: 139
128 AAATCTCAAT
138 TTTGACTCGATTATGGTTCGAAATACTTTGTAAAAATTGTTTCAAATATATTTTAAGTGTAAATC
1 TTTGACTCGATTATGGTTCGAAATACTTTGTAAAAATTGTTTCAAATATATTTTAAGTGTAAATC
**
203 TCAATTTTTCATTTAGGTTGTAAAAATTGATATTTGAAAACTTGGAGT-ATATTTGTAATATTCG
66 TCAATTTTTCATTTAGGGAGTAAAAATTGATATTTGAAAACTTGGAGTAATATTTGTAATATTCG
267 AATAATTTA
131 AATAATTTA
*
276 TTTGACTTGATTATGGTTCG-AATACTTTGT-AAAATTGTTTCAAATATA-TTTAAGTGTAAATC
1 TTTGACTCGATTATGGTTCGAAATACTTTGTAAAAATTGTTTCAAATATATTTTAAGTGTAAATC
338 TCAA-TTTTCATTTAGTAAGGAGTAAAAATTGATATTTGAAAACTTGGAGTAATATTTGTAATAT
66 TCAATTTTTCATTTAG---GGAGTAAAAATTGATATTTGAAAACTTGGAGTAATATTTGTAATAT
402 TCGAATAATTTA
128 TCGAATAATTTA
414 ATCGAATATA
Statistics
Matches: 131, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
134 11 0.08
135 18 0.14
136 18 0.14
137 40 0.31
138 44 0.34
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (139 bp):
TTTGACTCGATTATGGTTCGAAATACTTTGTAAAAATTGTTTCAAATATATTTTAAGTGTAAATC
TCAATTTTTCATTTAGGGAGTAAAAATTGATATTTGAAAACTTGGAGTAATATTTGTAATATTCG
AATAATTTA
Found at i:426 original size:18 final size:18
Alignment explanation
Indices: 409--442 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
399 TATTCGAATA
409 ATTT-AATCGAATATAAT
1 ATTTAAATCGAATATAAT
426 ATTTAAATCGAATATAA
1 ATTTAAATCGAATATAA
443 AATCTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTAAATCGAATATAAT
Found at i:2866 original size:20 final size:21
Alignment explanation
Indices: 2825--2874 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
2815 GTATGAACAA
*
2825 TATCGATACTCATTCAAGTAG
1 TATCGATACTCATGCAAGTAG
* *
2846 TGTCGATACT-ATGCTAGTAG
1 TATCGATACTCATGCAAGTAG
2866 TATCGATAC
1 TATCGATAC
2875 CTAGTAAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (21 bp):
TATCGATACTCATGCAAGTAG
Found at i:8683 original size:27 final size:24
Alignment explanation
Indices: 8628--8683 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
8618 CTACTTTGTG
*
8628 CAGTAGTATCGATACTAATATGTA
1 CAGTAGTATCGATACTAACATGTA
* *
8652 AAGTAGTATTGATACCTAACATGGTA
1 CAGTAGTATCGATA-CTAACAT-GTA
8678 TCAGTA
1 -CAGTA
8684 CCCGTTTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 12 0.48
25 6 0.24
26 3 0.12
27 4 0.16
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (24 bp):
CAGTAGTATCGATACTAACATGTA
Found at i:8754 original size:21 final size:21
Alignment explanation
Indices: 8728--8781 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
8718 ACCAAAGGGG
*
8728 TAGTATCGGTGCCATTGACTA
1 TAGTATCGGTACCATTGACTA
8749 TAGTATCGGTACCATTGACTA
1 TAGTATCGGTACCATTGACTA
*
8770 TGGTATCGGTAC
1 TAGTATCGGTAC
8782 TACTATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (21 bp):
TAGTATCGGTACCATTGACTA
Found at i:9095 original size:141 final size:144
Alignment explanation
Indices: 8896--9182 Score: 463
Period size: 141 Copynumber: 2.0 Consensus size: 144
8886 TGAAATCTCA
*
8896 ATTTGGACTCGATTATGGTTCAAAATACTTTGTAAAAATTGTTTCAAATATATTTTAAGTGTAAA
1 ATTTGGACTCGATTATGGTTCAAAATACTTCGTAAAAATTGTTTCAAATATATTTTAAGTGTAAA
* **
8961 TCCCAATTTTTAATTTAGTAAGTTGTAAAAATTGATATTTG-AAAACTTAAAGTAATATTTGTAA
66 TCCCAAATTTTAATTTAGTAAGGAGTAAAAATTGATATTTGAAAAACTTAAAGTAATATTTGTAA
9025 TATTCGAATAATTT
131 TATTCGAATAATTT
* *
9039 ATTT-GACTCGATTATGGTTCAAAATGCTTCGT-AAAGTTGTTTCAAATATATTTTAAGTGTAAA
1 ATTTGGACTCGATTATGGTTCAAAATACTTCGTAAAAATTGTTTCAAATATATTTTAAGTGTAAA
* **
9102 TCTCAAATTTTAATTTAGTAAGGAGTAAAAATTGATATTTGAAAAAACTTGGAGTAATATTTGTA
66 TCCCAAATTTTAATTTAGTAAGGAGTAAAAATTGATATTTG-AAAAACTTAAAGTAATATTTGTA
9167 ATATTCGAATAATTT
130 ATATTCGAATAATTT
9182 A
1 A
9183 ATTAAATATA
Statistics
Matches: 133, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
141 67 0.50
142 26 0.20
143 40 0.30
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.41
Consensus pattern (144 bp):
ATTTGGACTCGATTATGGTTCAAAATACTTCGTAAAAATTGTTTCAAATATATTTTAAGTGTAAA
TCCCAAATTTTAATTTAGTAAGGAGTAAAAATTGATATTTGAAAAACTTAAAGTAATATTTGTAA
TATTCGAATAATTT
Found at i:11929 original size:2 final size:2
Alignment explanation
Indices: 11922--11954 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
11912 TTTACAAACT
11922 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11955 TGATTACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15804 original size:16 final size:17
Alignment explanation
Indices: 15779--15811 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15769 CGAGTCAGGA
15779 CAATTATTAGGT-GGGT
1 CAATTATTAGGTCGGGT
*
15795 CAATTTTTAGGTCGGGT
1 CAATTATTAGGTCGGGT
15812 GATTATCGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.21, C:0.09, G:0.30, T:0.39
Consensus pattern (17 bp):
CAATTATTAGGTCGGGT
Found at i:16343 original size:18 final size:18
Alignment explanation
Indices: 16309--16346 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
16299 CAGATCAAAT
*
16309 TTAATTATCATGTTTGGG
1 TTAATTATCAAGTTTGGG
16327 TTAA-TATCAAGTATTGGG
1 TTAATTATCAAGT-TTGGG
16345 TT
1 TT
16347 GGGTAAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.26, C:0.05, G:0.21, T:0.47
Consensus pattern (18 bp):
TTAATTATCAAGTTTGGG
Found at i:17043 original size:21 final size:20
Alignment explanation
Indices: 16996--17034 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
16986 TATTGTATAC
* *
16996 AAAAATAACTATGTTTATCT
1 AAAAATAAATATATTTATCT
17016 AATAAATAAATATATTTAT
1 AA-AAATAAATATATTTAT
17035 ATTAAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 2 0.12
21 14 0.88
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAAATAAATATATTTATCT
Found at i:17538 original size:43 final size:43
Alignment explanation
Indices: 17466--17669 Score: 141
Period size: 42 Copynumber: 4.7 Consensus size: 43
17456 TAGGGATCCC
* *
17466 AATTATAAAGGTAAAAAGTGATAAT-AAAAAAATAGAGGCATT
1 AATTATAAAGGTAAAAAGTGAGATTGAAAAAAATAGAGGCATT
* * * * *
17508 AATTTTAAAGGTAAAAAGTGAGATTGAAAAAAAAACCAAGGGCCTA
1 AATTATAAAGGTAAAAAGTGAGATTGAAAAAAATA--GA-GGCATT
* * * *
17554 AATTAT-ATGAGTAAAAAATGGGATTGAAAAAATTAG-GG-ATCT
1 AATTATAAAG-GTAAAAAGTGAGATTGAAAAAAATAGAGGCAT-T
* **
17596 CAATTATAAAGGTAAAAAGTGAGATTGCAAAAAGCAG-GAGC-TT
1 -AATTATAAAGGTAAAAAGTGAGATTGAAAAAAATAGAG-GCATT
** * *
17639 AATTATAAAGGTGCAAGGTGGGATTGAAAAA
1 AATTATAAAGGTAAAAAGTGAGATTGAAAAA
17670 CTTATGATCA
Statistics
Matches: 125, Mismatches: 27, Indels: 20
0.73 0.16 0.12
Matches are distributed among these distances:
41 1 0.01
42 50 0.40
43 37 0.30
44 4 0.03
45 3 0.02
46 30 0.24
ACGTcount: A:0.50, C:0.05, G:0.22, T:0.23
Consensus pattern (43 bp):
AATTATAAAGGTAAAAAGTGAGATTGAAAAAAATAGAGGCATT
Found at i:18099 original size:31 final size:30
Alignment explanation
Indices: 18047--18104 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
18037 TAATTTTAAA
18047 AAAATAATAATTGAGTAACTAAGACAAAAAT
1 AAAATAATAATTGAGTAACTAA-ACAAAAAT
* *
18078 AAAATAAT-ATATGGGTGACTAAACAAA
1 AAAATAATAAT-TGAGTAACTAAACAAA
18105 TAACTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.59, C:0.07, G:0.12, T:0.22
Consensus pattern (30 bp):
AAAATAATAATTGAGTAACTAAACAAAAAT
Found at i:19614 original size:193 final size:192
Alignment explanation
Indices: 19290--19665 Score: 496
Period size: 193 Copynumber: 2.0 Consensus size: 192
19280 ACTATTTCAG
* * *
19290 ATTAAAAAATAAATTTTAATTTGAATATTAGTAGGATAATTACTCTTTTAATAAGTAGATTTAAA
1 ATTAAAAAATAAATTTTAATTTGAATATTAGTAAGATAATTAATCTTTTAATAAGTAAATTTAAA
* *
19355 AAAGATATTTGTTATATTTTTAATTTTGAATATTAAAAATAATTATATACTTTTATATATTTCAA
66 AAAGATATTTGTTACATTTTTAATTTTGAATATTAAAAATAATTATATACTTTTATATACTTCAA
* * *
19420 ATTAAAATAATATCTGCTTAATTTTGAATAGTAAAATGAG-TTTACCTTTTGACCATGGCAA
131 ATTAAAATAATATCTACTTAAGTTTGAATAGTAAAAGGAGTTTTACCTTTTGACCATGGCAA
* *
19481 ATTAAAAGATAAATTTTTTAATTTGAATATTAGTAAGATAATTAAT-TTTTGAATATG-ACAATT
1 ATTAAAAAATAAA--TTTTAATTTGAATATTAGTAAGATAATTAATCTTTT-AATAAGTA-AATT
* *
19544 T-AAAAAGATATTTGTTACCTTTTTAACTTTT-AATATTAAAGATAAGTATATATA-TATTT-TA
62 TAAAAAAGATATTTGTTACATTTTTAA-TTTTGAATATTAAAAATAA-T-TATATACT-TTTATA
* * *
19605 TACTTCAAATTAAAATAATATCTATTTAAGTTTGAATGGTAAAAGGAGTTTTATCTTTTGA
123 TACTTCAAATTAAAATAATATCTACTTAAGTTTGAATAGTAAAAGGAGTTTTACCTTTTGA
19666 ATATTTTAAA
Statistics
Matches: 161, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
191 12 0.07
192 41 0.25
193 88 0.55
194 20 0.12
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.44
Consensus pattern (192 bp):
ATTAAAAAATAAATTTTAATTTGAATATTAGTAAGATAATTAATCTTTTAATAAGTAAATTTAAA
AAAGATATTTGTTACATTTTTAATTTTGAATATTAAAAATAATTATATACTTTTATATACTTCAA
ATTAAAATAATATCTACTTAAGTTTGAATAGTAAAAGGAGTTTTACCTTTTGACCATGGCAA
Found at i:22489 original size:190 final size:191
Alignment explanation
Indices: 22158--22743 Score: 764
Period size: 190 Copynumber: 3.1 Consensus size: 191
22148 CTTTTTTATT
*
22158 ATTGCAAATTAAAATG-TAATTTTTAATTTGAATATTAGTAGAATAATTACTT-TTTCAATAAGA
1 ATTGCAAATTAAAA-GATAATTTTTAATTTGAATATTAGTAGGATAATTA-TTCTTTCAATAAG-
* * *
22221 T-AATTTAAAAAGGTATTTGTTATATTTTTAATTTTGACTATTAAAAGATAATTATATAATTTTG
63 TCAATTTAAAAAGATATTTGTTATCTTTTTAATTTTGAATATTAAAAGATAATTATATAATTTTG
* *
22285 TATATTTTAAATTAAAATAATATTTGTTTAAGTTTGAATAGTAAAAGGAGTTTTCCTTTTGACC
128 TATATTTCAAATTAAAATAATATTTGTTTAAGTTTGAATAGTAAAAAGAGTTTTCCTTTTGACC
* *
22349 ATTGCAAATTAAAAGATAATTTTT-ATTTGAATATTTGTAGGATAATTATTCTTTTAATAAGTCA
1 ATTGCAAATTAAAAGATAATTTTTAATTTGAATATTAGTAGGATAATTATTCTTTCAATAAGTCA
* *
22413 ATTTAAAAAGATATTTGTTATCTTTTTAATTTTGAATATTAAAAGATAATTAAATACTTTTGTAT
66 ATTTAAAAAGATATTTGTTATCTTTTTAATTTTGAATATTAAAAGATAATTATATAATTTTGTAT
* *
22478 ATTTCAAATTAAAATAATATTTGTTTAAGTTTGAATAGTAAAAAAAGTTTACCTTTTGACC
131 ATTTCAAATTAAAATAATATTTGTTTAAGTTTGAATAGTAAAAAGAGTTTTCCTTTTGACC
* * * * * *
22539 ATTGTAAATT-AAATAT-ATTATTTAATTTGAATATTAGTAAGATAATTACTCTTTGAAT--GCC
1 ATTGCAAATTAAAAGATAATT-TTTAATTTGAATATTAGTAGGATAATTATTCTTTCAATAAGTC
* * * *
22600 AATTTAAAAAAAATATTTGTTA-CCTTTTAACTTTGAATATT-AAAGATAATTATAT-TTTTTGT
65 AATTT-AAAAAGATATTTGTTATCTTTTTAATTTTGAATATTAAAAGATAATTATATAATTTTGT
* * * * **
22662 ATATTTCAAATTAAAATAATATCTATTTAAGTTTGAAT-GTTAAAATGAGTTTTATCTTTTGAAT
129 ATATTTCAAATTAAAATAATATTTGTTTAAGTTTGAATAG-TAAAAAGAGTTTT-CCTTTTGACC
*
22726 ATTTCAAATTAAAAGATA
1 ATTGCAAATTAAAAGATA
22744 TTATTATCTA
Statistics
Matches: 350, Mismatches: 35, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
185 1 0.00
186 52 0.15
187 28 0.08
188 32 0.09
189 26 0.07
190 189 0.54
191 22 0.06
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (191 bp):
ATTGCAAATTAAAAGATAATTTTTAATTTGAATATTAGTAGGATAATTATTCTTTCAATAAGTCA
ATTTAAAAAGATATTTGTTATCTTTTTAATTTTGAATATTAAAAGATAATTATATAATTTTGTAT
ATTTCAAATTAAAATAATATTTGTTTAAGTTTGAATAGTAAAAAGAGTTTTCCTTTTGACC
Found at i:26065 original size:16 final size:16
Alignment explanation
Indices: 26037--26069 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26027 GTGTTGTATT
26037 ATGTTGTGTTAATTGA
1 ATGTTGTGTTAATTGA
26053 ATGTT-TGTCTAATTGA
1 ATGTTGTGT-TAATTGA
26069 A
1 A
26070 AAATTGATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.48
Consensus pattern (16 bp):
ATGTTGTGTTAATTGA
Found at i:29413 original size:2 final size:2
Alignment explanation
Indices: 29406--29433 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
29396 ATAATAATAC
29406 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
29434 GAAAATAAAA
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
Found at i:29555 original size:24 final size:23
Alignment explanation
Indices: 29508--29560 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
29498 ATATATACAT
*
29508 AAATAATAATATTAATATTGAAAA
1 AAATAATAATAGTAATATT-AAAA
*
29532 TAATAATAATAGTAAT-TGTAAAA
1 AAATAATAATAGTAATAT-TAAAA
29555 AAATAA
1 AAATAA
29561 AAGAAAATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (23 bp):
AAATAATAATAGTAATATTAAAA
Found at i:31030 original size:20 final size:20
Alignment explanation
Indices: 31007--31048 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
30997 GAATCCTTCG
31007 TCGTGAAATTGAAATCGAAC
1 TCGTGAAATTGAAATCGAAC
*
31027 TCGTGAAGTTGAAATCGAAC
1 TCGTGAAATTGAAATCGAAC
31047 TC
1 TC
31049 AGAGTTCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGTGAAATTGAAATCGAAC
Found at i:31500 original size:105 final size:105
Alignment explanation
Indices: 31312--31822 Score: 968
Period size: 105 Copynumber: 4.9 Consensus size: 105
31302 AAATCGAACT
* *
31312 TGTTTATTGACAACCAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
*
31377 CCTTCGTTGTGAAGTTGAAATTGGCTCCGAATTTGAGAAA
66 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA
*
31417 TATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
31482 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA
66 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA
*
31522 TGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
31587 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA
66 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA
31627 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
1 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
31692 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA
66 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA
*
31732 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGATTCCAATAT
1 TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
31797 CCTTCGTTGTGAAGTTGAAATTGGCT
66 CCTTCGTTGTGAAGTTGAAATTGGCT
31823 ATGGGTAAAA
Statistics
Matches: 398, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 398 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (105 bp):
TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
CCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAA
Found at i:32050 original size:1 final size:1
Alignment explanation
Indices: 32044--32073 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
32034 CACATTTTGG
32044 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
32074 GGAGATGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:43537 original size:24 final size:23
Alignment explanation
Indices: 43490--43542 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 23
43480 ATATATACAT
* *
43490 AAATAATAATATTAATATTGAAAA
1 AAATAATAATAGTAATAGT-AAAA
* *
43514 TAATAATAATAGTAATGGTAAAA
1 AAATAATAATAGTAATAGTAAAA
43537 AAATAA
1 AAATAA
43543 AAGAAAATGG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (23 bp):
AAATAATAATAGTAATAGTAAAA
Found at i:49958 original size:25 final size:24
Alignment explanation
Indices: 49930--49977 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
49920 GTTCGTGAAC
49930 GTTCGATTATGTATCGTTTATGTTT
1 GTTCGATTATGT-TCGTTTATGTTT
*
49955 GTTCGGTTATGTTCGTTTATGTT
1 GTTCGATTATGTTCGTTTATGTT
49978 CATTCATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.12, C:0.08, G:0.23, T:0.56
Consensus pattern (24 bp):
GTTCGATTATGTTCGTTTATGTTT
Found at i:49988 original size:24 final size:24
Alignment explanation
Indices: 49936--49991 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
49926 GAACGTTCGA
** *
49936 TTATGTATCGTTTATGTTTGTTCGG
1 TTATGT-TCGTTTATGTTCATTCAG
*
49961 TTATGTTCGTTTATGTTCATTCAT
1 TTATGTTCGTTTATGTTCATTCAG
49985 TTATGTT
1 TTATGTT
49992 TAACCCAGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 21 0.78
25 6 0.22
ACGTcount: A:0.14, C:0.09, G:0.18, T:0.59
Consensus pattern (24 bp):
TTATGTTCGTTTATGTTCATTCAG
Found at i:52955 original size:28 final size:28
Alignment explanation
Indices: 52926--52986 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
52916 AACAATGCAT
*
52926 AAACAAATTCTAGAGTAAAGTTTGTTATA
1 AAAC-AATGCTAGAGTAAAGTTTGTTATA
*
52955 AAACTATGCTAGAGTAAAGTTTGTTATA
1 AAACAATGCTAGAGTAAAGTTTGTTATA
52983 AAAC
1 AAAC
52987 TCTCTTACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 26 0.87
29 4 0.13
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (28 bp):
AAACAATGCTAGAGTAAAGTTTGTTATA
Found at i:53316 original size:22 final size:22
Alignment explanation
Indices: 53266--53317 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
53256 TTATTAGAAA
53266 ATTTCAACTTTTTCTAAAAATT
1 ATTTCAACTTTTTCTAAAAATT
* *
53288 ATCTCAAGTTTTTC-ACAAAGA-T
1 ATTTCAACTTTTTCTA-AAA-ATT
53310 ATTTCAAC
1 ATTTCAAC
53318 ACTACTCCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.37, C:0.17, G:0.04, T:0.42
Consensus pattern (22 bp):
ATTTCAACTTTTTCTAAAAATT
Found at i:58214 original size:230 final size:227
Alignment explanation
Indices: 57807--58256 Score: 792
Period size: 230 Copynumber: 2.0 Consensus size: 227
57797 GTAAATTATC
* * *
57807 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
57872 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
57937 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATT
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATT
58002 GAAACATAAATTACATAACTTTCAAAAAAGTATA
195 GAAACATAAATTACATAACTTT-AAAAAAGTATA
*
58036 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
58101 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
58166 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
58231 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
58257 GCAGTTATAA
Statistics
Matches: 211, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
228 4 0.02
229 66 0.31
230 141 0.67
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:58345 original size:20 final size:19
Alignment explanation
Indices: 58322--58366 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
58312 CGATATACCA
58322 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
58342 GGTAACAAATGATAAAACC
1 GGTAAAAAATGATAAAACC
58361 GGTAAA
1 GGTAAA
58367 TTTAAAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.53, C:0.11, G:0.18, T:0.18
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:58512 original size:20 final size:19
Alignment explanation
Indices: 58489--58535 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
58479 CGATATAATA
58489 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
58509 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
58529 GGTAAAA
1 GGTAAAA
58536 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:58537 original size:17 final size:19
Alignment explanation
Indices: 58498--58540 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
58488 AGGTAAAAAT
58498 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
58518 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
58535 ATGATA
1 ATGATA
58541 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:60813 original size:21 final size:21
Alignment explanation
Indices: 60767--60830 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
60757 AAGACAATCA
* *
60767 AGAGTCGAAGAG-AACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
60788 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
60808 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
60829 AG
1 AG
60831 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 10 0.29
21 25 0.71
ACGTcount: A:0.39, C:0.16, G:0.30, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:60906 original size:33 final size:33
Alignment explanation
Indices: 60864--60929 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
60854 AAATAGATGG
*
60864 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
60897 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
60930 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:62739 original size:19 final size:19
Alignment explanation
Indices: 62715--62763 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
62705 AATGTAGGGT
62715 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
62734 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
62753 T-ATTTTCGTAT
1 TAATTTT-GTAT
62764 GTGAATATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.31, C:0.04, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:63776 original size:393 final size:394
Alignment explanation
Indices: 62888--64163 Score: 2470
Period size: 393 Copynumber: 3.2 Consensus size: 394
62878 GGCCAAAAGG
62888 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
62953 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
63018 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
63083 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
195 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
*
63148 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAATGGAAAACAGGGTG
260 ATGTGTCGACACTAATATAGTTTGTGTCGATA--TTTATTTCCAGAATGAATGGAAAACAGGGTG
63213 CACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATA
323 CACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
63277 ATGTAAT
388 ATGTAAT
63284 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
63349 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA-CC
63414 ATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
63477 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
195 AATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATA
63542 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA
260 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA
63607 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
325 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
63672 GTAAT
390 GTAAT
63677 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
63742 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
63807 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
63872 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAA
196 ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAA
63937 TGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGG-AAACAGGGTGCAC
261 TGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCAC
64001 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
326 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
64066 TAAT
391 TAAT
64070 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
64135 TGTCGACACTAATATAGTTTGTGTCGATA
66 TGTCGACACTAATATAGTTTGTGTCGATA
64164 CTAATTTAAA
Statistics
Matches: 874, Mismatches: 2, Indels: 11
0.99 0.00 0.01
Matches are distributed among these distances:
392 109 0.12
393 348 0.40
394 238 0.27
395 62 0.07
396 117 0.13
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (394 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAA
TGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCAC
CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAAT
Found at i:63800 original size:197 final size:197
Alignment explanation
Indices: 62888--64163 Score: 2470
Period size: 196 Copynumber: 6.5 Consensus size: 197
62878 GGCCAAAAGG
62888 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
62953 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
66 TGTCGACACTAATATAGTTTGTGTCGATA-TTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
63018 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
63083 AAT
195 AAT
63086 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
63151 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAATGGAAAACAGGGTGCAC
66 TGTCGACACTAATATAGTTTGTGTCGATA--TTTATTTCCAGAATGAATGGAAAACAGGGTGCAC
63216 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATG
129 CATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
63280 TAAT
194 TAAT
63284 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
63349 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCC
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCA-CC
63414 ATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATGT
130 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
63477 AAT
195 AAT
63480 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
63545 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
63610 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
63675 AT
196 AT
63677 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
63742 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
63807 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
63872 AT
196 AT
63874 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
63939 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGG-AAACAGGGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
64003 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
64068 AT
196 AT
64070 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
64135 TGTCGACACTAATATAGTTTGTGTCGATA
66 TGTCGACACTAATATAGTTTGTGTCGATA
64164 CTAATTTAAA
Statistics
Matches: 1073, Mismatches: 1, Indels: 10
0.99 0.00 0.01
Matches are distributed among these distances:
195 23 0.02
196 410 0.38
197 349 0.33
198 203 0.19
199 88 0.08
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (197 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACCA
TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
AT
Found at i:65641 original size:18 final size:18
Alignment explanation
Indices: 65620--65681 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
65610 AGCGGTCGCA
65620 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
65638 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
65656 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
65674 GAAGATGA
1 GAAGATGA
65682 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:65644 original size:6 final size:6
Alignment explanation
Indices: 65620--65705 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
65610 AGCGGTCGCA
* * * * * *
65620 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * *
65668 GGCGAT GAAGAT GATGAC GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
65706 TGATCCAAAC
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:65655 original size:3 final size:3
Alignment explanation
Indices: 65635--65709 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
65625 TGAAGCTGAC
* * * * * ** *
65635 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
65683 GAC GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
65710 CCAAACAAGT
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:65674 original size:36 final size:36
Alignment explanation
Indices: 65623--65701 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
65613 GGTCGCAGAA
*
65623 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
65659 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
65695 GATGAAG
1 GATGAAG
65702 ATGATGATCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.20
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:65709 original size:12 final size:12
Alignment explanation
Indices: 65623--65705 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
65613 GGTCGCAGAA
*
65623 GATGAAGCTGAC
1 GATGAAGATGAC
65635 GATGAAGATGAC
1 GATGAAGATGAC
*
65647 GATGATGATGAC
1 GATGAAGATGAC
* *
65659 GATGAAGCTGGC
1 GATGAAGATGAC
*
65671 GATGAAGATGAT
1 GATGAAGATGAC
* * *
65683 GACGATGATGAT
1 GATGAAGATGAC
65695 GATGAAGATGA
1 GATGAAGATGA
65706 TGATCCAAAC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.20
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:67503 original size:183 final size:183
Alignment explanation
Indices: 67171--67796 Score: 1146
Period size: 183 Copynumber: 3.4 Consensus size: 183
67161 CTTTCAACAT
** * * * * *
67171 ATTATAATAAAATAGGTAA-TTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
67235 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
67300 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
67353 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
67418 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
67483 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
67536 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
67601 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
67666 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
* * *
67719 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
*
67784 TGTCTACAACCTA
66 GGTCTACAACCTA
67797 AAATGTGTCG
Statistics
Matches: 432, Mismatches: 11, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
182 16 0.04
183 416 0.96
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACAGGTATAAATATACCGGTTGTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:70330 original size:28 final size:23
Alignment explanation
Indices: 70274--70327 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
70264 TAACTACAAG
*
70274 TATATAATGTAATAGGTATCGTT
1 TATATAATGTAATAGGTAGCGTT
*
70297 TATATAATGTAATAGGTAGCGCT
1 TATATAATGTAATAGGTAGCGTT
70320 TATATAAT
1 TATATAAT
70328 ATATTGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.41
Consensus pattern (23 bp):
TATATAATGTAATAGGTAGCGTT
Found at i:70778 original size:18 final size:18
Alignment explanation
Indices: 70757--70793 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
70747 GTAATTGGAG
70757 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
70775 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
70793 T
1 T
70794 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:70801 original size:24 final size:24
Alignment explanation
Indices: 70749--70795 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
70739 TTTCATATGT
* *
70749 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
70773 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
70796 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:71093 original size:39 final size:39
Alignment explanation
Indices: 71050--71136 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
71040 TCCGATGCTC
*
71050 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
71089 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
71128 ATCAAAATC
1 ATCAAAATC
71137 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:71588 original size:23 final size:23
Alignment explanation
Indices: 71557--71629 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
71547 ATAGGTAAAA
*
71557 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
71580 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
71603 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
71626 ATAT
1 ATAT
71630 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:72019 original size:23 final size:23
Alignment explanation
Indices: 71988--72060 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
71978 ATAGGTAAAA
*
71988 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
72011 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
72034 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
72057 ATAT
1 ATAT
72061 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:72282 original size:432 final size:433
Alignment explanation
Indices: 71346--72834 Score: 2850
Period size: 432 Copynumber: 3.5 Consensus size: 433
71336 TTATCTTTGG
71346 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTAT-AAATATCAAATAATCAAATAATTTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
*
71410 TTGTGCAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAAAAAAAT
66 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
*
71475 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAGGTATGGACACTTT
131 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
71540 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
196 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
71605 ATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTT
261 ATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTT
71670 TTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTA
326 TTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTA
71735 ATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATAT-
391 ATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
*
71777 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
71842 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAAT
66 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
71906 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
131 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
71971 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
196 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
72036 ATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTT
261 ATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTT
*
72101 TTTCACTGTGGAAAACATTAATTTAAGATTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTA
326 TTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTA
72166 ATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
391 ATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
72209 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
72274 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
66 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
72339 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTAT-AAAAGTATGGACACTTT
131 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
72403 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
196 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
72468 ATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTT
261 ATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTT
*
72533 TTTCACTGTTGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTA
326 TTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTA
72598 ATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
391 ATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
*
72641 TT-A--TTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
1 TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
*
72703 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-CAAAAAAT
66 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
*
72767 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATTCTTTTTATAAAAAGTATGGACACTTT
131 TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
72832 CAA
196 CAA
72835 CATATTATAA
Statistics
Matches: 1044, Mismatches: 10, Indels: 10
0.98 0.01 0.01
Matches are distributed among these distances:
428 53 0.05
429 134 0.13
431 348 0.33
432 454 0.43
433 55 0.05
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (433 bp):
TTAATGTTGTTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
TGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
ATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTT
TTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTA
ATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATA
Found at i:72451 original size:23 final size:23
Alignment explanation
Indices: 72420--72492 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
72410 ATAGGTAAAA
*
72420 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
72443 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
72466 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
72489 ATAT
1 ATAT
72493 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:77274 original size:11 final size:11
Alignment explanation
Indices: 77258--77320 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
77248 GTATTATAGA
77258 ATTTTTAATAT
1 ATTTTTAATAT
77269 ATTTTTAA-A-
1 ATTTTTAATAT
77278 ATTTTATAAT-T
1 ATTTT-TAATAT
*** *
77289 ATCAATAATGT
1 ATTTTTAATAT
*
77300 AGTTTTAATAT
1 ATTTTTAATAT
77311 ATTTTTAATA
1 ATTTTTAATA
77321 ATGTAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 8 0.21
11 26 0.67
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.56
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:79878 original size:78 final size:79
Alignment explanation
Indices: 79790--79947 Score: 255
Period size: 79 Copynumber: 2.0 Consensus size: 79
79780 AAAAAATAAC
*
79790 ATTTTAGGTAGCGCACAATATTAACATTTCCGGTAG-AAAAATAATGTTTTAGGTAGCGCTTTAT
1 ATTTTAGGTAGCGCACAATATTAACATTTCCGGTAGAAAAAATAATGTTTTAGGTAGCGCTTTAC
*
79854 TGGAAATGTTAAAA
66 CGGAAATGTTAAAA
* * * *
79868 ATTTTAGGTAGTGCGCAATATTAACATTTCTGGTAGAAAAAATAATGTTTTAGGTAGCGTTTTAC
1 ATTTTAGGTAGCGCACAATATTAACATTTCCGGTAGAAAAAATAATGTTTTAGGTAGCGCTTTAC
79933 CGGAAATGTTAAAA
66 CGGAAATGTTAAAA
79947 A
1 A
79948 AAATATTAAC
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 33 0.45
79 40 0.55
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (79 bp):
ATTTTAGGTAGCGCACAATATTAACATTTCCGGTAGAAAAAATAATGTTTTAGGTAGCGCTTTAC
CGGAAATGTTAAAA
Found at i:80029 original size:7 final size:7
Alignment explanation
Indices: 80017--80041 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
80007 AGACATCTCC
80017 TATTTTG
1 TATTTTG
80024 TATTTTG
1 TATTTTG
80031 TATTTTG
1 TATTTTG
80038 TATT
1 TATT
80042 ACATTCCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (7 bp):
TATTTTG
Found at i:99230 original size:60 final size:56
Alignment explanation
Indices: 99084--99242 Score: 140
Period size: 60 Copynumber: 2.7 Consensus size: 56
99074 TGGACTTAGG
* * * * * *
99084 AGCCAACCTAAGAGAGAGCCTTTGGTCCATAAGGACTTACCCTAACCGAAGCATAGG
1 AGCC-ACCTAAGGGAGTGCCTTAGGTCCATAAGGACTTACCCTAACCAAAGCAAAGA
* * *
99141 AGCCACCTGAAGGGAGTGCCCTCAAGTCCATAAGGACTTACCC-AATGCATAAAGCAAAGA
1 AGCCACCT-AAGGGAGTG-CCTTAGGTCCATAAGGACTTACCCTAA--C-CAAAGCAAAGA
* *
99201 AGCCACCCTAAGGGAGTGCCTTAGGGTCCATAAAGTCTTACC
1 AGCCA-CCTAAGGGAGTGCCTTA-GGTCCATAAGGACTTACC
99243 GCTCGTCCAT
Statistics
Matches: 82, Mismatches: 13, Indels: 11
0.77 0.12 0.10
Matches are distributed among these distances:
56 4 0.05
57 13 0.16
58 21 0.26
59 5 0.06
60 36 0.44
61 3 0.04
ACGTcount: A:0.33, C:0.27, G:0.23, T:0.18
Consensus pattern (56 bp):
AGCCACCTAAGGGAGTGCCTTAGGTCCATAAGGACTTACCCTAACCAAAGCAAAGA
Found at i:106682 original size:46 final size:46
Alignment explanation
Indices: 106606--106695 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
106596 ACCACTATGT
* * *
106606 ATTTTCATTTGTGGCATCATTTCATTCCAATTATGCACTGTTATAC
1 ATTTTCATTTATGGCATCATTTCATGCCAATTATGCACAGTTATAC
* *
106652 ATTTTCATTTATGGCATCCTTTCCTGCCAATTATGCACAGTTAT
1 ATTTTCATTTATGGCATCATTTCATGCCAATTATGCACAGTTAT
106696 TCATCTAACT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.44
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCATTTCATGCCAATTATGCACAGTTATAC
Found at i:107191 original size:54 final size:54
Alignment explanation
Indices: 106991--107202 Score: 300
Period size: 55 Copynumber: 3.9 Consensus size: 54
106981 CTACCAATAC
* * *
106991 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTACACACAAAGTGCCCGTAT
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTG-CCATAA
* *
107046 GAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTTCACATACA
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGC-CATA-A
* * * *
107102 -GAAATTCATAAACTTATTATGAATTACTTAATTTTGCACATATAGTGCCATAA
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCATAA
*
107155 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACATAGTG
1 GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTG
107203 TGAATTTCTT
Statistics
Matches: 140, Mismatches: 14, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.01
54 49 0.35
55 90 0.64
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (54 bp):
GGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCATAA
Found at i:107194 original size:109 final size:110
Alignment explanation
Indices: 106987--107197 Score: 334
Period size: 109 Copynumber: 1.9 Consensus size: 110
106977 TCCACTACCA
* * * * *
106987 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTACACACAAAGTGCCCGTATGAAAAT
1 ATACAGAAATTCATAAACTTATTATGAATTACTTAATTTTACACACAAAGTGCCCATAAGAAAAT
107052 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTTCAC
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTTCAC
* * * *
107097 ATACAGAAATTCATAAACTTATTATGAATTACTTAATTTTGCACATATAGTG-CCATAAGGAAAT
1 ATACAGAAATTCATAAACTTATTATGAATTACTTAATTTTACACACAAAGTGCCCATAAGAAAAT
107161 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACA
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACA
107198 TAGTGTGAAT
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
109 46 0.50
110 46 0.50
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (110 bp):
ATACAGAAATTCATAAACTTATTATGAATTACTTAATTTTACACACAAAGTGCCCATAAGAAAAT
TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTTCAC
Found at i:107215 original size:28 final size:28
Alignment explanation
Indices: 107175--107230 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
107165 AAACTTATTA
*
107175 TGAATTTCTTAGTTTTGCACACATAGTG
1 TGAATTTCTTAGTTTTGCACACAAAGTG
107203 TGAATTTCTTAGTTTTGCACACAAAGTG
1 TGAATTTCTTAGTTTTGCACACAAAGTG
107231 CCCATACGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (28 bp):
TGAATTTCTTAGTTTTGCACACAAAGTG
Found at i:107259 original size:83 final size:82
Alignment explanation
Indices: 107121--107285 Score: 267
Period size: 83 Copynumber: 2.0 Consensus size: 82
107111 AAACTTATTA
* * *
107121 TGAATTACTTAATTTTGCACATATAGTGCCATAAGGAAATTCATAAACTTATTATGAATTTCTTA
1 TGAATTACTTAATTTTGCACACAAAGTGCCATAAGGAAATTCATAAACTTATTATGAATTTATTA
107186 GTTTTGCACACATAGTG
66 GTTTTGCACACATAGTG
* * *
107203 TGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTTATTATGAATTTATT
1 TGAATTACTTAATTTTGCACACAAAGTG-CCATAAGGAAATTCATAAACTTATTATGAATTTATT
107268 AGTTTTGCACACATAGTG
65 AGTTTTGCACACATAGTG
107286 CCCATATGAA
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
82 24 0.32
83 52 0.68
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (82 bp):
TGAATTACTTAATTTTGCACACAAAGTGCCATAAGGAAATTCATAAACTTATTATGAATTTATTA
GTTTTGCACACATAGTG
Found at i:108476 original size:55 final size:55
Alignment explanation
Indices: 107203--108475 Score: 2088
Period size: 55 Copynumber: 23.2 Consensus size: 55
107193 ACACATAGTG
*
107203 TGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
* * *
107258 TGAATTTATTAGTTTTGCACACATAGTGCCCATATGAAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
*
107313 TGAATTTCTTAGTTTTGCACACGA-AGTGCCCATACGAAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACAC-ATAGTGCCCATACGGAAATTCATAAACTTATTA
*
107368 TGAATTTATTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
*
107423 TGAATTTCTTAG-TTT--ACACATAGTGCCCTTACGGAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
* *
107475 TGAATTTCTTAGTTTTGCACACAAAGTGCCCATATGGAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
* * *
107530 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACAGAAATTCAAAAACTTATTG
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
* *
107585 TGAATTTCTTAGTTTTGCACACATAGTGCCCTTACGAAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
*
107640 TGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
* * * *
107695 TGAATTTATTAGTTTTGCACACATAGTGCCCATACGAAAATTCTTAATCTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
* *
107750 TGAATTTCTTAGTTTTGCACACATAGTTCCCAAACGGAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
* *
107805 TGAATTTCTTAGTTTTGCACACGA-AGTGACCATACGAAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACAC-ATAGTGCCCATACGGAAATTCATAAACTTATTA
*
107860 TGAATTTATTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
*
107915 TGAATTTCTTAGTTTTGCACACATAGTGCACATACGGAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
* *
107970 TGAATTTCTTAGTTTTGCACACATAGTGCCCTTACGGAAATTCATAAGCTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
* * * *
108025 TAAATTTCTTAGTTTTGCGCACAAAGTGCCCATATGGAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
* **
108080 TGAATTTCTTAGTTTTGCACACATATTGCCCATAAAGAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
*
108135 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAAATTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
* *
108190 TGAATTTCTTAGTTTCGCACACATAGTGCTCATACGGAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
* * * *
108245 TGAATTTCTTAGTTTCGTACGCAAAGTGCCCATACGGAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
*
108300 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGAAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
*
108355 TGAATTTCTTATTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
* *
108410 TGAATTTCTTAATTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTTATTA
1 TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
108465 TGAATTTCTTA
1 TGAATTTCTTA
108476 ACTTTTTGCA
Statistics
Matches: 1130, Mismatches: 81, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
52 48 0.04
53 3 0.00
54 5 0.00
55 1072 0.95
56 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (55 bp):
TGAATTTCTTAGTTTTGCACACATAGTGCCCATACGGAAATTCATAAACTTATTA
Found at i:109354 original size:28 final size:28
Alignment explanation
Indices: 109322--109384 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
109312 TCTCAATTAT
109322 TTCATCCATCTCTTAGTTTTAATCTTAA
1 TTCATCCATCTCTTAGTTTTAATCTTAA
*
109350 TTCATCCATCTCTTAGTTTTAATCTTAT
1 TTCATCCATCTCTTAGTTTTAATCTTAA
109378 TTCATCC
1 TTCATCC
109385 TTCCTTAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.22, C:0.24, G:0.03, T:0.51
Consensus pattern (28 bp):
TTCATCCATCTCTTAGTTTTAATCTTAA
Found at i:110808 original size:2 final size:2
Alignment explanation
Indices: 110793--110946 Score: 62
Period size: 2 Copynumber: 81.5 Consensus size: 2
110783 TTGTTTTATT
*
110793 TA TA TA T- TA T- TA TA TA T- TA TA GTA TA TA TA CA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
110832 TA -A T- TA TA TT TA TG T- TA TA TA TT TA TA TA T- TA TA TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
110870 TA GTA TT TG TA TT TA TA TA TA TA T- TA TA -A TA TT TT TT TA AA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
110911 AA TA TA GTA TA TA TA TA T- TA TA TT TA T- TT TA TA TA T
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
110947 TGTAAATATT
Statistics
Matches: 116, Mismatches: 21, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
1 12 0.10
2 98 0.84
3 6 0.05
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (2 bp):
TA
Found at i:110932 original size:9 final size:9
Alignment explanation
Indices: 110920--110973 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
110910 AAATATAGTA
110920 TATATATAT
1 TATATATAT
*
110929 TATATTTAT
1 TATATATAT
*
110938 TTTATATAT
1 TATATATAT
* *
110947 TGTAAATAT
1 TATATATAT
110956 TAT-TATAT
1 TATATATAT
110964 T-TAT-TAT
1 TATATATAT
110971 TAT
1 TAT
110974 TATTTATTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
7 5 0.14
8 7 0.19
9 24 0.67
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (9 bp):
TATATATAT
Found at i:110943 original size:18 final size:17
Alignment explanation
Indices: 110926--110990 Score: 59
Period size: 16 Copynumber: 4.1 Consensus size: 17
110916 AGTATATATA
110926 TATTATATTTATTTTA-
1 TATTATATTTATTTTAT
* **
110942 TA-TAT-TGTAAAT-AT
1 TATTATATTTATTTTAT
110956 TATTATATTTATTATTAT
1 TATTATATTTATT-TTAT
110974 TATT-TATTTATTTTAT
1 TATTATATTTATTTTAT
110990 T
1 T
110991 TTCCGGTCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
13 1 0.03
14 6 0.16
15 6 0.16
16 10 0.26
17 9 0.24
18 6 0.16
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TATTATATTTATTTTAT
Found at i:110962 original size:30 final size:30
Alignment explanation
Indices: 110789--110989 Score: 146
Period size: 32 Copynumber: 6.6 Consensus size: 30
110779 AATATTGTTT
**
110789 TATT-TATATATTATTATATATTATAGTATA
1 TATTATATATATTATTATAT-TTATTTTATA
* *
110819 TATACATATATATTAATTATATTTATGTTATA
1 TAT-TATATATATT-ATTATATTTATTTTATA
* * *
110851 TATT-TATATATTATATAGATAGTATTTGTATT
1 TATTATATATATTAT-TATAT-TTATTT-TATA
* *
110883 TA-TATATATATTATAATATTT-TTTTAAA
1 TATTATATATATTATTATATTTATTTTATA
*
110911 AATATAGTATATATATATTATATTTATTTTATA
1 TAT-TA-TATATAT-TATTATATTTATTTTATA
* *
110944 TATTGTAAATATTATTATATTTATTATTAT-
1 TATTATATATATTATTATATTTATT-TTATA
*
110974 TATT-TATTTATT-TTAT
1 TATTATATATATTATTAT
110990 TTTCCGGTCC
Statistics
Matches: 137, Mismatches: 21, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
28 7 0.05
29 11 0.08
30 35 0.26
31 25 0.18
32 44 0.32
33 15 0.11
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
TATTATATATATTATTATATTTATTTTATA
Found at i:111836 original size:25 final size:24
Alignment explanation
Indices: 111808--111878 Score: 97
Period size: 24 Copynumber: 2.9 Consensus size: 24
111798 ACTCAAAAAA
* *
111808 AAAATTAGAAGTTCGATTGAAGCCT
1 AAAATTAG-AGCTCAATTGAAGCCT
*
111833 AAAATTTGAGCTCAATTGAAGCCT
1 AAAATTAGAGCTCAATTGAAGCCT
*
111857 AAAATTTGAGCTCAATTGAAGC
1 AAAATTAGAGCTCAATTGAAGC
111879 GAAAGAATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
24 36 0.84
25 7 0.16
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.28
Consensus pattern (24 bp):
AAAATTAGAGCTCAATTGAAGCCT
Found at i:111852 original size:24 final size:24
Alignment explanation
Indices: 111823--111878 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
111813 TAGAAGTTCG
111823 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
111847 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
111871 ATTGAAGC
1 ATTGAAGC
111879 GAAAGAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (24 bp):
ATTGAAGCCTAAAATTTGAGCTCA
Found at i:119303 original size:6 final size:6
Alignment explanation
Indices: 119289--119318 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
119279 AAGCCGAGAT
*
119289 TGAAAC TGAAGC TGAAGC TGAAGC TGAAGC
1 TGAAGC TGAAGC TGAAGC TGAAGC TGAAGC
119319 AGCAGCAGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.30, T:0.17
Consensus pattern (6 bp):
TGAAGC
Found at i:119439 original size:24 final size:23
Alignment explanation
Indices: 119390--119439 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
119380 AAAAGCAGAA
* *
119390 AAGAGAAGAGGAAAGAATGGAAG
1 AAGAGAAGAGGAAACAACGGAAG
* *
119413 AAGATGAAGAGGAAACAGCGGAGG
1 AAGA-GAAGAGGAAACAACGGAAG
119437 AAG
1 AAG
119440 GAGGCAGCGC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.52, C:0.04, G:0.40, T:0.04
Consensus pattern (23 bp):
AAGAGAAGAGGAAACAACGGAAG
Found at i:123001 original size:37 final size:37
Alignment explanation
Indices: 122951--123024 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
122941 TGATTTGCAT
122951 GTTTAATATATTCTTTTATTTGAAGATGCCACTGCTA
1 GTTTAATATATTCTTTTATTTGAAGATGCCACTGCTA
*
122988 GTTTAATATATTCTTTTATTTGAAGATGCCATTGCTA
1 GTTTAATATATTCTTTTATTTGAAGATGCCACTGCTA
123025 ATATTTCTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.47
Consensus pattern (37 bp):
GTTTAATATATTCTTTTATTTGAAGATGCCACTGCTA
Done.