Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 23 of 56
Found at i:4704643 original size:16 final size:17
Alignment explanation
Indices: 4704610--4704644 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4704600 TATTTATATA
*
4704610 TATATTTTTAATTTAAT
1 TATATTTTTAATTAAAT
4704627 TATATTTTTAA-TAAAT
1 TATATTTTTAATTAAAT
4704643 TA
1 TA
4704645 AAATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATATTTTTAATTAAAT
Found at i:4704721 original size:25 final size:23
Alignment explanation
Indices: 4704692--4704762 Score: 83
Period size: 23 Copynumber: 3.0 Consensus size: 23
4704682 TTTTTTAAAA
4704692 TTAAATTAATAATAAAATATATT
1 TTAAATTAATAATAAAATATATT
*
4704715 TAATAAATTGAT-ATAAAA-ATATT
1 T--TAAATTAATAATAAAATATATT
4704738 TTAAATTAATATATAAAATTATATT
1 TTAAATTAATA-ATAAAA-TATATT
4704763 ATATATAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
21 8 0.20
23 13 0.32
24 6 0.15
25 13 0.32
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (23 bp):
TTAAATTAATAATAAAATATATT
Found at i:4704744 original size:21 final size:21
Alignment explanation
Indices: 4704692--4704756 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 21
4704682 TTTTTTAAAA
4704692 TTAAATTAATAATAAAATATATT
1 TTAAATTAAT-ATAAAA-ATATT
*
4704715 TAATAAATTGATATAAAAATATT
1 T--TAAATTAATATAAAAATATT
4704738 TTAAATTAATATATAAAAT
1 TTAAATTAATATA-AAAAT
4704757 TATATTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
21 11 0.30
22 5 0.14
23 7 0.19
24 6 0.16
25 8 0.22
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (21 bp):
TTAAATTAATATAAAAATATT
Found at i:4705786 original size:39 final size:39
Alignment explanation
Indices: 4705743--4705823 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 39
4705733 TTCCTACATG
* **
4705743 GATAAAAGGCATGAAAGAGAAAGAATTCATGATGGTGAT
1 GATAAAAGGCAGGAAAGAGAAAGAATTCACAATGGTGAT
** * *
4705782 GATAATGGGCGGGAAAGAGAAAGAATTCGCAATGGTGAT
1 GATAAAAGGCAGGAAAGAGAAAGAATTCACAATGGTGAT
4705821 GAT
1 GAT
4705824 GATTCCAAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.42, C:0.06, G:0.32, T:0.20
Consensus pattern (39 bp):
GATAAAAGGCAGGAAAGAGAAAGAATTCACAATGGTGAT
Found at i:4709783 original size:117 final size:118
Alignment explanation
Indices: 4709577--4710152 Score: 851
Period size: 117 Copynumber: 4.9 Consensus size: 118
4709567 TACTATTCAT
* *
4709577 GTGAAGGCACGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATATTATCATTGCCCT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATATTATCATTGCCCT
* *
4709642 ATTATGTTACTCATGTCCCTC-GGGGACACTATTCATATCAATACCCAAAGTG
66 ATTATGTCACTCATGTCCCTCAGGGGACACTATTCATATCAGTACCCAAAGTG
* *
4709694 GTGAAAGCGCGTTCCCGGGGGCGCACCTTCGATTATTTTGTCAGAGAATATGTTATCATTGCCCT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATATTATCATTGCCCT
* * *
4709759 ATTATGTCACTCATGTCCCTCGGGGGA-ACTATTCATGTCAGTACCTAAAGTG
66 ATTATGTCACTCATGTCCCTCAGGGGACACTATTCATATCAGTACCCAAAGTG
*
4709811 GTGAAAGCGCGTTCCCGGGGGCGCGCATTCGATTATTTTGTCAGAGAATATATTATCATTGCCCT
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATATTATCATTGCCCT
* *
4709876 ATTATGTAAGTCATGTCCCTC-GGGG-CACTATTCATATCAGTACCCAAAGTG
66 ATTATGTCACTCATGTCCCTCAGGGGACACTATTCATATCAGTACCCAAAGTG
* * * * ** *
4709927 GTGAAAGCGCGTTCCCGGGGG-GTGCCTTCCATTATTTTGTGATAAGTGTATTTTATCATTGCCC
1 GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCA-GAGAATATATTATCATTGCCC
*
4709991 TATTATGTCACTCATGTCCCTCAGGGG-CACTATTCATGTCAGTACCCAAAGTG
65 TATTATGTCACTCATGTCCCTCAGGGGACACTATTCATATCAGTACCCAAAGTG
* * * * *
4710044 GTGAAAGCGTGTTCCCCTGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATATTATCATTGTCA
1 GTGAAAGCGCGTT-CCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATATTATCATTGCCC
*
4710109 TATTATGTCACTCATGTCCCTCAGGGGA-ACTATTCATGTCAGTA
65 TATTATGTCACTCATGTCCCTCAGGGGACACTATTCATATCAGTA
4710153 ACTATTATTT
Statistics
Matches: 416, Mismatches: 36, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
115 17 0.04
116 85 0.20
117 225 0.54
118 70 0.17
119 19 0.05
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.32
Consensus pattern (118 bp):
GTGAAAGCGCGTTCCCGGGGGCGCGCCTTCGATTATTTTGTCAGAGAATATATTATCATTGCCCT
ATTATGTCACTCATGTCCCTCAGGGGACACTATTCATATCAGTACCCAAAGTG
Found at i:4710203 original size:102 final size:103
Alignment explanation
Indices: 4710074--4710277 Score: 356
Period size: 102 Copynumber: 2.0 Consensus size: 103
4710064 GGCGCGCCTT
*
4710074 CCATTATTTTGTCAGAGAATATATTATCATTGTCATATTATGTCACTCATGTCCCTCAGGGGAAC
1 CCATTATTTTGTCAGAGAATATATTATCATTATCATATTATGTCACTCATGTCCCTCAGGGGAAC
4710139 TATTCATGTCAGTAACTATTATTTCTGAAGGGAATTGA
66 TATTCATGTCAGTAACTATTATTTCTGAAGGGAATTGA
* * *
4710177 CCATTATTTT-TCAGAGAATATGTTATCATTATCATATTATGTCACTCATGTCCCTCGGGGGCAC
1 CCATTATTTTGTCAGAGAATATATTATCATTATCATATTATGTCACTCATGTCCCTCAGGGGAAC
*
4710241 TATTCATGTCAGTACCTATTATTTCTGAAGGGAATTG
66 TATTCATGTCAGTAACTATTATTTCTGAAGGGAATTG
4710278 GCAAAGTGGT
Statistics
Matches: 96, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 86 0.90
103 10 0.10
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (103 bp):
CCATTATTTTGTCAGAGAATATATTATCATTATCATATTATGTCACTCATGTCCCTCAGGGGAAC
TATTCATGTCAGTAACTATTATTTCTGAAGGGAATTGA
Found at i:4710462 original size:23 final size:23
Alignment explanation
Indices: 4710414--4710463 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
4710404 TGAAGTTTGA
* * *
4710414 ATAAATTGGATAAAATGTTATGG
1 ATAAATTGAATAAAATGTGAAGG
4710437 ATAAATTGAAT-AAATGTGAAGTG
1 ATAAATTGAATAAAATGTGAAG-G
4710460 ATAA
1 ATAA
4710464 GTTGGTTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (23 bp):
ATAAATTGAATAAAATGTGAAGG
Found at i:4711240 original size:21 final size:20
Alignment explanation
Indices: 4711213--4711282 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 20
4711203 GTCATAAAAC
*
4711213 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
*
4711233 CCTGGCGGGCTAGGAATGAAA
1 CCT-GCGGGCTAGGAATGTAA
*
4711254 CCCTGAGGGCTAGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
4711275 CTCTGCGG
1 C-CTGCGG
4711283 AGATGGCATA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.10
21 35 0.83
22 3 0.07
ACGTcount: A:0.23, C:0.23, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:4713093 original size:31 final size:31
Alignment explanation
Indices: 4713026--4713126 Score: 93
Period size: 31 Copynumber: 3.3 Consensus size: 31
4713016 ACTGTAGCTC
* * *
4713026 AAAAAATAATTA-ATTAATA-AATTTAAAT-
1 AAAAAATAATTATATAAATATTATTTTAATA
*
4713054 AAATAATAATTATATAAATATTATTTTAATA
1 AAAAAATAATTATATAAATATTATTTTAATA
* *
4713085 AAAAAATAATATTTATAAA-ATTATATTAATA
1 AAAAAATAAT-TATATAAATATTATTTTAATA
*
4713116 TAAAATATAAT
1 -AAAAAATAAT
4713127 AACTATTTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
28 11 0.18
29 6 0.10
30 7 0.12
31 20 0.33
32 16 0.27
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (31 bp):
AAAAAATAATTATATAAATATTATTTTAATA
Found at i:4713101 original size:34 final size:31
Alignment explanation
Indices: 4713049--4713127 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 31
4713039 TTAATAAATT
* *
4713049 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAAT-ATT-TATAAA-ATTATATTAA
4713083 TAAAAAAATAATATTTATAAAATTATATTAA
1 TAAAAAAATAATATTTATAAAATTATATTAA
*
4713114 TATAAAATATAATA
1 TA-AAAAAATAATA
4713128 ACTATTTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 11 0.27
32 16 0.39
33 3 0.07
34 11 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (31 bp):
TAAAAAAATAATATTTATAAAATTATATTAA
Found at i:4713110 original size:14 final size:15
Alignment explanation
Indices: 4713054--4713122 Score: 50
Period size: 16 Copynumber: 4.3 Consensus size: 15
4713044 AAATTTAAAT
4713054 AAATAATAATTATATA
1 AAATAAT-ATTATATA
* * *
4713070 AATATTATTTTAATAAAA
1 AA-ATAATATT-AT-ATA
4713088 AAATAATATT-TATA
1 AAATAATATTATATA
*
4713102 AAATTATATTAATATA
1 AAATAATATT-ATATA
4713118 AAATA
1 AAATA
4713123 TAATAACTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
14 11 0.28
15 1 0.03
16 12 0.30
17 12 0.30
18 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATAATATTATATA
Found at i:4713145 original size:34 final size:33
Alignment explanation
Indices: 4713049--4713147 Score: 87
Period size: 34 Copynumber: 2.9 Consensus size: 33
4713039 TTAATAAATT
* * * *
4713049 TAAATAAATAATAATTATATAAATATTATT-TTAA
1 TAAAAAAATAATATTTATA-AAATAATATTAAT-A
*
4713083 TAAAAAAATAATATTTATAAAATTATATTAATA
1 TAAAAAAATAATATTTATAAAATAATATTAATA
4713116 TAAAATATAATAACTATTTA-AAAA-AATATTAA
1 TAAAA-A-AATAA-TATTTATAAAATAATATTAA
4713148 CTTAAGAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
33 14 0.25
34 26 0.47
35 9 0.16
36 6 0.11
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
TAAAAAAATAATATTTATAAAATAATATTAATA
Found at i:4714078 original size:19 final size:19
Alignment explanation
Indices: 4714056--4714092 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4714046 ATAATTATAT
* *
4714056 AAATATTTATTTTTTATTA
1 AAATAATTATTATTTATTA
4714075 AAATAATTATTATTTATT
1 AAATAATTATTATTTATT
4714093 TAGAATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
AAATAATTATTATTTATTA
Found at i:4714258 original size:17 final size:16
Alignment explanation
Indices: 4714236--4714289 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
4714226 TAATGTTAAT
4714236 ATTTAAATTTATTTTTA
1 ATTTAAA-TTATTTTTA
* *
4714253 ATTTAAAGTTATTATGA
1 ATTTAAA-TTATTTTTA
* *
4714270 ATTTATATTAATTTTA
1 ATTTAAATTATTTTTA
4714286 ATTT
1 ATTT
4714290 TTTATAATGC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 10 0.33
17 20 0.67
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (16 bp):
ATTTAAATTATTTTTA
Found at i:4715105 original size:322 final size:322
Alignment explanation
Indices: 4714520--4715163 Score: 1270
Period size: 322 Copynumber: 2.0 Consensus size: 322
4714510 AGGCTACAAT
4714520 TACATTGGAGGATGTCTCTATGCATCTGGGGCTTCCCGTCGACGGAAATATGATGTGTGGTATGG
1 TACATTGGAGGATGTCTCTATGCATCTGGGGCTTCCCGTCGACGGAAATATGATGTGTGGTATGG
4714585 CGGATGGTGATTGGCAGTCAATGTGCATTGATTATCTTGGAGTTGCTCTGCCAGAGTTTAATGGA
66 CGGATGGTGATTGGCAGTCAATGTGCATTGATTATCTTGGAGTTGCTCTGCCAGAGTTTAATGGA
4714650 GGTAGAATAGCTTTATCTTGGTTGAAAGCTAATTTTGAGGTTTTAAATGAAAATGCTTCAGAGGA
131 GGTAGAATAGCTTTATCTTGGTTGAAAGCTAATTTTGAGGTTTTAAATGAAAATGCTTCAGAGGA
* *
4714715 TCAAGCAAATGCATGTGCTCGGGCATATATTCTACGAATAATTGGAGGAATATTGATGCCCGACA
196 TCAAGCAAAGGCATGTGCTCGAGCATATATTCTACGAATAATTGGAGGAATATTGATGCCCGACA
4714780 AATCTCGCAACCAGGTGCATTGTATGTGGTTGCGACATCTGATCGATTTTGATGAAGCTGGA
261 AATCTCGCAACCAGGTGCATTGTATGTGGTTGCGACATCTGATCGATTTTGATGAAGCTGGA
4714842 TACATTGGAGGATGTCTCTATGCATCTGGGGCTTCCCGTCGACGGAAATATGATGTGTGGTATGG
1 TACATTGGAGGATGTCTCTATGCATCTGGGGCTTCCCGTCGACGGAAATATGATGTGTGGTATGG
4714907 CGGATGGTGATTGGCAGTCAATGTGCATTGATTATCTTGGAGTTGCTCTGCCAGAGTTTAATGGA
66 CGGATGGTGATTGGCAGTCAATGTGCATTGATTATCTTGGAGTTGCTCTGCCAGAGTTTAATGGA
4714972 GGTAGAATAGCTTTATCTTGGTTGAAAGCTAATTTTGAGGTTTTAAATGAAAATGCTTCAGAGGA
131 GGTAGAATAGCTTTATCTTGGTTGAAAGCTAATTTTGAGGTTTTAAATGAAAATGCTTCAGAGGA
4715037 TCAAGCAAAGGCATGTGCTCGAGCATATATTCTACGAATAATTGGAGGAATATTGATGCCCGACA
196 TCAAGCAAAGGCATGTGCTCGAGCATATATTCTACGAATAATTGGAGGAATATTGATGCCCGACA
4715102 AATCTCGCAACCAGGTGCATTGTATGTGGTTGCGACATCTGATCGATTTTGATGAAGCTGGA
261 AATCTCGCAACCAGGTGCATTGTATGTGGTTGCGACATCTGATCGATTTTGATGAAGCTGGA
4715164 AGATGTAGTT
Statistics
Matches: 320, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
322 320 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (322 bp):
TACATTGGAGGATGTCTCTATGCATCTGGGGCTTCCCGTCGACGGAAATATGATGTGTGGTATGG
CGGATGGTGATTGGCAGTCAATGTGCATTGATTATCTTGGAGTTGCTCTGCCAGAGTTTAATGGA
GGTAGAATAGCTTTATCTTGGTTGAAAGCTAATTTTGAGGTTTTAAATGAAAATGCTTCAGAGGA
TCAAGCAAAGGCATGTGCTCGAGCATATATTCTACGAATAATTGGAGGAATATTGATGCCCGACA
AATCTCGCAACCAGGTGCATTGTATGTGGTTGCGACATCTGATCGATTTTGATGAAGCTGGA
Found at i:4716172 original size:21 final size:21
Alignment explanation
Indices: 4716148--4716189 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
4716138 GTACATGCAC
*
4716148 AGCCCTCCACTTCATATGCCA
1 AGCCCACCACTTCATATGCCA
*
4716169 AGCCCACCAGTTCATATGCCA
1 AGCCCACCACTTCATATGCCA
4716190 TCTCCGCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.40, G:0.12, T:0.21
Consensus pattern (21 bp):
AGCCCACCACTTCATATGCCA
Found at i:4716223 original size:21 final size:21
Alignment explanation
Indices: 4716193--4716307 Score: 119
Period size: 21 Copynumber: 5.5 Consensus size: 21
4716183 TATGCCATCT
* *
4716193 CCGCATGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
* *
4716214 CCGCAGGGTTATATTCCTAGT
1 CCGCAGGGTTACATTCCTAGC
*
4716235 CCGCCA-GGTTACATT-ATGAGC
1 CCG-CAGGGTTACATTCCT-AGC
*
4716256 CCGCAGGGTTACATTCCTATC
1 CCGCAGGGTTACATTCCTAGC
*
4716277 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
4716298 CCGCAGGGTT
1 CCGCAGGGTT
4716308 TTATACCATA
Statistics
Matches: 77, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
20 5 0.06
21 67 0.87
22 5 0.06
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.25
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:4716245 original size:42 final size:42
Alignment explanation
Indices: 4716199--4716307 Score: 157
Period size: 42 Copynumber: 2.6 Consensus size: 42
4716189 ATCTCCGCAT
*
4716199 GGTTACATTCCGAGCCCGCAGGGTTATATTCCTAGT-CCGCCA
1 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTA-TCCCGCCA
**
4716241 GGTTACATTATGAGCCCGCAGGGTTACATTCCTATCCCGCCA
1 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTATCCCGCCA
* *
4716283 GGTTACATGCCTAGCCCGCAGGGTT
1 GGTTACATTCCGAGCCCGCAGGGTT
4716308 TTATACCATA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 58 0.98
ACGTcount: A:0.19, C:0.30, G:0.25, T:0.26
Consensus pattern (42 bp):
GGTTACATTCCGAGCCCGCAGGGTTACATTCCTATCCCGCCA
Found at i:4716872 original size:34 final size:34
Alignment explanation
Indices: 4716833--4716926 Score: 134
Period size: 34 Copynumber: 2.8 Consensus size: 34
4716823 AAATGTTTTT
* *
4716833 AAAATACAAATTATATTATTCAAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
4716867 AAAATAAAAATAATATTATTCGAAATTTAAAATT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATA
* *
4716901 AAAATATAAATTATAGTATTCGAAAT
1 AAAATAAAAATTATATTATTCGAAAT
4716927 AATAGGTACT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 53 1.00
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.35
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATA
Found at i:4717155 original size:128 final size:128
Alignment explanation
Indices: 4716922--4717267 Score: 622
Period size: 128 Copynumber: 2.7 Consensus size: 128
4716912 TATAGTATTC
*
4716922 GAAATAATAGGTACTGATATGAATAGTGTCCCC-AAGGGACATAAGTGACATAATAGGGCAATGA
1 GAAATAATAGGTACTGATATGAATAGTGTCCCCGAA-GGACATGAGTGACATAATAGGGCAATGA
*
4716986 TAACATATTCTCTGACAAAATAATGGAAGGCGCCCCCCCGGGAACGCGCCTTCAAGTCCCCTGA
65 TAACATATTCTCTGACAAAATAATGGAAGGCGACCCCCCGGGAACGCGCCTTCAAGTCCCCTGA
4717050 GAAATAATAGGTACTGATATGAATAGTGTCCCCGAAGGACATGAGTGACATAATAGGGCAATGAT
1 GAAATAATAGGTACTGATATGAATAGTGTCCCCGAAGGACATGAGTGACATAATAGGGCAATGAT
* *
4717115 AACATATTCTCTGACAAAATAATGGAAGGCGAGCCTCCGGGAACGCGCCTTCAAGTCCCCTGA
66 AACATATTCTCTGACAAAATAATGGAAGGCGACCCCCCGGGAACGCGCCTTCAAGTCCCCTGA
* *
4717178 GAAATAATAGGTACTGATATGAATAGTGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGAT
1 GAAATAATAGGTACTGATATGAATAGTGTCCCCGAAGGACATGAGTGACATAATAGGGCAATGAT
4717243 AACATATTCTCTGACAAAATAATGG
66 AACATATTCTCTGACAAAATAATGG
4717268 GGATATGAGT
Statistics
Matches: 211, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
128 209 0.99
129 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (128 bp):
GAAATAATAGGTACTGATATGAATAGTGTCCCCGAAGGACATGAGTGACATAATAGGGCAATGAT
AACATATTCTCTGACAAAATAATGGAAGGCGACCCCCCGGGAACGCGCCTTCAAGTCCCCTGA
Found at i:4717416 original size:15 final size:15
Alignment explanation
Indices: 4717398--4717427 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4717388 ACAAGCTTTC
4717398 AAATTCTCAAATTCT
1 AAATTCTCAAATTCT
4717413 AAATTCTCAAATTCT
1 AAATTCTCAAATTCT
4717428 CTAAAACTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATTCTCAAATTCT
Found at i:4717418 original size:7 final size:8
Alignment explanation
Indices: 4717396--4717428 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
4717386 TCACAAGCTT
4717396 TCAAATTC
1 TCAAATTC
4717404 TCAAATTC
1 TCAAATTC
4717412 T-AAATTC
1 TCAAATTC
4717419 TCAAATTC
1 TCAAATTC
4717427 TC
1 TC
4717429 TAAAACTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.39
Consensus pattern (8 bp):
TCAAATTC
Found at i:4725096 original size:21 final size:21
Alignment explanation
Indices: 4725070--4725114 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
4725060 GATTTCTGGG
* *
4725070 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
4725091 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
4725112 CAA
1 CAA
4725115 ACGAACAACA
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:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:4725721 original size:18 final size:18
Alignment explanation
Indices: 4725698--4725732 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4725688 CTAGGAGATT
4725698 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
4725716 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
4725733 CTAGATGGGA
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:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:4725979 original size:2 final size:2
Alignment explanation
Indices: 4725972--4726016 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
4725962 AATCTTGAGG
4725972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4726014 AT A
1 AT A
4726017 GATAGATATG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4726834 original size:149 final size:149
Alignment explanation
Indices: 4726655--4726969 Score: 526
Period size: 149 Copynumber: 2.1 Consensus size: 149
4726645 GAGTCGAGGG
* * **
4726655 TCTACGCAGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
4726720 A-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 ACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCATTATGGACATCATT
4726784 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
*
4726804 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
* *
4726869 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATTCTATGTGGTTATTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCATTATGGACATCATTA
4726934 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
4726953 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
4726970 TGCAATTATA
Statistics
Matches: 156, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
148 1 0.01
149 154 0.99
150 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCATTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:4726970 original size:23 final size:23
Alignment explanation
Indices: 4726937--4726981 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
4726927 ATCATTATAT
*
4726937 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
4726960 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
4726982 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:4729555 original size:17 final size:18
Alignment explanation
Indices: 4729533--4729576 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
4729523 TTAATCAATA
4729533 TAAAATATGAAATA-AAC-
1 TAAAATAT-AAATACAACG
4729550 TAAAATATAAATACAACG
1 TAAAATATAAATACAACG
4729568 TAAAA-ATAA
1 TAAAATATAA
4729577 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.20
17 15 0.60
18 5 0.20
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.23
Consensus pattern (18 bp):
TAAAATATAAATACAACG
Found at i:4730136 original size:24 final size:25
Alignment explanation
Indices: 4730091--4730139 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
4730081 AATAGAATTT
4730091 TAAAATATATCAAAATTCATTTAAAA
1 TAAAATATA-CAAAATTCATTTAAAA
4730117 TAAAATATA-AAATATT-ATTTAAA
1 TAAAATATACAAA-ATTCATTTAAA
4730140 TTTATAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 10 0.45
25 3 0.14
26 9 0.41
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAAATATACAAAATTCATTTAAAA
Found at i:4733624 original size:16 final size:16
Alignment explanation
Indices: 4733603--4733638 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
4733593 GTTCATTGCA
4733603 CCTCGAGACCCATACC
1 CCTCGAGACCCATACC
4733619 CCTCGAGACCCATACC
1 CCTCGAGACCCATACC
4733635 CCTC
1 CCTC
4733639 TATCTTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.53, G:0.11, T:0.14
Consensus pattern (16 bp):
CCTCGAGACCCATACC
Found at i:4737310 original size:23 final size:22
Alignment explanation
Indices: 4737284--4737328 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4737274 TGGTTATTGA
*
4737284 ACTGGTACATTCATGTACATTAT
1 ACTGGAAC-TTCATGTACATTAT
* *
4737307 ACTGGAACTTTATGTGCATTAT
1 ACTGGAACTTCATGTACATTAT
4737329 GGGTTTCACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (22 bp):
ACTGGAACTTCATGTACATTAT
Found at i:4738622 original size:2 final size:2
Alignment explanation
Indices: 4738615--4738695 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
4738605 AGTATAGCAT
4738615 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
4738657 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
4738696 TTTAAAACAG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:4747133 original size:22 final size:22
Alignment explanation
Indices: 4747102--4747148 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
4747092 CTATGATAAT
4747102 TGAAAAGTGAAAGTATTGAA-TA
1 TGAAAAGTGAAAGTATT-AATTA
*
4747124 TGAAATGTGAAAGTATTAATTA
1 TGAAAAGTGAAAGTATTAATTA
4747146 TGA
1 TGA
4747149 GAACTGGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (22 bp):
TGAAAAGTGAAAGTATTAATTA
Found at i:4750673 original size:12 final size:11
Alignment explanation
Indices: 4750641--4750689 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 11
4750631 TAATAATCAT
4750641 AAAATAAATAA
1 AAAATAAATAA
4750652 CAATAA-AAATAGA
1 -AA-AATAAATA-A
4750665 AAAATAAATAA
1 AAAATAAATAA
4750676 ATAAATAAATAA
1 A-AAATAAATAA
4750688 AA
1 AA
4750690 GGACCGGGCG
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
11 5 0.15
12 25 0.76
13 3 0.09
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (11 bp):
AAAATAAATAA
Found at i:4751385 original size:41 final size:42
Alignment explanation
Indices: 4751321--4751412 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
4751311 ATCCTACCTG
* * * *
4751321 AAGGTCTTATGGATGGCCAGAAGGACTT-ATCATCTTACTCGA
1 AAGG-CTTATAGATGACCAGAAGGACTTAAGCATCATACTCGA
* *
4751363 AAGGCTTATAGATGACCTGAAGGATTTAAGCATCATACTCGA
1 AAGGCTTATAGATGACCAGAAGGACTTAAGCATCATACTCGA
*
4751405 AAGACTTA
1 AAGGCTTA
4751413 CTGATGGCCC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 19 0.45
42 23 0.55
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (42 bp):
AAGGCTTATAGATGACCAGAAGGACTTAAGCATCATACTCGA
Found at i:4751647 original size:233 final size:232
Alignment explanation
Indices: 4751280--4751970 Score: 875
Period size: 212 Copynumber: 3.1 Consensus size: 232
4751270 TGAAAATTAT
* * * *
4751280 TTTCTCATTTTTCG-GAAAATCATGCGAAAACATCCTACCTGAAGGTCTTATGGATGGCCAGAAG
1 TTTCTCATTTTTCGAG-AAAT-ATGTGAAAATATCCTGCCTGAAGGTCTTATGGATGGCCCGAAG
* * * * *
4751344 GACTTATCATCTTACTCGAAAGGCTTATAGATGACCTGAAGGATTTAAGCATCATACTCGAAAGA
64 GACTTATCATCTTGCTCAAAAGACTTACAGATGACCTGAAGGATTTAAGCATCATGCTCGAAAGA
* **
4751409 CTTACTGATGGCCCGAAAGACTTACCAATTTCAGAAATAGTTTACTAGGTAAGAAACTTTTCTTA
129 CTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTA
*
4751474 CTTTTCAAAAATTTCAATTTTCAAATTTAAATGAGAAACC
194 CTTTTCAACAATTTCAATTTTCAAATTTAAATGAGAAA-C
*
4751514 TTTCTCATTTTTCGAGAAATATGTGAAAATATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGA
1 TTTCTCATTTTTCGAGAAATATGTGAAAATATCCTGCCTGAAGGTCTTATGGATGGCCCGAAGGA
* * ** * *
4751579 CTTATCATCATGGTCAAAAGACTTACAGATGACCCAAAGGATGTAAGCATCATGCTTGAAAGACT
66 CTTATCATCTTGCTCAAAAGACTTACAGATGACCTGAAGGATTTAAGCATCATGCTCGAAAGACT
* *
4751644 TACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAATTTACTAGGTAAAAAACTTTTCTTACT
131 TACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACT
* *
4751709 TTCCAACAATTTCAATTTTC-AGTTT---T----AA-
196 TTTCAACAATTTCAATTTTCAAATTTAAATGAGAAAC
* * *
4751737 ------A----T-GAGAAACATGTGAAAATATCCTGCCTGAAGGTCTTATAGATGACCCGAAGGA
1 TTTCTCATTTTTCGAGAAATATGTGAAAATATCCTGCCTGAAGGTCTTATGGATGGCCCGAAGGA
* * *
4751791 CTTATCATCTTGCTAAAAAAACTTACAGATGACCTGAAGGATTTAAGCATGATGCTCGAAAGACT
66 CTTATCATCTTGCTCAAAAGACTTACAGATGACCTGAAGGATTTAAGCATCATGCTCGAAAGACT
* * * *
4751856 TACTGATAGCCCGAAGGACTTAACAATTTTGGAAATAGTGTACTAGGTAAGAAACTTTTCCTACT
131 TACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACT
* *
4751921 TTTCAACAATTTTAATTTTCATATTTAAATGAGAAAC
196 TTTCAACAATTTCAATTTTCAAATTTAAATGAGAAAC
4751958 TTTTCTCATTTTT
1 -TTTCTCATTTTT
4751971 TAACTTATAA
Statistics
Matches: 389, Mismatches: 47, Indels: 44
0.81 0.10 0.09
Matches are distributed among these distances:
212 181 0.47
213 4 0.01
216 1 0.00
217 1 0.00
220 2 0.01
225 2 0.01
228 1 0.00
229 1 0.00
232 5 0.01
233 172 0.44
234 18 0.05
235 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (232 bp):
TTTCTCATTTTTCGAGAAATATGTGAAAATATCCTGCCTGAAGGTCTTATGGATGGCCCGAAGGA
CTTATCATCTTGCTCAAAAGACTTACAGATGACCTGAAGGATTTAAGCATCATGCTCGAAAGACT
TACTGATGGCCCGAAGGACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTTCTTACT
TTTCAACAATTTCAATTTTCAAATTTAAATGAGAAAC
Found at i:4759931 original size:13 final size:13
Alignment explanation
Indices: 4759915--4759939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4759905 ATTTCGTCAC
4759915 TAAATTTTTTCTA
1 TAAATTTTTTCTA
4759928 TAAATTTTTTCT
1 TAAATTTTTTCT
4759940 GTGACTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (13 bp):
TAAATTTTTTCTA
Found at i:4765259 original size:22 final size:22
Alignment explanation
Indices: 4765231--4765286 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
4765221 AGTTTTGAAA
4765231 TTACTCCCCTTTACTTTAACAC
1 TTACTCCCCTTTACTTTAACAC
*
4765253 TTACTCCCCCTTACTTTAACAC
1 TTACTCCCCTTTACTTTAACAC
*
4765275 TT-CTCCCATTTA
1 TTACTCCCCTTTA
4765287 TCATTAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 8 0.26
22 23 0.74
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (22 bp):
TTACTCCCCTTTACTTTAACAC
Found at i:4765293 original size:22 final size:22
Alignment explanation
Indices: 4765231--4765293 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
4765221 AGTTTTGAAA
*
4765231 TTACTCCC-CTTTACTTTAACAC
1 TTACTCCCAC-TTACATTAACAC
* *
4765253 TTACTCCCCCTTACTTTAACAC
1 TTACTCCCACTTACATTAACAC
*
4765275 TT-CTCCCATTTATCATTAA
1 TTACTCCCACTTA-CATTAA
4765294 AAAAACACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 8 0.22
22 27 0.75
23 1 0.03
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (22 bp):
TTACTCCCACTTACATTAACAC
Found at i:4766076 original size:27 final size:27
Alignment explanation
Indices: 4766038--4766099 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
4766028 GCTGAAGATC
4766038 GAATCCATTCACCGGTTTCCTTATCAT
1 GAATCCATTCACCGGTTTCCTTATCAT
*
4766065 GAATCCATTCACCGGTTTCCTTATCCT
1 GAATCCATTCACCGGTTTCCTTATCAT
*
4766092 TAATCCAT
1 GAATCCAT
4766100 CCCGCTCTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.23, C:0.31, G:0.10, T:0.37
Consensus pattern (27 bp):
GAATCCATTCACCGGTTTCCTTATCAT
Found at i:4767628 original size:20 final size:20
Alignment explanation
Indices: 4767599--4767636 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4767589 CCCCTTCAAA
*
4767599 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
4767619 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
4767637 TGCACAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:4774832 original size:25 final size:24
Alignment explanation
Indices: 4774770--4774837 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 24
4774760 ATATTTTTTT
4774770 TATATTTTATTTTTAAAATGTTTAAA
1 TATATTTTA-TTTT-AAATGTTTAAA
*
4774796 TAT-TTCTATATTTTAAATTTTTGAAA
1 TATATT-T-TATTTTAAATGTTT-AAA
4774822 TATATTTTATTTTAAA
1 TATATTTTATTTTAAA
4774838 AAAATAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
25 18 0.49
26 15 0.41
27 4 0.11
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (24 bp):
TATATTTTATTTTAAATGTTTAAA
Found at i:4792992 original size:194 final size:194
Alignment explanation
Indices: 4792663--4793052 Score: 753
Period size: 194 Copynumber: 2.0 Consensus size: 194
4792653 TTACCAATAG
* *
4792663 TCCTTCTACAAGAGCCGACAGTAAACAAACCATAGCCCTTCCTTGTCCATGATAAAAAATCATCC
1 TCCTTCTACAAGAGCCGACAATAAACAAACCATAGCCCTTCCCTGTCCATGATAAAAAATCATCC
4792728 ACTTCCTCTGTCAACTGAAAGTTGTTTAATTTGATCATTAGTTCCAGCCATTGTTCCAACTCCCA
66 ACTTCCTCTGTCAACTGAAAGTTGTTTAATTTGATCATTAGTTCCAGCCATTGTTCCAACTCCCA
4792793 ATCACTTAAATTTCTTCTTGTATGAATATCCCAAGTCCATCCGTTCGAATCATAACTTCCAAAA
131 ATCACTTAAATTTCTTCTTGTATGAATATCCCAAGTCCATCCGTTCGAATCATAACTTCCAAAA
*
4792857 TCCTTCTACAAGAGCCGACAATAAACAAACCATCGCCCTTCCCTGTCCATGATAAAAAATCATCC
1 TCCTTCTACAAGAGCCGACAATAAACAAACCATAGCCCTTCCCTGTCCATGATAAAAAATCATCC
4792922 ACTTCCTCTGTCAACTGAAAGTTGTTTAATTTGATCATTAGTTCCAGCCATTGTTCCAACTCCCA
66 ACTTCCTCTGTCAACTGAAAGTTGTTTAATTTGATCATTAGTTCCAGCCATTGTTCCAACTCCCA
4792987 ATCACTTAAATTTCTTCTTGTATGAATATCCCAAGTCCATCCGTTCGAATCATAACTTCCAAAA
131 ATCACTTAAATTTCTTCTTGTATGAATATCCCAAGTCCATCCGTTCGAATCATAACTTCCAAAA
4793051 TC
1 TC
4793053 ACTAACCCGC
Statistics
Matches: 193, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
194 193 1.00
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (194 bp):
TCCTTCTACAAGAGCCGACAATAAACAAACCATAGCCCTTCCCTGTCCATGATAAAAAATCATCC
ACTTCCTCTGTCAACTGAAAGTTGTTTAATTTGATCATTAGTTCCAGCCATTGTTCCAACTCCCA
ATCACTTAAATTTCTTCTTGTATGAATATCCCAAGTCCATCCGTTCGAATCATAACTTCCAAAA
Found at i:4803855 original size:20 final size:20
Alignment explanation
Indices: 4803830--4803874 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
4803820 AAAAGGGAAA
4803830 CATTCACATGAGAAAGCAAG
1 CATTCACATGAGAAAGCAAG
4803850 CATTCACATGAGAAAGCAAG
1 CATTCACATGAGAAAGCAAG
4803870 CATTC
1 CATTC
4803875 TACAGTGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (20 bp):
CATTCACATGAGAAAGCAAG
Found at i:4806674 original size:2 final size:2
Alignment explanation
Indices: 4806667--4806693 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4806657 ACAAAAATGA
4806667 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4806694 GTCGTAGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4807010 original size:21 final size:21
Alignment explanation
Indices: 4806981--4807020 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4806971 GATAAAAAAT
*
4806981 TATCTAAAACATTATTATTTC
1 TATCGAAAACATTATTATTTC
*
4807002 TATCGAAAATATTATTATT
1 TATCGAAAACATTATTATT
4807021 GGGCGATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (21 bp):
TATCGAAAACATTATTATTTC
Found at i:4807150 original size:22 final size:21
Alignment explanation
Indices: 4807122--4807167 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
4807112 CCGGAAATGT
*
4807122 TAAAAAACATTAATGTTTTAGG
1 TAAAAAA-AATAATGTTTTAGG
4807144 TAAAAAAAATAATGTTTTAGG
1 TAAAAAAAATAATGTTTTAGG
4807165 TAA
1 TAA
4807168 TTTTTAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.50, C:0.02, G:0.13, T:0.35
Consensus pattern (21 bp):
TAAAAAAAATAATGTTTTAGG
Found at i:4808608 original size:30 final size:29
Alignment explanation
Indices: 4808540--4808609 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 29
4808530 ATATTACAAC
*
4808540 ATAT-ATTAATTAT-TTATTAAAATAATA
1 ATATAATTAATTATATTATGAAAATAATA
* *
4808567 TTATAA-T-ATTATATTATGAAAGTAATAA
1 ATATAATTAATTATATTATGAAAATAAT-A
4808595 ATATAATTAATTATA
1 ATATAATTAATTATA
4808610 GTAATTACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
26 5 0.15
27 15 0.44
28 7 0.21
29 1 0.03
30 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (29 bp):
ATATAATTAATTATATTATGAAAATAATA
Found at i:4808672 original size:21 final size:23
Alignment explanation
Indices: 4808641--4808683 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4808631 AATATTATAT
4808641 TATATTTTTAAAAAT-TAATAAA
1 TATATTTTTAAAAATGTAATAAA
*
4808663 TATA-TTTTAAATATGTAATAA
1 TATATTTTTAAAAATGTAATAA
4808684 TTTAATAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
TATATTTTTAAAAATGTAATAAA
Found at i:4808827 original size:53 final size:52
Alignment explanation
Indices: 4808731--4808835 Score: 149
Period size: 53 Copynumber: 2.0 Consensus size: 52
4808721 TAGTTTGTTA
* * *
4808731 ATAATTTATTATATATTATTAATATAAGAATATAATATCATATTATTATAAT
1 ATAATTGATTATATATTATTAATATAAAAATATAATATAATATTATTATAAT
*
4808783 ATAATTGATTATATTATTA-TAATACTAAAAATATAATATAATATTGTTATAAT
1 ATAATTGATTATA-TATTATTAATA-TAAAAATATAATATAATATTATTATAAT
4808836 TGTTAATGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
52 17 0.36
53 30 0.64
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.47
Consensus pattern (52 bp):
ATAATTGATTATATATTATTAATATAAAAATATAATATAATATTATTATAAT
Found at i:4810803 original size:29 final size:29
Alignment explanation
Indices: 4810761--4810852 Score: 166
Period size: 29 Copynumber: 3.2 Consensus size: 29
4810751 AATATATTAG
*
4810761 AGTACATTAGATAGTACGTATGTGTTGGT
1 AGTACATTAGATAGTACGTTTGTGTTGGT
4810790 AGTACATTAGATAGTACGTTTGTGTTGGT
1 AGTACATTAGATAGTACGTTTGTGTTGGT
*
4810819 AGTACATTAGATAGTACGTTTATGTTGGT
1 AGTACATTAGATAGTACGTTTGTGTTGGT
4810848 AGTAC
1 AGTAC
4810853 TATCTTACTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.27, C:0.08, G:0.26, T:0.39
Consensus pattern (29 bp):
AGTACATTAGATAGTACGTTTGTGTTGGT
Found at i:4819359 original size:25 final size:25
Alignment explanation
Indices: 4819325--4819376 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
4819315 CTAACATCAT
4819325 AATCCACCTTCTTTCATTGAATTCA
1 AATCCACCTTCTTTCATTGAATTCA
4819350 AATCCACCTTCTTTCATTGAATTCA
1 AATCCACCTTCTTTCATTGAATTCA
4819375 AA
1 AA
4819377 CCTTTATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (25 bp):
AATCCACCTTCTTTCATTGAATTCA
Found at i:4820195 original size:21 final size:21
Alignment explanation
Indices: 4820166--4820218 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
4820156 ATTCTGACTA
4820166 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
4820187 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
4820208 TCGCAATGCGA
1 TCGCATTGCGA
4820219 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:4820340 original size:20 final size:20
Alignment explanation
Indices: 4820208--4820333 Score: 207
Period size: 20 Copynumber: 6.3 Consensus size: 20
4820198 TTTTCCTAAT
4820208 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
4820228 TCACAATGCAAATACGTAAA
1 TCGCAATGCGAATACGTAAA
4820248 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
4820268 TCGTAATACGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
4820288 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATACGTAAA
4820308 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
4820328 TCGCAA
1 TCGCAA
4820334 CGTGAATCTG
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 96 1.00
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:4820351 original size:40 final size:40
Alignment explanation
Indices: 4820208--4820358 Score: 182
Period size: 40 Copynumber: 3.8 Consensus size: 40
4820198 TTTTCCTAAT
* *
4820208 TCGCAATGCGAATAC-GTAAATCACAATGCAAATACGTAAA
1 TCGCAATGCGAAT-CTGTAAATCGCAATGCGAATACGTAAA
* *
4820248 TCGCAATGCGAATAC-GTAAATCGTAATACGAATACGTAAA
1 TCGCAATGCGAAT-CTGTAAATCGCAATGCGAATACGTAAA
*
4820288 TCGCAATGCGAATATGTAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATCTGTAAATCGCAATGCGAATACGTAAA
* * *
4820328 TCGCAACGTGAATCTG-ACTATCGCAATGCGA
1 TCGCAATGCGAATCTGTA-AATCGCAATGCGA
4820359 TTTACATAGC
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 97 0.99
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.22
Consensus pattern (40 bp):
TCGCAATGCGAATCTGTAAATCGCAATGCGAATACGTAAA
Found at i:4820563 original size:22 final size:22
Alignment explanation
Indices: 4820538--4820603 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
4820528 GGCGACATCC
4820538 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
4820560 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
4820582 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCGACGAAATCA
4820604 TTCACGGTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:4821004 original size:20 final size:20
Alignment explanation
Indices: 4820940--4821009 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
4820930 TGATTCTGTC
* *
4820940 GTTGCGCTTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
* **
4820959 GTTGCAATAGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
4820979 GTTGCGATTTTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
4820999 GTTGCGATTTT
1 GTTGCGATTTT
4821010 AAGTTTCAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 9 0.21
20 33 0.79
ACGTcount: A:0.11, C:0.17, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:4821016 original size:20 final size:20
Alignment explanation
Indices: 4820973--4821016 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
4820963 CAATAGTCAT
* *
4820973 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
4820993 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
4821013 TTTC
1 TTTC
4821017 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:4822923 original size:20 final size:20
Alignment explanation
Indices: 4822898--4823040 Score: 183
Period size: 20 Copynumber: 7.5 Consensus size: 20
4822888 AGAATAGTTT
4822898 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
4822918 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
4822938 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
4822954 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
**
4822971 AAAATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
4822991 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
4823011 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
4823031 ACTATCGCAA
1 ACTATCGCAA
4823041 CGAAAGAATC
Statistics
Matches: 110, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
14 7 0.06
16 6 0.05
17 4 0.04
18 2 0.02
19 11 0.10
20 80 0.73
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:4823052 original size:34 final size:37
Alignment explanation
Indices: 4822901--4823061 Score: 144
Period size: 40 Copynumber: 4.4 Consensus size: 37
4822891 ATAGTTTACT
4822901 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAA-GCGAAAATGA
*
4822939 CTATCGCAA--CG-AGA-GA--ATCGCAATGCG-AAATGAAA
1 --ATCGCAATGCGAAAATGACTATCGCAA-GCGAAAATG--A
4822974 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAA-GCGAAAATGA
**
4823012 CTATCGCAATGCGAATTTGACTATCGCAA-CG-AAA-GA
1 --ATCGCAATGCGAAAATGACTATCGCAAGCGAAAATGA
4823048 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
4823062 TGAAAATCGC
Statistics
Matches: 104, Mismatches: 6, Indels: 28
0.75 0.04 0.20
Matches are distributed among these distances:
33 12 0.12
34 23 0.22
35 3 0.03
36 6 0.06
37 7 0.07
38 5 0.05
39 11 0.11
40 37 0.36
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.17
Consensus pattern (37 bp):
ATCGCAATGCGAAAATGACTATCGCAAGCGAAAATGA
Found at i:4823057 original size:93 final size:93
Alignment explanation
Indices: 4822898--4823078 Score: 317
Period size: 93 Copynumber: 1.9 Consensus size: 93
4822888 AGAATAGTTT
*
4822898 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCGCAAT
1 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
4822963 GCGAAATGAAAATCGCAATGCGAAAATG
66 GCGAAATGAAAATCGCAATGCGAAAATG
* **
4822991 ACTATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCAACGAAAGAATCGCAAT
1 ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
*
4823056 GCGAAATGAAAATCGCATTGCGA
66 GCGAAATGAAAATCGCAATGCGA
4823079 TTCTCTCGTT
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 83 1.00
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.18
Consensus pattern (93 bp):
ACTATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAAAGAATCGCAAT
GCGAAATGAAAATCGCAATGCGAAAATG
Found at i:4823112 original size:20 final size:20
Alignment explanation
Indices: 4823087--4823193 Score: 133
Period size: 20 Copynumber: 5.3 Consensus size: 20
4823077 GATTCTCTCG
*
4823087 TTGCGATAGTCAAATTCACA
1 TTGCGATAGTCAAATTCGCA
4823107 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
**
4823127 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
4823147 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
** *
4823167 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
4823187 TTGCGAT
1 TTGCGAT
4823194 TTTAAGTTTC
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:4823149 original size:40 final size:40
Alignment explanation
Indices: 4823087--4823193 Score: 151
Period size: 40 Copynumber: 2.7 Consensus size: 40
4823077 GATTCTCTCG
** *
4823087 TTGCGATAGTCAAATTCACATTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCGCA
** *
4823127 TTGCGATAGTCATTTTCGCATTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCGCA
*
4823167 TTGCGATAGTCATTTTCGCGTTGCGAT
1 TTGCGATAGTCATTTTCGCATTGCGAT
4823194 TTTAAGTTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCATTTTCGCATTGCGATAGTCAAATTCGCA
Found at i:4823203 original size:20 final size:20
Alignment explanation
Indices: 4823085--4823203 Score: 80
Period size: 20 Copynumber: 6.0 Consensus size: 20
4823075 GCGATTCTCT
* *
4823085 CGTTGCGATAGTCAA-ATTCA
1 CGTTGCGATAGT-AAGTTTCG
* *
4823105 CATTGCGATAGTCAA-ATTCG
1 CGTTGCGATAGT-AAGTTTCG
* * *
4823125 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* * *
4823145 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
* *
4823165 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTAAGTTTCG
**
4823185 CGTTGCGATTTTAAGTTTC
1 CGTTGCGATAGTAAGTTTC
4823204 AGATTCTATT
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
19 1 0.01
20 88 0.99
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTAAGTTTCG
Found at i:4823718 original size:18 final size:19
Alignment explanation
Indices: 4823679--4823720 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
4823669 CTCACCTGTC
4823679 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
4823700 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
4823718 ATC
1 ATC
4823721 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:4823774 original size:42 final size:42
Alignment explanation
Indices: 4823674--4823784 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
4823664 CCCGACTCAC
* * * * *
4823674 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGACA
* **
4823716 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGACA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGACA
*
4823758 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
4823785 ACATTCTAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.93
43 2 0.04
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGACA
Found at i:4825170 original size:14 final size:14
Alignment explanation
Indices: 4825151--4825186 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4825141 ATTGTTTAAT
4825151 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
4825165 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
4825179 TGATTTGT
1 TGATTTGT
4825187 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4825331 original size:14 final size:14
Alignment explanation
Indices: 4825312--4825365 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
4825302 GAAAATGACT
4825312 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
4825326 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
4825345 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
4825359 ATCGCAA
1 ATCGCAA
4825366 TGCGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:4825349 original size:33 final size:34
Alignment explanation
Indices: 4825292--4825387 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 34
4825282 AAAACAGACT
* **
4825292 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
4825326 ATCGCAATGCG-AAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
4825359 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCGAAAATGAAAATCGCAACG
4825388 CGAAACTAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 31 0.53
34 27 0.47
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGAAAATCGCAACGAGAGA
Found at i:4825383 original size:20 final size:19
Alignment explanation
Indices: 4825325--4825392 Score: 74
Period size: 20 Copynumber: 3.8 Consensus size: 19
4825315 GCAACGAGAG
4825325 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4825344 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4825358 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
4825378 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
4825393 CTAAATTCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 2 0.05
17 2 0.05
19 12 0.30
20 13 0.32
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4825463 original size:33 final size:33
Alignment explanation
Indices: 4825402--4825497 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
4825392 ACTAAATTCG
*
4825402 CGTTGCGATTTTCATTTTTGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
4825436 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* ** *
4825469 CATTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
4825498 AGTCATTTCT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 32 0.57
34 24 0.43
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:4825496 original size:20 final size:20
Alignment explanation
Indices: 4825471--4825577 Score: 162
Period size: 20 Copynumber: 5.3 Consensus size: 20
4825461 GATTCTCTCA
*
4825471 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCTGCG
4825491 TTGCGATAGTCATTTCTGCG
1 TTGCGATAGTCATTTCTGCG
*
4825511 TTGCGATAGTCATTTCTGTG
1 TTGCGATAGTCATTTCTGCG
*
4825531 TTGCGATAGTCATTTCTGTG
1 TTGCGATAGTCATTTCTGCG
*
4825551 TTGCAATAGTCATATTC-GCG
1 TTGCGATAGTCAT-TTCTGCG
4825571 TTGCGAT
1 TTGCGAT
4825578 TTCTGCGTTG
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
20 78 0.96
21 3 0.04
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTCTGCG
Found at i:4828928 original size:20 final size:20
Alignment explanation
Indices: 4828903--4829029 Score: 218
Period size: 20 Copynumber: 6.3 Consensus size: 20
4828893 AAATTCAGTA
4828903 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
4828923 TTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
4828943 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
4828963 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
4828983 TTGCGATAGTCATAATCGCG
1 TTGCGATAGTCAGAATCGCG
*
4829003 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCGCG
4829023 TTGCGAT
1 TTGCGAT
4829030 TTACATATTC
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 102 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:4829039 original size:20 final size:20
Alignment explanation
Indices: 4829016--4829128 Score: 190
Period size: 20 Copynumber: 5.7 Consensus size: 20
4829006 CGATAGTCAG
* *
4829016 ATTCGCGTTGCGATTTACAT
1 ATTCGCATTGCGATTTACGT
*
4829036 ATTCACATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4829056 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4829076 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
4829096 ATTCGCATTGCGATTTATGT
1 ATTCGCATTGCGATTTACGT
4829116 ATTCGCATTGCGA
1 ATTCGCATTGCGA
4829129 ATTAGGAAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 88 1.00
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:4829047 original size:40 final size:40
Alignment explanation
Indices: 4828918--4829128 Score: 146
Period size: 40 Copynumber: 5.3 Consensus size: 40
4828908 ATAGTCAGAA
* * * * *
4828918 TCGCGTTGCGATAGTCAGAATCGCGTTGCGATAGT-CAGAA
1 TCGCATTGCGATAGTCAGATTCGCGTTGCGAT-TTACATAT
* * * * * *
4828958 TCTCGTTGCGATAGTCAGAATCTCGTTGCGATAGT-CATAA
1 TCGCATTGCGATAGTCAGATTCGCGTTGCGAT-TTACATAT
*
4828998 TCGCGTTGCGATAGTCAGATTCGCGTTGCGATTTACATAT
1 TCGCATTGCGATAGTCAGATTCGCGTTGCGATTTACATAT
* * * *
4829038 TCACATTGCGAT--TTACGTATTCGCATTGCGATTTACGTAT
1 TCGCATTGCGATAGTCA-G-ATTCGCGTTGCGATTTACATAT
* * **
4829078 TCGCATTGCGAT--TTACGTATTCGCATTGCGATTTATGTAT
1 TCGCATTGCGATAGTCA-G-ATTCGCGTTGCGATTTACATAT
4829118 TCGCATTGCGA
1 TCGCATTGCGA
4829129 ATTAGGAAAA
Statistics
Matches: 153, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
38 2 0.01
39 2 0.01
40 149 0.97
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (40 bp):
TCGCATTGCGATAGTCAGATTCGCGTTGCGATTTACATAT
Found at i:4829047 original size:60 final size:60
Alignment explanation
Indices: 4828923--4829109 Score: 166
Period size: 60 Copynumber: 3.1 Consensus size: 60
4828913 CAGAATCGCG
* * * * * * * *
4828923 TTGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCTCGTTGCGATAGT-CAGAATCTCG
1 TTGCGATAGTCATAATCGCGTTGCGATAGTCAGATTCGCGTTGCGAT-TTACATATTCACA
4828983 TTGCGATAGTCATAATCGCGTTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCACA
1 TTGCGATAGTCATAATCGCGTTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCACA
* * * * * * * *
4829043 TTGCGAT-TTACGTATTCGCATTGCGAT--TTACGTATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATAGT-CATAATCGCGTTGCGATAGTCA-G-ATTCGCGTTGCGATTTACATATTCACA
4829103 TTGCGAT
1 TTGCGAT
4829110 TTATGTATTC
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
58 2 0.02
59 3 0.03
60 102 0.95
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (60 bp):
TTGCGATAGTCATAATCGCGTTGCGATAGTCAGATTCGCGTTGCGATTTACATATTCACA
Found at i:4829149 original size:21 final size:21
Alignment explanation
Indices: 4829125--4829170 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
4829115 TATTCGCATT
4829125 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
4829146 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
4829167 GCGA
1 GCGA
4829171 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:4831555 original size:13 final size:14
Alignment explanation
Indices: 4831537--4831569 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
4831527 TGTCACATCC
4831537 ATATTTTTTAAAT-
1 ATATTTTTTAAATA
4831550 ATA-TTTTTAAATA
1 ATATTTTTTAAATA
4831563 ATATTTT
1 ATATTTT
4831570 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.50
13 6 0.33
14 3 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATATTTTTTAAATA
Found at i:4832262 original size:18 final size:17
Alignment explanation
Indices: 4832215--4832266 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
4832205 TTTCTATTGT
4832215 TTTTATTGTAAATCTAAAA
1 TTTTATT-TAAAT-TAAAA
*
4832234 TTTT-TCATAAATTATAAA
1 TTTTAT-TTAAATTA-AAA
4832252 TTTTATTTAAATTAA
1 TTTTATTTAAATTAA
4832267 TTTATTATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
17 3 0.11
18 20 0.71
19 5 0.18
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTTATTTAAATTAAAA
Found at i:4832360 original size:31 final size:32
Alignment explanation
Indices: 4832325--4832384 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
4832315 ATGTTCGGAT
* *
4832325 TGCTTTCGGGTCGGGTT-AAATTCAGTTCTGG
1 TGCTTTCGGATCGGGTTAAAAATCAGTTCTGG
*
4832356 TGCTTTCTGATCGGGTTAAAAATCAGTTC
1 TGCTTTCGGATCGGGTTAAAAATCAGTTC
4832385 GAGTTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 15 0.60
32 10 0.40
ACGTcount: A:0.18, C:0.17, G:0.27, T:0.38
Consensus pattern (32 bp):
TGCTTTCGGATCGGGTTAAAAATCAGTTCTGG
Found at i:4832692 original size:51 final size:51
Alignment explanation
Indices: 4832591--4832694 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 51
4832581 CATGAACATA
* * * *
4832591 TAAGTGTTAATTTCAATGTTGTAAGTCTATGTTAAGTACCACTACCAGAAT
1 TAAGAGTTAATTTCAATATTGTAAATCTATGTTAAGTACCACCACCAGAAT
* * * *
4832642 TAAGAGTTAATTTCACTATTGTAAATCTATGTTAAGTATCACCGCTAGAAT
1 TAAGAGTTAATTTCAATATTGTAAATCTATGTTAAGTACCACCACCAGAAT
4832693 TA
1 TA
4832695 TGTGATAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (51 bp):
TAAGAGTTAATTTCAATATTGTAAATCTATGTTAAGTACCACCACCAGAAT
Found at i:4832724 original size:52 final size:51
Alignment explanation
Indices: 4832599--4832724 Score: 135
Period size: 51 Copynumber: 2.5 Consensus size: 51
4832589 TATAAGTGTT
* * * *
4832599 AATTTCAATGTTGTAAGTCTATGTTAAGTACCACTACCAGAATTAAGAGTT
1 AATTTCACTATTGTAAGTCTATGTTAAGTACCACCACCAGAATTAAGAGTA
* * * * * *
4832650 AATTTCACTATTGTAAATCTATGTTAAGTATCACCGCTAGAATTATGTGATA
1 AATTTCACTATTGTAAGTCTATGTTAAGTACCACCACCAGAATTAAGAG-TA
* *
4832702 AATTTTACTATTGTATGTCTATG
1 AATTTCACTATTGTAAGTCTATG
4832725 ATGATATTAA
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
51 40 0.66
52 21 0.34
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (51 bp):
AATTTCACTATTGTAAGTCTATGTTAAGTACCACCACCAGAATTAAGAGTA
Found at i:4832769 original size:53 final size:53
Alignment explanation
Indices: 4832693--4832912 Score: 184
Period size: 51 Copynumber: 4.3 Consensus size: 53
4832683 CCGCTAGAAT
* * *
4832693 TATGTGATAAATTTTACTATTGTATGTCTATGATGATATTAATGTTGGAATTA
1 TATGTGATAAATTTGACTATTGTAAGTCTATGATGAGATTAATGTTGGAATTA
* *
4832746 TATGTGATGAATTTGAC-AGTTGTAAGTCTGTGATGAGATTAATGTTGGAATTA
1 TATGTGATAAATTTGACTA-TTGTAAGTCTATGATGAGATTAATGTTGGAATTA
* ** * ** *
4832799 TATAT--TAAATTTGACTGGTGTAAGTCTGTGAAAAGATTAATGTTGTAA-T-
1 TATGTGATAAATTTGACTATTGTAAGTCTATGATGAGATTAATGTTGGAATTA
* * ** * * * * * *
4832848 TATGTGTTAAATTTTACTGGTGTAAGTCTAAGATAAGTTTAGTGCTAGAA-T-
1 TATGTGATAAATTTGACTATTGTAAGTCTATGATGAGATTAATGTTGGAATTA
4832899 TATGTGATAAATTT
1 TATGTGATAAATTT
4832913 CACTTGGGTA
Statistics
Matches: 140, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
49 4 0.03
50 1 0.01
51 84 0.60
52 1 0.01
53 50 0.36
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (53 bp):
TATGTGATAAATTTGACTATTGTAAGTCTATGATGAGATTAATGTTGGAATTA
Found at i:4832836 original size:51 final size:51
Alignment explanation
Indices: 4832730--4832929 Score: 195
Period size: 51 Copynumber: 3.9 Consensus size: 51
4832720 CTATGATGAT
* * * **
4832730 ATTAATGTTGGAATTATATGTGATGAATTTGACAGTTGTAAGTCTGTGATGAG
1 ATTAATGTTGGAATTATATGT--TAAATTTGACTGGTGTAAGTCTGTGAAAAG
*
4832783 ATTAATGTTGGAATTATATATTAAATTTGACTGGTGTAAGTCTGTGAAAAG
1 ATTAATGTTGGAATTATATGTTAAATTTGACTGGTGTAAGTCTGTGAAAAG
* * * ** *
4832834 ATTAATGTTGTAATTATGTGTTAAATTTTACTGGTGTAAGTCTAAGATAAG
1 ATTAATGTTGGAATTATATGTTAAATTTGACTGGTGTAAGTCTGTGAAAAG
* * * * * * *
4832885 TTTAGTGCTAGAATTATGTGATAAATTTCACTTGG-GTAAGTCTGT
1 ATTAATGTTGGAATTATATGTTAAATTTGAC-TGGTGTAAGTCTGT
4832930 TTAAATTCAG
Statistics
Matches: 124, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
51 101 0.81
52 3 0.02
53 20 0.16
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.41
Consensus pattern (51 bp):
ATTAATGTTGGAATTATATGTTAAATTTGACTGGTGTAAGTCTGTGAAAAG
Found at i:4832910 original size:102 final size:104
Alignment explanation
Indices: 4832685--4832929 Score: 237
Period size: 102 Copynumber: 2.4 Consensus size: 104
4832675 AAGTATCACC
* ** * * ** *
4832685 GCTAGAATTATGTGATAAATTTTACTATTGTATGTCTATGATGATATTAATGTTGGAATTATATG
1 GCTAGAATTATGTGATAAATTTCACTGGTGTAAGTCTGTGAAAAGATTAATGTTGGAATTATATG
* * ** *
4832750 TGATGAATTTGACAGTTGTAAGTCTGTGATGAGATTAAT
66 TGATAAATTTGACAGGTGTAAGTCTAAGATAAGATTAAT
* * * * *
4832789 GTTGGAATTATAT-ATTAAATTTGACTGGTGTAAGTCTGTGAAAAGATTAATGTTGTAA-T-TAT
1 GCTAGAATTATGTGA-TAAATTTCACTGGTGTAAGTCTGTGAAAAGATTAATGTTGGAATTATAT
* * * * *
4832851 GTGTTAAATTTTACTGGTGTAAGTCTAAGATAAGTTTAGT
65 GTGATAAATTTGACAGGTGTAAGTCTAAGATAAGATTAAT
4832891 GCTAGAATTATGTGATAAATTTCACTTGG-GTAAGTCTGT
1 GCTAGAATTATGTGATAAATTTCAC-TGGTGTAAGTCTGT
4832930 TTAAATTCAG
Statistics
Matches: 112, Mismatches: 26, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
102 62 0.55
103 6 0.05
104 44 0.39
ACGTcount: A:0.31, C:0.05, G:0.22, T:0.42
Consensus pattern (104 bp):
GCTAGAATTATGTGATAAATTTCACTGGTGTAAGTCTGTGAAAAGATTAATGTTGGAATTATATG
TGATAAATTTGACAGGTGTAAGTCTAAGATAAGATTAAT
Found at i:4833879 original size:36 final size:36
Alignment explanation
Indices: 4833832--4834131 Score: 338
Period size: 36 Copynumber: 8.3 Consensus size: 36
4833822 ATTGATAACT
* *
4833832 TATGCATGATATACATGCTCTTGCTAGTGATGATTA
1 TATGCATGATATACATGCTCTTGCTATTAATGATTA
* * * *
4833868 TATGCATGATATGCATGCGCTTGGTACTAATGATTA
1 TATGCATGATATACATGCTCTTGCTATTAATGATTA
* * *
4833904 TATGCATGATATACATG-TGATTTCTATTGATGATTA
1 TATGCATGATATACATGCT-CTTGCTATTAATGATTA
* * * *
4833940 TATGCATGATATATATGCGCTTGCTACTGATGATTA
1 TATGCATGATATACATGCTCTTGCTATTAATGATTA
* *
4833976 TATGCATAATATACATG-TACTTGATATTAATGATTA
1 TATGCATGATATACATGCT-CTTGCTATTAATGATTA
* * *
4834012 TATACATGATATACATGCGCTTGCTGA-TGATGATTA
1 TATGCATGATATACATGCTCTTGCT-ATTAATGATTA
* *
4834048 TTTGCATGATATATATG-TGCTTGCTATTAATGATTA
1 TATGCATGATATACATGCT-CTTGCTATTAATGATTA
* *
4834084 TATGCATGATATACATGTTCTTGCTATTAATGGTTA
1 TATGCATGATATACATGCTCTTGCTATTAATGATTA
4834120 TATGCATGATAT
1 TATGCATGATAT
4834132 CTTACCCATG
Statistics
Matches: 220, Mismatches: 36, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
35 1 0.00
36 217 0.99
37 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (36 bp):
TATGCATGATATACATGCTCTTGCTATTAATGATTA
Found at i:4834021 original size:108 final size:108
Alignment explanation
Indices: 4833832--4834131 Score: 404
Period size: 108 Copynumber: 2.8 Consensus size: 108
4833822 ATTGATAACT
* * * * ** * *
4833832 TATGCATGATATACATGCTCTTGCTAGTGATGATTATATGCATGATATGCATGCGCTTGGTACTA
1 TATGCATGATATATATGCGCTTGCTACTGATGATTATATGCATGATATACATGTACTTGATATTA
* *
4833897 ATGATTATATGCATGATATACATGTGATTTCT-ATTGATGATTA
66 ATGATTATATGCATGATATACATGCGATTGCTGA-TGATGATTA
*
4833940 TATGCATGATATATATGCGCTTGCTACTGATGATTATATGCATAATATACATGTACTTGATATTA
1 TATGCATGATATATATGCGCTTGCTACTGATGATTATATGCATGATATACATGTACTTGATATTA
* *
4834005 ATGATTATATACATGATATACATGCGCTTGCTGATGATGATTA
66 ATGATTATATGCATGATATACATGCGATTGCTGATGATGATTA
* * * * * *
4834048 TTTGCATGATATATATGTGCTTGCTATTAATGATTATATGCATGATATACATGTTCTTGCTATTA
1 TATGCATGATATATATGCGCTTGCTACTGATGATTATATGCATGATATACATGTACTTGATATTA
*
4834113 ATGGTTATATGCATGATAT
66 ATGATTATATGCATGATAT
4834132 CTTACCCATG
Statistics
Matches: 169, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
108 168 0.99
109 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (108 bp):
TATGCATGATATATATGCGCTTGCTACTGATGATTATATGCATGATATACATGTACTTGATATTA
ATGATTATATGCATGATATACATGCGATTGCTGATGATGATTA
Found at i:4840127 original size:20 final size:20
Alignment explanation
Indices: 4840076--4840129 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
4840066 AGTGATGGTA
*
4840076 TGTAGAAATGATAAT-GTTGT
1 TGTAGAAATGA-AATGGCTGT
* *
4840096 GGTA-AGATGAAATGGCTGT
1 TGTAGAAATGAAATGGCTGT
4840115 TGTAGAAATGAAATG
1 TGTAGAAATGAAATG
4840130 ATGGTAACAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 3 0.11
19 12 0.44
20 12 0.44
ACGTcount: A:0.37, C:0.02, G:0.30, T:0.31
Consensus pattern (20 bp):
TGTAGAAATGAAATGGCTGT
Found at i:4841694 original size:20 final size:20
Alignment explanation
Indices: 4841655--4841696 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4841645 ATTCTACCAC
*
4841655 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
* *
4841675 ATGCATCTATATGATTCTAA
1 ATGCAACTATATGATCCTAA
4841695 AT
1 AT
4841697 AGGCTCTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.36
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:4850126 original size:20 final size:22
Alignment explanation
Indices: 4850089--4850128 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
4850079 CAAATGATAA
4850089 TGTTGTGGCAAGATGAAATGGC
1 TGTTGTGGCAAGATGAAATGGC
4850111 TGTTGTGG-AA-ATGAAATG
1 TGTTGTGGCAAGATGAAATG
4850129 ATGGTAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.30
Consensus pattern (22 bp):
TGTTGTGGCAAGATGAAATGGC
Found at i:4853129 original size:6 final size:6
Alignment explanation
Indices: 4853113--4853142 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
4853103 TAAATATATT
4853113 AAATT- AAATTA AAATTA AAATTA AAATTA A
1 AAATTA AAATTA AAATTA AAATTA AAATTA A
4853143 TTATTCATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATTA
Found at i:4854117 original size:24 final size:24
Alignment explanation
Indices: 4854070--4854117 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4854060 ATTAAAATAT
* *
4854070 TATATGTATAATTAAATTACATTA
1 TATATGTATAATTAAATCAAATTA
**
4854094 TATATGTATAATTTTATCAAATTA
1 TATATGTATAATTAAATCAAATTA
4854118 AAATATATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (24 bp):
TATATGTATAATTAAATCAAATTA
Found at i:4860672 original size:20 final size:21
Alignment explanation
Indices: 4860635--4860686 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
4860625 TACTCGGGGT
4860635 AGTATCGATACCCTCCTATAGG
1 AGTATCGATA-CCTCCTATAGG
* *
4860657 TGTATCGATA-CTCCTATATG
1 AGTATCGATACCTCCTATAGG
4860677 AGTATCGATA
1 AGTATCGATA
4860687 TCGAAGGTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 18 0.67
22 9 0.33
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (21 bp):
AGTATCGATACCTCCTATAGG
Found at i:4863311 original size:54 final size:54
Alignment explanation
Indices: 4862628--4863290 Score: 1035
Period size: 54 Copynumber: 12.3 Consensus size: 54
4862618 GATTACCGAA
**
4862628 TGGCACTATGTGTGCAACTTAAGAAATTCAT-A--AGTTTATGAATTTCTATAT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
* * *
4862679 TGGCACTATGTGTGCAACTTAAGAAATTCATAATAAGATTATGAATTTTCGTAT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
4862733 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
**
4862787 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTTTGTAT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
* *
4862841 TGTCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTCT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
* * * * *
4862895 TGGCACTATGTGTGCAACTTAATAAACTCATAATTACTTTATGAATTTCCATAT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
* *
4862949 TGGGACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
* * *
4863003 TGACACTATGTGTGCAACTTAAGAAATTTATAATGAGGTTATGAATTTCCGTAT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
*
4863057 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGGTTATGAATTTCCGTAT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
* * * *
4863111 TGGCATTATGTGTGCAACTTAAGAAATTCATAATGGGTTTATTAATTTCTGTAT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
*
4863165 TGGCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
* * *
4863219 TGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTAT
1 TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
* *
4863273 TGGTACTAGGTGTGCAAC
1 TGGCACTATGTGTGCAAC
4863291 CCATGTAATT
Statistics
Matches: 561, Mismatches: 48, Indels: 3
0.92 0.08 0.00
Matches are distributed among these distances:
51 31 0.06
52 1 0.00
54 529 0.94
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.38
Consensus pattern (54 bp):
TGGCACTATGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
Found at i:4866294 original size:48 final size:48
Alignment explanation
Indices: 4866222--4866502 Score: 230
Period size: 48 Copynumber: 6.1 Consensus size: 48
4866212 GTATACTGGA
* *
4866222 GGTGGCGGGGGTGGAGACTCGTACTTATAAGGATGTTTAGGTGGTGAT
1 GGTGGCGGTGGTGGAGACTTGTACTTATAAGGATGTTTAGGTGGTGAT
* * ** ** * *
4866270 GGTGGTGGTGGTGGAGACTTGTACTTGTAAGGGGGTGGAGGATAGTGCAC
1 GGTGGCGGTGGTGGAGACTTGTACTTATAAGGATGTTTAGG-TGGTG-AT
* * * * *
4866320 CG-GG-GATGGTGGAGACTTATACTTGT-A--A-----A-CT-G-GA-
1 GGTGGCGGTGGTGGAGACTTGTACTTATAAGGATGTTTAGGTGGTGAT
*
4866354 GGTGGCGGGGGTGGAGACTTGTACTTATAAGGATGTTTAGGTGGTGAT
1 GGTGGCGGTGGTGGAGACTTGTACTTATAAGGATGTTTAGGTGGTGAT
* * *
4866402 GGTGGTGGTGGTGGAGACTTGTACTTATAAGGATGTTTGGGTGGTAAT
1 GGTGGCGGTGGTGGAGACTTGTACTTATAAGGATGTTTAGGTGGTGAT
* * * * *
4866450 GGCGACGGTGGTGGAGACTTGTACTTATAAGGATGCTTGGGTGGTGGT
1 GGTGGCGGTGGTGGAGACTTGTACTTATAAGGATGTTTAGGTGGTGAT
4866498 GGTGG
1 GGTGG
4866503 TGGGGACTTA
Statistics
Matches: 184, Mismatches: 33, Indels: 32
0.74 0.13 0.13
Matches are distributed among these distances:
34 1 0.01
35 3 0.02
36 19 0.10
37 2 0.01
38 1 0.01
39 1 0.01
40 1 0.01
44 1 0.01
45 1 0.01
46 1 0.01
47 3 0.02
48 142 0.77
49 6 0.03
50 2 0.01
ACGTcount: A:0.19, C:0.08, G:0.44, T:0.30
Consensus pattern (48 bp):
GGTGGCGGTGGTGGAGACTTGTACTTATAAGGATGTTTAGGTGGTGAT
Found at i:4866315 original size:126 final size:127
Alignment explanation
Indices: 4866096--4866433 Score: 482
Period size: 132 Copynumber: 2.6 Consensus size: 127
4866086 GGAGTGTACA
* ** * * *
4866096 GGCGGTGGTGGAGACTTGTACTCGTAAGGATGCTTGGGTGGTGATGGTGGTGGAGGTGGTGGGGA
1 GGCGGGGGTGGAGACTTGTACTTATAAGGATGTTTAGGTGGTGATGGTGGT---GGTGGTGGAGA
* *
4866161 CTTGTACTTGTAAAGGGGTGGAGGATAGTACACCGGAGG-TGGTGGAG-ACTTGTATACTGGAGG
63 CTTGTACTTGTAAGGGGGTGGAGGATAGTACACCGG-GGATGGTGGAGTACTTGTAAACTGGAGG
4866224 T
127 T
*
4866225 GGCGGGGGTGGAGACTCGTACTTATAAGGATGTTTAGGTGGTGATGGTGGTGGTGGTGGAGACTT
1 GGCGGGGGTGGAGACTTGTACTTATAAGGATGTTTAGGTGGTGATGGTGGTGGTGGTGGAGACTT
*
4866290 GTACTTGTAAGGGGGTGGAGGATAGTGCACCGGGGATGGTGGAGACTTATACTTGTAAACTGGAG
66 GTACTTGTAAGGGGGTGGAGGATAGTACACCGGGGATGGTGGAG-----TACTTGTAAACTGGAG
4866355 GT
126 GT
4866357 GGCGGGGGTGGAGACTTGTACTTATAAGGATGTTTAGGTGGTGATGGTGGTGGTGGTGGAGACTT
1 GGCGGGGGTGGAGACTTGTACTTATAAGGATGTTTAGGTGGTGATGGTGGTGGTGGTGGAGACTT
*
4866422 GTACTTATAAGG
66 GTACTTGTAAGG
4866434 ATGTTTGGGT
Statistics
Matches: 190, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
125 2 0.01
126 52 0.27
129 45 0.24
132 91 0.48
ACGTcount: A:0.20, C:0.09, G:0.44, T:0.28
Consensus pattern (127 bp):
GGCGGGGGTGGAGACTTGTACTTATAAGGATGTTTAGGTGGTGATGGTGGTGGTGGTGGAGACTT
GTACTTGTAAGGGGGTGGAGGATAGTACACCGGGGATGGTGGAGTACTTGTAAACTGGAGGT
Found at i:4866752 original size:12 final size:12
Alignment explanation
Indices: 4866735--4866771 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
4866725 ATACTTGTAA
4866735 GGCTTCTCGTGT
1 GGCTTCTCGTGT
4866747 GGCTTCTCGTGT
1 GGCTTCTCGTGT
*
4866759 GGCTTCTCATGT
1 GGCTTCTCGTGT
4866771 G
1 G
4866772 CAACCCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.03, C:0.24, G:0.32, T:0.41
Consensus pattern (12 bp):
GGCTTCTCGTGT
Found at i:4873149 original size:53 final size:53
Alignment explanation
Indices: 4873084--4873221 Score: 240
Period size: 53 Copynumber: 2.6 Consensus size: 53
4873074 CATCTTCAAA
4873084 GGGTACCGATACCCCAGTAGTGTATCGATACCTGTAAACATCGAATTTAATTT
1 GGGTACCGATACCCCAGTAGTGTATCGATACCTGTAAACATCGAATTTAATTT
*
4873137 GGGTACCAATACCCCAGTAGTGTATCGATACCTGTAAACATCGAATTTAATTT
1 GGGTACCGATACCCCAGTAGTGTATCGATACCTGTAAACATCGAATTTAATTT
* * *
4873190 GGGTATCGATACCTCAGTATTGTATCGATACC
1 GGGTACCGATACCCCAGTAGTGTATCGATACC
4873222 CTTCTGAAGG
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 80 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (53 bp):
GGGTACCGATACCCCAGTAGTGTATCGATACCTGTAAACATCGAATTTAATTT
Found at i:4873707 original size:59 final size:59
Alignment explanation
Indices: 4873635--4873981 Score: 538
Period size: 59 Copynumber: 5.9 Consensus size: 59
4873625 TACCAAATGA
4873635 CACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGG
1 CACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGG
4873694 CACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGG
1 CACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGG
* * * *
4873753 CACTCTGTGTGCTAAAGTGGTAAGGAAATTATACTAAATGTATGAATTTCCAGATAGGG
1 CACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGG
* * *
4873812 CACTTTGTGAGCTAAAATGGTAAGGAAATTATAATAAGTGTATGAATTTCCAGATAGGG
1 CACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGG
* * *
4873871 CACTTTGTGTACTAAAATGGTAAGGAAATCATACT-AGAAGTATGACTTTCCAGATAGGG
1 CACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAG-TGTATGAATTTCCAGATAGGG
* *
4873930 CACTTTGTGTGCTAAAATGGTAA-GAAATTCATA-TAGATTGTATGAAATTCCA
1 CACTTTGTGTGCTAAAATGGTAAGGAAA-TCATACTA-AGTGTATGAATTTCCA
4873982 AGTGAATTTA
Statistics
Matches: 264, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
58 7 0.03
59 256 0.97
60 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (59 bp):
CACTTTGTGTGCTAAAATGGTAAGGAAATCATACTAAGTGTATGAATTTCCAGATAGGG
Found at i:4874802 original size:23 final size:26
Alignment explanation
Indices: 4874765--4874812 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 26
4874755 GTATATATAT
4874765 ATATATTTACCATTA-T-GTATTTTC
1 ATATATTTACCATTATTCGTATTTTC
*
4874789 ATAT-TTTACTATTATTCGTATTTT
1 ATATATTTACCATTATTCGTATTTT
4874813 ATTTATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 5 0.24
25 7 0.33
ACGTcount: A:0.27, C:0.10, G:0.04, T:0.58
Consensus pattern (26 bp):
ATATATTTACCATTATTCGTATTTTC
Found at i:4875335 original size:2 final size:2
Alignment explanation
Indices: 4875328--4875367 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4875318 AAATTAATCA
4875328 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4875368 TGCTTTTAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4875427 original size:9 final size:9
Alignment explanation
Indices: 4875421--4875495 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
4875411 CGTTTTATTT
*
4875421 TTATTATTA
1 TTATAATTA
4875430 TTATAATTA
1 TTATAATTA
*
4875439 TTATAATTG
1 TTATAATTA
4875448 TTATAATTA
1 TTATAATTA
4875457 TTATAATTA
1 TTATAATTA
4875466 TTATAATTA
1 TTATAATTA
*
4875475 TTAT-ATTT
1 TTATAATTA
*
4875483 TTATTATTA
1 TTATAATTA
4875492 TTAT
1 TTAT
4875496 TAATAAATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
8 7 0.12
9 53 0.88
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (9 bp):
TTATAATTA
Found at i:4875429 original size:3 final size:3
Alignment explanation
Indices: 4875415--4875513 Score: 92
Period size: 3 Copynumber: 33.0 Consensus size: 3
4875405 TTTACCCGTT
* * * * * *
4875415 TTA TTT TTA TTA TTA TTA TAA TTA TTA TAA TTG TTA TAA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
4875463 TTA TTA TAA TTA TTA -TA TTT TTA TTA TTA TTA TTAA TAA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
4875508 TTA TTA
1 TTA TTA
4875514 CATATTACAA
Statistics
Matches: 74, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.03
3 70 0.95
4 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:4876293 original size:34 final size:34
Alignment explanation
Indices: 4876233--4876301 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
4876223 CGGTGGTCTC
*
4876233 TCTCTCAGTTTTAGAGAGAGGCGAGAGAGAAAAA
1 TCTCTCAGTTTTAGAGAGAGGAGAGAGAGAAAAA
* *
4876267 TCTCTCAATTTTTAGAGAGA-GAGAGAGAGGAAAA
1 TCTCTC-AGTTTTAGAGAGAGGAGAGAGAGAAAAA
4876301 T
1 T
4876302 AGACAAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
34 19 0.61
35 12 0.39
ACGTcount: A:0.39, C:0.10, G:0.28, T:0.23
Consensus pattern (34 bp):
TCTCTCAGTTTTAGAGAGAGGAGAGAGAGAAAAA
Found at i:4877134 original size:25 final size:25
Alignment explanation
Indices: 4877081--4877128 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4877071 TTTTTGATAT
**
4877081 TTTTAAATAAAAATAAATATTTCAC
1 TTTTAAATAAAAATAAATAAATCAC
4877106 TTTT-AATAAATAATAAATAAATC
1 TTTTAAATAAA-AATAAATAAATC
4877129 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (25 bp):
TTTTAAATAAAAATAAATAAATCAC
Found at i:4880863 original size:12 final size:12
Alignment explanation
Indices: 4880846--4880870 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4880836 ACTGATTTTT
4880846 TGAAGAAAGAAG
1 TGAAGAAAGAAG
4880858 TGAAGAAAGAAG
1 TGAAGAAAGAAG
4880870 T
1 T
4880871 AGTATGGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.32, T:0.12
Consensus pattern (12 bp):
TGAAGAAAGAAG
Found at i:4881148 original size:15 final size:15
Alignment explanation
Indices: 4881128--4881159 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4881118 GATCAATACC
4881128 TTTTGCATACATTCA
1 TTTTGCATACATTCA
*
4881143 TTTTGCTTACATTCA
1 TTTTGCATACATTCA
4881158 TT
1 TT
4881160 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTTGCATACATTCA
Found at i:4888460 original size:2 final size:2
Alignment explanation
Indices: 4888455--4888498 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
4888445 AAATGAATGC
* *
4888455 AT AT AT AT A- AT AG AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4888496 AT A
1 AT A
4888499 AGGAGGGTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:4888864 original size:21 final size:21
Alignment explanation
Indices: 4888838--4888885 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
4888828 ATATCTTTTT
*
4888838 GAAATTCAATTTCTTTTGTTC
1 GAAATTCAATTTATTTTGTTC
*
4888859 GAAATTCAATTTATTTTTTTC
1 GAAATTCAATTTATTTTGTTC
4888880 GTAAAT
1 G-AAAT
4888886 ATCCTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.52
Consensus pattern (21 bp):
GAAATTCAATTTATTTTGTTC
Found at i:4890375 original size:112 final size:113
Alignment explanation
Indices: 4890045--4890589 Score: 593
Period size: 112 Copynumber: 4.8 Consensus size: 113
4890035 TCACTTGACA
* * * *
4890045 GATCAATATTGCCA-AGTAGAGTTCATAATGAGAATAACTCATATGAAGAAGG-AGAAGAAGTTC
1 GATCAACATTTCCAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
* ** *
4890108 ATAATGAGAAGAACTTGTTCAACCTTTTTTTTGAATTCATCACTT-GATG
65 ATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCA-TTCAATG
* * * * * *
4890157 GATCAGCATTGCCAG-GTAGAGTTCATAATGAGAATAAATCGTCTGAAGAAGGAAGAAGAAATTC
1 GATCAACATTTCCAGAG-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
**
4890221 ATAATGAGAAGAATTTGTTCAACCTTTCACTTGAATTCATCATTCAATG
65 ATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCATTCAATG
* * *
4890270 GATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCA
1 GATCAACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * **
4890334 TAATGAGAATAACTTGTTCAACCTTTTGCTTG-ATTCTATCATAGAAAGAGATAG
66 TAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTC-ATCAT----TCA-AT-G
* * * *
4890388 ATCATCATTAATATTTCCAGATAGGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
1 --GATC---AACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* * * * *
4890453 ATTCATAATGAGAAGAATTTGTTCAATCTTTTGCTCGAATTCATCACTCGATG
61 GTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCATTCAATG
* *
4890506 GATCAACATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA-AATAAGTTCA
1 GATCAACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
4890569 TAATGAGAAGAATTTGTTCAA
66 TAATGAGAAGAATTTGTTCAA
4890590 TCTTGCCTAT
Statistics
Matches: 368, Mismatches: 47, Indels: 37
0.81 0.10 0.08
Matches are distributed among these distances:
111 33 0.09
112 132 0.36
113 100 0.27
114 1 0.00
116 4 0.01
117 2 0.01
118 2 0.01
119 2 0.01
120 3 0.01
123 38 0.10
124 47 0.13
125 4 0.01
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (113 bp):
GATCAACATTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATCATTCAATG
Found at i:4890671 original size:129 final size:137
Alignment explanation
Indices: 4890505--4890862 Score: 434
Period size: 129 Copynumber: 2.7 Consensus size: 137
4890495 ATCACTCGAT
* ** *
4890505 GGATCAACATTTCCAGA-AGTGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA-AATAAGTTC
1 GGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTC
* * *
4890568 ATAATGAGAAGAATTTGTTCAATCTT-GCCT-ATTCA-TCA-C-AT-A-TTGAAT-CAACAA-TA
65 ATAATGAGAAGAATTTGTTCAACCTTAG-CTAATTCAGT-ATCTATGAGTTGAATGAAACAAGAA
** *
4890624 CCTCTTTTGA
128 CCTCACTTAA
* *
4890634 GGATCAACATTTTTAGAGAAA-TTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTTA
1 GGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCA
* *
4890698 TAATGAGAAGAATTTGTTCGACCTTAGCTAGATTCAGTATCTATGGAGTTGAATGAAAGAAGAAC
66 TAATGAGAAGAATTTGTTCAACCTTAGCTA-ATTCAGTATCTAT-GAGTTGAATGAAACAAGAAC
4890763 CTCACTTAA
129 CTCACTTAA
*
4890772 GGATCAACATTTTCAGAGAAAGTTCGTAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCA
1 GGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCA
*
4890837 TAATAAGAAGAATTTGTTCCAACCTT
66 TAATGAGAAGAATTTGTT-CAACCTT
4890863 TTGTTGAATT
Statistics
Matches: 195, Mismatches: 19, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
128 5 0.03
129 75 0.38
130 2 0.01
131 6 0.03
132 2 0.01
133 2 0.01
135 1 0.01
136 6 0.03
137 4 0.02
138 28 0.14
139 58 0.30
140 6 0.03
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (137 bp):
GGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCA
TAATGAGAAGAATTTGTTCAACCTTAGCTAATTCAGTATCTATGAGTTGAATGAAACAAGAACCT
CACTTAA
Found at i:4891077 original size:3 final size:3
Alignment explanation
Indices: 4891063--4891155 Score: 71
Period size: 3 Copynumber: 31.0 Consensus size: 3
4891053 TTTGCCCGTT
* * * * * * * *
4891063 TTA TTT TTA TTA TTA ATA TAA TTG TTA TAA TAA TAA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
4891111 TTA TTA TTA TTA TTA -TA TTT TTA TTA TTAA TAA ATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
4891156 CATATTATAG
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
2 2 0.03
3 68 0.94
4 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:4892941 original size:20 final size:20
Alignment explanation
Indices: 4892890--4892943 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 20
4892880 GCTCTTTTTT
*
4892890 AATATTT-TTAA-ATAAATA
1 AATATTTATTAATAAAAATA
4892908 AATATCTTATTTAATAAAAATA
1 AATAT-TTA-TTAATAAAAATA
*
4892930 TATATTTATTAATA
1 AATATTTATTAATA
4892944 TATTTTCTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 5 0.17
19 2 0.07
20 6 0.20
21 7 0.23
22 10 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATTTATTAATAAAAATA
Found at i:4894755 original size:38 final size:38
Alignment explanation
Indices: 4894708--4894791 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 38
4894698 GTTGGGTAGT
*
4894708 GGGTCTGGGGATAGATTTGAGAATATACCCGTTTGGGC
1 GGGTGTGGGGATAGATTTGAGAATATACCCGTTTGGGC
4894746 GGGTGTGGGGATAGATTTGAGAATATACCCGTTTGGGC
1 GGGTGTGGGGATAGATTTGAGAATATACCCGTTTGGGC
4894784 GGGTGTGG
1 GGGTGTGG
4894792 ATTTGAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.19, C:0.11, G:0.42, T:0.29
Consensus pattern (38 bp):
GGGTGTGGGGATAGATTTGAGAATATACCCGTTTGGGC
Found at i:4896464 original size:13 final size:13
Alignment explanation
Indices: 4896446--4896473 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4896436 CACATATCTT
4896446 TTCGCCTTTTATA
1 TTCGCCTTTTATA
4896459 TTCGCCTTTTATA
1 TTCGCCTTTTATA
4896472 TT
1 TT
4896474 TGCATGCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (13 bp):
TTCGCCTTTTATA
Found at i:4898829 original size:11 final size:12
Alignment explanation
Indices: 4898813--4898841 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4898803 GATACTTTAA
4898813 TATTAT-GATTT
1 TATTATGGATTT
4898824 TATTATGGATTT
1 TATTATGGATTT
4898836 TATTAT
1 TATTAT
4898842 TCTAGAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (12 bp):
TATTATGGATTT
Found at i:4898957 original size:75 final size:74
Alignment explanation
Indices: 4898781--4898958 Score: 200
Period size: 75 Copynumber: 2.4 Consensus size: 74
4898771 GTTAACAATG
* * * *
4898781 TTTGATTTGAGTCTTAAGATTTGATACTTTAATATTATGATTTTATTATGGATTTTATTATTCTA
1 TTTGGTTTGAGTCTTAA-ATTTGACATTTTAATATTATGATTTTATTATGGATTTTATTATTATA
* *
4898846 GAGTTAATAT
65 AACTTAATAT
* * *
4898856 TTTGGTTTGAATCTTGAAATTTGACATTTTAATATTGTTG-TTTGT-TTATGGATTTTATTGTTA
1 TTTGGTTTGAGTCTT-AAATTTGACATTTTAATATT-ATGATTT-TATTATGGATTTTATTATTA
4898919 TAAACTTAATAT
63 TAAACTTAATAT
4898931 TGTT-GTTTGAGTCTTAATATTTGACATT
1 T-TTGGTTTGAGTCTTAA-ATTTGACATT
4898959 ATTTATGACT
Statistics
Matches: 88, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
74 2 0.02
75 79 0.90
76 7 0.08
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (74 bp):
TTTGGTTTGAGTCTTAAATTTGACATTTTAATATTATGATTTTATTATGGATTTTATTATTATAA
ACTTAATAT
Found at i:4899066 original size:6 final size:6
Alignment explanation
Indices: 4899055--4899089 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
4899045 ATTATCGTTT
*
4899055 CCCGTC CCCGTC CCCGTC CCCATC CCCGTC CCCGT
1 CCCGTC CCCGTC CCCGTC CCCGTC CCCGTC CCCGT
4899090 ATCCATCCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.03, C:0.66, G:0.14, T:0.17
Consensus pattern (6 bp):
CCCGTC
Found at i:4899082 original size:18 final size:18
Alignment explanation
Indices: 4899059--4899101 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
4899049 TCGTTTCCCG
*
4899059 TCCCCGTCCCCGTCCCCA
1 TCCCCGTCCCCGTACCCA
*
4899077 TCCCCGTCCCCGTATCCA
1 TCCCCGTCCCCGTACCCA
4899095 TCCCCGT
1 TCCCCGT
4899102 ATCCGTATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.07, C:0.60, G:0.12, T:0.21
Consensus pattern (18 bp):
TCCCCGTCCCCGTACCCA
Found at i:4899107 original size:18 final size:18
Alignment explanation
Indices: 4899059--4899111 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
4899049 TCGTTTCCCG
* **
4899059 TCCCCGTCCCCGTCCCCA
1 TCCCCGTACCCGTATCCA
*
4899077 TCCCCGTCCCCGTATCCA
1 TCCCCGTACCCGTATCCA
*
4899095 TCCCCGTATCCGTATCC
1 TCCCCGTACCCGTATCC
4899112 GTGCAACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.09, C:0.57, G:0.11, T:0.23
Consensus pattern (18 bp):
TCCCCGTACCCGTATCCA
Done.