Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_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: 9158330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 32 of 35
Found at i:8222646 original size:18 final size:17
Alignment explanation
Indices: 8222620--8222659 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
8222610 AAATATTCTT
8222620 TTTTATTTA-TTCCTTTA
1 TTTTATTTATTTCC-TTA
8222637 TTTTATTTTATTTCCTTA
1 TTTTA-TTTATTTCCTTA
8222655 TTTTA
1 TTTTA
8222660 AAATTTATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 12 0.57
19 4 0.19
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTATTTATTTCCTTA
Found at i:8232892 original size:14 final size:14
Alignment explanation
Indices: 8232868--8232938 Score: 124
Period size: 14 Copynumber: 5.0 Consensus size: 14
8232858 TTTTATATCT
8232868 TCTTCCATTTTCTTC
1 TCTT-CATTTTCTTC
8232883 TCTTCATTTTCTTC
1 TCTTCATTTTCTTC
*
8232897 TCTTCATTTTTTTC
1 TCTTCATTTTCTTC
8232911 TCTTCATTTTCTTC
1 TCTTCATTTTCTTC
8232925 TCTTCATTTTCTTC
1 TCTTCATTTTCTTC
8232939 ATTCTCATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
14 50 0.93
15 4 0.07
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.65
Consensus pattern (14 bp):
TCTTCATTTTCTTC
Found at i:8235166 original size:18 final size:18
Alignment explanation
Indices: 8235145--8235184 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8235135 GGTAAAATAA
*
8235145 TTAGGAATGTTGAAATTG
1 TTAGGAATGTTAAAATTG
**
8235163 TTAGGGTTGTTAAAATTG
1 TTAGGAATGTTAAAATTG
8235181 TTAG
1 TTAG
8235185 AAATTGTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.00, G:0.28, T:0.42
Consensus pattern (18 bp):
TTAGGAATGTTAAAATTG
Found at i:8235672 original size:30 final size:30
Alignment explanation
Indices: 8235638--8235697 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
8235628 TGATTTGGAC
8235638 ATCAAGATTGAATCACAAAGATGAGACTAA
1 ATCAAGATTGAATCACAAAGATGAGACTAA
8235668 ATCAAGATTGAATCACAAAGATGAGACTAA
1 ATCAAGATTGAATCACAAAGATGAGACTAA
8235698 TATAACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.20
Consensus pattern (30 bp):
ATCAAGATTGAATCACAAAGATGAGACTAA
Found at i:8237135 original size:25 final size:26
Alignment explanation
Indices: 8237107--8237156 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
8237097 ACTTTTTTCT
8237107 TGGATTATTGGT-TTACTCTGTTAAA
1 TGGATTATTGGTATTACTCTGTTAAA
* *
8237132 TGGATTATTTGTATTACTTTGTTAA
1 TGGATTATTGGTATTACTCTGTTAA
8237157 TGTATATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.24, C:0.06, G:0.18, T:0.52
Consensus pattern (26 bp):
TGGATTATTGGTATTACTCTGTTAAA
Found at i:8239617 original size:159 final size:155
Alignment explanation
Indices: 8239405--8239766 Score: 476
Period size: 159 Copynumber: 2.3 Consensus size: 155
8239395 AAAAGAGCGA
* * * * * *
8239405 ACTTAAAATAAATGACAAATTTAAGGAATAAGGATATTATGAAAAATTGAAGGATTAACTT-GAA
1 ACTTAAAATAAATGACGAATTAAAGAAATAAGGATATTATGAAAAATTGAAGGACTAAATTAAAA
* *
8239469 AAATAAAAAATTATTATCAAAAAGAGGAATTGAAAGTACACATATATTATACTATGGTTTAGGAG
66 AAATAAAAAAATATTATCAAAAAGAGGAATTG-AAGTACACATATATTATACTATGGTTTAAGAG
8239534 CATGTAG-CTCAAATTTGGTAAAAAAAAAT
130 CATG-AGACTC-AATTT--TAAAAAAAAAT
* *
8239563 GACTTAAAATAAATGACGAATTAAAAAAATAAGGATATTATGAAAATTTGAAGGACTAAATTAAA
1 -ACTTAAAATAAATGACGAATTAAAGAAATAAGGATATTATGAAAAATTGAAGGACTAAATT-AA
* * *
8239628 AAAAATAAAAAAATATTATCAGAAAGAGGAATTGAAGTACACATCTATTCTACTATGGTTTAAGA
64 AAAAATAAAAAAATATTATCAAAAAGAGGAATTGAAGTACACATATATTATACTATGGTTTAAGA
* * *
8239693 GCATGCGACTCAATTTTGATAAAAAAT
129 GCATGAGACTCAATTTTAAAAAAAAAT
* * *
8239720 ACTGAAAATAAATGACGAATTGAAGAAATAAGGAGATTATGAAAAAT
1 ACTTAAAATAAATGACGAATTAAAGAAATAAGGATATTATGAAAAAT
8239767 AAATTTTTGT
Statistics
Matches: 179, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
156 42 0.23
157 9 0.05
159 60 0.34
160 36 0.20
161 32 0.18
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.27
Consensus pattern (155 bp):
ACTTAAAATAAATGACGAATTAAAGAAATAAGGATATTATGAAAAATTGAAGGACTAAATTAAAA
AAATAAAAAAATATTATCAAAAAGAGGAATTGAAGTACACATATATTATACTATGGTTTAAGAGC
ATGAGACTCAATTTTAAAAAAAAAT
Found at i:8239785 original size:156 final size:160
Alignment explanation
Indices: 8239467--8239769 Score: 411
Period size: 156 Copynumber: 1.9 Consensus size: 160
8239457 GATTAACTTG
* *
8239467 AAAAATAAAAAATTATTATCAAAAAGAGGAATTGAAAGTACACATATATTATACTATGGTTTAGG
1 AAAAATAAAAAAATATTATCAAAAAGAGGAATTGAAAGTACACATATATTATACTATGGTTTAAG
* *
8239532 AGCATGTAGCTCAAATTTGGTAAAAAAAAATGACTTAAAATAAATGACGAATTAAAAAAATAAGG
66 AGCATGGAGCTCAAATTT-GTAAAAAAAAATGACTGAAAATAAATGACGAATTAAAAAAATAAGG
* * * *
8239597 ATATTATGAAAATTTGAAGGACTAAATTAAA
130 AGATTATGAAAATATAAAGGACTAAATCAAA
* * *
8239628 AAAAATAAAAAAATATTATCAGAAAGAGGAATTG-AAGTACACATCTATTCTACTATGGTTTAAG
1 AAAAATAAAAAAATATTATCAAAAAGAGGAATTGAAAGTACACATATATTATACTATGGTTTAAG
* * * *
8239692 AGCATGCGA-CTC-AATTT-TGATAAAAAAT-ACTGAAAATAAATGACGAATTGAAGAAATAAGG
66 AGCATG-GAGCTCAAATTTGTAAAAAAAAATGACTGAAAATAAATGACGAATTAAAAAAATAAGG
8239753 AGATTATGAAAA-ATAAA
130 AGATTATGAAAATATAAA
8239770 TTTTTGTTAT
Statistics
Matches: 127, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
155 3 0.02
156 41 0.32
157 9 0.07
159 5 0.04
160 36 0.28
161 33 0.26
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.26
Consensus pattern (160 bp):
AAAAATAAAAAAATATTATCAAAAAGAGGAATTGAAAGTACACATATATTATACTATGGTTTAAG
AGCATGGAGCTCAAATTTGTAAAAAAAAATGACTGAAAATAAATGACGAATTAAAAAAATAAGGA
GATTATGAAAATATAAAGGACTAAATCAAA
Found at i:8240149 original size:24 final size:23
Alignment explanation
Indices: 8240092--8240150 Score: 57
Period size: 24 Copynumber: 2.6 Consensus size: 23
8240082 TAATACAAAT
* *
8240092 CATTAACATTTC-ATTCATAAAC
1 CATTAACATTTCAATACAAAAAC
* **
8240114 CATTTATGTTTCAATCACAAAAAC
1 CATTAACATTTCAAT-ACAAAAAC
8240138 CATTAACATTTCA
1 CATTAACATTTCA
8240151 TTCATTCAAT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
22 9 0.33
23 2 0.07
24 16 0.59
ACGTcount: A:0.41, C:0.22, G:0.02, T:0.36
Consensus pattern (23 bp):
CATTAACATTTCAATACAAAAAC
Found at i:8240182 original size:22 final size:22
Alignment explanation
Indices: 8240154--8240199 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
8240144 CATTTCATTC
*
8240154 ATTCAATAAATACCTTAATATA
1 ATTCAATAAATACCTTAACATA
8240176 ATTCAATAAATACCTTAACATA
1 ATTCAATAAATACCTTAACATA
8240198 AT
1 AT
8240200 AGTTAACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (22 bp):
ATTCAATAAATACCTTAACATA
Found at i:8241078 original size:270 final size:270
Alignment explanation
Indices: 8240586--8241123 Score: 871
Period size: 270 Copynumber: 2.0 Consensus size: 270
8240576 GGCGTCCGTT
* * * *
8240586 TGGAAAATGGACTATGCGATGGTTCCTCGAATGCTCCTCCTAAGAACCTGGGCATAAAATAATTT
1 TGGAAAATGGACTATGCGATGGCTCCTCGAATGCTCCTCCTAAGAACCTGGGCAGAAAACAAATT
* *
8240651 TCTAAAGTTGAGCTCACATGATTAGTGCCACATTAATAACCAAAGTATACTACAAATGTATTATA
66 TCTAAAGTTGAGCTCACATGATTAGTGCCACACTAATAACCAAAGTAAACTACAAATGTATTATA
* * *
8240716 CATGAACATGCTTGTAAACGTAAATATTAGCATACAATGATGCTAAGCTAAACATACGTACAAAG
131 CATGAACATGCTAGTAAACGTAAATATTAGCATACAATGATGCTAAGCTAAACATACATACAAAC
* * *
8240781 GTGGGTGTCATGGTATGGTCGGAGGGTTTCACTATATATTAGAGACACACATCCCTCTAGCCTAC
196 GTGGGTGTCATGGTATGATCAGAGGGTTTCACTATATATTAGAGACACACACCCCTCTAGCCTAC
8240846 CTAGGGTGTC
261 CTAGGGTGTC
* *
8240856 TGGAAAGTGGACTATGCGATGGCTCCTCGAATGCTCCTCTTAAGAACCTGGGCACGAAAACAAAT
1 TGGAAAATGGACTATGCGATGGCTCCTCGAATGCTCCTCCTAAGAACCTGGGCA-GAAAACAAAT
* * *
8240921 TTCTAAAGTTGAGCTCACATGATTAGTGCCAGACTAATAACCAAAGTAAACTACATATG-CTTAT
65 TTCTAAAGTTGAGCTCACATGATTAGTGCCACACTAATAACCAAAGTAAACTACAAATGTATTAT
*
8240985 ACATGAACATGCTAGTAAATGTAAATATTAGCATACAATGATGCTAAGCTAAACATACATACAAA
130 ACATGAACATGCTAGTAAACGTAAATATTAGCATACAATGATGCTAAGCTAAACATACATACAAA
* * *
8241050 CGTGGGTGTCATGGTATGATCAGAGGGTTTCGCTATATCTTATAGACACACACCCCTCTAGCCTA
195 CGTGGGTGTCATGGTATGATCAGAGGGTTTCACTATATATTAGAGACACACACCCCTCTAGCCTA
8241115 CCTAGGGTG
260 CCTAGGGTG
8241124 ATATCTGAAA
Statistics
Matches: 246, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
270 184 0.75
271 62 0.25
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (270 bp):
TGGAAAATGGACTATGCGATGGCTCCTCGAATGCTCCTCCTAAGAACCTGGGCAGAAAACAAATT
TCTAAAGTTGAGCTCACATGATTAGTGCCACACTAATAACCAAAGTAAACTACAAATGTATTATA
CATGAACATGCTAGTAAACGTAAATATTAGCATACAATGATGCTAAGCTAAACATACATACAAAC
GTGGGTGTCATGGTATGATCAGAGGGTTTCACTATATATTAGAGACACACACCCCTCTAGCCTAC
CTAGGGTGTC
Found at i:8241739 original size:17 final size:18
Alignment explanation
Indices: 8241717--8241750 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8241707 CTGTACTCGA
8241717 CCCTTG-GTACCGATACT
1 CCCTTGAGTACCGATACT
8241734 CCCTTGAGTACCGATAC
1 CCCTTGAGTACCGATAC
8241751 CAAAATTGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.21, C:0.35, G:0.18, T:0.26
Consensus pattern (18 bp):
CCCTTGAGTACCGATACT
Found at i:8242171 original size:28 final size:28
Alignment explanation
Indices: 8242141--8242249 Score: 150
Period size: 28 Copynumber: 3.9 Consensus size: 28
8242131 CTAGATGGGG
*
8242141 ACTAAACCCATACA-AAACTAGGACGTGG-
1 ACTAAGCCCATACACAAAC-AGGACG-GGA
* * *
8242169 ACTAAGCCCATGCAGAATCAGGACGGGA
1 ACTAAGCCCATACACAAACAGGACGGGA
8242197 ACTAAGCCCATACACAAACAGGACGGGA
1 ACTAAGCCCATACACAAACAGGACGGGA
8242225 ACTAAGCCCATACACAAACAGGACG
1 ACTAAGCCCATACACAAACAGGACG
8242250 ATGATTTTCA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 2 0.03
28 68 0.93
29 3 0.04
ACGTcount: A:0.41, C:0.28, G:0.21, T:0.10
Consensus pattern (28 bp):
ACTAAGCCCATACACAAACAGGACGGGA
Found at i:8242730 original size:196 final size:196
Alignment explanation
Indices: 8242392--8242765 Score: 563
Period size: 196 Copynumber: 1.9 Consensus size: 196
8242382 TATCACCATG
* *
8242392 CAATAAATAGGTAAAGAGAACATACACCTATACCAGTTAACCTATACTGCCTAAGCTTTACCATT
1 CAATAAATAGGTAAAGAGAACACACACCTATACCAGTTAACCTACACTGCCTAAGCTTTACCATT
*
8242457 TCCACGAACAATATTACTAGGTCCTTCAGAACGAAAACCTAATGATAACATATTTCTATAAAAGG
66 TCCACGAACAATATTACTAGGTCCTTCAGAACGAAAACCTAATGATAACATATTTCTATAAAAGA
* ** * * ** *
8242522 TCTGGTGCAATACTTAAATAAACGAAATTGACAAGTAATCTAAATAATTACATAAAATATTATAT
131 ACTGACGCAATACTAAAATAAACAAAATCAACAAGTAATATAAATAATTACATAAAATATTATAT
8242587 A
196 A
* *
8242588 CAATAAATAGGTCAAGAGAACACACACCTATACCAGTTAACCTACA-TCGCCTAAGTTTTACCAT
1 CAATAAATAGGTAAAGAGAACACACACCTATACCAGTTAACCTACACT-GCCTAAGCTTTACCAT
* *
8242652 TTCCACGAACAATATTACTAGGTCCTGT-AGAACGAAAACCTAATGATAACATATTTTTGTAAAA
65 TTCCACGAACAATATTACTAGGTCCT-TCAGAACGAAAACCTAATGATAACATATTTCTATAAAA
* *
8242716 GAACTTACGCAATACTAAAATAAACAAAATCAACAAGTAATATAATTAAT
129 GAACTGACGCAATACTAAAATAAACAAAATCAACAAGTAATATAAATAAT
8242766 AACACTCACG
Statistics
Matches: 159, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
195 1 0.01
196 157 0.99
197 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (196 bp):
CAATAAATAGGTAAAGAGAACACACACCTATACCAGTTAACCTACACTGCCTAAGCTTTACCATT
TCCACGAACAATATTACTAGGTCCTTCAGAACGAAAACCTAATGATAACATATTTCTATAAAAGA
ACTGACGCAATACTAAAATAAACAAAATCAACAAGTAATATAAATAATTACATAAAATATTATAT
A
Found at i:8243036 original size:23 final size:23
Alignment explanation
Indices: 8243006--8243049 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
8242996 ACGAACAATG
8243006 GTCAAAGTCAA-TAGGTTGGGTTA
1 GTCAAAGTCAACT-GGTTGGGTTA
*
8243029 GTCAAAGTTAACTGGTTGGGT
1 GTCAAAGTCAACTGGTTGGGT
8243050 CGGGTCGACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.27, C:0.09, G:0.32, T:0.32
Consensus pattern (23 bp):
GTCAAAGTCAACTGGTTGGGTTA
Found at i:8244805 original size:12 final size:12
Alignment explanation
Indices: 8244788--8244816 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
8244778 TCCATTTTCT
8244788 CTCTTCTTCTTC
1 CTCTTCTTCTTC
8244800 CTCTTCTTCTTC
1 CTCTTCTTCTTC
8244812 CTCTT
1 CTCTT
8244817 TAAAGGCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (12 bp):
CTCTTCTTCTTC
Found at i:8245475 original size:21 final size:22
Alignment explanation
Indices: 8245432--8245475 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
8245422 CCAATACTCA
**
8245432 TAGGGCTATTGATACTTGACCC
1 TAGGGCTATTGATACTACACCC
*
8245454 TAGGG-TATTGATACTACTCCC
1 TAGGGCTATTGATACTACACCC
8245475 T
1 T
8245476 TTAGATGGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (22 bp):
TAGGGCTATTGATACTACACCC
Found at i:8248659 original size:28 final size:28
Alignment explanation
Indices: 8248627--8248689 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
8248617 TATAATCCCC
*
8248627 TGCAGAATCAGGATAGGGACT-ATGCCCA
1 TGCAGAATCAGGACAGGGACTGA-GCCCA
*
8248655 TGCAGAATCAGGACGGGGACTGAGCCCA
1 TGCAGAATCAGGACAGGGACTGAGCCCA
8248683 TGCAGAA
1 TGCAGAA
8248690 ACAAGACGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.32, T:0.14
Consensus pattern (28 bp):
TGCAGAATCAGGACAGGGACTGAGCCCA
Found at i:8248697 original size:28 final size:28
Alignment explanation
Indices: 8248642--8248697 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
8248632 AATCAGGATA
* *
8248642 GGGACTATGCCCATGCAGAATCAGGACG
1 GGGACTATGCCCATGCAGAAACAAGACG
8248670 GGGACTGA-GCCCATGCAGAAACAAGACG
1 GGGACT-ATGCCCATGCAGAAACAAGACG
8248698 AAGATTGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.32, C:0.25, G:0.32, T:0.11
Consensus pattern (28 bp):
GGGACTATGCCCATGCAGAAACAAGACG
Found at i:8250895 original size:158 final size:160
Alignment explanation
Indices: 8250672--8250996 Score: 636
Period size: 158 Copynumber: 2.0 Consensus size: 160
8250662 ACTAAAGTTT
8250672 CAAAAATAATAAATTAGTCACTAACGTTTTCTATTTATAACAAAATGGTTACTCCACCCCATCCC
1 CAAAAATAATAAATTAGTCACTAACGTTTTCTATTTATAACAAAATGGTTACTCCACCCCATCCC
8250737 ATTAAATTATGACATGACAATGTTAACAAAAAGGGTTATATTTAATCTAA-CTCTAAATAT-TCA
66 ATTAAATTATGACATGACAATGTTAACAAAAAGGGTTATATTTAATCTAACCTCTAAATATGTCA
8250800 TTAAACAGTGATTTTATATCTAATTTACTC
131 TTAAACAGTGATTTTATATCTAATTTACTC
8250830 CAAAAATAATAAATTAGTCACTAACGTTTTCTATTTATAACAAAATGGTTACTCCACCCCATCCC
1 CAAAAATAATAAATTAGTCACTAACGTTTTCTATTTATAACAAAATGGTTACTCCACCCCATCCC
8250895 ATTAAATTATGACATGACAATGTTAACAAAAAGGGTTATATTTAATCTAACCTCTAAATATGTCA
66 ATTAAATTATGACATGACAATGTTAACAAAAAGGGTTATATTTAATCTAACCTCTAAATATGTCA
8250960 TTAAACAGTGATTTTATATCTAATTTACTC
131 TTAAACAGTGATTTTATATCTAATTTACTC
8250990 CAAAAAT
1 CAAAAAT
8250997 TTTCTAATTT
Statistics
Matches: 165, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
158 115 0.70
159 10 0.06
160 40 0.24
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (160 bp):
CAAAAATAATAAATTAGTCACTAACGTTTTCTATTTATAACAAAATGGTTACTCCACCCCATCCC
ATTAAATTATGACATGACAATGTTAACAAAAAGGGTTATATTTAATCTAACCTCTAAATATGTCA
TTAAACAGTGATTTTATATCTAATTTACTC
Found at i:8262086 original size:85 final size:85
Alignment explanation
Indices: 8261829--8262356 Score: 456
Period size: 85 Copynumber: 6.2 Consensus size: 85
8261819 ATCACAACAA
* * ** * * * * *
8261829 TTTTGGAATAAACGCCATAAAAGGTCGATATCTATAGCGGCGTTTTTGGA-ATAAAC-GCGACAA
1 TTTTGGAACAAACACCGCAAAAGGTC-AGATCTATAGCGACATTTTTGGATACAAACACCG-CAA
* * * *
8261892 AAAGTCGATATCTATAGCAGCAT
64 AAGGTC-AGATCTATAGCGGCGT
* * * * *** * * **
8261915 TTTTGGAATAAACATCGTAAAAGGTCGAGATCTATAGCGACGTTTTCAAATAGAAACGCTACAAA
1 TTTTGGAACAAACACCGCAAAAGGTC-AGATCTATAGCGACATTTTTGGATACAAACACCGCAAA
* *
8261980 AGGTCAGATATATAGCGGTGT
65 AGGTCAGATCTATAGCGGCGT
* * * *
8262001 TTTTGGAACAAACACCGTAAAAGGTCAGATTTATAGCGACATATTTGGATACAAACACCGTAAAA
1 TTTTGGAACAAACACCGCAAAAGGTCAGATCTATAGCGACATTTTTGGATACAAACACCGCAAAA
* * *
8262066 GGTTAGATCTATAGCAGTGT
66 GGTCAGATCTATAGCGGCGT
* *
8262086 TTTTGGAACAAACACCGCAAAAGGTCAGATCTATAGTGACATTTTTGGATACAAACACCG--TAA
1 TTTTGGAACAAACACCGCAAAAGGTCAGATCTATAGCGACATTTTTGGATACAAACACCGCAAAA
* *
8262149 -GTCAGATTTATAGCGGCAT
66 GGTCAGATCTATAGCGGCGT
* * * * * *
8262168 TTTTGGATACAAACGCTGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAA-AGTCACAA
1 TTTTGGA-ACAAACACCGCAAAAGGTCAGATCTATAGCGACATTTTTGGATACAAACA-CCGCAA
*
8262232 AAGGTAAGATCTATAGCGGCGT
64 AAGGTCAGATCTATAGCGGCGT
* * * * * * *
8262254 TTTTGGAACAAGCACCGCAAAATGTTAGATCTGTAGCGGCATTTTTGTATACAAACGCCGCAAAA
1 TTTTGGAACAAACACCGCAAAAGGTCAGATCTATAGCGACATTTTTGGATACAAACACCGCAAAA
* * *
8262319 GGTCATATCTATAACGGCAT
66 GGTCAGATCTATAGCGGCGT
* *
8262339 TTTCGAAACAAACACCGC
1 TTTTGGAACAAACACCGC
8262357 CAAATATGCA
Statistics
Matches: 361, Mismatches: 73, Indels: 17
0.80 0.16 0.04
Matches are distributed among these distances:
82 22 0.06
83 46 0.13
85 180 0.50
86 100 0.28
87 13 0.04
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (85 bp):
TTTTGGAACAAACACCGCAAAAGGTCAGATCTATAGCGACATTTTTGGATACAAACACCGCAAAA
GGTCAGATCTATAGCGGCGT
Found at i:8262337 original size:43 final size:43
Alignment explanation
Indices: 8261847--8262356 Score: 430
Period size: 43 Copynumber: 12.0 Consensus size: 43
8261837 TAAACGCCAT
* * * *
8261847 AAAAGGTCGATATCTATAGCGGCGTTTTTGGA-ATAAAC-GCGAC
1 AAAAGGTC-AGATCTATAGCGGCATTTTTGGATACAAACACCG-C
* * * * * *
8261890 AAAAAGTCGATATCTATAGCAGCATTTTTGGA-ATAAACATCGT
1 AAAAGGTC-AGATCTATAGCGGCATTTTTGGATACAAACACCGC
* * *** * * **
8261933 AAAAGGTCGAGATCTATAGCGACGTTTTCAAATAGAAACGCTAC
1 AAAAGGTC-AGATCTATAGCGGCATTTTTGGATACAAACACCGC
* ** *
8261977 AAAAGGTCAGATATATAGCGGTGTTTTTGGA-ACAAACACCGT
1 AAAAGGTCAGATCTATAGCGGCATTTTTGGATACAAACACCGC
* * * *
8262019 AAAAGGTCAGATTTATAGCGACATATTTGGATACAAACACCGT
1 AAAAGGTCAGATCTATAGCGGCATTTTTGGATACAAACACCGC
* * **
8262062 AAAAGGTTAGATCTATAGCAGTGTTTTTGGA-ACAAACACCGC
1 AAAAGGTCAGATCTATAGCGGCATTTTTGGATACAAACACCGC
* *
8262104 AAAAGGTCAGATCTATAGTGACATTTTTGGATACAAACACCG-
1 AAAAGGTCAGATCTATAGCGGCATTTTTGGATACAAACACCGC
* * * *
8262146 -TAA-GTCAGATTTATAGCGGCATTTTTGGATACAAACGCTGC
1 AAAAGGTCAGATCTATAGCGGCATTTTTGGATACAAACACCGC
* * *
8262187 AAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAA-AGTCAC
1 AAAAGGTCAGATCTATAGCGGCATTTTTGGATACAAACA-CCGC
* * *
8262230 AAAAGGTAAGATCTATAGCGGCGTTTTTGGA-ACAAGCACCGC
1 AAAAGGTCAGATCTATAGCGGCATTTTTGGATACAAACACCGC
* * * * *
8262272 AAAATGTTAGATCTGTAGCGGCATTTTTGTATACAAACGCCGC
1 AAAAGGTCAGATCTATAGCGGCATTTTTGGATACAAACACCGC
* * * *
8262315 AAAAGGTCATATCTATAACGGCA-TTTTCGAAACAAACACCGC
1 AAAAGGTCAGATCTATAGCGGCATTTTTGGATACAAACACCGC
8262357 CAAATATGCA
Statistics
Matches: 375, Mismatches: 82, Indels: 21
0.78 0.17 0.04
Matches are distributed among these distances:
40 32 0.09
41 2 0.01
42 116 0.31
43 210 0.56
44 15 0.04
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (43 bp):
AAAAGGTCAGATCTATAGCGGCATTTTTGGATACAAACACCGC
Found at i:8264143 original size:41 final size:41
Alignment explanation
Indices: 8264098--8264230 Score: 121
Period size: 41 Copynumber: 3.3 Consensus size: 41
8264088 TGTTTGTTGA
* *
8264098 AAAAATGCCACTATAGATGAACCCTATTATGACGTTTGTAT
1 AAAAATGCCACTATAGATGAACCATATTATGGCGTTTGTAT
* * * *
8264139 AAAAATGTCGCTA-A-A-GTACTATATTATGGCGTTTGT-T
1 AAAAATGCCACTATAGATGAACCATATTATGGCGTTTGTAT
*** * * *
8264176 AAAAATTTTTACTATAGATGAACCTTATTACGGCGTTTATAT
1 AAAAA-TGCCACTATAGATGAACCATATTATGGCGTTTGTAT
8264218 AAAAATGCCACTA
1 AAAAATGCCACTA
8264231 AAGTACTACT
Statistics
Matches: 70, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
37 6 0.09
38 22 0.31
39 2 0.03
40 2 0.03
41 32 0.46
42 6 0.09
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (41 bp):
AAAAATGCCACTATAGATGAACCATATTATGGCGTTTGTAT
Found at i:8272653 original size:21 final size:21
Alignment explanation
Indices: 8272629--8272670 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8272619 ATTTCAACAA
* *
8272629 TGGTTGTAGGATTTTTAGTAG
1 TGGTTATAGGATTTTCAGTAG
8272650 TGGTTATAGGATTTTCAGTAG
1 TGGTTATAGGATTTTCAGTAG
8272671 GTTTTGTAGT
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:0.21, C:0.02, G:0.31, T:0.45
Consensus pattern (21 bp):
TGGTTATAGGATTTTCAGTAG
Found at i:8277524 original size:851 final size:851
Alignment explanation
Indices: 8275883--8277588 Score: 3376
Period size: 851 Copynumber: 2.0 Consensus size: 851
8275873 GCAAAAAAAT
8275883 GCATTTGAATGATAACACAAAAAGTATTAATCTTATCTTGTCTCTCTCTATTTACTACTATAGAA
1 GCATTTGAATGATAACACAAAAAGTATTAATCTTATCTTGTCTCTCTCTATTTACTACTATAGAA
8275948 AATAAAGTAAGTCTTTGTTATTTTATTCATATATAAATATTCAGTAGAACACATTACATATTTAT
66 AATAAAGTAAGTCTTTGTTATTTTATTCATATATAAATATTCAGTAGAACACATTACATATTTAT
8276013 ATACAAATTATGCCTATAAACTAGGAAACTCTAAGTTAGGAAACTAATCTTATGAGATGTAATCC
131 ATACAAATTATGCCTATAAACTAGGAAACTCTAAGTTAGGAAACTAATCTTATGAGATGTAATCC
8276078 CTTGAAATAAGAAATTTAAAAACAAAAAATAATTACAAAATCTTTTAACTTAAGGGATTGACAAA
196 CTTGAAATAAGAAATTTAAAAACAAAAAATAATTACAAAATCTTTTAACTTAAGGGATTGACAAA
8276143 TCATTTCTATAATTCCTACACCCCCCCTCATACTGGTGTATATATGTTGTATATACCCAGTTTGA
261 TCATTTCTATAATTCCTACACCCCCCCTCATACTGGTGTATATATGTTGTATATACCCAGTTTGA
* *
8276208 ATGACAGCTTATTAAATGTCACTCGTGTAAGGGCTTTGGTGAAGATATATGCCAGTTGTTTCTCT
326 ATGACAGCTCATTAAAAGTCACTCGTGTAAGGGCTTTGGTGAAGATATATGCCAGTTGTTTCTCT
8276273 GCCGTAATGTTCTGCAGTTTTGCAACTCCATTGTTGACCTTCTAGTAAATAAAATATATTGCACT
391 GCCGTAATGTTCTGCAGTTTTGCAACTCCATTGTTGACCTTCTAGTAAATAAAATATATTGCACT
8276338 GGGTTTCTTTGCTATAATCATAGCCGATTGACTGTCACTAAAAATCTTAAAATTCTTTTTATCAT
456 GGGTTTCTTTGCTATAATCATAGCCGATTGACTGTCACTAAAAATCTTAAAATTCTTTTTATCAT
8276403 CTAAGTCCAGTTCTGTAAGCAGTCTTTTAATCCACATTCCTTCACATATTCCGAGAGCCATTGCT
521 CTAAGTCCAGTTCTGTAAGCAGTCTTTTAATCCACATTCCTTCACATATTCCGAGAGCCATTGCT
*
8276468 CTAAACTCTGACTCAACACTACTTCGAGAGACAACGACTTGTTTCTTACTTCTCTAAGTTACCAA
586 CTAAACTCTGACTCAACACTACTTCGAGAGACAACGACTTGATTCTTACTTCTCTAAGTTACCAA
8276533 ATTATCCCAAACGTAGGTAAATGAGCCACTAACTGACCTTCTATCAGTTAATTCACCTCCCCATC
651 ATTATCCCAAACGTAGGTAAATGAGCCACTAACTGACCTTCTATCAGTTAATTCACCTCCCCATC
*
8276598 TTGCTTCCGTATAAACCTTAATTGTTCTATCTTGATTTTTTCTAAATATAAGTCCAGCTCCTGGG
716 TTGCTTCCGTATAAACCTTAATTGTTCTATCTTGAGTTTTTCTAAATATAAGTCCAGCTCCTGGG
8276663 GTAAACTTCAAGAACCTTATAATTATGTTAACAACTTCAAAATTTTCTTCTCGAGGATCATTCAT
781 GTAAACTTCAAGAACCTTATAATTATGTTAACAACTTCAAAATTTTCTTCTCGAGGATCATTCAT
8276728 ATGTTG
846 ATGTTG
8276734 GCATTTGAATGATAACACAAAAAGTATTAATCTTATCTTGTCTCTCTCTATTTACTACTATAGAA
1 GCATTTGAATGATAACACAAAAAGTATTAATCTTATCTTGTCTCTCTCTATTTACTACTATAGAA
8276799 AATAAAGTAAGTCTTTGTTATTTTATTCATATATAAATATTCAGTAGAACACATTACATATTTAT
66 AATAAAGTAAGTCTTTGTTATTTTATTCATATATAAATATTCAGTAGAACACATTACATATTTAT
8276864 ATACAAATTATGCCTATAAACTAGGAAACTCTAAGTTAGGAAACTAATCTTATGAGATGTAATCC
131 ATACAAATTATGCCTATAAACTAGGAAACTCTAAGTTAGGAAACTAATCTTATGAGATGTAATCC
8276929 CTTGAAATAAGAAATTTAAAAACAAAAAATAATTACAAAATCTTTTAACTTAAGGGATTGACAAA
196 CTTGAAATAAGAAATTTAAAAACAAAAAATAATTACAAAATCTTTTAACTTAAGGGATTGACAAA
8276994 TCATTTCTATAATTCCTACACCCCCCCTCATACTGGTGTATATATGTTGTATATACCCAGTTTGA
261 TCATTTCTATAATTCCTACACCCCCCCTCATACTGGTGTATATATGTTGTATATACCCAGTTTGA
8277059 ATGACAGCTCATTAAAAGTCACTCGTGTAAGGGCTTTGGTGAAGATATATGCCAGTTGTTTCTCT
326 ATGACAGCTCATTAAAAGTCACTCGTGTAAGGGCTTTGGTGAAGATATATGCCAGTTGTTTCTCT
8277124 GCCGTAATGTTCTGCAGTTTTGCAACTCCATTGTTGACCTTCTAGTAAATAAAATATATTGCACT
391 GCCGTAATGTTCTGCAGTTTTGCAACTCCATTGTTGACCTTCTAGTAAATAAAATATATTGCACT
8277189 GGGTTTCTTTGCTATAATCATAGCCGATTGACTGTCACTAAAAATCTTAAAATTCTTTTTATCAT
456 GGGTTTCTTTGCTATAATCATAGCCGATTGACTGTCACTAAAAATCTTAAAATTCTTTTTATCAT
8277254 CTAAGTCCAGTTCTGTAAGCAGTCTTTTAATCCACATTCCTTCACATATTCCGAGAGCCATTGCT
521 CTAAGTCCAGTTCTGTAAGCAGTCTTTTAATCCACATTCCTTCACATATTCCGAGAGCCATTGCT
8277319 CTAAACTCTGACTCAACACTACTTCGAGAGACAACGACTTGATTCTTACTTCTCTAAGTTACCAA
586 CTAAACTCTGACTCAACACTACTTCGAGAGACAACGACTTGATTCTTACTTCTCTAAGTTACCAA
8277384 ATTATCCCAAACGTAGGTAAATGAGCCACTAACTGACCTTCTATCAGTTAATTCACCTCCCCATC
651 ATTATCCCAAACGTAGGTAAATGAGCCACTAACTGACCTTCTATCAGTTAATTCACCTCCCCATC
8277449 TTGCTTCCGTATAAACCTTAATTGTTCTATCTTGAGTTTTTCTAAATATAAGTCCAGCTCCTGGG
716 TTGCTTCCGTATAAACCTTAATTGTTCTATCTTGAGTTTTTCTAAATATAAGTCCAGCTCCTGGG
8277514 GTAAACTTCAAGAACCTTATAATTATGTTAACAACTTCAAAATTTTCTTCTCGAGGATCATTCAT
781 GTAAACTTCAAGAACCTTATAATTATGTTAACAACTTCAAAATTTTCTTCTCGAGGATCATTCAT
8277579 ATGTTG
846 ATGTTG
8277585 GCAT
1 GCAT
8277589 ACAATGCTCA
Statistics
Matches: 851, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
851 851 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (851 bp):
GCATTTGAATGATAACACAAAAAGTATTAATCTTATCTTGTCTCTCTCTATTTACTACTATAGAA
AATAAAGTAAGTCTTTGTTATTTTATTCATATATAAATATTCAGTAGAACACATTACATATTTAT
ATACAAATTATGCCTATAAACTAGGAAACTCTAAGTTAGGAAACTAATCTTATGAGATGTAATCC
CTTGAAATAAGAAATTTAAAAACAAAAAATAATTACAAAATCTTTTAACTTAAGGGATTGACAAA
TCATTTCTATAATTCCTACACCCCCCCTCATACTGGTGTATATATGTTGTATATACCCAGTTTGA
ATGACAGCTCATTAAAAGTCACTCGTGTAAGGGCTTTGGTGAAGATATATGCCAGTTGTTTCTCT
GCCGTAATGTTCTGCAGTTTTGCAACTCCATTGTTGACCTTCTAGTAAATAAAATATATTGCACT
GGGTTTCTTTGCTATAATCATAGCCGATTGACTGTCACTAAAAATCTTAAAATTCTTTTTATCAT
CTAAGTCCAGTTCTGTAAGCAGTCTTTTAATCCACATTCCTTCACATATTCCGAGAGCCATTGCT
CTAAACTCTGACTCAACACTACTTCGAGAGACAACGACTTGATTCTTACTTCTCTAAGTTACCAA
ATTATCCCAAACGTAGGTAAATGAGCCACTAACTGACCTTCTATCAGTTAATTCACCTCCCCATC
TTGCTTCCGTATAAACCTTAATTGTTCTATCTTGAGTTTTTCTAAATATAAGTCCAGCTCCTGGG
GTAAACTTCAAGAACCTTATAATTATGTTAACAACTTCAAAATTTTCTTCTCGAGGATCATTCAT
ATGTTG
Found at i:8281770 original size:21 final size:20
Alignment explanation
Indices: 8281735--8281785 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
8281725 CCATTCGACT
8281735 AAATACATGACTTTTAAATGG
1 AAATACATGACTTTTAAAT-G
** *
8281756 AAATACATGTTTTTTTAATG
1 AAATACATGACTTTTAAATG
8281776 AAGATACATG
1 AA-ATACATG
8281786 CTCTTGGCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (20 bp):
AAATACATGACTTTTAAATG
Found at i:8283663 original size:31 final size:31
Alignment explanation
Indices: 8283623--8283682 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
8283613 ATATATATAT
*
8283623 AATATTAATAAATTTAT-TTTAAATTAAAAA
1 AATATTAATAAATATATATTTAAATTAAAAA
* *
8283653 AATATATAATATATATATATTTAATTTAAA
1 AATAT-TAATAAATATATATTTAAATTAAA
8283683 TATATATACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.20
31 10 0.40
32 10 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
AATATTAATAAATATATATTTAAATTAAAAA
Found at i:8285056 original size:24 final size:24
Alignment explanation
Indices: 8285029--8285083 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
8285019 AAAATCAGCA
*
8285029 AAGAAAAGTCAAACACTCCAAAAG
1 AAGAAAAGTCAAACACTCAAAAAG
**
8285053 AAGAAAAGTCAAGTACTCAAAAAG
1 AAGAAAAGTCAAACACTCAAAAAG
8285077 AAGAAAA
1 AAGAAAA
8285084 AGAAAAGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.62, C:0.15, G:0.15, T:0.09
Consensus pattern (24 bp):
AAGAAAAGTCAAACACTCAAAAAG
Found at i:8285091 original size:14 final size:14
Alignment explanation
Indices: 8285072--8285104 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8285062 CAAGTACTCA
8285072 AAAAGAAGAA-AAAG
1 AAAAGAA-AAGAAAG
8285086 AAAAGAAAAGAAAG
1 AAAAGAAAAGAAAG
8285100 AAAAG
1 AAAAG
8285105 TTAAAGAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAGAAAG
Found at i:8291286 original size:28 final size:24
Alignment explanation
Indices: 8291253--8291316 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 24
8291243 TTTGCTTCAC
*
8291253 TTTTTCTTTGCCTTTGATTCTTCTTTT
1 TTTTTCTTT--CTTT-ATTCTTCCTTT
*
8291280 TCTTTTCTTTCTTTATTTTTCCTTT
1 T-TTTTCTTTCTTTATTCTTCCTTT
8291305 TTTTTC-TTCTTT
1 TTTTTCTTTCTTT
8291317 CTTTTACTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 6 0.18
24 5 0.15
25 10 0.29
26 4 0.12
27 1 0.03
28 8 0.24
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (24 bp):
TTTTTCTTTCTTTATTCTTCCTTT
Found at i:8308751 original size:17 final size:18
Alignment explanation
Indices: 8308729--8308762 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8308719 AGATACAACA
*
8308729 TCATCACCATC-TCCATT
1 TCATCAACATCATCCATT
8308746 TCATCAACATCATCCAT
1 TCATCAACATCATCCAT
8308763 CAAGACCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.38, G:0.00, T:0.32
Consensus pattern (18 bp):
TCATCAACATCATCCATT
Found at i:8309983 original size:31 final size:31
Alignment explanation
Indices: 8309945--8310006 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
8309935 GTAGATCAGC
8309945 CTACATCAAGCGGTAATCAGAGCATAGTTGG
1 CTACATCAAGCGGTAATCAGAGCATAGTTGG
8309976 CTACATCAAGCGGTAATCAGAGCATAGTTGG
1 CTACATCAAGCGGTAATCAGAGCATAGTTGG
8310007 ATTGACAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (31 bp):
CTACATCAAGCGGTAATCAGAGCATAGTTGG
Found at i:8310095 original size:17 final size:16
Alignment explanation
Indices: 8310073--8310147 Score: 57
Period size: 19 Copynumber: 4.6 Consensus size: 16
8310063 AAATTGGAGT
8310073 ACAAAAAGAAAGAAAAG
1 ACAAAAAG-AAGAAAAG
*
8310090 ACAAAAAGAAGAAAAA
1 ACAAAAAGAAGAAAAG
*
8310106 ATCATAAAAAGAATAAAAG
1 A-C--AAAAAGAAGAAAAG
*
8310125 --AAAAATAAGAAAA-
1 ACAAAAAGAAGAAAAG
*
8310138 TCAAAAAGAA
1 ACAAAAAGAA
8310148 AGCAAAGCTA
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
14 11 0.23
15 7 0.15
16 8 0.17
17 9 0.19
19 12 0.26
ACGTcount: A:0.76, C:0.05, G:0.12, T:0.07
Consensus pattern (16 bp):
ACAAAAAGAAGAAAAG
Found at i:8319252 original size:19 final size:20
Alignment explanation
Indices: 8319215--8319263 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
8319205 AAACCCATTT
*
8319215 GAAAATACTTGATTTTTAAC
1 GAAAATACATGATTTTTAAC
*
8319235 GAAAATACATGA-TTTTAAT
1 GAAAATACATGATTTTTAAC
*
8319254 GAAGATACAT
1 GAAAATACAT
8319264 ACTCTTGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (20 bp):
GAAAATACATGATTTTTAAC
Found at i:8321200 original size:24 final size:24
Alignment explanation
Indices: 8321148--8321202 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
8321138 TCGTGGATCA
*
8321148 CCAAAAGTAACAACTATTTGTTCT
1 CCAAAAGTAACAACTATTTGTCCT
* *
8321172 TCAAAAGTAACATCT-TTTAGTCCT
1 CCAAAAGTAACAACTATTT-GTCCT
8321196 CCAAAAG
1 CCAAAAG
8321203 CCATGATTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (24 bp):
CCAAAAGTAACAACTATTTGTCCT
Found at i:8324168 original size:17 final size:17
Alignment explanation
Indices: 8324117--8324169 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 17
8324107 AGTTGCATGA
*
8324117 CATGCATTGCATTTAAT
1 CATGCGTTGCATTTAAT
* *
8324134 AAGTGAGTTGTTCATTTAAT
1 CA-TGCGTTG--CATTTAAT
8324154 CATGCGTTGCATTTAA
1 CATGCGTTGCATTTAA
8324170 AGTATGTAGT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
17 8 0.29
18 5 0.18
19 6 0.21
20 9 0.32
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (17 bp):
CATGCGTTGCATTTAAT
Found at i:8324252 original size:17 final size:17
Alignment explanation
Indices: 8324193--8324254 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
8324183 TTTAGGGAAG
*
8324193 TAGTTCATTTATGCAGATT
1 TAGTTCATTTATGC--ATC
* *
8324212 TAGATCATTTAGTG-ACC
1 TAGTTCATTTA-TGCATC
*
8324229 TACTTCATTTATGCATC
1 TAGTTCATTTATGCATC
8324246 TAGTTCATT
1 TAGTTCATT
8324255 GAATAAAGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
16 2 0.06
17 20 0.59
19 10 0.29
20 2 0.06
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:8324286 original size:17 final size:17
Alignment explanation
Indices: 8324245--8324311 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
8324235 ATTTATGCAT
8324245 CTAGTTCATTGAA-TAAA
1 CTAGTTCATT-AATTAAA
*
8324262 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* * *
8324280 CTAGTTCGTTCATCAAA
1 CTAGTTCATTAATTAAA
*
8324297 CTAGTTCATTTATTA
1 CTAGTTCATTAATTA
8324312 GGCTAAATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
17 27 0.68
18 13 0.32
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.42
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:8327904 original size:17 final size:17
Alignment explanation
Indices: 8327882--8327929 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
8327872 TGAAGAAAGT
8327882 TAGTTCATTAATTAAAC
1 TAGTTCATTAATTAAAC
* * *
8327899 TAGTTCGTTCATCAAAC
1 TAGTTCATTAATTAAAC
*
8327916 TAGTTCATTTATTA
1 TAGTTCATTAATTA
8327930 GACAAACTCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (17 bp):
TAGTTCATTAATTAAAC
Found at i:8330756 original size:15 final size:15
Alignment explanation
Indices: 8330736--8330770 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
8330726 CCTTCGATAA
8330736 CATTTC-TATCCATTT
1 CATTTCTTAT-CATTT
8330751 CATTTCTTATCATTT
1 CATTTCTTATCATTT
8330766 CATTT
1 CATTT
8330771 ATCTCTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.84
16 3 0.16
ACGTcount: A:0.20, C:0.23, G:0.00, T:0.57
Consensus pattern (15 bp):
CATTTCTTATCATTT
Found at i:8330814 original size:25 final size:26
Alignment explanation
Indices: 8330743--8330815 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 26
8330733 TAACATTTCT
* *
8330743 ATCCATTTCATTTCTTATCATTTCATTT
1 ATCCATTTCATTTC--ATTATTTCATTA
*
8330771 ATCTC-TTTCATTTC-CTATTTCATTA
1 ATC-CATTTCATTTCATTATTTCATTA
8330796 ATCCATTTC-TTTCATTATTT
1 ATCCATTTCATTTCATTATTT
8330816 TGTGTAGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
24 5 0.13
25 20 0.53
28 12 0.32
29 1 0.03
ACGTcount: A:0.21, C:0.22, G:0.00, T:0.58
Consensus pattern (26 bp):
ATCCATTTCATTTCATTATTTCATTA
Found at i:8335075 original size:25 final size:25
Alignment explanation
Indices: 8335033--8335086 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
8335023 ATTTATTATA
*
8335033 ATTTCATTTATCTCTTTCATTTC-TT
1 ATTTCATTAATCTCTTTC-TTTCATT
8335058 ATTTCATTAATC-CATTTCTTTCATT
1 ATTTCATTAATCTC-TTTCTTTCATT
8335083 ATTT
1 ATTT
8335087 GTTGCATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.20, C:0.19, G:0.00, T:0.61
Consensus pattern (25 bp):
ATTTCATTAATCTCTTTCTTTCATT
Found at i:8337163 original size:25 final size:24
Alignment explanation
Indices: 8337108--8337174 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 24
8337098 TTATATCCAT
* *
8337108 TCCATTTCTTT-TAATTTCATTTA
1 TCCATTTCTTTCTTATTTCATTAA
8337131 TCTC-TTTCATTTCTTATTTCATTAA
1 TC-CATTTC-TTTCTTATTTCATTAA
8337156 TCCATTTCTTTCATTATTT
1 TCCATTTCTTTC-TTATTT
8337175 TTTGCATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
23 6 0.16
24 9 0.24
25 22 0.59
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.61
Consensus pattern (24 bp):
TCCATTTCTTTCTTATTTCATTAA
Found at i:8339231 original size:25 final size:26
Alignment explanation
Indices: 8339165--8339242 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 26
8339155 TTTGATAACA
* *
8339165 ATTATATCCATTCCATTTCTTATAATTTC
1 ATTA-ATCCATTTCATTTC--ATTATTTC
*
8339194 ATTTATCTC-TTTCATTTC-TTATTTC
1 ATTAATC-CATTTCATTTCATTATTTC
8339219 ATTAATCCATTTC-TTTCATTATTT
1 ATTAATCCATTTCATTTCATTATTT
8339243 TTTGCATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
24 5 0.12
25 22 0.52
28 11 0.26
29 4 0.10
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (26 bp):
ATTAATCCATTTCATTTCATTATTTC
Found at i:8341277 original size:25 final size:26
Alignment explanation
Indices: 8341211--8341288 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 26
8341201 TTTGATAACA
* *
8341211 ATTATATCCATTCCATTTCTTATAATTTC
1 ATTA-ATCCATTTCATTTC--ATTATTTC
*
8341240 ATTTATCTC-TTTCATTTC-TTATTTC
1 ATTAATC-CATTTCATTTCATTATTTC
8341265 ATTAATCCATTTC-TTTCATTATTT
1 ATTAATCCATTTCATTTCATTATTT
8341289 TTTGCATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
24 5 0.12
25 22 0.52
28 11 0.26
29 4 0.10
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (26 bp):
ATTAATCCATTTCATTTCATTATTTC
Found at i:8357091 original size:49 final size:49
Alignment explanation
Indices: 8357038--8357189 Score: 136
Period size: 49 Copynumber: 3.1 Consensus size: 49
8357028 AAATATGCGT
8357038 TATTGCCAAGGGGAGATGGATCATTCCTAATCATAAAAAAGAACAATGA
1 TATTGCCAAGGGGAGATGGATCATTCCTAATCATAAAAAAGAACAATGA
*** * * * * * *
8357087 TATTG-C-ATTTGAGAATGGAACGGTTTCCT--TCACAAAGAA-AA-TATGCGT
1 TATTGCCAAGGGGAG-ATGGATC--ATTCCTAATCATAAAAAAGAACAAT--GA
8357135 TATTGCCAAGGGGAGATGGATCATTCCTAATCATAAAAAAGAACAATGA
1 TATTGCCAAGGGGAGATGGATCATTCCTAATCATAAAAAAGAACAATGA
8357184 TATTGC
1 TATTGC
8357190 ATACAAGTAG
Statistics
Matches: 74, Mismatches: 18, Indels: 22
0.65 0.16 0.19
Matches are distributed among these distances:
46 2 0.03
47 11 0.15
48 21 0.28
49 27 0.36
50 11 0.15
51 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (49 bp):
TATTGCCAAGGGGAGATGGATCATTCCTAATCATAAAAAAGAACAATGA
Found at i:8357139 original size:48 final size:48
Alignment explanation
Indices: 8356995--8357140 Score: 122
Period size: 48 Copynumber: 3.0 Consensus size: 48
8356985 GGTTTGGGTA
8356995 CATTTGAGAATGGAACGGTTTCCTTCACAAAGAAAATATGCGTTATTG
1 CATTTGAGAATGGAACGGTTTCCTTCACAAAGAAAATATGCGTTATTG
** * * * * * * *
8357043 CCA-AGGGGAGATGGATC--ATTCCTAATCATAAAAAAGAACAAT--GATATTG
1 -CATTTGAGA-ATGGAACGGTTTCCT--TCACAAAGAA-AA-TATGCGTTATTG
8357092 CATTTGAGAATGGAACGGTTTCCTTCACAAAGAAAATATGCGTTATTG
1 CATTTGAGAATGGAACGGTTTCCTTCACAAAGAAAATATGCGTTATTG
8357140 C
1 C
8357141 CAAGGGGAGA
Statistics
Matches: 69, Mismatches: 18, Indels: 21
0.64 0.17 0.19
Matches are distributed among these distances:
46 2 0.03
47 7 0.10
48 26 0.38
49 25 0.36
50 7 0.10
51 2 0.03
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (48 bp):
CATTTGAGAATGGAACGGTTTCCTTCACAAAGAAAATATGCGTTATTG
Found at i:8357161 original size:97 final size:97
Alignment explanation
Indices: 8356995--8357191 Score: 394
Period size: 97 Copynumber: 2.0 Consensus size: 97
8356985 GGTTTGGGTA
8356995 CATTTGAGAATGGAACGGTTTCCTTCACAAAGAAAATATGCGTTATTGCCAAGGGGAGATGGATC
1 CATTTGAGAATGGAACGGTTTCCTTCACAAAGAAAATATGCGTTATTGCCAAGGGGAGATGGATC
8357060 ATTCCTAATCATAAAAAAGAACAATGATATTG
66 ATTCCTAATCATAAAAAAGAACAATGATATTG
8357092 CATTTGAGAATGGAACGGTTTCCTTCACAAAGAAAATATGCGTTATTGCCAAGGGGAGATGGATC
1 CATTTGAGAATGGAACGGTTTCCTTCACAAAGAAAATATGCGTTATTGCCAAGGGGAGATGGATC
8357157 ATTCCTAATCATAAAAAAGAACAATGATATTG
66 ATTCCTAATCATAAAAAAGAACAATGATATTG
8357189 CAT
1 CAT
8357192 ACAAGTAGGC
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 100 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (97 bp):
CATTTGAGAATGGAACGGTTTCCTTCACAAAGAAAATATGCGTTATTGCCAAGGGGAGATGGATC
ATTCCTAATCATAAAAAAGAACAATGATATTG
Found at i:8370792 original size:106 final size:106
Alignment explanation
Indices: 8370607--8370818 Score: 424
Period size: 106 Copynumber: 2.0 Consensus size: 106
8370597 CTTGACAGAA
8370607 TAGTCAAACATTATTGGTTGCCTTGACTTCTCTTACCTCATTAGGACGTTGCAAATTTTTCAACA
1 TAGTCAAACATTATTGGTTGCCTTGACTTCTCTTACCTCATTAGGACGTTGCAAATTTTTCAACA
8370672 TATTGGTTATGACAGAAAGTTAGGCTGCTACCAAATCTTTG
66 TATTGGTTATGACAGAAAGTTAGGCTGCTACCAAATCTTTG
8370713 TAGTCAAACATTATTGGTTGCCTTGACTTCTCTTACCTCATTAGGACGTTGCAAATTTTTCAACA
1 TAGTCAAACATTATTGGTTGCCTTGACTTCTCTTACCTCATTAGGACGTTGCAAATTTTTCAACA
8370778 TATTGGTTATGACAGAAAGTTAGGCTGCTACCAAATCTTTG
66 TATTGGTTATGACAGAAAGTTAGGCTGCTACCAAATCTTTG
8370819 CTTTCTAATT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 106 1.00
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (106 bp):
TAGTCAAACATTATTGGTTGCCTTGACTTCTCTTACCTCATTAGGACGTTGCAAATTTTTCAACA
TATTGGTTATGACAGAAAGTTAGGCTGCTACCAAATCTTTG
Found at i:8378744 original size:17 final size:17
Alignment explanation
Indices: 8378722--8378754 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8378712 TCAGCTTAAA
*
8378722 AGAAATGGTTAGGGTAT
1 AGAAATGGTTAAGGTAT
8378739 AGAAATGGTTAAGGTA
1 AGAAATGGTTAAGGTA
8378755 AAGGTAGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (17 bp):
AGAAATGGTTAAGGTAT
Found at i:8378828 original size:16 final size:16
Alignment explanation
Indices: 8378807--8378843 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
8378797 ATAAGAAAAG
*
8378807 ATGAAAGATTAAGAAA
1 ATGAAAGAGTAAGAAA
*
8378823 ATGAAATAGTAAGAAA
1 ATGAAAGAGTAAGAAA
8378839 ATGAA
1 ATGAA
8378844 GGTAACTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (16 bp):
ATGAAAGAGTAAGAAA
Found at i:8385501 original size:23 final size:22
Alignment explanation
Indices: 8385475--8385526 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
8385465 CTAGGTAATT
*
8385475 ATACCCCCTTTGAATGGGTATCG
1 ATACCCCC-TTGAATGGGTACCG
* *
8385498 ATACCATCCTTGAATTGGTACCG
1 ATACC-CCCTTGAATGGGTACCG
8385521 ATACCC
1 ATACCC
8385527 GCATGAGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (22 bp):
ATACCCCCTTGAATGGGTACCG
Found at i:8387851 original size:19 final size:19
Alignment explanation
Indices: 8387827--8387868 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
8387817 AAACAGATTG
8387827 CCCAGATGGTACCGATACC
1 CCCAGATGGTACCGATACC
8387846 CCCAGATGGTACCGATACC
1 CCCAGATGGTACCGATACC
8387865 CCCA
1 CCCA
8387869 TGCCAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.40, G:0.19, T:0.14
Consensus pattern (19 bp):
CCCAGATGGTACCGATACC
Found at i:8391555 original size:15 final size:15
Alignment explanation
Indices: 8391533--8391572 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
8391523 TAAGAATTAT
8391533 GAAAGAAATG-AATA
1 GAAAGAAATGAAATA
*
8391547 GATAAGAAATGAAATG
1 GA-AAGAAATGAAATA
8391563 GAAAGAAATG
1 GAAAGAAATG
8391573 TTATCTAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.60, C:0.00, G:0.25, T:0.15
Consensus pattern (15 bp):
GAAAGAAATGAAATA
Found at i:8395015 original size:14 final size:14
Alignment explanation
Indices: 8394996--8395081 Score: 145
Period size: 14 Copynumber: 6.1 Consensus size: 14
8394986 ATAAGATACT
8394996 ATCTTTCCATCACC
1 ATCTTTCCATCACC
8395010 ATCTTTCCATCACC
1 ATCTTTCCATCACC
**
8395024 ATCTTTTTATCACC
1 ATCTTTCCATCACC
8395038 ATCTTTCCATCACC
1 ATCTTTCCATCACC
*
8395052 ATCTTTCTATCACC
1 ATCTTTCCATCACC
8395066 ATCTTTCCATCACC
1 ATCTTTCCATCACC
8395080 AT
1 AT
8395082 TCATGCCTAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 66 1.00
ACGTcount: A:0.22, C:0.38, G:0.00, T:0.40
Consensus pattern (14 bp):
ATCTTTCCATCACC
Found at i:8395507 original size:14 final size:15
Alignment explanation
Indices: 8395480--8395515 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
8395470 CAACAAAAGC
8395480 AAAAAGAAAGAAGAA
1 AAAAAGAAAGAAGAA
*
8395495 AAAAATAAA-AAGAA
1 AAAAAGAAAGAAGAA
8395509 AAAAAGA
1 AAAAAGA
8395516 CTCCTACAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (15 bp):
AAAAAGAAAGAAGAA
Found at i:8395560 original size:11 final size:11
Alignment explanation
Indices: 8395539--8395569 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
8395529 TTTGGAGTGC
8395539 AAAAG-AAAGA
1 AAAAGAAAAGA
8395549 AAAAGAAAAGA
1 AAAAGAAAAGA
8395560 AAAAGAAAAG
1 AAAAGAAAAG
8395570 TGAAGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:8400394 original size:9 final size:9
Alignment explanation
Indices: 8400364--8400402 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
8400354 AAATTTTGGC
8400364 TTTTTTGTT
1 TTTTTTGTT
8400373 TTTTTTGCCTT
1 TTTTTTG--TT
8400384 TTTTTTGTT
1 TTTTTTGTT
8400393 TTTTTT-TT
1 TTTTTTGTT
8400401 TT
1 TT
8400403 GAAAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 4 0.14
9 15 0.54
11 9 0.32
ACGTcount: A:0.00, C:0.05, G:0.08, T:0.87
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:8406943 original size:13 final size:14
Alignment explanation
Indices: 8406893--8406949 Score: 80
Period size: 14 Copynumber: 4.1 Consensus size: 14
8406883 ATAAGATATT
8406893 ATCTTTCCATCACC
1 ATCTTTCCATCACC
* *
8406907 ATCTTTCTATCACA
1 ATCTTTCCATCACC
8406921 ATCTTTCCATCACC
1 ATCTTTCCATCACC
*
8406935 AT-ATTCCATCACC
1 ATCTTTCCATCACC
8406948 AT
1 AT
8406950 TCACGCCTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
13 12 0.32
14 26 0.68
ACGTcount: A:0.26, C:0.37, G:0.00, T:0.37
Consensus pattern (14 bp):
ATCTTTCCATCACC
Found at i:8415690 original size:17 final size:17
Alignment explanation
Indices: 8415665--8415715 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
8415655 TTGCATCGGC
* *
8415665 TATAGAAATGGTTAGGG
1 TATATAAATGGTTAAGG
*
8415682 TATATAAATGGTAAAGG
1 TATATAAATGGTTAAGG
*
8415699 TAGATAAAATGGTTAAG
1 TATAT-AAATGGTTAAG
8415716 AAAGGAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 18 0.64
18 10 0.36
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.29
Consensus pattern (17 bp):
TATATAAATGGTTAAGG
Found at i:8416001 original size:6 final size:6
Alignment explanation
Indices: 8415990--8416029 Score: 62
Period size: 6 Copynumber: 6.5 Consensus size: 6
8415980 TGTATGATTC
*
8415990 TTTTCT TTTTCT TTTTAT TTTTCT TCTTTCT TTTTCT TTT
1 TTTTCT TTTTCT TTTTCT TTTTCT T-TTTCT TTTTCT TTT
8416030 GTTGCATCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:8416021 original size:19 final size:18
Alignment explanation
Indices: 8415990--8416029 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
8415980 TGTATGATTC
8415990 TTTTCTTTTTCTTTTTAT
1 TTTTCTTTTTCTTTTTAT
*
8416008 TTTTCTTCTTTCTTTTTCT
1 TTTTCTT-TTTCTTTTTAT
8416027 TTT
1 TTT
8416030 GTTGCATCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTCTTTTTAT
Found at i:8423502 original size:24 final size:24
Alignment explanation
Indices: 8423434--8423511 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
8423424 ATAATTTGCA
*
8423434 CCGAAGTGCCACGTAGAATTTATC
1 CCGAAGTACCACGTAGAATTTATC
* * * *
8423458 CCAAAGAACCGCGTAGAATTTGTC
1 CCGAAGTACCACGTAGAATTTATC
* * *
8423482 CCGAAGTACCACATAGGATTTTTC
1 CCGAAGTACCACGTAGAATTTATC
8423506 CCGAAG
1 CCGAAG
8423512 GATGGCGTAG
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.23
Consensus pattern (24 bp):
CCGAAGTACCACGTAGAATTTATC
Found at i:8424214 original size:20 final size:20
Alignment explanation
Indices: 8424191--8424260 Score: 140
Period size: 20 Copynumber: 3.5 Consensus size: 20
8424181 CTTCCTCTTG
8424191 GTATCGATACCTACACATCA
1 GTATCGATACCTACACATCA
8424211 GTATCGATACCTACACATCA
1 GTATCGATACCTACACATCA
8424231 GTATCGATACCTACACATCA
1 GTATCGATACCTACACATCA
8424251 GTATCGATAC
1 GTATCGATAC
8424261 TTCTTAAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (20 bp):
GTATCGATACCTACACATCA
Found at i:8431642 original size:15 final size:15
Alignment explanation
Indices: 8431622--8431667 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
8431612 TTTGATATCA
8431622 TTTCTTTCCATTTCC
1 TTTCTTTCCATTTCC
*
8431637 TTTCTTACCATTTCC
1 TTTCTTTCCATTTCC
8431652 TTTCTTCTTCCATTTC
1 TTTC-T-TTCCATTTC
8431668 TTATTTCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 18 0.67
16 1 0.04
17 8 0.30
ACGTcount: A:0.09, C:0.33, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTCTTTCCATTTCC
Found at i:8436513 original size:16 final size:16
Alignment explanation
Indices: 8436492--8436536 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
8436482 TTAAATGGAA
8436492 ATAAGAAATGAAATTG
1 ATAAGAAATGAAATTG
8436508 ATAAGAAATGAAATTG
1 ATAAGAAATGAAATTG
*
8436524 ATAATAAATGAAA
1 ATAAGAAATGAAA
8436537 GGGAAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.16, T:0.24
Consensus pattern (16 bp):
ATAAGAAATGAAATTG
Found at i:8438553 original size:13 final size:13
Alignment explanation
Indices: 8438535--8438569 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
8438525 CATAGCTGAC
8438535 TTGAGCTAGACTT
1 TTGAGCTAGACTT
8438548 TTGAGCTAGACTT
1 TTGAGCTAGACTT
8438561 TTGAGCTAG
1 TTGAGCTAG
8438570 CTAGAGCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (13 bp):
TTGAGCTAGACTT
Found at i:8439954 original size:11 final size:11
Alignment explanation
Indices: 8439938--8439981 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
8439928 TTTGGAGTAC
8439938 AAAAAGAAAAG
1 AAAAAGAAAAG
8439949 AAAAAGAAAAG
1 AAAAAGAAAAG
***
8439960 AAATTCAAAAG
1 AAAAAGAAAAG
*
8439971 CAAAAGAAAAG
1 AAAAAGAAAAG
8439982 TGAAGAAAAG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.75, C:0.05, G:0.16, T:0.05
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:8445827 original size:17 final size:17
Alignment explanation
Indices: 8445805--8445838 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8445795 ATTATCGCTT
*
8445805 AACTTTTTTAATTTTTA
1 AACTTTTATAATTTTTA
*
8445822 AACTTTTATATTTTTTA
1 AACTTTTATAATTTTTA
8445839 TGAATTAATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
AACTTTTATAATTTTTA
Found at i:8445964 original size:17 final size:17
Alignment explanation
Indices: 8445939--8445972 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8445929 CATTCAAATA
*
8445939 TATTTATTTTAAATATT
1 TATTAATTTTAAATATT
*
8445956 TATTAATTTTAACTATT
1 TATTAATTTTAAATATT
8445973 CTTTGTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTAATTTTAAATATT
Found at i:8446295 original size:14 final size:14
Alignment explanation
Indices: 8446276--8446302 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8446266 TGCTCATTTA
8446276 AAAATGTTATCAGG
1 AAAATGTTATCAGG
8446290 AAAATGTTATCAG
1 AAAATGTTATCAG
8446303 CGTTCATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (14 bp):
AAAATGTTATCAGG
Found at i:8446467 original size:2 final size:2
Alignment explanation
Indices: 8446460--8446490 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8446450 TTTAAGTAAT
8446460 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8446491 TATTAATGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8446986 original size:24 final size:24
Alignment explanation
Indices: 8446959--8447011 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
8446949 AATCCGTTCT
*
8446959 TTTATGTTCATTCATTTATATTCA
1 TTTATGTTAATTCATTTATATTCA
* * *
8446983 TTTATGTTAATTCGTTTATGTTTA
1 TTTATGTTAATTCATTTATATTCA
8447007 TTTAT
1 TTTAT
8447012 TTATGTTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (24 bp):
TTTATGTTAATTCATTTATATTCA
Found at i:8446995 original size:14 final size:14
Alignment explanation
Indices: 8446965--8447018 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
8446955 TTCTTTTATG
*
8446965 TTCATTCAT-TTATA
1 TTCATTTATGTTA-A
8446979 TTCATTTATGTTAA
1 TTCATTTATGTTAA
* *
8446993 TTCGTTTATGTTTA
1 TTCATTTATGTTAA
*
8447007 TTTATTTATGTT
1 TTCATTTATGTT
8447019 TGTTTATGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
14 31 0.91
15 3 0.09
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
TTCATTTATGTTAA
Found at i:8447019 original size:14 final size:14
Alignment explanation
Indices: 8446977--8447019 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
8446967 CATTCATTTA
8446977 TATTCATTTATGTT
1 TATTCATTTATGTT
* *
8446991 AATTCGTTTATGTT
1 TATTCATTTATGTT
*
8447005 TATTTATTTATGTT
1 TATTCATTTATGTT
8447019 T
1 T
8447020 GTTTATGTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.21, C:0.05, G:0.09, T:0.65
Consensus pattern (14 bp):
TATTCATTTATGTT
Found at i:8447024 original size:14 final size:14
Alignment explanation
Indices: 8446977--8447025 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
8446967 CATTCATTTA
*
8446977 TATTCATTTATGTT
1 TATTTATTTATGTT
* **
8446991 AATTCGTTTATGTT
1 TATTTATTTATGTT
8447005 TATTTATTTATGTT
1 TATTTATTTATGTT
*
8447019 TGTTTAT
1 TATTTAT
8447026 GTTCTCCGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.20, C:0.04, G:0.10, T:0.65
Consensus pattern (14 bp):
TATTTATTTATGTT
Found at i:8447234 original size:10 final size:10
Alignment explanation
Indices: 8447216--8447276 Score: 50
Period size: 10 Copynumber: 5.7 Consensus size: 10
8447206 TTTTATGTTT
8447216 GTTCGTTTAC
1 GTTCGTTTAC
*
8447226 GTTCTTTTATGTTC
1 GTTCGTTTA----C
**
8447240 GTTCGTTTGT
1 GTTCGTTTAC
8447250 GTTCGTTTAC
1 GTTCGTTTAC
*
8447260 GTTCGTTCAC
1 GTTCGTTTAC
8447270 GTTCGTT
1 GTTCGTT
8447277 CATTTGTATT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
10 32 0.80
14 8 0.20
ACGTcount: A:0.07, C:0.18, G:0.21, T:0.54
Consensus pattern (10 bp):
GTTCGTTTAC
Found at i:8447253 original size:24 final size:24
Alignment explanation
Indices: 8447206--8447267 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
8447196 AGACAATTAA
*
8447206 TTTTATGTTTGTTCGTTTACGTTC
1 TTTTATGTTCGTTCGTTTACGTTC
**
8447230 TTTTATGTTCGTTCGTTTGTGTTC
1 TTTTATGTTCGTTCGTTTACGTTC
* *
8447254 GTTTACGTTCGTTC
1 TTTTATGTTCGTTC
8447268 ACGTTCGTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.06, C:0.15, G:0.19, T:0.60
Consensus pattern (24 bp):
TTTTATGTTCGTTCGTTTACGTTC
Found at i:8447254 original size:34 final size:34
Alignment explanation
Indices: 8447215--8447283 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
8447205 ATTTTATGTT
* * * *
8447215 TGTTCGTTTACGTTCTTTTATGTTCGTTCGTTTG
1 TGTTCGTTTACGTTCGTTCACGTTCGTTCATTTG
8447249 TGTTCGTTTACGTTCGTTCACGTTCGTTCATTTG
1 TGTTCGTTTACGTTCGTTCACGTTCGTTCATTTG
8447283 T
1 T
8447284 ATTTGTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.07, C:0.17, G:0.20, T:0.55
Consensus pattern (34 bp):
TGTTCGTTTACGTTCGTTCACGTTCGTTCATTTG
Found at i:8450459 original size:16 final size:17
Alignment explanation
Indices: 8450432--8450465 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8450422 ATTTCCATTC
8450432 TTTTGTAAAAGTAAATG
1 TTTTGTAAAAGTAAATG
*
8450449 TTTTG-AAAAGTCAATG
1 TTTTGTAAAAGTAAATG
8450465 T
1 T
8450466 GACACCTCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTTGTAAAAGTAAATG
Found at i:8459221 original size:16 final size:17
Alignment explanation
Indices: 8459194--8459227 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8459184 ATTTTCATTC
8459194 TTTTGTAAAAGTAAATG
1 TTTTGTAAAAGTAAATG
*
8459211 TTTTG-AAAAGTCAATG
1 TTTTGTAAAAGTAAATG
8459227 T
1 T
8459228 GACACCTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTTGTAAAAGTAAATG
Found at i:8461866 original size:21 final size:22
Alignment explanation
Indices: 8461840--8461882 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
8461830 ATTACAGAAT
8461840 CAAAAAT-GGGTATCGATACTA
1 CAAAAATAGGGTATCGATACTA
*
8461861 CAAAAATGAGGGTATCGGTACT
1 CAAAAAT-AGGGTATCGATACT
8461883 GTAACAGTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
23 12 0.63
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (22 bp):
CAAAAATAGGGTATCGATACTA
Found at i:8462848 original size:30 final size:31
Alignment explanation
Indices: 8462791--8462859 Score: 74
Period size: 32 Copynumber: 2.3 Consensus size: 31
8462781 TCGGGATGGG
8462791 TATATATATTTAAATTAAATATATAAATATTA
1 TATATATATTTAAATTAAATATATAAAT-TTA
* * *
8462823 TATATATTTTTTAATTTAAT-T-TAAATTTA
1 TATATATATTTAAATTAAATATATAAATTTA
8462852 T-TA-ATATT
1 TATATATATT
8462860 ATATATATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
27 4 0.12
28 2 0.06
29 4 0.12
30 5 0.15
31 1 0.03
32 17 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
TATATATATTTAAATTAAATATATAAATTTA
Found at i:8463885 original size:16 final size:17
Alignment explanation
Indices: 8463858--8463891 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8463848 ATTTTCATTT
8463858 TTTTGTAAAAGTAAATG
1 TTTTGTAAAAGTAAATG
*
8463875 TTTTG-AAAAGTCAATG
1 TTTTGTAAAAGTAAATG
8463891 T
1 T
8463892 GACACCTCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTTGTAAAAGTAAATG
Found at i:8469872 original size:21 final size:19
Alignment explanation
Indices: 8469840--8469879 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
8469830 GTAGAATCTA
*
8469840 GGTTGGTAGTATCGGTACT
1 GGTTGGTAGTATCGATACT
8469859 GGTTGAGTAAGTATCGATACT
1 GGTTG-GT-AGTATCGATACT
8469880 ACAAGGCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 2 0.11
21 11 0.61
ACGTcount: A:0.23, C:0.10, G:0.33, T:0.35
Consensus pattern (19 bp):
GGTTGGTAGTATCGATACT
Found at i:8476855 original size:21 final size:22
Alignment explanation
Indices: 8476829--8476886 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 22
8476819 ATATATGTTA
8476829 TATGTGGTCCTTCGAGACA-TC
1 TATGTGGTCCTTCGAGACATTC
* *
8476850 TATGTGGTCATTCGGGACATTTC
1 TATGTGGTCCTTCGAGACA-TTC
*
8476873 TACGTGGTCCTTCG
1 TATGTGGTCCTTCG
8476887 GAACAAATTC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 17 0.55
23 14 0.45
ACGTcount: A:0.16, C:0.22, G:0.26, T:0.36
Consensus pattern (22 bp):
TATGTGGTCCTTCGAGACATTC
Found at i:8476879 original size:23 final size:21
Alignment explanation
Indices: 8476832--8476887 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
8476822 TATGTTATAT
* *
8476832 GTGGTCCTTCGAGACATCTAT
1 GTGGTCCTTCGGGACATCTAC
*
8476853 GTGGTCATTCGGGACATTTCTAC
1 GTGGTCCTTCGGGACA--TCTAC
8476876 GTGGTCCTTCGG
1 GTGGTCCTTCGG
8476888 AACAAATTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 14 0.48
23 15 0.52
ACGTcount: A:0.14, C:0.23, G:0.29, T:0.34
Consensus pattern (21 bp):
GTGGTCCTTCGGGACATCTAC
Found at i:8477580 original size:16 final size:17
Alignment explanation
Indices: 8477553--8477586 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8477543 ATTTTCATTC
8477553 TTTTGTAAAAGTAAATG
1 TTTTGTAAAAGTAAATG
*
8477570 TTTTG-AAAAGTCAATG
1 TTTTGTAAAAGTAAATG
8477586 T
1 T
8477587 GACACCTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TTTTGTAAAAGTAAATG
Found at i:8479955 original size:41 final size:41
Alignment explanation
Indices: 8479895--8480003 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 41
8479885 TTTGTTGCAG
* * * *
8479895 CGTTCATTTAGAAACGCCACTAAAGTAAGATTCTCTGGCGG
1 CGTTTATTTAGAAACGCCACTAAAGTAAGATTCTATGCCGA
* *
8479936 CGTTTGTTTAGAAATGCCACTAAAGTAAGATTCTATGCCGA
1 CGTTTATTTAGAAACGCCACTAAAGTAAGATTCTATGCCGA
* *
8479977 TGTTTATTTAAAAACGCCACTAAAGTA
1 CGTTTATTTAGAAACGCCACTAAAGTA
8480004 CTATCTGTAG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (41 bp):
CGTTTATTTAGAAACGCCACTAAAGTAAGATTCTATGCCGA
Found at i:8480063 original size:41 final size:38
Alignment explanation
Indices: 8479910--8480071 Score: 108
Period size: 41 Copynumber: 4.0 Consensus size: 38
8479900 ATTTAGAAAC
* *
8479910 GCCACTAAAGTAAGATTCTCTGGCGGCGTTTGTTTAGAAAT
1 GCCACTAAAGTAAGATT-T-TAGCGGCGTTTG-TTAAAAAT
* ** * *
8479951 GCCACTAAAGTAAGATTCTATGCCGATGTTTATTTAAAAAC
1 GCCACTAAAGTAAGATTTTA-G-CGGCGTTT-GTTAAAAAT
** * * *
8479992 GCCACTAAAGTACTATCTGTAGCAGTGTTTGTTAAATAAAT
1 GCCACTAAAGTAAGAT-TTTAGCGGCGTTTGTT-AA-AAAT
*
8480033 GCCACTAAAGTACGAGTTTTAGCGGCGTTTGTTGAAAAA
1 GCCACTAAAGTAAGA-TTTTAGCGGCGTTTGTT-AAAAA
8480072 CACTGTTAAT
Statistics
Matches: 95, Mismatches: 19, Indels: 15
0.74 0.15 0.12
Matches are distributed among these distances:
39 3 0.03
40 12 0.13
41 76 0.80
42 4 0.04
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.31
Consensus pattern (38 bp):
GCCACTAAAGTAAGATTTTAGCGGCGTTTGTTAAAAAT
Found at i:8480789 original size:25 final size:25
Alignment explanation
Indices: 8480761--8480812 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
8480751 ATATATTATT
8480761 AATA-AAAAATACGTAAAAATTTT-AA
1 AATATAAAAA-AC-TAAAAATTTTGAA
*
8480786 AATATAAAAAACTAAGAATTTTGAA
1 AATATAAAAAACTAAAAATTTTGAA
8480811 AA
1 AA
8480813 AAATGATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.38
25 10 0.42
26 5 0.21
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (25 bp):
AATATAAAAAACTAAAAATTTTGAA
Found at i:8481183 original size:2 final size:2
Alignment explanation
Indices: 8481178--8481202 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8481168 GTTTTTTTAC
8481178 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 A
8481203 AGTACTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8484370 original size:37 final size:37
Alignment explanation
Indices: 8484244--8484579 Score: 288
Period size: 37 Copynumber: 9.6 Consensus size: 37
8484234 TAAAAATTGG
* * *
8484244 TTTG-AAA-ATATATAATATGGTTTTGAAAATACGA--
1 TTTGAAAACATATATTATATAGTTTTGAAAA-ACAATT
*
8484278 TTTAAAAACATATATTATATAGTTTTG-AAAACAAATT
1 TTTGAAAACATATATTATATAGTTTTGAAAAAC-AATT
8484315 TTT---AA-ATATATTATATAGTTTTGAAAAACAATT
1 TTTGAAAACATATATTATATAGTTTTGAAAAACAATT
* *
8484348 TTTTAAAACATATATTATATAGTTTTGGAAAACAATT
1 TTTGAAAACATATATTATATAGTTTTGAAAAACAATT
*
8484385 TTTGAAAACATATAATATATAGTTTT-AAAAAC-ATT
1 TTTGAAAACATATATTATATAGTTTTGAAAAACAATT
* * *
8484420 TTTGAAAACATATAATATATA-ATTT----AA-TATT
1 TTTGAAAACATATATTATATAGTTTTGAAAAACAATT
*
8484451 TTT--TAA-ATATATTATATAGTTTTGAAAAACAATT
1 TTTGAAAACATATATTATATAGTTTTGAAAAACAATT
*
8484485 TTTGAAAACATCTATATTATATAGTTTCG-AAAACAATT
1 TTTGAAAACA--TATATTATATAGTTTTGAAAAACAATT
* * * **
8484523 TTTGAAAGGATATACAATATATAGTTTT-AAAAATGATT
1 TTTGAAA--ACATATATTATATAGTTTTGAAAAACAATT
*
8484561 TTT--AAACATATATAATATA
1 TTTGAAAACATATATTATATA
8484580 TAATTTTTGA
Statistics
Matches: 252, Mismatches: 25, Indels: 50
0.77 0.08 0.15
Matches are distributed among these distances:
28 11 0.04
29 5 0.02
31 8 0.03
33 27 0.11
34 31 0.12
35 31 0.12
36 27 0.11
37 55 0.22
38 39 0.15
39 16 0.06
40 2 0.01
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (37 bp):
TTTGAAAACATATATTATATAGTTTTGAAAAACAATT
Found at i:8484477 original size:137 final size:139
Alignment explanation
Indices: 8484313--8484585 Score: 428
Period size: 137 Copynumber: 2.0 Consensus size: 139
8484303 TGAAAACAAA
* *
8484313 TTTTTAAATATATTATATAGTTTTGAAAAACAATTTTTTAAAACA-TATATTATATAGTTTTGGA
1 TTTTTAAATATATTATATAGTTTTGAAAAACAATTTTTGAAAACACTATATTATATAG-TTTCGA
*
8484377 AAACAATTTTTGAAA-ACATATAATATATAGTTTTAAAAA-CATTTTTGAAA-ACATATAATATA
65 AAACAATTTTTGAAAGACATACAATATATAGTTTTAAAAATCATTTTT-AAACACATATAATATA
8484439 TAATTTAATAT
129 TAATTTAATAT
8484450 TTTTTAAATATATTATATAGTTTTGAAAAACAATTTTTGAAAACATCTATATTATATAGTTTCGA
1 TTTTTAAATATATTATATAGTTTTGAAAAACAATTTTTGAAAACA-CTATATTATATAGTTTCGA
* * *
8484515 AAACAATTTTTGAAAGGATATACAATATATAGTTTTAAAAATGATTTTTAAACATATATAATATA
65 AAACAATTTTTGAAA-GACATACAATATATAGTTTTAAAAATCATTTTTAAACACATATAATATA
8484580 TAATTT
129 TAATTT
8484586 TTGAAAACAT
Statistics
Matches: 124, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
137 44 0.35
138 20 0.16
139 12 0.10
140 25 0.20
141 23 0.19
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.44
Consensus pattern (139 bp):
TTTTTAAATATATTATATAGTTTTGAAAAACAATTTTTGAAAACACTATATTATATAGTTTCGAA
AACAATTTTTGAAAGACATACAATATATAGTTTTAAAAATCATTTTTAAACACATATAATATATA
ATTTAATAT
Found at i:8484501 original size:39 final size:39
Alignment explanation
Indices: 8484457--8484592 Score: 145
Period size: 38 Copynumber: 3.6 Consensus size: 39
8484447 TATTTTTTAA
*
8484457 ATATATTATATAGTTTTGAAAAACAATTTTTGAAAACAT
1 ATATAATATATAGTTTTGAAAAACAATTTTTGAAAACAT
* * * **
8484496 CTATATTATATAGTTTCG-AAAACAATTTTTGAAAGGAT
1 ATATAATATATAGTTTTGAAAAACAATTTTTGAAAACAT
* **
8484534 ATACAATATATAGTTTT-AAAAATGATTTTT--AAACAT
1 ATATAATATATAGTTTTGAAAAACAATTTTTGAAAACAT
*
8484570 ATATAATATATAATTTTTGAAAA
1 ATATAATATAT-AGTTTTGAAAA
8484593 CATGTTATTA
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
36 14 0.17
37 5 0.06
38 45 0.56
39 16 0.20
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (39 bp):
ATATAATATATAGTTTTGAAAAACAATTTTTGAAAACAT
Found at i:8484630 original size:8 final size:7
Alignment explanation
Indices: 8484597--8484637 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
8484587 TGAAAACATG
8484597 TTATTAT
1 TTATTAT
8484604 TTATT-T
1 TTATTAT
8484610 TTATTTAT
1 TTA-TTAT
8484618 TTATTAT
1 TTATTAT
8484625 TCTATTA-
1 T-TATTAT
8484632 TTATTA
1 TTATTA
8484638 ATAATTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 9 0.29
7 13 0.42
8 9 0.29
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (7 bp):
TTATTAT
Found at i:8484632 original size:11 final size:10
Alignment explanation
Indices: 8484597--8484636 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 10
8484587 TGAAAACATG
8484597 TTATTATTTA
1 TTATTATTTA
*
8484607 TTTTTATTTA
1 TTATTATTTA
8484617 TTTATTATTCTA
1 -TTATTATT-TA
8484629 TTATTATT
1 TTATTATT
8484637 AATAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 9 0.35
11 15 0.58
12 2 0.08
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATTATTTA
Found at i:8489477 original size:19 final size:19
Alignment explanation
Indices: 8489453--8489489 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8489443 CAGCCAAGAG
8489453 CATGTATCTTCATTAAAAT
1 CATGTATCTTCATTAAAAT
* *
8489472 CATGTATTTTTATTAAAA
1 CATGTATCTTCATTAAAA
8489490 AAATCATGTA
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:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (19 bp):
CATGTATCTTCATTAAAAT
Found at i:8492157 original size:10 final size:10
Alignment explanation
Indices: 8492126--8492150 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8492116 TCCACACGCA
8492126 TGGCACAAGG
1 TGGCACAAGG
8492136 TGGCACAAGG
1 TGGCACAAGG
8492146 TGGCA
1 TGGCA
8492151 TAGGGTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.20, G:0.40, T:0.12
Consensus pattern (10 bp):
TGGCACAAGG
Found at i:8499704 original size:11 final size:11
Alignment explanation
Indices: 8499685--8499736 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
8499675 TAAGTGATGC
*
8499685 AAAAGAAGAAA
1 AAAAAAAGAAA
8499696 AAAAAAAGAAGA
1 AAAAAAAGAA-A
*
8499708 AAAAAAACAAA
1 AAAAAAAGAAA
8499719 AAAGAAAAGAAA
1 AAA-AAAAGAAA
8499731 AGAAAA
1 A-AAAA
8499737 GACTCTTACA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 13 0.37
12 20 0.57
13 2 0.06
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:8499704 original size:14 final size:14
Alignment explanation
Indices: 8499685--8499714 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8499675 TAAGTGATGC
8499685 AAAAGAAGAAAAAA
1 AAAAGAAGAAAAAA
8499699 AAAAGAAGAAAAAA
1 AAAAGAAGAAAAAA
8499713 AA
1 AA
8499715 CAAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAGAAGAAAAAA
Found at i:8499710 original size:10 final size:9
Alignment explanation
Indices: 8499695--8499736 Score: 50
Period size: 10 Copynumber: 4.4 Consensus size: 9
8499685 AAAAGAAGAA
8499695 AAAAAAAAG
1 AAAAAAAAG
8499704 AAGAAAAAA-
1 AA-AAAAAAG
8499713 AACAAAAAAG
1 AA-AAAAAAG
8499723 AAAAGAAAAG
1 AAAA-AAAAG
8499733 AAAA
1 AAAA
8499737 GACTCTTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 12 0.41
10 17 0.59
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:8499713 original size:17 final size:17
Alignment explanation
Indices: 8499687--8499738 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
8499677 AGTGATGCAA
*
8499687 AAGAAGAAAAAAAAAAG
1 AAGAAAAAAAAAAAAAG
*
8499704 AAGAAAAAAAACAAAA-
1 AAGAAAAAAAAAAAAAG
*
8499720 AAGAAAAGAAAAGAAAAG
1 AAGAAAA-AAAAAAAAAG
8499738 A
1 A
8499739 CTCTTACAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 7 0.23
17 22 0.73
18 1 0.03
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAAAAAAAG
Found at i:8499721 original size:21 final size:22
Alignment explanation
Indices: 8499690--8499736 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 22
8499680 GATGCAAAAG
8499690 AAGAAAA-AAAAAAG--AAGAA
1 AAGAAAACAAAAAAGAAAAGAA
8499709 AA-AAAACAAAAAAGAAAAGAA
1 AAGAAAACAAAAAAGAAAAGAA
8499730 AAGAAAA
1 AAGAAAA
8499737 GACTCTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.17
19 9 0.38
21 7 0.29
22 4 0.17
ACGTcount: A:0.85, C:0.02, G:0.13, T:0.00
Consensus pattern (22 bp):
AAGAAAACAAAAAAGAAAAGAA
Found at i:8499726 original size:14 final size:15
Alignment explanation
Indices: 8499684--8499726 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
8499674 TTAAGTGATG
8499684 CAAAAGAAGAAAAAA
1 CAAAAGAAGAAAAAA
8499699 -AAAAGAAGAAAAAAAA
1 CAAAAGAAG--AAAAAA
8499715 CAAAA-AAGAAAA
1 CAAAAGAAGAAAA
8499727 GAAAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 12 0.48
16 9 0.36
17 4 0.16
ACGTcount: A:0.84, C:0.05, G:0.12, T:0.00
Consensus pattern (15 bp):
CAAAAGAAGAAAAAA
Found at i:8511763 original size:71 final size:72
Alignment explanation
Indices: 8511682--8512024 Score: 337
Period size: 71 Copynumber: 4.7 Consensus size: 72
8511672 ATACGATTTA
8511682 AAAACATATATTATATAGTTTTG-AAAACACATTTTTG-AA-ATATATTATATAATTTTGAAAAA
1 AAAACATATATTATATAGTTTTGAAAAACA-ATTTTTGAAACATATATTATATAATTTT-AAAAA
*
8511744 TAATTTTTG
64 CAATTTTTG
*
8511753 AAAACATATATTATATAGTTTTGAAAAACAATTTTTGAAAACATATATTATATAGTTTTAGAAAA
1 AAAACATATATTATATAGTTTTGAAAAACAATTTTTG-AAACATATATTATATAATTTTA-AAAA
8511818 CAATTTTTG
64 CAATTTTTG
** * ** * *
8511827 AAAAGGTATAATATATAGTTTT-AAAAAC-ATTTTTGAAAACGCATAATATAAAATTTTAAAAAC
1 AAAACATATATTATATAGTTTTGAAAAACAATTTTTG-AAACATATATTATATAATTTTAAAAAC
8511890 AA-TTTTG
65 AATTTTTG
* * **
8511897 --AA-ATATATTTTATAGTTTTGAAAAACAATTTTTGAAAACATATATATTATATAGTTTCGAAA
1 AAAACATATATTATATAGTTTTGAAAAACAATTTTTG-AAAC--ATATATTATATAATTTTAAAA
*
8511959 GCAATTTTTG
63 ACAATTTTTG
* * * *
8511969 AAAGCATATATAATATATAGTTTT-AAAAATGATTTTTTTGGAAACATATATAATAT
1 AAAACATATAT--TATATAGTTTTGAAAAA-CA-ATTTTT-GAAACATATATTATAT
8512025 CTAATTTTTG
Statistics
Matches: 228, Mismatches: 26, Indels: 31
0.80 0.09 0.11
Matches are distributed among these distances:
67 14 0.06
68 8 0.04
69 12 0.05
70 5 0.02
71 54 0.24
72 36 0.16
73 9 0.04
74 48 0.21
75 6 0.03
76 15 0.07
77 11 0.05
78 9 0.04
79 1 0.00
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (72 bp):
AAAACATATATTATATAGTTTTGAAAAACAATTTTTGAAACATATATTATATAATTTTAAAAACA
ATTTTTG
Found at i:8511775 original size:37 final size:37
Alignment explanation
Indices: 8511638--8512024 Score: 355
Period size: 37 Copynumber: 10.8 Consensus size: 37
8511628 CATATAATTT
* *
8511638 AAAC-ATTTTT-AAAGCATATA--ATATGGTTTTGAA
1 AAACAATTTTTGAAAACATATATTATATAGTTTTGAA
* *
8511671 AATACGA--TTTAAAAACATATATTATATAGTTTTG-A
1 AA-ACAATTTTTGAAAACATATATTATATAGTTTTGAA
*
8511706 AAACACATTTTTG--AA-ATATATTATATAATTTTGAA
1 AAACA-ATTTTTGAAAACATATATTATATAGTTTTGAA
*
8511741 AAATAATTTTTGAAAACATATATTATATAGTTTTGAA
1 AAACAATTTTTGAAAACATATATTATATAGTTTTGAA
8511778 AAACAATTTTTGAAAACATATATTATATAGTTTT-AGA
1 AAACAATTTTTGAAAACATATATTATATAGTTTTGA-A
** *
8511815 AAACAATTTTTGAAAAGGTATAATATATAGTTTT-AA
1 AAACAATTTTTGAAAACATATATTATATAGTTTTGAA
** * * *
8511851 AAAC-ATTTTTGAAAACGCATAATATAAAATTTT-AA
1 AAACAATTTTTGAAAACATATATTATATAGTTTTGAA
*
8511886 AAACAA-TTTTG--AA-ATATATTTTATAGTTTTGAA
1 AAACAATTTTTGAAAACATATATTATATAGTTTTGAA
*
8511919 AAACAATTTTTGAAAACATATATATTATATAGTTTCG-A
1 AAACAATTTTTGAAAAC--ATATATTATATAGTTTTGAA
* *
8511957 AAGCAATTTTTGAAAGCATATATAATATATAGTTTT-AA
1 AAACAATTTTTGAAAACATATAT--TATATAGTTTTGAA
* * * *
8511995 AAATGATTTTTTTGGAAACATATATAATAT
1 AAA-CA-ATTTTTGAAAACATATATTATAT
8512025 CTAATTTTTG
Statistics
Matches: 296, Mismatches: 32, Indels: 47
0.79 0.09 0.13
Matches are distributed among these distances:
32 11 0.04
33 15 0.05
34 42 0.14
35 48 0.16
36 27 0.09
37 88 0.30
38 33 0.11
39 17 0.06
40 15 0.05
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (37 bp):
AAACAATTTTTGAAAACATATATTATATAGTTTTGAA
Found at i:8512062 original size:3 final size:3
Alignment explanation
Indices: 8512043--8512086 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
8512033 TGAAAACATG
8512043 TTA TTA TT- TATA TTTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
8512087 TCTGGTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 3 0.08
3 31 0.84
4 2 0.05
5 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:8513161 original size:17 final size:18
Alignment explanation
Indices: 8513139--8513173 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8513129 AAATTTGACC
*
8513139 CCAATTTTA-AATTCTTT
1 CCAATTTAATAATTCTTT
8513156 CCAATTTAATAATTCTTT
1 CCAATTTAATAATTCTTT
8513174 AGTGATTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.51
Consensus pattern (18 bp):
CCAATTTAATAATTCTTT
Found at i:8519466 original size:15 final size:15
Alignment explanation
Indices: 8519448--8519477 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8519438 CCACGGTGCT
8519448 CCCGGAATCATGCGC
1 CCCGGAATCATGCGC
*
8519463 CCCGGAATCCTGCGC
1 CCCGGAATCATGCGC
8519478 GATTGTGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.43, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCATGCGC
Found at i:8529844 original size:26 final size:24
Alignment explanation
Indices: 8529799--8529849 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
8529789 TTTACTCTTT
**
8529799 TAACTATGTTTTTAGTTTGTACTC
1 TAACTATGTTTTTAACTTGTACTC
8529823 TAACTATGTTTTTTTAACTTGTACTC
1 TAACTATG--TTTTTAACTTGTACTC
8529849 T
1 T
8529850 TTCCACTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 8 0.35
26 15 0.65
ACGTcount: A:0.22, C:0.14, G:0.10, T:0.55
Consensus pattern (24 bp):
TAACTATGTTTTTAACTTGTACTC
Found at i:8532082 original size:20 final size:20
Alignment explanation
Indices: 8532043--8532084 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
8532033 ATATTTTATG
* * *
8532043 TTAAAGGGATGATCTTAAAT
1 TTAAAGGGACGAACTAAAAT
8532063 TTAAAGGGACGAACTAAAAT
1 TTAAAGGGACGAACTAAAAT
8532083 TT
1 TT
8532085 CATGGGGATA
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:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (20 bp):
TTAAAGGGACGAACTAAAAT
Found at i:8535018 original size:22 final size:21
Alignment explanation
Indices: 8534993--8535045 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
8534983 TACTCAGACT
8534993 AGTATCGATACCCCAGTACCA-G
1 AGTATCGATACCCCA-T-CCAGG
*
8535015 AGTATCGATA-CTCATCCAGG
1 AGTATCGATACCCCATCCAGG
8535035 AGTATCGATAC
1 AGTATCGATAC
8535046 TACCTTTCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.11
20 12 0.43
21 3 0.11
22 10 0.36
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (21 bp):
AGTATCGATACCCCATCCAGG
Found at i:8536632 original size:18 final size:18
Alignment explanation
Indices: 8536609--8536664 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
8536599 GATGAATGGA
8536609 AAATGATTTTTGATTTGG
1 AAATGATTTTTGATTTGG
* *
8536627 AAATGATTTTTGATCTGA
1 AAATGATTTTTGATTTGG
8536645 AAATGA-TTTTGATTT-G
1 AAATGATTTTTGATTTGG
8536661 AAAT
1 AAAT
8536665 AAATAAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
16 4 0.12
17 8 0.24
18 22 0.65
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (18 bp):
AAATGATTTTTGATTTGG
Found at i:8536989 original size:15 final size:15
Alignment explanation
Indices: 8536969--8536998 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8536959 CGAAAGTTAT
*
8536969 GAAAAGTATATGAAA
1 GAAAAGAATATGAAA
8536984 GAAAAGAATATGAAA
1 GAAAAGAATATGAAA
8536999 ATGGAAGTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (15 bp):
GAAAAGAATATGAAA
Found at i:8539664 original size:32 final size:32
Alignment explanation
Indices: 8539623--8539718 Score: 174
Period size: 32 Copynumber: 3.0 Consensus size: 32
8539613 CGACAAGTGC
*
8539623 CATTAAGTTTACTGCAATCTATTTCTATTCTT
1 CATTAAGTTTGCTGCAATCTATTTCTATTCTT
*
8539655 CATTAAGTTTGTTGCAATCTATTTCTATTCTT
1 CATTAAGTTTGCTGCAATCTATTTCTATTCTT
8539687 CATTAAGTTTGCTGCAATCTATTTCTATTCTT
1 CATTAAGTTTGCTGCAATCTATTTCTATTCTT
8539719 TAGTGGAAGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 61 1.00
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (32 bp):
CATTAAGTTTGCTGCAATCTATTTCTATTCTT
Found at i:8542214 original size:15 final size:15
Alignment explanation
Indices: 8542194--8542223 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8542184 TGAAAGTTAC
*
8542194 GAAAAGTATATGAAA
1 GAAAAGAATATGAAA
8542209 GAAAAGAATATGAAA
1 GAAAAGAATATGAAA
8542224 ATGGAAGTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (15 bp):
GAAAAGAATATGAAA
Found at i:8543880 original size:42 final size:42
Alignment explanation
Indices: 8543821--8543900 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
8543811 AGGCATTTCG
*
8543821 TTAGAATTCATTGATAGCAACGAATCCATTGGGTCATATTCC
1 TTAGAATTCATTGATAGCAACGAATCCACTGGGTCATATTCC
* *
8543863 TTAGAATTCATTGATAGCAATGAATCCCCTGGGTCATA
1 TTAGAATTCATTGATAGCAACGAATCCACTGGGTCATA
8543901 GTGCCAAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (42 bp):
TTAGAATTCATTGATAGCAACGAATCCACTGGGTCATATTCC
Found at i:8548929 original size:18 final size:17
Alignment explanation
Indices: 8548906--8548960 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
8548896 GATGAATGGA
8548906 AAATGATTTCTGATTTAG
1 AAATGATTTCTGATTT-G
*
8548924 AAATGAGTTT-TGATCTG
1 AAATGA-TTTCTGATTTG
8548941 AAAATGA-TTCTGATTTG
1 -AAATGATTTCTGATTTG
8548958 AAA
1 AAA
8548961 AAAATAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 5 0.16
17 7 0.22
18 17 0.53
19 3 0.09
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.40
Consensus pattern (17 bp):
AAATGATTTCTGATTTG
Found at i:8549655 original size:24 final size:24
Alignment explanation
Indices: 8549628--8549679 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
8549618 ACATTGATGC
8549628 TATAATCATGTGAATTACTTATGT
1 TATAATCATGTGAATTACTTATGT
* *
8549652 TATATTCCTGTGAATTACTTATGT
1 TATAATCATGTGAATTACTTATGT
8549676 TATA
1 TATA
8549680 TTCCAGTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.48
Consensus pattern (24 bp):
TATAATCATGTGAATTACTTATGT
Found at i:8549680 original size:24 final size:24
Alignment explanation
Indices: 8549636--8549691 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
8549626 GCTATAATCA
8549636 TGTGAATTACTTATGTTATATTCC
1 TGTGAATTACTTATGTTATATTCC
8549660 TGTGAATTACTTATGTTATATTCC
1 TGTGAATTACTTATGTTATATTCC
*
8549684 AGTGAATT
1 TGTGAATT
8549692 TGTATGTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (24 bp):
TGTGAATTACTTATGTTATATTCC
Done.