Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 123 of 127
Found at i:24225202 original size:23 final size:21
Alignment explanation
Indices: 24225176--24225219 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
24225166 TAATAATTTT
*
24225176 GTACACAAACCTTTCTTTTAATG
1 GTACACAAA--TTTCTTTAAATG
*
24225199 GTACATAAATTTCTTTAAATG
1 GTACACAAATTTCTTTAAATG
24225220 ATTCCCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (21 bp):
GTACACAAATTTCTTTAAATG
Found at i:24229619 original size:26 final size:26
Alignment explanation
Indices: 24229583--24229634 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
24229573 TTTCAATGTA
24229583 AGTTTTTCTAATAGTAAGGTCTCTTT
1 AGTTTTTCTAATAGTAAGGTCTCTTT
24229609 AGTTTTTCTAATAGTAAGGTCTCTTT
1 AGTTTTTCTAATAGTAAGGTCTCTTT
24229635 TTGATTAGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (26 bp):
AGTTTTTCTAATAGTAAGGTCTCTTT
Found at i:24247148 original size:8 final size:8
Alignment explanation
Indices: 24247135--24247160 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
24247125 TCTCGTGAAT
24247135 AAAATTTC
1 AAAATTTC
24247143 AAAATTTC
1 AAAATTTC
24247151 AAAATTTC
1 AAAATTTC
24247159 AA
1 AA
24247161 TGAGGGTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAATTTC
Found at i:24247689 original size:23 final size:23
Alignment explanation
Indices: 24247658--24247705 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
24247648 CATCATATAG
24247658 ATAATTCAAAAC-TTATCAA-ATC
1 ATAATTCAAAACATT-TCAAGATC
24247680 ATAATATCAAAACATTTCAAGATC
1 ATAAT-TCAAAACATTTCAAGATC
24247704 AT
1 AT
24247706 CGTTTTGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
23 11 0.48
24 7 0.30
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (23 bp):
ATAATTCAAAACATTTCAAGATC
Found at i:24247859 original size:16 final size:16
Alignment explanation
Indices: 24247838--24247869 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24247828 AAATCATTGC
24247838 AAATCATCATTATCAT
1 AAATCATCATTATCAT
24247854 AAATCATCATTATCAT
1 AAATCATCATTATCAT
24247870 TCAAATCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATCATCATTATCAT
Found at i:24276673 original size:13 final size:12
Alignment explanation
Indices: 24276653--24276684 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
24276643 ATAAAATTTT
24276653 AAAATTTTTAAA
1 AAAATTTTTAAA
24276665 AATAATTTTTAAA
1 AA-AATTTTTAAA
24276678 AAAATTT
1 AAAATTT
24276685 AATTTAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAAATTTTTAAA
Found at i:24276677 original size:22 final size:20
Alignment explanation
Indices: 24276636--24276678 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
24276626 TTTTGACGTT
*
24276636 ATTTTTAATAAAATTTTAAA
1 ATTTTTAAAAAAATTTTAAA
24276656 ATTTTTAAAAATAATTTTTAAA
1 ATTTTTAAAAA-AA-TTTTAAA
24276678 A
1 A
24276679 AAATTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
21 2 0.10
22 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTTTAAAAAAATTTTAAA
Found at i:24276750 original size:24 final size:25
Alignment explanation
Indices: 24276699--24276752 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
24276689 TAACAATAAT
* * *
24276699 ATTTTTTTTAAAAAAATAATAGTTAA
1 ATTTATTTGAAAAAAATAAAAG-TAA
24276725 ATTTATTTGAAAAAAATAAAAG-AA
1 ATTTATTTGAAAAAAATAAAAGTAA
24276749 ATTT
1 ATTT
24276753 GTAGTACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 6 0.24
26 19 0.76
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.41
Consensus pattern (25 bp):
ATTTATTTGAAAAAAATAAAAGTAA
Found at i:24279607 original size:2 final size:2
Alignment explanation
Indices: 24279600--24279631 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24279590 CTCCTCTCCT
24279600 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24279632 GAAATATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24281174 original size:28 final size:30
Alignment explanation
Indices: 24281134--24281196 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
24281124 CGACCTAATA
*
24281134 TATATAATTATTT-ATTTAA-TTTTATTTT
1 TATATAATTATTTAATTTAATTTTTATATT
*
24281162 TATATATTTATTTAATTTAATTTTTATATT
1 TATATAATTATTTAATTTAATTTTTATATT
24281192 TATAT
1 TATAT
24281197 TAAAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 12 0.39
29 6 0.19
30 13 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (30 bp):
TATATAATTATTTAATTTAATTTTTATATT
Found at i:24281197 original size:24 final size:24
Alignment explanation
Indices: 24281142--24281190 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
24281132 TATATATAAT
*
24281142 TATTTATTTAATTTTATTTTTATA
1 TATTTATTTAATTTAATTTTTATA
24281166 TATTTATTTAATTTAATTTTTATA
1 TATTTATTTAATTTAATTTTTATA
24281190 T
1 T
24281191 TTATATTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (24 bp):
TATTTATTTAATTTAATTTTTATA
Found at i:24281197 original size:28 final size:26
Alignment explanation
Indices: 24281131--24281197 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 26
24281121 ACTCGACCTA
* *
24281131 ATATATATAATTATTTATTTAATTTT
1 ATATTTATATTTATTTATTTAATTTT
*
24281157 ATTTTTATATATTTATTTAATTTAATTTTT
1 A-TATT-TATATTTATTT-ATTTAA-TTTT
24281187 ATATTTATATT
1 ATATTTATATT
24281198 AAAAAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.06
28 16 0.48
29 9 0.27
30 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (26 bp):
ATATTTATATTTATTTATTTAATTTT
Found at i:24281211 original size:19 final size:19
Alignment explanation
Indices: 24281187--24281238 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 19
24281177 TTTAATTTTT
24281187 ATATTTATATTAAAAAATA
1 ATATTTATATTAAAAAATA
*
24281206 ATATTTTATATTTTAAAAATA
1 ATA-TTTATA-TTAAAAAATA
24281227 ATATTT-TATTAA
1 ATATTTATATTAA
24281239 TTTCAGATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 3 0.10
19 5 0.17
20 9 0.31
21 12 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATTTATATTAAAAAATA
Found at i:24281215 original size:20 final size:21
Alignment explanation
Indices: 24281190--24281235 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
24281180 AATTTTTATA
24281190 TTTATA-TTAAAAAATAATAT
1 TTTATATTTAAAAAATAATAT
*
24281210 TTTATATTTTAAAAATAATAT
1 TTTATATTTAAAAAATAATAT
24281231 TTTAT
1 TTTAT
24281236 TAATTTCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTATATTTAAAAAATAATAT
Found at i:24299943 original size:247 final size:247
Alignment explanation
Indices: 24299455--24299945 Score: 586
Period size: 247 Copynumber: 2.0 Consensus size: 247
24299445 ACTTCTAGAG
* *
24299455 TTTGATTTCAAAAGATTGATATTTATAAGGCAATATGTGTATGCTTCTTCTCTTTATGATAGCGC
1 TTTGATTTCAAAAGATTGA-ATTCATAAGGCAATATGTGTATGCTTCTTCTCTTTATCATAGCGC
* *
24299520 TTTTCAAATCAATCATTTTAGATTTTTTATAGCATAGAAAACTGTCTTCTCTTTTAGAAGGATTA
65 TTGTCAAATCAATCATTTTAGATTTTTGATAGCATAGAAAACTGTCTTCTCTTTTAGAAGGATTA
* * * *
24299585 AGCAGCTTGTGTTAGGAGCACAAAATGAGGATAGCTTAATATTCAATATATCTCTGATCAGTGGC
130 AGCAGCTCGTGTTAGGAGAACAAAATGAGGATAGCATAATATTCAATATATCTCTGATCAATGGC
*
24299650 AAACTAATTTATGATACAACTGAAAGATATAAATCTTGGGGTTGCATTTGTTA
195 AAACTAATTTATGATACAACTGAAAGATATAAATCTTGGAGTTGCATTTGTTA
* *
24299703 TTTGATTTCAAAAGATTG-ATTCATAAGGCAATATGTTTATGCTT-TTCCTCTTT-TCACTAGTG
1 TTTGATTTCAAAAGATTGAATTCATAAGGCAATATGTGTATGCTTCTT-CTCTTTATCA-TAGCG
** * * ** *
24299765 CTTGTCACCTCATGTCTTTTTAGATTTTTGATAGCACT-GCTGGACCT-TCTTCTC-TTTAGAAG
64 CTTGTCAAATCA-ATCATTTTAGATTTTTGATAGCA-TAG--AAAACTGTCTTCTCTTTTAGAAG
* * * *
24299827 GATTAAGCAG-TACGTGTTAGGAGGAAGAAAATGAGGGTTGCATAATATTCAATATATCTCTGCT
125 GATTAAGCAGCT-CGTGTTAGGA-GAACAAAATGAGGATAGCATAATATTCAATATATCTCTGAT
* * * * *
24299891 CAATGGC-AACTAATTTCTGATACAA-TTAAACGTTGTAATTCTTGGAGTTGCATTT
188 CAATGGCAAACTAATTTATGATACAACTGAAA-GATATAAATCTTGGAGTTGCATTT
24299946 ATCTGTTTTT
Statistics
Matches: 207, Mismatches: 27, Indels: 19
0.82 0.11 0.08
Matches are distributed among these distances:
245 4 0.02
246 48 0.23
247 85 0.41
248 67 0.32
249 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (247 bp):
TTTGATTTCAAAAGATTGAATTCATAAGGCAATATGTGTATGCTTCTTCTCTTTATCATAGCGCT
TGTCAAATCAATCATTTTAGATTTTTGATAGCATAGAAAACTGTCTTCTCTTTTAGAAGGATTAA
GCAGCTCGTGTTAGGAGAACAAAATGAGGATAGCATAATATTCAATATATCTCTGATCAATGGCA
AACTAATTTATGATACAACTGAAAGATATAAATCTTGGAGTTGCATTTGTTA
Found at i:24301975 original size:23 final size:22
Alignment explanation
Indices: 24301949--24301992 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
24301939 TTGCTTCATA
24301949 AGTGCCCTTCTT-TGTTGAATGAT
1 AGTGCCCTT-TTCTGTT-AATGAT
*
24301972 AGTGGCCTTTTCTGTTAATGA
1 AGTGCCCTTTTCTGTTAATGA
24301993 CAGGGCCGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.18, C:0.16, G:0.23, T:0.43
Consensus pattern (22 bp):
AGTGCCCTTTTCTGTTAATGAT
Found at i:24304780 original size:228 final size:228
Alignment explanation
Indices: 24304375--24305204 Score: 825
Period size: 228 Copynumber: 3.6 Consensus size: 228
24304365 CTTTTAGAAG
* * * * *
24304375 ATGCAGATCTTCGTGAAAACCCTGACTGGCAAGACCATAACTCTCGAGGTAGAGAGTTCTGACAC
1 ATGCAGATCTTCGTCAAAACCTTGACAGGCAAGACCATAACTCTCGAGGTCGAGAGTTCGGACAC
* * * * * *
24304440 CATCGACAACGTCAAGGCCAAAATTCAGGACAAGGAAGGGATCCCACCTGACCAGCAGCGTCTTA
66 AATTGATAACGTCAAGGCCAAGATTCAGGACAAGGAAGGGATCCCACCAGACCAGCAGCGTCTCA
* * * * * *
24304505 TCTTCGCTGGCAAACAGCTTGAAGACGGTCGTACCTTGGCGGATTATAACATCCAGAAGGAGTCA
131 TCTTCGCTGGCAAACAGCTTGAGGACGGCCGTACCTTGGCTGATTATAATATCCAAAAGGAATCA
* * * * * * *
24304570 ACTCTTCATCTGGTCCTCCGTCTTCGTGGGGGT
196 ACTCTCCACCTGGTCCTCAGGCTGCGTGGAGGC
* * *
24304603 ATGCAGATCTTCGTTAAAACCTTAACAGGCAAGACCATAACTCTTGAGGTCGAGAGTTCGGACAC
1 ATGCAGATCTTCGTCAAAACCTTGACAGGCAAGACCATAACTCTCGAGGTCGAGAGTTCGGACAC
* * * * * *
24304668 AATTGATAACGTCAAGGCCAAGATCCAAGACAAGGAAGGCATCCCTCCCGACCAGCAGCGGCTCA
66 AATTGATAACGTCAAGGCCAAGATTCAGGACAAGGAAGGGATCCCACCAGACCAGCAGCGTCTCA
* *
24304733 TCTTCGCTGGGAAACAGCTTGAGGACGGCCGTACTTTGGCTGATTATAATATCCAAAAGGAATCA
131 TCTTCGCTGGCAAACAGCTTGAGGACGGCCGTACCTTGGCTGATTATAATATCCAAAAGGAATCA
*
24304798 ACTCTCCACCTTGTCCTCAGGCTGCGTGGAGGC
196 ACTCTCCACCTGGTCCTCAGGCTGCGTGGAGGC
* * * * * *
24304831 ATGCAAATCTTTGTCAAAACCTTGACAGGGAAGACTATAACCCTGGAGGTCGAGAGTTCGGACAC
1 ATGCAGATCTTCGTCAAAACCTTGACAGGCAAGACCATAACTCTCGAGGTCGAGAGTTCGGACAC
* * * * * *
24304896 AATTGATAACGTTAAGGCAAAGATTCAGGACAAGGAAGGGATCCCACCAGACCAACAACGTTTGA
66 AATTGATAACGTCAAGGCCAAGATTCAGGACAAGGAAGGGATCCCACCAGACCAGCAGCGTCTCA
* * * ** * * *
24304961 TCTTTGCTGGTAAGCAGCTTGAGGACGGGAGGACCTTGGCTGATTACAATATCCAAAAGGAATCG
131 TCTTCGCTGGCAAACAGCTTGAGGACGGCCGTACCTTGGCTGATTATAATATCCAAAAGGAATCA
* * * ** * * *
24305026 ACCCTTCACCTTGTTTTGAGGCTTCGTGGAGGA
196 ACTCTCCACCTGGTCCTCAGGCTGCGTGGAGGC
* * * * * * * * * * * * * * *
24305059 ATGCAGATTTTTGTTAAGACCTTGACTGGAAAAACAATCAC-CTTGGAAGTGGAAAGTTCCGATA
1 ATGCAGATCTTCGTCAAAACCTTGACAGGCAAGACCATAACTC-TCGAGGTCGAGAGTTCGGACA
* * * * * * * ** * *
24305123 CAATTGACAACGTAAAAGCAAAGATTCAGGACAAGGAAGGAATCCCCCCAGATCAGCAAAGGCTT
65 CAATTGATAACGTCAAGGCCAAGATTCAGGACAAGGAAGGGATCCCACCAGACCAGCAGCGTCTC
*
24305188 ATCTTTGCTGGCAAACA
130 ATCTTCGCTGGCAAACA
24305205 ATTGGAGGAT
Statistics
Matches: 504, Mismatches: 97, Indels: 2
0.84 0.16 0.00
Matches are distributed among these distances:
227 1 0.00
228 503 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (228 bp):
ATGCAGATCTTCGTCAAAACCTTGACAGGCAAGACCATAACTCTCGAGGTCGAGAGTTCGGACAC
AATTGATAACGTCAAGGCCAAGATTCAGGACAAGGAAGGGATCCCACCAGACCAGCAGCGTCTCA
TCTTCGCTGGCAAACAGCTTGAGGACGGCCGTACCTTGGCTGATTATAATATCCAAAAGGAATCA
ACTCTCCACCTGGTCCTCAGGCTGCGTGGAGGC
Found at i:24308492 original size:29 final size:27
Alignment explanation
Indices: 24308437--24308493 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
24308427 ACATGTTAAT
*
24308437 TAATAAATTCATAATTTAAATATTATA
1 TAATAAATTCATAATTTAAATACTATA
* *
24308464 TAATAAATTTATAAAATTTAAGTACTATA
1 TAATAAATTCAT--AATTTAAATACTATA
24308493 T
1 T
24308494 TAAAACTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 11 0.44
29 14 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (27 bp):
TAATAAATTCATAATTTAAATACTATA
Found at i:24310856 original size:31 final size:31
Alignment explanation
Indices: 24310820--24310891 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
24310810 TATCCGAACT
*
24310820 CGACCCGACAATATGTAAATCGTATCCAATC
1 CGACCCGAAAATATGTAAATCGTATCCAATC
24310851 CGACCCGAAAATATGTAAATCGTATCCAATC
1 CGACCCGAAAATATGTAAATCGTATCCAATC
24310882 CGACCCGAAA
1 CGACCCGAAA
24310892 TTAATAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.38, C:0.29, G:0.14, T:0.19
Consensus pattern (31 bp):
CGACCCGAAAATATGTAAATCGTATCCAATC
Found at i:24310931 original size:20 final size:21
Alignment explanation
Indices: 24310895--24310946 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
24310885 CCCGAAATTA
24310895 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
24310917 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
24310938 AT-AAATATT
1 ATAAAATATT
24310947 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:24310937 original size:21 final size:22
Alignment explanation
Indices: 24310895--24310946 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
24310885 CCCGAAATTA
24310895 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
24310917 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
24310938 AT-AAATATT
1 ATAAAATATT
24310947 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:24316989 original size:19 final size:19
Alignment explanation
Indices: 24316965--24317004 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
24316955 CTGTCTGATG
24316965 ATACTTTCTAAGATATATC
1 ATACTTTCTAAGATATATC
24316984 ATACTTTCTAAGATATATC
1 ATACTTTCTAAGATATATC
24317003 AT
1 AT
24317005 CTCTGTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (19 bp):
ATACTTTCTAAGATATATC
Found at i:24324840 original size:28 final size:29
Alignment explanation
Indices: 24324782--24324846 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
24324772 TAATAATTAT
* * *
24324782 TTAAATTTTTATTATTTTATTATAATTAA
1 TTAAATTTTAAATATTTTATTATAATCAA
* *
24324811 TTAAATTTTAAATA-TTTATTTTCATCAA
1 TTAAATTTTAAATATTTTATTATAATCAA
*
24324839 TTGAATTT
1 TTAAATTT
24324847 ATATTAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (29 bp):
TTAAATTTTAAATATTTTATTATAATCAA
Found at i:24324895 original size:38 final size:38
Alignment explanation
Indices: 24324832--24324906 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
24324822 ATATTTATTT
24324832 TCATCAATTGAATTTATATTAATAAAAA-TT-AATTAA
1 TCATCAATTGAATTTATATTAATAAAAACTTCAATTAA
* *
24324868 TCATCAATATTAATTTTTATTTAATAAAAACTTCAATTA
1 TCATCAAT-TGAATTTATA-TTAATAAAAACTTCAATTA
24324907 GAGTGAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 8 0.24
37 8 0.24
38 10 0.30
39 2 0.06
40 5 0.15
ACGTcount: A:0.47, C:0.08, G:0.01, T:0.44
Consensus pattern (38 bp):
TCATCAATTGAATTTATATTAATAAAAACTTCAATTAA
Found at i:24326303 original size:3 final size:3
Alignment explanation
Indices: 24326295--24326329 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
24326285 CTAGCTCTGT
* *
24326295 TTC TTC TTC TTG TTC TTC TTC CTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
24326330 GGTTAGCTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.31, G:0.03, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:24327618 original size:11 final size:12
Alignment explanation
Indices: 24327592--24327639 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
24327582 ATAAAAATAA
*
24327592 AAATTTTGTATT
1 AAATTTTATATT
24327604 AAATTTTAT-TT
1 AAATTTTATATT
24327615 AAA---TATATT
1 AAATTTTATATT
24327624 AAAATTTTATATT
1 -AAATTTTATATT
24327637 AAA
1 AAA
24327640 AATAAAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 3 0.10
9 2 0.07
10 3 0.10
11 5 0.17
12 11 0.37
13 6 0.20
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
AAATTTTATATT
Found at i:24327630 original size:21 final size:21
Alignment explanation
Indices: 24327600--24327639 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
24327590 AAAAATTTTG
24327600 TATTAAATTTTAT-TTAAATA
1 TATTAAATTTTATATTAAATA
24327620 TATTAAAATTTTATATTAAA
1 TATT-AAATTTTATATTAAA
24327640 AATAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTAAATTTTATATTAAATA
Found at i:24327649 original size:22 final size:21
Alignment explanation
Indices: 24327604--24327651 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
24327594 ATTTTGTATT
* **
24327604 AAATTTTATTTAAATATATTA
1 AAATTTTATTTAAAAATAAAA
24327625 AAATTTTATATTAAAAATAAAA
1 AAATTTTAT-TTAAAAATAAAA
24327647 AAATT
1 AAATT
24327652 AATAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATTTTATTTAAAAATAAAA
Found at i:24332703 original size:32 final size:31
Alignment explanation
Indices: 24332667--24332737 Score: 99
Period size: 32 Copynumber: 2.3 Consensus size: 31
24332657 AATTGTCTTT
*
24332667 TAAAATGTA-CCAAAAAGATAATTAAATAAAAA
1 TAAAATATACCCAAAAA-ATAATTAAAT-AAAA
*
24332699 TAAAAAATACCCAAAAAATAATTAAATAAAA
1 TAAAATATACCCAAAAAATAATTAAATAAAA
24332730 TAAAATAT
1 TAAAATAT
24332738 TATCTATCCC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
31 11 0.31
32 17 0.49
33 7 0.20
ACGTcount: A:0.68, C:0.07, G:0.03, T:0.23
Consensus pattern (31 bp):
TAAAATATACCCAAAAAATAATTAAATAAAA
Found at i:24333829 original size:21 final size:23
Alignment explanation
Indices: 24333774--24333822 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
24333764 ATCGAAATTA
*
24333774 ATAAAATATTATTTTTTAAATAT
1 ATAAAATATTATTTTTAAAATAT
24333797 ATAAAATATTATTTTTAAAATAT
1 ATAAAATATTATTTTTAAAATAT
24333820 ATA
1 ATA
24333823 TAATTATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
ATAAAATATTATTTTTAAAATAT
Found at i:24333909 original size:22 final size:22
Alignment explanation
Indices: 24333881--24333925 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
24333871 GATCAGATCG
24333881 AATTTACCTAAAATTCGAATCA
1 AATTTACCTAAAATTCGAATCA
24333903 AATTTACCTAAAATTCGAATCA
1 AATTTACCTAAAATTCGAATCA
24333925 A
1 A
24333926 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (22 bp):
AATTTACCTAAAATTCGAATCA
Found at i:24337934 original size:22 final size:21
Alignment explanation
Indices: 24337888--24337934 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
24337878 ATTAATATTT
* *
24337888 AAATTCAATTAATAATATAAT
1 AAATTCAATCAATAATATAAA
*
24337909 AAATTCAATCATATTATATAAA
1 AAATTCAATCA-ATAATATAAA
24337931 AAAT
1 AAAT
24337935 GTAGTTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATTCAATCAATAATATAAA
Found at i:24338142 original size:21 final size:21
Alignment explanation
Indices: 24338118--24338173 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
24338108 ATAAAATTTG
24338118 ATTTTATTAAATTTATTTATA
1 ATTTTATTAAATTTATTTATA
*
24338139 ATTTTATTAAACTTATTTATA
1 ATTTTATTAAATTTATTTATA
*
24338160 ATTTTACTAAATTT
1 ATTTTATTAAATTT
24338174 TTAAACATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTATTAAATTTATTTATA
Found at i:24338193 original size:19 final size:19
Alignment explanation
Indices: 24338171--24338209 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
24338161 TTTTACTAAA
24338171 TTTTTAAACATATTATTTT
1 TTTTTAAACATATTATTTT
**
24338190 TTTTTATTCATATTATTTT
1 TTTTTAAACATATTATTTT
24338209 T
1 T
24338210 ATATTGTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTTTAAACATATTATTTT
Found at i:24360615 original size:2 final size:2
Alignment explanation
Indices: 24360610--24360634 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24360600 CAAAAACACA
24360610 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
24360635 AATCAATCAT
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:24361700 original size:30 final size:30
Alignment explanation
Indices: 24361633--24361701 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
24361623 TTTTATTACA
*
24361633 ATTAATTAAACTCATAAATATTTATTTTTT
1 ATTAATTAAACTCATAAATAATTATTTTTT
*
24361663 ATCTAATTAAA-TTATCAAATAATTA-TTTTT
1 AT-TAATTAAACTCAT-AAATAATTATTTTTT
24361693 AGTTAATTA
1 A-TTAATTA
24361702 GCTATCCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 17 0.50
31 17 0.50
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (30 bp):
ATTAATTAAACTCATAAATAATTATTTTTT
Found at i:24362423 original size:21 final size:21
Alignment explanation
Indices: 24362386--24362428 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
24362376 GTATACATCT
*
24362386 ATAAATTTATATAATTTTAAA
1 ATAAATTTATATAATTTAAAA
*
24362407 ATAAATTT-TATTTATTTAAAA
1 ATAAATTTATA-TAATTTAAAA
24362428 A
1 A
24362429 ATAATAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAATTTATATAATTTAAAA
Found at i:24362978 original size:12 final size:13
Alignment explanation
Indices: 24362961--24362992 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
24362951 TTTTATTTTT
24362961 AATTATTTT-AAA
1 AATTATTTTCAAA
24362973 AATTATTTTCAAA
1 AATTATTTTCAAA
24362986 AA-TATTT
1 AATTATTT
24362993 GATGTATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTATTTTCAAA
Found at i:24365991 original size:31 final size:30
Alignment explanation
Indices: 24365949--24366024 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 30
24365939 AATTTATAAC
*
24365949 ATATAACTTTTATATAAAGTATAATATAAAT
1 ATATAAATTTTATATAAA-TATAATATAAAT
* **
24365980 ATATAAATTTTAATTTTTATATAATATAAAT
1 ATATAAATTTT-ATATAAATATAATATAAAT
24366011 ATATAAATTGTTAT
1 ATATAAATT-TTAT
24366025 GTATACAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 33 0.85
32 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (30 bp):
ATATAAATTTTATATAAATATAATATAAAT
Found at i:24366029 original size:29 final size:30
Alignment explanation
Indices: 24365968--24366043 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 30
24365958 TTATATAAAG
*
24365968 TATAATATAAATATATAAATTTTAATTTTTA
1 TATAATATAAATATATAAATTTTAA-TTGTA
24365999 TATAATATAAATATATAAATTGTT-A-TGTA
1 TATAATATAAATATATAAATT-TTAATTGTA
*
24366028 TACAA-ATAATATATAT
1 TATAATATAA-ATATAT
24366044 TTATTGTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 4 0.10
29 13 0.32
31 22 0.54
32 2 0.05
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (30 bp):
TATAATATAAATATATAAATTTTAATTGTA
Found at i:24368502 original size:2 final size:2
Alignment explanation
Indices: 24368495--24368520 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24368485 GATCTGGATG
24368495 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
24368521 TTGGTGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24404561 original size:20 final size:20
Alignment explanation
Indices: 24404532--24404570 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
24404522 TTTTTTATTA
24404532 AAAATAAATA-AGTTAAAATT
1 AAAATAAATAGA-TTAAAATT
*
24404552 AAAATTAATAGATTAAAAT
1 AAAATAAATAGATTAAAAT
24404571 ATTTCATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
AAAATAAATAGATTAAAATT
Found at i:24404646 original size:15 final size:15
Alignment explanation
Indices: 24404626--24404667 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
24404616 AAATTTTAGT
24404626 ATATTTATTAAAAAA
1 ATATTTATTAAAAAA
*
24404641 ATATTT-TTAGTAAAA
1 ATATTTATTA-AAAAA
24404656 ATATTTA-TAAAA
1 ATATTTATTAAAA
24404668 CTTTTATCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (15 bp):
ATATTTATTAAAAAA
Found at i:24407824 original size:2 final size:2
Alignment explanation
Indices: 24407817--24407842 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24407807 TTATCTTAAG
24407817 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
24407843 TTTTGGTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24416516 original size:21 final size:21
Alignment explanation
Indices: 24416478--24416517 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24416468 ATTGTAGCAA
*
24416478 TAAAATTAATTATTATAATAG
1 TAAAATTAATAATTATAATAG
24416499 TAAAATTAA-AATTAATAAT
1 TAAAATTAATAATT-ATAAT
24416518 GAGATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
TAAAATTAATAATTATAATAG
Found at i:24416664 original size:27 final size:26
Alignment explanation
Indices: 24416621--24416678 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
24416611 ATATATAATA
**
24416621 AAAATGATAAATTATTTA-ATATTTAT
1 AAAATGATAAAGAATTTATA-ATTTAT
24416647 AAAATGAATAAAGAATTTATAATTTAT
1 AAAATG-ATAAAGAATTTATAATTTAT
*
24416674 TAAAT
1 AAAAT
24416679 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.22
27 20 0.74
28 1 0.04
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.41
Consensus pattern (26 bp):
AAAATGATAAAGAATTTATAATTTAT
Found at i:24416740 original size:42 final size:43
Alignment explanation
Indices: 24416672--24416762 Score: 130
Period size: 42 Copynumber: 2.1 Consensus size: 43
24416662 TTTATAATTT
* * *
24416672 ATTAAATTATTTTTTATCAAAATAATAATTATATTAATAAATA
1 ATTAAATTAGTTTATATCAAAATAATAATTATATTAACAAATA
* *
24416715 ATTAAATTAGTTTATATC-ATATAATAATTTTATTAACAAATA
1 ATTAAATTAGTTTATATCAAAATAATAATTATATTAACAAATA
24416757 ATTAAA
1 ATTAAA
24416763 ATTTATAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 27 0.63
43 16 0.37
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (43 bp):
ATTAAATTAGTTTATATCAAAATAATAATTATATTAACAAATA
Found at i:24424736 original size:3 final size:3
Alignment explanation
Indices: 24424730--24424759 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
24424720 GAAGAGTAAA
24424730 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
24424760 TTGCAATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24426356 original size:2 final size:2
Alignment explanation
Indices: 24426349--24426380 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
24426339 AGCCTCCAGC
24426349 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24426381 GCTTATTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24432379 original size:34 final size:34
Alignment explanation
Indices: 24432341--24432434 Score: 109
Period size: 34 Copynumber: 2.8 Consensus size: 34
24432331 ATTTAATTTT
* * *
24432341 AAGTTTTTAGATTTTTAAATTCGAAAGTTTGTAA
1 AAGTTTTTAAATTTATAAATTTGAAAGTTTGTAA
* * *
24432375 AAGTTTATAAATTTATAAATTTAAAAGTTTTTAA
1 AAGTTTTTAAATTTATAAATTTGAAAGTTTGTAA
*
24432409 AA-TTTTTAAAATTTGTAAATTTGAAA
1 AAGTTTTT-AAATTTATAAATTTGAAA
24432435 ATTAAAAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
33 4 0.08
34 46 0.92
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.47
Consensus pattern (34 bp):
AAGTTTTTAAATTTATAAATTTGAAAGTTTGTAA
Found at i:24432399 original size:24 final size:25
Alignment explanation
Indices: 24432372--24432418 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
24432362 CGAAAGTTTG
24432372 TAAAAGTTTAT-AAATTTATAAATT
1 TAAAAGTTTATAAAATTTATAAATT
* *
24432396 TAAAAGTTTTTAAAATTTTTAAA
1 TAAAAGTTTATAAAATTTATAAA
24432419 ATTTGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (25 bp):
TAAAAGTTTATAAAATTTATAAATT
Found at i:24432416 original size:9 final size:9
Alignment explanation
Indices: 24432394--24432427 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
24432384 AATTTATAAA
24432394 TTTAAAAGTT
1 TTTAAAA-TT
24432404 TTTAAAATT
1 TTTAAAATT
24432413 TTTAAAATT
1 TTTAAAATT
*
24432422 TGTAAA
1 TTTAAA
24432428 TTTGAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 16 0.70
10 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (9 bp):
TTTAAAATT
Found at i:24433329 original size:21 final size:21
Alignment explanation
Indices: 24433290--24433333 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
24433280 AAAATTGCTT
*
24433290 TAAATAATTACTTTTTTATTA
1 TAAATAATTACTTTATTATTA
24433311 TAAATAATTA-TTTA--ATTA
1 TAAATAATTACTTTATTATTA
24433329 TAAAT
1 TAAAT
24433334 TTAATCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 9 0.41
20 3 0.14
21 10 0.45
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TAAATAATTACTTTATTATTA
Found at i:24439770 original size:21 final size:21
Alignment explanation
Indices: 24439744--24439785 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24439734 GCATTATTTT
24439744 TTTTAT-ATAATTTTTGAAATA
1 TTTTATAATAATTTTT-AAATA
*
24439765 TTTTATAATCATTTTTAAATA
1 TTTTATAATAATTTTTAAATA
24439786 GATATAGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTTATAATAATTTTTAAATA
Found at i:24449861 original size:20 final size:19
Alignment explanation
Indices: 24449808--24449876 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 19
24449798 AATTTATATC
24449808 ATATAA-ATTTTATATAAA
1 ATATAATATTTTATATAAA
**
24449826 ATATAATATAAATATATAAA
1 ATATAATAT-TTTATATAAA
*
24449846 TTATCAATATTTTATAT--A
1 ATAT-AATATTTTATATAAA
*
24449864 ATATAAAATTTTA
1 ATATAATATTTTA
24449877 AATTATTAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
17 8 0.20
18 10 0.24
19 2 0.05
20 16 0.39
21 5 0.12
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATAATATTTTATATAAA
Found at i:24474871 original size:35 final size:35
Alignment explanation
Indices: 24474800--24474872 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
24474790 TACTAAATAC
* * **
24474800 TGTAAAGATTATTTTATTCAGCAAGAATGCTGTAA
1 TGTAAAGATTATTTTAGTAAGCAAGAATGCCATAA
24474835 TGTAAAGATTATTTTAGTAAGCAAGAATGCCATAA
1 TGTAAAGATTATTTTAGTAAGCAAGAATGCCATAA
24474870 TGT
1 TGT
24474873 TTTCAAAGAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (35 bp):
TGTAAAGATTATTTTAGTAAGCAAGAATGCCATAA
Found at i:24476379 original size:23 final size:21
Alignment explanation
Indices: 24476336--24476385 Score: 55
Period size: 23 Copynumber: 2.3 Consensus size: 21
24476326 AACCCTTAAT
*
24476336 ATAAAAAATTTTTAATTTAAA
1 ATAAAAAATTTTTAATATAAA
*
24476357 ATAAAAATTTATTTGAATATAAA
1 ATAAAAAATT-TTT-AATATAAA
*
24476380 TTAAAA
1 ATAAAA
24476386 TATATATACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 9 0.38
22 3 0.12
23 12 0.50
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATAAAAAATTTTTAATATAAA
Found at i:24476427 original size:29 final size:29
Alignment explanation
Indices: 24476354--24476429 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
24476344 TTTTTAATTT
*
24476354 AAAATA-AAAATTTATTTGAATATAAATT
1 AAAATATAAAATTTATTTGAATATAAATA
* * *
24476382 AAAATATATATACTTATTTGACTAT-AATA
1 AAAATATA-AAATTTATTTGAATATAAATA
24476411 AAAATATAACAATTTATTT
1 AAAATATAA-AATTTATTT
24476430 TAAAAAATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.18
29 19 0.49
30 13 0.33
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (29 bp):
AAAATATAAAATTTATTTGAATATAAATA
Found at i:24480483 original size:6 final size:6
Alignment explanation
Indices: 24480472--24480510 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
24480462 TTGGTTTGGG
* * *
24480472 ATTTGC ATTTGC AGTTGC ATTTGC ATTGGC AGTTGC ATT
1 ATTTGC ATTTGC ATTTGC ATTTGC ATTTGC ATTTGC ATT
24480511 CTTGTTATAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.44
Consensus pattern (6 bp):
ATTTGC
Found at i:24480495 original size:18 final size:18
Alignment explanation
Indices: 24480472--24480510 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
24480462 TTGGTTTGGG
*
24480472 ATTTGCATTTGCAGTTGC
1 ATTTGCATTGGCAGTTGC
24480490 ATTTGCATTGGCAGTTGC
1 ATTTGCATTGGCAGTTGC
24480508 ATT
1 ATT
24480511 CTTGTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.18, C:0.15, G:0.23, T:0.44
Consensus pattern (18 bp):
ATTTGCATTGGCAGTTGC
Found at i:24481341 original size:16 final size:16
Alignment explanation
Indices: 24481270--24481341 Score: 64
Period size: 16 Copynumber: 4.6 Consensus size: 16
24481260 TTGATTTTAT
24481270 ATAAATAATATTT-TTA
1 ATAAATAAT-TTTATTA
*
24481286 ATAAATTAAAATTTATTA
1 ATAAA-T-AATTTTATTA
*
24481304 A-AAAAAATTTTA-TA
1 ATAAATAATTTTATTA
24481318 AT--ATAATTTTATTA
1 ATAAATAATTTTATTA
24481332 ATAAATAATT
1 ATAAATAATT
24481342 CAATTTATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
13 8 0.18
14 7 0.16
15 6 0.13
16 11 0.24
17 7 0.16
18 6 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAAATAATTTTATTA
Found at i:24481658 original size:7 final size:7
Alignment explanation
Indices: 24481646--24481672 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
24481636 TTTGAATTTG
24481646 ATTTAAA
1 ATTTAAA
24481653 ATTTAAA
1 ATTTAAA
24481660 ATTTAAA
1 ATTTAAA
24481667 ATTTAA
1 ATTTAA
24481673 CTCGAACTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTTAAA
Found at i:24523286 original size:30 final size:30
Alignment explanation
Indices: 24523252--24523309 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
24523242 CTCTTATTGC
24523252 ATTCAAATAAAATT-TTAA-ATTTTAATTTAT
1 ATTCAAAT-AAATTCTTAATA-TTTAATTTAT
24523282 ATTCAAATAAATTCTTAATATTTAATTT
1 ATTCAAATAAATTCTTAATATTTAATTT
24523310 GTACCCAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 5 0.19
30 20 0.77
31 1 0.04
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (30 bp):
ATTCAAATAAATTCTTAATATTTAATTTAT
Found at i:24530547 original size:10 final size:10
Alignment explanation
Indices: 24530534--24530582 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
24530524 AATATAAAAA
24530534 TAATAAAATT
1 TAATAAAATT
24530544 TAATAAAATT
1 TAATAAAATT
24530554 ATAA-ATAAATT
1 -TAATA-AAATT
24530565 TAATAAAA-T
1 TAATAAAATT
24530574 TAA-AAAATT
1 TAATAAAATT
24530583 ATATTTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
8 4 0.11
9 5 0.14
10 17 0.49
11 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TAATAAAATT
Found at i:24530551 original size:18 final size:18
Alignment explanation
Indices: 24530527--24530582 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 18
24530517 AATAAAAAAT
*
24530527 ATAAAAATAATAAAATTTA
1 ATAAAATTAA-AAAATTTA
24530546 ATAAAATTATAAATAAATTTA
1 ATAAAA-T-TAAA-AAATTTA
24530567 ATAAAATTAAAAAATT
1 ATAAAATTAAAAAATT
24530583 ATATTTTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 5 0.15
19 10 0.30
20 2 0.06
21 16 0.48
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAATTAAAAAATTTA
Found at i:24535418 original size:27 final size:27
Alignment explanation
Indices: 24535388--24535452 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
24535378 AAGAGACTTG
* *
24535388 CCAGAATTGGACACCGCCAGGGCCTTT
1 CCAGAATTGGACACCACCAGGGCCTTC
**
24535415 CCAGAATTGGATGCCACCAGGGCCTTC
1 CCAGAATTGGACACCACCAGGGCCTTC
*
24535442 CCTGAATTGGA
1 CCAGAATTGGA
24535453 TAGAACAAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.23, C:0.31, G:0.26, T:0.20
Consensus pattern (27 bp):
CCAGAATTGGACACCACCAGGGCCTTC
Found at i:24545760 original size:21 final size:21
Alignment explanation
Indices: 24545736--24545778 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
24545726 ATTCTAATAA
24545736 ATAAAT-AAAATTTTATTATTT
1 ATAAATGAAAATTTTA-TATTT
*
24545757 ATAAATGTAAATTTTATATTT
1 ATAAATGAAAATTTTATATTT
24545778 A
1 A
24545779 CTTTTATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATAAATGAAAATTTTATATTT
Found at i:24546407 original size:22 final size:23
Alignment explanation
Indices: 24546381--24546441 Score: 70
Period size: 22 Copynumber: 2.6 Consensus size: 23
24546371 ATATTTAAAT
24546381 TTAATTTAAATCAAAT-AAAAAA
1 TTAATTTAAATCAAATCAAAAAA
* * *
24546403 TTAATTCAAATCAAATCAAATAT
1 TTAATTTAAATCAAATCAAAAAA
24546426 TATAATTTCAAATCAA
1 T-TAATTT-AAATCAA
24546442 TTTTTAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 15 0.47
23 5 0.16
24 5 0.16
25 7 0.22
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (23 bp):
TTAATTTAAATCAAATCAAAAAA
Found at i:24548440 original size:25 final size:24
Alignment explanation
Indices: 24548388--24548441 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
24548378 TGTTTGTATT
*
24548388 TATTTAATATTTAAAATTTTGATG
1 TATTTAATATTTAAAATTTTGATA
** *
24548412 TATTTAATATTATAAGTTTTTGTTA
1 TATTTAATATT-TAAAATTTTGATA
24548437 TATTT
1 TATTT
24548442 GTGTCAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (24 bp):
TATTTAATATTTAAAATTTTGATA
Found at i:24550648 original size:14 final size:14
Alignment explanation
Indices: 24550631--24550657 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24550621 TTTTAAAATT
24550631 TTAAAATATATAAA
1 TTAAAATATATAAA
24550645 TTAAAATATATAA
1 TTAAAATATATAA
24550658 TTTGGTTATA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTAAAATATATAAA
Found at i:24552664 original size:24 final size:25
Alignment explanation
Indices: 24552633--24552691 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
24552623 TATGTGTTTG
24552633 TGTT-TATTTGATATT-TAAATTTT
1 TGTTATATTTGATATTATAAATTTT
* *
24552656 T-TATATATTTAATATTATAAGTTTT
1 TGT-TATATTTGATATTATAAATTTT
24552681 TGTTATATTTG
1 TGTTATATTTG
24552692 TGTTAATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 1 0.03
23 2 0.07
24 10 0.34
25 15 0.52
26 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (25 bp):
TGTTATATTTGATATTATAAATTTT
Found at i:24552687 original size:25 final size:25
Alignment explanation
Indices: 24552617--24552690 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 25
24552607 TGATAAAAGA
** *
24552617 TAATATTATGTGTTTGTGTT-TATT
1 TAATATTATAAGTTTTTGTTATATT
* *
24552641 TGATATT-TAAATTTTT-TATATATT
1 TAATATTATAAGTTTTTGT-TATATT
24552665 TAATATTATAAGTTTTTGTTATATT
1 TAATATTATAAGTTTTTGTTATATT
24552690 T
1 T
24552691 GTGTTAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
22 1 0.03
23 6 0.15
24 16 0.41
25 15 0.38
26 1 0.03
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.62
Consensus pattern (25 bp):
TAATATTATAAGTTTTTGTTATATT
Found at i:24552813 original size:23 final size:23
Alignment explanation
Indices: 24552767--24552813 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
24552757 TAAAGCTTTG
* *
24552767 TTTTACAATTAAAAAAATATTAT
1 TTTTACAATTAAAAAAAAAATAT
24552790 TTTTAC-ATTAAATAAAAAAATAT
1 TTTTACAATTAAA-AAAAAAATAT
24552813 T
1 T
24552814 AAGTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTTACAATTAAAAAAAAAATAT
Found at i:24553289 original size:20 final size:20
Alignment explanation
Indices: 24553248--24553288 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
24553238 TTTTAAAAAT
24553248 AATTATATGAATCAAATTAA
1 AATTATATGAATCAAATTAA
* *
24553268 AATTGTATGAAT-AATTTAA
1 AATTATATGAATCAAATTAA
24553287 AA
1 AA
24553289 ACATTCTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (20 bp):
AATTATATGAATCAAATTAA
Found at i:24562949 original size:1 final size:1
Alignment explanation
Indices: 24562943--24562968 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
24562933 ATTTCATCTG
24562943 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
24562969 AATATCTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:24563501 original size:3 final size:3
Alignment explanation
Indices: 24563493--24563524 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
24563483 TTATCTTTGC
24563493 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
24563525 ACATTTAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:24566918 original size:27 final size:27
Alignment explanation
Indices: 24566888--24566941 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
24566878 TCAATTGTTC
24566888 ACGTTCCATTGTTTACCATAATCATTT
1 ACGTTCCATTGTTTACCATAATCATTT
* *
24566915 ACGTTTCGTTGTTTACCATAATCATTT
1 ACGTTCCATTGTTTACCATAATCATTT
24566942 TTTTATGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.46
Consensus pattern (27 bp):
ACGTTCCATTGTTTACCATAATCATTT
Found at i:24567238 original size:166 final size:169
Alignment explanation
Indices: 24566933--24567253 Score: 540
Period size: 166 Copynumber: 1.9 Consensus size: 169
24566923 TTGTTTACCA
* * *
24566933 TAATCATTTTTTTATGAGCTGAAGTTTAGAGTAGAAAGGTCAATTCACTTTTAACTACATTTCCT
1 TAATAATTTTTTTATAAGCTGAAGTTTAGAGTAGAAAGATCAATTCACTTTTAACTACATTTCCT
*
24566998 AGCGGAAAAGTGATATGGAAGAATATCGGATGGATAGCATATTTAAATTTTAAAAAGTAGAGAGA
66 AGCGGAAAAGTGA-ATGGAAAAATATCGGATGGATAGCATATTTAAATTTTAAAAAGTAGAGAGA
*
24567063 TATTTTAATTTAAATTTGTTTGCATTTTAGAAAAAAAAAT
130 TACTTTAATTTAAATTTGTTTGCATTTTAGAAAAAAAAAT
* *
24567103 TAATAATTTTTTTATAAGCTGAAG-TTAGTGTAGAAAGATCAATTCACTTTTAACTACATTTTCT
1 TAATAATTTTTTTATAAGCTGAAGTTTAGAGTAGAAAGATCAATTCACTTTTAACTACATTTCCT
*
24567167 AGCGGAAAAGTG-AT-GAAAAATATCGGATGGATAGCATATTTAAATTTTAAAAAGTAGAGAGCT
66 AGCGGAAAAGTGAATGGAAAAATATCGGATGGATAGCATATTTAAATTTTAAAAAGTAGAGAGAT
24567230 ACTTTAATTTAAATTTGTTTGCAT
131 ACTTTAATTTAAATTTGTTTGCAT
24567254 GCTTAGCAAA
Statistics
Matches: 143, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
166 70 0.49
167 2 0.01
169 49 0.34
170 22 0.15
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (169 bp):
TAATAATTTTTTTATAAGCTGAAGTTTAGAGTAGAAAGATCAATTCACTTTTAACTACATTTCCT
AGCGGAAAAGTGAATGGAAAAATATCGGATGGATAGCATATTTAAATTTTAAAAAGTAGAGAGAT
ACTTTAATTTAAATTTGTTTGCATTTTAGAAAAAAAAAT
Found at i:24573891 original size:30 final size:29
Alignment explanation
Indices: 24573829--24573905 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
24573819 ATTAAAGATC
*
24573829 TATTTAGATAAAAATTGAAAA---ATAAGT
1 TATTTACATAAAAATT-AAAATTTATAAGT
* *
24573856 TATTTATATATAAATTAAAATTTATAAGTT
1 TATTTACATAAAAATTAAAATTTATAAG-T
24573886 TATTTACATAAAAATTAAAA
1 TATTTACATAAAAATTAAAA
24573906 ATTAAGAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 4 0.10
27 14 0.33
29 5 0.12
30 19 0.45
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.40
Consensus pattern (29 bp):
TATTTACATAAAAATTAAAATTTATAAGT
Found at i:24573919 original size:31 final size:30
Alignment explanation
Indices: 24573855--24573921 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
24573845 GAAAAATAAG
* * * * *
24573855 TTATTTATATATAAATTAAAATTTATAAGT
1 TTATTTACATAAAAATTAAAATTAAGAAAT
24573885 TTATTTACATAAAAATTAAAAATTAAGAAAT
1 TTATTTACATAAAAATT-AAAATTAAGAAAT
24573916 TTATTT
1 TTATTT
24573922 GTGTAATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 15 0.48
31 16 0.52
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (30 bp):
TTATTTACATAAAAATTAAAATTAAGAAAT
Found at i:24581582 original size:2 final size:2
Alignment explanation
Indices: 24581577--24581616 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
24581567 TCTCTCTCTG
*
24581577 TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA -A T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24581617 GTAGCGCGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:24590545 original size:22 final size:23
Alignment explanation
Indices: 24590520--24590571 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
24590510 AATTAATAAA
*
24590520 AAAATAAAGA-GCATATTAATT-T
1 AAAATAAAAATGCATA-TAATTAT
*
24590542 AAAATAAAAATTCATATAATTAT
1 AAAATAAAAATGCATATAATTAT
24590565 AAAATAA
1 AAAATAA
24590572 TATCATCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (23 bp):
AAAATAAAAATGCATATAATTAT
Found at i:24593844 original size:19 final size:19
Alignment explanation
Indices: 24593822--24593879 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
24593812 AATATAATAT
24593822 TTATAAAATTATATTTTAA
1 TTATAAAATTATATTTTAA
* * * *
24593841 TTATAAAAATATAATATAT
1 TTATAAAATTATATTTTAA
*
24593860 TTATTAAAATAATATTTTAA
1 TTA-TAAAATTATATTTTAA
24593880 ATTAATATAT
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTATAAAATTATATTTTAA
Found at i:24593857 original size:22 final size:22
Alignment explanation
Indices: 24593832--24593874 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
24593822 TTATAAAATT
24593832 ATAT-TTTAATTATAAA-AATATA
1 ATATATTT-ATTA-AAATAATATA
24593854 ATATATTTATTAAAATAATAT
1 ATATATTTATTAAAATAATAT
24593875 TTTAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 3 0.16
22 13 0.68
23 3 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATATTTATTAAAATAATATA
Found at i:24593926 original size:16 final size:16
Alignment explanation
Indices: 24593896--24593947 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
24593886 ATATTAAATA
**
24593896 ATAAATTTATTATTAT
1 ATAAATTTAAAATTAT
*
24593912 ATAAATTTAAAATTAA
1 ATAAATTTAAAATTAT
* *
24593928 ATAAAATAATAAATTAT
1 ATAAATTTA-AAATTAT
24593945 ATA
1 ATA
24593948 TTTATATGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
16 20 0.69
17 9 0.31
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAATTTAAAATTAT
Found at i:24602556 original size:32 final size:33
Alignment explanation
Indices: 24602505--24602571 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 33
24602495 TTTTAAGTGA
* * * *
24602505 TTTGATTTGATTTTTTATATTTTA-ATTTAAAT
1 TTTGATTCGAATTTATATATTTAATATTTAAAT
24602537 TTTGATTCGAATTTATATATTTAATATTTAAAT
1 TTTGATTCGAATTTATATATTTAATATTTAAAT
24602570 TT
1 TT
24602572 AATTTAAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 20 0.67
33 10 0.33
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.61
Consensus pattern (33 bp):
TTTGATTCGAATTTATATATTTAATATTTAAAT
Found at i:24608733 original size:24 final size:23
Alignment explanation
Indices: 24608696--24608755 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
24608686 AAATTATAAA
*
24608696 AAAAAAG-AATAAAATGAAAAAGT
1 AAAAAAGAAAAAAAATGAAAAA-T
**
24608719 AAAAAAGAAAAAAAAATTCAAAAT
1 AAAAAAG-AAAAAAAATGAAAAAT
*
24608743 AAAAAATAAAAAA
1 AAAAAAGAAAAAA
24608756 GAGGTCATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 13 0.42
24 7 0.23
25 11 0.35
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.12
Consensus pattern (23 bp):
AAAAAAGAAAAAAAATGAAAAAT
Found at i:24609168 original size:10 final size:10
Alignment explanation
Indices: 24609143--24609172 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
24609133 AATGAATATG
24609143 ATATTTAAAA
1 ATATTTAAAA
24609153 AT-TTTAAAA
1 ATATTTAAAA
24609162 ATATTTAAAA
1 ATATTTAAAA
24609172 A
1 A
24609173 CACTTGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATTTAAAA
Found at i:24609507 original size:22 final size:23
Alignment explanation
Indices: 24609463--24609507 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
24609453 AAATAAAATC
* **
24609463 TTTAAAAAATATTTATTTTATAT
1 TTTAAAAAATATTAATTAAATAT
24609486 TTTAAAAAA-ATTAATTAAATAT
1 TTTAAAAAATATTAATTAAATAT
24609508 AAATAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTAAAAAATATTAATTAAATAT
Found at i:24611528 original size:21 final size:20
Alignment explanation
Indices: 24611497--24611566 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
24611487 TTATCTTAAT
24611497 TTTATTTTAGGATTCGTTTATA
1 TTTA-TTTAGG-TTCGTTTATA
* *
24611519 TTTGTTTAGGTTTGTTTATA
1 TTTATTTAGGTTCGTTTATA
* * *
24611539 TTTATTTAATGTTTGTTTAAA
1 TTTATTT-AGGTTCGTTTATA
24611560 TTTATTT
1 TTTATTT
24611567 GATTATAGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 15 0.36
21 24 0.57
22 3 0.07
ACGTcount: A:0.21, C:0.01, G:0.13, T:0.64
Consensus pattern (20 bp):
TTTATTTAGGTTCGTTTATA
Found at i:24612344 original size:2 final size:2
Alignment explanation
Indices: 24612337--24612365 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
24612327 TGATAATAGG
24612337 AT 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 AT A
24612366 GGAACATGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24614832 original size:23 final size:24
Alignment explanation
Indices: 24614794--24614842 Score: 82
Period size: 23 Copynumber: 2.1 Consensus size: 24
24614784 ATTTTTTATT
*
24614794 ATTTTTTAAATTATAATTATAATA
1 ATTTTTTAAATCATAATTATAATA
24614818 ATTTTTT-AATCATAATTATAATA
1 ATTTTTTAAATCATAATTATAATA
24614841 AT
1 AT
24614843 AAATATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTTTTTAAATCATAATTATAATA
Found at i:24615653 original size:13 final size:14
Alignment explanation
Indices: 24615635--24615663 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
24615625 CATTTTCTCA
24615635 TTATAAAT-AATAT
1 TTATAAATAAATAT
24615648 TTATAAATAAATAT
1 TTATAAATAAATAT
24615662 TT
1 TT
24615664 CGATTAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTATAAATAAATAT
Found at i:24621478 original size:2 final size:2
Alignment explanation
Indices: 24621473--24621521 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
24621463 TATAATTTGA
* * * *
24621473 AT AT AT AT AT AT AT AT GT AT AT AT AC AT AT AC AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24621515 AT -T AT AT
1 AT AT AT AT
24621522 TTTATTACTA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:24634295 original size:18 final size:18
Alignment explanation
Indices: 24634274--24634310 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
24634264 AATTATTTTT
*
24634274 TAATTATTTATTTATATA
1 TAATTATATATTTATATA
24634292 TAATTATATATTTATATA
1 TAATTATATATTTATATA
24634310 T
1 T
24634311 TTATATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TAATTATATATTTATATA
Found at i:24634307 original size:14 final size:14
Alignment explanation
Indices: 24634278--24634319 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
24634268 ATTTTTTAAT
24634278 TATTTAT-TTATATA
1 TATTTATATT-TATA
24634292 TAATTATATATTTATA
1 T-ATT-TATATTTATA
24634308 TATTTATATTTA
1 TATTTATATTTA
24634320 AAAAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.36
15 6 0.24
16 8 0.32
17 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTTATATTTATA
Found at i:24634315 original size:8 final size:8
Alignment explanation
Indices: 24634277--24634316 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
24634267 TATTTTTTAA
*
24634277 TTATTTAT
1 TTATATAT
24634285 TTATATAT
1 TTATATAT
24634293 AATTATATAT
1 --TTATATAT
24634303 TTATATAT
1 TTATATAT
24634311 TTATAT
1 TTATAT
24634317 TTAAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 21 0.72
10 8 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTATATAT
Found at i:24634336 original size:21 final size:21
Alignment explanation
Indices: 24634305--24634356 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
24634295 TTATATATTT
24634305 ATATATTTATATTTAAAAAATA
1 ATAT-TTTATATTTAAAAAATA
*
24634327 ATATTTTATATTTTAAAAATA
1 ATATTTTATATTTAAAAAATA
24634348 ATATTTTAT
1 ATATTTTAT
24634357 TAATTTCGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATTTTATATTTAAAAAATA
Found at i:24636515 original size:13 final size:13
Alignment explanation
Indices: 24636477--24636519 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
24636467 GTAATCATTT
24636477 AAATTTAAAAAAA
1 AAATTTAAAAAAA
* *
24636490 AAATTGAAGAAAAC
1 AAATTTAA-AAAAA
*
24636504 GAATTTAAAAAAA
1 AAATTTAAAAAAA
24636517 AAA
1 AAA
24636520 AAGTTTTTGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (13 bp):
AAATTTAAAAAAA
Found at i:24636798 original size:19 final size:20
Alignment explanation
Indices: 24636776--24636814 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24636766 GTATAATTTA
24636776 TTAATAAAAT-ATTAAAATT
1 TTAATAAAATAATTAAAATT
**
24636795 TTAATTTAATAATTAAAATT
1 TTAATAAAATAATTAAAATT
24636815 GAACTTCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAATAAAATAATTAAAATT
Found at i:24639278 original size:16 final size:16
Alignment explanation
Indices: 24639243--24639274 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24639233 TGTGGATATG
24639243 ATTACTTGAATTAATA
1 ATTACTTGAATTAATA
24639259 ATTACTTGAA-TAATA
1 ATTACTTGAATTAATA
24639274 A
1 A
24639275 ATTATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (16 bp):
ATTACTTGAATTAATA
Found at i:24643869 original size:22 final size:22
Alignment explanation
Indices: 24643831--24643873 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24643821 ATTCATCTTG
*
24643831 TATTTACATATATAATTTTATA
1 TATTTACATAAATAATTTTATA
24643853 TATTTA-ATAAATAAATTTTAT
1 TATTTACATAAAT-AATTTTAT
24643874 TAATAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTTACATAAATAATTTTATA
Found at i:24643876 original size:17 final size:19
Alignment explanation
Indices: 24643856--24643893 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
24643846 TTTTATATAT
24643856 TTAATAA-ATAAATT-TTA
1 TTAATAATATAAATTATTA
24643873 TTAATAATATAAATTATTA
1 TTAATAATATAAATTATTA
24643892 TT
1 TT
24643894 TTAAGTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 7 0.37
19 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAATAATATAAATTATTA
Found at i:24643936 original size:25 final size:24
Alignment explanation
Indices: 24643857--24643953 Score: 65
Period size: 25 Copynumber: 3.9 Consensus size: 24
24643847 TTTATATATT
*
24643857 TAATAAATAAATTTTATTAATAATA
1 TAATTAATAAATTTTATTAA-AATA
* *
24643882 TAAATT-AT-TATTTTAAGTT-AATTA
1 T-AATTAATAAATTTT-A-TTAAAATA
*
24643906 GAATTAATAAATTTTATTAAAATA
1 TAATTAATAAATTTTATTAAAATA
* *
24643930 TATATTAATATATATTTATAAAAA
1 TA-ATTAATAAAT-TTTATTAAAA
24643954 ACTTATTTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
23 6 0.11
24 16 0.29
25 19 0.35
26 14 0.25
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
TAATTAATAAATTTTATTAAAATA
Found at i:24643954 original size:27 final size:26
Alignment explanation
Indices: 24643908--24643970 Score: 60
Period size: 27 Copynumber: 2.4 Consensus size: 26
24643898 GTTAATTAGA
* *
24643908 ATTAATAAAT-TTTATTAAAA-TATAT
1 ATTAATATATATTTATAAAAACT-TAT
24643933 ATTAATATATATTTATAAAAAACTTAT
1 ATTAATATATATTTAT-AAAAACTTAT
24643960 -TTAAATATATA
1 ATT-AATATATA
24643971 AAATAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 9 0.28
26 7 0.22
27 15 0.47
28 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (26 bp):
ATTAATATATATTTATAAAAACTTAT
Found at i:24647876 original size:18 final size:18
Alignment explanation
Indices: 24647855--24647892 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
24647845 GTGATGATAT
24647855 AAATATGATATAAATAAA
1 AAATATGATATAAATAAA
* *
24647873 AAATATTATATAATTAAA
1 AAATATGATATAAATAAA
24647891 AA
1 AA
24647893 TTTTAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (18 bp):
AAATATGATATAAATAAA
Found at i:24647893 original size:17 final size:17
Alignment explanation
Indices: 24647855--24647904 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
24647845 GTGATGATAT
*
24647855 AAATATGATATAAATAAA
1 AAATATTATAT-AATAAA
*
24647873 AAATATTATATAATTAA
1 AAATATTATATAATAAA
*
24647890 AAATTTTA-ATAATAA
1 AAATATTATATAATAA
24647905 TTATATGTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 6 0.21
17 12 0.43
18 10 0.36
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
AAATATTATATAATAAA
Found at i:24658466 original size:20 final size:20
Alignment explanation
Indices: 24658418--24658466 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
24658408 ACGACGTTTC
*
24658418 ACTATCATACACATTTGAGA
1 ACTATCATTCACATTTGAGA
*
24658438 ACTATCATTCCCATTTGAGA
1 ACTATCATTCACATTTGAGA
24658458 ACTATCATT
1 ACTATCATT
24658467 GAGAATCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (20 bp):
ACTATCATTCACATTTGAGA
Found at i:24671893 original size:17 final size:17
Alignment explanation
Indices: 24671871--24671909 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
24671861 TATCTGGCAA
24671871 AAGAGCAGGATATCGAG
1 AAGAGCAGGATATCGAG
24671888 AAGAGCAGGATATCGAG
1 AAGAGCAGGATATCGAG
24671905 AAGAG
1 AAGAG
24671910 GGGTGACAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.10, G:0.36, T:0.10
Consensus pattern (17 bp):
AAGAGCAGGATATCGAG
Found at i:24674333 original size:8 final size:9
Alignment explanation
Indices: 24674298--24674331 Score: 68
Period size: 9 Copynumber: 3.8 Consensus size: 9
24674288 CCTTAAATGG
24674298 TTTTTTTTA
1 TTTTTTTTA
24674307 TTTTTTTTA
1 TTTTTTTTA
24674316 TTTTTTTTA
1 TTTTTTTTA
24674325 TTTTTTT
1 TTTTTTT
24674332 ATGGTGTGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:24676671 original size:24 final size:23
Alignment explanation
Indices: 24676644--24676691 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
24676634 AAATAGGAGT
*
24676644 ATAGGACTGTTGTGAGTGATGGAA
1 ATAGGACTGTCGTGAGTGA-GGAA
24676668 ATAGGACTGTCGTGAGTGAGGAA
1 ATAGGACTGTCGTGAGTGAGGAA
24676691 A
1 A
24676692 CATTATTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.31, C:0.06, G:0.38, T:0.25
Consensus pattern (23 bp):
ATAGGACTGTCGTGAGTGAGGAA
Found at i:24690174 original size:21 final size:21
Alignment explanation
Indices: 24690134--24690190 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 21
24690124 GGGGGCTTCA
*
24690134 TGTTCTGATTTGGCCGTTTGCTG
1 TGTTCTGATAT-G-CGTTTGCTG
24690157 TGTTCTGATATGCGTTTGCTG
1 TGTTCTGATATGCGTTTGCTG
24690178 TGTTCTGATATGC
1 TGTTCTGATATGC
24690191 CTTTTTGGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
21 22 0.67
22 1 0.03
23 10 0.30
ACGTcount: A:0.09, C:0.16, G:0.28, T:0.47
Consensus pattern (21 bp):
TGTTCTGATATGCGTTTGCTG
Found at i:24692127 original size:13 final size:13
Alignment explanation
Indices: 24692109--24692134 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24692099 CCCATGAGAA
24692109 CAGCCTTAACGAG
1 CAGCCTTAACGAG
24692122 CAGCCTTAACGAG
1 CAGCCTTAACGAG
24692135 ATGTACCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (13 bp):
CAGCCTTAACGAG
Found at i:24693047 original size:16 final size:17
Alignment explanation
Indices: 24693026--24693063 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
24693016 TCGTTAGACC
24693026 TGTTTT-GTT-TAGCTTT
1 TGTTTTAGTTATAG-TTT
24693042 TGTTTTAGTTATAGTTT
1 TGTTTTAGTTATAGTTT
24693059 TGTTT
1 TGTTT
24693064 GATCTATGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 11 0.55
18 3 0.15
ACGTcount: A:0.11, C:0.03, G:0.18, T:0.68
Consensus pattern (17 bp):
TGTTTTAGTTATAGTTT
Found at i:24693194 original size:15 final size:15
Alignment explanation
Indices: 24693174--24693203 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24693164 TTTCATTTTT
*
24693174 TTAAATCTAGTTCTA
1 TTAAATATAGTTCTA
24693189 TTAAATATAGTTCTA
1 TTAAATATAGTTCTA
24693204 GTATGTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.10, G:0.07, T:0.47
Consensus pattern (15 bp):
TTAAATATAGTTCTA
Found at i:24695337 original size:40 final size:40
Alignment explanation
Indices: 24695275--24695352 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
24695265 ACTTCTACTC
24695275 TATGTCTTTGGTGTCCGATTCGTTTTGAATCGGATTTAAT
1 TATGTCTTTGGTGTCCGATTCGTTTTGAATCGGATTTAAT
** *
24695315 TATGTCTTTGGTGTTGGTTTCGTTTTGAATCGGATTTA
1 TATGTCTTTGGTGTCCGATTCGTTTTGAATCGGATTTA
24695353 TAATCATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.15, C:0.10, G:0.24, T:0.50
Consensus pattern (40 bp):
TATGTCTTTGGTGTCCGATTCGTTTTGAATCGGATTTAAT
Found at i:24700149 original size:16 final size:15
Alignment explanation
Indices: 24700128--24700173 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
24700118 CCACCATTGT
24700128 TGTTTCCTTTCTTTTC
1 TGTTTCCTTT-TTTTC
24700144 TGTTTCTCTTTTTTTC
1 TGTTTC-CTTTTTTTC
24700160 T-TTT-CTTTTTTTC
1 TGTTTCCTTTTTTTC
24700173 T
1 T
24700174 TGTCTTCCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.34
15 3 0.10
16 12 0.41
17 4 0.14
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (15 bp):
TGTTTCCTTTTTTTC
Found at i:24700159 original size:21 final size:21
Alignment explanation
Indices: 24700135--24700174 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
24700125 TGTTGTTTCC
24700135 TTTCTTTTCTGTTTCTCTTTT
1 TTTCTTTTCTGTTTCTCTTTT
* *
24700156 TTTCTTTTCTTTTTTTCTT
1 TTTCTTTTCTGTTTCTCTT
24700175 GTCTTCCCTC
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:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (21 bp):
TTTCTTTTCTGTTTCTCTTTT
Found at i:24700166 original size:13 final size:13
Alignment explanation
Indices: 24700150--24700179 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
24700140 TTTCTGTTTC
*
24700150 TCTTTTTTTCTTT
1 TCTTTTTTTCTTG
24700163 TCTTTTTTTCTTG
1 TCTTTTTTTCTTG
24700176 TCTT
1 TCTT
24700180 CCCTCTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.80
Consensus pattern (13 bp):
TCTTTTTTTCTTG
Found at i:24705810 original size:3 final size:3
Alignment explanation
Indices: 24705802--24705827 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
24705792 CCATTATCAG
24705802 ACC ACC ACC ACC ACC ACC ACC ACC AC
1 ACC ACC ACC ACC ACC ACC ACC ACC AC
24705828 AACTACCGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Done.