Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 143 of 147
Found at i:26546701 original size:20 final size:19
Alignment explanation
Indices: 26546676--26546715 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
26546666 CATAGCCTAA
26546676 TCTCCACCTCTCACCAACTC
1 TCTCCACCTCTCA-CAACTC
26546696 TCTCCACCTCTCACAACTC
1 TCTCCACCTCTCACAACTC
26546715 T
1 T
26546716 ACAAACTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.20, C:0.53, G:0.00, T:0.28
Consensus pattern (19 bp):
TCTCCACCTCTCACAACTC
Found at i:26547578 original size:24 final size:24
Alignment explanation
Indices: 26547538--26547584 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
26547528 AAACCATATC
* *
26547538 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
26547561 ATATTAATAATTAAAAATATAATT
1 ATATT-ATAATTAAAAATATAATT
26547585 CAAAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:26551693 original size:21 final size:19
Alignment explanation
Indices: 26551653--26551696 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
26551643 TTAAATCGAA
* *
26551653 TTATATATTTTTTTAGTTT
1 TTATATATATTTTAAGTTT
26551672 TTATATATATTTTAAGTTT
1 TTATATATATTTTAAGTTT
26551691 TT-TATA
1 TTATATA
26551697 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TTATATATATTTTAAGTTT
Found at i:26554997 original size:14 final size:14
Alignment explanation
Indices: 26554978--26555004 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26554968 TTGGTAAAAT
26554978 AAAAATTAAAATAA
1 AAAAATTAAAATAA
26554992 AAAAATTAAAATA
1 AAAAATTAAAATA
26555005 TTAAATTAAT
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAATTAAAATAA
Found at i:26555593 original size:18 final size:18
Alignment explanation
Indices: 26555570--26555605 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
26555560 AGCGGCCATC
26555570 GCCCCACCAGCTTTTCTG
1 GCCCCACCAGCTTTTCTG
*
26555588 GCCCCACCTGCTTTTCTG
1 GCCCCACCAGCTTTTCTG
26555606 TATTCAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.08, C:0.44, G:0.17, T:0.31
Consensus pattern (18 bp):
GCCCCACCAGCTTTTCTG
Found at i:26555702 original size:26 final size:26
Alignment explanation
Indices: 26555669--26555719 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
26555659 CTTCTGTACG
26555669 TTTTGAACGTTAAGTCTTGGTCTTTT
1 TTTTGAACGTTAAGTCTTGGTCTTTT
26555695 TTTTGAACGTTAAGTCTTGGTCTTT
1 TTTTGAACGTTAAGTCTTGGTCTTT
26555720 ATTAAATACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.12, G:0.20, T:0.53
Consensus pattern (26 bp):
TTTTGAACGTTAAGTCTTGGTCTTTT
Found at i:26555817 original size:16 final size:16
Alignment explanation
Indices: 26555796--26555836 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
26555786 ATATAATAGG
*
26555796 ATGATATAAAATAAAT
1 ATGATATAAAATAAAA
26555812 ATGATATAAAATAAAA
1 ATGATATAAAATAAAA
*
26555828 ATAATATAA
1 ATGATATAA
26555837 TTTAAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (16 bp):
ATGATATAAAATAAAA
Found at i:26555827 original size:21 final size:21
Alignment explanation
Indices: 26555803--26555844 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26555793 AGGATGATAT
*
26555803 AAAATAAATATGATATAAAATA
1 AAAAT-AATATAATATAAAATA
*
26555825 AAAATAATATAATTTAAAAT
1 AAAATAATATAATATAAAAT
26555845 TTTAATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAATAATATAATATAAAATA
Found at i:26555918 original size:29 final size:29
Alignment explanation
Indices: 26555866--26555957 Score: 91
Period size: 29 Copynumber: 3.1 Consensus size: 29
26555856 TTATATAAAT
*
26555866 TTAAAA-AAATTAAA-AAATATATTTTATA
1 TTAAAATAAATTAAATATATA-ATTTTATA
*
26555894 TTAACATAAATTAAATATATAATTTT-TA
1 TTAAAATAAATTAAATATATAATTTTATA
26555922 TATAAAATATAATATAAATATATAAATTTTAATA
1 T-TAAAATA-AAT-TAAATATAT-AATTTT-ATA
26555956 TT
1 TT
26555958 TTACATTATA
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
28 8 0.15
29 19 0.36
30 7 0.13
31 9 0.17
32 6 0.11
33 1 0.02
34 3 0.06
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (29 bp):
TTAAAATAAATTAAATATATAATTTTATA
Found at i:26555943 original size:31 final size:30
Alignment explanation
Indices: 26555866--26555957 Score: 100
Period size: 31 Copynumber: 3.1 Consensus size: 30
26555856 TTATATAAAT
* *
26555866 TTAAAA-AAATTAAA-AAATATATTTTATA
1 TTAAAATAAATTAAATATATAAATTTTATA
* *
26555894 TTAACATAAATTAAATATATAATTTTTATA
1 TTAAAATAAATTAAATATATAAATTTTATA
26555924 -TAAAATATAATATAAATATATAAATTTTAATA
1 TTAAAATA-AAT-TAAATATATAAATTTT-ATA
26555956 TT
1 TT
26555958 TTACATTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
28 5 0.10
29 14 0.27
30 14 0.27
31 15 0.29
32 3 0.06
33 1 0.02
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (30 bp):
TTAAAATAAATTAAATATATAAATTTTATA
Found at i:26558110 original size:12 final size:12
Alignment explanation
Indices: 26558081--26558115 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
26558071 TTTGTGAATT
*
26558081 TTTTAATAATAA
1 TTTTAATAAAAA
26558093 -TTTAATAAAAA
1 TTTTAATAAAAA
26558104 TTTTAATAAAAA
1 TTTTAATAAAAA
26558116 ATTCAAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TTTTAATAAAAA
Found at i:26558338 original size:19 final size:21
Alignment explanation
Indices: 26558304--26558343 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
26558294 TAACGAGATC
26558304 TTTTAATTTATCAATTTTTAT
1 TTTTAATTTATCAATTTTTAT
26558325 TTTTAA-TT-TCAATTTTTAT
1 TTTTAATTTATCAATTTTTAT
26558344 CTAATCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.58
20 2 0.11
21 6 0.32
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTAATTTATCAATTTTTAT
Found at i:26559733 original size:18 final size:20
Alignment explanation
Indices: 26559692--26559736 Score: 67
Period size: 18 Copynumber: 2.4 Consensus size: 20
26559682 TAGATAATTT
*
26559692 AAAATATAATATGATGATAT
1 AAAATATAATATGATGATAA
26559712 AAAATA-AATATGAT-ATAA
1 AAAATATAATATGATGATAA
26559730 AAAATAT
1 AAAATAT
26559737 GATAATAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 8 0.35
20 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (20 bp):
AAAATATAATATGATGATAA
Found at i:26559736 original size:14 final size:16
Alignment explanation
Indices: 26559705--26559740 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
26559695 ATATAATATG
26559705 ATGATATAAAATAAAT
1 ATGATATAAAATAAAT
26559721 ATGATAT-AAA-AAAT
1 ATGATATAAAATAAAT
26559735 ATGATA
1 ATGATA
26559741 ATAATATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.50
15 3 0.15
16 7 0.35
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (16 bp):
ATGATATAAAATAAAT
Found at i:26559847 original size:26 final size:26
Alignment explanation
Indices: 26559815--26559873 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
26559805 TATTTTTCTA
* * * *
26559815 TTAATATAAATTATGATATATAATTT
1 TTAATATAAAATATAAAATATAAATT
*
26559841 TTTATATAAAATATAAAATATAAATT
1 TTAATATAAAATATAAAATATAAATT
26559867 TTAATAT
1 TTAATAT
26559874 GTTACACTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (26 bp):
TTAATATAAAATATAAAATATAAATT
Found at i:26590210 original size:13 final size:13
Alignment explanation
Indices: 26590192--26590234 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
26590182 AAATTAATTC
26590192 ATATTTATAAAAT
1 ATATTTATAAAAT
26590205 ATATTTTATAAAAT
1 ATA-TTTATAAAAT
*
26590219 A-AATTATAAAAT
1 ATATTTATAAAAT
26590231 -TATT
1 ATATT
26590235 ATCAAAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 11 0.42
13 4 0.15
14 11 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATTTATAAAAT
Found at i:26590564 original size:30 final size:29
Alignment explanation
Indices: 26590543--26590638 Score: 131
Period size: 29 Copynumber: 3.2 Consensus size: 29
26590533 TTTATATTTT
26590543 TTATTTGT-AAAAAATTAATTTTTATAATA
1 TTATTT-TAAAAAAATTAATTTTTATAATA
*
26590572 TTATTTTAAAAAAATTAATTCTTATAATA
1 TTATTTTAAAAAAATTAATTTTTATAATA
* *
26590601 TTATTTTTTAAAAAAATTAATCTCTATAATA
1 TTA--TTTTAAAAAAATTAATTTTTATAATA
26590632 TTATTTT
1 TTATTTT
26590639 TTAAGAAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
28 1 0.02
29 33 0.55
31 26 0.43
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (29 bp):
TTATTTTAAAAAAATTAATTTTTATAATA
Found at i:26590576 original size:29 final size:31
Alignment explanation
Indices: 26590551--26590663 Score: 151
Period size: 31 Copynumber: 3.7 Consensus size: 31
26590541 TTTTATTTGT
26590551 AAAAAATTAATTTTTATAATATTA--TTTTA
1 AAAAAATTAATTTTTATAATATTATTTTTTA
*
26590580 AAAAAATTAATTCTTATAATATTATTTTTTA
1 AAAAAATTAATTTTTATAATATTATTTTTTA
* *
26590611 AAAAAATTAATCTCTATAATATTATTTTTTA
1 AAAAAATTAATTTTTATAATATTATTTTTTA
* * *
26590642 AGAAATTTAGTTTTTAT-ATATT
1 AAAAAATTAATTTTTATAATATT
26590664 GTTAACAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
29 23 0.32
30 5 0.07
31 45 0.62
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (31 bp):
AAAAAATTAATTTTTATAATATTATTTTTTA
Found at i:26591191 original size:25 final size:25
Alignment explanation
Indices: 26591154--26591221 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
26591144 ATATAATAAT
*
26591154 TATTAATATTTTAAATTATATTATTTT
1 TATT-ATATTTTAAATTATATTA-TTA
* *
26591181 TGTTATA-TTTATATTATATTATTA
1 TATTATATTTTAAATTATATTATTA
26591205 TATTATATTTTAAATTA
1 TATTATATTTTAAATTA
26591222 CTATATCTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 8 0.23
25 21 0.60
26 3 0.09
27 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (25 bp):
TATTATATTTTAAATTATATTATTA
Found at i:26591197 original size:11 final size:11
Alignment explanation
Indices: 26591169--26591214 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 11
26591159 ATATTTTAAA
26591169 TTATATTAT-T
1 TTATATTATAT
*
26591179 TT-TGTTATAT
1 TTATATTATAT
26591189 TTATATTATATT
1 TTATATTATA-T
26591201 ATTATATTATAT
1 -TTATATTATAT
26591213 TT
1 TT
26591215 TAAATTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
9 5 0.17
10 5 0.17
11 8 0.27
12 2 0.07
13 10 0.33
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (11 bp):
TTATATTATAT
Found at i:26591226 original size:20 final size:19
Alignment explanation
Indices: 26591184--26591227 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
26591174 TTATTTTTGT
* *
26591184 TATATTTATATTATATTAT
1 TATATTTATATTAAATTAC
*
26591203 TATATTATATTTTAAATTAC
1 TATATT-TATATTAAATTAC
26591223 TATAT
1 TATAT
26591228 CTAGCCATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TATATTTATATTAAATTAC
Found at i:26592027 original size:23 final size:24
Alignment explanation
Indices: 26591990--26592047 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 24
26591980 AATTTTATCA
26591990 ATATAATATATATAAATATA-AAATT
1 ATATAA-ATATATAAA-ATACAAATT
26592015 ATATAAATA-ATAAAATACAAATT
1 ATATAAATATATAAAATACAAATT
* *
26592038 TTATTAATAT
1 ATATAAATAT
26592048 TTATTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
22 3 0.10
23 17 0.59
24 3 0.10
25 6 0.21
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATAAATATATAAAATACAAATT
Found at i:26592572 original size:11 final size:11
Alignment explanation
Indices: 26592556--26592588 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
26592546 TATGATAATT
26592556 TAATATAAAAA
1 TAATATAAAAA
26592567 TAATATTAAAAA
1 TAATA-TAAAAA
26592579 -AATATAAAAA
1 TAATATAAAAA
26592589 CATAAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.29
11 9 0.43
12 6 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAATATAAAAA
Found at i:26592744 original size:2 final size:2
Alignment explanation
Indices: 26592737--26592762 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26592727 CCTGATACAT
26592737 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
26592763 AAATCAGAAC
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):
TA
Found at i:26593045 original size:19 final size:20
Alignment explanation
Indices: 26593021--26593063 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
26593011 AAAAAAAAAC
*
26593021 TTTTCTCTTTCTCTCTCT-G
1 TTTTCTCTGTCTCTCTCTCG
*
26593040 TTTTCTCTGTCTTTCTCTCG
1 TTTTCTCTGTCTCTCTCTCG
26593060 TTTT
1 TTTT
26593064 AACATTTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.00, C:0.28, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTCTCTGTCTCTCTCTCG
Found at i:26603395 original size:44 final size:44
Alignment explanation
Indices: 26603345--26603434 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
26603335 AATCCATAGA
26603345 TATCCTTCTTTGCCATTTAAATCCGCCATTGATATCAATTTTAT
1 TATCCTTCTTTGCCATTTAAATCCGCCATTGATATCAATTTTAT
* *
26603389 TATCCTTCTTTGCCATTTAACTCCTCCATTGATATCAATTTTAT
1 TATCCTTCTTTGCCATTTAAATCCGCCATTGATATCAATTTTAT
26603433 TA
1 TA
26603435 CCATAAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.24, C:0.23, G:0.06, T:0.47
Consensus pattern (44 bp):
TATCCTTCTTTGCCATTTAAATCCGCCATTGATATCAATTTTAT
Found at i:26608790 original size:28 final size:27
Alignment explanation
Indices: 26608738--26608790 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
26608728 TCTCCTTTCT
* **
26608738 CTTTTTTTTTTCTTTACTTTTTTTTGG
1 CTTTTTTTTTTCTCTACTTGGTTTTGG
26608765 CTTTTTTTCTTTCTCTACTTGGTTTT
1 CTTTTTTT-TTTCTCTACTTGGTTTT
26608791 TGACACACCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.04, C:0.15, G:0.08, T:0.74
Consensus pattern (27 bp):
CTTTTTTTTTTCTCTACTTGGTTTTGG
Found at i:26614148 original size:31 final size:29
Alignment explanation
Indices: 26614110--26614171 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
26614100 AAACCTGACA
* *
26614110 ATTTGTATCATTATCTTATGTAAAATATTAT
1 ATTTGTATC-GTATCTTATATAAAA-ATTAT
*
26614141 ATTTGTATCGTATTTTATATAAAAATTAT
1 ATTTGTATCGTATCTTATATAAAAATTAT
26614170 AT
1 AT
26614172 GTCATAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 7 0.25
30 12 0.43
31 9 0.32
ACGTcount: A:0.37, C:0.05, G:0.06, T:0.52
Consensus pattern (29 bp):
ATTTGTATCGTATCTTATATAAAAATTAT
Found at i:26614674 original size:16 final size:16
Alignment explanation
Indices: 26614653--26614683 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26614643 ATATATATAG
26614653 ACACACACATACACAT
1 ACACACACATACACAT
*
26614669 ACACACGCATACACA
1 ACACACACATACACA
26614684 CATGGAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.39, G:0.03, T:0.10
Consensus pattern (16 bp):
ACACACACATACACAT
Found at i:26621261 original size:13 final size:13
Alignment explanation
Indices: 26621243--26621267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26621233 ATTATAAATT
26621243 TTTAAAAAATAAA
1 TTTAAAAAATAAA
26621256 TTTAAAAAATAA
1 TTTAAAAAATAA
26621268 TAATAATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTAAAAAATAAA
Found at i:26621700 original size:1 final size:1
Alignment explanation
Indices: 26621694--26621722 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
26621684 TGACTAAATG
26621694 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
26621723 CCCACACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:26628794 original size:30 final size:30
Alignment explanation
Indices: 26628758--26628821 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 30
26628748 TAAAGTAAGA
26628758 CTTTATAGGTTGAACCTCCATGC-CACGTTT
1 CTTTATAGGTTG-ACCTCCATGCACACGTTT
*
26628788 CTTTATAGGTTGACCTCCATGCACATGTTT
1 CTTTATAGGTTGACCTCCATGCACACGTTT
26628818 CTTT
1 CTTT
26628822 TATTTCGAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.41
Consensus pattern (30 bp):
CTTTATAGGTTGACCTCCATGCACACGTTT
Found at i:26629225 original size:18 final size:19
Alignment explanation
Indices: 26629202--26629239 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
26629192 TGGTAAGATG
*
26629202 AAAAAAATTAAA-GAAAAA
1 AAAAAAATAAAACGAAAAA
*
26629220 AAAAAAGTAAAACGAAAAA
1 AAAAAAATAAAACGAAAAA
26629239 A
1 A
26629240 GGAAAAAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (19 bp):
AAAAAAATAAAACGAAAAA
Found at i:26629493 original size:28 final size:28
Alignment explanation
Indices: 26629462--26629519 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
26629452 TATATAACTC
26629462 TAAT-TTTTTATTAA-ATTAAAATATTAAA
1 TAATATTTTTATTAATA-TAAAATA-TAAA
26629490 TAATATTTTTATTAATATAAAATATAAA
1 TAATATTTTTATTAATATAAAATATAAA
26629518 TA
1 TA
26629520 TAAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 10 0.36
29 17 0.61
30 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
TAATATTTTTATTAATATAAAATATAAA
Found at i:26629811 original size:13 final size:12
Alignment explanation
Indices: 26629793--26629826 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
26629783 ATGGCATATG
26629793 AATATATTAAATT
1 AATATATTAAA-T
26629806 AATATATTAAAT
1 AATATATTAAAT
26629818 AATAATATT
1 AAT-ATATT
26629827 TTTAATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AATATATTAAAT
Found at i:26630033 original size:27 final size:28
Alignment explanation
Indices: 26629999--26630056 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
26629989 TGTATCGAAT
* *
26629999 ATAAATTATTTTATTATTTTTA-TTTTA
1 ATAAATTATTTTATTATATTCATTTTTA
26630026 ATAAATTATTTTATTATATTCATTTTTA
1 ATAAATTATTTTATTATATTCATTTTTA
26630054 ATA
1 ATA
26630057 TGACTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 20 0.71
28 8 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (28 bp):
ATAAATTATTTTATTATATTCATTTTTA
Found at i:26630211 original size:15 final size:15
Alignment explanation
Indices: 26630179--26630221 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
26630169 CTCAATTGAT
* *
26630179 TTTTTTATAAAAT-T
1 TTTTTAATAAAATAA
26630193 TTTTTAATAAAATAA
1 TTTTTAATAAAATAA
26630208 TTTTTAA-AAAATAA
1 TTTTTAATAAAATAA
26630222 GTTAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 19 0.73
15 7 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTTTAATAAAATAA
Found at i:26630287 original size:14 final size:14
Alignment explanation
Indices: 26630268--26630294 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
26630258 AATAATAAAG
26630268 TAAAATTTTAAAAA
1 TAAAATTTTAAAAA
26630282 TAAAATTTTAAAA
1 TAAAATTTTAAAA
26630295 GGAGGAAGAA
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):
TAAAATTTTAAAAA
Found at i:26630616 original size:33 final size:31
Alignment explanation
Indices: 26630579--26630647 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 31
26630569 TAAATGGACG
*
26630579 ATAAAATTAATTATGATGA-AATTTAAATTAATA
1 ATAAAATT-ATTATAATGATAA-TTAAA-TAATA
*
26630612 ATAAAAATTATTATAATTATAATTAAATAATA
1 AT-AAAATTATTATAATGATAATTAAATAATA
26630644 ATAA
1 ATAA
26630648 TAAATTATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
31 2 0.06
32 7 0.22
33 15 0.47
34 8 0.25
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (31 bp):
ATAAAATTATTATAATGATAATTAAATAATA
Found at i:26630653 original size:33 final size:32
Alignment explanation
Indices: 26630601--26630667 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 32
26630591 ATGATGAAAT
26630601 TTAAATTAATAATAAAAATTAT-TATAATTATAA
1 TTAAATTAATAATAAAAATTATGT-TAATT-TAA
26630634 TTAAA-TAATAATAATAAATTATGTTAATTTAA
1 TTAAATTAATAATAA-AAATTATGTTAATTTAA
26630666 TT
1 TT
26630668 TTATTTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 14 0.44
33 17 0.53
34 1 0.03
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (32 bp):
TTAAATTAATAATAAAAATTATGTTAATTTAA
Found at i:26637043 original size:30 final size:30
Alignment explanation
Indices: 26637007--26637070 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
26636997 TAAAGTAAGA
*
26637007 CTTTATAGGTTGACCTCCATGCCCACGTTT
1 CTTTATAGGTTGACCTCCATGCACACGTTT
*
26637037 CTTTATAGGTTGACCTCCATGCACATGTTT
1 CTTTATAGGTTGACCTCCATGCACACGTTT
26637067 CTTT
1 CTTT
26637071 TATTTCGAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.17, C:0.27, G:0.16, T:0.41
Consensus pattern (30 bp):
CTTTATAGGTTGACCTCCATGCACACGTTT
Found at i:26638028 original size:2 final size:2
Alignment explanation
Indices: 26638023--26638047 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26638013 TTAAAACAAA
26638023 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
26638048 AAAGAAAATA
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:26639077 original size:44 final size:44
Alignment explanation
Indices: 26639009--26639097 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
26638999 GAGGCCATTG
* *
26639009 GCCATGTAGATTATGCACCGATATCTACTATATCTGCTCCTTCT
1 GCCACGTAGATTATGCACCAATATCTACTATATCTGCTCCTTCT
*
26639053 GCCACGTAGATTGTGCACCAATATCTACTATATCTGCTCCTTCT
1 GCCACGTAGATTATGCACCAATATCTACTATATCTGCTCCTTCT
26639097 G
1 G
26639098 AAACCATCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (44 bp):
GCCACGTAGATTATGCACCAATATCTACTATATCTGCTCCTTCT
Found at i:26646067 original size:13 final size:13
Alignment explanation
Indices: 26646049--26646076 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
26646039 ATCACAAGAC
26646049 CAAAAAAACCAAA
1 CAAAAAAACCAAA
26646062 CAAAAAAACCAAA
1 CAAAAAAACCAAA
26646075 CA
1 CA
26646077 TGGGAAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.75, C:0.25, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAAAAAACCAAA
Found at i:26647886 original size:23 final size:23
Alignment explanation
Indices: 26647860--26647903 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
26647850 TAATTTTTAT
26647860 TTAT-TTTATATATTATATAAATA
1 TTATATTT-TATATTATATAAATA
26647883 TTATATTTTATATTATATAAA
1 TTATATTTTATATTATATAAA
26647904 AATATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATATTTTATATTATATAAATA
Found at i:26647892 original size:34 final size:34
Alignment explanation
Indices: 26647814--26647898 Score: 84
Period size: 34 Copynumber: 2.4 Consensus size: 34
26647804 TAATAATTTA
*
26647814 TATATTTATATTTTATTGTATAAATTATTAATTAAT
1 TATATTT-TA-TTTATTGTATAAATTATTAAATAAT
* *
26647850 TA-ATTTTTATTTATTTTATATATTATATAAAT-AT
1 TATA-TTTTATTTATTGTATAAATTAT-TAAATAAT
26647884 TATATTTTATATTAT
1 TATATTTTAT-TTAT
26647899 ATAAAAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
34 25 0.60
35 12 0.29
36 5 0.12
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TATATTTTATTTATTGTATAAATTATTAAATAAT
Found at i:26647906 original size:25 final size:24
Alignment explanation
Indices: 26647857--26647908 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
26647847 AATTAATTTT
*
26647857 TATTTATTTTATATATTATATAAA
1 TATTTATTTTATATATTATAAAAA
26647881 TATTATATTTTATAT-TATATAAAAA
1 TATT-TATTTTATATAT-TATAAAAA
26647906 TAT
1 TAT
26647909 AAAATATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TATTTATTTTATATATTATAAAAA
Found at i:26648990 original size:24 final size:24
Alignment explanation
Indices: 26648963--26649008 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
26648953 TATAATAATA
26648963 TAAAAATATAAAAT-ATATTATTCT
1 TAAAAAT-TAAAATCATATTATTCT
*
26648987 TAAAAATTTAAATCATATTATT
1 TAAAAATTAAAATCATATTATT
26649009 TTTTTTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TAAAAATTAAAATCATATTATTCT
Found at i:26657897 original size:6 final size:6
Alignment explanation
Indices: 26657888--26657916 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
26657878 TTTGCGGGAA
26657888 TCGGAG TCGGAG TCGGAG TCGGAG TCGGA
1 TCGGAG TCGGAG TCGGAG TCGGAG TCGGA
26657917 TCCAGAGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.17, G:0.48, T:0.17
Consensus pattern (6 bp):
TCGGAG
Found at i:26659694 original size:2 final size:2
Alignment explanation
Indices: 26659687--26659718 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
26659677 AGATTATGGA
*
26659687 AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26659719 TCCATAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:26661098 original size:18 final size:17
Alignment explanation
Indices: 26661077--26661129 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 17
26661067 ATATTATTTT
26661077 TTAAATATAAATATAAAA
1 TTAAATATAAATAT-AAA
26661095 TT-AA-ATAAATAT-AA
1 TTAAATATAAATATAAA
*
26661109 -TAAATATAATTATATAA
1 TTAAATATAAATATA-AA
26661126 TTAA
1 TTAA
26661130 TTAAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
13 1 0.03
14 4 0.14
15 7 0.24
16 8 0.28
17 4 0.14
18 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAATATAAATATAAA
Found at i:26661758 original size:30 final size:32
Alignment explanation
Indices: 26661698--26661765 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
26661688 TAAATTAAAA
26661698 AATTTGATTTAATTAACAAATATAAAATAATAT
1 AATTTGATTTAATT-ACAAATATAAAATAATAT
*
26661731 AATTTGA-TTAATT-CAAACTAT-AAATAATTT
1 AATTTGATTTAATTACAAA-TATAAAATAATAT
26661761 AATTT
1 AATTT
26661766 AAAATTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
30 17 0.52
31 3 0.09
32 6 0.18
33 7 0.21
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (32 bp):
AATTTGATTTAATTACAAATATAAAATAATAT
Found at i:26666725 original size:15 final size:15
Alignment explanation
Indices: 26666702--26666768 Score: 57
Period size: 14 Copynumber: 4.5 Consensus size: 15
26666692 TCTGATTTAA
*
26666702 TATTATATAAATATT
1 TATTTTATAAATATT
*
26666717 TATTTTAT-AATTTT
1 TATTTTATAAATATT
* *
26666731 TAATTTATATATATT
1 TATTTTATAAATATT
* *
26666746 TATCTTTAAAAATAAT
1 TAT-TTTATAAATATT
26666762 T-TTTTAT
1 TATTTTAT
26666769 TAATTTTGGA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
14 16 0.40
15 14 0.35
16 10 0.25
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTTATAAATATT
Found at i:26667433 original size:24 final size:24
Alignment explanation
Indices: 26667379--26667445 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
26667369 AAGTTTCCCT
* *
26667379 TAAATATGATAT-TTATATAGGATT
1 TAAATTTGATATATTAT-TAGGATA
* *
26667403 TATATTTGATATATTATTAGTATA
1 TAAATTTGATATATTATTAGGATA
*
26667427 TAAATTTTATATATTATTA
1 TAAATTTGATATATTATTA
26667446 ATAAATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 32 0.89
25 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (24 bp):
TAAATTTGATATATTATTAGGATA
Found at i:26667501 original size:31 final size:27
Alignment explanation
Indices: 26667434--26667501 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 27
26667424 ATATAAATTT
*
26667434 TATATATTATTAATAAATTAAATGGTAA
1 TATAT-TTATTAATAAATTAAATGATAA
*
26667462 TA-ATTTATTAATAAAATATATATGATAA
1 TATATTTATTAAT-AAAT-TAAATGATAA
26667490 TAATATCTTATT
1 T-ATAT-TTATT
26667502 TTTAATTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
26 8 0.24
27 6 0.18
28 11 0.33
29 1 0.03
30 2 0.06
31 5 0.15
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (27 bp):
TATATTTATTAATAAATTAAATGATAA
Found at i:26667536 original size:21 final size:21
Alignment explanation
Indices: 26667487--26667545 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 21
26667477 ATATATATGA
*
26667487 TAATAATATCTTATTTTTAATT
1 TAAT-ATATCTTATTTTAAATT
26667509 TATATATAT-TTATTTTAAATAT
1 TA-ATATATCTTATTTTAAAT-T
*
26667531 TAATATCTACTTATT
1 TAATATAT-CTTATT
26667546 AATAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 15 0.48
22 9 0.29
23 7 0.23
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
TAATATATCTTATTTTAAATT
Found at i:26667544 original size:23 final size:21
Alignment explanation
Indices: 26667492--26667545 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
26667482 TATGATAATA
*
26667492 ATAT-CTTATTTTTAATTTAT
1 ATATACTTATTTTAAATTTAT
*
26667512 ATATATTTATTTTAAATATTAAT
1 ATATACTTATTTTAAAT-TT-AT
*
26667535 ATCTACTTATT
1 ATATACTTATT
26667546 AATAAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 4 0.15
21 10 0.37
22 2 0.07
23 11 0.41
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATACTTATTTTAAATTTAT
Found at i:26668310 original size:20 final size:20
Alignment explanation
Indices: 26668282--26668327 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
26668272 TGTTATTTAT
26668282 AATAAAATAAAAATTTTAAA
1 AATAAAATAAAAATTTTAAA
* *
26668302 AATATAATAATAATTTTAAA
1 AATAAAATAAAAATTTTAAA
*
26668322 TATAAA
1 AATAAA
26668328 TTTAAGACAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AATAAAATAAAAATTTTAAA
Found at i:26670209 original size:33 final size:32
Alignment explanation
Indices: 26670142--26670221 Score: 110
Period size: 33 Copynumber: 2.5 Consensus size: 32
26670132 ATTATACGTA
* *
26670142 TTTA-ATAAAATAAAAATAAAAATTTAATATT
1 TTTATATAATATAAATATAAAAATTTAATATT
26670173 TTTATATTAATATAAATATATAAAATTTAATA-T
1 TTTATA-TAATATAAATATA-AAAATTTAATATT
26670206 TTTATATAATATAAAT
1 TTTATATAATATAAAT
26670222 TCATGAATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
31 4 0.09
32 11 0.25
33 18 0.41
34 11 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (32 bp):
TTTATATAATATAAATATAAAAATTTAATATT
Found at i:26674240 original size:42 final size:42
Alignment explanation
Indices: 26674181--26674260 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
26674171 TATACATACA
* * *
26674181 TATAAGATACAAGTATATATCGAACACGTATATTTATCTACG
1 TATAAGATACAAATATATATCAAACACGTATATCTATCTACG
26674223 TATAAGATACAAATATATATCAAACACGTATATCTATC
1 TATAAGATACAAATATATATCAAACACGTATATCTATC
26674261 AGACATGCAT
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:0.44, C:0.15, G:0.09, T:0.33
Consensus pattern (42 bp):
TATAAGATACAAATATATATCAAACACGTATATCTATCTACG
Found at i:26682770 original size:4 final size:4
Alignment explanation
Indices: 26682761--26682789 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
26682751 TAGTATAATT
26682761 ATAA ATAA AT-A ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT
26682790 TTTAAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAA
Found at i:26683851 original size:15 final size:16
Alignment explanation
Indices: 26683827--26683856 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
26683817 TAAAATTTGT
26683827 TTTTTATGTTCATTTA
1 TTTTTATGTTCATTTA
26683843 TTTTT-TGTTCATTT
1 TTTTTATGTTCATTT
26683857 TTAATTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (16 bp):
TTTTTATGTTCATTTA
Found at i:26683971 original size:26 final size:27
Alignment explanation
Indices: 26683924--26683978 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
26683914 GATAAATATA
*
26683924 TATATTTTATTTATCACTATATTCATT
1 TATATTTTATTTATAACTATATTCATT
*
26683951 TATA-TTTATTTATGAAC-ATATTCTTT
1 TATATTTTATTTAT-AACTATATTCATT
26683977 TA
1 TA
26683979 ATGTTCATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (27 bp):
TATATTTTATTTATAACTATATTCATT
Found at i:26684244 original size:12 final size:12
Alignment explanation
Indices: 26684229--26684277 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
26684219 AAAAATAATA
26684229 ATAATTATTATT
1 ATAATTATTATT
**
26684241 ATAATTACAATT
1 ATAATTATTATT
* **
26684253 AAAAAAATTATT
1 ATAATTATTATT
26684265 ATAATTATTATT
1 ATAATTATTATT
26684277 A
1 A
26684278 AATAAATTTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
ATAATTATTATT
Found at i:26684266 original size:24 final size:24
Alignment explanation
Indices: 26684235--26684285 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
26684225 AATAATAATT
26684235 ATTATTATAATTACAATTAAAAAA
1 ATTATTATAATTACAATTAAAAAA
** *
26684259 ATTATTATAATTATTATTAAATAA
1 ATTATTATAATTACAATTAAAAAA
26684283 ATT
1 ATT
26684286 TATATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
ATTATTATAATTACAATTAAAAAA
Found at i:26684310 original size:15 final size:14
Alignment explanation
Indices: 26684267--26684308 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 14
26684257 AAATTATTAT
26684267 AATTATTATTAAATA
1 AATT-TTATTAAATA
26684282 AATTTATATTAAATA
1 AATTT-TATTAAATA
26684297 AATTTTATTAAA
1 AATTTTATTAAA
26684309 ATTAACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.31
15 18 0.69
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTTTATTAAATA
Found at i:26685129 original size:13 final size:12
Alignment explanation
Indices: 26685050--26685131 Score: 62
Period size: 12 Copynumber: 6.8 Consensus size: 12
26685040 TTTAAATATG
26685050 ATAAATAATATAAT
1 ATAAATAA-A-AAT
26685064 AT-AA-AAAAAT
1 ATAAATAAAAAT
26685074 ATAAATAAAAGAT
1 ATAAATAAAA-AT
*
26685087 ATAAA-AATAAT
1 ATAAATAAAAAT
* *
26685098 ATAATTTAAAAT
1 ATAAATAAAAAT
* *
26685110 TTTAATAAAAATT
1 ATAAATAAAAA-T
26685123 ATAAATAAA
1 ATAAATAAA
26685132 TTTAATCAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
10 5 0.09
11 9 0.17
12 20 0.38
13 17 0.32
14 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (12 bp):
ATAAATAAAAAT
Found at i:26689254 original size:10 final size:11
Alignment explanation
Indices: 26689216--26689256 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
26689206 AAAATATATT
26689216 TAAAATTATAA
1 TAAAATTATAA
26689227 TAATAATTATAA
1 TAA-AATTATAA
26689239 -ATAAATT-TAA
1 TA-AAATTATAA
26689249 TAAAATTA
1 TAAAATTA
26689257 AAAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
10 8 0.31
11 9 0.35
12 9 0.35
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAAATTATAA
Found at i:26689268 original size:22 final size:22
Alignment explanation
Indices: 26689218--26689260 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
26689208 AATATATTTA
*
26689218 AAATTATAATAATAATTATAAAT
1 AAATT-TAATAATAATTAAAAAT
26689241 AAATTTAATAA-AATTAAAAA
1 AAATTTAATAATAATTAAAAA
26689261 ATATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATTTAATAATAATTAAAAAT
Found at i:26690294 original size:9 final size:9
Alignment explanation
Indices: 26690280--26690374 Score: 58
Period size: 9 Copynumber: 10.7 Consensus size: 9
26690270 AGTATTAAAA
26690280 AAAAATTTT
1 AAAAATTTT
26690289 AAAAA---T
1 AAAAATTTT
*
26690295 AAAAGATTTAA
1 AAAA-ATTT-T
26690306 AAAAATTCTT
1 AAAAATT-TT
26690316 -AAAATTTT
1 AAAAATTTT
*
26690324 AAAAA--TA
1 AAAAATTTT
26690331 AAAAATTTT
1 AAAAATTTT
*
26690340 GAAATATTTT
1 -AAAAATTTT
*
26690350 AAACAATTAT
1 AAA-AATTTT
*
26690360 AAAAATTTA
1 AAAAATTTT
26690369 AAAAAT
1 AAAAAT
26690375 GAAATATTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 22
0.68 0.09 0.23
Matches are distributed among these distances:
6 5 0.08
7 7 0.11
8 2 0.03
9 29 0.44
10 18 0.27
11 5 0.08
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
AAAAATTTT
Found at i:26690345 original size:15 final size:16
Alignment explanation
Indices: 26690279--26690339 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 16
26690269 TAGTATTAAA
26690279 AAAAAATTTTAAAAAT
1 AAAAAATTTTAAAAAT
* *
26690295 AAAAGATTTAAAAAAATT
1 AAAAAATTT-TAAAAA-T
**
26690313 CTTAAAATTTTAAAAAT
1 -AAAAAATTTTAAAAAT
26690330 AAAAAATTTT
1 AAAAAATTTT
26690340 GAAATATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
16 16 0.47
17 6 0.18
18 6 0.18
19 6 0.18
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (16 bp):
AAAAAATTTTAAAAAT
Found at i:26690381 original size:35 final size:33
Alignment explanation
Indices: 26690316--26690407 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 33
26690306 AAAAATTCTT
*
26690316 AAAATTTTAAAAATAAAAAATTTTGAAATA-TTTTA
1 AAAATTATAAAAATAAAAAA---TGAAATATTTTTA
26690351 AACAATTATAAAAATTTAAAAAATGAAATATTTTTA
1 AA-AATTATAAAAA--TAAAAAATGAAATATTTTTA
*
26690387 GAAATTATAAAAATAAAAAAT
1 AAAATTATAAAAATAAAAAAT
26690408 TTATGAAAAC
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
33 8 0.16
35 20 0.39
36 16 0.31
38 7 0.14
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (33 bp):
AAAATTATAAAAATAAAAAATGAAATATTTTTA
Found at i:26690424 original size:26 final size:25
Alignment explanation
Indices: 26690356--26690432 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 25
26690346 TTTTAAACAA
* *
26690356 TTATAAAAATTTAAAAAATGAAATAT
1 TTATAAAAA-TTAAAAAATAAAAAAT
* *
26690382 TTTTAGAAATTATAAAAATAAAAAAT
1 TTATAAAAATTA-AAAAATAAAAAAT
*
26690408 TTATGAAAACTTAAAAAATAAAAAA
1 TTAT-AAAAATTAAAAAATAAAAAA
26690433 AAATTAAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
25 3 0.07
26 33 0.79
27 6 0.14
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (25 bp):
TTATAAAAATTAAAAAATAAAAAAT
Found at i:26690594 original size:19 final size:20
Alignment explanation
Indices: 26690562--26690634 Score: 73
Period size: 19 Copynumber: 3.8 Consensus size: 20
26690552 TAAAAAAATC
*
26690562 TAAAA-TCT-AAAATTTTTT
1 TAAAATTCTGAAAATTTTTA
*
26690580 TAAAATT-TGAAAATTTATA
1 TAAAATTCTGAAAATTTTTA
* *
26690599 TAAAATTCTTAAAAATTTTCA
1 TAAAATTC-TGAAAATTTTTA
26690620 -AAAATTCTGAAAATT
1 TAAAATTCTGAAAATT
26690635 AAAAAATTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 6 0.13
19 23 0.51
20 7 0.16
21 9 0.20
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (20 bp):
TAAAATTCTGAAAATTTTTA
Found at i:26690736 original size:28 final size:28
Alignment explanation
Indices: 26690688--26690758 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 28
26690678 ATTGGAAAAT
* *
26690688 AAAAACTTAAAATTTAAATAAAA-AT-TA
1 AAAAAATTAAAATTT-CATAAAATATATA
26690715 AAAAAATCTGAAAATTTCATAAAATATATA
1 AAAAAAT-T-AAAATTTCATAAAATATATA
26690745 AAAAAATTAAAATT
1 AAAAAATTAAAATT
26690759 GTAAGATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
27 6 0.16
28 13 0.34
29 10 0.26
30 9 0.24
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (28 bp):
AAAAAATTAAAATTTCATAAAATATATA
Found at i:26690816 original size:20 final size:20
Alignment explanation
Indices: 26690793--26690837 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
26690783 CTCTTCATAA
26690793 TTTTTAAAAAAAATTTAGAT
1 TTTTTAAAAAAAATTTAGAT
* *
26690813 TTTTTAAAATAATTTTAGAT
1 TTTTTAAAAAAAATTTAGAT
26690833 TTTTT
1 TTTTT
26690838 TTTATTTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTTTAAAAAAAATTTAGAT
Found at i:26700500 original size:12 final size:12
Alignment explanation
Indices: 26700483--26700510 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
26700473 GAGGCCAAGG
26700483 GCTGTTGTTGTT
1 GCTGTTGTTGTT
26700495 GCTGTTGTTGTT
1 GCTGTTGTTGTT
26700507 GCTG
1 GCTG
26700511 CTGCTGCTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.11, G:0.36, T:0.54
Consensus pattern (12 bp):
GCTGTTGTTGTT
Found at i:26700512 original size:3 final size:3
Alignment explanation
Indices: 26700506--26700536 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
26700496 CTGTTGTTGT
*
26700506 TGC TGC TGC TGC TGC TGC TGC TGC TTC TGC T
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC T
26700537 TTGCTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.32, G:0.29, T:0.39
Consensus pattern (3 bp):
TGC
Found at i:26702218 original size:78 final size:77
Alignment explanation
Indices: 26702110--26702336 Score: 204
Period size: 78 Copynumber: 3.0 Consensus size: 77
26702100 GATAAGTATG
* * * * *
26702110 TGAATGTTTACTGCTTCCAGTTTCAACATCAAATTCTAAATGTCTTCTTGAATGCTTACTGCTTC
1 TGAATGTTCACTGCTTTCAGCTTCAACATCAAATTC-AGATGTCTCCTTGAATGCTTACTGCTTC
26702175 CACTAT-CCTCACT
65 CACT-TCCCTCACT
* * *
26702188 TGAATGTTCACTGCTTTCAGCTTCATCATC--A---AGATGTCTGCTTGAATGCTTACTGCCTCC
1 TGAATGTTCACTGCTTTCAGCTTCAACATCAAATTCAGATGTCTCCTTGAATGCTTACTGCTTCC
26702248 ACTTCCCTCACT
66 ACTTCCCTCACT
** * * *
26702260 CAAATG-CCTACTG-TTTCCGCTTCCAAACA-CAAATTCCAGATGTCTCCCTGAATGCTTACTGC
1 TGAATGTTC-ACTGCTTTCAGCTT-C-AACATCAAATT-CAGATGTCTCCTTGAATGCTTACTGC
26702322 TTCCAC-TCCCATCAC
62 TTCCACTTCCC-TCAC
26702337 CAACTTCCTC
Statistics
Matches: 123, Mismatches: 15, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
71 10 0.08
72 46 0.37
73 3 0.02
74 1 0.01
76 1 0.01
77 4 0.03
78 58 0.47
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.35
Consensus pattern (77 bp):
TGAATGTTCACTGCTTTCAGCTTCAACATCAAATTCAGATGTCTCCTTGAATGCTTACTGCTTCC
ACTTCCCTCACT
Found at i:26703573 original size:24 final size:23
Alignment explanation
Indices: 26703529--26703578 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
26703519 ATTTTTATTT
*
26703529 TTAATAAAATTTTTATTATTTTAA
1 TTAATAAAATTTTTA-TATTTAAA
26703553 TTAATAAAATATTTTGA-ATTTAAA
1 TTAATAAAAT-TTTT-ATATTTAAA
26703577 TT
1 TT
26703579 TGAATTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 18 0.78
25 4 0.17
26 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TTAATAAAATTTTTATATTTAAA
Found at i:26703965 original size:25 final size:24
Alignment explanation
Indices: 26703922--26703978 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
26703912 TGATATAACT
26703922 TAAATTTATAATAATAAAAATATA
1 TAAATTTATAATAATAAAAATATA
26703946 TAAATTTAATAA-AATAAAAA-ATA
1 TAAATTT-ATAATAATAAAAATATA
*
26703969 TATATTTATA
1 TAAATTTATA
26703979 TTTTGATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 3 0.10
23 9 0.29
24 15 0.48
25 4 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TAAATTTATAATAATAAAAATATA
Found at i:26711919 original size:24 final size:24
Alignment explanation
Indices: 26711892--26711937 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
26711882 TTTTGAATCA
* *
26711892 TATTATTTTTTTATATCATATTCG
1 TATTATATTATTATATCATATTCG
*
26711916 TATTATATTATTATATTATATT
1 TATTATATTATTATATCATATT
26711938 TTAAATCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (24 bp):
TATTATATTATTATATCATATTCG
Found at i:26714894 original size:43 final size:43
Alignment explanation
Indices: 26714846--26714927 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 43
26714836 ATAATTCGTA
*
26714846 TATTCATATCATGTAAAATATTAAAATTTATGTATTTATGTCG
1 TATTCATATCACGTAAAATATTAAAATTTATGTATTTATGTCG
26714889 TATTCATATCACGTAAAATATTAAAATTTATGTATTTAT
1 TATTCATATCACGTAAAATATTAAAATTTATGTATTTAT
26714928 ATCATATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (43 bp):
TATTCATATCACGTAAAATATTAAAATTTATGTATTTATGTCG
Found at i:26714955 original size:14 final size:15
Alignment explanation
Indices: 26714931--26714982 Score: 52
Period size: 14 Copynumber: 3.3 Consensus size: 15
26714921 TATTTATATC
*
26714931 ATATTTTATATGAAA
1 ATATATTATATGAAA
*
26714946 AT-TATTATATCATAA
1 ATATATTATATGA-AA
26714961 TATATATTGATATGAAA
1 -ATATATT-ATATGAAA
26714978 ATATA
1 ATATA
26714983 ACATATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
14 8 0.27
15 4 0.13
16 7 0.23
17 6 0.20
18 5 0.17
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (15 bp):
ATATATTATATGAAA
Found at i:26715061 original size:11 final size:11
Alignment explanation
Indices: 26715042--26715085 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
26715032 TTTTAAACTG
26715042 TATTATATTTA
1 TATTATATTTA
*
26715053 TATTTTATTTTTA
1 TA--TTATATTTA
*
26715066 TATTATAATTA
1 TATTATATTTA
26715077 TATTATATT
1 TATTATATT
26715086 ATTGTATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
11 17 0.63
13 10 0.37
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATTATATTTA
Found at i:26715069 original size:24 final size:24
Alignment explanation
Indices: 26715042--26715099 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
26715032 TTTTAAACTG
* *
26715042 TATTATATTTATATTTTATTTTTA
1 TATTATATTTATATTATATTATTA
* *
26715066 TATTATAATTATATTATATTATTG
1 TATTATATTTATATTATATTATTA
*
26715090 TATCATATTT
1 TATTATATTT
26715100 TAAATTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
TATTATATTTATATTATATTATTA
Found at i:26715071 original size:5 final size:5
Alignment explanation
Indices: 26715042--26715087 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
26715032 TTTTAAACTG
*
26715042 TATTA TATTTA TATTT TATT- T-TTA TATTA TAATTA TATTA TATTA T
1 TATTA TA-TTA TATTA TATTA TATTA TATTA T-ATTA TATTA TATTA T
26715088 TGTATCATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 22 0.61
6 10 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (5 bp):
TATTA
Found at i:26719690 original size:152 final size:152
Alignment explanation
Indices: 26719482--26719787 Score: 447
Period size: 152 Copynumber: 2.0 Consensus size: 152
26719472 TAAAGATGAG
*
26719482 TTTCATTCAAGTAGTACTAAATTAATAGCTAGTTTGAATCTTGAGCTTGAGCAACTTGATGCCAA
1 TTTCATTCAAGTAGTACTAAATTAACAGCTAGTTTGAATCTTGAGCTTGAGCAACTTGATGCCAA
26719547 GATTGCATTCTTGCATGGTGACTTGCA-GAAGGACATTTATATGAATCAACCTAAAAATTTTGAA
66 GATTGCATTCTTGCATGGTGACTTGCAGGAA-GACATTTATATGAATCAACCTAAAAATTTTGAA
*
26719611 GTAAAAA-AAAATAGCACTTAGT
130 GTAAAAAGAAAAGAGCACTTAGT
* * * *
26719633 TTTCATTCGAGTAGTACTAGAATTAACAGCTAGTTTGAATTTTGAGCTTG-GATAACTTGATGTC
1 TTTCATTCAAGTAGTACTA-AATTAACAGCTAGTTTGAATCTTGAGCTTGAG-CAACTTGATGCC
* * * **
26719697 AAGATTGCATTCTTGCATGGTGACTTGCAGGAAGACATTTATATGAATTAGCCTGAAGGTTTTGA
64 AAGATTGCATTCTTGCATGGTGACTTGCAGGAAGACATTTATATGAATCAACCTAAAAATTTTGA
* *
26719762 AGTAAAAAGGAAAGAGCATTTAGT
129 AGTAAAAAGAAAAGAGCACTTAGT
26719786 TT
1 TT
26719788 ACAAACTGAA
Statistics
Matches: 138, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
151 19 0.14
152 102 0.74
153 17 0.12
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (152 bp):
TTTCATTCAAGTAGTACTAAATTAACAGCTAGTTTGAATCTTGAGCTTGAGCAACTTGATGCCAA
GATTGCATTCTTGCATGGTGACTTGCAGGAAGACATTTATATGAATCAACCTAAAAATTTTGAAG
TAAAAAGAAAAGAGCACTTAGT
Found at i:26724888 original size:28 final size:30
Alignment explanation
Indices: 26724850--26724935 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 30
26724840 TTATAATAAT
*
26724850 TATTATATATTTATCTAATAA-A-AAATTA
1 TATTATATATTTATATAATAATATAAATTA
* *
26724878 TATTATATATTTTTATATTAATATAAATTA
1 TATTATATATTTATATAATAATATAAATTA
*
26724908 TGTTATATAATATTTATATAA-AATATAA
1 T-AT-TAT-ATATTTATATAATAATATAA
26724936 TATAAATACA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 18 0.38
29 1 0.02
30 7 0.15
31 1 0.02
32 10 0.21
33 10 0.21
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
TATTATATATTTATATAATAATATAAATTA
Found at i:26724893 original size:30 final size:30
Alignment explanation
Indices: 26724848--26724925 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
26724838 AATTATAATA
26724848 ATTATTATATATTTAT-CTAATAAAAAATTAT
1 ATTA-TATATATTTATACTAAT-AAAAATTAT
* * *
26724879 ATTATATATTTTTATATTAATATAAATTAT
1 ATTATATATATTTATACTAATAAAAATTAT
*
26724909 GTTATATAATATTTATA
1 ATTATAT-ATATTTATA
26724926 TAAAATATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
30 24 0.60
31 16 0.40
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (30 bp):
ATTATATATATTTATACTAATAAAAATTAT
Found at i:26725228 original size:20 final size:19
Alignment explanation
Indices: 26725182--26725229 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
26725172 GCTCCTTGGA
26725182 TTTTGTAA--TTTTCTTTC
1 TTTTGTAACTTTTTCTTTC
**
26725199 TTTTAAAACTTTTTCTCTTC
1 TTTTGTAACTTTTTCT-TTC
26725219 TTTTGTAACTT
1 TTTTGTAACTT
26725230 CAGATTAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 6 0.25
19 6 0.25
20 12 0.50
ACGTcount: A:0.17, C:0.15, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTGTAACTTTTTCTTTC
Found at i:26729741 original size:12 final size:12
Alignment explanation
Indices: 26729724--26729771 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
26729714 TGTAGGAGTC
26729724 CCAGTGGTTGTG
1 CCAGTGGTTGTG
*
26729736 CCAGTGGTTGTC
1 CCAGTGGTTGTG
* *
26729748 CCTGTGGTTGTT
1 CCAGTGGTTGTG
*
26729760 CCAGTTGTTGTG
1 CCAGTGGTTGTG
26729772 GTGGTTGTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.06, C:0.19, G:0.35, T:0.40
Consensus pattern (12 bp):
CCAGTGGTTGTG
Found at i:26729754 original size:24 final size:24
Alignment explanation
Indices: 26729721--26729770 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
26729711 AACTGTAGGA
26729721 GTCCCAGTGGTTGTGCCAGTGGTT
1 GTCCCAGTGGTTGTGCCAGTGGTT
* * *
26729745 GTCCCTGTGGTTGTTCCAGTTGTT
1 GTCCCAGTGGTTGTGCCAGTGGTT
26729769 GT
1 GT
26729771 GGTGGTTGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.06, C:0.20, G:0.34, T:0.40
Consensus pattern (24 bp):
GTCCCAGTGGTTGTGCCAGTGGTT
Found at i:26732060 original size:29 final size:30
Alignment explanation
Indices: 26731986--26732075 Score: 105
Period size: 29 Copynumber: 3.1 Consensus size: 30
26731976 ATCAAATATG
* * *
26731986 ATAAAAAATAATTAATGT-ATTTTTCAATT
1 ATAAAAAATATTTAATATAATTTTTAAATT
26732015 ATAATAAAATATTTAATATAATTTTTAAATT
1 ATAA-AAAATATTTAATATAATTTTTAAATT
* *
26732046 TTAAAAAAT-TTTAATATAATATTT-AATT
1 ATAAAAAATATTTAATATAATTTTTAAATT
26732074 AT
1 AT
26732076 GAATTTATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
28 5 0.09
29 18 0.34
30 17 0.32
31 13 0.25
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (30 bp):
ATAAAAAATATTTAATATAATTTTTAAATT
Found at i:26732218 original size:29 final size:28
Alignment explanation
Indices: 26732159--26732225 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 28
26732149 GATAATTATC
*
26732159 ATATTA-ATTAATAAATTAATAATTCAA
1 ATATTATATTAAAAAATTAATAATTCAA
*
26732186 ATATTATATTAAAAAATTTTAA-AATTTAA
1 ATATTATATTAAAAAA--TTAATAATTCAA
*
26732215 ATATTTTATTA
1 ATATTATATTA
26732226 TAATTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.18
28 8 0.24
29 16 0.47
30 4 0.12
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (28 bp):
ATATTATATTAAAAAATTAATAATTCAA
Found at i:26738624 original size:28 final size:28
Alignment explanation
Indices: 26738588--26738643 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
26738578 GTACTTAGTG
*
26738588 AAAGACCTATAAATATCTATGCAAACAT
1 AAAGACCTATAAATATATATGCAAACAT
* *
26738616 AAAGCCCTATAAATATATATGCAGACAT
1 AAAGACCTATAAATATATATGCAAACAT
26738644 GAAATCAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.25
Consensus pattern (28 bp):
AAAGACCTATAAATATATATGCAAACAT
Found at i:26747795 original size:14 final size:14
Alignment explanation
Indices: 26747760--26747797 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
26747750 ATTTATTCCG
*
26747760 TATTTGAGATATTT
1 TATTTGAAATATTT
26747774 TA-TT-AAATATTT
1 TATTTGAAATATTT
26747786 TATTTGAAATAT
1 TATTTGAAATAT
26747798 AGAAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 9 0.43
13 4 0.19
14 8 0.38
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (14 bp):
TATTTGAAATATTT
Found at i:26748733 original size:11 final size:11
Alignment explanation
Indices: 26748717--26748773 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
26748707 AAATTTTAAG
26748717 TTATATTATTT
1 TTATATTATTT
*
26748728 TTATATTTTTT
1 TTATATTATTT
*
26748739 ATTCATATAATTT
1 -TT-ATATTATTT
*
26748752 TTATATCATATT
1 TTATATTAT-TT
*
26748764 TTAAATTATT
1 TTATATTATT
26748774 ATATTTAGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 17 0.46
12 13 0.35
13 7 0.19
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATATTATTT
Found at i:26748737 original size:24 final size:23
Alignment explanation
Indices: 26748688--26748757 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 23
26748678 TTTTATTAAA
* * *
26748688 TTTATTTATA-TATATTTTAAAAT
1 TTTAATTATATTAT-TTTTATATT
26748711 TTTAAGTTATATTATTTTTATATT
1 TTTAA-TTATATTATTTTTATATT
* *
26748735 TTTTATTCATATAATTTTTATAT
1 TTTAATT-ATATTATTTTTATAT
26748758 CATATTTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
23 6 0.15
24 30 0.77
25 3 0.08
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (23 bp):
TTTAATTATATTATTTTTATATT
Found at i:26748753 original size:16 final size:16
Alignment explanation
Indices: 26748729--26748762 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
26748719 ATATTATTTT
*
26748729 TATATTTTTTAT-TCA
1 TATAATTTTTATATCA
26748744 TATAATTTTTATATCA
1 TATAATTTTTATATCA
26748760 TAT
1 TAT
26748763 TTTAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTTTATATCA
Found at i:26751812 original size:27 final size:29
Alignment explanation
Indices: 26751759--26751813 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
26751749 TTCATCAGTT
26751759 TATTAAGATATTAATTAGTAAAAGAAAAAA
1 TATTAAGATATTAA-TAGTAAAAGAAAAAA
*
26751789 TATTGAGATATTAA-A-TAAAAGAAAA
1 TATTAAGATATTAATAGTAAAAGAAAA
26751814 TCTAGTTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 10 0.42
28 1 0.04
30 13 0.54
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (29 bp):
TATTAAGATATTAATAGTAAAAGAAAAAA
Found at i:26754839 original size:18 final size:18
Alignment explanation
Indices: 26754816--26754850 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
26754806 CCGTTCTGAC
26754816 CCCCCTAGTCTCATTGTA
1 CCCCCTAGTCTCATTGTA
26754834 CCCCCTAGTCTCATTGT
1 CCCCCTAGTCTCATTGT
26754851 TTTGTCCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.40, G:0.11, T:0.34
Consensus pattern (18 bp):
CCCCCTAGTCTCATTGTA
Found at i:26757097 original size:35 final size:35
Alignment explanation
Indices: 26757051--26757121 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
26757041 GCTTATATGA
*
26757051 TTGTGAAAGGGATTGAGAAGCCTGATATTAGTGTT
1 TTGTGAAAGGGATTGAGAAGCCTGATATCAGTGTT
26757086 TTGTGAAAGGGATTGAGAAGCCTGATATCAGTGTT
1 TTGTGAAAGGGATTGAGAAGCCTGATATCAGTGTT
26757121 T
1 T
26757122 ATCATGCACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.28, C:0.07, G:0.31, T:0.34
Consensus pattern (35 bp):
TTGTGAAAGGGATTGAGAAGCCTGATATCAGTGTT
Found at i:26762403 original size:15 final size:15
Alignment explanation
Indices: 26762383--26762412 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
26762373 CACAATAACA
26762383 ACCAACTGACCCGTG
1 ACCAACTGACCCGTG
26762398 ACCAACTGACCCGTG
1 ACCAACTGACCCGTG
26762413 GTCTAGGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.40, G:0.20, T:0.13
Consensus pattern (15 bp):
ACCAACTGACCCGTG
Found at i:26763865 original size:23 final size:23
Alignment explanation
Indices: 26763838--26763883 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
26763828 AAAATTCAAA
*
26763838 TAAAATTACGTATTATAATTTAT
1 TAAAATTACATATTATAATTTAT
*
26763861 TAAAATTATATATTATAATTTAT
1 TAAAATTACATATTATAATTTAT
26763884 ATCATCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TAAAATTACATATTATAATTTAT
Found at i:26773297 original size:17 final size:18
Alignment explanation
Indices: 26773270--26773304 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
26773260 ATTGTTAAGT
26773270 TTTACTCAAATAAATTAA
1 TTTACTCAAATAAATTAA
26773288 TTTA-TCAAATAAATTAA
1 TTTACTCAAATAAATTAA
26773305 ATTCAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
TTTACTCAAATAAATTAA
Found at i:26777578 original size:8 final size:8
Alignment explanation
Indices: 26777558--26777598 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
26777548 TATTATTTTT
26777558 TAAA-ATA
1 TAAATATA
*
26777565 TAAATATT
1 TAAATATA
26777573 TAAATATA
1 TAAATATA
*
26777581 TAATTATA
1 TAAATATA
26777589 TAAATATA
1 TAAATATA
26777597 TA
1 TA
26777599 TAAATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 4 0.14
8 25 0.86
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAAATATA
Found at i:26777611 original size:26 final size:24
Alignment explanation
Indices: 26777562--26777612 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
26777552 ATTTTTTAAA
* *
26777562 ATATAAATATTTAAATATATAATT
1 ATATAAATATTTAAATAAAAAATT
26777586 ATATAAATATATATAAATAAAAAATT
1 ATATAAATAT-T-TAAATAAAAAATT
26777612 A
1 A
26777613 ATTAAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 10 0.43
25 1 0.04
26 12 0.52
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATATAAATATTTAAATAAAAAATT
Found at i:26796661 original size:13 final size:14
Alignment explanation
Indices: 26796634--26796662 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
26796624 ACAAAATTAA
26796634 AATTAAAATTATTT
1 AATTAAAATTATTT
26796648 AATTAAAA-TATTT
1 AATTAAAATTATTT
26796661 AA
1 AA
26796663 AACAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
AATTAAAATTATTT
Found at i:26798724 original size:16 final size:16
Alignment explanation
Indices: 26798703--26798735 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
26798693 AATATGAGAT
*
26798703 AATTTTTTTTACCTAA
1 AATTTTATTTACCTAA
26798719 AATTTTATTTACCTAA
1 AATTTTATTTACCTAA
26798735 A
1 A
26798736 CCCTACGGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (16 bp):
AATTTTATTTACCTAA
Found at i:26799227 original size:22 final size:20
Alignment explanation
Indices: 26799202--26799247 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
26799192 ATGAAGTTGC
26799202 TTTTAAATAGTTTAGTTTATAA
1 TTTTAAATA-TTT-GTTTATAA
* *
26799224 TTTTAATTATTTTTTTATAA
1 TTTTAAATATTTGTTTATAA
26799244 TTTT
1 TTTT
26799248 GAGTTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 3 0.14
22 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTTAAATATTTGTTTATAA
Found at i:26799672 original size:3 final size:3
Alignment explanation
Indices: 26799664--26799692 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
26799654 CAATTATCCT
26799664 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
26799693 CTTGAATAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:26801750 original size:2 final size:2
Alignment explanation
Indices: 26801743--26801779 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
26801733 TGCTTGAGTT
26801743 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26801780 TCTGCCTACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26805836 original size:11 final size:11
Alignment explanation
Indices: 26805820--26805856 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
26805810 CTCATAAGAA
26805820 ATTTATTTGAG
1 ATTTATTTGAG
*
26805831 ATTTATTAGAG
1 ATTTATTTGAG
26805842 ATTTATTTGAG
1 ATTTATTTGAG
26805853 ATTT
1 ATTT
26805857 GTTAGATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (11 bp):
ATTTATTTGAG
Found at i:26805845 original size:22 final size:22
Alignment explanation
Indices: 26805820--26805872 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
26805810 CTCATAAGAA
26805820 ATTTATTTGAGATTTATTAGAG
1 ATTTATTTGAGATTTATTAGAG
* *
26805842 ATTTATTTGAGATTTGTTAGAT
1 ATTTATTTGAGATTTATTAGAG
26805864 A-TTATTTGA
1 ATTTATTTGA
26805873 TAAACAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (22 bp):
ATTTATTTGAGATTTATTAGAG
Found at i:26805967 original size:65 final size:66
Alignment explanation
Indices: 26805898--26806030 Score: 189
Period size: 65 Copynumber: 2.0 Consensus size: 66
26805888 GTAAAAAAAG
*
26805898 AATTCTAAAA-GAAATATAATTCTTAATAGATAAGTTTGACTTACAA-AAAAAAATTGCAAGAGA
1 AATTCTAAAAGGAAA-ATAATTCTTAATAGACAAGTTTGACTTACAATAAAAAAATTGCAAGAGA
26805961 AA
65 AA
* * * **
26805963 AATTCTAAAAGGAAAATGATTCTTAATAGGCATGTTTGACTTACAATAAAAAAATTTTAAGAGAA
1 AATTCTAAAAGGAAAATAATTCTTAATAGACAAGTTTGACTTACAATAAAAAAATTGCAAGAGAA
26806028 A
66 A
26806029 AA
1 AA
26806031 AGATTCTTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
65 37 0.62
66 23 0.38
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.29
Consensus pattern (66 bp):
AATTCTAAAAGGAAAATAATTCTTAATAGACAAGTTTGACTTACAATAAAAAAATTGCAAGAGAA
A
Found at i:26806683 original size:25 final size:25
Alignment explanation
Indices: 26806614--26806692 Score: 81
Period size: 24 Copynumber: 3.2 Consensus size: 25
26806604 TGAAAAGAGT
* * *
26806614 TGAAAATTCAAGATGTGAAAAAAGC
1 TGAAAGTTCGAGATGTGAGAAAAGC
* * *
26806639 CGAAGGTTCGAGACGT-AGAAAAGC
1 TGAAAGTTCGAGATGTGAGAAAAGC
*
26806663 TGAAAGTTCGAGATGTGAGAAGAGC
1 TGAAAGTTCGAGATGTGAGAAAAGC
26806688 T-AAAG
1 TGAAAG
26806693 GTTTAATATG
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
24 24 0.56
25 19 0.44
ACGTcount: A:0.43, C:0.10, G:0.29, T:0.18
Consensus pattern (25 bp):
TGAAAGTTCGAGATGTGAGAAAAGC
Found at i:26806692 original size:24 final size:24
Alignment explanation
Indices: 26806584--26806692 Score: 69
Period size: 25 Copynumber: 4.4 Consensus size: 24
26806574 AAGTGGTATC
*
26806584 AGAGCTAAAGGTTCGAAACGTGAAA
1 AGAGCTAAA-GTTCGAGACGTGAAA
* * * *
26806609 AGAGTTGAAAATTCAAGATGTGAAA
1 AGAGCT-AAAGTTCGAGACGTGAAA
* * *
26806634 AAAGCCGAAGGTTCGAGACGT-AGAA
1 AGAG-CTAAAGTTCGAGACGTGA-AA
* *
26806659 A-AGCTGAAAGTTCGAGATGTGAGA
1 AGAGCT-AAAGTTCGAGACGTGAAA
26806683 AGAGCTAAAG
1 AGAGCTAAAG
26806693 GTTTAATATG
Statistics
Matches: 62, Mismatches: 16, Indels: 13
0.68 0.18 0.14
Matches are distributed among these distances:
23 1 0.02
24 21 0.34
25 37 0.60
26 3 0.05
ACGTcount: A:0.43, C:0.10, G:0.29, T:0.17
Consensus pattern (24 bp):
AGAGCTAAAGTTCGAGACGTGAAA
Found at i:26806694 original size:49 final size:50
Alignment explanation
Indices: 26806584--26806695 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 50
26806574 AAGTGGTATC
*
26806584 AGAGCTAAAGGTTCGAAACGTGAAAAGAGTTGAAAATTCAAGATGTGAAA
1 AGAGCTAAAGGTTCGAAACGTGAAAAGAGCTGAAAATTCAAGATGTGAAA
* ** * * * *
26806634 AAAGCCGAAGGTTCGAGACGT-AGAAA-AGCTGAAAGTTCGAGATGTGAGA
1 AGAGCTAAAGGTTCGAAACGTGA-AAAGAGCTGAAAATTCAAGATGTGAAA
26806683 AGAGCTAAAGGTT
1 AGAGCTAAAGGTT
26806696 TAATATGTGG
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
49 30 0.60
50 20 0.40
ACGTcount: A:0.42, C:0.10, G:0.29, T:0.19
Consensus pattern (50 bp):
AGAGCTAAAGGTTCGAAACGTGAAAAGAGCTGAAAATTCAAGATGTGAAA
Found at i:26807093 original size:52 final size:52
Alignment explanation
Indices: 26807028--26807148 Score: 147
Period size: 52 Copynumber: 2.3 Consensus size: 52
26807018 AATTCTAGGA
*
26807028 GAAAGATGATTCTTAATAAATAAGTTTAACTTGTA-AG-AGAAGAATTCTAAAAG
1 GAAAGA-GATTCTTAATAAACAAGTTTAA-TT-TACAGAAGAAGAATTCTAAAAG
* * * *
26807081 GAAAGAGATTCTTAATAAGCAATTTTGATTTACAGAAGAAGAATTCTAAGAG
1 GAAAGAGATTCTTAATAAACAAGTTTAATTTACAGAAGAAGAATTCTAAAAG
*
26807133 GAAAGAGATTTTTAAT
1 GAAAGAGATTCTTAAT
26807149 GGGTAAGTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
50 2 0.03
51 4 0.07
52 48 0.80
53 6 0.10
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.31
Consensus pattern (52 bp):
GAAAGAGATTCTTAATAAACAAGTTTAATTTACAGAAGAAGAATTCTAAAAG
Done.