Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 78 of 105
Found at i:13658172 original size:119 final size:120
Alignment explanation
Indices: 13657968--13658298 Score: 323
Period size: 119 Copynumber: 2.8 Consensus size: 120
13657958 AACAGAGGCT
* * * * * * * **
13657968 ATGAACTTTAAATTTAAAAGGCAT-TT-TTACCAAAGGTAACAAAACTTTAAATTTAGAAGATTC
1 ATGAACTTTAAATTTAAAAAGC-TCTTCTCACCAAAAGCAACGAAACTTTAAATTCAAAAGGCTC
* * * * * *
13658031 CTCTAACTAGAGGCAACGAAACTTTAAATGTTAAAAGGCTCCTCTGACCGA-AGATA
65 ATCTAACCAAAGGCAATGAAACTTTAAATATTAAAAGGCTCCTCTGA-CGAGAGACA
*
13658087 ATGAACTTTAAATGTTAAAAAGCTTCTT-TCACCAAAAGCAACG-AATTTTAAATTCAAAAGGCT
1 ATGAACTTTAAAT-TTAAAAAGC-TCTTCTCACCAAAAGCAACGAAACTTTAAATTCAAAAGGCT
* * * * *
13658150 CTTTTAACCAAAGGCAAT-AAACTTTAAATATTAAAAGGCTCCTTTGACTAGAGGCA
64 CATCTAACCAAAGGCAATGAAACTTTAAATATTAAAAGGCTCCTCTGACGAGAGACA
* * * * *
13658206 ATGAACTTTAAATTTAAAAAGCTCTTCTGACTAGAGGCAATGAAACTTTAAATTCAAAAGGCTCA
1 ATGAACTTTAAATTTAAAAAGCTCTTCTCACCAAAAGCAACGAAACTTTAAATTCAAAAGGCTCA
* * *
13658271 TCTGACTAGAGGCAATGAAACTTTAAAT
66 TCTAACCAAAGGCAATGAAACTTTAAAT
13658299 TCAAAATATT
Statistics
Matches: 174, Mismatches: 32, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
117 4 0.02
118 21 0.12
119 88 0.51
120 48 0.28
121 13 0.07
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (120 bp):
ATGAACTTTAAATTTAAAAAGCTCTTCTCACCAAAAGCAACGAAACTTTAAATTCAAAAGGCTCA
TCTAACCAAAGGCAATGAAACTTTAAATATTAAAAGGCTCCTCTGACGAGAGACA
Found at i:13658265 original size:79 final size:80
Alignment explanation
Indices: 13657961--13658304 Score: 304
Period size: 79 Copynumber: 4.3 Consensus size: 80
13657951 TCTTCTAAAC
* * * **
13657961 AGAGGCTATGAACTTTAAATTTAAAAGGCAT-TT-TTACCAAAGGTAACAAAACTTTAAAT-TTA
1 AGAGGCAATGAACTTTAAATTTAAAAGGC-TCTTCTGACCAAAGGCAATGAAACTTTAAATATTA
* ** *
13658023 GAAGATTCCTCTAACT
65 AAAGGCTCCTCTGACT
* * * ** *
13658039 AGAGGCAACGAAACTTTAAATGTTAAAAGGCTCCTCTGACCGAAGATAATG-AACTTTAAATGTT
1 AGAGGCAATG-AACTTTAAAT-TTAAAAGGCTCTTCTGACCAAAGGCAATGAAACTTTAAATATT
* * * * *
13658103 AAAAAGCTTCTTTCACC
64 AAAAGGCTCCTCTGACT
* * * * * * *
13658120 AAAAGCAACGAATTTTAAATTCAAAAGGCTCTTTTAACCAAAGGCAAT-AAACTTTAAATATTAA
1 AGAGGCAATGAACTTTAAATTTAAAAGGCTCTTCTGACCAAAGGCAATGAAACTTTAAATATTAA
*
13658184 AAGGCTCCTTTGACT
66 AAGGCTCCTCTGACT
* * * *
13658199 AGAGGCAATGAACTTTAAATTTAAAAAGCTCTTCTGACTAGAGGCAATGAAACTTTAAAT-TCAA
1 AGAGGCAATGAACTTTAAATTTAAAAGGCTCTTCTGACCAAAGGCAATGAAACTTTAAATATTAA
*
13658263 AAGGCTCATCTGACT
66 AAGGCTCCTCTGACT
*
13658278 AGAGGCAATGAAACTTTAAATTCAAAA
1 AGAGGCAATG-AACTTTAAATTTAAAA
13658305 TATTTTGCTT
Statistics
Matches: 213, Mismatches: 45, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
78 8 0.04
79 121 0.57
80 55 0.26
81 29 0.14
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.28
Consensus pattern (80 bp):
AGAGGCAATGAACTTTAAATTTAAAAGGCTCTTCTGACCAAAGGCAATGAAACTTTAAATATTAA
AAGGCTCCTCTGACT
Found at i:13658426 original size:22 final size:21
Alignment explanation
Indices: 13658376--13658430 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
13658366 AAATCTTGCC
* *
13658376 TAGAGGACTTAGAGATTATGT
1 TAGAGGTCTTAAAGATTATGT
*
13658397 TCGAAGGTCTTAAAGATTATGTT
1 TAG-AGGTCTTAAAGATTATG-T
13658420 TAGAGGTCTTA
1 TAGAGGTCTTA
13658431 CAAATCTCAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.07
22 23 0.82
23 3 0.11
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (21 bp):
TAGAGGTCTTAAAGATTATGT
Found at i:13658601 original size:189 final size:187
Alignment explanation
Indices: 13658278--13658690 Score: 553
Period size: 189 Copynumber: 2.2 Consensus size: 187
13658268 TCATCTGACT
* * *
13658278 AGAGGCAATGAAACTTT-AAATTCAAAATATTTTGCTTGGAGGTCTTACAAATCTTAAAACTAAA
1 AGAGGCATTGAAACTTTAAAATTTAAAATATTTTGCTTGAAGGTCTTACAAATCTTAAAACTAAA
* * * * * * * * *
13658342 ATAGATTTAGCTCAGAAGTCTTATAAATCTTGCCTAGAGGACTTAGAGATTATGTTCGAAGGTCT
66 ATAGATTCAACTCAAAAGACTTACAAATCTTACCGAGAGGACTTAGAGATTATGTCCGAAAGTCT
* * * ** **
13658407 TAAAGATTATGTTTAGAGGTCTTACAAATCTCAACATCTTTGAGTGCTTTTTGTATC
131 TAAAGATGATGCTCAGAGGTCTTACAAATCTCAACATCTTTGAGTGCTCATCATATC
*
13658464 AGAGGCATTGAAACTTTAAAAATTTAAAATATTTTG-TCTGAATGTCTTTACAAATCTTAAAACT
1 AGAGGCATTGAAACTTT-AAAATTTAAAATATTTTGCT-TGAAGGTC-TTACAAATCTTAAAACT
13658528 AAAATAGATTCAACTCAAAAGACTTACAAATCTTACTCGA-AGGACTTAGAGATTATGTCCGAAA
63 AAAATAGATTCAACTCAAAAGACTTACAAATCTTAC-CGAGAGGACTTAGAGATTATGTCCGAAA
* *
13658592 GTTTTAAAGATGATGCTCAGAGGTCTTACAAATCTCAATATCTTTGAGTGCTCATCATATC
127 GTCTTAAAGATGATGCTCAGAGGTCTTACAAATCTCAACATCTTTGAGTGCTCATCATATC
*
13658653 AGAGGCATTGAAACTTTGAGAATTTAAAATATTTTGCT
1 AGAGGCATTGAAACTTT-AAAATTTAAAATATTTTGCT
13658691 CAAAAGTCTC
Statistics
Matches: 197, Mismatches: 24, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
186 16 0.08
187 1 0.01
188 22 0.11
189 155 0.79
190 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (187 bp):
AGAGGCATTGAAACTTTAAAATTTAAAATATTTTGCTTGAAGGTCTTACAAATCTTAAAACTAAA
ATAGATTCAACTCAAAAGACTTACAAATCTTACCGAGAGGACTTAGAGATTATGTCCGAAAGTCT
TAAAGATGATGCTCAGAGGTCTTACAAATCTCAACATCTTTGAGTGCTCATCATATC
Found at i:13658944 original size:18 final size:18
Alignment explanation
Indices: 13658896--13658944 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
13658886 CAAACTTCTC
* *
13658896 TTTTTTCTTTTTACCTTT
1 TTTTTTCTTTTTTCCTAT
*
13658914 TTTTTTCTTTTTTGCTAT
1 TTTTTTCTTTTTTCCTAT
13658932 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
13658945 TTTCTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTTTTCTTTTTTCCTAT
Found at i:13659186 original size:26 final size:26
Alignment explanation
Indices: 13659127--13659192 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
13659117 ATGCAAATAA
* *
13659127 CATAATGCAAATGCTAATGTCTTTCT
1 CATAATGCAAATGCGAATATCTTTCT
* * *
13659153 TATGATGCGAATGCGAATATCTTTCT
1 CATAATGCAAATGCGAATATCTTTCT
*
13659179 CATAATGCACATGC
1 CATAATGCAAATGC
13659193 AAGTGAAGCT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (26 bp):
CATAATGCAAATGCGAATATCTTTCT
Found at i:13659221 original size:15 final size:15
Alignment explanation
Indices: 13659183--13659221 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
13659173 CTTTCTCATA
*
13659183 ATGCACATGCAAGTG
1 ATGCAAATGCAAGTG
* *
13659198 AAGCTAATGCAAGTG
1 ATGCAAATGCAAGTG
13659213 ATGCAAATG
1 ATGCAAATG
13659222 TGAATATCCC
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (15 bp):
ATGCAAATGCAAGTG
Found at i:13661859 original size:19 final size:17
Alignment explanation
Indices: 13661835--13661873 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
13661825 GGGATTAACA
*
13661835 GTTTCTTTTAATCATTTTT
1 GTTTCTTTCAAT--TTTTT
13661854 GTTTCTTTCAATTTTTT
1 GTTTCTTTCAATTTTTT
13661871 GTT
1 GTT
13661874 GGTCGGGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
19 11 0.58
ACGTcount: A:0.13, C:0.10, G:0.08, T:0.69
Consensus pattern (17 bp):
GTTTCTTTCAATTTTTT
Found at i:13666936 original size:17 final size:17
Alignment explanation
Indices: 13666916--13666966 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
13666906 TTGTGATTGT
13666916 TTTATTATTATTAACTA
1 TTTATTATTATTAACTA
* *
13666933 TTTATTATTTTTATCT-
1 TTTATTATTATTAACTA
13666949 TTT-TTATTA-T-ACTA
1 TTTATTATTATTAACTA
13666963 TTTA
1 TTTA
13666967 AAAAAAATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
13 2 0.07
14 4 0.14
15 5 0.18
16 3 0.11
17 14 0.50
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATTATTATTAACTA
Found at i:13666993 original size:21 final size:22
Alignment explanation
Indices: 13666956--13666999 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
13666946 TCTTTTTTAT
13666956 TATACTATTTAAAAAAAATTAG
1 TATACTATTTAAAAAAAATTAG
*
13666978 TATACTATTTAAAAAAATTTAG
1 TATACTATTTAAAAAAAATTAG
13667000 ATTATCCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (22 bp):
TATACTATTTAAAAAAAATTAG
Found at i:13667330 original size:20 final size:20
Alignment explanation
Indices: 13667307--13667346 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13667297 ATTTAAACAA
13667307 TTTATAATTTTTTTT-ATTTT
1 TTTAT-ATTTTTTTTAATTTT
*
13667327 TTTATCTTTTTTTTAATTTT
1 TTTATATTTTTTTTAATTTT
13667347 ATTAGCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTATATTTTTTTTAATTTT
Found at i:13667604 original size:11 final size:11
Alignment explanation
Indices: 13667588--13667646 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
13667578 AAATGACATA
*
13667588 AAAAATAATAT
1 AAAAATAAAAT
*
13667599 AAAAATCAACAT
1 AAAAAT-AAAAT
13667611 -AAAAT-AAAT
1 AAAAATAAAAT
13667620 -AAAATCAAAAT
1 AAAAAT-AAAAT
*
13667631 CAAAATAAAAT
1 AAAAATAAAAT
13667642 AAAAA
1 AAAAA
13667647 AAGAAAAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
9 8 0.20
11 24 0.59
12 9 0.22
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:13667629 original size:26 final size:26
Alignment explanation
Indices: 13667583--13667654 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
13667573 TAAAGAAATG
*
13667583 ACAT-AAA-AAATAATATAAAAATCA
1 ACATAAAATAAATAAAATAAAAATCA
*
13667607 ACATAAAATAAATAAAATCAAAATCA
1 ACATAAAATAAATAAAATAAAAATCA
* *
13667633 AAATAAAATAAA-AAAAGAAAAA
1 ACATAAAATAAATAAAATAAAAA
13667655 ACTTGCCAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 4 0.10
25 11 0.27
26 26 0.63
ACGTcount: A:0.75, C:0.07, G:0.01, T:0.17
Consensus pattern (26 bp):
ACATAAAATAAATAAAATAAAAATCA
Found at i:13667631 original size:6 final size:5
Alignment explanation
Indices: 13667589--13667645 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
13667579 AATGACATAA
* *
13667589 AAAAT AATAT AAAAAT CAACAT AAAAT -AAAT AAAAT CAAAAT CAAAAT
1 AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT
13667637 AAAAT AAAA
1 AAAAT AAAA
13667646 AAAGAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
4 4 0.09
5 21 0.48
6 19 0.43
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:13676773 original size:16 final size:17
Alignment explanation
Indices: 13676743--13676779 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
13676733 AATTGTTATA
13676743 AAATAAAAAATATAA-T
1 AAATAAAAAATATAATT
13676759 AAAT-AAAAATAATAATT
1 AAATAAAAAAT-ATAATT
13676776 AAAT
1 AAAT
13676780 TAAATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 8 0.42
17 5 0.26
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAAAAATATAATT
Found at i:13680671 original size:11 final size:12
Alignment explanation
Indices: 13680644--13680702 Score: 63
Period size: 11 Copynumber: 5.2 Consensus size: 12
13680634 ATAATCACTT
13680644 AATCAATATCTA
1 AATCAATATCTA
13680656 AATCAATATC-A
1 AATCAATATCTA
*
13680667 AATCAATATAT-
1 AATCAATATCTA
* *
13680678 AAT-ATTCTCTA
1 AATCAATATCTA
13680689 AATCAATAT-TA
1 AATCAATATCTA
13680700 AAT
1 AAT
13680703 TAATCTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
10 4 0.11
11 21 0.55
12 13 0.34
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.36
Consensus pattern (12 bp):
AATCAATATCTA
Found at i:13680689 original size:33 final size:33
Alignment explanation
Indices: 13680652--13680716 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
13680642 TTAATCAATA
*
13680652 TCTAAATCAATATCAAATCAATATATAATATTC
1 TCTAAATCAATATCAAATCAATATAAAATATTC
* * *
13680685 TCTAAATCAATATTAAATTAATCTAAAATATT
1 TCTAAATCAATATCAAATCAATATAAAATATT
13680717 ACTAAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.38
Consensus pattern (33 bp):
TCTAAATCAATATCAAATCAATATAAAATATTC
Found at i:13680713 original size:22 final size:22
Alignment explanation
Indices: 13680644--13680711 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 22
13680634 ATAATCACTT
* * *
13680644 AATCAATATCTAAATCAATATCA
1 AATCAATATATAAATTAATCT-A
*
13680667 AATCAATATATAATATT-CTCTA
1 AATCAATATATAA-ATTAATCTA
13680689 AATCAATAT-TAAATTAATCTA
1 AATCAATATATAAATTAATCTA
13680710 AA
1 AA
13680712 ATATTACTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.08
21 9 0.24
22 10 0.26
23 14 0.37
24 2 0.05
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.35
Consensus pattern (22 bp):
AATCAATATATAAATTAATCTA
Found at i:13680721 original size:11 final size:11
Alignment explanation
Indices: 13680707--13680736 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13680697 TTAAATTAAT
13680707 CTAAAATATTA
1 CTAAAATATTA
13680718 CTAAAATATTA
1 CTAAAATATTA
*
13680729 TTAAAATA
1 CTAAAATA
13680737 ATATCATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (11 bp):
CTAAAATATTA
Found at i:13681905 original size:13 final size:12
Alignment explanation
Indices: 13681877--13681911 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
13681867 ACTCAAAATT
13681877 TTTTATTTTATTA
1 TTTT-TTTTATTA
13681890 TTTTTTTTATTA
1 TTTTTTTTATTA
*
13681902 ATTTTTTTAT
1 TTTTTTTTAT
13681912 AAAATTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTTTATTA
Found at i:13682386 original size:6 final size:6
Alignment explanation
Indices: 13682379--13682428 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
13682369 TGATCTTGAG
* * *
13682379 TTTAAG TTTGAT TTTAATT TTTAGT TTTAAT TTTAAT TTTAAT TTTAAT
1 TTTAAT TTTAAT TTTAA-T TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT
13682428 T
1 T
13682429 CAAAAAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
6 33 0.87
7 5 0.13
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (6 bp):
TTTAAT
Found at i:13682394 original size:12 final size:12
Alignment explanation
Indices: 13682357--13682424 Score: 64
Period size: 12 Copynumber: 5.5 Consensus size: 12
13682347 AACCCAAACA
13682357 AATTTTGAATTTT
1 AATTTTG-ATTTT
* * *
13682370 GATCTTGAGTTT
1 AATTTTGATTTT
*
13682382 AAGTTTGATTTT
1 AATTTTGATTTT
*
13682394 AATTTTTAGTTTT
1 AATTTTGA-TTTT
*
13682407 AATTTTAATTTT
1 AATTTTGATTTT
13682419 AATTTT
1 AATTTT
13682425 AATTCAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
12 28 0.64
13 16 0.36
ACGTcount: A:0.26, C:0.01, G:0.10, T:0.62
Consensus pattern (12 bp):
AATTTTGATTTT
Found at i:13682419 original size:18 final size:19
Alignment explanation
Indices: 13682379--13682428 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
13682369 TGATCTTGAG
* *
13682379 TTTAAGTTTGATTTTAATT
1 TTTAATTTTAATTTTAATT
*
13682398 TTTAGTTTTAATTTTAA-T
1 TTTAATTTTAATTTTAATT
13682416 TTTAATTTTAATT
1 TTTAATTTTAATT
13682429 CAAAAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (19 bp):
TTTAATTTTAATTTTAATT
Found at i:13687423 original size:12 final size:12
Alignment explanation
Indices: 13687406--13687437 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
13687396 GGGGTAAATA
13687406 TTTTTCTTTTTT
1 TTTTTCTTTTTT
13687418 TTTTTCTTTTTT
1 TTTTTCTTTTTT
*
13687430 TCTTTCTT
1 TTTTTCTT
13687438 CATACATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:13696236 original size:22 final size:21
Alignment explanation
Indices: 13696195--13696236 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13696185 TAGAATCTAA
*
13696195 ATCGATGATTATCATCTAACC
1 ATCGATGATTATCATATAACC
*
13696216 ATCGATGATGTCTCATATAAC
1 ATCGATGAT-TATCATATAAC
13696237 AGAACTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (21 bp):
ATCGATGATTATCATATAACC
Found at i:13698664 original size:124 final size:124
Alignment explanation
Indices: 13698503--13698729 Score: 280
Period size: 125 Copynumber: 1.8 Consensus size: 124
13698493 TTATTTGAGA
* **
13698503 TTATTAAAGGCGTCTTCTGTAGAAAACGCCTTTAATATT-ACACAACTAAAATTTTAAG-GGGTT
1 TTATTAAAGGCGTCTTCTGTAGAAAACGCCTTCAATATTCA-ACAACTAAAATTTTAAGACAGTT
* * * *
13698566 ATTGAAGGCTTTTATTCTAGAAAAATACCTTGACTAATTCGTTTTATTTTTTGAAAGAAT
65 AGTGAAGGCGTTTATTCTAAAAAAACACCTTGACTAATTCGTTTTATTTTTTGAAAGAAT
* * ** *
13698626 TTATTGAAGGTGTCTTCTAGT-GCAAAACGCCTTCAATATTCAACTGCTCAAATTTTAAGACAGT
1 TTATTAAAGGCGTCTTCT-GTAG-AAAACGCCTTCAATATTCAACAACTAAAATTTTAAGACAGT
* *
13698690 TAGTGAAGGCGTTTATTGTAAAAAAACACCTTTACTAATT
64 TAGTGAAGGCGTTTATTCTAAAAAAACACCTTGACTAATT
13698730 TTTTTAATTT
Statistics
Matches: 86, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
123 17 0.20
124 32 0.37
125 37 0.43
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (124 bp):
TTATTAAAGGCGTCTTCTGTAGAAAACGCCTTCAATATTCAACAACTAAAATTTTAAGACAGTTA
GTGAAGGCGTTTATTCTAAAAAAACACCTTGACTAATTCGTTTTATTTTTTGAAAGAAT
Found at i:13699413 original size:187 final size:186
Alignment explanation
Indices: 13698951--13699422 Score: 601
Period size: 189 Copynumber: 2.5 Consensus size: 186
13698941 GAAGGCGGTT
* *
13698951 GTTATCTGAAGGCATTTTTTGATAACAACCACCTTCAATAATTTCATTTTAAAAAATTTTGAGAT
1 GTTAT-TGAAGGCATTTTTTGATAACAAACACCTTCAATAATTTC-TTTTAAAAAATTTTTAGAT
* * * * * * *
13699016 TATTAAAAGTGTTTTCTACTGAAAACA--CATTCAATATACCAGTATTCAAATTTTAAGACAGTT
64 TATTAAAGGTATCTTCTACTGAAAA-ATGCCTTCAATATACCAATACTCAAATTTTAAAACAGTT
** * * *
13699079 AGTGAAGGAGTTTATTCCAGAAAAATACCTTTAATAATTCTTTTTAAATTTTGTACATA
128 AGAAAAGGAGTTTATTCCAAAAAAATACCTTTAATAATTCCTTTTAAATTTAGTACATA
* * * * * *
13699138 ATTACTAAAGGTATTTTTTTTTATAACAAACACCTTCAATAATTTTCTTTTAAAAAATTTTAAGA
1 GTTATTGAAGGCA--TTTTTTGATAACAAACACCTTCAATAA-TTTCTTTTAAAAAATTTTTAGA
**
13699203 TTATTAAAGGTATCTTCTACTGAAAAATGCCTTCAATATACCAATACTCAAATTTTAAAATGGTT
63 TTATTAAAGGTATCTTCTACTGAAAAATGCCTTCAATATACCAATACTCAAATTTTAAAACAGTT
* *
13699268 AGAAAAGGCATTTTATTCCAAAAAAATACCTTT-ATAATTCCTTTTAAGTTTAGTACATA
128 AGAAAAGG-AGTTTATTCCAAAAAAATACCTTTAATAATTCCTTTTAAATTTAGTACATA
* *
13699327 GTTATTGAAGGCATTTTTTGATAACAAACGCCTTTAATAATTT-TTTTAAAAATATTTTTAGGAT
1 GTTATTGAAGGCATTTTTTGATAACAAACACCTTCAATAATTTCTTTTAAAAA-ATTTTTA-GAT
13699391 TATTAAAGGTATCTTCTACTGAAAAATGCCTT
64 TATTAAAGGTATCTTCTACTGAAAAATGCCTT
13699423 TAAAAATTCT
Statistics
Matches: 246, Mismatches: 31, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
185 9 0.04
186 15 0.06
187 63 0.26
188 65 0.26
189 72 0.29
190 22 0.09
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (186 bp):
GTTATTGAAGGCATTTTTTGATAACAAACACCTTCAATAATTTCTTTTAAAAAATTTTTAGATTA
TTAAAGGTATCTTCTACTGAAAAATGCCTTCAATATACCAATACTCAAATTTTAAAACAGTTAGA
AAAGGAGTTTATTCCAAAAAAATACCTTTAATAATTCCTTTTAAATTTAGTACATA
Found at i:13699416 original size:124 final size:125
Alignment explanation
Indices: 13699289--13699530 Score: 321
Period size: 124 Copynumber: 2.0 Consensus size: 125
13699279 TTTATTCCAA
* * ** *
13699289 AAAAATACCTTT-ATAATTCCTTTTAAGTTTAGTACATAGTTATTGAAGGCATTTTTTGATAACA
1 AAAAATACCTTTAAAAATTCCTTTTAAATTTAGTACATAAATATTGAAGGCATTTCTTGATAACA
* *
13699353 AACGCCTTTAATAA-TTT-TTTTAAAAATATTTTT-AGGATTATTAAAGGTATCTTCTACTG
66 AACACCTTCAATAATTTTCTTTTAAAAAT-TTTTTGA-GATTATTAAAGGTATCTTCTACTG
* * * *
13699412 AAAAATGCCTTTAAAAATTCTTTTTAAATTTTGTACATAAATATTGAAGGCGTTTCTTGATAACA
1 AAAAATACCTTTAAAAATTCCTTTTAAATTTAGTACATAAATATTGAAGGCATTTCTTGATAACA
* *
13699477 AATACCTTCAATAATTTTCTTTTAAAAATTTTTTGAGATTATTAAAGGTGTCTT
66 AACACCTTCAATAATTTTCTTTTAAAAATTTTTTGAGATTATTAAAGGTATCTT
13699531 TAAGTGAAAA
Statistics
Matches: 102, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
123 11 0.11
124 55 0.54
125 25 0.25
126 11 0.11
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (125 bp):
AAAAATACCTTTAAAAATTCCTTTTAAATTTAGTACATAAATATTGAAGGCATTTCTTGATAACA
AACACCTTCAATAATTTTCTTTTAAAAATTTTTTGAGATTATTAAAGGTATCTTCTACTG
Found at i:13700646 original size:25 final size:25
Alignment explanation
Indices: 13700608--13700655 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
13700598 GAATCGTATG
* *
13700608 CTGAATTGTATGCTAAATGGTGTTT
1 CTGAATGGTATGCTAAAGGGTGTTT
* *
13700633 CTGAATGGTTTGCTGAAGGGTGT
1 CTGAATGGTATGCTAAAGGGTGT
13700656 GTTTGAGCAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.31, T:0.40
Consensus pattern (25 bp):
CTGAATGGTATGCTAAAGGGTGTTT
Found at i:13703908 original size:35 final size:35
Alignment explanation
Indices: 13703855--13703923 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
13703845 TATATAAACA
13703855 AAATATTTTTTGGTCATAAATATACAACTGACTTC
1 AAATATTTTTTGGTCATAAATATACAACTGACTTC
*
13703890 AAATATTTTTTAGG-CATAAATCTACAACTGACTT
1 AAATATTTTTT-GGTCATAAATATACAACTGACTT
13703924 GACATACACA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 30 0.94
36 2 0.06
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (35 bp):
AAATATTTTTTGGTCATAAATATACAACTGACTTC
Found at i:13705487 original size:24 final size:25
Alignment explanation
Indices: 13705440--13705488 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
13705430 TTTTTTATAA
13705440 ATTTATTTAAATTAAAAATAAAAAT
1 ATTTATTTAAATTAAAAATAAAAAT
*
13705465 ATTTA-TTAAATATAAAAACAAAAA
1 ATTTATTTAAAT-TAAAAATAAAAA
13705489 CAAAAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.27
25 16 0.73
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (25 bp):
ATTTATTTAAATTAAAAATAAAAAT
Found at i:13707800 original size:2 final size:2
Alignment explanation
Indices: 13707793--13707831 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13707783 TTAAAATTGT
13707793 TA 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 TA T
13707832 GAAAAATTGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:13711683 original size:2 final size:2
Alignment explanation
Indices: 13711676--13711703 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13711666 ACTGCCTCAC
13711676 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13711704 TTATGACCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13712561 original size:3 final size:3
Alignment explanation
Indices: 13712549--13712584 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
13712539 AATTAGAAGA
*
13712549 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13712585 GAGGATGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13712595 original size:12 final size:12
Alignment explanation
Indices: 13712580--13712624 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
13712570 AATAATAATA
*
13712580 ATAATGAGGATG
1 ATAATGAAGATG
13712592 ATAATGAAGATG
1 ATAATGAAGATG
* *
13712604 ATGATGATGATG
1 ATAATGAAGATG
13712616 ATTAATGAA
1 A-TAATGAA
13712625 ATATGTTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (12 bp):
ATAATGAAGATG
Found at i:13716545 original size:150 final size:150
Alignment explanation
Indices: 13716357--13716640 Score: 369
Period size: 150 Copynumber: 1.9 Consensus size: 150
13716347 TCATCTCATC
*
13716357 TGAAGTATAACCAGAATGCATTTTGTTTATACTTTTCTGCCAATCTCCTTTCA-TTTT-TCACTT
1 TGAAGTATAACCAGAATGCATTTTGTTTATACTTTTCTGCCAA-CTCCATTCATTTTTATCACTT
* * *
13716420 TTCTT-AGCTAGTAATATTTAATCT-TTGTTGGATTTCATGCCATTGTAACATACAATGGATGAA
65 TTCTTCA--AACT-ATATTTAATCTGTTGTTAGATTTCATGCCATTGTAACATACAATGGATGAA
13716483 ACTGGCATTGGCATGTTGATTCTG
127 ACTGGCATTGGCATGTTGATTCTG
* * * * * *
13716507 TGAAGTATGATCAGAATGCATTTTGTTTCTGCTTTTCTGCCTACTCCATTCATTTTTATTACTTT
1 TGAAGTATAACCAGAATGCATTTTGTTTATACTTTTCTGCCAACTCCATTCATTTTTATCACTTT
* * * * *
13716572 TCTTCAAACTCTATTTAATCTGTTGTTAGATTTCATGTCATTGTGATATACAATGGATGAGACTG
66 TCTTCAAACTATATTTAATCTGTTGTTAGATTTCATGCCATTGTAACATACAATGGATGAAACTG
13716637 GCAT
131 GCAT
13716641 AGTATGTTGA
Statistics
Matches: 115, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
149 18 0.16
150 86 0.75
151 10 0.09
152 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (150 bp):
TGAAGTATAACCAGAATGCATTTTGTTTATACTTTTCTGCCAACTCCATTCATTTTTATCACTTT
TCTTCAAACTATATTTAATCTGTTGTTAGATTTCATGCCATTGTAACATACAATGGATGAAACTG
GCATTGGCATGTTGATTCTG
Found at i:13725944 original size:22 final size:23
Alignment explanation
Indices: 13725898--13725949 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
13725888 TTTTATTTAT
**
13725898 AATTCATTTAATTACAAT-ACTAA
1 AATT-ATTTAATTACAATAAAAAA
*
13725921 AATTATTTAATTATAATAAAAAA
1 AATTATTTAATTACAATAAAAAA
13725944 AATTAT
1 AATTAT
13725950 GTAAAAGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTATTTAATTACAATAAAAAA
Found at i:13734275 original size:3 final size:3
Alignment explanation
Indices: 13734263--13734319 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
13734253 AATTAGAAGA
*
13734263 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13734311 AAT AAT AAT
1 AAT AAT AAT
13734320 GAGGATGATA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13738258 original size:150 final size:150
Alignment explanation
Indices: 13738070--13738353 Score: 369
Period size: 150 Copynumber: 1.9 Consensus size: 150
13738060 TCATCTCATC
*
13738070 TGAAGTATAACCAGAATGCATTTTGTTTATACTTTTCTGCCAATCTCCTTTCA-TTTT-TCACTT
1 TGAAGTATAACCAGAATGCATTTTGTTTATACTTTTCTGCCAA-CTCCATTCATTTTTATCACTT
* * *
13738133 TTCTT-AGCTAGTAATATTTAATCT-TTGTTGGATTTCATGCCATTGTAACATACAATGGATGAA
65 TTCTTCA--AACT-ATATTTAATCTGTTGTTAGATTTCATGCCATTGTAACATACAATGGATGAA
13738196 ACTGGCATTGGCATGTTGATTCTG
127 ACTGGCATTGGCATGTTGATTCTG
* * * * * *
13738220 TGAAGTATGATCAGAATGCATTTTGTTTCTGCTTTTCTGCCTACTCCATTCATTTTTATTACTTT
1 TGAAGTATAACCAGAATGCATTTTGTTTATACTTTTCTGCCAACTCCATTCATTTTTATCACTTT
* * * * *
13738285 TCTTCAAACTCTATTTAATCTGTTGTTAGATTTCATGTCATTGTGATATACAATGGATGAGACTG
66 TCTTCAAACTATATTTAATCTGTTGTTAGATTTCATGCCATTGTAACATACAATGGATGAAACTG
13738350 GCAT
131 GCAT
13738354 AGTATGTTGA
Statistics
Matches: 115, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
149 18 0.16
150 86 0.75
151 10 0.09
152 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.15, T:0.44
Consensus pattern (150 bp):
TGAAGTATAACCAGAATGCATTTTGTTTATACTTTTCTGCCAACTCCATTCATTTTTATCACTTT
TCTTCAAACTATATTTAATCTGTTGTTAGATTTCATGCCATTGTAACATACAATGGATGAAACTG
GCATTGGCATGTTGATTCTG
Found at i:13747681 original size:22 final size:23
Alignment explanation
Indices: 13747635--13747686 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
13747625 TTTTATTTAT
**
13747635 AATTCATTTAATTACAAT-ACTAA
1 AATT-ATTTAATTACAATAAAAAA
*
13747658 AATTATTTAATTATAATAAAAAA
1 AATTATTTAATTACAATAAAAAA
13747681 AATTAT
1 AATTAT
13747687 GTAAAAGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTATTTAATTACAATAAAAAA
Found at i:13748596 original size:12 final size:14
Alignment explanation
Indices: 13748579--13748615 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
13748569 GATTTAATTT
13748579 TTTTTATT-AA-CA
1 TTTTTATTAAATCA
13748591 TTTTTATTAAATCA
1 TTTTTATTAAATCA
*
13748605 TTTTTAATAAA
1 TTTTTATTAAA
13748616 AAATTTCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 8 0.36
13 2 0.09
14 12 0.55
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTTTATTAAATCA
Found at i:13754958 original size:27 final size:27
Alignment explanation
Indices: 13754891--13754958 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
13754881 TTAATTTTAA
* *
13754891 AAAAATTATAATTAAGATTTAAACAAT
1 AAAAATTTTAATTTAGATTTAAACAAT
*
13754918 AAAATTTTTAATTTA-ATTTAAA-ATCAT
1 AAAAATTTTAATTTAGATTTAAACA--AT
13754945 AAAAATTTTAATTT
1 AAAAATTTTAATTT
13754959 TAATAAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 7 0.20
27 27 0.77
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (27 bp):
AAAAATTTTAATTTAGATTTAAACAAT
Found at i:13755392 original size:19 final size:18
Alignment explanation
Indices: 13755368--13755404 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
13755358 ATTATAAATG
13755368 ATATTCTTAATATTTTTAT
1 ATATTCTTAAT-TTTTTAT
13755387 ATATTCTTAATTTTTTAT
1 ATATTCTTAATTTTTTAT
13755405 TAAATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
ATATTCTTAATTTTTTAT
Found at i:13757077 original size:14 final size:14
Alignment explanation
Indices: 13757058--13757084 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13757048 TGGGTTTTTG
13757058 AAGGGATTATTTAT
1 AAGGGATTATTTAT
13757072 AAGGGATTATTTA
1 AAGGGATTATTTA
13757085 AGATTTTTTC
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:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (14 bp):
AAGGGATTATTTAT
Found at i:13757430 original size:64 final size:62
Alignment explanation
Indices: 13757227--13757430 Score: 168
Period size: 64 Copynumber: 3.3 Consensus size: 62
13757217 TTTTTGACCG
* * *
13757227 AAAACACCTTCAATAATCCAATCAATAAATTTTTATGAGGGATTATTAAAGGTGATTTTGGTCA
1 AAAACACCTTCAATAATCTAA-CAATAAATTTTTATGAGGGATTATTAAAGGCGATTTTAGT-A
* * * *** * * *
13757291 AAAATACCTTTAATAATCTATACAAAAAAATTGGAAT-A--GATT-TTGAAGGCGTTTTTGACCT
1 AAAACACCTTCAATAATCTA-AC-AATAAATTTTTATGAGGGATTATTAAAGGCGATTTT-A-GT
13757352 A
62 A
*
13757353 AAAACA--TTCAATAATCTACACAATAAATTTTTATGAGGGATTATTAAAGACGATTTTAGTAA
1 AAAACACCTTCAATAATCTA-ACAATAAATTTTTATGAGGGATTATTAAAGGCGATTTTAGT-A
*
13757415 AAAACGCCTTCAATAA
1 AAAACACCTTCAATAA
13757431 CTTTTTGTTA
Statistics
Matches: 105, Mismatches: 24, Indels: 22
0.70 0.16 0.15
Matches are distributed among these distances:
59 9 0.09
60 14 0.13
61 12 0.11
62 21 0.20
63 12 0.11
64 27 0.26
65 10 0.10
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (62 bp):
AAAACACCTTCAATAATCTAACAATAAATTTTTATGAGGGATTATTAAAGGCGATTTTAGTA
Found at i:13757430 original size:124 final size:126
Alignment explanation
Indices: 13757165--13757430 Score: 335
Period size: 124 Copynumber: 2.1 Consensus size: 126
13757155 TTTTCGTCAG
* * * * *
13757165 AAAAACACTTTCAATAAT-TCATA-GAAAAATTTGGAATGGATTTTTGAAGGTATTTTTGACCGA
1 AAAAACACCTTCAATAATCT-ATACAAAAAAATTGGAATAGATTTTTGAAGGCATTTTTGACCGA
* ** * *
13757228 AAACACCTTCAATAATCCAATCAATAAATTTTTATGAGGGATTATTAAAGGTGATTTTGGTC
65 AAACACATTCAATAATCCAATCAATAAATTTTTATGAGGGATTATTAAAGACGATTTTAGTA
* * * *
13757290 AAAAATACCTTTAATAATCTATACAAAAAAATTGGAATAGA-TTTTGAAGGCGTTTTTGACCTAA
1 AAAAACACCTTCAATAATCTATACAAAAAAATTGGAATAGATTTTTGAAGGCATTTTTGACCGAA
*
13757354 AA-ACATTCAATAATCTACA-CAATAAATTTTTATGAGGGATTATTAAAGACGATTTTAGTA
66 AACACATTCAATAATCCA-ATCAATAAATTTTTATGAGGGATTATTAAAGACGATTTTAGTA
*
13757414 AAAAACGCCTTCAATAA
1 AAAAACACCTTCAATAA
13757431 CTTTTTGTTA
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
124 64 0.53
125 41 0.34
126 15 0.12
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (126 bp):
AAAAACACCTTCAATAATCTATACAAAAAAATTGGAATAGATTTTTGAAGGCATTTTTGACCGAA
AACACATTCAATAATCCAATCAATAAATTTTTATGAGGGATTATTAAAGACGATTTTAGTA
Found at i:13759102 original size:23 final size:24
Alignment explanation
Indices: 13759076--13759142 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 24
13759066 TATATAATGA
13759076 AATATAAATATTA-AAATAAAATT
1 AATATAAATATTATAAATAAAATT
*
13759099 -A-ATAAATATAATAAAT-AAATT
1 AATATAAATATTATAAATAAAATT
13759120 AATATTAAAT-TTATAAATAAAAT
1 AATA-TAAATATTATAAATAAAAT
13759143 CATACTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
21 14 0.38
22 6 0.16
23 8 0.22
24 9 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
AATATAAATATTATAAATAAAATT
Found at i:13759117 original size:27 final size:28
Alignment explanation
Indices: 13759070--13759127 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
13759060 CTACAATATA
*
13759070 TAATGAAATATAAATATTAAAATAAAAT
1 TAATGAAATATAAATAATAAAATAAAAT
* *
13759098 TAAT-AAATAT-AATAAATAAATTAATAT
1 TAATGAAATATAAAT-AATAAAATAAAAT
13759125 TAA
1 TAA
13759128 ATTTATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 3 0.12
27 19 0.73
28 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (28 bp):
TAATGAAATATAAATAATAAAATAAAAT
Found at i:13759140 original size:12 final size:12
Alignment explanation
Indices: 13759099--13759140 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
13759089 AAATAAAATT
13759099 AATAAATATAATA
1 AATAAAT-TAATA
13759112 AATAAATTAAT-
1 AATAAATTAATA
* *
13759123 ATTAAATTTATA
1 AATAAATTAATA
13759135 AATAAA
1 AATAAA
13759141 ATCATACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 9 0.36
12 9 0.36
13 7 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
AATAAATTAATA
Found at i:13760776 original size:25 final size:25
Alignment explanation
Indices: 13760748--13760814 Score: 116
Period size: 25 Copynumber: 2.7 Consensus size: 25
13760738 TAGTAATGTG
13760748 TTCAGAAACACCATTCAACAAACCA
1 TTCAGAAACACCATTCAACAAACCA
*
13760773 TTCAGAAACACCATTCAAGAAACCA
1 TTCAGAAACACCATTCAACAAACCA
*
13760798 TTCAAAAACACCATTCA
1 TTCAGAAACACCATTCA
13760815 GTAAATAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.48, C:0.30, G:0.04, T:0.18
Consensus pattern (25 bp):
TTCAGAAACACCATTCAACAAACCA
Found at i:13760787 original size:13 final size:13
Alignment explanation
Indices: 13760748--13760815 Score: 81
Period size: 13 Copynumber: 5.4 Consensus size: 13
13760738 TAGTAATGTG
13760748 TTCAGAAACACCA
1 TTCAGAAACACCA
13760761 TTCA-ACAA-ACCA
1 TTCAGA-AACACCA
13760773 TTCAGAAACACCA
1 TTCAGAAACACCA
13760786 TTCA-AGAA-ACCA
1 TTCAGA-AACACCA
*
13760798 TTCAAAAACACCA
1 TTCAGAAACACCA
13760811 TTCAG
1 TTCAG
13760816 TAAATAATAC
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
12 22 0.46
13 26 0.54
ACGTcount: A:0.47, C:0.29, G:0.06, T:0.18
Consensus pattern (13 bp):
TTCAGAAACACCA
Found at i:13760966 original size:207 final size:207
Alignment explanation
Indices: 13760611--13761012 Score: 714
Period size: 207 Copynumber: 1.9 Consensus size: 207
13760601 GTTTTGAGTT
13760611 AATAATACCTGTGATTTTAATCATAACTATACAAAATACACCAAAATGATTGTCTAAATTTAACA
1 AATAATACCTGTGATTTTAATCATAACTATACAAAATACACCAAAATGATTGTCTAAATTTAACA
* * * *
13760676 TGTACGTAATAAAATACAACCAATATCATACTACGTACAGAAACACCATTCAGCAAACCAATTAG
66 TGTACGTAATAAAATACAACCAATATCACACTACGTACAGAAACACCATTCAACAAACCAATCAC
*
13760741 TAATGTGTTCAGAAACACCATTCAACAAACCATTCAGAAACACCATTCAAGAAACCATTCAAAAA
131 TAATGTGTTCAAAAACACCATTCAACAAACCATTCAGAAACACCATTCAAGAAACCATTCAAAAA
13760806 CACCATTCAGTA
196 CACCATTCAGTA
*
13760818 AATAATACCTGTGATTTTAATCATAATTATACAAAATACACCAAAATGATTGTCTAAATTTAACA
1 AATAATACCTGTGATTTTAATCATAACTATACAAAATACACCAAAATGATTGTCTAAATTTAACA
* *
13760883 TGTACGTAATAAAATACAACCAATATCACACTATGTATAGAAACACCATTCAACAAACCAATCAC
66 TGTACGTAATAAAATACAACCAATATCACACTACGTACAGAAACACCATTCAACAAACCAATCAC
* *
13760948 TAATGTGTTCAAAAACACCATTCAGCAAACCATTCAGAAACACCATTTAAGAAACCATTCAAAAA
131 TAATGTGTTCAAAAACACCATTCAACAAACCATTCAGAAACACCATTCAAGAAACCATTCAAAAA
13761013 TACTATTTAG
Statistics
Matches: 185, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
207 185 1.00
ACGTcount: A:0.47, C:0.21, G:0.07, T:0.25
Consensus pattern (207 bp):
AATAATACCTGTGATTTTAATCATAACTATACAAAATACACCAAAATGATTGTCTAAATTTAACA
TGTACGTAATAAAATACAACCAATATCACACTACGTACAGAAACACCATTCAACAAACCAATCAC
TAATGTGTTCAAAAACACCATTCAACAAACCATTCAGAAACACCATTCAAGAAACCATTCAAAAA
CACCATTCAGTA
Found at i:13760981 original size:12 final size:12
Alignment explanation
Indices: 13760964--13761119 Score: 91
Period size: 12 Copynumber: 12.3 Consensus size: 12
13760954 GTTCAAAAAC
13760964 ACCATTCAGCAA
1 ACCATTCAGCAA
*
13760976 ACCATTCAGAAA
1 ACCATTCAGCAA
*
13760988 CACCATTTAAG-AA
1 -ACCA-TTCAGCAA
**
13761001 ACCATTCAAAAA
1 ACCATTCAGCAA
* *
13761013 TACTATTTAGCAA
1 -ACCATTCAGCAA
*
13761026 ACCATTCAGAAA
1 ACCATTCAGCAA
*
13761038 CACCATTTAAG-AA
1 -ACCA-TTCAGCAA
**
13761051 ACCATTCAAAAA
1 ACCATTCAGCAA
*
13761063 CACCATTCAGTAA
1 -ACCATTCAGCAA
13761076 ACCATTCAGCAA
1 ACCATTCAGCAA
*
13761088 ACCAATATCATACAA
1 ACC-AT-TCA-GCAA
*
13761103 TACCATTAAGCAA
1 -ACCATTCAGCAA
13761116 ACCA
1 ACCA
13761120 CAATATTTAA
Statistics
Matches: 112, Mismatches: 20, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
11 6 0.05
12 50 0.45
13 35 0.31
14 13 0.12
15 5 0.04
16 3 0.03
ACGTcount: A:0.47, C:0.26, G:0.06, T:0.21
Consensus pattern (12 bp):
ACCATTCAGCAA
Found at i:13760983 original size:25 final size:24
Alignment explanation
Indices: 13760955--13761083 Score: 150
Period size: 25 Copynumber: 5.2 Consensus size: 24
13760945 CACTAATGTG
*
13760955 TTCAAAAACACCATTCAGCAAACCA
1 TTCAAAAACACCATTAAG-AAACCA
*
13760980 TTCAGAAACACCATTTAAGAAACCA
1 TTCAAAAACACCA-TTAAGAAACCA
* * *
13761005 TTCAAAAATACTATTTAGCAAACCA
1 TTCAAAAACACCATTAAG-AAACCA
*
13761030 TTCAGAAACACCATTTAAGAAACCA
1 TTCAAAAACACCA-TTAAGAAACCA
*
13761055 TTCAAAAACACCATTCAGTAAACCA
1 TTCAAAAACACCATTAAG-AAACCA
13761080 TTCA
1 TTCA
13761084 GCAAACCAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
24 8 0.09
25 72 0.82
26 8 0.09
ACGTcount: A:0.47, C:0.26, G:0.05, T:0.22
Consensus pattern (24 bp):
TTCAAAAACACCATTAAGAAACCA
Found at i:13761012 original size:50 final size:50
Alignment explanation
Indices: 13760955--13761089 Score: 225
Period size: 50 Copynumber: 2.7 Consensus size: 50
13760945 CACTAATGTG
13760955 TTCAAAAACACCATTCAGCAAACCATTCAGAAACACCATTTAAGAAACCA
1 TTCAAAAACACCATTCAGCAAACCATTCAGAAACACCATTTAAGAAACCA
* * *
13761005 TTCAAAAATACTATTTAGCAAACCATTCAGAAACACCATTTAAGAAACCA
1 TTCAAAAACACCATTCAGCAAACCATTCAGAAACACCATTTAAGAAACCA
*
13761055 TTCAAAAACACCATTCAGTAAACCATTCAGCAAAC
1 TTCAAAAACACCATTCAGCAAACCATTCAG-AAAC
13761090 CAATATCATA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 73 0.95
51 4 0.05
ACGTcount: A:0.47, C:0.26, G:0.06, T:0.21
Consensus pattern (50 bp):
TTCAAAAACACCATTCAGCAAACCATTCAGAAACACCATTTAAGAAACCA
Found at i:13765225 original size:38 final size:38
Alignment explanation
Indices: 13765183--13765256 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
13765173 AGACATGTTC
* ** *
13765183 GAAGTGATTACTTAATGTTAGGAAGTTTTGTTATATTT
1 GAAGTGATTACTTAATGGTAAAAAGTTTTATTATATTT
*
13765221 GAAGTGGTTACTTAATGGTAAAAAGTTTTATTATAT
1 GAAGTGATTACTTAATGGTAAAAAGTTTTATTATAT
13765257 GGCACATCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.45
Consensus pattern (38 bp):
GAAGTGATTACTTAATGGTAAAAAGTTTTATTATATTT
Found at i:13769058 original size:160 final size:161
Alignment explanation
Indices: 13768886--13769187 Score: 385
Period size: 160 Copynumber: 1.9 Consensus size: 161
13768876 TTTTTGTGTC
** * * * *
13768886 GTTAAAAGGTAAAAAT-GCAAATTAATAGTTATTGGTTTATTTTAATAGTTTTGATAG-TTTCAA
1 GTTAAAAGGTAAAAATAAAAAATT-ATAGTTAATGCTTTATTTTAACAGTTTGGATAGCTTT-AA
* * *
13768949 TACATGATATTAAATTTATCCAAATTA-TGAACTTAGTTGCTATAATTGATATGTATGAAAAAGT
64 TACATGATATTAAACTTATCCAAATGATTGAACTTAGTTGCTACAATTGATATGTATGAAAAAGT
* *
13769013 TATTGTTTACGTCTATTTAGGACTTTTTGTACT
129 TATCGTTTAAGTCTATTTAGGACTTTTTGTACT
* *
13769046 GTTAATAGGTAAAAATAAAAAATTATTGTTAATGCTTTATTTTAACAGTTTGGATAGCTTTAATA
1 GTTAAAAGGTAAAAATAAAAAATTATAGTTAATGCTTTATTTTAACAGTTTGGATAGCTTTAATA
** * * ** *
13769111 CATGATATTAAACTTATCTGAATGATTGAACTTGGTTTCTACGGTTGATATGTGTGAAAAAGTTA
66 CATGATATTAAACTTATCCAAATGATTGAACTTAGTTGCTACAATTGATATGTATGAAAAAGTTA
13769176 TCGTTTAAGTCT
131 TCGTTTAAGTCT
13769188 GTTTGAGACC
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
160 68 0.57
161 51 0.43
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.42
Consensus pattern (161 bp):
GTTAAAAGGTAAAAATAAAAAATTATAGTTAATGCTTTATTTTAACAGTTTGGATAGCTTTAATA
CATGATATTAAACTTATCCAAATGATTGAACTTAGTTGCTACAATTGATATGTATGAAAAAGTTA
TCGTTTAAGTCTATTTAGGACTTTTTGTACT
Found at i:13769222 original size:161 final size:160
Alignment explanation
Indices: 13768921--13769229 Score: 374
Period size: 161 Copynumber: 1.9 Consensus size: 160
13768911 TAGTTATTGG
* * * *
13768921 TTTATTTTAATAGTTTTGATAGTTTCAATACATGATATTAAATTTATCCAAATTATGAACTTAGT
1 TTTATTTTAACAGTTTGGATAGTTTCAATACATGATATTAAACTTATCCAAATGATGAACTTAGT
* * *
13768986 TGCTATAATTGATATGTATGAAAAAGTTATTGTTTACGTCTATTTAGGACTTTTTGTACTGTTAA
66 TGCTACAATTGATATGTATGAAAAAGTTATCGTTTAAGTCTATTTAGGACTTTTTGTACTGTTAA
*
13769051 TAGGTAAAAATAAAAAATTATTGTTAATGC
131 TAGATAAAAATAAAAAATTATTGTTAATGC
** *
13769081 TTTATTTTAACAGTTTGGATAGCTTT-AATACATGATATTAAACTTATCTGAATGATTGAACTTG
1 TTTATTTTAACAGTTTGGATAG-TTTCAATACATGATATTAAACTTATCCAAATGA-TGAACTTA
* ** * * *
13769145 GTTTCTACGGTTGATATGTGTGAAAAAGTTATCGTTTAAGTCTGTTT-GAGACCATTTTTG-CCT
64 GTTGCTACAATTGATATGTATGAAAAAGTTATCGTTTAAGTCTATTTAG-GA-C-TTTTTGTACT
* *
13769208 TTTAA-AGATAAAAATACAAAAT
126 GTTAATAGATAAAAATAAAAAAT
13769230 AAACTTTTGG
Statistics
Matches: 125, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
160 46 0.37
161 66 0.53
162 7 0.06
163 6 0.05
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.43
Consensus pattern (160 bp):
TTTATTTTAACAGTTTGGATAGTTTCAATACATGATATTAAACTTATCCAAATGATGAACTTAGT
TGCTACAATTGATATGTATGAAAAAGTTATCGTTTAAGTCTATTTAGGACTTTTTGTACTGTTAA
TAGATAAAAATAAAAAATTATTGTTAATGC
Found at i:13775710 original size:3 final size:3
Alignment explanation
Indices: 13775702--13775743 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
13775692 GGCGTCGGTG
* *
13775702 ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT -TT A-C ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13775744 GTTGATTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 3 0.09
3 30 0.91
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:13777229 original size:21 final size:21
Alignment explanation
Indices: 13777182--13777229 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
13777172 TTGTTCATAA
*
13777182 ATAT-AAAAATTTTATCTTAT
1 ATATAAAAAATTTTATATTAT
13777202 A-ATTAAAAAATTTTATATTAT
1 ATA-TAAAAAATTTTATATTAT
13777223 ATATAAA
1 ATATAAA
13777230 TTTATTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 20 0.83
22 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATAAAAAATTTTATATTAT
Found at i:13777232 original size:18 final size:17
Alignment explanation
Indices: 13777209--13777246 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
13777199 TATAATTAAA
*
13777209 AAATTTTATATTATATAT
1 AAATTTTAT-TAATATAT
13777227 AAA-TTTATTAATATAT
1 AAATTTTATTAATATAT
13777243 AAAT
1 AAAT
13777247 ACACTCTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 10 0.56
17 5 0.28
18 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTTTATTAATATAT
Found at i:13779476 original size:3 final size:3
Alignment explanation
Indices: 13779470--13779502 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
13779460 TGGTTGTAAA
13779470 ATT ATT ATT -TT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13779503 ATTCTATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:13779847 original size:13 final size:13
Alignment explanation
Indices: 13779829--13779872 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
13779819 TTTTTATGTG
13779829 ATTATTTATTATT
1 ATTATTTATTATT
13779842 ATTATTGT-TTATT
1 ATTATT-TATTATT
13779855 A-T-TTTATTA-T
1 ATTATTTATTATT
13779865 ATTATTTA
1 ATTATTTA
13779873 AAAATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
10 3 0.11
11 6 0.22
12 5 0.19
13 12 0.44
14 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (13 bp):
ATTATTTATTATT
Found at i:13779869 original size:16 final size:16
Alignment explanation
Indices: 13779829--13779870 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
13779819 TTTTTATGTG
13779829 ATTATTTATTATTATT
1 ATTATTTATTATTATT
*
13779845 ATTGTTTATTATT-TT
1 ATTATTTATTATTATT
13779860 ATTATATTATT
1 ATTAT-TTATT
13779871 TAAAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
ATTATTTATTATTATT
Found at i:13783664 original size:2 final size:2
Alignment explanation
Indices: 13783657--13783681 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13783647 TCAATGTCTT
13783657 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 T
13783682 TCTAAACTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13785154 original size:161 final size:160
Alignment explanation
Indices: 13784853--13785161 Score: 358
Period size: 161 Copynumber: 1.9 Consensus size: 160
13784843 TAGTTATTGG
* * * *
13784853 TTTATTTTAATAGTTTTGATAGTTTCAATACATGATATTAAATTTATCCAAATTATGAACTTAGT
1 TTTATTTTAACAGTTTGGATAGTTTCAATACATGATATTAAACTTATCCAAATGATGAACTTAGT
* * * *
13784918 TGCTATAATTGATATGTATGAAAAAGTTATTGTTTACGTCTATTTAGGACTTTTTGTACTGTTAA
66 TGCTACAATTGATAGGTATGAAAAAGTTATCGTTTAAGTCTATTTAGGACTTTTTGTACTGTTAA
*
13784983 TAGGTAAAAATAAAAAATTATTGTTAATGC
131 TAGATAAAAATAAAAAATTATTGTTAATGC
**
13785013 TTTATTTTAACAGTTTGGATAGCTTT-AATACATGATATTAAACTTATCTGAATGATTGAACTT-
1 TTTATTTTAACAGTTTGGATAG-TTTCAATACATGATATTAAACTTATCCAAATGA-TGAACTTA
* ** * * *
13785076 GATTTCTACGGTTGATAGGTGTGAAAAAGTTATCGTTTAAGTCTGTTT-GAGACCATTTTTG-CC
64 G-TTGCTACAATTGATAGGTATGAAAAAGTTATCGTTTAAGTCTATTTAG-GA-C-TTTTTGTAC
* *
13785139 TTTTAA-AGATAAAAATACAAAAT
125 TGTTAATAGATAAAAATAAAAAAT
13785162 AAACTTTTGG
Statistics
Matches: 124, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
160 47 0.38
161 64 0.52
162 7 0.06
163 6 0.05
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (160 bp):
TTTATTTTAACAGTTTGGATAGTTTCAATACATGATATTAAACTTATCCAAATGATGAACTTAGT
TGCTACAATTGATAGGTATGAAAAAGTTATCGTTTAAGTCTATTTAGGACTTTTTGTACTGTTAA
TAGATAAAAATAAAAAATTATTGTTAATGC
Found at i:13791640 original size:3 final size:3
Alignment explanation
Indices: 13791632--13791673 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
13791622 GGCGTCGGTG
* *
13791632 ATT ATT ATT ATT ATT ATT AGT ATT ATT ATT -TT A-C ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
13791674 GTTGATTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 3 0.09
3 30 0.91
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:13793138 original size:21 final size:21
Alignment explanation
Indices: 13793091--13793138 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
13793081 TTGTTCATAA
*
13793091 ATAT-AAAAATTTTATCTTAT
1 ATATAAAAAATTTTATATTAT
13793111 A-ATTAAAAAATTTTATATTAT
1 ATA-TAAAAAATTTTATATTAT
13793132 ATATAAA
1 ATATAAA
13793139 TTTATTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 20 0.83
22 1 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATATAAAAAATTTTATATTAT
Found at i:13793141 original size:18 final size:17
Alignment explanation
Indices: 13793118--13793155 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
13793108 TATAATTAAA
*
13793118 AAATTTTATATTATATAT
1 AAATTTTAT-TAATATAT
13793136 AAA-TTTATTAATATAT
1 AAATTTTATTAATATAT
13793152 AAAT
1 AAAT
13793156 ACACTCTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 10 0.56
17 5 0.28
18 3 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATTTTATTAATATAT
Found at i:13795343 original size:3 final size:3
Alignment explanation
Indices: 13795337--13795382 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
13795327 TTTGTAAATA
13795337 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13795383 TCATATTCTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13795739 original size:13 final size:12
Alignment explanation
Indices: 13795720--13795758 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
13795710 TTTATTGTGA
13795720 TTATTTATTATT
1 TTATTTATTATT
*
13795732 ATTGTTTATTATT
1 -TTATTTATTATT
13795745 TTATTATATTATT
1 TTATT-TATTATT
13795758 T
1 T
13795759 AAAAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (12 bp):
TTATTTATTATT
Found at i:13796102 original size:9 final size:9
Alignment explanation
Indices: 13796090--13796140 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
13796080 ATTTATCATT
13796090 TTTATTTTA
1 TTTATTTTA
13796099 TTTATTTTA
1 TTTATTTTA
*
13796108 TTTATCTTTT
1 TTTAT-TTTA
13796118 TTATAATTTTA
1 TT-T-ATTTTA
*
13796129 ATTATTTT-
1 TTTATTTTA
13796137 TTTA
1 TTTA
13796141 GCAAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
8 3 0.09
9 19 0.54
10 6 0.17
11 5 0.14
12 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTATTTTA
Found at i:13796126 original size:21 final size:20
Alignment explanation
Indices: 13796102--13796140 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13796092 TATTTTATTT
*
13796102 ATTTTATTTATCTTTTTTATA
1 ATTTTAATTAT-TTTTTTATA
13796123 ATTTTAATTATTTTTTTA
1 ATTTTAATTATTTTTTTA
13796141 GCAAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTTTAATTATTTTTTTATA
Found at i:13796332 original size:6 final size:6
Alignment explanation
Indices: 13796321--13796367 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
13796311 TTATTTCTAA
* * * *
13796321 AATAAC AATAAC AACAAC AATAAC AATAAT AATAAT AATAAT AATAA
1 AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAAC AATAA
13796368 TATCAACAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (6 bp):
AATAAC
Found at i:13796345 original size:9 final size:9
Alignment explanation
Indices: 13796321--13796369 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
13796311 TTATTTCTAA
13796321 AATAACAAT
1 AATAACAAT
* *
13796330 AACAACAAC
1 AATAACAAT
13796339 AATAACAAT
1 AATAACAAT
*
13796348 AATAATAAT
1 AATAACAAT
*
13796357 AATAATAAT
1 AATAACAAT
13796366 AATA
1 AATA
13796370 TCAACAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.22
Consensus pattern (9 bp):
AATAACAAT
Found at i:13796351 original size:3 final size:3
Alignment explanation
Indices: 13796339--13796369 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
13796329 TAACAACAAC
*
13796339 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13796370 TCAACAAAAT
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:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:13796406 original size:20 final size:21
Alignment explanation
Indices: 13796375--13796430 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
13796365 TAATATCAAC
*
13796375 AAAATAA-ATAAAATAAC-CT
1 AAAATAACTTAAAATAACTCT
*
13796394 AAAATAACTTAAAATAACTTT
1 AAAATAACTTAAAATAACTCT
**
13796415 AAAATAAAATAAAATA
1 AAAATAACTTAAAATA
13796431 CAAAAAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.23
20 9 0.29
21 15 0.48
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAATAACTTAAAATAACTCT
Found at i:13796418 original size:11 final size:10
Alignment explanation
Indices: 13796383--13796421 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
13796373 ACAAAATAAA
*
13796383 TAAAATAACC
1 TAAAATAACT
13796393 TAAAATAACT
1 TAAAATAACT
13796403 TAAAATAACTT
1 TAAAATAAC-T
13796414 TAAAATAA
1 TAAAATAA
13796422 AATAAAATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAAATAACT
Found at i:13796456 original size:23 final size:25
Alignment explanation
Indices: 13796415--13796466 Score: 90
Period size: 23 Copynumber: 2.2 Consensus size: 25
13796405 AAATAACTTT
13796415 AAAATAAAATAAAATACAAAAAAAG
1 AAAATAAAATAAAATACAAAAAAAG
13796440 AAAATAAAA-AAAA-ACAAAAAAAG
1 AAAATAAAATAAAATACAAAAAAAG
13796463 AAAA
1 AAAA
13796467 ACTTGCTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 14 0.52
24 4 0.15
25 9 0.33
ACGTcount: A:0.85, C:0.04, G:0.04, T:0.08
Consensus pattern (25 bp):
AAAATAAAATAAAATACAAAAAAAG
Found at i:13796458 original size:20 final size:20
Alignment explanation
Indices: 13796415--13796458 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
13796405 AAATAACTTT
* *
13796415 AAAATAAAATAAAATACAAA
1 AAAAGAAAATAAAATAAAAA
13796435 AAAAGAAAATAAAA-AAAAA
1 AAAAGAAAATAAAATAAAAA
13796454 CAAAA
1 -AAAA
13796459 AAAGAAAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.84, C:0.05, G:0.02, T:0.09
Consensus pattern (20 bp):
AAAAGAAAATAAAATAAAAA
Found at i:13796466 original size:14 final size:15
Alignment explanation
Indices: 13796414--13796468 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
13796404 AAAATAACTT
* *
13796414 TAAAATAAAATAAAA
1 TAAAAAAAAACAAAA
* *
13796429 TACAAAAAAAGAAAA
1 TAAAAAAAAACAAAA
13796444 TAAAAAAAAACAAAA
1 TAAAAAAAAACAAAA
*
13796459 -AAAGAAAAAC
1 TAAAAAAAAAC
13796469 TTGCTAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
14 9 0.26
15 25 0.74
ACGTcount: A:0.82, C:0.05, G:0.04, T:0.09
Consensus pattern (15 bp):
TAAAAAAAAACAAAA
Found at i:13797260 original size:4 final size:4
Alignment explanation
Indices: 13797253--13797278 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
13797243 TTTTTTTTAG
13797253 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
13797279 CAATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:13797288 original size:3 final size:3
Alignment explanation
Indices: 13797275--13797304 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
13797265 ATTAATTAAT
13797275 TAA TCAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA
13797305 TAAACAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13797319 original size:14 final size:15
Alignment explanation
Indices: 13797302--13797330 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13797292 AATAATAATA
13797302 ATAT-AAACAAAATT
1 ATATCAAACAAAATT
13797316 ATATCAAACAAAATT
1 ATATCAAACAAAATT
13797331 GGTGCCTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
ATATCAAACAAAATT
Found at i:13797543 original size:39 final size:39
Alignment explanation
Indices: 13797497--13797742 Score: 233
Period size: 39 Copynumber: 6.3 Consensus size: 39
13797487 AGAAGCTATG
* * *
13797497 AAACTTTAAATTTAAAAGGCTCCTCTAACCAGAGGCAAC
1 AAACTTTAAATTCAAAAAGCTCCTCTCACCAGAGGCAAC
* * * * **
13797536 AAACTTTAAATGTTAAAAAGTTCCTTTCATCAGAGGCATT
1 AAACTTTAAAT-TCAAAAAGCTCCTCTCACCAGAGGCAAC
* * * * *
13797576 AAACTTTAAATTC-AAAAGACTCTTTTTACTAGAGGCAAT
1 AAACTTTAAATTCAAAAAG-CTCCTCTCACCAGAGGCAAC
* * *
13797615 GAACTTTAAATTCAAAAAGCTTCTCTCACCAGAGGTAAC
1 AAACTTTAAATTCAAAAAGCTCCTCTCACCAGAGGCAAC
* * * * *
13797654 GAATTTTAAATTCAAAAGGCTTCTCTCATCAGAGGCAAC
1 AAACTTTAAATTCAAAAAGCTCCTCTCACCAGAGGCAAC
* * *
13797693 AAACTTTAAATTTAAAAAGCTCCTCTAACCAAAGGCAAC
1 AAACTTTAAATTCAAAAAGCTCCTCTCACCAGAGGCAAC
*
13797732 GAACTTTAAAT
1 AAACTTTAAAT
13797743 AGCTCATTTA
Statistics
Matches: 169, Mismatches: 35, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
38 5 0.03
39 127 0.75
40 37 0.22
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (39 bp):
AAACTTTAAATTCAAAAAGCTCCTCTCACCAGAGGCAAC
Found at i:13797736 original size:117 final size:118
Alignment explanation
Indices: 13797498--13797742 Score: 280
Period size: 117 Copynumber: 2.1 Consensus size: 118
13797488 GAAGCTATGA
* * * *
13797498 AACTTTAAATTTAAAAGGCTCCTCTAACCAGAGGCAACAAACTTTAAATGTTAAAAAGTTCCTTT
1 AACTTTAAATTCAAAAAGCTCCTCTAACCAGAGGCAACAAACTTTAAATGTCAAAAAGTTCCTCT
** * * * * * * *
13797563 CATCAGAGGCATTAAACTTTAAATTCAAAAGACTCTTTTTACTAGAGGCAATG
66 CATCAGAGGCAACAAACTTTAAATTAAAAAGACTCCTCTAACCAAAGGCAACG
* * * * * *
13797616 AACTTTAAATTCAAAAAGCTTCTCTCACCAGAGGTAACGAATTTTAAAT-TCAAAAGGCTT-CTC
1 AACTTTAAATTCAAAAAGCTCCTCTAACCAGAGGCAACAAACTTTAAATGTCAAAAAG-TTCCTC
13797679 TCATCAGAGGCAACAAACTTTAAATTTAAAAAG-CTCCTCTAACCAAAGGCAACG
65 TCATCAGAGGCAACAAACTTTAAA-TTAAAAAGACTCCTCTAACCAAAGGCAACG
13797733 AACTTTAAAT
1 AACTTTAAAT
13797743 AGCTCATTTA
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
117 55 0.52
118 51 0.48
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.29
Consensus pattern (118 bp):
AACTTTAAATTCAAAAAGCTCCTCTAACCAGAGGCAACAAACTTTAAATGTCAAAAAGTTCCTCT
CATCAGAGGCAACAAACTTTAAATTAAAAAGACTCCTCTAACCAAAGGCAACG
Found at i:13797747 original size:33 final size:33
Alignment explanation
Indices: 13797703--13797775 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
13797693 AAACTTTAAA
* * * *
13797703 TTTAAAAAGCTCCTCTAACCAAAGGCAACGAAC
1 TTTAAATAGCTCATCTAACCAAAAGCAACAAAC
*
13797736 TTTAAATAGCTCATTTAACCAAAAGCAACAAAC
1 TTTAAATAGCTCATCTAACCAAAAGCAACAAAC
13797769 TTTAAAT
1 TTTAAAT
13797776 TAAAAATCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (33 bp):
TTTAAATAGCTCATCTAACCAAAAGCAACAAAC
Found at i:13797988 original size:74 final size:74
Alignment explanation
Indices: 13797875--13798021 Score: 197
Period size: 74 Copynumber: 2.0 Consensus size: 74
13797865 AATTAACAAG
* * * * * * *
13797875 CTCATTTGACCAAAGGCTATAAAATTTTAAATGTTAAAAGGCTCATCTGACTAGAGGCAGTGAAC
1 CTCATTTAACCAAAGGCAATAAAACTTTAAATGTTAAAAGGCTCATCTAACCAAAGGCAATGAAC
13797940 TTTAAATTA
66 TTTAAATTA
* *
13797949 CTCATTTAACCAAAGGCAAT-AAACTTTAAATGTTAAAAAGGCTCTTTTAACCAAAGGCAATGAA
1 CTCATTTAACCAAAGGCAATAAAACTTTAAATGTT-AAAAGGCTCATCTAACCAAAGGCAATGAA
13798013 CTTTAAATT
65 CTTTAAATT
13798022 CAAAAGGCTG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
73 13 0.21
74 50 0.79
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (74 bp):
CTCATTTAACCAAAGGCAATAAAACTTTAAATGTTAAAAGGCTCATCTAACCAAAGGCAATGAAC
TTTAAATTA
Found at i:13798306 original size:26 final size:26
Alignment explanation
Indices: 13798275--13798329 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
13798265 TTTTTCAATG
* *
13798275 TTTGTTTCCTTTCTTTTTCTTTTGAT
1 TTTGTTTCCTTTCTTCTTCTCTTGAT
*
13798301 TTTGTTTTCTTTCTTCTTCTCTTGAT
1 TTTGTTTCCTTTCTTCTTCTCTTGAT
13798327 TTT
1 TTT
13798330 CATGCATTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.04, C:0.16, G:0.07, T:0.73
Consensus pattern (26 bp):
TTTGTTTCCTTTCTTCTTCTCTTGAT
Found at i:13809896 original size:20 final size:21
Alignment explanation
Indices: 13809863--13809901 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
13809853 TTGTGATTAA
*
13809863 TTTTTATTATTATTGTTTATT
1 TTTTTATTATTATTATTTATT
*
13809884 TTTTTGTTA-TATTATTTA
1 TTTTTATTATTATTATTTA
13809902 AAAATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTTATTATTATTATTTATT
Found at i:13810252 original size:10 final size:10
Alignment explanation
Indices: 13810220--13810272 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
13810210 ATTTAAACAA
13810220 TTTATCATTT
1 TTTATCATTT
13810230 TTTAT--TTT
1 TTTATCATTT
13810238 ATTTATCATTT
1 -TTTATCATTT
*
13810249 TTTATAATTT
1 TTTATCATTT
*
13810259 TATTATTATTT
1 T-TTATCATTT
13810270 TTT
1 TTT
13810273 TAGCAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
8 3 0.08
9 5 0.14
10 17 0.46
11 12 0.32
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTATCATTT
Found at i:13810274 original size:22 final size:22
Alignment explanation
Indices: 13810219--13810272 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
13810209 CATTTAAACA
13810219 ATTTATCA-TTTTT-T-ATTTT
1 ATTTATCATTTTTTATAATTTT
13810238 ATTTATCATTTTTTATAATTTT
1 ATTTATCATTTTTTATAATTTT
*
13810260 A-TTATTATTTTTT
1 ATTTATCATTTTTT
13810273 TAGCAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 8 0.26
20 5 0.16
21 12 0.39
22 6 0.19
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.72
Consensus pattern (22 bp):
ATTTATCATTTTTTATAATTTT
Found at i:13810484 original size:9 final size:9
Alignment explanation
Indices: 13810454--13810500 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
13810444 TTGTTTCTAA
13810454 AATAACAAC
1 AATAACAAC
*
13810463 AACAACAAC
1 AATAACAAC
*
13810472 AATAACAAT
1 AATAACAAC
*
13810481 AATAACAAT
1 AATAACAAC
*
13810490 AATATCAAC
1 AATAACAAC
13810499 AA
1 AA
13810501 AATAAATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.66, C:0.19, G:0.00, T:0.15
Consensus pattern (9 bp):
AATAACAAC
Found at i:13810582 original size:18 final size:18
Alignment explanation
Indices: 13810528--13810583 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
13810518 CAGAAAGAAA
*
13810528 AAAATAAATAAAT-AACTT
1 AAAATAAA-AAATAAAATT
13810546 AAAATAACATAAAATTAAAATT
1 AAAAT-A-A-AAAA-TAAAATT
13810568 AAAATAAAAAATAAAA
1 AAAATAAAAAATAAAA
13810584 AAGGAAAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
18 10 0.31
19 5 0.16
20 5 0.16
21 3 0.09
22 9 0.28
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAATAAAAAATAAAATT
Found at i:13811457 original size:3 final size:3
Alignment explanation
Indices: 13811449--13811480 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13811439 ATTAATTAAT
13811449 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13811481 TAAACAAAAT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:13811557 original size:4 final size:4
Alignment explanation
Indices: 13811548--13811573 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
13811538 TTTTTTATAG
13811548 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
13811574 AATAATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:13811601 original size:14 final size:15
Alignment explanation
Indices: 13811584--13811612 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13811574 AATAATAATA
13811584 ATAT-AAACAAAATT
1 ATATCAAACAAAATT
13811598 ATATCAAACAAAATT
1 ATATCAAACAAAATT
13811613 GGAGCCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
ATATCAAACAAAATT
Found at i:13812008 original size:86 final size:85
Alignment explanation
Indices: 13811913--13812094 Score: 215
Period size: 86 Copynumber: 2.1 Consensus size: 85
13811903 GTAATTTTTG
* * * *
13811913 TAATAATGATTAGAGGGTCTCATAGTAACATTAACT-AATTATAATATGA-ACGGTATTTTTGTA
1 TAATTATGATTAAAAGGTATCATAGTAACATTAA-TAAATTATAATATGATA-GGTA-TTTTGTA
13811976 ATTATAATAAGAGGATAATTTCA
63 ATTATAATAAGAGGATAATTTCA
* ** * *
13811999 TAATTATGATTAAAAGGTATTATAGTAATTTTGATAAATTATAATATTATAGGTATTTTGTAATT
1 TAATTATGATTAAAAGGTATCATAGTAACATTAATAAATTATAATATGATAGGTATTTTGTAATT
** *
13812064 ATGGTAAGAGGATATTTTCA
66 ATAATAAGAGGATAATTTCA
13812084 TAATTATGATT
1 TAATTATGATT
13812095 GTAGGATTAT
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
85 39 0.48
86 42 0.51
87 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.15, T:0.42
Consensus pattern (85 bp):
TAATTATGATTAAAAGGTATCATAGTAACATTAATAAATTATAATATGATAGGTATTTTGTAATT
ATAATAAGAGGATAATTTCA
Found at i:13812056 original size:27 final size:25
Alignment explanation
Indices: 13812016--13812065 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
13812006 GATTAAAAGG
13812016 TATTATAGTAATTTTGATAAATTATAA
1 TATTATAGTAATTTTG-T-AATTATAA
13812043 TATTATAGGT-ATTTTGTAATTAT
1 TATTATA-GTAATTTTGTAATTAT
13812066 GGTAAGAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.27
26 1 0.05
27 13 0.59
28 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (25 bp):
TATTATAGTAATTTTGTAATTATAA
Found at i:13812124 original size:85 final size:85
Alignment explanation
Indices: 13811949--13812157 Score: 244
Period size: 85 Copynumber: 2.4 Consensus size: 85
13811939 AACATTAACT
*
13811949 AATTATAATATGAACGGTATTTTTGTAATTATAATAAGAGGATAATTTCATAATTATGATTAAAA
1 AATTATAATATGAACGGTA-TTTTGTAATTATGATAAGAGGATAATTTCATAATTATGATTAAAA
* *
13812014 GGTATTATAGTAATTTTGATA
65 GGTATTAAAGTAACTTTGATA
* * * **
13812035 AATTATAATATTATA-GGTATTTTGTAATTATGGTAAGAGGATATTTTCATAATTATGATT-GTA
1 AATTATAATATGA-ACGGTATTTTGTAATTATGATAAGAGGATAATTTCATAATTATGATTAAAA
*
13812098 GGATTATTAAAGTAACTTTG-TC
65 GG--TATTAAAGTAACTTTGATA
* * * *
13812120 AATTATGATAAGAAGGGTATTTTGTAATTATGTTAAGA
1 AATTATAATATGAACGGTATTTTGTAATTATGATAAGA
13812158 AGGGCATTAT
Statistics
Matches: 106, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
84 4 0.04
85 71 0.67
86 30 0.28
87 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (85 bp):
AATTATAATATGAACGGTATTTTGTAATTATGATAAGAGGATAATTTCATAATTATGATTAAAAG
GTATTAAAGTAACTTTGATA
Found at i:13812543 original size:25 final size:26
Alignment explanation
Indices: 13812489--13812546 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
13812479 TAATTTTAAC
* **
13812489 TAATTATAATATGAGAGGTATTTTTG
1 TAATTATAATAAGAGAGGTATTTTCA
13812515 TAATTATAATAAGA-AGAG-ATTTTCA
1 TAATTATAATAAGAGAG-GTATTTTCA
13812540 TAATTAT
1 TAATTAT
13812547 GGTTAGAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (26 bp):
TAATTATAATAAGAGAGGTATTTTCA
Found at i:13812585 original size:60 final size:61
Alignment explanation
Indices: 13812516--13812639 Score: 160
Period size: 61 Copynumber: 2.0 Consensus size: 61
13812506 GTATTTTTGT
* * * * *
13812516 AATTATAATAAGAAGAG-ATTTTCATAATTATGGTTAGAGGATATTATAGTAATTTTGATA
1 AATTATAATAAGAAGAGTATTTTCATAATTATGGTAAGAGAACAATATAGTAATTTTGACA
* * * *
13812576 AATTATAATATGAAGAGTATTTTTATAGTTATGGTAAGAGAACAATATAGTTATTTTGACA
1 AATTATAATAAGAAGAGTATTTTCATAATTATGGTAAGAGAACAATATAGTAATTTTGACA
13812637 AAT
1 AAT
13812640 GATGGTAGGG
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
60 16 0.30
61 38 0.70
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (61 bp):
AATTATAATAAGAAGAGTATTTTCATAATTATGGTAAGAGAACAATATAGTAATTTTGACA
Found at i:13813931 original size:47 final size:47
Alignment explanation
Indices: 13813877--13813970 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
13813867 GCATTTTCCC
* *
13813877 TTCGAATTTATTGTTAGATATTTGATTTCAACGTTTGATTTAAGGTA
1 TTCGAATTTATTGTTAGATATTTGATTTCAACATTTGATTCAAGGTA
* *
13813924 TTCGAATTTATTGTTGGATATTTGATTTCAATATTTGATTCAAGGTA
1 TTCGAATTTATTGTTAGATATTTGATTTCAACATTTGATTCAAGGTA
13813971 ATCTGATTCT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.49
Consensus pattern (47 bp):
TTCGAATTTATTGTTAGATATTTGATTTCAACATTTGATTCAAGGTA
Found at i:13814975 original size:63 final size:61
Alignment explanation
Indices: 13814905--13815088 Score: 201
Period size: 63 Copynumber: 2.9 Consensus size: 61
13814895 AGCAAAAGGT
*
13814905 ATTATTTAAGATATTTTTTTATAAAAAAAATACCTTAAATAATCTTCTTTAAAAAAATTAGAG
1 ATTATTTAAGATATTTTTTTATAAAAAAAA-ACCTTAAATAATC-TCTTTAAAAAAATTAAAG
** * * * *
13814968 ATTATTTAAGA-CGTTTGTAATAAAAAAAAACGCCTTAAGTAATCACATTTAAAAAAATATTAAA
1 ATTATTTAAGATATTTTTTTATAAAAAAAAA--CCTTAAATAATCTC-TTT-AAAAAA-ATTAAA
13815032 G
61 G
* * *
13815033 ATTATTTAAGGTATTTTTTTAT-CAAAAAAACCTTAAATAATCTCTTTCAAAAAATT
1 ATTATTTAAGATATTTTTTTATAAAAAAAAACCTTAAATAATCTCTTTAAAAAAATT
13815089 GAAAAATATT
Statistics
Matches: 99, Mismatches: 16, Indels: 15
0.76 0.12 0.12
Matches are distributed among these distances:
60 3 0.03
61 6 0.06
62 18 0.18
63 37 0.37
64 6 0.06
65 23 0.23
66 6 0.06
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (61 bp):
ATTATTTAAGATATTTTTTTATAAAAAAAAACCTTAAATAATCTCTTTAAAAAAATTAAAG
Found at i:13816644 original size:15 final size:14
Alignment explanation
Indices: 13816626--13816662 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
13816616 TAAATGATAA
13816626 TAATTTAATATAATT
1 TAATTTAAT-TAATT
13816641 TAATTTAATTAATT
1 TAATTTAATTAATT
13816655 TATATTTA
1 TA-ATTTA
13816663 TAAATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATTTAATTAATT
Found at i:13829191 original size:16 final size:16
Alignment explanation
Indices: 13829151--13829206 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
13829141 GAGAAGAAAA
**
13829151 AAAAATGAAAAAGTGT
1 AAAAATGAAAAAGAAT
13829167 GAAAAATGAAAAA-AAT
1 -AAAAATGAAAAAGAAT
13829183 AAAAGATGAAAAAGAAT
1 AAAA-ATGAAAAAGAAT
13829200 AGAAAAT
1 A-AAAAT
13829207 AAAGACTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 4 0.12
16 9 0.26
17 18 0.53
18 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (16 bp):
AAAAATGAAAAAGAAT
Found at i:13830039 original size:15 final size:13
Alignment explanation
Indices: 13829997--13830045 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 13
13829987 ATTAGAGTAT
13829997 CATTCATGACATTG
1 CATTCAT-ACATTG
*
13830011 CATTCATGCATTG
1 CATTCATACATTG
13830024 CATTCATAAACATTG
1 CATTCAT--ACATTG
13830039 CATTCAT
1 CATTCAT
13830046 GAAATTTGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 12 0.39
14 7 0.23
15 12 0.39
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (13 bp):
CATTCATACATTG
Found at i:13830518 original size:22 final size:21
Alignment explanation
Indices: 13830485--13830532 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
13830475 ATTTCTAATG
*
13830485 TGAATTTTTGAATATTGGATA
1 TGAATTTTTGAATATTAGATA
*
13830506 TGAATATTTTGAATCTTAGATA
1 TGAAT-TTTTGAATATTAGATA
13830528 TGAAT
1 TGAAT
13830533 CTTTAAGACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (21 bp):
TGAATTTTTGAATATTAGATA
Found at i:13830619 original size:23 final size:24
Alignment explanation
Indices: 13830593--13830650 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 24
13830583 TTAAATTTTG
*
13830593 GATGTGAATCTTTAGGAC-ACTTA
1 GATGTGAATCTTTAAGACTACTTA
* * *
13830616 GATGTGAATATTTAAGACTGCTTG
1 GATGTGAATCTTTAAGACTACTTA
13830640 GATGTGAATCT
1 GATGTGAATCT
13830651 CTAAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 16 0.55
24 13 0.45
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.36
Consensus pattern (24 bp):
GATGTGAATCTTTAAGACTACTTA
Found at i:13830658 original size:69 final size:68
Alignment explanation
Indices: 13830585--13830770 Score: 191
Period size: 69 Copynumber: 2.7 Consensus size: 68
13830575 GTAAAATTTT
*
13830585 AAATTTT-GGATGTGAATCTTTAGGACA-CTTAGATGTGAATATTTAAGACT-GCTTGGATGTGA
1 AAATTTTCGAATGTGAAT-TTT-GGA-ATCTTAGATGTGAATATTTAAGA-TAGCTTGGATGTGA
*
13830647 ATCTCTA
62 ATCTATA
* * * *
13830654 AAATTTTTCGAATTTGAATTTTTGAATCTTAGATGTGAATATTTAAGATAGTTTGGATGTGGATC
1 AAA-TTTTCGAATGTGAATTTTGGAATCTTAGATGTGAATATTTAAGATAGCTTGGATGTGAATC
13830719 TATA
65 TATA
* * * *
13830723 AAATTTTTCAAATGTGAAATTTT-GAATCTTGGATGTAAATCTTTAAGA
1 AAA-TTTTCGAATGTG-AATTTTGGAATCTTAGATGTGAATATTTAAGA
13830771 CTCTTAGATA
Statistics
Matches: 101, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
68 2 0.02
69 78 0.77
70 13 0.13
71 8 0.08
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.41
Consensus pattern (68 bp):
AAATTTTCGAATGTGAATTTTGGAATCTTAGATGTGAATATTTAAGATAGCTTGGATGTGAATCT
ATA
Found at i:13830689 original size:92 final size:92
Alignment explanation
Indices: 13830476--13830698 Score: 281
Period size: 92 Copynumber: 2.4 Consensus size: 92
13830466 AGAATATGAA
* * *
13830476 TTTCTAATGTGAATTTTTGAATATTGGATATGAATATTT-TGAATCTTAGATATGAATCTTTAAG
1 TTTCTAATGTGAATTTTTGAATATTGGATGTGAATATTTAGGAATCTTAGATATGAATATTTAAG
13830540 ACTACTTGGATGTGAATCTCTAAAATT
66 ACTACTTGGATGTGAATCTCTAAAATT
* * * * * *
13830567 TTT-TAGATGTAAAATTTTAAATTTTGGATGTGAATCTTTAGGACA-CTTAGATGTGAATATTTA
1 TTTCTA-ATGTGAATTTTTGAATATTGGATGTGAATATTTAGGA-ATCTTAGATATGAATATTTA
*
13830630 AGACTGCTTGGATGTGAATCTCTAAAATT
64 AGACTACTTGGATGTGAATCTCTAAAATT
* * * *
13830659 TTTCGAATTTGAATTTTTGAATCTTAGATGTGAATATTTA
1 TTTCTAATGTGAATTTTTGAATATTGGATGTGAATATTTA
13830699 AGATAGTTTG
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
90 2 0.02
91 30 0.27
92 76 0.69
93 2 0.02
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (92 bp):
TTTCTAATGTGAATTTTTGAATATTGGATGTGAATATTTAGGAATCTTAGATATGAATATTTAAG
ACTACTTGGATGTGAATCTCTAAAATT
Found at i:13830701 original size:161 final size:160
Alignment explanation
Indices: 13830503--13830884 Score: 493
Period size: 161 Copynumber: 2.4 Consensus size: 160
13830493 TGAATATTGG
* *
13830503 ATATGAATATTTTGAATCTTAGATATGAATCTTTAAGACTACTTGGATGTGAATCTCTAAAATTT
1 ATATGAAT-TTTTGAATCTTAGATGTGAATCTTTAAGACTACTTGGATGTGAATCTATAAAATTT
* * * * * *
13830568 TTTAGATGTAAAATTTTAAATTTTGGATGTGAATCTTTAGGACACTTAGATGTGAATATTTAAGA
65 TTCAAATGTAAAATTTTAAATCTTGGATGTAAATCTTTAAGACACTTAGATATGAATATTTAAGA
*
13830633 CTGCTTGGATGTGAATCTCTAAAAT-TTTTCGA
130 CTGCTT-GATGTGAATCCCTAAAATGTTTT-GA
* * * *
13830665 ATTTGAATTTTTGAATCTTAGATGTGAATATTTAAGA-TAGTTTGGATGTGGATCTATAAAATTT
1 ATATGAATTTTTGAATCTTAGATGTGAATCTTTAAGACTA-CTTGGATGTGAATCTATAAAATTT
* * *
13830729 TTCAAATGTGAAATTTTGAATCTTGGATGTAAATCTTTAAGACTCTTAGATATGAATATTTAAGA
65 TTCAAATGTAAAATTTTAAATCTTGGATGTAAATCTTTAAGACACTTAGATATGAATATTTAAGA
* *
13830794 TTGCTTGATGTTAATCCCTAAAATGTTTTGA
130 CTGCTTGATGTGAATCCCTAAAATGTTTTGA
* * * *
13830825 ATATG-ATTTTTGAAATCTTGGATGTGAATCTTTAGGACT-CTTAGATGTGAATCTTTAAAA
1 ATATGAATTTTTG-AATCTTAGATGTGAATCTTTAAGACTACTTGGATGTGAATCTATAAAA
13830885 CTATTGGGAA
Statistics
Matches: 190, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
159 24 0.13
160 45 0.24
161 114 0.60
162 7 0.04
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (160 bp):
ATATGAATTTTTGAATCTTAGATGTGAATCTTTAAGACTACTTGGATGTGAATCTATAAAATTTT
TCAAATGTAAAATTTTAAATCTTGGATGTAAATCTTTAAGACACTTAGATATGAATATTTAAGAC
TGCTTGATGTGAATCCCTAAAATGTTTTGA
Found at i:13830775 original size:23 final size:23
Alignment explanation
Indices: 13830749--13830793 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
13830739 AAATTTTGAA
* * *
13830749 TCTTGGATGTAAATCTTTAAGAC
1 TCTTAGATATAAATATTTAAGAC
*
13830772 TCTTAGATATGAATATTTAAGA
1 TCTTAGATATAAATATTTAAGA
13830794 TTGCTTGATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (23 bp):
TCTTAGATATAAATATTTAAGAC
Found at i:13830794 original size:92 final size:93
Alignment explanation
Indices: 13830680--13831154 Score: 482
Period size: 92 Copynumber: 5.2 Consensus size: 93
13830670 AATTTTTGAA
* * *
13830680 TCTTAGATGTGAATATTTAAGA-TAGTTTGGATGTGGATCTATAAAATTTTTCAAATGTGAAATT
1 TCTTAGATGTGAATCTTTAAGACTAGTTTGGATGTGAATCTATAAAATTTTTCAAATGTGAATTT
* *
13830744 TTGAATCTTGGATGTAAATCTTTAAGAC
66 TTGAATCTTGGATGTGAATCTTTAGGAC
* * * * * ** * *
13830772 TCTTAGATATGAATATTTAAGA-TTGCTT-GATGTTAATCCCTAAAATGTTTT-GAATATG-ATT
1 TCTTAGATGTGAATCTTTAAGACTAGTTTGGATGTGAATCTATAAAAT-TTTTCAAATGTGAATT
13830833 TTTGAAATCTTGGATGTGAATCTTTAGGAC
65 TTTG-AATCTTGGATGTGAATCTTTAGGAC
* * * * * *
13830863 TCTTAGATGTGAATCTTTAAAACTA-TTGGGAAGTGAATCTTTAAAATTTTTCTAATTTGAATTT
1 TCTTAGATGTGAATCTTTAAGACTAGTTTGGATGTGAATCTATAAAATTTTTCAAATGTGAATTT
** * *** *
13830927 TTGAATCTTAAATGTGAATTTTTTTTAA
66 TTGAATCTTGGATGTGAATCTTTAGGAC
* *
13830955 TCTTAGATGTAAATCTTTAAGACT-GCTTGGATGTGAATCTATAAAATTTTTCAAATGTGAATTT
1 TCTTAGATGTGAATCTTTAAGACTAGTTTGGATGTGAATCTATAAAATTTTTCAAATGTGAATTT
*
13831019 TTAAATCTTGGATGTGAAT-TATTAGGAC
66 TTGAATCTTGGATGTGAATCT-TTAGGAC
** * * * *
13831047 TCTTAGATGCAAATCTTTAAGACTA-TTTGGATGTGAATCTCTAAAATATCTCTAATGTGAATTT
1 TCTTAGATGTGAATCTTTAAGACTAGTTTGGATGTGAATCTATAAAATTTTTCAAATGTGAATTT
* * ** *
13831111 TTGAATATTGAATGTGAATCTTTTTGAA
66 TTGAATCTTGGATGTGAATCTTTAGGAC
*
13831139 TCTTAGATATGAATCT
1 TCTTAGATGTGAATCT
13831155 CTAAAATTTT
Statistics
Matches: 312, Mismatches: 61, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
90 6 0.02
91 67 0.21
92 231 0.74
93 8 0.03
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.43
Consensus pattern (93 bp):
TCTTAGATGTGAATCTTTAAGACTAGTTTGGATGTGAATCTATAAAATTTTTCAAATGTGAATTT
TTGAATCTTGGATGTGAATCTTTAGGAC
Found at i:13830993 original size:24 final size:23
Alignment explanation
Indices: 13830955--13831413 Score: 127
Period size: 24 Copynumber: 20.0 Consensus size: 23
13830945 TTTTTTTTAA
* *
13830955 TCTTAGATGTAAATCTTTAAGAC
1 TCTTGGATGTGAATCTTTAAGAC
* * *
13830978 TGCTTGGATGTGAATCTATAAAAT
1 T-CTTGGATGTGAATCTTTAAGAC
* ** *
13831002 TTTTCAAATGTGAATTTTTAA-A-
1 TCTT-GGATGTGAATCTTTAAGAC
*
13831024 TCTTGGATGTGAAT-TATTAGGAC
1 TCTTGGATGTGAATCT-TTAAGAC
* **
13831047 TCTTAGATGCAAATCTTTAAGAC
1 TCTTGGATGTGAATCTTTAAGAC
* * * *
13831070 TATTTGGATGTGAATCTCTAAAATA
1 T-CTTGGATGTGAATCTTTAAGA-C
* * *
13831095 TCTCT-AATGTGAAT-TTT-TGAA
1 TCT-TGGATGTGAATCTTTAAGAC
* * ** *
13831116 TATTGAATGTGAATCTTTTTGAA
1 TCTTGGATGTGAATCTTTAAGAC
* * * * *
13831139 TCTTAGATATGAATCTCTAAAAT
1 TCTTGGATGTGAATCTTTAAGAC
* * * * *
13831162 TTTTTGAGTTTGAAT-TTT-TGAA
1 TCTTGGA-TGTGAATCTTTAAGAC
*
13831184 TCTTGAATGTGAATCTTTAAGAC
1 TCTTGGATGTGAATCTTTAAGAC
* * * * *
13831207 TACTTGTATATAAATCTCTGAA-ATT
1 T-CTTGGATGTGAATCT-TTAAGA-C
* * * * *
13831232 TTTTGAATATGAAT-TTT-TGAA
1 TCTTGGATGTGAATCTTTAAGAC
* *
13831253 TCTTGGATGTGAATTTTTAGGAC
1 TCTTGGATGTGAATCTTTAAGAC
* *
13831276 TTTTAGATGTGAATCTTTAAGAC
1 TCTTGGATGTGAATCTTTAAGAC
* * *
13831299 TACTTGGATGTGAATCTCTAAAATT
1 T-CTTGGATGTGAATCTTTAAGA-C
* * *
13831324 TCTCTAG-TGTGAAT-TTT-TGAA
1 TCT-TGGATGTGAATCTTTAAGAC
* *
13831345 TCTTGTATGTGAATTTTTAAGAC
1 TCTTGGATGTGAATCTTTAAGAC
* * * *
13831368 TCTTAGATGTGAATATTTAAAAT
1 TCTTGGATGTGAATCTTTAAGAC
*
13831391 TGCTTGGATGTGAATCTCTAAGA
1 T-CTTGGATGTGAATCTTTAAGA
13831414 TTTTTGAATG
Statistics
Matches: 312, Mismatches: 96, Indels: 55
0.67 0.21 0.12
Matches are distributed among these distances:
20 3 0.01
21 50 0.16
22 25 0.08
23 98 0.31
24 127 0.41
25 9 0.03
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (23 bp):
TCTTGGATGTGAATCTTTAAGAC
Found at i:13831064 original size:184 final size:183
Alignment explanation
Indices: 13830716--13831148 Score: 539
Period size: 184 Copynumber: 2.4 Consensus size: 183
13830706 TTGGATGTGG
* * * * ** *
13830716 ATCTATAAAATTTTTCAAATGTGAAATTTTGAATCTTGGATGTAAATCTTTAAGACTCTTAGATA
1 ATCTATAAAATTTTTCTAATGTGAATTTTTGAATCTTGAATGTGAATCTTTTTGAATCTTAGATA
* * * * *
13830781 TGAATATTTAAGATTGCTTGATGTTAATCCCTAAAATGTTTTGAATATGATTTTTGAAATCTTGG
66 TAAATATTTAAGACTGCTTGATGTGAATCCATAAAATGTTTTAAATATGATTTTTGAAATCTTGG
**
13830846 ATGTGAATCTTTAGGACTCTTAGATGTGAATCTTTAAAACTATTGGGAAGTGA
131 ATGTGAATCTTTAGGACTCTTAGATGCAAATCTTTAAAACTATTGGGAAGTGA
* * * * * *
13830899 ATCTTTAAAATTTTTCTAATTTGAATTTTTGAATCTTAAATGTGAATTTTTTTTAATCTTAGATG
1 ATCTATAAAATTTTTCTAATGTGAATTTTTGAATCTTGAATGTGAATCTTTTTGAATCTTAGATA
* * *
13830964 TAAATCTTTAAGACTGCTTGGATGTGAATCTATAAAAT-TTTTCAAATGTGAATTTTT-AAATCT
66 TAAATATTTAAGACTGCTT-GATGTGAATCCATAAAATGTTTT-AAATATG-ATTTTTGAAATCT
* * *
13831027 TGGATGTGAAT-TATTAGGACTCTTAGATGCAAATCTTTAAGACTATTTGGATGTGA
128 TGGATGTGAATCT-TTAGGACTCTTAGATGCAAATCTTTAAAACTATTGGGAAGTGA
* * * *
13831083 ATCTCTAAAATATCTCTAATGTGAATTTTTGAATATTGAATGTGAATCTTTTTGAATCTTAGATA
1 ATCTATAAAATTTTTCTAATGTGAATTTTTGAATCTTGAATGTGAATCTTTTTGAATCTTAGATA
13831148 T
66 T
13831149 GAATCTCTAA
Statistics
Matches: 211, Mismatches: 35, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
183 73 0.35
184 132 0.63
185 6 0.03
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (183 bp):
ATCTATAAAATTTTTCTAATGTGAATTTTTGAATCTTGAATGTGAATCTTTTTGAATCTTAGATA
TAAATATTTAAGACTGCTTGATGTGAATCCATAAAATGTTTTAAATATGATTTTTGAAATCTTGG
ATGTGAATCTTTAGGACTCTTAGATGCAAATCTTTAAAACTATTGGGAAGTGA
Found at i:13831151 original size:23 final size:23
Alignment explanation
Indices: 13831108--13831154 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
13831098 CTAATGTGAA
*
13831108 TTTTTGAATATTGAATGTGAATC
1 TTTTTGAATATTGAATATGAATC
*
13831131 TTTTTGAATCTT-AGATATGAATC
1 TTTTTGAATATTGA-ATATGAATC
13831154 T
1 T
13831155 CTAAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.30, C:0.06, G:0.15, T:0.49
Consensus pattern (23 bp):
TTTTTGAATATTGAATATGAATC
Found at i:13831156 original size:68 final size:69
Alignment explanation
Indices: 13831080--13831272 Score: 232
Period size: 68 Copynumber: 2.8 Consensus size: 69
13831070 TATTTGGATG
* * * * *
13831080 TGAATCTCTAAAATATCTCT-AATGTGAATTTTTGAATATTGAATGTGAATCTTTTTGAAT-CTT
1 TGAATCTCTAAAAT-TTTTTGAATATGAATTTTTGAATCTTGAATGTGAATCTTTTAGAATACTT
13831143 AG-ATA
65 -GTATA
* * * *
13831148 TGAATCTCTAAAATTTTTTGAGTTTGAATTTTTGAATCTTGAATGTGAATCTTTAAGACTACTTG
1 TGAATCTCTAAAATTTTTTGAATATGAATTTTTGAATCTTGAATGTGAATCTTTTAGAATACTTG
13831213 TATA
66 TATA
* * *
13831217 TAAATCTCTGAAATTTTTTGAATATGAATTTTTGAATCTTGGATGTGAAT-TTTTAG
1 TGAATCTCTAAAATTTTTTGAATATGAATTTTTGAATCTTGAATGTGAATCTTTTAG
13831273 GACTTTTAGA
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
67 3 0.03
68 54 0.50
69 51 0.47
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.46
Consensus pattern (69 bp):
TGAATCTCTAAAATTTTTTGAATATGAATTTTTGAATCTTGAATGTGAATCTTTTAGAATACTTG
TATA
Found at i:13831207 original size:229 final size:229
Alignment explanation
Indices: 13830947--13831391 Score: 624
Period size: 229 Copynumber: 1.9 Consensus size: 229
13830937 AATGTGAATT
* * * * *
13830947 TTTTTTAATCTTAGATGTAAATCTTTAAGACTGCTTGGATGTGAATCTATAAAATTTTTCAAATG
1 TTTTTGAATCTTAGATGTAAATCTTTAAGACTACTTGGATATAAATCTATAAAATTTTTCAAATA
*
13831012 TGAATTTTTAAATCTTGGATGTGAATTATTAGGACTCTTAGATGCAAATCTTTAAGACTATTTGG
66 TGAATTTTTAAATCTTGGATGTGAATTATTAGGACTCTTAGATGCAAATCTTTAAGACTACTTGG
*
13831077 ATGTGAATCTCTAAAATATCTCTAATGTGAATTTTTGAATATTGAATGTGAATCTTTT-TGAATC
131 ATGTGAATCTCTAAAATATCTCTAATGTGAATTTTTGAATATTGAATGTGAAT-TTTTAAGAATC
*
13831141 TTAGATATGAATCTCTAAAATTTTTTGAGTTTGAA
195 TTAGATATGAATATCTAAAATTTTTTGAGTTTGAA
* * * * **
13831176 TTTTTGAATCTT-GAATGTGAATCTTTAAGACTACTTGTATATAAATCTCTGAAATTTTTTGAAT
1 TTTTTGAATCTTAG-ATGTAAATCTTTAAGACTACTTGGATATAAATCTATAAAATTTTTCAAAT
* * * **
13831240 ATGAATTTTTGAATCTTGGATGTGAATTTTTAGGACTTTTAGATGTGAATCTTTAAGACTACTTG
65 ATGAATTTTTAAATCTTGGATGTGAATTATTAGGACTCTTAGATGCAAATCTTTAAGACTACTTG
* * * * *
13831305 GATGTGAATCTCTAAAATTTCTCTAGTGTGAATTTTTGAATCTTGTATGTGAATTTTTAAGACTC
130 GATGTGAATCTCTAAAATATCTCTAATGTGAATTTTTGAATATTGAATGTGAATTTTTAAGAATC
* *
13831370 TTAGATGTGAATATTTAAAATT
195 TTAGATATGAATATCTAAAATT
13831392 GCTTGGATGT
Statistics
Matches: 188, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
228 5 0.03
229 183 0.97
ACGTcount: A:0.31, C:0.09, G:0.16, T:0.44
Consensus pattern (229 bp):
TTTTTGAATCTTAGATGTAAATCTTTAAGACTACTTGGATATAAATCTATAAAATTTTTCAAATA
TGAATTTTTAAATCTTGGATGTGAATTATTAGGACTCTTAGATGCAAATCTTTAAGACTACTTGG
ATGTGAATCTCTAAAATATCTCTAATGTGAATTTTTGAATATTGAATGTGAATTTTTAAGAATCT
TAGATATGAATATCTAAAATTTTTTGAGTTTGAA
Found at i:13831252 original size:69 final size:68
Alignment explanation
Indices: 13831058--13831276 Score: 244
Period size: 69 Copynumber: 3.2 Consensus size: 68
13831048 CTTAGATGCA
* * * * * *
13831058 AATCTTTAAGACTATTTGGATGTGAATCTCTAAAATATCTCT-AATGTGAATTTTTGAATATTGA
1 AATCTTTAAGACTACTT-GATATGAATCTCTAAAAT-TTTTTGAATATGAATTTTTGAATCTTGA
13831122 ATGTG
64 ATGTG
** * * *
13831127 AATCTTTTTGAAT-CTTAGATATGAATCTCTAAAATTTTTTGAGTTTGAATTTTTGAATCTTGAA
1 AATCTTTAAGACTACTT-GATATGAATCTCTAAAATTTTTTGAATATGAATTTTTGAATCTTGAA
13831191 TGTG
65 TGTG
* * *
13831195 AATCTTTAAGACTACTTGTATATAAATCTCTGAAATTTTTTGAATATGAATTTTTGAATCTTGGA
1 AATCTTTAAGACTACTTG-ATATGAATCTCTAAAATTTTTTGAATATGAATTTTTGAATCTTGAA
13831260 TGTG
65 TGTG
* *
13831264 AATTTTTAGGACT
1 AATCTTTAAGACT
13831277 TTTAGATGTG
Statistics
Matches: 126, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
67 3 0.02
68 54 0.43
69 69 0.55
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (68 bp):
AATCTTTAAGACTACTTGATATGAATCTCTAAAATTTTTTGAATATGAATTTTTGAATCTTGAAT
GTG
Done.