Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 107 of 133
Found at i:20829921 original size:7 final size:8
Alignment explanation
Indices: 20829905--20829929 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
20829895 TATCAAAAAA
20829905 TTTTATTT
1 TTTTATTT
20829913 TTTTATTT
1 TTTTATTT
20829921 TTTTATTT
1 TTTTATTT
20829929 T
1 T
20829930 GAAAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Found at i:20831048 original size:6 final size:5
Alignment explanation
Indices: 20831023--20831076 Score: 54
Period size: 5 Copynumber: 9.8 Consensus size: 5
20831013 TTATCAACTA
*
20831023 AAAAT AAAAT AAATAA AAAAT CAAAAT AAAAAT AAGAAT AAAAAT AAAAT
1 AAAAT AAAAT AAA-AT AAAAT -AAAAT -AAAAT AA-AAT -AAAAT AAAAT
20831073 AAAA
1 AAAA
20831077 AAATAAAGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
5 20 0.48
6 20 0.48
7 2 0.05
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:20831054 original size:23 final size:23
Alignment explanation
Indices: 20831023--20831077 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
20831013 TTATCAACTA
20831023 AAAAT-AAAAT-A-AATAAAAAAT
1 AAAATAAAAATAAGAAT-AAAAAT
20831044 CAAAATAAAAATAAGAATAAAAAT
1 -AAAATAAAAATAAGAATAAAAAT
20831068 AAAATAAAAA
1 AAAATAAAAA
20831078 AATAAAGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.17
23 15 0.50
24 7 0.23
25 3 0.10
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAATAAAAATAAGAATAAAAAT
Found at i:20831068 original size:18 final size:16
Alignment explanation
Indices: 20831022--20831099 Score: 63
Period size: 17 Copynumber: 4.7 Consensus size: 16
20831012 ATTATCAACT
20831022 AAAAAT-AAAATAAATA
1 AAAAATAAAAATAAA-A
*
20831038 AAAAATCAAAATAAAA
1 AAAAATAAAAATAAAA
20831054 ATAAGAATAAAAATAAAA
1 A-AA-AATAAAAATAAAA
*
20831072 TAAAAA-AATAAAGCAAAA
1 -AAAAATAA-AAA-TAAAA
20831090 AAAAA-AAAAA
1 AAAAATAAAAA
20831100 ACAGTTGGGC
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
16 13 0.24
17 22 0.41
18 18 0.33
19 1 0.02
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAATAAAAATAAAA
Found at i:20831077 original size:6 final size:6
Alignment explanation
Indices: 20831021--20831083 Score: 67
Period size: 6 Copynumber: 10.7 Consensus size: 6
20831011 TATTATCAAC
* * *
20831021 TAAAAA T-AAAA TAAATA -AAAAA TCAAAA TAAAAA TAAGAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
*
20831067 TAAAATA AAAAAA TAAA
1 TAAAA-A TAAAAA TAAA
20831084 GCAAAAAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
5 9 0.20
6 32 0.70
7 5 0.11
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
TAAAAA
Found at i:20831078 original size:12 final size:12
Alignment explanation
Indices: 20831028--20831100 Score: 66
Period size: 12 Copynumber: 6.2 Consensus size: 12
20831018 AACTAAAAAT
20831028 AAAAT-AAATAA
1 AAAATAAAATAA
20831039 AAAATCAAAAT-A
1 AAAAT-AAAATAA
20831051 AAAATAAGAAT-A
1 AAAATAA-AATAA
20831063 AAAATAAAATAAA
1 AAAATAAAAT-AA
**
20831076 AAAATAAAGCAA
1 AAAATAAAATAA
20831088 AAAA-AAAA-AA
1 AAAATAAAATAA
20831098 AAA
1 AAA
20831101 CAGTTGGGCC
Statistics
Matches: 54, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
10 5 0.09
11 13 0.24
12 23 0.43
13 13 0.24
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAATAAAATAA
Found at i:20831089 original size:23 final size:21
Alignment explanation
Indices: 20831023--20831100 Score: 72
Period size: 22 Copynumber: 3.6 Consensus size: 21
20831013 TTATCAACTA
20831023 AAAATAAAATAAAT-AAAAAAT
1 AAAATAAAA-AAATAAAAAAAT
*
20831044 CAAAATAAAAATAAGAATAAAAAT
1 -AAAATAAAAA-AATAA-AAAAAT
20831068 AAAATAAAAAAATAAAGCAAAA-
1 AAAATAAAAAAATAAA--AAAAT
20831090 AAAA-AAAAAAA
1 AAAATAAAAAAA
20831101 CAGTTGGGCC
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
21 9 0.18
22 19 0.39
23 15 0.31
24 6 0.12
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (21 bp):
AAAATAAAAAAATAAAAAAAT
Found at i:20835123 original size:51 final size:52
Alignment explanation
Indices: 20835047--20835164 Score: 202
Period size: 51 Copynumber: 2.3 Consensus size: 52
20835037 TTAAGAGAGT
* *
20835047 GTGGATTCTAAAAGGAGTTAGCACATTTTAAGATGAGATTACTAAAAT-AAA
1 GTGGATTCCAAAAGGAGTTAGCACATCTTAAGATGAGATTACTAAAATAAAA
20835098 GTGGATTCCAAAAGGAGTTAGCACATCTTAAGATGAGATTACTAAAATAAAA
1 GTGGATTCCAAAAGGAGTTAGCACATCTTAAGATGAGATTACTAAAATAAAA
*
20835150 GTAGATTCCAAAAGG
1 GTGGATTCCAAAAGG
20835165 CACAAAAATT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
51 46 0.73
52 17 0.27
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.26
Consensus pattern (52 bp):
GTGGATTCCAAAAGGAGTTAGCACATCTTAAGATGAGATTACTAAAATAAAA
Found at i:20840463 original size:15 final size:15
Alignment explanation
Indices: 20840443--20840472 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20840433 CCTTATGATA
*
20840443 TGGCTTTTGACATTG
1 TGGCTTTTGAAATTG
20840458 TGGCTTTTGAAATTG
1 TGGCTTTTGAAATTG
20840473 ATGTCTTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.10, G:0.27, T:0.47
Consensus pattern (15 bp):
TGGCTTTTGAAATTG
Found at i:20840653 original size:18 final size:18
Alignment explanation
Indices: 20840609--20840663 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
20840599 AAAAATTGCT
* *
20840609 TTGATGATCTTAATGGTA
1 TTGATGATTTTGATGGTA
20840627 TTGATGATTTTGATGGTA
1 TTGATGATTTTGATGGTA
*
20840645 TTGATGATTTTGATTGTA
1 TTGATGATTTTGATGGTA
20840663 T
1 T
20840664 GAACAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.51
Consensus pattern (18 bp):
TTGATGATTTTGATGGTA
Found at i:20841048 original size:21 final size:21
Alignment explanation
Indices: 20841016--20841068 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
20841006 CTTTGATAGT
* *
20841016 AGGGATCAATCCCCTAAGGAA
1 AGGGATCGATCCCCTAAGCAA
* *
20841037 AGTGATCGAT-CCCTTAGCAA
1 AGGGATCGATCCCCTAAGCAA
20841057 AGGGATCGATCC
1 AGGGATCGATCC
20841069 ATATTTTTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (21 bp):
AGGGATCGATCCCCTAAGCAA
Found at i:20844503 original size:27 final size:26
Alignment explanation
Indices: 20844473--20844537 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 26
20844463 CTTTTTTAAA
**
20844473 AAAAAAGAAATTAAAATAAAATGGAAT
1 AAAAAAGAAATTAAAATAAAA-AAAAT
*
20844500 AAAAAAGAAATAAAAATAAAAAAAAT
1 AAAAAAGAAATTAAAATAAAAAAAAT
*
20844526 AAAAATGAAATT
1 AAAAAAGAAATT
20844538 GAGAAAATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 13 0.39
27 20 0.61
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (26 bp):
AAAAAAGAAATTAAAATAAAAAAAAT
Found at i:20844525 original size:15 final size:16
Alignment explanation
Indices: 20844501--20844531 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
20844491 AAATGGAATA
20844501 AAAAAGAAATAAAAAT
1 AAAAAGAAATAAAAAT
20844517 AAAAA-AAATAAAAAT
1 AAAAAGAAATAAAAAT
20844532 GAAATTGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAAGAAATAAAAAT
Found at i:20847910 original size:18 final size:18
Alignment explanation
Indices: 20847887--20847924 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
20847877 AAGCATGTGG
*
20847887 ATAAAATCTCAATTAAAA
1 ATAAAAACTCAATTAAAA
*
20847905 ATAAAAACTTAATTAAAA
1 ATAAAAACTCAATTAAAA
20847923 AT
1 AT
20847925 TCAACCACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAAAACTCAATTAAAA
Found at i:20848965 original size:65 final size:65
Alignment explanation
Indices: 20848878--20849020 Score: 162
Period size: 65 Copynumber: 2.2 Consensus size: 65
20848868 ATCGTAAGTC
* * * ** * *
20848878 AAAAAACTAAATAACTTGGATTGAACCAAGGTTTAAAATGAATTACCT-GGATTGAACCGTAAAT
1 AAAAAAATAAATGACTTAGATTGAACCAAGGTCGAAAATGAATGA-CTGGGATTGAACCGCAAAT
20848942 T
65 T
* * * * *
20848943 AGAAAAATAAATGACTTAGATTGAGCCAAGGTCGAAAATGAGTGATTGGGATTGAACCGCAAGTT
1 AAAAAAATAAATGACTTAGATTGAACCAAGGTCGAAAATGAATGACTGGGATTGAACCGCAAATT
20849008 AAAAAAATAAATG
1 AAAAAAATAAATG
20849021 GAATTACAAG
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
64 1 0.02
65 63 0.98
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.24
Consensus pattern (65 bp):
AAAAAAATAAATGACTTAGATTGAACCAAGGTCGAAAATGAATGACTGGGATTGAACCGCAAATT
Found at i:20849108 original size:89 final size:90
Alignment explanation
Indices: 20848945--20849109 Score: 217
Period size: 89 Copynumber: 1.8 Consensus size: 90
20848935 CGTAAATTAG
* * * * *
20848945 AAAAATAAATGACTTAGATTGAGCCAAGGTCGAAAATGAGTGATTGGGATTGAACCGCAAGTTAA
1 AAAAATAAATGACCTAGATTGAGCCAAGGTCGAAAATAAGTGACTGAGATTGAACCCCAAGTTAA
20849010 AAAAATAAATGGAATTACAAGTTAA
66 AAAAATAAATGGAATTACAAGTTAA
* * *
20849035 AAAAATAAATGACCTGGATTGAGCCGA-GTTGAAAATAAGTGACTGAGATTGAACCTCCAA-TTA
1 AAAAATAAATGACCTAGATTGAGCCAAGGTCGAAAATAAGTGACTGAGATTGAACC-CCAAGTTA
* *
20849098 GAAAATTAAATG
65 AAAAAATAAATG
20849110 ATTTTGATTG
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
89 37 0.58
90 27 0.42
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (90 bp):
AAAAATAAATGACCTAGATTGAGCCAAGGTCGAAAATAAGTGACTGAGATTGAACCCCAAGTTAA
AAAAATAAATGGAATTACAAGTTAA
Found at i:20860347 original size:16 final size:16
Alignment explanation
Indices: 20860316--20860352 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
20860306 ACAAAAAATT
20860316 AAAA-TAAATAAATAA
1 AAAATTAAATAAATAA
20860331 AAAATTAAA-AAAGTAA
1 AAAATTAAATAAA-TAA
20860347 AAAATT
1 AAAATT
20860353 TGAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (16 bp):
AAAATTAAATAAATAA
Found at i:20871834 original size:33 final size:33
Alignment explanation
Indices: 20871792--20871860 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
20871782 TTGACAATTA
* *
20871792 CATAGTATGCATTGCATTTTTA-AATGTCTAGTG
1 CATAGTATGCATTGCA-TTTAAGAATATCTAGTG
20871825 CATAGTATGCATTGCATTTAAGAATATCTAGTG
1 CATAGTATGCATTGCATTTAAGAATATCTAGTG
20871858 CAT
1 CAT
20871861 GAATCTAGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 4 0.12
33 29 0.88
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.39
Consensus pattern (33 bp):
CATAGTATGCATTGCATTTAAGAATATCTAGTG
Found at i:20872146 original size:43 final size:43
Alignment explanation
Indices: 20872078--20872208 Score: 174
Period size: 43 Copynumber: 3.1 Consensus size: 43
20872068 TAGGATTGTC
* * **
20872078 AAAA-AGCATTATTTATTTCTCAAAGTTGTTGACCCTCTGTTT
1 AAAAGAGCTTTATTTATTTTTCAAAGTTGTTGACCCTCTAATT
* *
20872120 AGAAGAGCTTTATTTATTTTTCAAAGTTGTTGAGCCTCTAATT
1 AAAAGAGCTTTATTTATTTTTCAAAGTTGTTGACCCTCTAATT
* * *
20872163 AAAAGATCTTTATTTATTTTTCAAAGTTGTTAAACCTCTAATT
1 AAAAGAGCTTTATTTATTTTTCAAAGTTGTTGACCCTCTAATT
20872206 AAA
1 AAA
20872209 TTAGTGTTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 3 0.04
43 75 0.96
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (43 bp):
AAAAGAGCTTTATTTATTTTTCAAAGTTGTTGACCCTCTAATT
Found at i:20872705 original size:6 final size:7
Alignment explanation
Indices: 20872687--20872715 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
20872677 AAAAAAGAGT
20872687 TAAAAAA
1 TAAAAAA
20872694 TAAAAAA
1 TAAAAAA
20872701 TAAAAAA
1 TAAAAAA
20872708 TAAAAAA
1 TAAAAAA
20872715 T
1 T
20872716 CTTTTGCCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
TAAAAAA
Found at i:20873863 original size:202 final size:202
Alignment explanation
Indices: 20873491--20873861 Score: 495
Period size: 202 Copynumber: 1.8 Consensus size: 202
20873481 AAATTATTTT
* *
20873491 TTTGAAATTAAATATTAATTATCCAATGATGAAATTTTGAGAAATTTCAAATGGTAAATTTTTAA
1 TTTGAAATTAAATATTAATTATCCAATGATGAAATTTTGAGAAATTTCAAACGATAAATTTTTAA
*
20873556 GAAATTCCTAAGTGAGAAATTTTTTCTAAATTTGACCCAAATGGTGGAATAATTTAGATAAAGTT
66 GAAATTCCTAAGTGAGAAATTTTCTCTAAATTTGACCCAAATGGTGGAATAATTTAGATAAAGTT
* * * **
20873621 TCAATAACAATGATTAATATTTATTTTCAATTATAAAAAATAAAAAATGAAATAAATAAATAAAT
131 TCAATAAAAATAATTAATATTTATTTCCAAAGATAAAAAATAAAAAATGAAATAAATAAATAAAT
20873686 TAAAAAA
196 TAAAAAA
*
20873693 TTTGAAATTAAATATTAATTATCCAATGATGAGATTCTT-AGAAATTTCAAACGATAAATTCTTT
1 TTTGAAATTAAATATTAATTATCCAATGATGAAATT-TTGAGAAATTTCAAACGATAAATT-TTT
* * * * * *
20873757 TAGAAA-TCTCTAGGTGAGAAA-TTTCTCTAAATTT-ATCTCAAATTGTGGAATAATTTAGCTGT
64 AAGAAATTC-CTAAGTGAGAAATTTTCTCTAAATTTGA-CCCAAATGGTGGAATAATTTAGAT-A
*
20873819 AA-TTTCAATAAAAATAATT-GTATTCT-TTTCCAAAGATAAAAAA
126 AAGTTTCAATAAAAATAATTAATATT-TATTTCCAAAGATAAAAAA
20873862 ATTTTGAAAA
Statistics
Matches: 147, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
201 19 0.13
202 105 0.71
203 23 0.16
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (202 bp):
TTTGAAATTAAATATTAATTATCCAATGATGAAATTTTGAGAAATTTCAAACGATAAATTTTTAA
GAAATTCCTAAGTGAGAAATTTTCTCTAAATTTGACCCAAATGGTGGAATAATTTAGATAAAGTT
TCAATAAAAATAATTAATATTTATTTCCAAAGATAAAAAATAAAAAATGAAATAAATAAATAAAT
TAAAAAA
Found at i:20873882 original size:10 final size:11
Alignment explanation
Indices: 20873857--20873887 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
20873847 TCCAAAGATA
20873857 AAAAAATTTTG
1 AAAAAATTTTG
20873868 AAAAAATTTTG
1 AAAAAATTTTG
20873879 AAAAAATTT
1 AAAAAATTT
20873888 CTAAATTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (11 bp):
AAAAAATTTTG
Found at i:20875616 original size:41 final size:41
Alignment explanation
Indices: 20875536--20875616 Score: 135
Period size: 41 Copynumber: 2.0 Consensus size: 41
20875526 TCTTAAATTT
*
20875536 ATTAAGTAGGCTTGGATAACAAGAAATCATTTCCCGGCCTG
1 ATTAAGTAGGCTTGGATAACAAGAAATCATTTACCGGCCTG
* *
20875577 ATTAAGTAGGCTTGGATAATAAGAAATCATTTACTGGCCT
1 ATTAAGTAGGCTTGGATAACAAGAAATCATTTACCGGCCT
20875617 AACTCTCAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (41 bp):
ATTAAGTAGGCTTGGATAACAAGAAATCATTTACCGGCCTG
Found at i:20876575 original size:19 final size:18
Alignment explanation
Indices: 20876553--20876602 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
20876543 AATAAAACCA
20876553 AAAAGAAGAAAAGAAAATG
1 AAAAGAA-AAAAGAAAATG
**
20876572 AAAATGAAATCAGAAAATG
1 AAAA-GAAAAAAGAAAATG
20876591 AAATAGAAAAAA
1 AAA-AGAAAAAA
20876603 AAAGCTAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.72, C:0.02, G:0.16, T:0.10
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAATG
Found at i:20876587 original size:13 final size:12
Alignment explanation
Indices: 20876559--20876600 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
20876549 ACCAAAAAGA
20876559 AGAAAA-GAAA-
1 AGAAAATGAAAT
20876569 ATGAAAATGAAAT
1 A-GAAAATGAAAT
20876582 CAGAAAATGAAAT
1 -AGAAAATGAAAT
20876595 AGAAAA
1 AGAAAA
20876601 AAAAAGCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 1 0.04
11 5 0.18
12 10 0.36
13 11 0.39
14 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.17, T:0.12
Consensus pattern (12 bp):
AGAAAATGAAAT
Found at i:20876601 original size:13 final size:13
Alignment explanation
Indices: 20876571--20876600 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20876561 AAAAGAAAAT
20876571 GAAAATGAAATCA
1 GAAAATGAAATCA
20876584 GAAAATGAAAT-A
1 GAAAATGAAATCA
20876596 GAAAA
1 GAAAA
20876601 AAAAAGCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.67, C:0.03, G:0.17, T:0.13
Consensus pattern (13 bp):
GAAAATGAAATCA
Found at i:20879697 original size:15 final size:16
Alignment explanation
Indices: 20879670--20879707 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
20879660 AAAGGGAATC
20879670 AAAGAAAAGAAAGTAA
1 AAAGAAAAGAAAGTAA
20879686 AAAGAAAA-AAAGTAA
1 AAAGAAAAGAAAGTAA
*
20879701 AATGAAA
1 AAAGAAA
20879708 TACAAATGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (16 bp):
AAAGAAAAGAAAGTAA
Found at i:20880719 original size:18 final size:18
Alignment explanation
Indices: 20880696--20880733 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
20880686 AAGCAAATGG
20880696 ATAAAATCTCAATTAAAA
1 ATAAAATCTCAATTAAAA
*
20880714 ATAAAATCTTAATTAAAA
1 ATAAAATCTCAATTAAAA
20880732 AT
1 AT
20880734 TCAACCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAATCTCAATTAAAA
Found at i:20884455 original size:47 final size:47
Alignment explanation
Indices: 20884404--20884498 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
20884394 CCCTATAATA
* * *
20884404 TCTAGGCAATGCCCTAAGAATTACTTTTTATTTAAGAATATTAGTTT
1 TCTAGGCAAGGCCCTAAGAATGACTTTTTACTTAAGAATATTAGTTT
* * * *
20884451 TCTAGGTAAGGTCTTAAGAATGACTTTTTACTTAGGAATATTAGTTT
1 TCTAGGCAAGGCCCTAAGAATGACTTTTTACTTAAGAATATTAGTTT
20884498 T
1 T
20884499 TATTTAAAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.43
Consensus pattern (47 bp):
TCTAGGCAAGGCCCTAAGAATGACTTTTTACTTAAGAATATTAGTTT
Found at i:20886507 original size:16 final size:16
Alignment explanation
Indices: 20886486--20886518 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20886476 TTTTATCGAT
20886486 TTTGATCGA-GTTTGAC
1 TTTGATC-ATGTTTGAC
20886502 TTTGATCATGTTTGAC
1 TTTGATCATGTTTGAC
20886518 T
1 T
20886519 AGGTTTGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.18, C:0.12, G:0.21, T:0.48
Consensus pattern (16 bp):
TTTGATCATGTTTGAC
Found at i:20886752 original size:21 final size:21
Alignment explanation
Indices: 20886728--20886782 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
20886718 AATCATTATT
20886728 AAAAGTTTGATAACCTTTGAC
1 AAAAGTTTGATAACCTTTGAC
* * *
20886749 AAAATTTTGGTAACCTTTGAT
1 AAAAGTTTGATAACCTTTGAC
**
20886770 ATTAGTTTGATAA
1 AAAAGTTTGATAA
20886783 TTTATAATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (21 bp):
AAAAGTTTGATAACCTTTGAC
Found at i:20887212 original size:22 final size:22
Alignment explanation
Indices: 20887193--20887290 Score: 83
Period size: 22 Copynumber: 4.5 Consensus size: 22
20887183 ATGTTATCGG
20887193 TGATTTACTACTAAACTATCAA
1 TGATTTACTACTAAACTATCAA
*
20887215 TTATTTACTACTAAA-TCATC-A
1 TGATTTACTACTAAACT-ATCAA
* ** *
20887236 TCGATTTACTACCAATTTATGAA
1 T-GATTTACTACTAAACTATCAA
* * * *
20887259 TGATTCACTACTAAATTGTTAA
1 TGATTTACTACTAAACTATCAA
20887281 TGATTTACTA
1 TGATTTACTA
20887291 TTAAGTTATT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
21 3 0.05
22 55 0.90
23 3 0.05
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (22 bp):
TGATTTACTACTAAACTATCAA
Found at i:20887329 original size:44 final size:44
Alignment explanation
Indices: 20887281--20887388 Score: 117
Period size: 44 Copynumber: 2.5 Consensus size: 44
20887271 AAATTGTTAA
* * * *
20887281 TGATTTACTATTAAGTTATTGATGATTTGTTATAAAGATCTAAC
1 TGATTTACTAATAAATTATTGATGATTTATTATAAAGATATAAC
* * * * * *
20887325 TGATTTACTACTGATTTATCGATGATTTATTATATAGTTATAAC
1 TGATTTACTAATAAATTATTGATGATTTATTATAAAGATATAAC
*
20887369 TAATTTACTAATAAATTATT
1 TGATTTACTAATAAATTATT
20887389 ACTAATTTAC
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (44 bp):
TGATTTACTAATAAATTATTGATGATTTATTATAAAGATATAAC
Found at i:20887531 original size:44 final size:44
Alignment explanation
Indices: 20887461--20887801 Score: 199
Period size: 44 Copynumber: 7.8 Consensus size: 44
20887451 GTTATCATTA
* * * * *
20887461 ATTTATTACTCAATTATCAGTAATTTATTATTATGTTATT-ATGT
1 ATTTACTACT-AATTATCATTGATTTACTATTAAGTTATTAATGT
* * *
20887505 ATTTACTACTATATTATCATTGATTTACTATTTAGTTTTTGAT-T
1 ATTTACTACTA-ATTATCATTGATTTACTATTAAGTTATTAATGT
* * * * * *
20887549 ATTTACTGTA-AAATTATTATAGATTTATTATTAAATTTTTCAATG-
1 ATTTAC--TACTAATTATCATTGATTTACTATTAAGTTATT-AATGT
* * ** *
20887594 ATTTACTACAAAATTATCAATT-ATTTA-TATTAAATTATCCAT-A
1 ATTTACTAC-TAATTATC-ATTGATTTACTATTAAGTTATTAATGT
* * *
20887637 ATTTACTATTAAGTTTTCATTGA-TTAGCTATTAAGTTATTGA--T
1 ATTTACTACTAA-TTATCATTGATTTA-CTATTAAGTTATTAATGT
*
20887680 ATTTACTACTAACTTAT-ATTGATTTACTTTTAAGTT-TTCAATG-
1 ATTTACTACTAA-TTATCATTGATTTACTATTAAGTTATT-AATGT
* *
20887723 ATTTACTACTAAATTATCATTGATGTACTACTAAGTTATTAATG-
1 ATTTACTACT-AATTATCATTGATTTACTATTAAGTTATTAATGT
* *
20887767 ATTTACTATTAAGTTTATCAATT-AATTACTATTAA
1 ATTTACTACTAA--TTATC-ATTGATTTACTATTAA
20887802 ATTAAAATTG
Statistics
Matches: 235, Mismatches: 38, Indels: 47
0.73 0.12 0.15
Matches are distributed among these distances:
41 2 0.01
42 23 0.10
43 51 0.22
44 113 0.48
45 39 0.17
46 7 0.03
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (44 bp):
ATTTACTACTAATTATCATTGATTTACTATTAAGTTATTAATGT
Found at i:20887619 original size:22 final size:22
Alignment explanation
Indices: 20887588--20887644 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
20887578 ATTAAATTTT
*
20887588 TCAATGATTTACTACAAAATTA
1 TCAATAATTTACTACAAAATTA
* **
20887610 TCAATTATTTA-TATTAAATTA
1 TCAATAATTTACTACAAAATTA
*
20887631 TCCATAATTTACTA
1 TCAATAATTTACTA
20887645 TTAAGTTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (22 bp):
TCAATAATTTACTACAAAATTA
Found at i:20887630 original size:21 final size:22
Alignment explanation
Indices: 20887369--20887836 Score: 133
Period size: 22 Copynumber: 21.2 Consensus size: 22
20887359 TAGTTATAAC
* * *
20887369 TAATTTACTAATAAATTATTAC
1 TAATTTACTATTAAATTATCAA
* * * *
20887391 TAATTTACAACTAAATTATTAG
1 TAATTTACTATTAAATTATCAA
* ** *
20887413 TGATTTACTATTATGTTATTAA
1 TAATTTACTATTAAATTATCAA
* * ** *
20887435 TAATTTGCTACCATATGTTATCAT
1 TAATTTACTA--TTAAATTATCAA
* * * *
20887459 TAATTTATTACTCAATTATCAG
1 TAATTTACTATTAAATTATCAA
* ** *
20887481 TAATTTATTATTATGTTAT-TA
1 TAATTTACTATTAAATTATCAA
* * * *
20887502 TGTATTTACTACTATATTATCAT
1 T-AATTTACTATTAAATTATCAA
* * * * **
20887525 TGATTTACTATTTAGTTTTTGA
1 TAATTTACTATTAAATTATCAA
* * * *
20887547 TTATTTACTGTAAAATTAT-TA
1 TAATTTACTATTAAATTATCAA
* *
20887568 TAGATTTATTATTAAATTTTTCAA
1 TA-ATTTACTATTAAA-TTATCAA
* **
20887592 TGATTTACTACAAAATTATCAA
1 TAATTTACTATTAAATTATCAA
* *
20887614 TTATTTA-TATTAAATTATCCA
1 TAATTTACTATTAAATTATCAA
* * *
20887635 TAATTTACTATTAAGTTTTCAT
1 TAATTTACTATTAAATTATCAA
* * **
20887657 TGA-TTAGCTATTAAGTTATTGA
1 TAATTTA-CTATTAAATTATCAA
* * *
20887679 T-ATTTACTACTAACTTAT-AT
1 TAATTTACTATTAAATTATCAA
* * * *
20887699 TGATTTACTTTTAAGTTTTCAA
1 TAATTTACTATTAAATTATCAA
* * *
20887721 TGATTTACTACTAAATTATCAT
1 TAATTTACTATTAAATTATCAA
* * * * *
20887743 TGATGTACTACTAAGTTATTAA
1 TAATTTACTATTAAATTATCAA
* *
20887765 TGATTTACTATTAAGTTTATCAA
1 TAATTTACTATTAA-ATTATCAA
*
20887788 TTAA-TTACTATTAAATTA-AAA
1 -TAATTTACTATTAAATTATCAA
* * * *
20887809 TTGATTAACTATTAAGTTATCAC
1 -TAATTTACTATTAAATTATCAA
20887832 TAATT
1 TAATT
20887837 CGTGTTAAGT
Statistics
Matches: 325, Mismatches: 105, Indels: 32
0.70 0.23 0.07
Matches are distributed among these distances:
20 1 0.00
21 52 0.16
22 220 0.68
23 31 0.10
24 21 0.06
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (22 bp):
TAATTTACTATTAAATTATCAA
Found at i:20887667 original size:22 final size:21
Alignment explanation
Indices: 20887639--20887892 Score: 156
Period size: 22 Copynumber: 11.7 Consensus size: 21
20887629 TATCCATAAT
*
20887639 TTACTATTAAGTTTTCATTGA
1 TTACTATTAAGTTATCATTGA
*
20887660 TTAGCTATTAAGTTATTGA-T-A
1 TTA-CTATTAAGTTA-TCATTGA
* *
20887681 TTTACTACTAACTTAT-ATTGA
1 -TTACTATTAAGTTATCATTGA
* * *
20887702 TTTACTTTTAAGTTTTCAATGA
1 -TTACTATTAAGTTATCATTGA
* *
20887724 TTTACTACTAAATTATCATTGA
1 -TTACTATTAAGTTATCATTGA
* * *
20887746 TGTACTACTAAGTTATTAATGA
1 T-TACTATTAAGTTATCATTGA
*
20887768 TTTACTATTAAGTTTATCAATTAA
1 -TTACTATTAAG-TTATC-ATTGA
* **
20887792 TTACTATTAAATTAAAATTGA
1 TTACTATTAAGTTATCATTGA
* *
20887813 TTAACTATTAAGTTATCACTAA
1 TT-ACTATTAAGTTATCATTGA
*
20887835 TT-CGTGTTAAGTTATCATTGA
1 TTAC-TATTAAGTTATCATTGA
* ** *
20887856 TTTATTAACAAGTTATCAATGA
1 -TTACTATTAAGTTATCATTGA
20887878 TTAACTATTAAGTTA
1 TT-ACTATTAAGTTA
20887893 ACATCTATTT
Statistics
Matches: 177, Mismatches: 41, Indels: 29
0.72 0.17 0.12
Matches are distributed among these distances:
19 1 0.01
20 3 0.02
21 49 0.28
22 104 0.59
23 17 0.10
24 3 0.02
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.46
Consensus pattern (21 bp):
TTACTATTAAGTTATCATTGA
Found at i:20887705 original size:64 final size:65
Alignment explanation
Indices: 20887637--20887805 Score: 191
Period size: 64 Copynumber: 2.6 Consensus size: 65
20887627 ATTATCCATA
* * * *
20887637 ATTTACTATTAAGTTTTCATTGATTAGCTATTAAGTTATTGA-T-ATTTACTACTAACTTA-TAT
1 ATTTACTATTAAGTTTTCATTGATTA-CTATTAAATTA-TCATTGATGTACTACTAACTTATTAA
20887699 TG
64 TG
* * * *
20887701 ATTTACTTTTAAGTTTTCAATGATTTACTACTAAATTATCATTGATGTACTACTAAGTTATTAAT
1 ATTTACTATTAAGTTTTCATTGA-TTACTATTAAATTATCATTGATGTACTACTAACTTATTAAT
20887766 G
65 G
*
20887767 ATTTACTATTAAGTTTATCAATTAATTACTATTAAATTA
1 ATTTACTATTAAGTTT-TC-ATTGATTACTATTAAATTA
20887806 AAATTGATTA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
63 2 0.02
64 31 0.36
65 17 0.20
66 19 0.22
67 15 0.17
68 3 0.03
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.49
Consensus pattern (65 bp):
ATTTACTATTAAGTTTTCATTGATTACTATTAAATTATCATTGATGTACTACTAACTTATTAATG
Found at i:20888295 original size:22 final size:21
Alignment explanation
Indices: 20888270--20888381 Score: 80
Period size: 22 Copynumber: 5.1 Consensus size: 21
20888260 ATAATTTGTC
20888270 ATTAAGTTATGAGTGATTTACT
1 ATTAAGTTATGA-TGATTTACT
*
20888292 ATTAAATTATTGATGATTTACT
1 ATTAAGTTA-TGATGATTTACT
* * **
20888314 ACTAAGTTATTGATGGTTTGTT
1 ATTAAGTTA-TGATGATTTACT
* * *
20888336 ATAAAGTTATATATGAATTACT
1 ATTAAGTTAT-GATGATTTACT
* * *
20888358 ACTAATTTATCGATAATTTACT
1 ATTAAGTTAT-GATGATTTACT
20888380 AT
1 AT
20888382 AAAATTATCA
Statistics
Matches: 67, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
21 1 0.01
22 63 0.94
23 3 0.04
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.46
Consensus pattern (21 bp):
ATTAAGTTATGATGATTTACT
Found at i:20888322 original size:44 final size:43
Alignment explanation
Indices: 20888272--20888389 Score: 114
Period size: 44 Copynumber: 2.7 Consensus size: 43
20888262 AATTTGTCAT
*
20888272 TAAGTTATGAGTGATTTACTATTAAATTAT-TGATGATTTACTAC
1 TAAGTTATGA-TGATTTACTATTAAATTATAT-ATGAATTACTAC
* **
20888316 TAAGTTATTGATGGTTTGTTA-TAAAGTTATATATGAATTACTAC
1 TAAGTTA-TGATGATTTACTATTAAA-TTATATATGAATTACTAC
* * *
20888360 TAATTTATCGATAATTTACTATAAAATTAT
1 TAAGTTAT-GATGATTTACTATTAAATTAT
20888390 CAATGATTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
43 5 0.08
44 47 0.80
45 7 0.12
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (43 bp):
TAAGTTATGATGATTTACTATTAAATTATATATGAATTACTAC
Found at i:20888472 original size:22 final size:22
Alignment explanation
Indices: 20888446--20888488 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
20888436 AGTTGTTGTA
20888446 ATTTACTATTATGTTATCAATG
1 ATTTACTATTATGTTATCAATG
*
20888468 ATTTACTGTTATGTTATCAAT
1 ATTTACTATTATGTTATCAAT
20888489 TTATTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTACTATTATGTTATCAATG
Found at i:20888544 original size:22 final size:22
Alignment explanation
Indices: 20888496--20888554 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
20888486 AATTTATTTT
* *
20888496 AAAATTATCAATAATTTACTAC
1 AAAATTATCAATGATTAACTAC
* *
20888518 TAAATTATCAATGATTAACTGC
1 AAAATTATCAATGATTAACTAC
*
20888540 AAAA-TATCCATGATT
1 AAAATTATCAATGATT
20888555 CATTGTCAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 10 0.32
22 21 0.68
ACGTcount: A:0.46, C:0.14, G:0.05, T:0.36
Consensus pattern (22 bp):
AAAATTATCAATGATTAACTAC
Found at i:20888614 original size:22 final size:21
Alignment explanation
Indices: 20888578--20888660 Score: 60
Period size: 22 Copynumber: 3.9 Consensus size: 21
20888568 TTACTAATTT
*
20888578 TAAATTATTAATGATTTACTA
1 TAAATTATCAATGATTTACTA
* * * *
20888599 TAAAATTATCACTGATTAATTGT
1 T-AAATTATCAATGATTTACT-A
*
20888622 TAAGTTATCAATGATTTACTA
1 TAAATTATCAATGATTTACTA
* *
20888643 CTAAGTTAT-ACTGATTTA
1 -TAAATTATCAATGATTTA
20888661 TTTTTATGTT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
21 9 0.19
22 38 0.79
23 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (21 bp):
TAAATTATCAATGATTTACTA
Found at i:20888637 original size:44 final size:43
Alignment explanation
Indices: 20888572--20888690 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 43
20888562 AAGTTATTAC
* *
20888572 TAATTTTAAATTATTAATGATTTACTA-TAAAATTATCACTGAT
1 TAATTTTAAGTTATCAATGATTTACTACTAAAATTAT-ACTGAT
*
20888615 TAATTGTTAAGTTATCAATGATTTACTACT-AAGTTATACTGATT
1 TAATT-TTAAGTTATCAATGATTTACTACTAAAATTATACTGA-T
* * *
20888659 TATTTTTATGTT-TCCAATGATTAACTACTAAA
1 TAATTTTAAGTTAT-CAATGATTTACTACTAAA
20888691 CTATAAATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
42 1 0.02
43 30 0.46
44 33 0.51
45 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (43 bp):
TAATTTTAAGTTATCAATGATTTACTACTAAAATTATACTGAT
Found at i:20888657 original size:43 final size:43
Alignment explanation
Indices: 20888572--20888690 Score: 127
Period size: 43 Copynumber: 2.7 Consensus size: 43
20888562 AAGTTATTAC
* *
20888572 TAATTTTAAATTATTAATGATTTACTA-TAAAATTATCACTGAT
1 TAATTTTAAGTTATCAATGATTTACTACT-AAATTATCACTGAT
*
20888615 TAATTGTTAAGTTATCAATGATTTACTACTAAGTTAT-ACTGATT
1 TAATT-TTAAGTTATCAATGATTTACTACTAAATTATCACTGA-T
* * *
20888659 TATTTTTATGTT-TCCAATGATTAACTACTAAA
1 TAATTTTAAGTTAT-CAATGATTTACTACTAAA
20888691 CTATAAATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
42 1 0.02
43 32 0.49
44 31 0.48
45 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (43 bp):
TAATTTTAAGTTATCAATGATTTACTACTAAATTATCACTGAT
Found at i:20888992 original size:58 final size:59
Alignment explanation
Indices: 20888893--20889008 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 59
20888883 ATTATTTACA
* * * **
20888893 ATTATATTATAATTAATTTACTACTAAGTTATTATGCATTTACTATTATTTTATTACTG
1 ATTATATTATAATTAATTGACTACTAAATTATTATGAATTTACTATTAAGTTATTACTG
* *
20888952 ATTAT-TTATTAATT-ATTGACTACTAAATTATTATTAATTTATTATTAAGTTATTACT
1 ATTATATTA-TAATTAATTGACTACTAAATTATTATGAATTTACTATTAAGTTATTACT
20889009 AATTTACTAC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 39 0.80
59 10 0.20
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.53
Consensus pattern (59 bp):
ATTATATTATAATTAATTGACTACTAAATTATTATGAATTTACTATTAAGTTATTACTG
Found at i:20888995 original size:11 final size:11
Alignment explanation
Indices: 20888899--20889014 Score: 56
Period size: 11 Copynumber: 10.3 Consensus size: 11
20888889 TACAATTATA
*
20888899 TTATAATTAAT
1 TTATTATTAAT
* * *
20888910 TTACTACTAAG
1 TTATTATTAAT
**
20888921 TTATTATGCAT
1 TTATTATTAAT
* *
20888932 TTACTATTATT
1 TTATTATTAAT
* *
20888943 TTATTACTGA-
1 TTATTATTAAT
20888953 TTATTTATTAA-
1 TTA-TTATTAAT
*
20888964 TTATTGACTACTAAA
1 TTATT-A-T--TAAT
20888979 TTATTATTAAT
1 TTATTATTAAT
*
20888990 TTATTATTAAG
1 TTATTATTAAT
*
20889001 TTATTACTAAT
1 TTATTATTAAT
20889012 TTA
1 TTA
20889015 CTACTAAGTT
Statistics
Matches: 76, Mismatches: 23, Indels: 12
0.68 0.21 0.11
Matches are distributed among these distances:
10 5 0.07
11 60 0.79
12 1 0.01
13 1 0.01
14 4 0.05
15 5 0.07
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.53
Consensus pattern (11 bp):
TTATTATTAAT
Found at i:20889004 original size:22 final size:22
Alignment explanation
Indices: 20888881--20888940 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 22
20888871 CACTATATTG
*
20888881 TTATT-ATTTACAATTATA-TTA
1 TTATTAATTTACTATTA-AGTTA
* *
20888902 TAATTAATTTACTACTAAGTTA
1 TTATTAATTTACTATTAAGTTA
**
20888924 TTATGCATTTACTATTA
1 TTATTAATTTACTATTA
20888941 TTTTATTACT
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.37, C:0.08, G:0.03, T:0.52
Consensus pattern (22 bp):
TTATTAATTTACTATTAAGTTA
Found at i:20889005 original size:22 final size:22
Alignment explanation
Indices: 20888957--20889070 Score: 99
Period size: 22 Copynumber: 5.2 Consensus size: 22
20888947 TACTGATTAT
* * *
20888957 TTATTAATT-ATTGACTACTAAA
1 TTATT-ATTAATTTACTATTAAG
*
20888979 TTATTATTAATTTATTATTAAG
1 TTATTATTAATTTACTATTAAG
* *
20889001 TTATTACTAATTTACTACTAAG
1 TTATTATTAATTTACTATTAAG
* *
20889023 TTATTCA-TGATTTACTATCAAG
1 TTATT-ATTAATTTACTATTAAG
*
20889045 TTATTACTT-ATTAACTATTAAG
1 TTATTA-TTAATTTACTATTAAG
20889067 TTAT
1 TTAT
20889071 CGATAATTAT
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
21 4 0.05
22 70 0.92
23 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (22 bp):
TTATTATTAATTTACTATTAAG
Found at i:20889005 original size:44 final size:44
Alignment explanation
Indices: 20888957--20889078 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
20888947 TACTGATTAT
* * * * *
20888957 TTATTAATTATTGACTACTAAATTATT-ATTAATTTATTATTAAG
1 TTATTACTTATTAACTACTAAGTTATTCA-TAATTTACTATCAAG
* * *
20889001 TTATTACTAATTTACTACTAAGTTATTCATGATTTACTATCAAG
1 TTATTACTTATTAACTACTAAGTTATTCATAATTTACTATCAAG
*
20889045 TTATTACTTATTAACTATTAAGTTA-TCGATAATT
1 TTATTACTTATTAACTACTAAGTTATTC-ATAATT
20889079 ATTATGTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.03
44 62 0.95
45 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (44 bp):
TTATTACTTATTAACTACTAAGTTATTCATAATTTACTATCAAG
Found at i:20889019 original size:11 final size:11
Alignment explanation
Indices: 20888972--20889027 Score: 58
Period size: 11 Copynumber: 5.1 Consensus size: 11
20888962 AATTATTGAC
*
20888972 TACTAAATTAT
1 TACTAATTTAT
*
20888983 TATTAATTTAT
1 TACTAATTTAT
* *
20888994 TATTAAGTTAT
1 TACTAATTTAT
*
20889005 TACTAATTTAC
1 TACTAATTTAT
*
20889016 TACTAAGTTAT
1 TACTAATTTAT
20889027 T
1 T
20889028 CATGATTTAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.52
Consensus pattern (11 bp):
TACTAATTTAT
Found at i:20889793 original size:14 final size:15
Alignment explanation
Indices: 20889774--20889802 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20889764 ATAGTTCCAA
20889774 TTATTACT-TCATTC
1 TTATTACTATCATTC
20889788 TTATTACTATCATTC
1 TTATTACTATCATTC
20889803 AAAATATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATTACTATCATTC
Found at i:20892675 original size:51 final size:51
Alignment explanation
Indices: 20892620--20892717 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
20892610 TATATAACTG
20892620 ATAATAAGTTTTGATGTCATTTTATTTATATTTTTATTCGATGTGAATCAT
1 ATAATAAGTTTTGATGTCATTTTATTTATATTTTTATTCGATGTGAATCAT
** *
20892671 ATAATAAGTTTTGATGTTGTTTTATTTATATTTTTATTTGATGTGAA
1 ATAATAAGTTTTGATGTCATTTTATTTATATTTTTATTCGATGTGAA
20892718 AATCATATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (51 bp):
ATAATAAGTTTTGATGTCATTTTATTTATATTTTTATTCGATGTGAATCAT
Found at i:20898732 original size:15 final size:15
Alignment explanation
Indices: 20898712--20898741 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20898702 CATGTGATTA
20898712 TTTTGTTTTTAACTT
1 TTTTGTTTTTAACTT
20898727 TTTTGTTTTTAACTT
1 TTTTGTTTTTAACTT
20898742 CTATAAAATT
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:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (15 bp):
TTTTGTTTTTAACTT
Found at i:20910175 original size:38 final size:38
Alignment explanation
Indices: 20910124--20910200 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
20910114 TAAAAAGTGG
*
20910124 TTATCGATTATAATTGAACAACAACCCAAATTGCATGT
1 TTATCCATTATAATTGAACAACAACCCAAATTGCATGT
*
20910162 TTATCCATTATAATTGAATAACAACCCAAATTGCATGT
1 TTATCCATTATAATTGAACAACAACCCAAATTGCATGT
20910200 T
1 T
20910201 CTTGCTTGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (38 bp):
TTATCCATTATAATTGAACAACAACCCAAATTGCATGT
Found at i:20912823 original size:249 final size:246
Alignment explanation
Indices: 20912114--20912868 Score: 750
Period size: 240 Copynumber: 3.1 Consensus size: 246
20912104 GGATTAACCA
* * ** * *
20912114 AAAACGCTTTGAATAATC-TCTTGAAAAACCCAAAAAATGCTAGAGGGAGGGATCGAACCTATGG
1 AAAACGCCTTGAATAA-CACCTTGAAAAACCCAAAAAATGCTAGAGGGAGAAATCGAACCTACGA
* * * * * * * * *
20912178 CCTTATGATTAATAGCTATATGCTCTAACCAATTGAGTTGCTCCAATATTTTTATAATTAAAAGC
65 CCTTATGGTTAA-A-CTGTATGCTCTAACCGATTAAGCTACTCTAGTATTTTTATAATTAAAAGG
* * ** *
20912243 TATTATTTAAACTAAGAATAATCTCCTCACAGAAGGGATTATTCAAGGTGTTTTATGCCAAAAAC
128 TATTATTTAAACTAAGAATAATCCCCTCCCAGAAGGGATTATTCAAGGCATTTTATGCCAAAAAT
* * ** *
20912308 ACCTTGAATAA-CCATATTCAATTTTTATGAGGAATTATTCAAGGCATTTTTGGCTAG
193 ACCTTCAATAATCCCT-TTCAATTTTT-TGA-G-ATTATTCAAGTTATTTTTGGCCAG
* ** * * * *
20912365 AAAATGCCTTGAATAA-TTCGTGAAAAACCCAAAAAACGTTGGAGGGA-AAGATCGAACCTACGA
1 AAAACGCCTTGAATAACACCTTGAAAAACCCAAAAAATGCTAGAGGGAGAA-ATCGAACCTACGA
* * * *
20912428 CCTTATGG-------GTGTGCTCTAATCGATTAAGCTACTCTAGTGTTTTT-TAATTAAAAAGTA
65 CCTTATGGTTAAACTGTATGCTCTAACCGATTAAGCTACTCTAGTATTTTTATAATTAAAAGGTA
* * * *
20912485 TTATTTAAACTAAGAATAATCCCTTCCCAGATGGGATTATTTAAGGCATTTTCTGCCAAAAATAC
130 TTATTTAAACTAAGAATAATCCCCTCCCAGAAGGGATTATTCAAGGCATTTTATGCCAAAAATAC
* * *
20912550 ATTCAATAATCTCC-TTCCATTTTTTGGAGATTATTTAAGTTATTTTTGGCCAG
195 CTTCAATAATC-CCTTTCAATTTTTT-GAGATTATTCAAGTTATTTTTGGCCAG
* * * * * *
20912603 AAAACACCATGAATAACACCTTGAAAAACCCAAAAAATGCTAAAAGGAGAAATCAAACCTA-AAC
1 AAAACGCCTTGAATAACACCTTGAAAAACCCAAAAAATGCTAGAGGGAGAAATCGAACCTACGAC
*
20912667 CTTATGGTTAACATCTGTATGCTCTAACCGATTAAGCTACTTTAGTATTTTTATAATTAAAAGGT
66 CTTATGGTTAA-A-CTGTATGCTCTAACCGATTAAGCTACTCTAGTATTTTTATAATTAAAAGGT
* * * *
20912732 ATTATTTAAACTAAGAAATAATCCCCTCCCAAAAGGAATTATTCAAGGCATTTTTTGCAAAAAAT
129 ATTATTTAAACTAAG-AATAATCCCCTCCCAGAAGGGATTATTCAAGGCATTTTATGCCAAAAAT
* *
20912797 GCCTTTAATAATCCCTTTCAATTTTTTTGAGATTATTCAAGGCTT-TTTTT-GCCAG
193 ACCTTCAATAATCCCTTTCAA-TTTTTTGAGATTATTCAA-G-TTATTTTTGGCCAG
20912852 AAAACGCCTTGAATAAC
1 AAAACGCCTTGAATAAC
20912869 TCCCGTTCAA
Statistics
Matches: 410, Mismatches: 72, Indels: 46
0.78 0.14 0.09
Matches are distributed among these distances:
238 42 0.10
239 34 0.08
240 87 0.21
241 27 0.07
242 1 0.00
247 32 0.08
248 28 0.07
249 87 0.21
250 56 0.14
251 16 0.04
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (246 bp):
AAAACGCCTTGAATAACACCTTGAAAAACCCAAAAAATGCTAGAGGGAGAAATCGAACCTACGAC
CTTATGGTTAAACTGTATGCTCTAACCGATTAAGCTACTCTAGTATTTTTATAATTAAAAGGTAT
TATTTAAACTAAGAATAATCCCCTCCCAGAAGGGATTATTCAAGGCATTTTATGCCAAAAATACC
TTCAATAATCCCTTTCAATTTTTTGAGATTATTCAAGTTATTTTTGGCCAG
Found at i:20912837 original size:59 final size:61
Alignment explanation
Indices: 20912769--20912884 Score: 164
Period size: 59 Copynumber: 1.9 Consensus size: 61
20912759 CCCAAAAGGA
* * * *
20912769 ATTATTCAAGGCATTTTTTG-CAAAAAATGCCTTTAATAA-TCCCTTTCAATTTTTTTGAG
1 ATTATTCAAGGCATTTTTTGCCAAAAAACGCCTTGAATAACTCCCGTTCAAATTTTTTGAG
* *
20912828 ATTATTCAAGGCTTTTTTTGCCAGAAAACGCCTTGAATAACTCCCGTTCAAATTTTT
1 ATTATTCAAGGCATTTTTTGCCAAAAAACGCCTTGAATAACTCCCGTTCAAATTTTT
20912885 ATAAGGAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 19 0.39
60 16 0.33
61 14 0.29
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.41
Consensus pattern (61 bp):
ATTATTCAAGGCATTTTTTGCCAAAAAACGCCTTGAATAACTCCCGTTCAAATTTTTTGAG
Found at i:20912884 original size:60 final size:59
Alignment explanation
Indices: 20912769--20912884 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 59
20912759 CCCAAAAGGA
* * * *
20912769 ATTATTCAAGGCATTTTTTGCAAAAAATGCCTTTAATAATCCCTTTCAATTTTTTTGAG
1 ATTATTCAAGGCATTTTTTGCAAAAAACGCCTTGAATAATCCCGTTCAATATTTTTGAG
* *
20912828 ATTATTCAAGGCTTTTTTTGCCAGAAAACGCCTTGAATAACTCCCGTTCAA-ATTTTT
1 ATTATTCAAGGCATTTTTTG-CAAAAAACGCCTTGAATAA-TCCCGTTCAATATTTTT
20912885 ATAAGGAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 19 0.39
60 21 0.43
61 9 0.18
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.41
Consensus pattern (59 bp):
ATTATTCAAGGCATTTTTTGCAAAAAACGCCTTGAATAATCCCGTTCAATATTTTTGAG
Found at i:20925060 original size:32 final size:31
Alignment explanation
Indices: 20925019--20925117 Score: 171
Period size: 32 Copynumber: 3.1 Consensus size: 31
20925009 TCTAACTCTC
20925019 ATTGTTTTTTAGACATGTATAATACTCTGATG
1 ATTG-TTTTTAGACATGTATAATACTCTGATG
20925051 ATTGATTTTTAGACATGTATAATACTCTGATG
1 ATTG-TTTTTAGACATGTATAATACTCTGATG
20925083 ATTGTTTTTAAGACATGTATAATACTCTGATG
1 ATTGTTTTT-AGACATGTATAATACTCTGATG
20925115 ATT
1 ATT
20925118 TTGTCAGTTA
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
31 5 0.08
32 60 0.92
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (31 bp):
ATTGTTTTTAGACATGTATAATACTCTGATG
Found at i:20925374 original size:25 final size:24
Alignment explanation
Indices: 20925346--20925392 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
20925336 TGATACCATG
*
20925346 TGAAAAAGTTAAAAATAAAATTGTA
1 TGAAAAA-CTAAAAATAAAATTGTA
*
20925371 TGAAAAACTAAGAATAAAATTG
1 TGAAAAACTAAAAATAAAATTG
20925393 AATGTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.60, C:0.02, G:0.13, T:0.26
Consensus pattern (24 bp):
TGAAAAACTAAAAATAAAATTGTA
Found at i:20933776 original size:21 final size:21
Alignment explanation
Indices: 20933752--20933795 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20933742 TTAATTTTTT
*
20933752 ATTTATTTAAATGATA-AATAA
1 ATTTATAT-AATGATATAATAA
*
20933773 ATTTATATAATTATATAATAA
1 ATTTATATAATGATATAATAA
20933794 AT
1 AT
20933796 AAAAAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTTATATAATGATATAATAA
Found at i:20933777 original size:25 final size:25
Alignment explanation
Indices: 20933749--20933798 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
20933739 TTTTTAATTT
* * *
20933749 TTTATTTATTTAAATGATAAATAAA
1 TTTATATAATTAAATAATAAATAAA
*
20933774 TTTATATAATTATATAATAAATAAA
1 TTTATATAATTAAATAATAAATAAA
20933799 AAAAATTAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
TTTATATAATTAAATAATAAATAAA
Found at i:20935305 original size:16 final size:16
Alignment explanation
Indices: 20935284--20935320 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
20935274 ATAAAACCAA
20935284 AAAAATAATAATAA-CT
1 AAAAATAA-AATAAGCT
20935300 AAAAATAAAATAAGCT
1 AAAAATAAAATAAGCT
20935316 AAAAA
1 AAAAA
20935321 ACATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (16 bp):
AAAAATAAAATAAGCT
Found at i:20936167 original size:3 final size:3
Alignment explanation
Indices: 20936161--20936287 Score: 73
Period size: 3 Copynumber: 45.3 Consensus size: 3
20936151 GAAAAAAATG
*
20936161 ATA ATA ATA ATA ATA ATA ATA ATA ATA ACT- ACA ATA ACT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA A-TA ATA ATA
* * *
20936206 AT- ATA AT- ATA A-C ATA AT- ATA GT- ATA GTA AT- ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
20936247 ATA AT- ATA GT- ATA AT- ATA GTA CCATA ATA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA A
20936288 AAGTGATATA
Statistics
Matches: 95, Mismatches: 12, Indels: 34
0.67 0.09 0.24
Matches are distributed among these distances:
2 20 0.21
3 71 0.75
4 2 0.02
5 2 0.02
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:20936261 original size:10 final size:10
Alignment explanation
Indices: 20936199--20936267 Score: 65
Period size: 10 Copynumber: 7.2 Consensus size: 10
20936189 CTACAATAAC
20936199 TATAATA-A-
1 TATAATATAG
*
20936207 TATAATATAA
1 TATAATATAG
*
20936217 CATAATATAG
1 TATAATATAG
*
20936227 TATAGTA-A-
1 TATAATATAG
*
20936235 TATAATAATAA
1 TATAAT-ATAG
20936246 TATAATATAG
1 TATAATATAG
20936256 TATAATATAG
1 TATAATATAG
20936266 TA
1 TA
20936268 CCATAATAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
8 12 0.24
9 3 0.06
10 29 0.58
11 6 0.12
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (10 bp):
TATAATATAG
Found at i:20936265 original size:34 final size:34
Alignment explanation
Indices: 20936161--20936286 Score: 126
Period size: 34 Copynumber: 3.5 Consensus size: 34
20936151 GAAAAAAATG
* *
20936161 ATAATAATAATAATAATAATAATAATAACTACAATAACT
1 ATAATAATAAT-ATAAT-ATAAT-ATAA-TATAGTAA-T
* *
20936200 ATAATAATATAATATAACATAATATAGTATAGTAAT
1 ATAAT-A-ATAATATAATATAATATAATATAGTAAT
* **
20936236 ATAATAATAATATAATATAGTATAATATAGTACC
1 ATAATAATAATATAATATAATATAATATAGTAAT
20936270 ATAATAATAATATAATA
1 ATAATAATAATATAATA
20936287 AAAGTGATAT
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
34 40 0.53
35 1 0.01
36 6 0.08
37 6 0.08
38 3 0.04
39 10 0.13
40 5 0.07
41 5 0.07
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (34 bp):
ATAATAATAATATAATATAATATAATATAGTAAT
Found at i:20936275 original size:39 final size:40
Alignment explanation
Indices: 20936200--20936286 Score: 117
Period size: 39 Copynumber: 2.2 Consensus size: 40
20936190 TACAATAACT
*
20936200 ATAATAATATAATATAACATAATATAGTATAGTAAT-ATA
1 ATAATAATATAATATAACATAATATAGTACAGTAATAATA
**
20936239 ATAATAATATAATATAGTATAATATAGTACCA-TAATAATA
1 ATAATAATATAATATAACATAATATAGTA-CAGTAATAATA
20936279 AT-ATAATA
1 ATAATAATA
20936287 AAAGTGATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 37 0.86
40 6 0.14
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (40 bp):
ATAATAATATAATATAACATAATATAGTACAGTAATAATA
Found at i:20936286 original size:5 final size:5
Alignment explanation
Indices: 20936203--20936264 Score: 70
Period size: 5 Copynumber: 11.6 Consensus size: 5
20936193 AATAACTATA
*
20936203 ATAAT ATAAT ATAAC ATAAT ATAGTAT AGTAAT ATAAT AATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATA--AT A-TAAT ATAAT -ATAAT ATAAT
*
20936252 ATAGT ATAAT ATA
1 ATAAT ATAAT ATA
20936265 GTACCATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
5 36 0.73
6 8 0.16
7 3 0.06
8 2 0.04
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (5 bp):
ATAAT
Found at i:20938426 original size:1 final size:1
Alignment explanation
Indices: 20938420--20938460 Score: 55
Period size: 1 Copynumber: 41.0 Consensus size: 1
20938410 GCCCCATCAA
* * *
20938420 TTTTTTTTTTCTTTTTTTCTTTGTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
20938461 GGTAAAGCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.05, G:0.02, T:0.93
Consensus pattern (1 bp):
T
Found at i:20942381 original size:5 final size:5
Alignment explanation
Indices: 20942343--20942436 Score: 54
Period size: 5 Copynumber: 18.8 Consensus size: 5
20942333 AAATTTCTCA
* * **
20942343 AAAAT AAAACC AAAA- AAAAA AAAACT AAATAT AAAAT AAGCT -AAA-
1 AAAAT AAAA-T AAAAT AAAAT AAAA-T AAA-AT AAAAT AAAAT AAAAT
* *
20942388 AATAT ATAAAT AACAT AAAAT AAAAT -AAAT AAAAT AAAAT GAAAA- AAAA
1 AAAAT A-AAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
20942437 AACCTTACGA
Statistics
Matches: 70, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
4 15 0.21
5 35 0.50
6 19 0.27
7 1 0.01
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:20942406 original size:19 final size:19
Alignment explanation
Indices: 20942369--20942426 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
20942359 AAAAAAAACT
20942369 AAATATA-AAATAAGC-TAA
1 AAATATATAAATAA-CATAA
20942387 AAATATATAAATAACAT-A
1 AAATATATAAATAACATAA
* *
20942405 AAATAAAATAAATAAAATAA
1 AAAT-ATATAAATAACATAA
20942425 AA
1 AA
20942427 TGAAAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 13 0.38
19 18 0.53
20 3 0.09
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.22
Consensus pattern (19 bp):
AAATATATAAATAACATAA
Found at i:20942427 original size:19 final size:20
Alignment explanation
Indices: 20942393--20942432 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
20942383 CTAAAAATAT
*
20942393 ATAAATAACATAAAAT-AAA
1 ATAAATAAAATAAAATGAAA
20942412 ATAAATAAAATAAAATGAAA
1 ATAAATAAAATAAAATGAAA
20942432 A
1 A
20942433 AAAAAACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (20 bp):
ATAAATAAAATAAAATGAAA
Found at i:20942435 original size:14 final size:14
Alignment explanation
Indices: 20942373--20942427 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
20942363 AAAACTAAAT
**
20942373 ATAAAATAAGCTAA
1 ATAAAATAAAATAA
*
20942387 A-AATATATAAATAA
1 ATAAAATA-AAATAA
20942401 CATAAAATAAAATAA
1 -ATAAAATAAAATAA
20942416 ATAAAATAAAAT
1 ATAAAATAAAAT
20942428 GAAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 5 0.15
14 17 0.50
15 7 0.21
16 5 0.15
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (14 bp):
ATAAAATAAAATAA
Found at i:20943312 original size:3 final size:3
Alignment explanation
Indices: 20943306--20943417 Score: 98
Period size: 3 Copynumber: 39.0 Consensus size: 3
20943296 AAAAATGATG
*
20943306 ATA ATA ATA ATA ATA ATA ATA ATA ACT- ATA ATA AT- CTA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
*
20943349 ATA ATA TATA ATA AT- ATA ATA ATA AT- ATA AT- ATA GT- ATA AT-
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
20943390 ATA GTA CCATA ATA ATA AT- ATA ATA ATA
1 ATA ATA --ATA ATA ATA ATA ATA ATA ATA
20943418 GTGATATACT
Statistics
Matches: 90, Mismatches: 6, Indels: 26
0.74 0.05 0.21
Matches are distributed among these distances:
2 15 0.17
3 69 0.77
4 4 0.04
5 2 0.02
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:20943350 original size:34 final size:32
Alignment explanation
Indices: 20943307--20943453 Score: 119
Period size: 34 Copynumber: 4.6 Consensus size: 32
20943297 AAAATGATGA
20943307 TAATAATAATAATAATAATAATAACTATAATAAT
1 TAAT-ATAATAATAATAATAAT-ACTATAATAAT
20943341 CTAATATAATAATATATAATAATA-TAATAATAAT
1 -TAATATAATAATA-ATAATAATACT-ATAATAAT
* * *
20943375 ATAATATAGT-ATAAT-ATAGTACCATAATAA-
1 -TAATATAATAATAATAATAATACTATAATAAT
* * *
20943405 TAATATAATAATAGTGAT-ATACTATACT-A-
1 TAATATAATAATAATAATAATACTATAATAAT
*
20943434 TAATACTAGTAATAATAATA
1 TAATA-TAATAATAATAATA
20943454 GAAAAAATAA
Statistics
Matches: 93, Mismatches: 12, Indels: 18
0.76 0.10 0.15
Matches are distributed among these distances:
29 14 0.15
30 21 0.23
31 14 0.15
32 2 0.02
33 4 0.04
34 26 0.28
35 12 0.13
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (32 bp):
TAATATAATAATAATAATAATACTATAATAAT
Found at i:20945990 original size:24 final size:24
Alignment explanation
Indices: 20945960--20946053 Score: 109
Period size: 24 Copynumber: 3.9 Consensus size: 24
20945950 ATCATGCAAT
20945960 CATGCAATAAATATAAAATCATAC
1 CATGCAATAAATATAAAATCATAC
20945984 CATGCAATAAATATAAAATCATAC
1 CATGCAATAAATATAAAATCATAC
* ** * *
20946008 AATGCAATAAACTATGCAAT-AAAT
1 CATGCAATAAA-TATAAAATCATAC
**
20946032 CATTTAATAAATATAAAATCAT
1 CATGCAATAAATATAAAATCAT
20946054 GCCGTTTAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.11
24 45 0.79
25 6 0.11
ACGTcount: A:0.54, C:0.14, G:0.04, T:0.28
Consensus pattern (24 bp):
CATGCAATAAATATAAAATCATAC
Found at i:20946083 original size:18 final size:19
Alignment explanation
Indices: 20945957--20946091 Score: 67
Period size: 24 Copynumber: 6.4 Consensus size: 19
20945947 CAAATCATGC
20945957 AATCATGCAATAAATATAAA
1 AATCATGCAATAAATAT-AA
20945977 ATCATACCATGCAATAAATATAAA
1 A--AT--CATGCAATAAATAT-AA
20946001 ATCATACAATGCAATAAACTATGCAATA
1 A--AT-C-ATGCAATAAA-TAT---A-A
**
20946029 AATCATTTAATAAATATAA
1 AATCATGCAATAAATATAA
** **
20946048 AATCATGCCGTTTA-AT-A
1 AATCATGCAATAAATATAA
20946065 AATCATGCAATAAATATAA
1 AATCATGCAATAAATATAA
20946084 AATCATGC
1 AATCATGC
20946092 CAAAAATTAT
Statistics
Matches: 91, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
17 11 0.12
18 4 0.04
19 18 0.20
20 2 0.02
22 2 0.02
23 4 0.04
24 40 0.44
25 4 0.04
26 2 0.02
27 2 0.02
28 2 0.02
ACGTcount: A:0.52, C:0.14, G:0.06, T:0.28
Consensus pattern (19 bp):
AATCATGCAATAAATATAA
Found at i:20946230 original size:20 final size:20
Alignment explanation
Indices: 20946161--20946244 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 20
20946151 CTGCACAAAT
* ** *
20946161 AAATATGTTAATAATTATAC
1 AAATATATTAATAAACATGC
*
20946181 AATTATATTAATAAACATGCC
1 AAATATATTAATAAACATG-C
*
20946202 AAA-A-A--AATAATCATGC
1 AAATATATTAATAAACATGC
20946218 AAATATATTAATAAACATGC
1 AAATATATTAATAAACATGC
*
20946238 AATTATA
1 AAATATA
20946245 AATATAATAA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
16 4 0.08
17 10 0.20
18 1 0.02
19 1 0.02
20 31 0.62
21 3 0.06
ACGTcount: A:0.54, C:0.10, G:0.05, T:0.32
Consensus pattern (20 bp):
AAATATATTAATAAACATGC
Found at i:20947231 original size:17 final size:17
Alignment explanation
Indices: 20947211--20947243 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
20947201 CCAATAACTA
20947211 AACTAAAGAAATAAAAG
1 AACTAAAGAAATAAAAG
*
20947228 AACTAAAGAACTAAAA
1 AACTAAAGAAATAAAA
20947244 ACTGAAAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (17 bp):
AACTAAAGAAATAAAAG
Found at i:20947235 original size:8 final size:8
Alignment explanation
Indices: 20947211--20947252 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
20947201 CCAATAACTA
20947211 AACTAAAG
1 AACTAAAG
*
20947219 AAATAAAAG
1 AACT-AAAG
20947228 AACTAAAG
1 AACTAAAG
20947236 AACTAAA-
1 AACTAAAG
20947243 AACTGAAAG
1 AACT-AAAG
20947252 A
1 A
20947253 TAAAATAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
7 4 0.14
8 17 0.59
9 8 0.28
ACGTcount: A:0.67, C:0.10, G:0.12, T:0.12
Consensus pattern (8 bp):
AACTAAAG
Found at i:20947658 original size:29 final size:30
Alignment explanation
Indices: 20947628--20947685 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
20947618 GTCATTGTCC
20947628 TTCGAATCTTTCCTTGGCCAAATGTATCCT
1 TTCGAATCTTTCCTTGGCCAAATGTATCCT
* * * *
20947658 TTTGAATTTTTTCTTGGCTAAATGTATC
1 TTCGAATCTTTCCTTGGCCAAATGTATC
20947686 TAGCCTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.47
Consensus pattern (30 bp):
TTCGAATCTTTCCTTGGCCAAATGTATCCT
Found at i:20948767 original size:16 final size:17
Alignment explanation
Indices: 20948735--20948767 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
20948725 AGTGAAGATT
20948735 AAATCAAAACCCAAAAA
1 AAATCAAAACCCAAAAA
20948752 AAAT-AAAATCCCAAAA
1 AAATCAAAA-CCCAAAA
20948768 TTCTAGAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.70, C:0.21, G:0.00, T:0.09
Consensus pattern (17 bp):
AAATCAAAACCCAAAAA
Found at i:20949249 original size:12 final size:12
Alignment explanation
Indices: 20949225--20949266 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
20949215 CCAAAAAATC
*
20949225 AAAATTAAAATT
1 AAAATTAAGATT
20949237 AAAATTAAGATT
1 AAAATTAAGATT
*
20949249 --AATTAAGACT
1 AAAATTAAGATT
20949259 AAAATTAA
1 AAAATTAA
20949267 ATCAAAACCC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 9 0.35
12 17 0.65
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (12 bp):
AAAATTAAGATT
Found at i:20949576 original size:38 final size:38
Alignment explanation
Indices: 20949475--20949723 Score: 245
Period size: 37 Copynumber: 6.7 Consensus size: 38
20949465 TAGGTTAAAA
* * * * *
20949475 ACTCCCCCATAATTGAGGCTTAAAACTCTAAATG-AAT
1 ACTCCCCCACAACTAAGGCTTGAAACTTTAAATGAAAT
** *
20949512 ACTCCCCCACAGTTAAGGCTTAAAACTTTAAATGAAAT
1 ACTCCCCCACAACTAAGGCTTGAAACTTTAAATGAAAT
** * * * *
20949550 GTTTCCCCATAAATAAGACTTGAAACTTTAAATGAAA-
1 ACTCCCCCACAACTAAGGCTTGAAACTTTAAATGAAAT
* * * *
20949587 ACTCCCCCAGAATTGAGGCTTGAAACTCTAAATG-AAT
1 ACTCCCCCACAACTAAGGCTTGAAACTTTAAATGAAAT
* *
20949624 ACTCCCCCACAGCTAAGGCTTAAAACTTTAAATGAAAT
1 ACTCCCCCACAACTAAGGCTTGAAACTTTAAATGAAAT
** * *
20949662 GTTTCCCCACAACTAAGACTTGAAACTTTAAATGAAA-
1 ACTCCCCCACAACTAAGGCTTGAAACTTTAAATGAAAT
*
20949699 ACTCCCCCATAACTAAGGCTTGAAA
1 ACTCCCCCACAACTAAGGCTTGAAA
20949724 AGCTCCCTCA
Statistics
Matches: 172, Mismatches: 37, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
36 2 0.01
37 104 0.60
38 66 0.38
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.26
Consensus pattern (38 bp):
ACTCCCCCACAACTAAGGCTTGAAACTTTAAATGAAAT
Found at i:20949669 original size:112 final size:112
Alignment explanation
Indices: 20949472--20949723 Score: 441
Period size: 112 Copynumber: 2.2 Consensus size: 112
20949462 GTTTAGGTTA
* *
20949472 AAAACTCCCCCATAATTGAGGCTTAAAACTCTAAATGAATACTCCCCCACAGTTAAGGCTTAAAA
1 AAAACTCCCCCATAATTGAGGCTTGAAACTCTAAATGAATACTCCCCCACAGCTAAGGCTTAAAA
*
20949537 CTTTAAATGAAATGTTTCCCCATAAATAAGACTTGAAACTTTAAATG
66 CTTTAAATGAAATGTTTCCCCACAAATAAGACTTGAAACTTTAAATG
*
20949584 AAAACTCCCCCAGAATTGAGGCTTGAAACTCTAAATGAATACTCCCCCACAGCTAAGGCTTAAAA
1 AAAACTCCCCCATAATTGAGGCTTGAAACTCTAAATGAATACTCCCCCACAGCTAAGGCTTAAAA
*
20949649 CTTTAAATGAAATGTTTCCCCACAACTAAGACTTGAAACTTTAAATG
66 CTTTAAATGAAATGTTTCCCCACAAATAAGACTTGAAACTTTAAATG
* *
20949696 AAAACTCCCCCATAACTAAGGCTTGAAA
1 AAAACTCCCCCATAATTGAGGCTTGAAA
20949724 AGCTCCCTCA
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
112 132 1.00
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (112 bp):
AAAACTCCCCCATAATTGAGGCTTGAAACTCTAAATGAATACTCCCCCACAGCTAAGGCTTAAAA
CTTTAAATGAAATGTTTCCCCACAAATAAGACTTGAAACTTTAAATG
Found at i:20949703 original size:75 final size:75
Alignment explanation
Indices: 20949472--20949724 Score: 276
Period size: 75 Copynumber: 3.4 Consensus size: 75
20949462 GTTTAGGTTA
* * * * *
20949472 AAAACTCCCCCATAATTGAGGCTTAAAACTCTAAATG-AATACTCCCCCACAGTTAAGGCTTAAA
1 AAAACTCCCCCATAACTAAGGCTTAAAACTTTAAATGAAATACTCCCCCACAATTAAGGCTTGAA
20949536 ACTTTAAATG
66 ACTTTAAATG
** * * * * * *
20949546 AAATGTTTCCCCATAAATAAGACTTGAAACTTTAAATGAAA-ACTCCCCCAGAATTGAGGCTTGA
1 AAA-ACTCCCCCATAACTAAGGCTTAAAACTTTAAATGAAATACTCCCCCACAATTAAGGCTTGA
*
20949610 AACTCTAAATG
65 AACTTTAAATG
* * * ** * * *
20949621 AATACTCCCCCACAGCTAAGGCTTAAAACTTTAAATGAAATGTTTCCCCACAACTAAGACTTGAA
1 AAAACTCCCCCATAACTAAGGCTTAAAACTTTAAATGAAATACTCCCCCACAATTAAGGCTTGAA
20949686 ACTTTAAATG
66 ACTTTAAATG
20949696 AAAACTCCCCCATAACTAAGGCTTGAAAA
1 AAAACTCCCCCATAACTAAGGCTT-AAAA
20949725 GCTCCCTCAC
Statistics
Matches: 142, Mismatches: 33, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
74 32 0.23
75 104 0.73
76 6 0.04
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.25
Consensus pattern (75 bp):
AAAACTCCCCCATAACTAAGGCTTAAAACTTTAAATGAAATACTCCCCCACAATTAAGGCTTGAA
ACTTTAAATG
Found at i:20949722 original size:25 final size:26
Alignment explanation
Indices: 20949694--20949749 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
20949684 AAACTTTAAA
*
20949694 TGAAAA-CTCCCCCATAACTAAGGCT
1 TGAAAAGCTCCCCCACAACTAAGGCT
* * *
20949719 TGAAAAGCTCCCTCACAATTGAGGCT
1 TGAAAAGCTCCCCCACAACTAAGGCT
20949745 TGAAA
1 TGAAA
20949750 CTTTAAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.21
Consensus pattern (26 bp):
TGAAAAGCTCCCCCACAACTAAGGCT
Found at i:20950689 original size:51 final size:51
Alignment explanation
Indices: 20950633--20950738 Score: 151
Period size: 52 Copynumber: 2.1 Consensus size: 51
20950623 AGATTTGGTA
20950633 AATAAAAG-ATAATAATCAATCAATAAATGAATGGGTATCAAATATCCAAAG
1 AATAAAAGAATAATAATCAATCAATAAATGAATGGGTATC-AATATCCAAAG
** * * *
20950684 AATAAAAGAATAATGGTCAATCAATAATTGAATGGGTATCAATATCTAAAT
1 AATAAAAGAATAATAATCAATCAATAAATGAATGGGTATCAATATCCAAAG
20950735 AATA
1 AATA
20950739 CATGTTTCAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
51 21 0.43
52 28 0.57
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.26
Consensus pattern (51 bp):
AATAAAAGAATAATAATCAATCAATAAATGAATGGGTATCAATATCCAAAG
Found at i:20961430 original size:16 final size:16
Alignment explanation
Indices: 20961408--20961446 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
20961398 TAGATGAAGA
*
20961408 AAAAAATTAAAAAAAT
1 AAAAAATAAAAAAAAT
*
20961424 TAAAAATAAAAAAAAT
1 AAAAAATAAAAAAAAT
20961440 AAAAAAT
1 AAAAAAT
20961447 GAAATAAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAATAAAAAAAAT
Found at i:20961433 original size:15 final size:16
Alignment explanation
Indices: 20961409--20961444 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
20961399 AGATGAAGAA
*
20961409 AAAAATTAAAAAAATT
1 AAAAATTAAAAAAAAT
20961425 AAAAA-TAAAAAAAAT
1 AAAAATTAAAAAAAAT
20961440 AAAAA
1 AAAAA
20961445 ATGAAATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAATTAAAAAAAAT
Found at i:20961468 original size:24 final size:23
Alignment explanation
Indices: 20961441--20961498 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
20961431 AAAAAAAATA
* *
20961441 AAAAATGAAATAAGTGAAAATTTG
1 AAAATTGAAA-AAGTGAAAAATTG
*
20961465 AAAATTTGAAAAATTGAAAAATTG
1 AAAA-TTGAAAAAGTGAAAAATTG
20961489 AAAATTGAAA
1 AAAATTGAAA
20961499 CATAAACATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.20
24 19 0.63
25 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.14, T:0.26
Consensus pattern (23 bp):
AAAATTGAAAAAGTGAAAAATTG
Found at i:20961474 original size:16 final size:15
Alignment explanation
Indices: 20961418--20961498 Score: 63
Period size: 15 Copynumber: 5.2 Consensus size: 15
20961408 AAAAAATTAA
* **
20961418 AAAAATTAAAAATAA
1 AAAAATTGAAAATTG
* * *
20961433 AAAAAATAAAAAATG
1 AAAAATTGAAAATTG
*
20961448 AAATAAGTGAAAATTTG
1 AAA-AATTGAAAA-TTG
*
20961465 AAAATTTGAAAAATTG
1 AAAAATTG-AAAATTG
20961481 AAAAATTGAAAATTG
1 AAAAATTGAAAATTG
20961496 AAA
1 AAA
20961499 CATAAACATT
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
15 24 0.45
16 20 0.38
17 9 0.17
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (15 bp):
AAAAATTGAAAATTG
Found at i:20961522 original size:13 final size:13
Alignment explanation
Indices: 20961482--20961551 Score: 61
Period size: 13 Copynumber: 5.3 Consensus size: 13
20961472 GAAAAATTGA
*
20961482 AAAATTGAAAATT
1 AAAATTTAAAATT
* **
20961495 GAAACATAAACATT
1 AAAATTTAAA-ATT
*
20961509 AAACTTTAAAATT
1 AAAATTTAAAATT
20961522 AAAATTTAAAA-T
1 AAAATTTAAAATT
*
20961534 AAAATTAAAAAATT
1 AAAATT-TAAAATT
20961548 AAAA
1 AAAA
20961552 AAGAAATGAA
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
12 7 0.16
13 23 0.52
14 14 0.32
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (13 bp):
AAAATTTAAAATT
Found at i:20962839 original size:21 final size:21
Alignment explanation
Indices: 20962807--20963031 Score: 107
Period size: 21 Copynumber: 10.4 Consensus size: 21
20962797 ATTAAAAAAG
20962807 TTTAAATGAGAATCTTTGAA-
1 TTTAAATGAGAATCTTTGAAT
*
20962827 TTTAAAGTGAGAACCTTTGAAT
1 TTTAAA-TGAGAATCTTTGAAT
* *
20962849 TTTAAATGAGATTCTTTGTCTTTGAGT
1 TTTAAATGAGA------ATCTTTGAAT
* *
20962876 TTTAAATGAAAATCTGTAAGAAGT
1 TTTAAATGAGAATCT-T-TGAA-T
20962900 TTTAAATGAGAATCTTT-AA-
1 TTTAAATGAGAATCTTTGAAT
* * ***** * * *
20962919 GTGAGAATCTTTGTTTTTTAGT
1 TTTA-AATGAGAATCTTTGAAT
*
20962941 TTTAAATGAGAATCTTTGAGT
1 TTTAAATGAGAATCTTTGAAT
* * * *
20962962 TTTAAGTGAAAATCCTTGAGT
1 TTTAAATGAGAATCTTTGAAT
* * *
20962983 TTTAAGTGAGAAACTTTGAGT
1 TTTAAATGAGAATCTTTGAAT
*
20963004 TTTAAATGAGAACCTTTGAA-
1 TTTAAATGAGAATCTTTGAAT
20963024 TTTAAATG
1 TTTAAATG
20963032 TGAAATTCTA
Statistics
Matches: 154, Mismatches: 37, Indels: 28
0.70 0.17 0.13
Matches are distributed among these distances:
19 2 0.01
20 21 0.14
21 87 0.56
22 9 0.06
23 3 0.02
24 15 0.10
27 17 0.11
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (21 bp):
TTTAAATGAGAATCTTTGAAT
Found at i:20962905 original size:24 final size:24
Alignment explanation
Indices: 20962873--20962919 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
20962863 TTTGTCTTTG
20962873 AGTTTTAAATGAAAATCTGTAAGA
1 AGTTTTAAATGAAAATCTGTAAGA
* *
20962897 AGTTTTAAATGAGAATCTTTAAG
1 AGTTTTAAATGAAAATCTGTAAG
20962920 TGAGAATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.36
Consensus pattern (24 bp):
AGTTTTAAATGAAAATCTGTAAGA
Found at i:20962917 original size:14 final size:14
Alignment explanation
Indices: 20962900--20962930 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20962890 TGTAAGAAGT
20962900 TTTAAATGAGAATC
1 TTTAAATGAGAATC
*
20962914 TTTAAGTGAGAATC
1 TTTAAATGAGAATC
20962928 TTT
1 TTT
20962931 GTTTTTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.42
Consensus pattern (14 bp):
TTTAAATGAGAATC
Found at i:20962964 original size:27 final size:27
Alignment explanation
Indices: 20962914--20962965 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
20962904 AATGAGAATC
* **
20962914 TTTAAGTGAGAATCTTTGTTTTTTAGT
1 TTTAAATGAGAATCTTTGAGTTTTAGT
20962941 TTTAAATGAGAATCTTTGAGTTTTA
1 TTTAAATGAGAATCTTTGAGTTTTA
20962966 AGTGAAAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.04, G:0.17, T:0.52
Consensus pattern (27 bp):
TTTAAATGAGAATCTTTGAGTTTTAGT
Found at i:20963151 original size:109 final size:109
Alignment explanation
Indices: 20963003--20963206 Score: 327
Period size: 109 Copynumber: 1.9 Consensus size: 109
20962993 AAACTTTGAG
* * * *
20963003 TTTTAAATGAGAACCTTTGAATTTAAATGTGAAATTCTAAAATTTATCGAATGTGAATCTTTGAG
1 TTTTAAATGAGAACCTTTGAATTTAAATGTGAAACTCTAAAATTAATCGAATGTGAATATTTGAA
*
20963068 CTCGAATAAGAAGCTTTGAAATTTTGGATGTGAACCCTTAAATA
66 CTCGAAAAAGAAGCTTTGAAATTTTGGATGTGAACCCTTAAATA
* * *
20963112 TTTTGAATGAGAACCTTTGAATTTAGATGTGAAACTCTAAAATTAATTGAATGTGAATATTTGAA
1 TTTTAAATGAGAACCTTTGAATTTAAATGTGAAACTCTAAAATTAATCGAATGTGAATATTTGAA
*
20963177 CTTGAAAAAGAAGCTTTGAAATTTTGGATG
66 CTCGAAAAAGAAGCTTTGAAATTTTGGATG
20963207 AAATGCTGAA
Statistics
Matches: 86, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
109 86 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (109 bp):
TTTTAAATGAGAACCTTTGAATTTAAATGTGAAACTCTAAAATTAATCGAATGTGAATATTTGAA
CTCGAAAAAGAAGCTTTGAAATTTTGGATGTGAACCCTTAAATA
Found at i:20963539 original size:17 final size:17
Alignment explanation
Indices: 20963502--20963583 Score: 74
Period size: 17 Copynumber: 4.7 Consensus size: 17
20963492 GAATCAAAAA
* *
20963502 ATGAATTTGAAAAATCTT
1 ATGAATCTGAAATA-CTT
*
20963520 ATGAAGCTGAAATACTT
1 ATGAATCTGAAATACTT
* *
20963537 ATGAATTTGAAACACTT
1 ATGAATCTGAAATACTT
* * *
20963554 ACGAATCTAAAAAATCTT
1 ATGAATCTGAAATA-CTT
20963572 ATGAATCTGAAA
1 ATGAATCTGAAA
20963584 ATTTTACGAA
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
17 27 0.53
18 24 0.47
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (17 bp):
ATGAATCTGAAATACTT
Found at i:20963541 original size:35 final size:35
Alignment explanation
Indices: 20963502--20963593 Score: 96
Period size: 35 Copynumber: 2.6 Consensus size: 35
20963492 GAATCAAAAA
* * *
20963502 ATGAATTTGAAAAATCTTATGAAGCTGAAATA-CTT
1 ATGAATTTGAAAAA-CTTACGAAGCTAAAAAATCTT
* *
20963537 ATGAATTTGAAACACTTACGAATCTAAAAAATCTT
1 ATGAATTTGAAAAACTTACGAAGCTAAAAAATCTT
* **
20963572 ATGAATCTGAAAATTTTACGAA
1 ATGAATTTGAAAAACTTACGAA
20963594 TTTGAAAGTC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
34 13 0.28
35 34 0.72
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (35 bp):
ATGAATTTGAAAAACTTACGAAGCTAAAAAATCTT
Found at i:20963594 original size:17 final size:17
Alignment explanation
Indices: 20963512--20963613 Score: 73
Period size: 17 Copynumber: 5.9 Consensus size: 17
20963502 ATGAATTTGA
* *
20963512 AAAATCTTATGAAGCTG
1 AAAATCTTACGAATCTG
* *
20963529 -AAATACTTATGAATTTG
1 AAAAT-CTTACGAATCTG
*
20963546 AAACA-CTTACGAATCTAA
1 AAA-ATCTTACGAATCT-G
*
20963564 AAAATCTTATGAATCTG
1 AAAATCTTACGAATCTG
* *
20963581 AAAATTTTACGAATTTG
1 AAAATCTTACGAATCTG
* *
20963598 AAAGTCTTGCGAATCT
1 AAAATCTTACGAATCT
20963614 TTAAATTGCA
Statistics
Matches: 66, Mismatches: 14, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
16 4 0.06
17 46 0.70
18 15 0.23
19 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (17 bp):
AAAATCTTACGAATCTG
Found at i:20963840 original size:44 final size:44
Alignment explanation
Indices: 20963790--20963982 Score: 187
Period size: 44 Copynumber: 4.4 Consensus size: 44
20963780 TATCAAAAAT
* *
20963790 CTTATTTGTTTTTCAAAAGTCCTTAAGCCTGTATTTAGAAGAGC
1 CTTATTTATTTTTCAAAAGTCATTAAGCCTGTATTTAGAAGAGC
* * * * * *
20963834 CTTATTTATTTTTCAAAAGT-AGTTGAGTCTTTGTTTAGAAAAAC
1 CTTATTTATTTTTCAAAAGTCA-TTAAGCCTGTATTTAGAAGAGC
* *
20963878 CTTATTTATTTTTCAAAAGTTATTGATGCTCTG--TTTAGAAGAGC
1 CTTATTTATTTTTCAAAAGTCATT-AAGC-CTGTATTTAGAAGAGC
* * * * * *
20963922 CTTAATTATTTTTCAAAACTCATGAA-CCTCTATTTAAAAGAGT
1 CTTATTTATTTTTCAAAAGTCATTAAGCCTGTATTTAGAAGAGC
20963965 CTTATTTATTTTTCAAAA
1 CTTATTTATTTTTCAAAA
20963983 ATCGTGAAGC
Statistics
Matches: 120, Mismatches: 23, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 27 0.22
44 86 0.72
45 2 0.02
46 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (44 bp):
CTTATTTATTTTTCAAAAGTCATTAAGCCTGTATTTAGAAGAGC
Found at i:20964019 original size:44 final size:43
Alignment explanation
Indices: 20963922--20964021 Score: 121
Period size: 43 Copynumber: 2.3 Consensus size: 43
20963912 TTAGAAGAGC
* **
20963922 CTTAATTATTTTTCAAAACTCATGAACCTCTATTTAAAAGAGT
1 CTTAATTATTTTTCAAAAATCATGAACCTCTATTTAAAAGAAA
* * *
20963965 CTTATTTATTTTTCAAAAATCGTGAAGCCT-TAGTTTAAAGGAAA
1 CTTAATTATTTTTCAAAAATCATGAA-CCTCTA-TTTAAAAGAAA
20964009 CTTAATTATTTTT
1 CTTAATTATTTTT
20964022 TGAAAGTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
43 25 0.52
44 23 0.48
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (43 bp):
CTTAATTATTTTTCAAAAATCATGAACCTCTATTTAAAAGAAA
Found at i:20964097 original size:41 final size:42
Alignment explanation
Indices: 20964015--20964098 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 42
20964005 GAAACTTAAT
* * * * *
20964015 TATTTTTTGAAAGTTTTAAGCCTCTGTTGAGAGGAGCTTTTA
1 TATTTTTTGAAAATGTTAAACCTCTGTTGAAAAGAGCTTTTA
* *
20964057 TATTTTTT-AAAATGTTAAACCTCTGTTTAAAAGAGTTTTTA
1 TATTTTTTGAAAATGTTAAACCTCTGTTGAAAAGAGCTTTTA
20964098 T
1 T
20964099 GTTATTCAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
41 27 0.77
42 8 0.23
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (42 bp):
TATTTTTTGAAAATGTTAAACCTCTGTTGAAAAGAGCTTTTA
Found at i:20965087 original size:43 final size:42
Alignment explanation
Indices: 20965012--20965092 Score: 101
Period size: 43 Copynumber: 1.9 Consensus size: 42
20965002 CAATAAAGCC
* *
20965012 TTACCAACATATTGGAAGGTAATTTGATTTTTAAGATAACATT
1 TTACCAACATATTGGAAAGTAATTTGACTTTTAA-ATAACATT
* *
20965055 TTACCAATATATTGGAAAGT-CTTATGACTTTTAAATAA
1 TTACCAACATATTGGAAAGTAATT-TGACTTTTAAATAA
20965093 AAATTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 6 0.18
43 27 0.82
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (42 bp):
TTACCAACATATTGGAAAGTAATTTGACTTTTAAATAACATT
Found at i:20965106 original size:18 final size:18
Alignment explanation
Indices: 20965083--20965121 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20965073 GTCTTATGAC
*
20965083 TTTTAAATAAA-AATTAAT
1 TTTTAAA-AAAGAAATAAT
20965101 TTTTAAAAAAGAAATAAT
1 TTTTAAAAAAGAAATAAT
20965119 TTT
1 TTT
20965122 CGTAAAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
TTTTAAAAAAGAAATAAT
Found at i:20966322 original size:11 final size:11
Alignment explanation
Indices: 20966306--20966330 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
20966296 ATAAGGAACA
20966306 ACATAATATAC
1 ACATAATATAC
20966317 ACATAATATAC
1 ACATAATATAC
20966328 ACA
1 ACA
20966331 AGAAACAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (11 bp):
ACATAATATAC
Found at i:20966326 original size:32 final size:33
Alignment explanation
Indices: 20966285--20966368 Score: 107
Period size: 33 Copynumber: 2.6 Consensus size: 33
20966275 GGGTTAGTCA
*
20966285 ACATAATATATATAAGGAACAACAT-AATATAC
1 ACATAATATATACAAGGAACAACATAAATATAC
* * * *
20966317 ACATAATATACACAAGAAACAATATAAATATGC
1 ACATAATATATACAAGGAACAACATAAATATAC
*
20966350 AGATAATATATACAAGGAA
1 ACATAATATATACAAGGAA
20966369 TAATAAATTT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 21 0.49
33 22 0.51
ACGTcount: A:0.57, C:0.12, G:0.08, T:0.23
Consensus pattern (33 bp):
ACATAATATATACAAGGAACAACATAAATATAC
Found at i:20966356 original size:33 final size:32
Alignment explanation
Indices: 20966285--20966365 Score: 99
Period size: 32 Copynumber: 2.5 Consensus size: 32
20966275 GGGTTAGTCA
* *
20966285 ACATAATATATATAAGGAACAACATAATATAC
1 ACATAATATATACAAGAAACAACATAATATAC
* * *
20966317 ACATAATATACACAAGAAACAATATAAATATGC
1 ACATAATATATACAAGAAACAACAT-AATATAC
*
20966350 AGATAATATATACAAG
1 ACATAATATATACAAG
20966366 GAATAATAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 21 0.51
33 20 0.49
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.23
Consensus pattern (32 bp):
ACATAATATATACAAGAAACAACATAATATAC
Found at i:20966839 original size:44 final size:44
Alignment explanation
Indices: 20966783--20966891 Score: 155
Period size: 44 Copynumber: 2.5 Consensus size: 44
20966773 AATAAATTGG
20966783 TACACATGAAAAATCAAAATCTACAAAACAAACAAATAGATTAA
1 TACACATGAAAAATCAAAATCTACAAAACAAACAAATAGATTAA
* * * * *
20966827 TACACATAAAAAATCATAAGCTACAAAATAAACAAATAGGTTAA
1 TACACATGAAAAATCAAAATCTACAAAACAAACAAATAGATTAA
*
20966871 TACACATGGAAAATCATAAAT
1 TACACATGAAAAATCA-AAAT
20966892 AGTTACATAA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
44 53 0.96
45 2 0.04
ACGTcount: A:0.59, C:0.15, G:0.06, T:0.20
Consensus pattern (44 bp):
TACACATGAAAAATCAAAATCTACAAAACAAACAAATAGATTAA
Found at i:20967531 original size:20 final size:20
Alignment explanation
Indices: 20967506--20967586 Score: 105
Period size: 20 Copynumber: 4.2 Consensus size: 20
20967496 CATAAATAAA
*
20967506 TATATTAATAATCATACAAT
1 TATATTAATAATCATGCAAT
*
20967526 TATATTAATAAACATGCAAT
1 TATATTAATAATCATGCAAT
*
20967546 TATA--AATAATCATGCAAA
1 TATATTAATAATCATGCAAT
*
20967564 TATATTAATAAACATGC-AT
1 TATATTAATAATCATGCAAT
20967583 TATA
1 TATA
20967587 AATATAATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
18 16 0.30
19 5 0.09
20 32 0.60
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.36
Consensus pattern (20 bp):
TATATTAATAATCATGCAAT
Found at i:20967568 original size:38 final size:37
Alignment explanation
Indices: 20967512--20967590 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 37
20967502 TAAATATATT
*
20967512 AATAATCATACAATTATATTAATAAACATGCAATTATA
1 AATAATCATACAAATATATTAATAAACATGC-ATTATA
*
20967550 AATAATCATGCAAATATATTAATAAACATGCATTATA
1 AATAATCATACAAATATATTAATAAACATGCATTATA
20967587 AATA
1 AATA
20967591 TAATAATATC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 10 0.26
38 29 0.74
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (37 bp):
AATAATCATACAAATATATTAATAAACATGCATTATA
Found at i:20967608 original size:44 final size:42
Alignment explanation
Indices: 20967500--20967609 Score: 129
Period size: 38 Copynumber: 2.6 Consensus size: 42
20967490 GAACCACATA
* * *
20967500 AATAAATATATTAATAATCATACAATTATATTAATAAACATGC
1 AATAAATATAATAAT-ATCATGCAAATATATTAATAAACATGC
*
20967543 AAT-TATA-AAT-A-ATCATGCAAATATATTAATAAACATGC
1 AATAAATATAATAATATCATGCAAATATATTAATAAACATGC
20967581 ATTATAAATATAATAATATCATGCAAATA
1 A--ATAAATATAATAATATCATGCAAATA
20967610 CCAATAATCA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
38 26 0.46
40 3 0.05
41 5 0.09
42 6 0.11
43 4 0.07
44 12 0.21
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.34
Consensus pattern (42 bp):
AATAAATATAATAATATCATGCAAATATATTAATAAACATGC
Found at i:20967616 original size:62 final size:58
Alignment explanation
Indices: 20967503--20967627 Score: 153
Period size: 62 Copynumber: 2.1 Consensus size: 58
20967493 CCACATAAAT
* * *
20967503 AAATATATTAATAATCATACAATTATATTAATAAACATGCAATTATAAATAATCATGC
1 AAATATATTAATAAACATACAATTATATTAATAAACATGCAAATACAAATAATCATGC
* *
20967561 AAATATATTAATAAACATGC-ATTATAAATATAATAATATCATGCAAATACCAATAATCATGC
1 AAATATATTAATAAACATACAATTAT--AT-TAATAA-A-CATGCAAATACAAATAATCATGC
20967623 AAATA
1 AAATA
20967628 ATAATGAAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
57 5 0.09
58 18 0.32
59 2 0.04
60 6 0.11
61 1 0.02
62 25 0.44
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (58 bp):
AAATATATTAATAAACATACAATTATATTAATAAACATGCAAATACAAATAATCATGC
Found at i:20969010 original size:13 final size:13
Alignment explanation
Indices: 20968992--20969019 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20968982 TTTGGGCACA
20968992 AAATTTTTGCATT
1 AAATTTTTGCATT
20969005 AAATTTTTGCATT
1 AAATTTTTGCATT
20969018 AA
1 AA
20969020 GGCTTACTTG
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:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (13 bp):
AAATTTTTGCATT
Found at i:20972319 original size:62 final size:62
Alignment explanation
Indices: 20972253--20972378 Score: 209
Period size: 62 Copynumber: 2.0 Consensus size: 62
20972243 TATAAGTAAC
* * *
20972253 TATAACAACTGGAAATAAATTTCACAATTTTTTACACATTAACTAACTTT-GAAAACTCTTAG
1 TATAACAACAGAAAATAAATTTCACAATTTTTTACAAATTAACTAA-TTTCGAAAACTCTTAG
20972315 TATAACAACAGAAAATAAATTTCACAATTTTTTACAAATTAACTAATTTCGAAAACTCTTAG
1 TATAACAACAGAAAATAAATTTCACAATTTTTTACAAATTAACTAATTTCGAAAACTCTTAG
20972377 TA
1 TA
20972379 ATTAAAGAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
61 3 0.05
62 57 0.95
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (62 bp):
TATAACAACAGAAAATAAATTTCACAATTTTTTACAAATTAACTAATTTCGAAAACTCTTAG
Found at i:20973717 original size:160 final size:154
Alignment explanation
Indices: 20973545--20973834 Score: 352
Period size: 155 Copynumber: 1.8 Consensus size: 154
20973535 AACAGTATTA
* * *
20973545 AAAGACATAAATAGAAAAAAATAAAAAGTCTA-AAATCAATAAAAAAATTAGGTAACCGAAAGTT
1 AAAGACATAAATAGAAAAAAATAAAAACTC-AGAAATCAATAAAAAAA--A---AACCAAAAATT
* * *
20973609 TATTGTGTTTAATGCAATAAAATT-AGGAGATATAGGTTTA-AAATTTATGTAAAAAAACTTGGC
60 TATTGTGTTTAATGCAATAAAATTAAGG-GATATAGG-TTAGAAATTGAAGTAAAAAAACTTGAC
20973672 ATTTATTAGAAAATATTTGAATTAACGGTTTT
123 ATTTATTAGAAAATATTTGAATTAACGGTTTT
** * * *
20973704 AAAGAACATAAATAGATGAAAATCAAAACTCAGAAATCCATAAAAAAAAAACCAAAAATTTATTT
1 AAAG-ACATAAATAGAAAAAAATAAAAACTCAGAAATCAATAAAAAAAAAACCAAAAATTTATTG
** *
20973769 TGTTTAATGTTATAAAATTAAGGGATATAGGTTAGAAATTGAAGTAAAAAGACTTGACATTTATT
65 TGTTTAATGCAATAAAATTAAGGGATATAGGTTAGAAATTGAAGTAAAAAAACTTGACATTTATT
20973834 A
130 A
20973835 ACATATATAT
Statistics
Matches: 113, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
154 3 0.03
155 65 0.58
156 3 0.03
158 1 0.01
159 5 0.04
160 36 0.32
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (154 bp):
AAAGACATAAATAGAAAAAAATAAAAACTCAGAAATCAATAAAAAAAAAACCAAAAATTTATTGT
GTTTAATGCAATAAAATTAAGGGATATAGGTTAGAAATTGAAGTAAAAAAACTTGACATTTATTA
GAAAATATTTGAATTAACGGTTTT
Found at i:20975085 original size:18 final size:19
Alignment explanation
Indices: 20975052--20975103 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
20975042 TTTGATTTTC
20975052 TTTTTCATTTCCTTTAT-T-
1 TTTTT-ATTTCCTTTATATA
*
20975070 TTTATTATTTCTTTTATATA
1 TTT-TTATTTCCTTTATATA
20975090 TTTTTATTTCCTTT
1 TTTTTATTTCCTTT
20975104 CTTTTGATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 13 0.45
19 13 0.45
20 3 0.10
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTATTTCCTTTATATA
Found at i:20975409 original size:16 final size:17
Alignment explanation
Indices: 20975363--20975417 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
20975353 CATTAATTTT
*
20975363 TATTAAATAAAATAAT-
1 TATTAAATATAATAATA
*
20975379 TATTATATAT-A-AATA
1 TATTAAATATAATAATA
20975394 T-TTAAATATAATAATAA
1 TATTAAATATAATAAT-A
20975411 TATTAAA
1 TATTAAA
20975418 AACAATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 10 0.32
15 3 0.10
16 11 0.35
17 2 0.06
18 5 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TATTAAATATAATAATA
Found at i:20975549 original size:19 final size:20
Alignment explanation
Indices: 20975511--20975549 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
20975501 AATCAATTCG
*
20975511 AATTCAAATAAAATTTTAAA
1 AATTCAAATAAAATTATAAA
*
20975531 AATTC-AATAATATTATAAA
1 AATTCAAATAAAATTATAAA
20975550 TTAATCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTCAAATAAAATTATAAA
Done.