Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 70 of 144
Found at i:21285029 original size:24 final size:24
Alignment explanation
Indices: 21285000--21285060 Score: 97
Period size: 24 Copynumber: 2.5 Consensus size: 24
21284990 TGGATGTTCA
*
21285000 ACCTTTCATCTTTCTTAACAT-TTC
1 ACCTTTCATCTTCCTTAAC-TCTTC
21285024 ACCTTTCATCTTCCTTAACTCTTC
1 ACCTTTCATCTTCCTTAACTCTTC
21285048 ACCTTTCATCTTC
1 ACCTTTCATCTTC
21285061 TTGTAGCCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
23 1 0.03
24 34 0.97
ACGTcount: A:0.18, C:0.34, G:0.00, T:0.48
Consensus pattern (24 bp):
ACCTTTCATCTTCCTTAACTCTTC
Found at i:21290581 original size:17 final size:17
Alignment explanation
Indices: 21290541--21290581 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
21290531 CTAAAATAGT
*
21290541 CCACACAGCCGTGTAGA
1 CCACACGGCCGTGTAGA
*
21290558 CCACACGGCCGTGTGGA
1 CCACACGGCCGTGTAGA
21290575 CCACACG
1 CCACACG
21290582 ACCTCAACAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.24, C:0.39, G:0.27, T:0.10
Consensus pattern (17 bp):
CCACACGGCCGTGTAGA
Found at i:21291499 original size:27 final size:28
Alignment explanation
Indices: 21291451--21291517 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 28
21291441 TTCTTTATTT
*
21291451 TTATTTTATTTTACTTTATTAT-TCTTA
1 TTATTTTCTTTTACTTTATTATATCTTA
* *
21291478 TTATTTTCTTTTA-TTGTTTTATATTTTA
1 TTATTTTCTTTTACTT-TATTATATCTTA
21291506 TGTATTCTTCTT
1 T-TATT-TTCTT
21291518 CTAACTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 2 0.06
27 17 0.52
28 5 0.15
29 4 0.12
30 5 0.15
ACGTcount: A:0.18, C:0.07, G:0.03, T:0.72
Consensus pattern (28 bp):
TTATTTTCTTTTACTTTATTATATCTTA
Found at i:21292821 original size:7 final size:6
Alignment explanation
Indices: 21292800--21292844 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
21292790 AGTTTATTTG
* * *
21292800 TTTTAT TTTTAT TTTTAC TTTTAT TTTTAT GTTTAT TATTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
21292845 CTTAGACTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:21299686 original size:7 final size:7
Alignment explanation
Indices: 21299670--21299707 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
21299660 ATTCATTACT
21299670 TTTAGGG
1 TTTAGGG
*
21299677 TTTAGAG
1 TTTAGGG
21299684 TTTAGGG
1 TTTAGGG
21299691 TTTTAGGG
1 -TTTAGGG
21299699 TTTAGGG
1 TTTAGGG
21299706 TT
1 TT
21299708 AAAAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 21 0.75
8 7 0.25
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:21299701 original size:15 final size:15
Alignment explanation
Indices: 21299670--21299707 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
21299660 ATTCATTACT
21299670 TTTAGGG-TTTAGAG
1 TTTAGGGTTTTAGAG
*
21299684 TTTAGGGTTTTAGGG
1 TTTAGGGTTTTAGAG
21299699 TTTAGGGTT
1 TTTAGGGTT
21299708 AAAAATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTTAGGGTTTTAGAG
Found at i:21301184 original size:18 final size:18
Alignment explanation
Indices: 21301158--21301200 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
21301148 GACTCGGAAA
* * *
21301158 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
21301176 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
21301194 AGGATAC
1 AGGATAC
21301201 GCACCTGACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:21301858 original size:7 final size:7
Alignment explanation
Indices: 21301846--21301884 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
21301836 TTATATATAT
21301846 AATACTA
1 AATACTA
21301853 AATACTA
1 AATACTA
21301860 AATACTA
1 AATACTA
21301867 AATACTA
1 AATACTA
21301874 AATACTA
1 AATACTA
21301881 AATA
1 AATA
21301885 ACAATCGACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:21302079 original size:20 final size:20
Alignment explanation
Indices: 21302054--21302091 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21302044 ATTATTTTTA
21302054 AAAATCT-ATATAATAATTGT
1 AAAATCTAATATAA-AATTGT
21302074 AAAATCTAATATAAAATT
1 AAAATCTAATATAAAATT
21302092 TACCTCGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
AAAATCTAATATAAAATTGT
Found at i:21303059 original size:11 final size:11
Alignment explanation
Indices: 21303043--21303141 Score: 83
Period size: 11 Copynumber: 8.4 Consensus size: 11
21303033 TATGGATTTA
21303043 AGAGGAAATTG
1 AGAGGAAATTG
21303054 AGAGGAAATTG
1 AGAGGAAATTG
**
21303065 AGATTAAATATG
1 AGAGGAAAT-TG
21303077 TATTTGAGAGAAATTTG
1 -A---GAG-GAAA-TTG
21303094 -GAAGGAAATTG
1 AG-AGGAAATTG
*
21303105 AGAGCAAATTG
1 AGAGGAAATTG
*
21303116 AGAGAAAATTG
1 AGAGGAAATTG
21303127 AGAGGAAATTG
1 AGAGGAAATTG
21303138 AGAG
1 AGAG
21303142 AATAGCTGAG
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
11 53 0.74
12 8 0.11
13 3 0.04
16 2 0.03
17 5 0.07
18 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.30, T:0.23
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:21303075 original size:40 final size:40
Alignment explanation
Indices: 21303030--21303107 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 40
21303020 AAATAATTAA
21303030 AAATATGGATTTAAGAGGAAA-TT-GAGAGGAAATTGAGATT
1 AAATATGGATTTAAGA-GAAATTTGGA-AGGAAATTGAGATT
* *
21303070 AAATATGTATTTGAGAGAAATTTGGAAGGAAATTGAGA
1 AAATATGGATTTAAGAGAAATTTGGAAGGAAATTGAGA
21303108 GCAAATTGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 4 0.12
40 28 0.82
41 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.27, T:0.28
Consensus pattern (40 bp):
AAATATGGATTTAAGAGAAATTTGGAAGGAAATTGAGATT
Found at i:21306827 original size:16 final size:18
Alignment explanation
Indices: 21306786--21306827 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 18
21306776 AAGTAAATGT
21306786 TATATAATTTTGAAACTA
1 TATATAATTTTGAAACTA
*
21306804 CA-ATAATTTT-AAA-TA
1 TATATAATTTTGAAACTA
21306819 TATATAATT
1 TATATAATT
21306828 AAAAGCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 3 0.14
16 9 0.43
17 8 0.38
18 1 0.05
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (18 bp):
TATATAATTTTGAAACTA
Found at i:21314815 original size:500 final size:502
Alignment explanation
Indices: 21313871--21314873 Score: 1893
Period size: 500 Copynumber: 2.0 Consensus size: 502
21313861 GATCAGCTCA
*
21313871 AGAGATCACACACTATCCATTATATTTTTGGTAGTCAATTTGTTCATTTTGGGTCGGTTTGAAGT
1 AGAGATCACACACTATCCATTATATTTTTGGTAGTCAATTTGTTCATTTTGGGTCGGTTTGAACT
21313936 GGCATATAATTAGGGTATCCATGTATATACATATAAGCCTTAGTTGATAAATAACTTTTGTTGAA
66 GGCATATAATTAGGGTATCCATGTATATACATATAAGCCTTAGTTGATAAATAACTTTTGTTGAA
21314001 ATGGTAGCTTGTAACTGTCATTTTGGTACTTGGTTGATGTAAATGGTATTTTATGATAGTTATAT
131 ATGGTAGCTTGTAACTGTCATTTTGGTACTTGGTTGATGTAAATGGTATTTTATGATAGTTATAT
*
21314066 GTAGCTATCATTAAGTATTATTGTGAAATGGAAATGGTCATTATGTGAGTATAAGTAAGAATATG
196 GTAGC-ATCATTAAGTATTATTGTGAAATGGAAATGGTCATTATGTGAGAATAAGTAAGAATATG
21314131 TTGCTTGGTAGAATGGATGTAAAGGAGTTGGTATGTTTAAGCTAGCATGAAATATGTGATTATGG
260 TTGCTTGGTAGAATGGATGTAAAGGAGTTGGTATGTTTAAGCTAGCATGAAATATGTGATTATGG
21314196 TAGTTGTTTATGGTTAGAATTGATGTTTGAATTGTGGTGCCAATGAAGGCATATTAATTAGGCAC
325 TAGTTGTTTATGGTTAGAATTGATGTTTGAATTGTGGTGCCAATGAAGGCATATTAATTAGGCAC
*
21314261 ATAGGCTATTTGTGATTTGACATGTTTTGGTTGTTTTTAGGTGTGTTTTTGAGTGTTTTGTATAA
390 ATAAGCTATTTGTGATTTGACATGTTTTGGTTGTTTTTAGGTGTGTTTTTGAGTGTTTTGTATAA
* * *
21314326 GTGAATTTGGTTGTAAATGTTTTGTCTTGGTTTATAAGTAATAGTGGT
455 GTAAATTTGGTTGTAAATGTTATGTCTTGGTGTATAAGTAATAGTGGT
*
21314374 AGAGATCACACACTATCCATTATATTTTTGGTAGTCATTTTGTTCATTTTGGGTCGGTTTGAACT
1 AGAGATCACACACTATCCATTATATTTTTGGTAGTCAATTTGTTCATTTTGGGTCGGTTTGAACT
21314439 GGCATATAATTAGGGTATCCATGTATATACATATAAGCCTTAGTTGATAAATAACTTTTGTTGAA
66 GGCATATAATTAGGGTATCCATGTATATACATATAAGCCTTAGTTGATAAATAACTTTTGTTGAA
21314504 ATGGTAGCTTGTAACTGTCATTTTGGTACTTGGTTGATGTAAATGGTATTTTATGATAGTTATAT
131 ATGGTAGCTTGTAACTGTCATTTTGGTACTTGGTTGATGTAAATGGTATTTTATGATAGTTATAT
*
21314569 GTAGC-T-ATTAAGTATTATTGTGAAATGGAAATGGTCATTATGTGAGAATGAGTAAGAATATGT
196 GTAGCATCATTAAGTATTATTGTGAAATGGAAATGGTCATTATGTGAGAATAAGTAAGAATATGT
21314632 TGCTTGGTAGAATGGATGTAAAGGAGTTGGTATGTTTAAGCTAGCATGAAATATGTGATTATGGT
261 TGCTTGGTAGAATGGATGTAAAGGAGTTGGTATGTTTAAGCTAGCATGAAATATGTGATTATGGT
21314697 AGTTGTTTATGGTTAGAATTGATGTTTGAATTGTGGTGCCAATGAAGGCATATTAATTAGGCACA
326 AGTTGTTTATGGTTAGAATTGATGTTTGAATTGTGGTGCCAATGAAGGCATATTAATTAGGCACA
*
21314762 TAAGCTGTTTGTGATTTGACATGTTTTGGTTGTTTTTAGGTGTGTTTTTGAGTGTTTTGTATAAG
391 TAAGCTATTTGTGATTTGACATGTTTTGGTTGTTTTTAGGTGTGTTTTTGAGTGTTTTGTATAAG
*
21314827 TAAATTTGGTTGTAAATGTTATGTCTTGGTGTATAAGTAATGGTGGT
456 TAAATTTGGTTGTAAATGTTATGTCTTGGTGTATAAGTAATAGTGGT
21314874 TGTTCTGGCT
Statistics
Matches: 490, Mismatches: 10, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
500 291 0.59
501 1 0.00
503 198 0.40
ACGTcount: A:0.27, C:0.07, G:0.24, T:0.42
Consensus pattern (502 bp):
AGAGATCACACACTATCCATTATATTTTTGGTAGTCAATTTGTTCATTTTGGGTCGGTTTGAACT
GGCATATAATTAGGGTATCCATGTATATACATATAAGCCTTAGTTGATAAATAACTTTTGTTGAA
ATGGTAGCTTGTAACTGTCATTTTGGTACTTGGTTGATGTAAATGGTATTTTATGATAGTTATAT
GTAGCATCATTAAGTATTATTGTGAAATGGAAATGGTCATTATGTGAGAATAAGTAAGAATATGT
TGCTTGGTAGAATGGATGTAAAGGAGTTGGTATGTTTAAGCTAGCATGAAATATGTGATTATGGT
AGTTGTTTATGGTTAGAATTGATGTTTGAATTGTGGTGCCAATGAAGGCATATTAATTAGGCACA
TAAGCTATTTGTGATTTGACATGTTTTGGTTGTTTTTAGGTGTGTTTTTGAGTGTTTTGTATAAG
TAAATTTGGTTGTAAATGTTATGTCTTGGTGTATAAGTAATAGTGGT
Found at i:21315096 original size:21 final size:21
Alignment explanation
Indices: 21315072--21315116 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
21315062 CACACATGCG
* *
21315072 TGTGGAGTAGTCACACGAGCA
1 TGTGGAGTAGCCACACGACCA
*
21315093 TGTGGGGTAGCCACACGACCA
1 TGTGGAGTAGCCACACGACCA
21315114 TGT
1 TGT
21315117 TTGAGGCCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.33, T:0.20
Consensus pattern (21 bp):
TGTGGAGTAGCCACACGACCA
Found at i:21324731 original size:55 final size:55
Alignment explanation
Indices: 21324642--21324918 Score: 347
Period size: 55 Copynumber: 4.9 Consensus size: 55
21324632 ACGTGCTACG
*
21324642 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAAAAGCAGTATTCCAACA
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACA
* ** * * *
21324697 TAACAATTGATTTAAACATATAAACAATTTATTCAAAAGAAGCAATATTCTAATA
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACA
*
21324752 TAACAATCGATTTAAAACATATAAACAATCGATTCAAAAGAAGAAGAAACAGTATTCAAACA
1 TAACAATCGATTT-AAACATATAAACAATCGATTC--AA-AAGAAG---CAGTATTCCAACA
* ** * *
21324814 TAACAATCGATTTAAACGTATAAACAATTTATTCAAAAGAAGTAGTATTACAACA
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACA
* * *
21324869 TGACAATTGATTTAAACATACAAACAATCGATTCAAAAGAAGCAGTATTC
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCAGTATTC
21324919 ACAGGCTATC
Statistics
Matches: 188, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
55 112 0.60
56 19 0.10
58 8 0.04
59 8 0.04
61 18 0.10
62 23 0.12
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (55 bp):
TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACA
Found at i:21324775 original size:21 final size:22
Alignment explanation
Indices: 21324749--21324790 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
21324739 CAATATTCTA
*
21324749 ATAT-AACAATCGATTTAAAAC
1 ATATAAACAATCGATTCAAAAC
21324770 ATATAAACAATCGATTCAAAA
1 ATATAAACAATCGATTCAAAA
21324791 GAAGAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.26
Consensus pattern (22 bp):
ATATAAACAATCGATTCAAAAC
Found at i:21324841 original size:117 final size:113
Alignment explanation
Indices: 21324642--21324910 Score: 384
Period size: 117 Copynumber: 2.4 Consensus size: 113
21324632 ACGTGCTACG
*
21324642 TAACAATCGATTTAAACATATAAACAATCGATTC-AAA-AA-AAGCAGTATTCCAACATAACAAT
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGAAGCAGTATTCAAACATAACAAT
* *
21324704 TGATTTAAACATATAAACAATTTATTCAAAAGAAGCAATATT-CTAATA
66 CGATTTAAACATATAAACAATTTATTCAAAAGAAGCAATATTAC-AACA
21324752 TAACAATCGATTTAAAACATATAAACAATCGATTCAAAAGAAGAAGAAACAGTATTCAAACATAA
1 TAACAATCGATTT-AAACATATAAACAATCGATTCAAAAGAAGAAG---CAGTATTCAAACATAA
* * *
21324817 CAATCGATTTAAACGTATAAACAATTTATTCAAAAGAAGTAGTATTACAACA
62 CAATCGATTTAAACATATAAACAATTTATTCAAAAGAAGCAATATTACAACA
* * *
21324869 TGACAATTGATTTAAACATACAAACAATCGATTCAAAAGAAG
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAG
21324911 CAGTATTCAC
Statistics
Matches: 142, Mismatches: 9, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
110 13 0.09
111 21 0.15
112 3 0.02
113 2 0.01
114 3 0.02
116 28 0.20
117 71 0.50
118 1 0.01
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (113 bp):
TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGAAGCAGTATTCAAACATAACAAT
CGATTTAAACATATAAACAATTTATTCAAAAGAAGCAATATTACAACA
Found at i:21325711 original size:19 final size:18
Alignment explanation
Indices: 21325687--21325722 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21325677 CAAAAATTAA
21325687 AAAATAAATTTTAAAATTC
1 AAAAT-AATTTTAAAATTC
*
21325706 AAAATATTTTTAAAATT
1 AAAATAATTTTAAAATT
21325723 AATGTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATAATTTTAAAATTC
Found at i:21325882 original size:27 final size:27
Alignment explanation
Indices: 21325815--21325880 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
21325805 GGTGATAATA
21325815 ATAAATCCTAAATCCAATATATATCAT
1 ATAAATCCTAAATCCAATATATATCAT
*
21325842 ACAAATCCTAAATCCAATATATTATCAT
1 ATAAATCCTAAATCCAATATA-TATCAT
21325870 ATAAATCCTAA
1 ATAAATCCTAA
21325881 TCAAAATCCG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.32
Consensus pattern (27 bp):
ATAAATCCTAAATCCAATATATATCAT
Found at i:21330576 original size:20 final size:20
Alignment explanation
Indices: 21330551--21330617 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
21330541 GATTACTGAA
21330551 TTGTACATACGTGCCCATGT
1 TTGTACATACGTGCCCATGT
* * * *
21330571 TTGTAC-TTCGGTACCCTTGAA
1 TTGTACATAC-GTGCCCATG-T
*
21330592 TTGCACATACGTGCCCATGT
1 TTGTACATACGTGCCCATGT
21330612 TTGTAC
1 TTGTAC
21330618 TTTGATACCC
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 2 0.06
20 18 0.53
21 12 0.35
22 2 0.06
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (20 bp):
TTGTACATACGTGCCCATGT
Found at i:21330593 original size:41 final size:41
Alignment explanation
Indices: 21330546--21330678 Score: 189
Period size: 41 Copynumber: 3.3 Consensus size: 41
21330536 TCGAAGATTA
* *
21330546 CTGAATTGTACATACGTGCCCATGTTTGTACTTCGGTACCC
1 CTGAATTGCACATACGTGCCCATGTTTGTACTTCGATACCC
* *
21330587 TTGAATTGCACATACGTGCCCATGTTTGTACTTTGATACCC
1 CTGAATTGCACATACGTGCCCATGTTTGTACTTCGATACCC
* *
21330628 CTGAATTGCACATACGTGCCCCTGTTTGTACTTC-AGTTCCC
1 CTGAATTGCACATACGTGCCCATGTTTGTACTTCGA-TACCC
21330669 CTGAA-TGCAC
1 CTGAATTGCAC
21330679 TTTAGTGCTC
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 6 0.07
41 77 0.93
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (41 bp):
CTGAATTGCACATACGTGCCCATGTTTGTACTTCGATACCC
Found at i:21338141 original size:14 final size:14
Alignment explanation
Indices: 21338122--21338156 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
21338112 TCACTCCTCC
*
21338122 AAATATTCATTTAT
1 AAATATACATTTAT
*
21338136 AAATATACTTTTAT
1 AAATATACATTTAT
21338150 AAATATA
1 AAATATA
21338157 TTATTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATATACATTTAT
Found at i:21340992 original size:24 final size:22
Alignment explanation
Indices: 21340964--21341017 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
21340954 TAAATGGTAT
21340964 AAAATT-TATACAAGTGTAATAAA
1 AAAATTGTATA-AA-TGTAATAAA
*
21340987 ATAAATATGTATAAATGTAATTAA
1 A-AAAT-TGTATAAATGTAATAAA
21341011 AAAATTG
1 AAAATTG
21341018 ATTTACTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
22 2 0.07
23 5 0.19
24 13 0.48
25 3 0.11
26 4 0.15
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (22 bp):
AAAATTGTATAAATGTAATAAA
Found at i:21341344 original size:24 final size:22
Alignment explanation
Indices: 21341316--21341369 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
21341306 TAAATGGTAT
21341316 AAAATT-TATACAAGTGTAATAAA
1 AAAATTGTATA-AA-TGTAATAAA
*
21341339 ATAAATATGTATAAATGTAATTAA
1 A-AAAT-TGTATAAATGTAATAAA
21341363 AAAATTG
1 AAAATTG
21341370 ATTTACTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
22 2 0.07
23 5 0.19
24 13 0.48
25 3 0.11
26 4 0.15
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (22 bp):
AAAATTGTATAAATGTAATAAA
Found at i:21341453 original size:352 final size:353
Alignment explanation
Indices: 21340808--21341512 Score: 1376
Period size: 352 Copynumber: 2.0 Consensus size: 353
21340798 AATTATAAGA
21340808 TTTTCGTGTGATAAATAAAATAAATGATGACAAGTGTATGGTATAGATGATATTGTACAATTATA
1 TTTTCGTGTGATAAATAAAATAAATGATGACAAGTGTATGGTATAGATGATATTGTACAATTATA
*
21340873 AATAAAATATATATGTACATTTGTAATATTATCAATTGTTGTTAAATAGATTTTTATTAAATAAA
66 AATAAAATATATATGTACATTCGTAATATTATCAATTGTTGTTAAATAGATTTTTATTAAATAAA
21340938 TAAAATGATTGACAAATAAATGGTATAAAATTTATACAAGTGTAATAAAATAAATATGTATAAAT
131 TAAAATGATTGACAAATAAATGGTATAAAATTTATACAAGTGTAATAAAATAAATATGTATAAAT
21341003 GTAATTAAAAAATTGATTTACTTAATATTTAAGCATAAGACATTTTATATTAATATTATATTAAT
196 GTAATTAAAAAATTGATTTACTTAATATTTAAGCATAAGACATTTTATATTAATATTATATTAAT
21341068 TATTTAGTAATTAAAAATAATAAAGCAAATAAAATAAAGTAAAAGAAAGAAACAGAGAAGAAGAA
261 TATTTAGTAATTAAAAATAATAAAGCAAATAAAATAAAGTAAAAGAAAGAAACAGAGAAGAAGAA
21341133 CAGAAGCTATTTCGAAACAGGGTAAAGG
326 CAGAAGCTATTTCGAAACAGGGTAAAGG
*
21341161 TTTTCGTGTGATAAATAAAATAAATGATGACAAGTGTATGGTATAGATGATATTGTACATTTATA
1 TTTTCGTGTGATAAATAAAATAAATGATGACAAGTGTATGGTATAGATGATATTGTACAATTATA
*
21341226 AATAATATATATATGTACATTCGTAATATTATCAATTGTTG-TAAATAGATTTTTATTAAATAAA
66 AATAAAATATATATGTACATTCGTAATATTATCAATTGTTGTTAAATAGATTTTTATTAAATAAA
21341290 TAAAATGATTGACAAATAAATGGTATAAAATTTATACAAGTGTAATAAAATAAATATGTATAAAT
131 TAAAATGATTGACAAATAAATGGTATAAAATTTATACAAGTGTAATAAAATAAATATGTATAAAT
21341355 GTAATTAAAAAATTGATTTACTTAATATTTAAGCATAAGACATTTTATATTAATATTATATTAAT
196 GTAATTAAAAAATTGATTTACTTAATATTTAAGCATAAGACATTTTATATTAATATTATATTAAT
21341420 TATTTAGTAATTAAAAATAATAAAGCAAATAAAATAAAGTAAAAGAAAGAAACAGAGAAGAAGAA
261 TATTTAGTAATTAAAAATAATAAAGCAAATAAAATAAAGTAAAAGAAAGAAACAGAGAAGAAGAA
21341485 CAGAAGCTATTTCGAAACAGGGTAAAGG
326 CAGAAGCTATTTCGAAACAGGGTAAAGG
21341513 AAAGAAAGAA
Statistics
Matches: 349, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
352 246 0.70
353 103 0.30
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.34
Consensus pattern (353 bp):
TTTTCGTGTGATAAATAAAATAAATGATGACAAGTGTATGGTATAGATGATATTGTACAATTATA
AATAAAATATATATGTACATTCGTAATATTATCAATTGTTGTTAAATAGATTTTTATTAAATAAA
TAAAATGATTGACAAATAAATGGTATAAAATTTATACAAGTGTAATAAAATAAATATGTATAAAT
GTAATTAAAAAATTGATTTACTTAATATTTAAGCATAAGACATTTTATATTAATATTATATTAAT
TATTTAGTAATTAAAAATAATAAAGCAAATAAAATAAAGTAAAAGAAAGAAACAGAGAAGAAGAA
CAGAAGCTATTTCGAAACAGGGTAAAGG
Found at i:21342273 original size:37 final size:35
Alignment explanation
Indices: 21342232--21342325 Score: 91
Period size: 37 Copynumber: 2.5 Consensus size: 35
21342222 TATATGTGTG
*
21342232 GAATTTAATTGAATAT-TGACTTGAAAAATGGAAAAGT
1 GAATTTAATTGAAT-TGTGA-TTG-AAAATGAAAAAGT
*
21342269 GAATTTTGAATTGAATTGTGATTGAAAGTGAAAAAGT
1 GAA-TTT-AATTGAATTGTGATTGAAAATGAAAAAGT
* *
21342306 GAAATTGAATTGAAATGTGA
1 G-AATTTAATTGAATTGTGA
21342326 ATTTGGAGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
36 12 0.24
37 17 0.35
38 9 0.18
39 11 0.22
ACGTcount: A:0.44, C:0.01, G:0.22, T:0.33
Consensus pattern (35 bp):
GAATTTAATTGAATTGTGATTGAAAATGAAAAAGT
Found at i:21345142 original size:18 final size:18
Alignment explanation
Indices: 21345113--21345205 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
21345103 TACGACCTTT
*
21345113 TACGGTACTATTCACGTA
1 TACGGCACTATTCACGTA
*
21345131 TATGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
21345149 TACAGTACTATTCACGTA
1 TACGGCACTATTCACGTA
21345167 TACGGCACTATTCACGTA
1 TACGGCACTATTCACGTA
* *
21345185 TACGGTACTGTTCACGTA
1 TACGGCACTATTCACGTA
21345203 TAC
1 TAC
21345206 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
TACGGCACTATTCACGTA
Found at i:21345164 original size:36 final size:36
Alignment explanation
Indices: 21345117--21345205 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
21345107 ACCTTTTACG
*
21345117 GTACTATTCACGTATATGGCACTATTCACGTATACA
1 GTACTATTCACGTATACGGCACTATTCACGTATACA
*
21345153 GTACTATTCACGTATACGGCACTATTCACGTATACG
1 GTACTATTCACGTATACGGCACTATTCACGTATACA
*
21345189 GTACTGTTCACGTATAC
1 GTACTATTCACGTATAC
21345206 AGTAGTTGGG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (36 bp):
GTACTATTCACGTATACGGCACTATTCACGTATACA
Found at i:21361888 original size:22 final size:22
Alignment explanation
Indices: 21361859--21361901 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
21361849 AGTCCTCGAT
21361859 TTTAAAACTAAC-CATTTTCAC
1 TTTAAAACTAACTCATTTTCAC
*
21361880 TTTACAAACTAGCTCATTTTCA
1 TTTA-AAACTAACTCATTTTCA
21361902 AATCTAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 7 0.37
23 8 0.42
ACGTcount: A:0.35, C:0.23, G:0.02, T:0.40
Consensus pattern (22 bp):
TTTAAAACTAACTCATTTTCAC
Found at i:21361963 original size:14 final size:14
Alignment explanation
Indices: 21361944--21361972 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21361934 AAAAGCTTCA
21361944 AGATTCAACAATGG
1 AGATTCAACAATGG
21361958 AGATTCAACAATGG
1 AGATTCAACAATGG
21361972 A
1 A
21361973 AGCTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.21
Consensus pattern (14 bp):
AGATTCAACAATGG
Found at i:21371451 original size:57 final size:57
Alignment explanation
Indices: 21371387--21371494 Score: 198
Period size: 57 Copynumber: 1.9 Consensus size: 57
21371377 CAGCCAAATC
* *
21371387 AGGTATAGGGGAAGTTGGGAAAGTAGAAGGTATGAGAGAGGTAGTTTGTGGCAAAGG
1 AGGTATAGGGGAACTTGGGAAAGTAGAAGGTATAAGAGAGGTAGTTTGTGGCAAAGG
21371444 AGGTATAGGGGAACTTGGGAAAGTAGAAGGTATAAGAGAGGTAGTTTGTGG
1 AGGTATAGGGGAACTTGGGAAAGTAGAAGGTATAAGAGAGGTAGTTTGTGG
21371495 TGAGACTGGT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.33, C:0.02, G:0.43, T:0.22
Consensus pattern (57 bp):
AGGTATAGGGGAACTTGGGAAAGTAGAAGGTATAAGAGAGGTAGTTTGTGGCAAAGG
Found at i:21371476 original size:27 final size:27
Alignment explanation
Indices: 21371387--21371477 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 27
21371377 CAGCCAAATC
*
21371387 AGGTATAGGGGAAGTTGGGAAAGTAGA
1 AGGTATAGGGGAACTTGGGAAAGTAGA
**
21371414 AGGTATGAGAGAGGTAGTTTGTGGCAAAG--G-
1 AGGTAT-AG-G-GG-AACTTG-GG-AAAGTAGA
21371444 AGGTATAGGGGAACTTGGGAAAGTAGA
1 AGGTATAGGGGAACTTGGGAAAGTAGA
21371471 AGGTATA
1 AGGTATA
21371478 AGAGAGGTAG
Statistics
Matches: 51, Mismatches: 4, Indels: 18
0.70 0.05 0.25
Matches are distributed among these distances:
24 4 0.08
25 2 0.04
26 5 0.10
27 15 0.29
28 3 0.06
29 3 0.06
30 8 0.16
31 5 0.10
32 2 0.04
33 4 0.08
ACGTcount: A:0.35, C:0.02, G:0.42, T:0.21
Consensus pattern (27 bp):
AGGTATAGGGGAACTTGGGAAAGTAGA
Found at i:21375616 original size:27 final size:27
Alignment explanation
Indices: 21375562--21375616 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
21375552 TGCACATCTT
* *
21375562 ATTATAAAATTTTTAAAAAAATTTAAA
1 ATTATAAAATTTTTAAAAAAACTAAAA
*
21375589 ATTATACAATTTTTAAAAAAACTAAAA
1 ATTATAAAATTTTTAAAAAAACTAAAA
21375616 A
1 A
21375617 ATTAAGTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (27 bp):
ATTATAAAATTTTTAAAAAAACTAAAA
Found at i:21375875 original size:18 final size:17
Alignment explanation
Indices: 21375847--21375892 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
21375837 TTTATATAAT
21375847 AATATTAATTAATTTTAA
1 AATA-TAATTAATTTTAA
* *
21375865 GATATATATTATTTTTAA
1 AATATA-ATTAATTTTAA
21375883 AATATAATTA
1 AATATAATTA
21375893 TATGTTACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
AATATAATTAATTTTAA
Found at i:21376654 original size:2 final size:2
Alignment explanation
Indices: 21376647--21376671 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21376637 ATGATTTTCT
21376647 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
21376672 TCTCTCTTGC
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:21379395 original size:3 final size:3
Alignment explanation
Indices: 21379387--21379440 Score: 54
Period size: 3 Copynumber: 17.3 Consensus size: 3
21379377 ATAATCAAAT
* * * *
21379387 ATA ATA ATA ACA ATA ATAA ATA GTG ATAA ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA AT-A ATA ATA ATA ATA ATA ATA
21379434 ATA ATA A
1 ATA ATA A
21379441 AAGTAAAGTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
3 36 0.88
4 5 0.12
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:21380292 original size:12 final size:12
Alignment explanation
Indices: 21380257--21380306 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
21380247 TCTTTTTATA
21380257 TTTTCTTTCTTG-
1 TTTTCTTT-TTGC
*
21380269 TTTCTATTTTTGC
1 TTT-TCTTTTTGC
21380282 TTTTCTTTTTGC
1 TTTTCTTTTTGC
21380294 TTCTT-TTTTTGC
1 TT-TTCTTTTTGC
21380306 T
1 T
21380307 GTTGTCTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 24 0.73
13 9 0.27
ACGTcount: A:0.02, C:0.16, G:0.08, T:0.74
Consensus pattern (12 bp):
TTTTCTTTTTGC
Found at i:21380302 original size:24 final size:25
Alignment explanation
Indices: 21380257--21380306 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
21380247 TCTTTTTATA
*
21380257 TTTTCTTTCTTGTTTCTATTTTTGC
1 TTTTCTTTCTTGCTTCTATTTTTGC
*
21380282 TTTTCTTT-TTGCTTCTTTTTTTGC
1 TTTTCTTTCTTGCTTCTATTTTTGC
21380306 T
1 T
21380307 GTTGTCTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.02, C:0.16, G:0.08, T:0.74
Consensus pattern (25 bp):
TTTTCTTTCTTGCTTCTATTTTTGC
Found at i:21380982 original size:50 final size:50
Alignment explanation
Indices: 21380828--21381103 Score: 166
Period size: 50 Copynumber: 5.5 Consensus size: 50
21380818 TTTGGAAAGT
* * * * *
21380828 AAGATTCGCCATTGTAGCTTCAATCTTTTGAACAGCAATGTCGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGC
* * * * ** * **
21380878 AAGATTCACCGATGTGGCTTTAA-CATGTTCCACTGC-ATCGCTT-GAGAAAT
1 AAGATTCGCCGTTGTAGCTTTAATC-TTTTTAACTGCAAT-G-TTGGGGAAGC
* * *
21380928 AAGATTCGCTGTTGTATCTTTAATCTTTTTAACTACAATGTTGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGC
* * * * ** * * *
21380978 AAGATTCACCGATGTGGCTTTAATCTGTTCCACTGC-ATCGCCT-GAGAAGT
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAAT-G-TTGGGGAAGC
** * * *
21381028 AAGATTCGCTATGGTAGCTTTAATTTTTTTAACTGCAATGTCGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGC
* * *
21381078 AAGGTTCGCCGTTGTGGCATTAATCT
1 AAGATTCGCCGTTGTAGCTTTAATCT
21381104 GTTCCACTAC
Statistics
Matches: 158, Mismatches: 58, Indels: 20
0.67 0.25 0.08
Matches are distributed among these distances:
49 7 0.04
50 144 0.91
51 7 0.04
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (50 bp):
AAGATTCGCCGTTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGC
Found at i:21381000 original size:100 final size:100
Alignment explanation
Indices: 21380822--21381121 Score: 415
Period size: 100 Copynumber: 3.0 Consensus size: 100
21380812 GTAACTTTTG
* * *
21380822 GAAAGTAAGATTCGCCATTGTAGCTTCAATCTTTTGAAC-AGCAATGTCGGGGAAGCAAGATTCA
1 GAAA-TAAGATTCGCTATTGTAGCTTTAATCTTTTTAACTA-CAATGTCGGGGAAGCAAGATTCA
*
21380886 CCGATGTGGCTTTAA-CATGTTCCACTGCATCGCTTGA
64 CCGATGTGGCTTTAATC-TGTTCCACTGCATCGCCTGA
* * *
21380923 GAAATAAGATTCGCTGTTGTATCTTTAATCTTTTTAACTACAATGTTGGGGAAGCAAGATTCACC
1 GAAATAAGATTCGCTATTGTAGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCAAGATTCACC
21380988 GATGTGGCTTTAATCTGTTCCACTGCATCGCCTGA
66 GATGTGGCTTTAATCTGTTCCACTGCATCGCCTGA
* * * * * *
21381023 GAAGTAAGATTCGCTATGGTAGCTTTAATTTTTTTAACTGCAATGTCGGGGAAGCAAGGTTCGCC
1 GAAATAAGATTCGCTATTGTAGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCAAGATTCACC
* * *
21381088 GTTGTGGCATTAATCTGTTCCACTACATCGCCTG
66 GATGTGGCTTTAATCTGTTCCACTGCATCGCCTG
21381122 GGGGATAAGA
Statistics
Matches: 178, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
100 172 0.97
101 6 0.03
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (100 bp):
GAAATAAGATTCGCTATTGTAGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCAAGATTCACC
GATGTGGCTTTAATCTGTTCCACTGCATCGCCTGA
Found at i:21381535 original size:219 final size:219
Alignment explanation
Indices: 21381137--21381656 Score: 647
Period size: 219 Copynumber: 2.4 Consensus size: 219
21381127 TAAGATTTGC
* ** *
21381137 TTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTATC
1 TTCTTTGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAAACGATCTACTCTACTGTAAC
*
21381202 TTCAGAGAGATAAGATCCTTTATTTTAATCCGTTCCACTGTAATCTCAGAGAAACAGGATTACTG
66 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAAACAGGATTACTG
* * * *
21381267 GCTTCAATCTGCTCCGCTATAATCTCAAGGAGATAAGATTCACCATTTTCGATTAGCTCCACTAT
131 GCTACAATCTACTCCACTATAACCTCAAGGAGATAAGATTCACCATTTTCGATTAGCTCCACTAT
21381332 TGCTTAGGGAGATAAGATCTAGAA
196 TGCTTAGGGAGATAAGATCTAGAA
*
21381356 TTCTTTGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAAACGATCTACTTTACTGTAAC
1 TTCTTTGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAAACGATCTACTCTACTGTAAC
*
21381421 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA-AGGAAATAGGATTACT
66 TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGA-GAAACAGGATTACT
* * *** *
21381485 GGCTACAATCTACTCCACTGTAACCTCAGGGAGATAAGATTTGTCATTTTCGATCT-GCCCCACT
130 GGCTACAATCTACTCCACTATAACCTCAAGGAGATAAGATTCACCATTTTCGAT-TAGCTCCACT
**** * * *
21381549 GCAACTTTAGGGGGATAAGACCT-G-C
194 ATTGC-TTAGGGAGATAAGATCTAGAA
** ** * * * * *
21381574 TTAC-TCAGTCTGCTCCACTGAAACCTTAGGGAGATAAGACCT-AATGCGATCCACTCTACTGTA
1 TT-CTTTGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAA-ACGATCTACTCTACTGTA
*
21381637 ACTTCAGAGAAATAAGATCC
64 ACTTCAGAGAGATAAGATCC
21381657 ATCGTCCTTG
Statistics
Matches: 261, Mismatches: 35, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
217 2 0.01
218 68 0.26
219 175 0.67
220 16 0.06
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (219 bp):
TTCTTTGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGAAACGATCTACTCTACTGTAAC
TTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGAGAAACAGGATTACTG
GCTACAATCTACTCCACTATAACCTCAAGGAGATAAGATTCACCATTTTCGATTAGCTCCACTAT
TGCTTAGGGAGATAAGATCTAGAA
Found at i:21381891 original size:129 final size:128
Alignment explanation
Indices: 21381671--21382003 Score: 540
Period size: 129 Copynumber: 2.6 Consensus size: 128
21381661 TCCTTGGTCT
*
21381671 GCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAAGGAT
1 GCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGAT
*
21381736 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGACGTCTTCGATCG
66 ATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGACGTATTCGATCG
* * * **
21381799 GCTCTGCTATTGCTTAGGGAGACAAGATCTGTAGTTTCCCATCCTACACCACTGCTGACCAGGGA
1 GCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGGA
* * *
21381864 TATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGATAAGATTCGTCGTATTCGATCT
65 TATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGACGTATTCGATCG
* * *
21381928 GCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCTAACCTATTCCACTGCTGACCAGGGAG
1 GCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGAT
21381993 ATAGGACTTGT
66 ATAGGACTTGT
21382004 ATCTTCGATC
Statistics
Matches: 186, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
128 69 0.37
129 117 0.63
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (128 bp):
GCTCTGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGAT
ATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGACGTATTCGATCG
Found at i:21382058 original size:88 final size:88
Alignment explanation
Indices: 21381950--21382141 Score: 234
Period size: 87 Copynumber: 2.2 Consensus size: 88
21381940 CTTAGGGAGA
* * *
21381950 CAAGATCTGTAAT-TTCTAACCTATTCCACTGCTGACC-AGGGA-G-ATAGGAC-TTGTATCTTC
1 CAAGATCTGTTATCTTCTAACCTAGTCCACTGC-AACCGAGGGAGGCA-AGG-CTTTGT-T-TTC
21382010 GATCTGCTTCGCTGTCAATGCAAGAAGG
61 GATCTGCTTCGCTGTCAATGCAAGAAGG
*
21382038 CAAGATCTGTTATCTT-TAACCTGGTCCACTGCAACCGAGGGAGGCAAGGCTTTGTTTTCGATCT
1 CAAGATCTGTTATCTTCTAACCTAGTCCACTGCAACCGAGGGAGGCAAGGCTTTGTTTTCGATCT
* *
21382102 GCTTCGCTGTCGATGCAGGAAGG
66 GCTTCGCTGTCAATGCAAGAAGG
*
21382125 CAAGATCTGCTATCTTC
1 CAAGATCTGTTATCTTC
21382142 AATAATCTGT
Statistics
Matches: 91, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
87 47 0.52
88 33 0.36
89 10 0.11
90 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (88 bp):
CAAGATCTGTTATCTTCTAACCTAGTCCACTGCAACCGAGGGAGGCAAGGCTTTGTTTTCGATCT
GCTTCGCTGTCAATGCAAGAAGG
Found at i:21383391 original size:8 final size:8
Alignment explanation
Indices: 21383380--21383430 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
21383370 CCATTTTTAC
21383380 TTTTTCAT
1 TTTTTCAT
*
21383388 TTTTTACTT
1 TTTTT-CAT
21383397 TTTTTCA-
1 TTTTTCAT
21383404 -TTTTCAT
1 TTTTTCAT
*
21383411 TTTTT-AA
1 TTTTTCAT
21383418 TTTTTCAT
1 TTTTTCAT
21383426 TTTTT
1 TTTTT
21383431 TTGATTCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
6 6 0.17
7 6 0.17
8 16 0.46
9 7 0.20
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTCAT
Found at i:21383406 original size:31 final size:31
Alignment explanation
Indices: 21383371--21383432 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
21383361 TTAGCCTCTC
* * *
21383371 CATTTTTACTTTTTCATTTTTTACTTTTTTT
1 CATTTTCACTTTTTAATTTTTCACTTTTTTT
* *
21383402 CATTTTCATTTTTTAATTTTTCATTTTTTTT
1 CATTTTCACTTTTTAATTTTTCACTTTTTTT
21383433 GATTCAAAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (31 bp):
CATTTTCACTTTTTAATTTTTCACTTTTTTT
Found at i:21390520 original size:3 final size:3
Alignment explanation
Indices: 21390512--21390568 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
21390502 ATAATCAAAT
* * * **
21390512 ATA ATA ATA ATA ACA ATA ATAA ATA GTG ATAA ATA ATA ATA ATA GCA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA AT-A ATA ATA ATA ATA ATA
21390559 ATA ATA ATA A
1 ATA ATA ATA A
21390569 CAGTAAAGTT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
3 37 0.88
4 5 0.12
ACGTcount: A:0.63, C:0.04, G:0.05, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:21392714 original size:26 final size:26
Alignment explanation
Indices: 21392666--21392850 Score: 226
Period size: 26 Copynumber: 7.1 Consensus size: 26
21392656 AACACACCAA
* * * *
21392666 TATCGTAGCAACGCTGCCCGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* * *
21392692 TATCGCAACAAAGCTACCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
* * *
21392718 TATCGCAGCAAAGCTGTCAGTGACAA
1 TATCGCAGCAAAGCTGCCAGTAACAG
** *
21392744 TATCGCAATAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
21392770 TATCGCAGCAAAGTTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
21392796 TATCGCAGCAAAGTTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
21392822 TATCGCAGTAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
21392848 TAT
1 TAT
21392851 ACTTCCTCCA
Statistics
Matches: 136, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 136 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:21392832 original size:14 final size:13
Alignment explanation
Indices: 21392761--21392834 Score: 57
Period size: 14 Copynumber: 5.6 Consensus size: 13
21392751 ATAAAGCTGC
21392761 CAGTAATAGTATCG
1 CAGTAA-AGTATCG
*
21392775 CAGCAAAGT-T-G
1 CAGTAAAGTATCG
21392786 CCAGTAACAGTATCG
1 -CAGTAA-AGTATCG
*
21392801 CAGCAAAGT-T-G
1 CAGTAAAGTATCG
21392812 CCAGTAACAGTATCG
1 -CAGTAA-AGTATCG
21392827 CAGTAAAG
1 CAGTAAAG
21392835 CTGCCAGTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 17
0.70 0.06 0.25
Matches are distributed among these distances:
11 2 0.04
12 12 0.25
13 14 0.29
14 18 0.38
15 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (13 bp):
CAGTAAAGTATCG
Found at i:21400306 original size:26 final size:28
Alignment explanation
Indices: 21400264--21400339 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
21400254 TTGGGCCTGA
* *
21400264 GCCTTA-TTCAGTAACAGTA-CAGTGTG-
1 GCCTTAGTCCAGT-ACAGTATCAATGTGC
21400290 GCCTTAGTCCAGTACAGTATCAATGTGC
1 GCCTTAGTCCAGTACAGTATCAATGTGC
* * *
21400318 ACCTTAGTCCAATACAATATCA
1 GCCTTAGTCCAGTACAGTATCA
21400340 GTACAGTGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 12 0.29
27 11 0.26
28 19 0.45
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (28 bp):
GCCTTAGTCCAGTACAGTATCAATGTGC
Found at i:21400499 original size:26 final size:26
Alignment explanation
Indices: 21400441--21400520 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 26
21400431 ACCAACACAC
*
21400441 CAATATCGTAGCAAAGCTGCCCGTAA
1 CAATATCGTAGCAAAGCTGCCAGTAA
* * * **
21400467 TAGTATCGTATCAAAGCTGTGAGTAA
1 CAATATCGTAGCAAAGCTGCCAGTAA
* *
21400493 CAATATCGCAGCAAAGCAGCCAGTAA
1 CAATATCGTAGCAAAGCTGCCAGTAA
21400519 CA
1 CA
21400521 GTATACTTCC
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (26 bp):
CAATATCGTAGCAAAGCTGCCAGTAA
Found at i:21411148 original size:27 final size:28
Alignment explanation
Indices: 21411082--21411148 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
21411072 CATTACCGAC
* * *
21411082 AATGTGAGAAGTCTGTCTGGACTATCTA
1 AATGTGGGAAGTCCGTCAGGACTATCTA
21411110 AATGTGGGAAGTCCGTCAGGACTATCT-
1 AATGTGGGAAGTCCGTCAGGACTATCTA
21411137 AATGTGGGAAGT
1 AATGTGGGAAGT
21411149 TGACCAGTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 12 0.33
28 24 0.67
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (28 bp):
AATGTGGGAAGTCCGTCAGGACTATCTA
Found at i:21415210 original size:27 final size:27
Alignment explanation
Indices: 21415172--21415223 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
21415162 TATATGGTTT
*
21415172 GAGTTGTAATATAGTTTTACAACAATA
1 GAGTTGCAATATAGTTTTACAACAATA
21415199 GAGTTGCAATATAGTTTTACAACAA
1 GAGTTGCAATATAGTTTTACAACAA
21415224 AGTAGGTGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (27 bp):
GAGTTGCAATATAGTTTTACAACAATA
Found at i:21417727 original size:18 final size:18
Alignment explanation
Indices: 21417704--21417742 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21417694 TTATTCTTTA
*
21417704 ATTTCTTGTGTTTTAT-TT
1 ATTTCTT-TATTTTATGTT
21417722 ATTTCTTTATTTTATGTT
1 ATTTCTTTATTTTATGTT
21417740 ATT
1 ATT
21417743 AGTAGTAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (18 bp):
ATTTCTTTATTTTATGTT
Found at i:21418122 original size:28 final size:27
Alignment explanation
Indices: 21417998--21418249 Score: 220
Period size: 27 Copynumber: 9.2 Consensus size: 27
21417988 GAGGCGGCCA
* **
21417998 ACTACCTAATGTGGGAAGTCTGCCAGG
1 ACTATCTAATGTGGGAAGTCCACCAGG
* * * *
21418025 ACTATCAAAATTTGAGAAGTACACCAGG
1 ACTATC-TAATGTGGGAAGTCCACCAGG
* * *
21418053 ACTATCTAATATGGGAAGTCC-GCAAG
1 ACTATCTAATGTGGGAAGTCCACCAGG
*
21418079 ACTATCTAAATATGGGAAGTCCACCAGG
1 ACTATCT-AATGTGGGAAGTCCACCAGG
* ****
21418107 AATATCTAATTGTGGGAAGTCTGTTAGG
1 ACTATCTAA-TGTGGGAAGTCCACCAGG
* * *
21418135 AATATCTAAATGTGGGAAGTCCA-TAAG
1 ACTATCT-AATGTGGGAAGTCCACCAGG
*
21418162 ACTATCTAAATGTGGGAAGTCCACAAGG
1 ACTATCT-AATGTGGGAAGTCCACCAGG
* ***
21418190 ACTATCTAATGTGGAAAGTTTGCCAGG
1 ACTATCTAATGTGGGAAGTCCACCAGG
*
21418217 ACTATCTAATGTGGGAAGTCCACAAGG
1 ACTATCTAATGTGGGAAGTCCACCAGG
21418244 ACTATC
1 ACTATC
21418250 GTTGTGAAGA
Statistics
Matches: 182, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
26 10 0.05
27 100 0.55
28 70 0.38
29 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (27 bp):
ACTATCTAATGTGGGAAGTCCACCAGG
Found at i:21418216 original size:110 final size:109
Alignment explanation
Indices: 21418003--21418236 Score: 274
Period size: 110 Copynumber: 2.1 Consensus size: 109
21417993 GGCCAACTAC
* * *
21418003 CTAATGTGGGAAGTCTGCCAGGACTATCAAAATTTGAGAAGTACACCAGGACTATCTAATATGGG
1 CTAATGTGGGAAGTCTGCCAGGAATATCAAAATGTGAGAAGTACACCAAGACTATCTAATATGGG
* *
21418068 AAGTCCGCAAGACTATCTAAATATGGGAAGTCCACCAGGAATAT
66 AAGTCCACAAGACTATCTAAATATGGAAAGTCCACCAGGAATAT
** * * * * *
21418112 CTAATTGTGGGAAGTCTGTTAGGAATATCTAAATGTGGGAAGTCCA-TAAGACTATCTAAATGTG
1 CTAA-TGTGGGAAGTCTGCCAGGAATATCAAAATGTGAGAAGTACACCAAGACTATCT-AATATG
* *** *
21418176 GGAAGTCCACAAGGACTATCT-AATGTGGAAAGTTTGCCAGGACTAT
64 GGAAGTCCACAA-GACTATCTAAATATGGAAAGTCCACCAGGAATAT
21418222 CTAATGTGGGAAGTC
1 CTAATGTGGGAAGTC
21418237 CACAAGGACT
Statistics
Matches: 105, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
109 24 0.23
110 73 0.70
111 8 0.08
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.26
Consensus pattern (109 bp):
CTAATGTGGGAAGTCTGCCAGGAATATCAAAATGTGAGAAGTACACCAAGACTATCTAATATGGG
AAGTCCACAAGACTATCTAAATATGGAAAGTCCACCAGGAATAT
Found at i:21421671 original size:20 final size:20
Alignment explanation
Indices: 21421646--21421689 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
21421636 AAAATTACAA
21421646 AAAAAATCAAAATAATTTTC
1 AAAAAATCAAAATAATTTTC
*
21421666 AAAAAATCAAAATAATTTTT
1 AAAAAATCAAAATAATTTTC
21421686 AAAA
1 AAAA
21421690 TTCAAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAATCAAAATAATTTTC
Found at i:21421696 original size:18 final size:19
Alignment explanation
Indices: 21421647--21421732 Score: 75
Period size: 20 Copynumber: 4.3 Consensus size: 19
21421637 AAATTACAAA
*
21421647 AAAAATCAAAATAATTTTCA
1 AAAAATCAAAATAATTTT-T
21421667 AAAAATCAAAATAATTTTT
1 AAAAATCAAAATAATTTTT
* * *
21421686 AAAATTC-AAATTATTTAT
1 AAAAATCAAAATAATTTTT
21421704 AAAAATTCCAAAATTTATATTTTT
1 AAAAA-T-CAAAA--TA-ATTTTT
21421728 AAAAA
1 AAAAA
21421733 GATTATAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
18 13 0.25
19 7 0.13
20 19 0.36
21 3 0.06
23 1 0.02
24 10 0.19
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATCAAAATAATTTTT
Found at i:21434279 original size:6 final size:6
Alignment explanation
Indices: 21434231--21434282 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
21434221 TTAATTTTCC
* *
21434231 TATTAT TATTATT TATTTT TACTATTT TA-TTT TATTTT CATTTT TATTTT
1 TATTTT TATT-TT TATTTT TA-T-TTT TATTTT TATTTT TATTTT TATTTT
21434281 TA
1 TA
21434283 AAGGAAACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
5 5 0.13
6 23 0.59
7 6 0.15
8 5 0.13
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (6 bp):
TATTTT
Found at i:21434281 original size:18 final size:20
Alignment explanation
Indices: 21434218--21434282 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
21434208 AAAAAAAAAC
*
21434218 ATTTTAATTTTC-CTATTATT
1 ATTTTTATTTTCACTATT-TT
*
21434238 ATTATTTATTTTTACTATTTT
1 ATT-TTTATTTTCACTATTTT
21434259 A-TTTTATTTTCA-T-TTTT
1 ATTTTTATTTTCACTATTTT
21434276 ATTTTTA
1 ATTTTTA
21434283 AAGGAAACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 5 0.13
18 6 0.15
19 9 0.23
20 4 0.10
21 10 0.26
22 5 0.13
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTTTATTTTCACTATTTT
Found at i:21442561 original size:14 final size:15
Alignment explanation
Indices: 21442537--21442566 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21442527 CCTTCTACAA
21442537 TTTGATTTTTTTTTC
1 TTTGATTTTTTTTTC
*
21442552 TTTGTTTTTTTTTTC
1 TTTGATTTTTTTTTC
21442567 ACTCTATCAT
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:0.03, C:0.07, G:0.07, T:0.83
Consensus pattern (15 bp):
TTTGATTTTTTTTTC
Found at i:21446873 original size:13 final size:13
Alignment explanation
Indices: 21446810--21446875 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
21446800 TTTAAATCAA
*
21446810 ACTTTTCAAAAAC
1 ACTTTTCAAAAGC
* **
21446823 ACTTCTCAAAAAT
1 ACTTTTCAAAAGC
* *
21446836 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
21446849 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
21446862 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
21446875 A
1 A
21446876 ATGAAGAACT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:21446875 original size:26 final size:26
Alignment explanation
Indices: 21446810--21446875 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
21446800 TTTAAATCAA
*
21446810 ACTTTTCAAAAACACTTCTCAAAAAT
1 ACTTTTCAAAAGCACTTCTCAAAAAT
* * * *
21446836 ACTTTTCCACAGCACTTTTCAAAAGT
1 ACTTTTCAAAAGCACTTCTCAAAAAT
21446862 ACTTTTCAAAAGCA
1 ACTTTTCAAAAGCA
21446876 ATGAAGAACT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTCTCAAAAAT
Found at i:21446910 original size:18 final size:18
Alignment explanation
Indices: 21446887--21446922 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21446877 TGAAGAACTG
21446887 ACCCTAATTCTTTAGAAT
1 ACCCTAATTCTTTAGAAT
21446905 ACCCTAATTCTTTAGAAT
1 ACCCTAATTCTTTAGAAT
21446923 TTGTACGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (18 bp):
ACCCTAATTCTTTAGAAT
Found at i:21452700 original size:37 final size:37
Alignment explanation
Indices: 21452659--21452733 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
21452649 AATTAATGAA
*
21452659 TGATTAATAGATAATTGAAGTGAATATGATATTGAGT
1 TGATTAATAGATAATTGAAGCGAATATGATATTGAGT
*
21452696 TGATTAATAGATAATTGAAGCGAATGTGATATTGAGT
1 TGATTAATAGATAATTGAAGCGAATATGATATTGAGT
21452733 T
1 T
21452734 ATGAAATGCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.01, G:0.23, T:0.37
Consensus pattern (37 bp):
TGATTAATAGATAATTGAAGCGAATATGATATTGAGT
Found at i:21452712 original size:20 final size:19
Alignment explanation
Indices: 21452659--21452713 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
21452649 AATTAATGAA
21452659 TGATTAATAGATAATTGAAG
1 TGATTAATAGATAATTG-AG
*
21452679 TGAAT-AT-GAT-ATTGAG
1 TGATTAATAGATAATTGAG
21452695 TTGATTAATAGATAATTGA
1 -TGATTAATAGATAATTGA
21452714 AGCGAATGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 2 0.07
17 8 0.28
18 5 0.17
19 5 0.17
20 9 0.31
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
TGATTAATAGATAATTGAG
Found at i:21452746 original size:20 final size:21
Alignment explanation
Indices: 21452718--21452762 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
21452708 AATTGAAGCG
* *
21452718 AATGTGATATTGAG-TTATGA
1 AATGCGATACTGAGATTATGA
21452738 AATGCGATACTGAGATTATGA
1 AATGCGATACTGAGATTATGA
21452759 AATG
1 AATG
21452763 TGATTTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.33
Consensus pattern (21 bp):
AATGCGATACTGAGATTATGA
Found at i:21452921 original size:75 final size:75
Alignment explanation
Indices: 21452810--21453126 Score: 349
Period size: 75 Copynumber: 4.2 Consensus size: 75
21452800 CGGTTCATTC
* * * *
21452810 GACTAGCGCTGGGCTC-AATCATCGTTGGTTCATCCAACTAGAGCTGGGCTCAC-AATTACAATC
1 GACTAGCGCTGGGCGCAAAT-ATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTA-TATC
*
21452873 GTCGGTATACCT
64 GTCGGTTTACCT
* * * * *
21452885 GACTAGCACTGAGTGCAAATATTGTTGGTTTATCCAACTAAAGCTGGGCTCACTATTTATATCGT
1 GACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCGT
21452950 CGGTTTATCC-
66 CGGTTTA-CCT
* *
21452960 GACTAGCGCTGGGCGCAAATATCGTTTGTTTATCCAACTAGAGCTGGGCTCACTATTTATATTGT
1 GACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCGT
* *
21453025 TGGTTTATCT
66 CGGTTTACCT
* * * * * *
21453035 AACTAGCGTTGGGCGCAAATATCATTGGTTTATCCAACCAGAGCTGGGCTTACTGA-TTAT-TCA
1 GACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACT-ATTTATATCG
*
21453098 TCGGTATATCC-
65 TCGGTTTA-CCT
*
21453109 GACTAGCGCTGAGCGCAA
1 GACTAGCGCTGGGCGCAA
21453127 CTTCCATCAG
Statistics
Matches: 203, Mismatches: 33, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
74 23 0.11
75 170 0.84
76 10 0.05
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (75 bp):
GACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCGT
CGGTTTACCT
Found at i:21452971 original size:40 final size:39
Alignment explanation
Indices: 21452903--21453094 Score: 166
Period size: 40 Copynumber: 5.1 Consensus size: 39
21452893 CTGAGTGCAA
* *
21452903 ATATTGTTGGTTTATCCAACTAAAGCTGGGCTCACTATTT
1 ATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTA-TT
* * * *
21452943 ATATCGTCGGTTTATCCGACTAGCGCTGGGCGCA--A--
1 ATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATT
*
21452978 ATATCGTTTGTTTATCCAACTAGAGCTGGGCTCACTATTT
1 ATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTA-TT
* * * * *
21453018 ATATTGTTGGTTTATCTAACTAGCGTTGGGCGCA--A--
1 ATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATT
* * *
21453053 ATATCATTGGTTTATCCAACCAGAGCTGGGCTTACTGATT
1 ATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACT-ATT
21453093 AT
1 AT
21453095 TCATCGGTAT
Statistics
Matches: 117, Mismatches: 25, Indels: 20
0.72 0.15 0.12
Matches are distributed among these distances:
35 55 0.47
37 1 0.01
38 3 0.03
40 58 0.50
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (39 bp):
ATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATT
Found at i:21452991 original size:35 final size:35
Alignment explanation
Indices: 21452811--21453083 Score: 156
Period size: 35 Copynumber: 7.4 Consensus size: 35
21452801 GGTTCATTCG
* * *
21452811 ACTAGCGCTGGGCTC-AATCATCGTTGGTTCATCCA
1 ACTAGAGCTGGGCGCAAAT-ATCGTTGGTTTATCCA
* * * *
21452846 ACTAGAGCTGGGCTCACAATTACAATCGTCGGTATA-CCTG
1 ACTAGAGCTGGGCGCA-AA-T---ATCGTTGGTTTATCC-A
* * *
21452886 ACTAGCA-CTGAGTGCAAATATTGTTGGTTTATCCA
1 ACTAG-AGCTGGGCGCAAATATCGTTGGTTTATCCA
* * * *
21452921 ACTAAAGCTGGGCTCACTATTTATATCGTCGGTTTATCCG
1 ACTAGAGCTGGGCGCA--A---ATATCGTTGGTTTATCCA
* *
21452961 ACTAGCGCTGGGCGCAAATATCGTTTGTTTATCCA
1 ACTAGAGCTGGGCGCAAATATCGTTGGTTTATCCA
* * *
21452996 ACTAGAGCTGGGCTCACTATTTATATTGTTGGTTTATCTA
1 ACTAGAGCTGGGCGCA--A---ATATCGTTGGTTTATCCA
* * *
21453036 ACTAGCGTTGGGCGCAAATATCATTGGTTTATCCA
1 ACTAGAGCTGGGCGCAAATATCGTTGGTTTATCCA
*
21453071 ACCAGAGCTGGGC
1 ACTAGAGCTGGGC
21453084 TTACTGATTA
Statistics
Matches: 179, Mismatches: 40, Indels: 38
0.70 0.16 0.15
Matches are distributed among these distances:
34 1 0.01
35 87 0.49
36 2 0.01
37 4 0.02
38 4 0.02
39 4 0.02
40 76 0.42
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (35 bp):
ACTAGAGCTGGGCGCAAATATCGTTGGTTTATCCA
Found at i:21453069 original size:150 final size:151
Alignment explanation
Indices: 21452793--21453126 Score: 390
Period size: 150 Copynumber: 2.2 Consensus size: 151
21452783 TGAGTAATTG
* * * *
21452793 ATATTGTCGGTTCATTCGACTAGCGCTGGGCTC-AATCATCGTTGGTTCATCCAACTAGAGCTGG
1 ATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAAATCATCGTTGGTTCATCCAACTAGAGCTGG
* * **
21452857 GCTCACAATTACAATCGTCGGTATACCTGACTAGCACTGAGTGCAAATATTGTTGGTTTATCCAA
66 GCTCACAATTACAATCGTCGGTATACCTAACTAGCACTGAGCGCAAATATCATTGGTTTATCCAA
*
21452922 CTAAAGCTGGGCTCACT-ATTT
131 CCAAAGCTGGGCTCACTGA-TT
* *
21452943 ATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAAAT-ATCGTTTGTTTATCCAACTAGAGCTGG
1 ATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAAATCATCGTTGGTTCATCCAACTAGAGCTGG
* * * * * * ** *
21453007 GCTCACTATTTA-TATTGTTGGTTTATCTAACTAGCGTTGGGCGCAAATATCATTGGTTTATCCA
66 GCTCAC-AATTACAATCGTCGGTATACCTAACTAGCACTGAGCGCAAATATCATTGGTTTATCCA
* *
21453071 ACCAGAGCTGGGCTTACTGATT
130 ACCAAAGCTGGGCTCACTGATT
* * *
21453093 AT-TCATCGGTATATCCGACTAGCGCTGAGCGCAA
1 ATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAA
21453127 CTTCCATCAG
Statistics
Matches: 156, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
149 29 0.19
150 119 0.76
151 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (151 bp):
ATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAAATCATCGTTGGTTCATCCAACTAGAGCTGG
GCTCACAATTACAATCGTCGGTATACCTAACTAGCACTGAGCGCAAATATCATTGGTTTATCCAA
CCAAAGCTGGGCTCACTGATT
Found at i:21454791 original size:37 final size:37
Alignment explanation
Indices: 21454750--21454824 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
21454740 AATTAATGAA
*
21454750 TGATTAATAGATAATTGAAGTGAATATGATATTGAGT
1 TGATTAATAGATAATTGAAGCGAATATGATATTGAGT
*
21454787 TGATTAATAGATAATTGAAGCGAATGTGATATTGAGT
1 TGATTAATAGATAATTGAAGCGAATATGATATTGAGT
21454824 T
1 T
21454825 ATGAAATGCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.01, G:0.23, T:0.37
Consensus pattern (37 bp):
TGATTAATAGATAATTGAAGCGAATATGATATTGAGT
Found at i:21454803 original size:20 final size:19
Alignment explanation
Indices: 21454750--21454804 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
21454740 AATTAATGAA
21454750 TGATTAATAGATAATTGAAG
1 TGATTAATAGATAATTG-AG
*
21454770 TGAAT-AT-GAT-ATTGAG
1 TGATTAATAGATAATTGAG
21454786 TTGATTAATAGATAATTGA
1 -TGATTAATAGATAATTGA
21454805 AGCGAATGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
16 2 0.07
17 8 0.28
18 5 0.17
19 5 0.17
20 9 0.31
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (19 bp):
TGATTAATAGATAATTGAG
Found at i:21454837 original size:20 final size:21
Alignment explanation
Indices: 21454809--21454853 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
21454799 AATTGAAGCG
* *
21454809 AATGTGATATTGAG-TTATGA
1 AATGCGATACTGAGATTATGA
21454829 AATGCGATACTGAGATTATGA
1 AATGCGATACTGAGATTATGA
21454850 AATG
1 AATG
21454854 TGATTTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.33
Consensus pattern (21 bp):
AATGCGATACTGAGATTATGA
Found at i:21455012 original size:75 final size:75
Alignment explanation
Indices: 21454901--21455217 Score: 349
Period size: 75 Copynumber: 4.2 Consensus size: 75
21454891 CGGTTCATTC
* * * *
21454901 GACTAGCGCTGGGCTC-AATCATCGTTGGTTCATCCAACTAGAGCTGGGCTCAC-AATTACAATC
1 GACTAGCGCTGGGCGCAAAT-ATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTA-TATC
*
21454964 GTCGGTATACCT
64 GTCGGTTTACCT
* * * * *
21454976 GACTAGCACTGAGTGCAAATATTGTTGGTTTATCCAACTAAAGCTGGGCTCACTATTTATATCGT
1 GACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCGT
21455041 CGGTTTATCC-
66 CGGTTTA-CCT
* *
21455051 GACTAGCGCTGGGCGCAAATATCGTTTGTTTATCCAACTAGAGCTGGGCTCACTATTTATATTGT
1 GACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCGT
* *
21455116 TGGTTTATCT
66 CGGTTTACCT
* * * * * *
21455126 AACTAGCGTTGGGCGCAAATATCATTGGTTTATCCAACCAGAGCTGGGCTTACTGA-TTAT-TCA
1 GACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACT-ATTTATATCG
*
21455189 TCGGTATATCC-
65 TCGGTTTA-CCT
*
21455200 GACTAGCGCTGAGCGCAA
1 GACTAGCGCTGGGCGCAA
21455218 CTTCCATCAG
Statistics
Matches: 203, Mismatches: 33, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
74 23 0.11
75 170 0.84
76 10 0.05
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (75 bp):
GACTAGCGCTGGGCGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCGT
CGGTTTACCT
Found at i:21455062 original size:40 final size:39
Alignment explanation
Indices: 21454994--21455185 Score: 166
Period size: 40 Copynumber: 5.1 Consensus size: 39
21454984 CTGAGTGCAA
* *
21454994 ATATTGTTGGTTTATCCAACTAAAGCTGGGCTCACTATTT
1 ATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTA-TT
* * * *
21455034 ATATCGTCGGTTTATCCGACTAGCGCTGGGCGCA--A--
1 ATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATT
*
21455069 ATATCGTTTGTTTATCCAACTAGAGCTGGGCTCACTATTT
1 ATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTA-TT
* * * * *
21455109 ATATTGTTGGTTTATCTAACTAGCGTTGGGCGCA--A--
1 ATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATT
* * *
21455144 ATATCATTGGTTTATCCAACCAGAGCTGGGCTTACTGATT
1 ATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACT-ATT
21455184 AT
1 AT
21455186 TCATCGGTAT
Statistics
Matches: 117, Mismatches: 25, Indels: 20
0.72 0.15 0.12
Matches are distributed among these distances:
35 55 0.47
37 1 0.01
38 3 0.03
40 58 0.50
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (39 bp):
ATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATT
Found at i:21455082 original size:35 final size:35
Alignment explanation
Indices: 21454902--21455174 Score: 156
Period size: 35 Copynumber: 7.4 Consensus size: 35
21454892 GGTTCATTCG
* * *
21454902 ACTAGCGCTGGGCTC-AATCATCGTTGGTTCATCCA
1 ACTAGAGCTGGGCGCAAAT-ATCGTTGGTTTATCCA
* * * *
21454937 ACTAGAGCTGGGCTCACAATTACAATCGTCGGTATA-CCTG
1 ACTAGAGCTGGGCGCA-AA-T---ATCGTTGGTTTATCC-A
* * *
21454977 ACTAGCA-CTGAGTGCAAATATTGTTGGTTTATCCA
1 ACTAG-AGCTGGGCGCAAATATCGTTGGTTTATCCA
* * * *
21455012 ACTAAAGCTGGGCTCACTATTTATATCGTCGGTTTATCCG
1 ACTAGAGCTGGGCGCA--A---ATATCGTTGGTTTATCCA
* *
21455052 ACTAGCGCTGGGCGCAAATATCGTTTGTTTATCCA
1 ACTAGAGCTGGGCGCAAATATCGTTGGTTTATCCA
* * *
21455087 ACTAGAGCTGGGCTCACTATTTATATTGTTGGTTTATCTA
1 ACTAGAGCTGGGCGCA--A---ATATCGTTGGTTTATCCA
* * *
21455127 ACTAGCGTTGGGCGCAAATATCATTGGTTTATCCA
1 ACTAGAGCTGGGCGCAAATATCGTTGGTTTATCCA
*
21455162 ACCAGAGCTGGGC
1 ACTAGAGCTGGGC
21455175 TTACTGATTA
Statistics
Matches: 179, Mismatches: 40, Indels: 38
0.70 0.16 0.15
Matches are distributed among these distances:
34 1 0.01
35 87 0.49
36 2 0.01
37 4 0.02
38 4 0.02
39 4 0.02
40 76 0.42
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (35 bp):
ACTAGAGCTGGGCGCAAATATCGTTGGTTTATCCA
Found at i:21455160 original size:150 final size:151
Alignment explanation
Indices: 21454884--21455217 Score: 390
Period size: 150 Copynumber: 2.2 Consensus size: 151
21454874 TGAGTAATTG
* * * *
21454884 ATATTGTCGGTTCATTCGACTAGCGCTGGGCTC-AATCATCGTTGGTTCATCCAACTAGAGCTGG
1 ATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAAATCATCGTTGGTTCATCCAACTAGAGCTGG
* * **
21454948 GCTCACAATTACAATCGTCGGTATACCTGACTAGCACTGAGTGCAAATATTGTTGGTTTATCCAA
66 GCTCACAATTACAATCGTCGGTATACCTAACTAGCACTGAGCGCAAATATCATTGGTTTATCCAA
*
21455013 CTAAAGCTGGGCTCACT-ATTT
131 CCAAAGCTGGGCTCACTGA-TT
* *
21455034 ATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAAAT-ATCGTTTGTTTATCCAACTAGAGCTGG
1 ATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAAATCATCGTTGGTTCATCCAACTAGAGCTGG
* * * * * * ** *
21455098 GCTCACTATTTA-TATTGTTGGTTTATCTAACTAGCGTTGGGCGCAAATATCATTGGTTTATCCA
66 GCTCAC-AATTACAATCGTCGGTATACCTAACTAGCACTGAGCGCAAATATCATTGGTTTATCCA
* *
21455162 ACCAGAGCTGGGCTTACTGATT
130 ACCAAAGCTGGGCTCACTGATT
* * *
21455184 AT-TCATCGGTATATCCGACTAGCGCTGAGCGCAA
1 ATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAA
21455218 CTTCCATCAG
Statistics
Matches: 156, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
149 29 0.19
150 119 0.76
151 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (151 bp):
ATATCGTCGGTTTATCCGACTAGCGCTGGGCGCAAATCATCGTTGGTTCATCCAACTAGAGCTGG
GCTCACAATTACAATCGTCGGTATACCTAACTAGCACTGAGCGCAAATATCATTGGTTTATCCAA
CCAAAGCTGGGCTCACTGATT
Found at i:21469764 original size:39 final size:40
Alignment explanation
Indices: 21469669--21469891 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
21469659 TTGAATGATG
*
21469669 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
21469707 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
21469748 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21469787 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21469826 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21469865 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
21469892 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:21469855 original size:79 final size:81
Alignment explanation
Indices: 21469669--21469891 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
21469659 TTGAATGATG
* * *
21469669 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
21469730 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
21469748 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
21469810 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
21469826 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
21469890 TG
66 TG
21469892 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:21469913 original size:79 final size:79
Alignment explanation
Indices: 21469669--21469924 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
21469659 TTGAATGATG
* * * *
21469669 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
21469730 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
21469748 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
21469812 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
21469826 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
21469890 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
21469906 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21469925 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:21477793 original size:79 final size:81
Alignment explanation
Indices: 21477657--21477841 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
21477647 TTGAATGATG
*
21477657 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
21477721 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
21477736 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
21477798 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
21477816 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21477842 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:21477855 original size:40 final size:40
Alignment explanation
Indices: 21477658--21477841 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
21477648 TGAATGATGT
* * * *
21477658 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
21477698 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
21477738 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
21477776 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
21477817 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
21477842 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:21477863 original size:79 final size:79
Alignment explanation
Indices: 21477710--21477874 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
21477700 GGACTAAGAT
* **
21477710 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
21477775 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
21477789 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
21477852 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
21477868 CCGAAGG
1 CCGAAGG
21477875 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:21479789 original size:34 final size:35
Alignment explanation
Indices: 21479740--21479829 Score: 114
Period size: 34 Copynumber: 2.6 Consensus size: 35
21479730 ACCCACGCAA
* * *
21479740 ATATT-TTATACATATAACACCCATGCAC-GTTA-
1 ATATTATTATATATATAACACCCATACACAGATAT
*
21479772 ATATATATTATGTATATAACACCCATACACAGATAT
1 ATAT-TATTATATATATAACACCCATACACAGATAT
21479808 ATATTATTATATATATAACACC
1 ATATTATTATATATATAACACC
21479830 AAATCTCATA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
32 4 0.08
33 1 0.02
34 20 0.41
35 20 0.41
36 4 0.08
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (35 bp):
ATATTATTATATATATAACACCCATACACAGATAT
Found at i:21491562 original size:117 final size:117
Alignment explanation
Indices: 21491376--21491881 Score: 917
Period size: 117 Copynumber: 4.3 Consensus size: 117
21491366 ATTAATTGAT
*
21491376 AAGTTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCCGGAA
1 AAGTTGTATTAATTGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCCGGAA
21491441 AAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAACGAAAA
66 AAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAACGAAAA
*
21491493 AAGTTGTATTAGTTGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCCGGAA
1 AAGTTGTATTAATTGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCCGGAA
21491558 AAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAACGAAAA
66 AAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAACGAAAA
*
21491610 AAGTTGTATTAGTTGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCCGGAA
1 AAGTTGTATTAATTGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCCGGAA
*
21491675 AAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAACTAAAA
66 AAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAACGAAAA
* *
21491727 AAATTGTATTAATTGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCAGGAA
1 AAGTTGTATTAATTGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCCGGAA
*
21491792 AAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAACTCAAAA
66 AAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAAC-GAAAA
21491845 AA-TTGTATTAA-TGATTAGTAAAATTATCAAATTATAT
1 AAGTTGTATTAATTG-TTAGTAAAATTATCAAATTATAT
21491882 TTAAGTTAAG
Statistics
Matches: 380, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
116 2 0.01
117 372 0.98
118 6 0.02
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.37
Consensus pattern (117 bp):
AAGTTGTATTAATTGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGTTAGTACCCGGAA
AAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAATTATTAACGAAAA
Found at i:21492032 original size:66 final size:66
Alignment explanation
Indices: 21491955--21492638 Score: 638
Period size: 66 Copynumber: 10.2 Consensus size: 66
21491945 TAAGTAAGGG
21491955 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAG
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAG
21492020 T
66 T
* * *
21492021 TTAGGGTTTTTAAGTTAATGGTTTAAGGGTATTAATTAAATT-A--GTTTAGGGTGTTTAATTAA
1 TTAGGGTTTTTAAGTTAA-GGGTT-AGGGT-TT--TTAAGTTAAGGGTTTAGGGTTTTTAATTAA
21492083 ATTAGT
61 ATTAGT
*
21492089 TTAGGGTTTTTAAGTTAAGAGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAG
1 TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAG
21492154 T
66 T
* **
21492155 TTATGGTTTTTAAGTTAAGGAGGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTT
1 TTAGGGTTTTTAAGTT-A--AGGG-TTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TT
*
21492219 -AA-TGGT
59 AAATTAGT
* * *
21492225 TTAGAGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTT-AA
1 TTAGGGTTTTTAAGTT-AA--GGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTAAA
**
21492287 -GGGT
62 TTAGT
* * * *
21492291 TTAGGGTTTTTAA-TTAAATTAGTTTATGGTTTTTAAGTTAAAGGTTTAGGGTTTTTAATTAAAT
1 TTAGGGTTTTTAAGTT-AA--GGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAAT
21492355 TAGT
63 TAGT
*
21492359 TTAGGGTTTTTGAAGTTAAGGGTTAGAGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTA
1 TTAGGGTTTTT-AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTA
21492424 GT
65 GT
* ** *
21492426 TTATGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTAAATTAGTTTAAGGTTTTTAAGTT-AA
1 TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TTAAA
* *
21492489 --GGG
62 TTAGT
* **
21492492 TTAGGGTTTTTAAGTTAAGCGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAATT-AA
1 TTAGGGTTTTTAAGTTAAG-GGTTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTT-AATTAAA
* *
21492555 --GGG
62 TTAGT
*** *
21492558 TTAGGG-TTTTAA-TTAAATCAATTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAATTAAAA
1 TTAGGGTTTTTAAGTT-AA--GGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAAT
21492620 TAGT
63 TAGT
21492624 TTAGGGTTTTTAAGT
1 TTAGGGTTTTTAAGT
21492639 AATAACTCAA
Statistics
Matches: 535, Mismatches: 45, Indels: 74
0.82 0.07 0.11
Matches are distributed among these distances:
63 10 0.02
64 16 0.03
65 11 0.02
66 226 0.42
67 103 0.19
68 92 0.17
69 20 0.04
70 32 0.06
71 23 0.04
72 2 0.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (66 bp):
TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAG
T
Found at i:21492033 original size:45 final size:45
Alignment explanation
Indices: 21491942--21492554 Score: 626
Period size: 45 Copynumber: 13.7 Consensus size: 45
21491932 AGGGTTAAGG
* *
21491942 TTTTAAG-TAAGGG-TTAGGGTTTTTAAGTT-AA--GGGTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGT
21491983 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGT
* *
21492028 TTTTAAGTTAATGGTTTAAGGG-TATTAATTAAATTAGTTTAGGGT
1 TTTTAAGTTAAGGGTTT-AGGGTTTTTAATTAAATTAGTTTAGGGT
* ** *
21492073 GTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTT-AA-GAG-TTAGGGT
1 TTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGT
*
21492117 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTATGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGT
21492162 TTTTAAGTTAAGGAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGT
1 TTTTAAGTT-A--AGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGT
* *
21492210 TTTTAAGTTAATGGTTTAGAGTTTTTAATTAAATTAGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGT
**
21492255 TTTTAAGTTAAGGG-TTAGGGTTTTTAAGTT-AA-GGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGT
** * *
21492298 TTTTAA-TTAAATTAGTTTATGGTTTTTAAGTTAAA--GGTTTAGGGT
1 TTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGT
** * * *
21492343 TTTTAA-TTAAATTAGTTTAGGGTTTTTGAAGTT-AA--GGGTTAGAGT
1 TTTTAAGTT-AA-GGGTTTAGGGTTTTT-AA-TTAAATTAGTTTAGGGT
*
21492388 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTATGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGT
*
21492433 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAAGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGT
**
21492478 TTTTAAGTTAAGGG-TTAGGGTTTTTAAGTT-AA-GCGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGT
**
21492521 TTTTAA-TTAAATTAGTTTAGGGTTTTTAAATTAA
1 TTTTAAGTT-AA-GGGTTTAGGGTTTTT-AATTAA
21492555 GGGTTAGGGT
Statistics
Matches: 501, Mismatches: 38, Indels: 61
0.83 0.06 0.10
Matches are distributed among these distances:
41 7 0.01
42 16 0.03
43 69 0.14
44 62 0.12
45 272 0.54
46 29 0.06
47 3 0.01
48 43 0.09
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (45 bp):
TTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGT
Found at i:21492136 original size:111 final size:110
Alignment explanation
Indices: 21491955--21492638 Score: 214
Period size: 111 Copynumber: 6.1 Consensus size: 110
21491945 TAAGTAAGGG
**
21491955 TTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TTAAA
1 TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTT-AA
* * * *
21492016 TTAGTTTAGGGTTTTTAAGTTAATGGTTTAAGGG-TATTAATTAAATTAGT
64 --GGGTTAGGGTTTTTAAATTAA-GGTTT-AGGGTTTTTAATTAAATTAGT
* ** *
21492066 TTAGGGTGTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTT-AA-GAG-TTAGGGTTTTTAAGTTA
1 TTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTA
* * **
21492127 AGGGTTTAGGGTTTTT-AATTAAATTAGTTTATGGTTTTTAAGTTAAGGA-GGGT
63 AGGG-TTAGGGTTTTTAAATT-AA--GGTTTAGGGTTTTTAA-TTAA--ATTAGT
** * *
21492180 TTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTT-AA-TGGTTTAGAGTTTTTAA-TTA
1 TTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTT-
* * * * **
21492241 AATTAGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTT-AA-GGGT
62 AA--GGGTTAGGGTTTTTAAATTAAGGTTTAGGGTTTTTAA-TTAAATTAGT
** * *
21492291 TTAGGGTTTTTAA-TTAAATTAGTTTATGGTTTTTAAGTTAAA--GGTTTAGGGTTTTTAA-TTA
1 TTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTT-
* * * * * **
21492352 AATTAGTTTAGGGTTTTTGAAGTTAAGGGTTAGAGTTTTTAAGTT-AA-GGGT
62 AA--GGGTTAGGGTTTTT-AAATTAAGGTTTAGGGTTTTTAA-TTAAATTAGT
** * **
21492403 TTAGGGTTTTTAA-TTAAATTAGTTTATGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TTA
1 TTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAGTT-
* * * * * **
21492464 AATTAGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTT-AA-GCGT
62 AA--GGGTTAGGGTTTTTAAATTAAGGTTTAGGGTTTTTAA-TTAAATTAGT
** * *
21492514 TTAGGGTTTTTAA-TTAAATTAGTTTAGGGTTTTTAAATT-AA--GGGTTAGGG-TTTTAA-TTA
1 TTAGGGTTTTTAAGTT-AA-GGGTTTAGGGTTTTT-AATTAAATTAGTTTAGGGTTTTTAAGTT-
*** * * *
21492573 AATCAATTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTAAAATAGT
62 AA--GGGTTAGGGTTTTTAAATTAAGGTTTAGGGTTTTTAATTAAATTAGT
21492624 TTAGGGTTTTTAAGT
1 TTAGGGTTTTTAAGT
21492639 AATAACTCAA
Statistics
Matches: 515, Mismatches: 35, Indels: 46
0.86 0.06 0.08
Matches are distributed among these distances:
108 2 0.00
109 49 0.10
110 29 0.06
111 179 0.35
112 136 0.26
113 27 0.05
114 61 0.12
115 15 0.03
116 13 0.03
117 4 0.01
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (110 bp):
TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGTTTTTAAGTTAAGG
GTTAGGGTTTTTAAATTAAGGTTTAGGGTTTTTAATTAAATTAGT
Found at i:21494021 original size:20 final size:20
Alignment explanation
Indices: 21493984--21494021 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21493974 TTTATTTTTA
*
21493984 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
21494004 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
21494022 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:21494410 original size:45 final size:45
Alignment explanation
Indices: 21494359--21494447 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
21494349 TCCGGATTAG
21494359 GGAATGTGTCACGTAACCAGCCCATCTCGATCTTACCTCCCTCCC
1 GGAATGTGTCACGTAACCAGCCCATCTCGATCTTACCTCCCTCCC
21494404 GGAATGTGTCACGTAACCAGCCCATCTCGATCTTACCTCCCTCC
1 GGAATGTGTCACGTAACCAGCCCATCTCGATCTTACCTCCCTCC
21494448 ATTTTCTCCG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.20, C:0.39, G:0.16, T:0.25
Consensus pattern (45 bp):
GGAATGTGTCACGTAACCAGCCCATCTCGATCTTACCTCCCTCCC
Found at i:21494975 original size:10 final size:10
Alignment explanation
Indices: 21494960--21494985 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
21494950 TTTAAAAAAA
21494960 TTAAAATTAT
1 TTAAAATTAT
21494970 TTAAAATTAT
1 TTAAAATTAT
21494980 TTAAAA
1 TTAAAA
21494986 AAAGAGAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TTAAAATTAT
Found at i:21496483 original size:32 final size:31
Alignment explanation
Indices: 21496445--21496556 Score: 133
Period size: 33 Copynumber: 3.6 Consensus size: 31
21496435 TAAATGGAGA
* *
21496445 AGGGTGAGAAAGAGGCGGCATTGGGCAAGTGG
1 AGGGTGAGAGAGAGGCGACATTGGGC-AGTGG
21496477 AGGGTGAGAGAGAGGCGACATTAGTGGCAGTGG
1 AGGGTGAGAGAGAGGCGACATT-G-GGCAGTGG
21496510 AGGGTGAGAGAGAGGCGACATT--G--GTGG
1 AGGGTGAGAGAGAGGCGACATTGGGCAGTGG
* *
21496537 AGGCTGTGAGAGAGGCGACA
1 AGGGTGAGAGAGAGGCGACA
21496557 ATGGATTTTA
Statistics
Matches: 74, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
27 22 0.30
29 1 0.01
32 20 0.27
33 28 0.38
34 3 0.04
ACGTcount: A:0.28, C:0.10, G:0.49, T:0.13
Consensus pattern (31 bp):
AGGGTGAGAGAGAGGCGACATTGGGCAGTGG
Found at i:21496514 original size:33 final size:33
Alignment explanation
Indices: 21496445--21496532 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
21496435 TAAATGGAGA
* *
21496445 AGGGTGAGAAAGAGGCGGCATTG-GGCAAGTGG
1 AGGGTGAGAGAGAGGCGACATTGTGGCAAGTGG
21496477 AGGGTGAGAGAGAGGCGACATTAGTGGC-AGTGG
1 AGGGTGAGAGAGAGGCGACATT-GTGGCAAGTGG
21496510 AGGGTGAGAGAGAGGCGACATTG
1 AGGGTGAGAGAGAGGCGACATTG
21496533 GTGGAGGCTG
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
32 21 0.40
33 28 0.54
34 3 0.06
ACGTcount: A:0.28, C:0.09, G:0.49, T:0.14
Consensus pattern (33 bp):
AGGGTGAGAGAGAGGCGACATTGTGGCAAGTGG
Found at i:21496744 original size:17 final size:18
Alignment explanation
Indices: 21496710--21496744 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21496700 AAATAAAATA
21496710 TTTATAAATTTAATTATT
1 TTTATAAATTTAATTATT
*
21496728 TTTATATATTT-ATTATT
1 TTTATAAATTTAATTATT
21496745 GAATATGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTATAAATTTAATTATT
Found at i:21497368 original size:13 final size:13
Alignment explanation
Indices: 21497350--21497374 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21497340 CACCACTTTA
21497350 TTTTACTATTACC
1 TTTTACTATTACC
21497363 TTTTACTATTAC
1 TTTTACTATTAC
21497375 TTGTATTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTACTATTACC
Found at i:21497765 original size:19 final size:19
Alignment explanation
Indices: 21497715--21497765 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 19
21497705 ATTTAAATTT
*
21497715 AATA-ATTAT-AAAAAGTA
1 AATATATTATAAAAAAGGA
*
21497732 AATATATTCTTTAAAAAAGGA
1 AATATA-T-TATAAAAAAGGA
21497753 AATATATTATAAA
1 AATATATTATAAA
21497766 TTATGTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 4 0.15
18 1 0.04
19 6 0.22
20 3 0.11
21 13 0.48
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (19 bp):
AATATATTATAAAAAAGGA
Found at i:21499651 original size:33 final size:33
Alignment explanation
Indices: 21499614--21499756 Score: 121
Period size: 33 Copynumber: 4.3 Consensus size: 33
21499604 TATTGACTGT
*
21499614 TGGGGAGGGTGATGTTAAAAGGGTAGAAAT-TGA
1 TGGGGAGGGTGATGATAAAAGGGTAG-AATCTGA
* *
21499647 TGGGGAGGGTGATGATGAAGGGGTAGAATCTGA
1 TGGGGAGGGTGATGATAAAAGGGTAGAATCTGA
* * * * *
21499680 TGGTGAAGGTGAT-CTAGAAAGAGTAGAATCTGT
1 TGGGGAGGGTGATGATA-AAAGGGTAGAATCTGA
* * * * *
21499713 TGGAGAGGATGATG-TAAGAGGGGTACAAGCTGA
1 TGGGGAGGGTGATGATAA-AAGGGTAGAATCTGA
21499746 TGGGGAGGGTG
1 TGGGGAGGGTG
21499757 TGTCTGTTAC
Statistics
Matches: 86, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
32 5 0.06
33 81 0.94
ACGTcount: A:0.30, C:0.03, G:0.44, T:0.22
Consensus pattern (33 bp):
TGGGGAGGGTGATGATAAAAGGGTAGAATCTGA
Found at i:21502775 original size:14 final size:15
Alignment explanation
Indices: 21502756--21502788 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
21502746 GGTGTAAGGT
21502756 ATTTT-GCCTACAAC
1 ATTTTAGCCTACAAC
21502770 ATTTTGAGCCTACAAC
1 ATTTT-AGCCTACAAC
21502786 ATT
1 ATT
21502789 CTGGTTTTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
16 12 0.71
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (15 bp):
ATTTTAGCCTACAAC
Found at i:21504113 original size:16 final size:16
Alignment explanation
Indices: 21504094--21504168 Score: 57
Period size: 16 Copynumber: 4.6 Consensus size: 16
21504084 GGATGTTATA
*
21504094 GATTTGGGGATTTCAT
1 GATTTGGGGATTTCAC
*
21504110 GATTTGGAGG-TTTTAC
1 GATTTGG-GGATTTCAC
*
21504126 GATTTGGGGAATTTGAC
1 GATTTGGGG-ATTTCAC
*
21504143 GAATTT-GGGATTTTA-
1 G-ATTTGGGGATTTCAC
21504158 GTATTTGGGGA
1 G-ATTTGGGGA
21504169 AAGTTTTGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
15 7 0.14
16 27 0.55
17 11 0.22
18 4 0.08
ACGTcount: A:0.21, C:0.04, G:0.33, T:0.41
Consensus pattern (16 bp):
GATTTGGGGATTTCAC
Found at i:21508419 original size:71 final size:70
Alignment explanation
Indices: 21508319--21508488 Score: 202
Period size: 71 Copynumber: 2.4 Consensus size: 70
21508309 TCATTTGGTA
* * * * *
21508319 TCGATAGAACCCATCAAAGTATCAGTAGAAGTGCAGAGGAAAT-TGAACTTTGGCTACTGACTTG
1 TCGATAGAAGCCTTCAAGGTATCAGTAGAAATGC--AGGAAATCTGAACTTTGCCTACTGACTTG
21508383 ACTTGTT
64 ACTTGTT
* * *
21508390 TC-AGTAGAAGTCC-TCAAGGTATCAGTAGAAATGCAGGAGATGCTGAACTTTGCCTATTGAGTT
1 TCGA-TAGAAG-CCTTCAAGGTATCAGTAGAAATGCAGGAAAT-CTGAACTTTGCCTACTGACTT
21508453 GACTTGTT
63 GACTTGTT
21508461 TCGATAGAAGCCTTCAAGGTATCAGTAG
1 TCGATAGAAGCCTTCAAGGTATCAGTAG
21508489 CACTTGATTG
Statistics
Matches: 86, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
69 6 0.07
70 3 0.03
71 74 0.86
72 3 0.03
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (70 bp):
TCGATAGAAGCCTTCAAGGTATCAGTAGAAATGCAGGAAATCTGAACTTTGCCTACTGACTTGAC
TTGTT
Found at i:21513269 original size:6 final size:6
Alignment explanation
Indices: 21513241--21513294 Score: 54
Period size: 6 Copynumber: 8.5 Consensus size: 6
21513231 TCAGTCTAAG
* * *
21513241 AAAATA GAAATAA AACAACTA AAAATA AAAATA AAGATA AAGATA AAAATA
1 AAAATA AAAAT-A AA-AA-TA AAAATA AAAATA AAAATA AAAATA AAAATA
21513292 AAA
1 AAA
21513295 CAAATAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 31 0.76
7 4 0.10
8 5 0.12
9 1 0.02
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:21515898 original size:90 final size:88
Alignment explanation
Indices: 21515792--21515965 Score: 242
Period size: 90 Copynumber: 2.0 Consensus size: 88
21515782 GTAGATTCCC
* ** *
21515792 TGAAAATATTTCAAAAAAGCTATTATAAACT-AAACAAATATACATTTGAATTTTTCTTGTCTTT
1 TGAAAATATTTCAAAAAAGCTATTATAAA-TGAAACAAACATACATTTG--GCTTTCTTGTCATT
21515856 TAATTGTTTAGCTAAATTCACTTTCT
63 TAATTGTTTAGCTAAATTCACTTTCT
* * * *
21515882 TGAAAATATTTCAAAAAAGTTATTTTAAATGAAACAAACATATATTTGGCTTTCTTTTCATTTAA
1 TGAAAATATTTCAAAAAAGCTATTATAAATGAAACAAACATACATTTGGCTTTCTTGTCATTTAA
21515947 TTGTTTAGCTAAATTCACT
66 TTGTTTAGCTAAATTCACT
21515966 AAACAAAATG
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
88 32 0.43
89 1 0.01
90 42 0.56
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.43
Consensus pattern (88 bp):
TGAAAATATTTCAAAAAAGCTATTATAAATGAAACAAACATACATTTGGCTTTCTTGTCATTTAA
TTGTTTAGCTAAATTCACTTTCT
Found at i:21517784 original size:8 final size:8
Alignment explanation
Indices: 21517773--21517799 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
21517763 TTAATTAAAG
21517773 AAAATAAT
1 AAAATAAT
21517781 AAAATAAT
1 AAAATAAT
21517789 AAAATAAT
1 AAAATAAT
21517797 AAA
1 AAA
21517800 GAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAATAAT
Found at i:21518711 original size:16 final size:16
Alignment explanation
Indices: 21518690--21518720 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21518680 CGAGAAGCAC
*
21518690 TTATTTAGAGTCTAAG
1 TTATTTAGAATCTAAG
21518706 TTATTTAGAATCTAA
1 TTATTTAGAATCTAA
21518721 CTTCTTTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (16 bp):
TTATTTAGAATCTAAG
Found at i:21519633 original size:18 final size:18
Alignment explanation
Indices: 21519610--21519647 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21519600 TTCAATTAAG
*
21519610 TCTTTCATT-AAGTGTTTT
1 TCTTTC-TTCAAGTATTTT
21519628 TCTTTCTTCAAGTATTTT
1 TCTTTCTTCAAGTATTTT
21519646 TC
1 TC
21519648 ATCTAGTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.61
Consensus pattern (18 bp):
TCTTTCTTCAAGTATTTT
Found at i:21519695 original size:12 final size:12
Alignment explanation
Indices: 21519635--21519764 Score: 64
Period size: 12 Copynumber: 10.2 Consensus size: 12
21519625 TTTTCTTTCT
21519635 TCAAGTATTTTTCA
1 TCAAGT-TTTTT-A
*
21519649 TCTAGTTCTTTTA
1 TCAAGTT-TTTTA
21519662 TCAAGTTTTTAATTA
1 TCAAG-TTTT--TTA
*
21519677 CCAAGTTTTTTA
1 TCAAGTTTTTTA
**
21519689 TCAAGTTTTGCA
1 TCAAGTTTTTTA
*
21519701 GCAAGTTCTTTT-
1 TCAAGTT-TTTTA
* *
21519713 TAAAGTTTTTCA
1 TCAAGTTTTTTA
*
21519725 TCAAGTCTTTTCA
1 TCAAGT-TTTTTA
* * **
21519738 TAAAATTTTCCA
1 TCAAGTTTTTTA
*
21519750 TCAAGTTTTTAA
1 TCAAGTTTTTTA
21519762 TCA
1 TCA
21519765 TTTCGTTTTT
Statistics
Matches: 89, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
11 3 0.03
12 44 0.49
13 20 0.22
14 15 0.17
15 7 0.08
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (12 bp):
TCAAGTTTTTTA
Found at i:21519741 original size:25 final size:24
Alignment explanation
Indices: 21519642--21519760 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 24
21519632 TCTTCAAGTA
* *
21519642 TTTTTCATCTAGTTCTTTTATCAAG
1 TTTTTCATCAAG-TCTTTTATAAAG
* * *
21519667 TTTTTAATTACCAAGTTTTTTATCAAG
1 TTTTTCA-T--CAAGTCTTTTATAAAG
* *
21519694 TTTTGCAGCAAGTTCTTTT-TAAAG
1 TTTTTCATCAAG-TCTTTTATAAAG
*
21519718 TTTTTCATCAAGTCTTTTCATAAAA
1 TTTTTCATCAAGTCTTTT-ATAAAG
*
21519743 TTTTCCATCAAGT-TTTTA
1 TTTTTCATCAAGTCTTTTA
21519761 ATCATTTCGT
Statistics
Matches: 76, Mismatches: 12, Indels: 14
0.75 0.12 0.14
Matches are distributed among these distances:
23 7 0.09
24 22 0.29
25 27 0.36
26 1 0.01
27 16 0.21
28 3 0.04
ACGTcount: A:0.26, C:0.14, G:0.08, T:0.51
Consensus pattern (24 bp):
TTTTTCATCAAGTCTTTTATAAAG
Found at i:21519759 original size:24 final size:23
Alignment explanation
Indices: 21519678--21519760 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 23
21519668 TTTTAATTAC
* * *
21519678 CAAGTTTTTTATCAAGTTTTGCAG
1 CAAG-TTTTTATAAAGTTTTCCAT
* *
21519702 CAAGTTCTTTTTAAAGTTTTTCAT
1 CAAGTT-TTTATAAAGTTTTCCAT
*
21519726 CAAGTCTTTTCATAAAATTTTCCAT
1 CAAGT-TTTT-ATAAAGTTTTCCAT
21519751 CAAGTTTTTA
1 CAAGTTTTTA
21519761 ATCATTTCGT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
23 3 0.06
24 29 0.59
25 17 0.35
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (23 bp):
CAAGTTTTTATAAAGTTTTCCAT
Found at i:21524489 original size:19 final size:20
Alignment explanation
Indices: 21524465--21524511 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
21524455 AAATCTTTTC
21524465 AACAAAAAA-AAAACAA-AAA
1 AACAAAAAATAAAA-AATAAA
21524484 AACAAAAAATAAAAAATAAA
1 AACAAAAAATAAAAAATAAA
*
21524504 AATAAAAA
1 AACAAAAA
21524512 TACTCCTCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.87, C:0.06, G:0.00, T:0.06
Consensus pattern (20 bp):
AACAAAAAATAAAAAATAAA
Found at i:21525395 original size:18 final size:18
Alignment explanation
Indices: 21525372--21525409 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21525362 TTCAATTAAG
*
21525372 TCTTTCATT-AAGTGTTTT
1 TCTTTC-TTCAAGTATTTT
21525390 TCTTTCTTCAAGTATTTT
1 TCTTTCTTCAAGTATTTT
21525408 TC
1 TC
21525410 ATCTAGTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.61
Consensus pattern (18 bp):
TCTTTCTTCAAGTATTTT
Found at i:21525457 original size:12 final size:12
Alignment explanation
Indices: 21525397--21525526 Score: 64
Period size: 12 Copynumber: 10.2 Consensus size: 12
21525387 TTTTCTTTCT
21525397 TCAAGTATTTTTCA
1 TCAAGT-TTTTT-A
*
21525411 TCTAGTTCTTTTA
1 TCAAGTT-TTTTA
21525424 TCAAGTTTTTAATTA
1 TCAAG-TTTT--TTA
*
21525439 CCAAGTTTTTTA
1 TCAAGTTTTTTA
**
21525451 TCAAGTTTTGCA
1 TCAAGTTTTTTA
*
21525463 GCAAGTTCTTTT-
1 TCAAGTT-TTTTA
* *
21525475 TAAAGTTTTTCA
1 TCAAGTTTTTTA
*
21525487 TCAAGTCTTTTCA
1 TCAAGT-TTTTTA
* * **
21525500 TAAAATTTTCCA
1 TCAAGTTTTTTA
*
21525512 TCAAGTTTTTAA
1 TCAAGTTTTTTA
21525524 TCA
1 TCA
21525527 TTTCGTTTTT
Statistics
Matches: 89, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
11 3 0.03
12 44 0.49
13 20 0.22
14 15 0.17
15 7 0.08
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (12 bp):
TCAAGTTTTTTA
Found at i:21525503 original size:25 final size:24
Alignment explanation
Indices: 21525404--21525522 Score: 89
Period size: 25 Copynumber: 4.8 Consensus size: 24
21525394 TCTTCAAGTA
* *
21525404 TTTTTCATCTAGTTCTTTTATCAAG
1 TTTTTCATCAAG-TCTTTTATAAAG
* * *
21525429 TTTTTAATTACCAAGTTTTTTATCAAG
1 TTTTTCA-T--CAAGTCTTTTATAAAG
* *
21525456 TTTTGCAGCAAGTTCTTTT-TAAAG
1 TTTTTCATCAAG-TCTTTTATAAAG
*
21525480 TTTTTCATCAAGTCTTTTCATAAAA
1 TTTTTCATCAAGTCTTTT-ATAAAG
*
21525505 TTTTCCATCAAGT-TTTTA
1 TTTTTCATCAAGTCTTTTA
21525523 ATCATTTCGT
Statistics
Matches: 76, Mismatches: 12, Indels: 14
0.75 0.12 0.14
Matches are distributed among these distances:
23 7 0.09
24 22 0.29
25 27 0.36
26 1 0.01
27 16 0.21
28 3 0.04
ACGTcount: A:0.26, C:0.14, G:0.08, T:0.51
Consensus pattern (24 bp):
TTTTTCATCAAGTCTTTTATAAAG
Found at i:21525521 original size:24 final size:23
Alignment explanation
Indices: 21525440--21525522 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 23
21525430 TTTTAATTAC
* * *
21525440 CAAGTTTTTTATCAAGTTTTGCAG
1 CAAG-TTTTTATAAAGTTTTCCAT
* *
21525464 CAAGTTCTTTTTAAAGTTTTTCAT
1 CAAGTT-TTTATAAAGTTTTCCAT
*
21525488 CAAGTCTTTTCATAAAATTTTCCAT
1 CAAGT-TTTT-ATAAAGTTTTCCAT
21525513 CAAGTTTTTA
1 CAAGTTTTTA
21525523 ATCATTTCGT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
23 3 0.06
24 29 0.59
25 17 0.35
ACGTcount: A:0.28, C:0.14, G:0.10, T:0.48
Consensus pattern (23 bp):
CAAGTTTTTATAAAGTTTTCCAT
Found at i:21527581 original size:18 final size:18
Alignment explanation
Indices: 21527558--21527595 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
21527548 AGGTAACTTA
21527558 ATATTCTGATTATCATCC
1 ATATTCTGATTATCATCC
*
21527576 ATATTCTGATTATCGTCC
1 ATATTCTGATTATCATCC
21527594 AT
1 AT
21527596 CTCCTCAGTA
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:0.26, C:0.21, G:0.08, T:0.45
Consensus pattern (18 bp):
ATATTCTGATTATCATCC
Found at i:21531279 original size:25 final size:24
Alignment explanation
Indices: 21531210--21531279 Score: 56
Period size: 25 Copynumber: 2.9 Consensus size: 24
21531200 GAATTATGAA
21531210 AATATTATTGTATAAATAAAA-TTAG
1 AATA-TATTGTA-AAATAAAATTTAG
* **
21531235 AA-ATATAT-AAAAATGGAATTTATG
1 AATATAT-TGTAAAATAAAATTTA-G
21531259 AATATATTGTAAAATAAAATT
1 AATATATTGTAAAATAAAATT
21531280 ATAAAAATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 10
0.68 0.12 0.20
Matches are distributed among these distances:
22 6 0.18
23 7 0.21
24 6 0.18
25 15 0.44
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (24 bp):
AATATATTGTAAAATAAAATTTAG
Found at i:21531439 original size:3 final size:3
Alignment explanation
Indices: 21531433--21531477 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
21531423 AATAACACCT
* ** *
21531433 ATA ATA ATA GTA CGA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21531478 GTATTATAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:21532354 original size:13 final size:14
Alignment explanation
Indices: 21532336--21532364 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21532326 AAATTCTAAT
21532336 TTATTTTT-TGCTA
1 TTATTTTTCTGCTA
21532349 TTATTTTTCTGCTA
1 TTATTTTTCTGCTA
21532363 TT
1 TT
21532365 GCGCTTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (14 bp):
TTATTTTTCTGCTA
Found at i:21539672 original size:3 final size:3
Alignment explanation
Indices: 21539664--21539694 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
21539654 ATCACATGTT
21539664 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
21539695 CATCGAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21549146 original size:32 final size:30
Alignment explanation
Indices: 21549098--21549156 Score: 100
Period size: 32 Copynumber: 1.9 Consensus size: 30
21549088 TATTTTACAC
21549098 TTTTTAATTTTTTTGAATTTTTAAAATATT
1 TTTTTAATTTTTTTGAATTTTTAAAATATT
21549128 TTTTATAATTTTTTTTGAATTTTTAAAAT
1 TTTT-TAA-TTTTTTTGAATTTTTAAAAT
21549157 TAAAAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 4 0.15
31 3 0.11
32 20 0.74
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (30 bp):
TTTTTAATTTTTTTGAATTTTTAAAATATT
Found at i:21550312 original size:26 final size:27
Alignment explanation
Indices: 21550282--21550333 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 27
21550272 ATAATAAATA
21550282 ATCAAAATATTATAATT-TTTTTATTT
1 ATCAAAATATTATAATTATTTTTATTT
21550308 ATCAAAATATTATAATTATTTTTATT
1 ATCAAAATATTATAATTATTTTTATT
21550334 ATTTACCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
ATCAAAATATTATAATTATTTTTATTT
Done.