Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 3 of 325
Found at i:645922 original size:8 final size:8
Alignment explanation
Indices: 645896--645953 Score: 59
Period size: 8 Copynumber: 7.6 Consensus size: 8
645886 GCATGGTAAT
645896 TGGGTTTG
1 TGGGTTTG
*
645904 TGGGTAT-
1 TGGGTTTG
645911 TGGGTTTG
1 TGGGTTTG
*
645919 TGGGTAT-
1 TGGGTTTG
645926 TGGGTTTG
1 TGGGTTTG
*
645934 TGGGTAT-
1 TGGGTTTG
*
645941 TGGGTTGG
1 TGGGTTTG
645949 TGGGT
1 TGGGT
645954 ATTGGGTTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
7 17 0.43
8 23 0.57
ACGTcount: A:0.05, C:0.00, G:0.50, T:0.45
Consensus pattern (8 bp):
TGGGTTTG
Found at i:647009 original size:11 final size:11
Alignment explanation
Indices: 646990--647019 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
646980 TTCCACTTGA
*
646990 AAGATAAGGAG
1 AAGAAAAGGAG
647001 AAGAAAAGGAG
1 AAGAAAAGGAG
647012 AAGAAAAG
1 AAGAAAAG
647020 AAAATATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (11 bp):
AAGAAAAGGAG
Found at i:651322 original size:48 final size:47
Alignment explanation
Indices: 651248--651339 Score: 157
Period size: 48 Copynumber: 1.9 Consensus size: 47
651238 CCATTCTTGA
*
651248 ATTTTTTTTTCAAAATTGAAGCTTCGAAAACTTTGAGATGTTAAAAC
1 ATTTTTTTTTCAAAATTGAAGCTTCGAAAACTTTGAGATCTTAAAAC
*
651295 ATTTATTTTTTCAAAATTGAAGCTTCGAAATCTTTGAGATCTTAA
1 ATTT-TTTTTTCAAAATTGAAGCTTCGAAAACTTTGAGATCTTAA
651340 GTTTAAGTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (47 bp):
ATTTTTTTTTCAAAATTGAAGCTTCGAAAACTTTGAGATCTTAAAAC
Found at i:651388 original size:4 final size:4
Alignment explanation
Indices: 651379--651403 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
651369 AAATTTGTTC
651379 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
651404 TGAGTTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:651637 original size:42 final size:42
Alignment explanation
Indices: 651590--651672 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
651580 ATTACATAGG
* *
651590 TATTCATTGATGTTGAGACTTTAACTGTTTAAGATGTCATTA
1 TATTCATTGATGTTGAGACCTTAACTATTTAAGATGTCATTA
*
651632 TATTCATTGATGTTGAGACCTTATCTATTTAAGATGTCATT
1 TATTCATTGATGTTGAGACCTTAACTATTTAAGATGTCATT
651673 GTTCGAACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.46
Consensus pattern (42 bp):
TATTCATTGATGTTGAGACCTTAACTATTTAAGATGTCATTA
Found at i:654047 original size:12 final size:12
Alignment explanation
Indices: 654027--654063 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
654017 GAAGAAGATG
*
654027 ACGGTGGTGGAA
1 ACGGCGGTGGAA
*
654039 ACGGCGGTGCAA
1 ACGGCGGTGGAA
654051 ACGGCGGTGGAA
1 ACGGCGGTGGAA
654063 A
1 A
654064 TGGAAATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.27, C:0.16, G:0.46, T:0.11
Consensus pattern (12 bp):
ACGGCGGTGGAA
Found at i:655155 original size:23 final size:23
Alignment explanation
Indices: 655129--655198 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 23
655119 TTTTAAAAAT
655129 TTAATGAATCTTACCACTAATTC
1 TTAATGAATCTTACCACTAATTC
* * *
655152 TTAA-GAAAAACTAAACAC--A-T-
1 TTAATG--AATCTTACCACTAATTC
655172 TTAATGAATCTTACCACTAATTC
1 TTAATGAATCTTACCACTAATTC
655195 TTAA
1 TTAA
655199 AAAAAAACTA
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 8 0.24
20 4 0.12
21 3 0.09
22 3 0.09
23 8 0.24
24 8 0.24
ACGTcount: A:0.43, C:0.19, G:0.04, T:0.34
Consensus pattern (23 bp):
TTAATGAATCTTACCACTAATTC
Found at i:655175 original size:43 final size:44
Alignment explanation
Indices: 655127--655213 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 44
655117 CCTTTTAAAA
*
655127 ATTTAATGAATCTTACCACTAATTCTT-AAGAAAAACTAAACAC
1 ATTTAATGAATCTTACCACTAATTCTTAAAAAAAAACTAAACAC
655170 ATTTAATGAATCTTACCACTAATTCTTAAAAAAAAACTAAACAC
1 ATTTAATGAATCTTACCACTAATTCTTAAAAAAAAACTAAACAC
655214 GTAATAGAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 27 0.64
44 15 0.36
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.30
Consensus pattern (44 bp):
ATTTAATGAATCTTACCACTAATTCTTAAAAAAAAACTAAACAC
Found at i:655877 original size:34 final size:32
Alignment explanation
Indices: 655829--655931 Score: 134
Period size: 33 Copynumber: 3.1 Consensus size: 32
655819 AAATTCTGAA
*
655829 AGGTTTAATTAAAATTTTCAAAATTTTTGAAAG
1 AGGTCTAATTAAAATTTT-AAAATTTTTGAAAG
* *
655862 AGCGTCTAATTAAAATTTTAAAACTTTTGAAAA
1 AG-GTCTAATTAAAATTTTAAAATTTTTGAAAG
* *
655895 AGGGTCTAATTAAAATTTTAAAATCTTTAAAAG
1 A-GGTCTAATTAAAATTTTAAAATTTTTGAAAG
655928 AGGT
1 AGGT
655932 ACTCAAAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
32 3 0.05
33 42 0.69
34 16 0.26
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.38
Consensus pattern (32 bp):
AGGTCTAATTAAAATTTTAAAATTTTTGAAAG
Found at i:672056 original size:13 final size:13
Alignment explanation
Indices: 672038--672072 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
672028 ACAAACTATT
672038 ATTATTATTTTAC
1 ATTATTATTTTAC
*
672051 ATTATTATTTTAT
1 ATTATTATTTTAC
672064 ATTATTATT
1 ATTATTATT
672073 ATATCTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTATTATTTTAC
Found at i:672070 original size:16 final size:15
Alignment explanation
Indices: 672034--672074 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
672024 GTTCACAAAC
672034 TATTATTATTA-TTT
1 TATTATTATTATTTT
*
672048 TA-CATTATTATTTT
1 TATTATTATTATTTT
672062 ATATTATTATTAT
1 -TATTATTATTAT
672075 ATCTTACTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 7 0.32
14 5 0.23
15 2 0.09
16 8 0.36
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTATTATTATTTT
Found at i:672162 original size:28 final size:29
Alignment explanation
Indices: 672130--672199 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 29
672120 CTTACATATA
672130 TATATTCGTTATTT-TATAT-TATATCAAT
1 TATATTC-TTATTTCTATATATATATCAAT
**
672158 TATATTTCTTATTTCCTATATATATATTTAT
1 TATA-TTCTTATTT-CTATATATATATCAAT
672189 TATATT-TTATT
1 TATATTCTTATT
672200 ATACGACATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
28 10 0.28
29 8 0.22
30 7 0.19
31 11 0.31
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (29 bp):
TATATTCTTATTTCTATATATATATCAAT
Found at i:672744 original size:29 final size:29
Alignment explanation
Indices: 672702--672760 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
672692 TGTAGTACTC
* * *
672702 TTTTTGTATGTCATGCATTATTTTATTAT
1 TTTTTGCATATCATGCATTATTTAATTAT
672731 TTTTTGCATATCATGCATTATTTAATTAT
1 TTTTTGCATATCATGCATTATTTAATTAT
672760 T
1 T
672761 ACTTTGTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.59
Consensus pattern (29 bp):
TTTTTGCATATCATGCATTATTTAATTAT
Found at i:680077 original size:16 final size:17
Alignment explanation
Indices: 680056--680089 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
680046 AAATAAATTT
*
680056 ATAAAAATTTA-TAAAA
1 ATAAAAATATATTAAAA
680072 ATAAAAATATATTAAAA
1 ATAAAAATATATTAAAA
680089 A
1 A
680090 ATTAGTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAAATATATTAAAA
Found at i:680916 original size:33 final size:33
Alignment explanation
Indices: 680876--680941 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
680866 ACCACCTCCT
680876 TCATCAGACAGAGTGAACTGACCATCGTCACCA
1 TCATCAGACAGAGTGAACTGACCATCGTCACCA
680909 TCATCAGACAGAGTGAACTGACCATCGTCACCA
1 TCATCAGACAGAGTGAACTGACCATCGTCACCA
680942 CCCTCTCTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.18
Consensus pattern (33 bp):
TCATCAGACAGAGTGAACTGACCATCGTCACCA
Found at i:681807 original size:22 final size:22
Alignment explanation
Indices: 681782--681829 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
681772 TCACTTGATT
681782 TAAATTGATTTTATGTAAAACA
1 TAAATTGATTTTATGTAAAACA
*
681804 TAAATTGATTTTATGTAAAAGA
1 TAAATTGATTTTATGTAAAACA
681826 TAAA
1 TAAA
681830 AAATAGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (22 bp):
TAAATTGATTTTATGTAAAACA
Found at i:682783 original size:42 final size:42
Alignment explanation
Indices: 682724--682846 Score: 167
Period size: 42 Copynumber: 2.9 Consensus size: 42
682714 ACAGTGAGTT
* *
682724 ACACGGCTTAGACACACGTCCATGTCCTTGCCCGTGTGGCTC
1 ACACGGCCTGGACACACGTCCATGTCCTTGCCCGTGTGGCTC
* *
682766 ACACGGCCTGGACACACG-CCAATATCCTTACCCGTGTGGCTC
1 ACACGGCCTGGACACACGTCC-ATGTCCTTGCCCGTGTGGCTC
* * *
682808 ACACGGCCTGGGCACACGTCCATGTCTTTGGCCGTGTGG
1 ACACGGCCTGGACACACGTCCATGTCCTTGCCCGTGTGG
682847 TTCTAAAGTG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.03
42 66 0.94
43 2 0.03
ACGTcount: A:0.17, C:0.35, G:0.26, T:0.22
Consensus pattern (42 bp):
ACACGGCCTGGACACACGTCCATGTCCTTGCCCGTGTGGCTC
Found at i:682936 original size:38 final size:38
Alignment explanation
Indices: 682888--682962 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
682878 TGGACACACA
* *
682888 CCCATTTCCTTGCCTGTGTGGCAT-ACACTGCCTGGGTG
1 CCCATTTCCTTGCCCGTGTGGC-TCACACGGCCTGGGTG
682926 CCCATTTCCTTGCCCGTGTGGCTCACACGGCCTGGGT
1 CCCATTTCCTTGCCCGTGTGGCTCACACGGCCTGGGT
682963 ACACGCCCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 1 0.03
38 33 0.97
ACGTcount: A:0.09, C:0.35, G:0.27, T:0.29
Consensus pattern (38 bp):
CCCATTTCCTTGCCCGTGTGGCTCACACGGCCTGGGTG
Found at i:682999 original size:142 final size:143
Alignment explanation
Indices: 682621--683062 Score: 534
Period size: 142 Copynumber: 3.1 Consensus size: 143
682611 ATTCATATGC
* * * * *
682621 CACACGGCCTGGACATGCCCATGTCCTTGCCTGTATGGCTCACACGGCCT-GATACACGCACATG
1 CACACGGCCTGGA-ATGCCCATATCCTTGCCCGTGTGGCTCACACGGCCTGGGTACACGCCCATG
* *
682685 TTGTCTGCTCGTGTGGTTCTAAA-TCGTAAACAGTGAGTTACACGGCTTAGACACACGTCCATGT
65 -TCTCTGATCGTGTGGTTCTAAAGT-GTAAACAGTGAGTTACACGGCTTAGACACACGTCCATGT
682749 CCTTGCCCGTGTGGCT
128 CCTTGCCCGTGTGGCT
* * * * *
682765 CACACGGCCTGGACACACGCCAATATCCTTACCCGTGTGGCTCACACGGCCTGGGCACACGTCCA
1 CACACGGCCTGG--A-ATGCCCATATCCTTGCCCGTGTGGCTCACACGGCCTGGGTACACGCCCA
* ** * * * ** *
682830 TGTCTTTGGCCGTGTGGTTCTAAAGTGTAAACAATGAGTTACACGGCCTGGACACACACCCATTT
63 TGTCTCTGATCGTGTGGTTCTAAAGTGTAAACAGTGAGTTACACGGCTTAGACACACGTCCATGT
*
682895 CCTTGCCTGTGTGGCAT
128 CCTTGCCCGTGTGGC-T
* * *
682912 -ACACTGCCTGG-GTGCCCATTTCCTTGCCCGTGTGGCTCACACGGCCTGGGTACACGCCCATGT
1 CACACGGCCTGGAATGCCCATATCCTTGCCCGTGTGGCTCACACGGCCTGGGTACACGCCCATGT
*
682975 CCCTGATCGTGTGGTTCTAAAGTGTAAACAGTGAGTTACACGGCTTAGACACACGTCCATGTCCT
66 CTCTGATCGTGTGGTTCTAAAGTGTAAACAGTGAGTTACACGGCTTAGACACACGTCCATGTCCT
683040 TGCCCGTGTAGG-T
131 TGCCCGTGT-GGCT
*
683053 CACACAGCCT
1 CACACGGCCT
683063 AGGCACACGC
Statistics
Matches: 250, Mismatches: 41, Indels: 16
0.81 0.13 0.05
Matches are distributed among these distances:
141 1 0.00
142 116 0.46
143 2 0.01
144 12 0.05
146 107 0.43
147 12 0.05
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.25
Consensus pattern (143 bp):
CACACGGCCTGGAATGCCCATATCCTTGCCCGTGTGGCTCACACGGCCTGGGTACACGCCCATGT
CTCTGATCGTGTGGTTCTAAAGTGTAAACAGTGAGTTACACGGCTTAGACACACGTCCATGTCCT
TGCCCGTGTGGCT
Found at i:694128 original size:30 final size:32
Alignment explanation
Indices: 694092--694167 Score: 113
Period size: 30 Copynumber: 2.4 Consensus size: 32
694082 ACCACCTATA
694092 ACAATTGAAAGTTCCATTTTTT-TGT-T-TTCT
1 ACAATTGAAAGTTCCATTTTTTCT-TCTCTTCT
694122 ACAATTGAAAGTTCCATTTTTTCCTTCTCTTCT
1 ACAATTGAAAGTTCCATTTTTT-CTTCTCTTCT
694155 ACAATTGAAAGTT
1 ACAATTGAAAGTT
694168 TTTTTTAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
30 22 0.52
31 1 0.02
32 2 0.05
33 17 0.40
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.47
Consensus pattern (32 bp):
ACAATTGAAAGTTCCATTTTTTCTTCTCTTCT
Found at i:700386 original size:31 final size:31
Alignment explanation
Indices: 700351--700414 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
700341 CACCCTAGTA
* *
700351 ACTTAAATAAAAACTTTCAAATAGTTCAGTG
1 ACTTAAATAAAAACTTTCAAATAATTCAATG
* *
700382 ACTTAAATGAAAACTTTCGAATAATTCAATG
1 ACTTAAATAAAAACTTTCAAATAATTCAATG
700413 AC
1 AC
700415 CATTTTGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAATTCAATG
Found at i:701250 original size:18 final size:18
Alignment explanation
Indices: 701234--701266 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
701224 TTTTTATATT
701234 TTTTA-AATT-TTAAATA
1 TTTTATAATTATTAAATA
701250 TTTTATAATTATTAAAT
1 TTTTATAATTATTAAAT
701267 TGTTTGTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTATAATTATTAAATA
Found at i:701915 original size:24 final size:24
Alignment explanation
Indices: 701883--701932 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
701873 CGAAAATACT
701883 TGATTTGGTTTATAATTTAATGTG
1 TGATTTGGTTTATAATTTAATGTG
701907 TGATTTGGTTTATAATTTAATGTG
1 TGATTTGGTTTATAATTTAATGTG
701931 TG
1 TG
701933 TATGTTTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.54
Consensus pattern (24 bp):
TGATTTGGTTTATAATTTAATGTG
Found at i:701939 original size:22 final size:24
Alignment explanation
Indices: 701883--701941 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
701873 CGAAAATACT
*
701883 TGATTTGGTTTATAATTTAATGTG
1 TGATATGGTTTATAATTTAATGTG
*
701907 TGATTTGGTTTATAATTTAATGTG
1 TGATATGGTTTATAATTTAATGTG
701931 TG-TAT-GTTTAT
1 TGATATGGTTTAT
701942 CTAAGATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
22 6 0.18
23 2 0.06
24 26 0.76
ACGTcount: A:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (24 bp):
TGATATGGTTTATAATTTAATGTG
Found at i:705669 original size:20 final size:22
Alignment explanation
Indices: 705640--705679 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
705630 ATAAAATCTA
705640 AAAACACATAAA-AAAAATTTT
1 AAAACACATAAATAAAAATTTT
705661 AAAAC-CATAAATAAAAATT
1 AAAACACATAAATAAAAATT
705680 ATAATTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAACACATAAATAAAAATTTT
Found at i:705724 original size:18 final size:18
Alignment explanation
Indices: 705690--705724 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
705680 ATAATTCCAA
705690 AAATTATAAAATATAAAT
1 AAATTATAAAATATAAAT
705708 AAATCTATAAAAT-TAAA
1 AAAT-TATAAAATATAAA
705725 ACGAACAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATTATAAAATATAAAT
Found at i:710784 original size:29 final size:30
Alignment explanation
Indices: 710736--710801 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
710726 AATATAATTG
* * * *
710736 ATCAAATTAGTCTCTCTACTA-TTAAAAGA
1 ATCAATTTAGTCCCTATACTACTAAAAAGA
710765 ATCAATTTAGTCCCTATACTACTAAAAAGA
1 ATCAATTTAGTCCCTATACTACTAAAAAGA
710795 ATCAATT
1 ATCAATT
710802 AAAACTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 18 0.56
30 14 0.44
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.33
Consensus pattern (30 bp):
ATCAATTTAGTCCCTATACTACTAAAAAGA
Found at i:711470 original size:15 final size:16
Alignment explanation
Indices: 711450--711479 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
711440 CTAACAAAAG
711450 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
711465 AACCCAATAACCCAC
1 AACCCAATAACCCAC
711480 CTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:712724 original size:14 final size:12
Alignment explanation
Indices: 712674--712719 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
712664 ATATACATAC
712674 TTATATATATTT
1 TTATATATATTT
*
712686 TATATTTTATAATTT
1 T-TA-TATAT-ATTT
712701 TTATATATATTT
1 TTATATATATTT
712713 TTATATA
1 TTATATA
712720 CATATACGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 12 0.41
13 6 0.21
14 6 0.21
15 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATATATATTT
Found at i:725577 original size:43 final size:44
Alignment explanation
Indices: 725504--725802 Score: 215
Period size: 43 Copynumber: 6.9 Consensus size: 44
725494 GAAGAATTTC
* * *
725504 AGATCTTATCTCCCTG-AGATTATAGCGGAGCAGATTACAGACAT
1 AGATCCTATCTCCCTGAAG-TTACAGCGGAGCAGATTAAAGACAT
* * * *
725548 A-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA-ATAA
1 AGATCCTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAGACAT
* * ** * *
725590 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-T--CG-CAT
1 A-GATCCTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAGACAT
* * * * * * **
725631 CAGGTCTTATTTCCCTG-AGATTACAGCAGAGTAGACTGGAGA-ATT
1 -AGATCCTATCTCCCTGAAG-TTACAGCGGAGCAGATTAAAGACA-T
* *
725676 GCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGACAT
1 --AGATCCTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAGACAT
* *
725722 A-ATCCTATCTCCCTGAGGTTACAGCGGAGTAGATTAAAGACAT
1 AGATCCTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAGACAT
* *
725765 A-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
1 AGATCCTATCTCCCTGAAGTTACAGCGGAGCAGATTAAA
725803 ATAAAGAATC
Statistics
Matches: 207, Mismatches: 34, Indels: 29
0.77 0.13 0.11
Matches are distributed among these distances:
40 2 0.01
41 27 0.13
42 5 0.02
43 104 0.50
44 33 0.16
45 1 0.00
46 33 0.16
47 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
AGATCCTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAGACAT
Found at i:725597 original size:87 final size:87
Alignment explanation
Indices: 725330--725759 Score: 233
Period size: 87 Copynumber: 4.9 Consensus size: 87
725320 AAGAATTTCA
*
725330 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA-AGATAGTAATCCTATCTCCCTGATA-T
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-ACAGACA-TAATCCTATCTCCCTGA-AGT
* **
725393 TGCAGTGGAGCGGATTAAAACGAAG
63 TACAGTGGAGCGGATTAAAATAAAG
* * * * * ** * *
725418 GATCTTATCTCTCTGA-AGTTACAGCAGAGTAGA-T-CGTGTCA-GGTCTTATTTCCCTG-AGAT
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTAC-AGACATAATCCTATCTCCCTGAAG-T
*** ** **
725478 TACAGTGGAATAGACCGAAGAATTTCA-
63 TACAGTGGAGCGGA-TTAA-AA-TAAAG
*
725505 GATCTTATCTCCCTGAGATTATAGCGGAGCAGATTACAGACATAATCCTATCTCCCTGAAGTTAC
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTACAGACATAATCCTATCTCCCTGAAGTTAC
725570 AGTGGAGCGGATTAAAATAAAG
66 AGTGGAGCGGATTAAAATAAAG
* ** * * * *
725592 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-T-C-G-CATCAGGTCTTATTTCCCTG-AGA
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTACAGACAT-A-ATCCTATCTCCCTGAAG-
** ** * * **
725651 TTACAGCAGAGTAGACTGGAGAATTGCA-
62 TTACAGTGGAGCGGA-T-TA-AAATAAAG
* * *
725679 GATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTAAAGACATAATCCTATCTCCCTGAGGTTAC
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTACAGACATAATCCTATCTCCCTGAAGTTAC
* **
725744 AGCGGAGTAGATTAAA
66 AGTGGAGCGGATTAAA
725760 GACATAATCC
Statistics
Matches: 251, Mismatches: 64, Indels: 56
0.68 0.17 0.15
Matches are distributed among these distances:
83 4 0.02
84 4 0.02
85 45 0.18
86 9 0.04
87 90 0.36
88 42 0.17
89 49 0.20
90 5 0.02
91 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (87 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTACAGACATAATCCTATCTCCCTGAAGTTAC
AGTGGAGCGGATTAAAATAAAG
Found at i:725623 original size:174 final size:173
Alignment explanation
Indices: 725282--725789 Score: 707
Period size: 174 Copynumber: 2.9 Consensus size: 173
725272 GTTCATTATA
* * * *
725282 CAGGTCTTATTTCCTTGAGACTACATTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* *
725347 ATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGATA-TTGCAGTGGAGCGGATTAA
66 ATTACAGCGGAGCAGATT-AAGACA-TAATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAA
* * **
725411 AACGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGT
128 AACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
725457 CAGGTCTTATTTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
*
725522 ATTATAGCGGAGCAGATTACAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
66 ATTACAGCGGAGCAGATTA-AGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
*
725587 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
130 CAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
** * * * *
725631 CAGGTCTTATTTCCCTGAGATTACAGCAGAGTAGACTGGAGAATTGCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* * * **
725696 GTTACAGCGGAGCAGATTAAAGACATAATCCTATCTCCCTGAGGTTACAGCGGAGTAGATTAAAG
66 ATTACAGCGGAGCAGATT-AAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA-
* * *
725761 ACATA--ATCCTATCTCCCTGAAGTTACAGT
129 ACAAAGGATCTTATCTCTCTGAAGTTACAGT
725790 GGAGCGGATT
Statistics
Matches: 301, Mismatches: 28, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
173 23 0.08
174 192 0.64
175 86 0.29
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (173 bp):
CAGGTCTTATTTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTAAGACATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAC
AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:725655 original size:85 final size:85
Alignment explanation
Indices: 725383--725656 Score: 243
Period size: 87 Copynumber: 3.2 Consensus size: 85
725373 TAATCCTATC
* * **
725383 TCCCTGATATTGCAGTGGAGCGGATTAAAACGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGT
1 TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGT
**
725448 AGATCGTGTCAGGTCTTATT
66 AGATCGCATCAGGTCTTATT
*** ** ** * * *
725468 TCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCA-GATCTTATCTCCCTG-AGATTATAGCG
1 TCCCTGAGATTACAGTGGAGCGGA-TTAA-AA-TAAAGGATCTTATCTCTCTGAAG-TTACAGCA
* * * *
725531 GAGCAGATTACAGACAT-A-ATCCTATC
62 GAGTAGA-T-C-G-CATCAGGTCTTATT
*
725557 TCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
1 TCCCTGAGA-TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAG
725621 TAGATCGCATCAGGTCTTATT
65 TAGATCGCATCAGGTCTTATT
725642 TCCCTGAGATTACAG
1 TCCCTGAGATTACAG
725657 CAGAGTAGAC
Statistics
Matches: 141, Mismatches: 34, Indels: 28
0.69 0.17 0.14
Matches are distributed among these distances:
83 3 0.02
84 2 0.01
85 38 0.27
86 8 0.06
87 55 0.39
88 7 0.05
89 25 0.18
90 2 0.01
91 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (85 bp):
TCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGT
AGATCGCATCAGGTCTTATT
Found at i:725826 original size:44 final size:44
Alignment explanation
Indices: 725331--725827 Score: 213
Period size: 43 Copynumber: 11.4 Consensus size: 44
725321 AGAATTTCAG
*
725331 ATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGAT--AGTA
1 ATCTTATCTCCCTGAAG-TTACAGCGGAGCAGATT-AAAATACAG-A
* * * * * *
725375 ATCCTATCTCCCTGATA-TTGCAGTGGAGCGGATTAAAACGA-AGG
1 ATCTTATCTCCCTGA-AGTTACAGCGGAGCAGATTAAAA-TACAGA
* * * ****
725419 ATCTTATCTCTCTGAAGTTACAGCAGAGTAGA-TCGTGT-CAG-
1 ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAATACAGA
* * * ** ** *
725460 GTCTTATTTCCCTG-AGATTACAGTGGAATAGACCGAAGAATTTCAG-
1 ATCTTATCTCCCTGAAG-TTACAGCGGAGCAGA-TTAA-AA-TACAGA
* * * *
725506 ATCTTATCTCCCTG-AGATTATAGCGGAGCAGATT-ACAGACATA
1 ATCTTATCTCCCTGAAG-TTACAGCGGAGCAGATTAAAATACAGA
* * * * *
725549 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
1 ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAATACAGA
* ** * ***
725593 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGA-TCGCAT-CAG-
1 ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAATACAGA
* * * * * * *
725634 GTCTTATTTCCCTG-AGATTACAGCAGAGTAGACTGGAGAATTGCAG-
1 ATCTTATCTCCCTGAAG-TTACAGCGGAGCAGA-T-TA-AAATACAGA
* * *
725680 ATCTTATCTCCCTGAGGTTACAGCGGAGCAGATT-AAAGACATA
1 ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAATACAGA
* * * * *
725723 ATCCTATCTCCCTGAGGTTACAGCGGAGTAGATT-AAAGACATA
1 ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAATACAGA
* * * *
725766 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGA
1 ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAATACAGA
*
725810 ATCTTATCTCTCTGAAGT
1 ATCTTATCTCCCTGAAGT
725828 GGCAGTAGAG
Statistics
Matches: 339, Mismatches: 90, Indels: 48
0.71 0.19 0.10
Matches are distributed among these distances:
40 4 0.01
41 48 0.14
42 10 0.03
43 107 0.32
44 106 0.31
45 5 0.01
46 58 0.17
47 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTACAGCGGAGCAGATTAAAATACAGA
Found at i:726178 original size:15 final size:16
Alignment explanation
Indices: 726158--726187 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
726148 CTAACAAAAG
726158 AACCCAAT-ACCCACA
1 AACCCAATAACCCACA
726173 AACCCAATAACCCAC
1 AACCCAATAACCCAC
726188 CTAAACACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.47, C:0.47, G:0.00, T:0.07
Consensus pattern (16 bp):
AACCCAATAACCCACA
Found at i:727401 original size:27 final size:26
Alignment explanation
Indices: 727370--727430 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
727360 CTCATTTATA
727370 TATATATATACATACTTATATATATTT
1 TATATATATA-ATACTTATATATATTT
* **
727397 TATATTTTATAATTTTTATATATATTT
1 TATA-TATATAATACTTATATATATTT
727424 T-TATATA
1 TATATATA
727431 CATATACGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 3 0.10
26 2 0.07
27 19 0.66
28 5 0.17
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (26 bp):
TATATATATAATACTTATATATATTT
Found at i:727435 original size:14 final size:12
Alignment explanation
Indices: 727385--727430 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
727375 ATATACATAC
727385 TTATATATATTT
1 TTATATATATTT
*
727397 TATATTTTATAATTT
1 T-TA-TATAT-ATTT
727412 TTATATATATTT
1 TTATATATATTT
727424 TTATATA
1 TTATATA
727431 CATATACGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 12 0.41
13 6 0.21
14 6 0.21
15 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATATATATTT
Found at i:728887 original size:34 final size:34
Alignment explanation
Indices: 728834--728898 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
728824 GCCTATTTGC
*
728834 AGGTTTTAACTTTTTAGAAATCTTCTCATGTCGT
1 AGGTTTTAACTTTTCAGAAATCTTCTCATGTCGT
728868 AGGTTTTAA-TTTCTCAGAAATCTTCTCATGT
1 AGGTTTTAACTTT-TCAGAAATCTTCTCATGT
728899 TTTAAGTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 3 0.10
34 26 0.90
ACGTcount: A:0.25, C:0.15, G:0.14, T:0.46
Consensus pattern (34 bp):
AGGTTTTAACTTTTCAGAAATCTTCTCATGTCGT
Found at i:731330 original size:34 final size:34
Alignment explanation
Indices: 731287--731357 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
731277 AATAAAGTTT
*
731287 GTACATGGCTATAATGGCCATCCTAGAACCGATA
1 GTACATGGCTATAATGGCCATACTAGAACCGATA
731321 GTACATGGCTATAATGGCCATACTAGAACCGATA
1 GTACATGGCTATAATGGCCATACTAGAACCGATA
731355 GTA
1 GTA
731358 GGGGGGATCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (34 bp):
GTACATGGCTATAATGGCCATACTAGAACCGATA
Found at i:731432 original size:15 final size:15
Alignment explanation
Indices: 731412--731454 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
731402 AGAGAAGAGA
*
731412 TTGTATTAAGGGGGG
1 TTGTATTAAGGAGGG
*
731427 TTGTATTACGGAGGG
1 TTGTATTAAGGAGGG
*
731442 TTGTATTACGGAG
1 TTGTATTAAGGAG
731455 ATTTTCGGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.21, C:0.05, G:0.40, T:0.35
Consensus pattern (15 bp):
TTGTATTAAGGAGGG
Found at i:732081 original size:40 final size:39
Alignment explanation
Indices: 732037--732152 Score: 171
Period size: 40 Copynumber: 3.0 Consensus size: 39
732027 AAAATAAAGT
*
732037 ATGGTTTTAATTAATAATAAAAATAAAATAGTATGGGGGA
1 ATGGTTTTAATTAATAATAAAAACAAAATAGTAT-GGGGA
*
732077 ATGGTTTTAATTAATAATGAAAACAAAATAGTATGGGGA
1 ATGGTTTTAATTAATAATAAAAACAAAATAGTATGGGGA
* * *
732116 ATAGTTTTAATTAATAAT-AAAACAAAGTAGCATGGGG
1 ATGGTTTTAATTAATAATAAAAACAAAATAGTATGGGG
732153 GGAGTGGAAT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
38 17 0.24
39 22 0.31
40 32 0.45
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.31
Consensus pattern (39 bp):
ATGGTTTTAATTAATAATAAAAACAAAATAGTATGGGGA
Found at i:735244 original size:16 final size:16
Alignment explanation
Indices: 735218--735256 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
735208 AATTTGAATT
735218 TTTGG-TTGTTT-TAA
1 TTTGGATTGTTTCTAA
735232 GTTTGGATTGTTTCTAA
1 -TTTGGATTGTTTCTAA
735249 TTTGGATT
1 TTTGGATT
735257 ATTTGAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.23
16 14 0.64
17 3 0.14
ACGTcount: A:0.15, C:0.03, G:0.23, T:0.59
Consensus pattern (16 bp):
TTTGGATTGTTTCTAA
Found at i:735551 original size:17 final size:16
Alignment explanation
Indices: 735526--735569 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
735516 ATTTCAAATT
*
735526 ATTTTAAATTTTGATC
1 ATTTTAAATTTCGATC
735542 ATTTTAAAATTTCGATC
1 ATTTT-AAATTTCGATC
* *
735559 AATTCAAATTT
1 ATTTTAAATTT
735570 AAATTAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (16 bp):
ATTTTAAATTTCGATC
Found at i:736882 original size:161 final size:162
Alignment explanation
Indices: 736679--736970 Score: 401
Period size: 161 Copynumber: 1.8 Consensus size: 162
736669 ATGTTTTGAT
* * * *
736679 CTTGAAATGACATGAACCCAAAATAATCCAAACTCGAAATGACTTGAACAAGTAACCC-AAATGA
1 CTTGAAATGACATGAACCCAAAATAATCCAAACTCAAAATGACTCGAACAAGCAACCCAAAATAA
* * * * * * *
736743 CCCCTACT-ACAGTGCCAAATTGAATGACAAAACTTGAAATGACCT-GTTGAATTTCGACTGGCA
66 CCCCAAATCA-AGTGCCAAATTAAATGACAAAACTCGAAA-GACCTCATTCAACTTCGACTGGCA
736806 CCCGGATGATCACTTGAGTCCAAAATGGTCTAAA
129 CCCGGATGATCACTTGAGTCCAAAATGGTCTAAA
* * * *
736840 CTTGAAATGACATGAACCCAAAATGATTCAATCTCAAAATGACTCGAATAAGCAACCCAAAATAA
1 CTTGAAATGACATGAACCCAAAATAATCCAAACTCAAAATGACTCGAACAAGCAACCCAAAATAA
*
736905 CCCCAAATCAAGTGCTAAATTAAATGACAAAACTCGAAAGACCTCATTCAACTTCGACTGGCACC
66 CCCCAAATCAAGTGCCAAATTAAATGACAAAACTCGAAAGACCTCATTCAACTTCGACTGGCACC
736970 C
131 C
736971 AAATGAACTA
Statistics
Matches: 112, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
161 56 0.50
162 55 0.49
163 1 0.01
ACGTcount: A:0.40, C:0.24, G:0.14, T:0.21
Consensus pattern (162 bp):
CTTGAAATGACATGAACCCAAAATAATCCAAACTCAAAATGACTCGAACAAGCAACCCAAAATAA
CCCCAAATCAAGTGCCAAATTAAATGACAAAACTCGAAAGACCTCATTCAACTTCGACTGGCACC
CGGATGATCACTTGAGTCCAAAATGGTCTAAA
Found at i:749049 original size:15 final size:16
Alignment explanation
Indices: 749031--749064 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
749021 AATTTGGATT
749031 TTTCAAATTGAG-TCA
1 TTTCAAATTGAGATCA
*
749046 TTTCAAATTTAGATCA
1 TTTCAAATTGAGATCA
749062 TTT
1 TTT
749065 GTATTTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (16 bp):
TTTCAAATTGAGATCA
Found at i:753743 original size:21 final size:20
Alignment explanation
Indices: 753705--753743 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
753695 ATTGACCCTT
753705 AAATTATACCTTAATTTTTC
1 AAATTATACCTTAATTTTTC
*
753725 AAATTCAT-CCTTAAATTTT
1 AAATT-ATACCTTAATTTTT
753744 GTCTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATTATACCTTAATTTTTC
Found at i:762790 original size:18 final size:18
Alignment explanation
Indices: 762767--762802 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
762757 TACTAAACCA
*
762767 TCCACTACCTCCATCACC
1 TCCACTAACTCCATCACC
762785 TCCACTAACTCCATCACC
1 TCCACTAACTCCATCACC
762803 CTACTTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.53, G:0.00, T:0.22
Consensus pattern (18 bp):
TCCACTAACTCCATCACC
Found at i:763169 original size:57 final size:56
Alignment explanation
Indices: 763079--763211 Score: 148
Period size: 57 Copynumber: 2.3 Consensus size: 56
763069 ATTTAACCCC
*
763079 TTTTT-TAT-TTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTAT-TCTCATTA
1 TTTTTATATATTTT-TTATTTTACTATTAAATTAATTAATTTGAG--TTATGTCTCA-TA
* *
763136 TTTTTATATATTTTTTATTTT-CTATTAATTTAATTAATTTGAGTTATGTTTCATA
1 TTTTTATATATTTTTTATTTTACTATTAAATTAATTAATTTGAGTTATGTCTCATA
*
763191 TTATTATATTATTTATTTATT
1 TTTTTATA-TATTT-TTTATT
763212 ATTATATATT
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
55 13 0.19
56 9 0.13
57 31 0.46
58 10 0.15
59 4 0.06
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (56 bp):
TTTTTATATATTTTTTATTTTACTATTAAATTAATTAATTTGAGTTATGTCTCATA
Found at i:763213 original size:19 final size:18
Alignment explanation
Indices: 763189--763225 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
763179 TTATGTTTCA
763189 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
763208 TATTATTATATATTTATT
1 TATTATTATATATTTATT
763226 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:763224 original size:11 final size:12
Alignment explanation
Indices: 763189--763246 Score: 52
Period size: 11 Copynumber: 5.1 Consensus size: 12
763179 TTATGTTTCA
763189 TATTAT-TATAT
1 TATTATATATAT
*
763200 TATT-TATTTAT
1 TATTATATATAT
763211 TATTATATAT-T
1 TATTATATATAT
* *
763222 TATTATGTA-AA
1 TATTATATATAT
763233 TATATATATATAT
1 TAT-TATATATAT
763246 T
1 T
763247 TAAGCAAAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
10 1 0.03
11 24 0.67
12 9 0.25
13 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
TATTATATATAT
Found at i:763237 original size:17 final size:14
Alignment explanation
Indices: 763197--763227 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
763187 CATATTATTA
*
763197 TATTATTTATTTAT
1 TATTATATATTTAT
763211 TATTATATATTTAT
1 TATTATATATTTAT
763225 TAT
1 TAT
763228 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:763471 original size:21 final size:21
Alignment explanation
Indices: 763422--763472 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
763412 TATTATCCCT
** *
763422 CATATTTAATGTTATTGTCAA
1 CATATTTTTTGTTATTATCAA
*
763443 CATATTTTTTGTTATTATCAT
1 CATATTTTTTGTTATTATCAA
*
763464 CATGTTTTT
1 CATATTTTT
763473 AATATTATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.10, G:0.08, T:0.57
Consensus pattern (21 bp):
CATATTTTTTGTTATTATCAA
Found at i:763923 original size:126 final size:126
Alignment explanation
Indices: 763688--763931 Score: 407
Period size: 126 Copynumber: 1.9 Consensus size: 126
763678 CATTGATCTT
* * *
763688 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAAAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAAAATCATGCCCTA
* *
763753 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
66 ACATACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
* *
763814 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAAAATCATGCCCTA
* *
763879 ATATACTGGGTTTCACTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 ACATACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
763932 AGGCTAAAAC
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCAAAAAATCATGCCCTA
ACATACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:767456 original size:21 final size:21
Alignment explanation
Indices: 767432--767476 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
767422 GAGGGATCAA
*
767432 ATGCTGGAGTCCCAGAAAAAC
1 ATGCTGGAGTCACAGAAAAAC
*
767453 ATGCTGGAGTCACAGAACAAC
1 ATGCTGGAGTCACAGAAAAAC
767474 ATG
1 ATG
767477 ATGAACCAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (21 bp):
ATGCTGGAGTCACAGAAAAAC
Found at i:770048 original size:40 final size:41
Alignment explanation
Indices: 769993--770071 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 41
769983 CTTCACTTTC
* *
769993 AAAAAAAAAAGAGAAA-AATGAAAGAGAAA-AAATGAAAAAG
1 AAAAAAAAAAGAGAAACAA-AAAAGAGAAAGAAAAGAAAAAG
* *
770033 AAAAAGAAGAGAGAAACAAAAAAGAGAAAGAAAAGAAAA
1 AAAAAAAAAAGAGAAACAAAAAAGAGAAAGAAAAGAAAA
770072 GCAAAGGAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 23 0.70
41 10 0.30
ACGTcount: A:0.77, C:0.01, G:0.19, T:0.03
Consensus pattern (41 bp):
AAAAAAAAAAGAGAAACAAAAAAGAGAAAGAAAAGAAAAAG
Found at i:770066 original size:13 final size:12
Alignment explanation
Indices: 769994--770066 Score: 65
Period size: 13 Copynumber: 5.7 Consensus size: 12
769984 TTCACTTTCA
769994 AAAAAAAAAGAG
1 AAAAAAAAAGAG
*
770006 AAAAATGAAAGAG
1 AAAAA-AAAAGAG
*
770019 AAAAAATGAAAAAG
1 AAAAAA--AAAGAG
*
770033 AAAAAGAAGAGAG
1 AAAAA-AAAAGAG
770046 AAACAAAAAAGAG
1 AAA-AAAAAAGAG
*
770059 AAAGAAAA
1 AAAAAAAA
770067 GAAAAGCAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
12 9 0.18
13 27 0.55
14 12 0.24
15 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.19, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:770071 original size:17 final size:18
Alignment explanation
Indices: 770028--770071 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
770018 GAAAAAATGA
*
770028 AAAAGAAAAAGAAGAGAG
1 AAAAGAAAAAGAAGAAAG
770046 AAACA-AAAAAG-AGAAAG
1 AAA-AGAAAAAGAAGAAAG
770063 AAAAGAAAA
1 AAAAGAAAA
770072 GCAAAGGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 1 0.04
17 12 0.52
18 9 0.39
19 1 0.04
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAGAAGAAAG
Found at i:770076 original size:24 final size:24
Alignment explanation
Indices: 770027--770076 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
770017 AGAAAAAATG
*
770027 AAAAAGAAAAAGAAGAGAGAAACA
1 AAAAAGAAAAAGAAAAGAGAAACA
*
770051 AAAAAGAGAAAGAAAAGA-AAAGCA
1 AAAAAGAAAAAGAAAAGAGAAA-CA
770075 AA
1 AA
770077 GGAGGGGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.76, C:0.04, G:0.20, T:0.00
Consensus pattern (24 bp):
AAAAAGAAAAAGAAAAGAGAAACA
Found at i:771421 original size:44 final size:44
Alignment explanation
Indices: 771334--771427 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
771324 TTTGGCAAGC
* *
771334 CTTATCCCACTGACCAGGAGTGGAACAGGTTAAATATAGCAGAT
1 CTTATCCCACTGACCAGGAGTGGAACAGATCAAATATAGCAGAT
* * * *
771378 CTTATCCCACT-AGCAGGAGTGGAATAGATCAAATTTCGACAGAT
1 CTTATCCCACTGACCAGGAGTGGAACAGATCAAATATAG-CAGAT
771422 CTTATC
1 CTTATC
771428 TTCGCTGAGC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 21 0.49
44 22 0.51
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (44 bp):
CTTATCCCACTGACCAGGAGTGGAACAGATCAAATATAGCAGAT
Found at i:771879 original size:133 final size:134
Alignment explanation
Indices: 771418--772262 Score: 1209
Period size: 133 Copynumber: 6.3 Consensus size: 134
771408 AAATTTCGAC
* * * *
771418 AGATCTTATCTTCGCTGAGCAGGAGCGAAGCAGATCAAATTTTGGCGAATTTTATCTCCACGTAC
1 AGATCTTATCTTCGCTGAGCAGGAGTGAAGCAGATCAAATTTTGGC-AATCTTATCTCCATGTAT
* * * *
771483 CGGCGATAGAGCAGATTCCAATCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAC
65 CGGCAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAC
771548 ATACT
130 ATACT
* *
771553 AGATCTTATCTTCACTGAGCAGAAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAA-TCTTATCTCCATGTAT
** * * *
771618 CGGCAATGGAGCAGATTTCTGCCACCAGCCTTATCTTTACTGAGTAGGAGTGGAACAGGCTAAAC
65 CGGCAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAC
771683 ATACT
130 ATACT
* *
771688 AGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATTTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAA-TCTTATCTCCATGTAT
*
771753 CGGCAATGGAGCAGATTTCAACCACCAGCCTTATCTTCAGTGAGCAGGAGTGGAGCAGGCT-AA-
65 CGGCAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAC
771816 ATACT
130 ATACT
* *
771821 AGATCTTATCTTCGCTGAGCATGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATTTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAA-TCTTATCTCCATGTAT
* *
771886 CGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCT-AA-
65 CGGCAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAC
771949 ATACT
130 ATACT
* * * * *
771954 AGTTCTTATCTTTGCTGAGCAGGAGCGAAGCAGATCAAGTTTTGGTGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCGCTGAGCAGGAGTGAAGCAGATCAAATTTTGG-CAATCTTATCTCCATGTAT
* *
772019 CGGCAATGGAGCAGATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT--AT
65 CGGCAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAAC
772082 ATACT
130 ATACT
* *
772087 AGATCTTATCTTCGTTGAGCAGGAGTAAAGCAGATCAAATTTTGATG-AATCTTATCTCCATGTA
1 AGATCTTATCTTCGCTGAGCAGGAGTGAAGCAGATCAAATTTTG--GCAATCTTATCTCCATGTA
* * * * *
772151 TCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCATCACTGAGCAGGAGTGGAGTAGGCTAAA
64 TCGGCAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
*
772216 CATACC
129 CATACT
** * *
772222 AGATCTTATCTTTACTGAGCAGGAGTAAAACAGATCAAATT
1 AGATCTTATCTTCGCTGAGCAGGAGTGAAGCAGATCAAATT
772263 ACAGAAGATC
Statistics
Matches: 649, Mismatches: 54, Indels: 14
0.91 0.08 0.02
Matches are distributed among these distances:
132 1 0.00
133 364 0.56
134 6 0.01
135 278 0.43
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (134 bp):
AGATCTTATCTTCGCTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAATCTTATCTCCATGTATC
GGCAATGGAGCAGATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACA
TACT
Found at i:772508 original size:29 final size:29
Alignment explanation
Indices: 772475--772538 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
772465 CCAAATTAAA
772475 CACCCCACTAAACCGA-CCACTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* *
772504 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
772533 CACCCC
1 CACCCC
772539 CACACCCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.31, C:0.52, G:0.02, T:0.16
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:772551 original size:37 final size:37
Alignment explanation
Indices: 772504--772578 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
772494 CTAACTCCAT
772504 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
772541 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
772578 C
1 C
772579 TAACTCCATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.55, G:0.00, T:0.16
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:772580 original size:18 final size:18
Alignment explanation
Indices: 772520--772592 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
772510 ACTAAACCAT
772520 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
* * *
772538 CCAC-ACC-CTACTAAACCAT
1 CCACTACCTCCA-T-CACC-C
772557 CCACTACCTCCATCACCC
1 CCACTACCTCCATCACCC
*
772575 CCACTAACTCCATCACCC
1 CCACTACCTCCATCACCC
772593 TACTTGTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
16 2 0.05
17 4 0.09
18 24 0.56
19 7 0.16
20 4 0.09
21 2 0.05
ACGTcount: A:0.27, C:0.56, G:0.00, T:0.16
Consensus pattern (18 bp):
CCACTACCTCCATCACCC
Found at i:772988 original size:53 final size:56
Alignment explanation
Indices: 772872--772996 Score: 134
Period size: 57 Copynumber: 2.2 Consensus size: 56
772862 AACCCCTTTT
* *
772872 TTAT-TTTTGTTATTTTACTGTTAAATTAATTAATTTGAGCTTTATTCTCATTATTTT
1 TTATATTTT-TTATTTTACTATTAAATTAATTAATTTGAGC-TTATTCTCATTATTTA
* *
772929 TATATATTTTTTATTTT-CTATTAATTTAATTAATTTGAG-TTATGTTTCA-TA-TTA
1 T-TATATTTTTTATTTTACTATTAAATTAATTAATTTGAGCTTAT-TCTCATTATTTA
*
772983 TTATATTATTTATT
1 TTATATTTTTTATT
772997 ATTATATATT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
53 12 0.20
54 3 0.05
55 6 0.10
56 4 0.07
57 21 0.35
58 10 0.17
59 4 0.07
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.62
Consensus pattern (56 bp):
TTATATTTTTTATTTTACTATTAAATTAATTAATTTGAGCTTATTCTCATTATTTA
Found at i:772990 original size:8 final size:8
Alignment explanation
Indices: 772977--773012 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
772967 GTTATGTTTC
772977 ATATTATT
1 ATATTATT
772985 ATATTATT
1 ATATTATT
772993 -TATTATT
1 ATATTATT
773000 ATA-TATT
1 ATATTATT
773007 -TATTAT
1 ATATTAT
773013 GTAAATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
6 2 0.08
7 14 0.54
8 10 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
ATATTATT
Found at i:773022 original size:17 final size:14
Alignment explanation
Indices: 772978--773012 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
772968 TTATGTTTCA
772978 TATTATTATATTATT
1 TATTATTATA-TATT
772993 TATTATTATATATT
1 TATTATTATATATT
773007 TATTAT
1 TATTAT
773013 GTAAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TATTATTATATATT
Found at i:777086 original size:14 final size:13
Alignment explanation
Indices: 777056--777088 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
777046 TATCATAATA
*
777056 TTTTTCATATTCG
1 TTTTTCATACTCG
777069 TTTTTCATACTCG
1 TTTTTCATACTCG
777082 TTTTTCA
1 TTTTTCA
777089 GCTTCTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.18, G:0.06, T:0.61
Consensus pattern (13 bp):
TTTTTCATACTCG
Found at i:777160 original size:35 final size:35
Alignment explanation
Indices: 777114--777180 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
777104 TTATAATTAT
777114 CTTCTCAATAATATCATCTTCAAAATTTGAGTTAC
1 CTTCTCAATAATATCATCTTCAAAATTTGAGTTAC
777149 CTTCTCAATAATATCATCTTCAAAATTTGAGT
1 CTTCTCAATAATATCATCTTCAAAATTTGAGT
777181 GTTATATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.40
Consensus pattern (35 bp):
CTTCTCAATAATATCATCTTCAAAATTTGAGTTAC
Found at i:784695 original size:15 final size:15
Alignment explanation
Indices: 784675--784705 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
784665 TATATATGAT
784675 TTTATTATTTCATTA
1 TTTATTATTTCATTA
*
784690 TTTATTATTTTATTA
1 TTTATTATTTCATTA
784705 T
1 T
784706 AATTTGATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTATTTCATTA
Found at i:787864 original size:23 final size:23
Alignment explanation
Indices: 787834--787881 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
787824 AATGATGATG
787834 ATTACAGTTTCTTCTAAAAAATC
1 ATTACAGTTTCTTCTAAAAAATC
*
787857 ATTACAGTTTCTTCTGAAAAATC
1 ATTACAGTTTCTTCTAAAAAATC
787880 AT
1 AT
787882 GTTGAAAGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (23 bp):
ATTACAGTTTCTTCTAAAAAATC
Found at i:791052 original size:20 final size:20
Alignment explanation
Indices: 791027--791071 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
791017 ATAAATAGAT
791027 TAAATTATATCAAATTA-AAA
1 TAAATT-TATCAAATTATAAA
**
791047 TAAATTTATTTAATTATAAA
1 TAAATTTATCAAATTATAAA
791067 TAAAT
1 TAAAT
791072 CAAGATGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATTTATCAAATTATAAA
Found at i:798189 original size:21 final size:23
Alignment explanation
Indices: 798163--798213 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
798153 TTTATTTAAA
798163 AATTTTATATAAAA-AAAT-TAT
1 AATTTTATATAAAATAAATGTAT
*
798184 AATTTT-TTTAAAATAAATGTAT
1 AATTTTATATAAAATAAATGTAT
798206 AATTTTAT
1 AATTTTAT
798214 CATGTATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 6 0.23
21 10 0.38
22 9 0.35
23 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
AATTTTATATAAAATAAATGTAT
Found at i:819363 original size:40 final size:40
Alignment explanation
Indices: 819308--819388 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
819298 CTTTTGTTTT
819308 CTTTGGTTTTCTAAGTGTCTTGATTAGATAATACCTTTAA
1 CTTTGGTTTTCTAAGTGTCTTGATTAGATAATACCTTTAA
819348 CTTTGGTTTTCTAAGTGTCTTGATTAGATAATACCTTTAA
1 CTTTGGTTTTCTAAGTGTCTTGATTAGATAATACCTTTAA
819388 C
1 C
819389 ATCTTGTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.47
Consensus pattern (40 bp):
CTTTGGTTTTCTAAGTGTCTTGATTAGATAATACCTTTAA
Found at i:819970 original size:16 final size:18
Alignment explanation
Indices: 819951--819987 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
819941 GAAATTGAAA
*
819951 AGAAAAAGAA-AA-AATG
1 AGAAAAAAAATAATAATG
819967 AGAAAAAAAATAATAATG
1 AGAAAAAAAATAATAATG
819985 AGA
1 AGA
819988 CAATCAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (18 bp):
AGAAAAAAAATAATAATG
Found at i:824861 original size:11 final size:11
Alignment explanation
Indices: 824845--824870 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
824835 TATATATATG
824845 TAAAATAAAAA
1 TAAAATAAAAA
824856 TAAAATAAAAA
1 TAAAATAAAAA
824867 TAAA
1 TAAA
824871 TGTTGAAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
TAAAATAAAAA
Found at i:826386 original size:22 final size:21
Alignment explanation
Indices: 826349--826389 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
826339 AATTTTCTTC
826349 TTAATTGTTTTAAAGGTTTAA
1 TTAATTGTTTTAAAGGTTTAA
826370 TTAAGTTGTGTTT-AAGGTTT
1 TTAA-TTGT-TTTAAAGGTTT
826390 CTGGTTAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 11 0.61
23 3 0.17
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (21 bp):
TTAATTGTTTTAAAGGTTTAA
Found at i:826551 original size:12 final size:12
Alignment explanation
Indices: 826534--826559 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
826524 ATAATGCACC
826534 AATTAAATTGGT
1 AATTAAATTGGT
826546 AATTAAATTGGT
1 AATTAAATTGGT
826558 AA
1 AA
826560 GGGAATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (12 bp):
AATTAAATTGGT
Found at i:827096 original size:11 final size:12
Alignment explanation
Indices: 827080--827111 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
827070 ATATTAATTT
827080 TAATATAATGTG
1 TAATATAATGTG
827092 T-ATATAATGTG
1 TAATATAATGTG
827103 TAATATAAT
1 TAATATAAT
827112 ATCAAACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (12 bp):
TAATATAATGTG
Found at i:861559 original size:8 final size:8
Alignment explanation
Indices: 861546--861572 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
861536 AATTCACGTG
861546 TTTTAAAT
1 TTTTAAAT
861554 TTTTAAAT
1 TTTTAAAT
861562 TTTTAAAT
1 TTTTAAAT
861570 TTT
1 TTT
861573 GATTTTCTAA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTAAAT
Found at i:863932 original size:10 final size:10
Alignment explanation
Indices: 863917--863952 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
863907 TGTGAAATAT
863917 TTTTAATTTA
1 TTTTAATTTA
863927 TTTTAATTTA
1 TTTTAATTTA
863937 TTTT-ATTTA
1 TTTTAATTTA
863946 TTTTAAT
1 TTTTAAT
863953 CGTATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.36
10 16 0.64
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTAATTTA
Found at i:865198 original size:72 final size:71
Alignment explanation
Indices: 865108--865335 Score: 377
Period size: 72 Copynumber: 3.2 Consensus size: 71
865098 CCCATGATGT
* *
865108 AATCTCAACCG-TTATATTTGACCATCGATCATGTTAATTTTCAGATCATTAAAGGCAAATATCC
1 AATCTCAACCGTTTATATTTGACCATTG-TCATGTTAATTTTCAGATCATAAAAGGCAAATATCC
865172 TTGTTGC
65 TTGTTGC
*
865179 AATCTCAACCGTTTATATTTCACCATTTGTCATGTTAATTTTCAGATCATAAAAGGCAAATATCC
1 AATCTCAACCGTTTATATTTGACCA-TTGTCATGTTAATTTTCAGATCATAAAAGGCAAATATCC
*
865244 TTGATGC
65 TTGTTGC
865251 AATCTCAACCGTTTATATTTGACCATTGGTCATGTTAATTTTCAGATCATAAAAGGCAAATATCC
1 AATCTCAACCGTTTATATTTGACCATT-GTCATGTTAATTTTCAGATCATAAAAGGCAAATATCC
*
865316 TCGTTGC
65 TTGTTGC
865323 AATCTCAACCGTT
1 AATCTCAACCGTT
865336 AATTCTTGGA
Statistics
Matches: 147, Mismatches: 7, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
71 13 0.09
72 132 0.90
73 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (71 bp):
AATCTCAACCGTTTATATTTGACCATTGTCATGTTAATTTTCAGATCATAAAAGGCAAATATCCT
TGTTGC
Found at i:869034 original size:12 final size:12
Alignment explanation
Indices: 869019--869043 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
869009 GATTAAAAAA
869019 TAATAATATTAT
1 TAATAATATTAT
869031 TAATAATATTAT
1 TAATAATATTAT
869043 T
1 T
869044 GAAATTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATAATATTAT
Found at i:877642 original size:22 final size:22
Alignment explanation
Indices: 877617--877661 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
877607 TTTAATAAAG
877617 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
877639 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
877661 A
1 A
877662 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:879409 original size:22 final size:22
Alignment explanation
Indices: 879384--879434 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
879374 TTTAATAAAG
879384 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
879406 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
*
879428 ACAATAT
1 AAAATAT
879435 GAGGTAGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:883343 original size:42 final size:42
Alignment explanation
Indices: 883288--883368 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 42
883278 AAAAGACTTT
*
883288 TATCATTATGAGTTTATGACT-TTAAAATATTGTAGAATAGTA
1 TATCATTATGAGTTTATGACTACT-AAATATTGTAGAATAGTA
883330 TATCATT-TCGAGTTTATGACTACTAAATATTGTAGAATA
1 TATCATTAT-GAGTTTATGACTACTAAATATTGTAGAATA
883369 TTTAATTCTG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
41 1 0.03
42 34 0.94
43 1 0.03
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (42 bp):
TATCATTATGAGTTTATGACTACTAAATATTGTAGAATAGTA
Found at i:885582 original size:19 final size:19
Alignment explanation
Indices: 885536--885583 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
885526 GTATATATTT
885536 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
885554 TAAATCTTATTTAGGTATA
1 TAAATTTTATTTAGGTAGA
*
885573 TAAGTTTTATT
1 TAAATTTTATT
885584 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.50
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:889515 original size:19 final size:19
Alignment explanation
Indices: 889469--889516 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
889459 GTATATATTT
889469 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
889487 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
889506 TAAGTTTTATT
1 TAAATTTTATT
889517 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:889591 original size:42 final size:42
Alignment explanation
Indices: 889538--889619 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
889528 AATATTTTTA
* *
889538 TTTTATCTTTTAGTAGTTTATTAGGACAAGGGAACTATTTCC
1 TTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTATTTCC
*
889580 TTTTATATTTTAGTAGTTTATTAGAATAAGGGAACTATTT
1 TTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTATTT
889620 TCCCAATTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.48
Consensus pattern (42 bp):
TTTTATATTTTAGTAGTTTATTAGAACAAGGGAACTATTTCC
Found at i:901956 original size:18 final size:18
Alignment explanation
Indices: 901933--901971 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
901923 CTTATATTAA
*
901933 AGTTGGGGTTCTCCACTT
1 AGTTGGGGCTCTCCACTT
901951 AGTTGGGGCTCTCCACTT
1 AGTTGGGGCTCTCCACTT
901969 AGT
1 AGT
901972 GCCAAACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.13, C:0.23, G:0.28, T:0.36
Consensus pattern (18 bp):
AGTTGGGGCTCTCCACTT
Found at i:917582 original size:55 final size:55
Alignment explanation
Indices: 917496--917603 Score: 132
Period size: 55 Copynumber: 2.0 Consensus size: 55
917486 TTAATATATT
* **
917496 ATTTGGTACTTAAGTTTGGCTTTAATATTTAATTTTGA-ACTTT-AGTTTTTTTTCA
1 ATTTGGTACTTAAATTTGAATTTAATATTTAA-TTTGATA-TTTGAGTTTTTTTTCA
*
917551 ATTTGGTACTTAAATTT-AATTATAATGTTTAATTTGATATTTGAGTTTTTTTT
1 ATTTGGTACTTAAATTTGAATT-TAATATTTAATTTGATATTTGAGTTTTTTTT
917604 TTTGGTTGCA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
54 10 0.22
55 36 0.78
ACGTcount: A:0.26, C:0.05, G:0.12, T:0.57
Consensus pattern (55 bp):
ATTTGGTACTTAAATTTGAATTTAATATTTAATTTGATATTTGAGTTTTTTTTCA
Found at i:919998 original size:20 final size:18
Alignment explanation
Indices: 919975--920015 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
919965 ATAAATTATG
919975 AATAATATAATTAAAATGTA
1 AATAATAT-ATTAAAATG-A
*
919995 AATATTATATTAAAATGA
1 AATAATATATTAAAATGA
920013 AAT
1 AAT
920016 TTTGATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 9 0.45
20 7 0.35
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
AATAATATATTAAAATGA
Found at i:920180 original size:17 final size:16
Alignment explanation
Indices: 920160--920191 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
920150 TATAAAACTA
920160 AAAAATAAACAAAAAAT
1 AAAAATAAA-AAAAAAT
920177 AAAAATAAAAAAAAA
1 AAAAATAAAAAAAAA
920192 GTAGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.88, C:0.03, G:0.00, T:0.09
Consensus pattern (16 bp):
AAAAATAAAAAAAAAT
Found at i:920972 original size:26 final size:26
Alignment explanation
Indices: 920938--920993 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
920928 ATAATGTGTT
920938 CATATTCTTTTATTTAAGTTAAATGA
1 CATATTCTTTTATTTAAGTTAAATGA
920964 CATATTCTTTTATTTAAGTTAAATGA
1 CATATTCTTTTATTTAAGTTAAATGA
920990 -ATAT
1 CATAT
920994 GTTTATAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (26 bp):
CATATTCTTTTATTTAAGTTAAATGA
Found at i:921451 original size:119 final size:119
Alignment explanation
Indices: 921223--921456 Score: 310
Period size: 119 Copynumber: 2.0 Consensus size: 119
921213 ACAAGCTTTG
* * *
921223 TTCATGTTAGATTCGTTTAATAAATGAATTGTAAAATTTTGTTCAAATATGTTTATTCAACTTGA
1 TTCATGTTAGATTCGTTTAATAAATGAATTGTAAAATATTATTAAAATATGTTTATTCAACTTGA
* *
921288 TAAACAAACAAATACCTAAAGGTTGATGAACTATAAATTAAATTTTCTATTCAT
66 TAAACAAACAAACACCTAAAGGTTGATGAACAATAAATTAAATTTTCTATTCAT
* *
921342 TTCATGTTGGATTCGTTTAATAAATGAATCT-TAAAATATTATTAAAATTTGTTTATTCAACTTG
1 TTCATGTTAGATTCGTTTAATAAATGAAT-TGTAAAATATTATTAAAATATGTTTATTCAACTTG
* ** * * * *
921406 TTAAATGAACAAACATCTAAATGTTGATGAAGAATTAA-TAGAATTTTCTAT
65 ATAAACAAACAAACACCTAAAGGTTGATGAACAATAAATTA-AATTTTCTAT
921457 CCATGTACAA
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
118 2 0.02
119 96 0.97
120 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (119 bp):
TTCATGTTAGATTCGTTTAATAAATGAATTGTAAAATATTATTAAAATATGTTTATTCAACTTGA
TAAACAAACAAACACCTAAAGGTTGATGAACAATAAATTAAATTTTCTATTCAT
Found at i:925180 original size:12 final size:14
Alignment explanation
Indices: 925162--925214 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 14
925152 TTTTTAAACG
925162 ATAAAATTA-AAAT
1 ATAAAATTATAAAT
925175 -TAAAATTATAAAT
1 ATAAAATTATAAAT
925188 ATATAAATTATTAAAAT
1 ATA-AAATTA-T-AAAT
925205 GATAAAATTA
1 -ATAAAATTA
925215 CATCTTTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
12 8 0.24
13 4 0.12
14 2 0.06
15 6 0.18
16 1 0.03
17 10 0.29
18 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
ATAAAATTATAAAT
Found at i:929485 original size:14 final size:15
Alignment explanation
Indices: 929466--929496 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
929456 TAACCCATTA
929466 TTATTTATTTT-TAT
1 TTATTTATTTTATAT
929480 TTATTTATTTTATAT
1 TTATTTATTTTATAT
929495 TT
1 TT
929497 GGATTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTTATTTTATAT
Found at i:930131 original size:17 final size:19
Alignment explanation
Indices: 930092--930135 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
930082 TTCAACCTAT
* *
930092 TCAATTTTTTATTTTTGTC
1 TCAATTTTCTATTTTTGTA
930111 TCAATTTTCTA-TTTT-TA
1 TCAATTTTCTATTTTTGTA
930128 TCAATTTT
1 TCAATTTT
930136 AAGCAGCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 9 0.39
18 4 0.17
19 10 0.43
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.66
Consensus pattern (19 bp):
TCAATTTTCTATTTTTGTA
Found at i:931253 original size:14 final size:14
Alignment explanation
Indices: 931234--931267 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
931224 TAAATAATAA
*
931234 TTATATATATATAT
1 TTATATATATATAC
*
931248 TTATATATTTATAC
1 TTATATATATATAC
931262 TTATAT
1 TTATAT
931268 TAAATTACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATATATATATAC
Found at i:940117 original size:18 final size:18
Alignment explanation
Indices: 940094--940136 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
940084 GACAAAAATT
940094 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
940112 TTAATTAAAAAATTTAAA
1 TTAATTAAAAAATTTAAA
940130 TTAATTA
1 TTAATTA
940137 CATCTTGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:942518 original size:19 final size:20
Alignment explanation
Indices: 942496--942558 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 20
942486 TTTTAATATT
*
942496 TTTTATAATTTTTTACA-AA
1 TTTTATAATTTTTTAAAGAA
942515 TTTTAT--TTTTTTAAAAGAA
1 TTTTATAATTTTTT-AAAGAA
*
942534 TTTTAATGAATTTTTTAAAAAA
1 TTTT-AT-AATTTTTTAAAGAA
942556 TTT
1 TTT
942559 AACTATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 6 0.17
18 2 0.06
19 12 0.33
20 2 0.06
22 8 0.22
23 6 0.17
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTATAATTTTTTAAAGAA
Found at i:942593 original size:27 final size:26
Alignment explanation
Indices: 942554--942642 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 26
942544 TTTTTTAAAA
* *
942554 AATTTAACTATTTTAAATAAGTTTATT
1 AATTTTACAATTTT-AATAAGTTTATT
942581 AATTTTACAATTTTTTTAATAA-TTT-TT
1 AATTTTACAA---TTTTAATAAGTTTATT
*
942608 AATTTTATAATTTTAATAAGTTTATAT
1 AATTTTACAATTTTAATAAGTTTAT-T
942635 CAATTTTA
1 -AATTTTA
942643 ATATTTTTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
24 9 0.17
25 3 0.06
26 1 0.02
27 20 0.38
28 10 0.19
29 5 0.10
30 4 0.08
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.56
Consensus pattern (26 bp):
AATTTTACAATTTTAATAAGTTTATT
Found at i:942650 original size:53 final size:51
Alignment explanation
Indices: 942563--942664 Score: 129
Period size: 53 Copynumber: 1.9 Consensus size: 51
942553 AAATTTAACT
942563 ATTTTAAATAAGTTTATTAATTTTACAAT-TTTTTTAATAATTTTTAATTTTATA
1 ATTTTAAATAAGTTTATTAATTTTA-AATATTTTTTAAT-A--TTTAATTTTATA
942617 ATTTT-AATAAGTTTATATCAATTTT-AATATTTTTTAATATTTAATTTT
1 ATTTTAAATAAGTTTAT-T-AATTTTAAATATTTTTTAATATTTAATTTT
942665 TTTTATTGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
51 9 0.20
53 15 0.33
54 15 0.33
55 6 0.13
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (51 bp):
ATTTTAAATAAGTTTATTAATTTTAAATATTTTTTAATATTTAATTTTATA
Found at i:947216 original size:21 final size:20
Alignment explanation
Indices: 947191--947232 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
947181 TATTTAATTA
947191 TTAATGATTTTAAATTATAAT
1 TTAATGATTTT-AATTATAAT
* *
947212 TTAATTATTTTTATTATAAT
1 TTAATGATTTTAATTATAAT
947232 T
1 T
947233 CTAAAACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTAATGATTTTAATTATAAT
Found at i:948092 original size:4 final size:4
Alignment explanation
Indices: 948085--948117 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
948075 GAAGCAATGG
*
948085 GTAT GTAT GTAT GTAT GTAT GTAT GCAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
948118 CATATGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.24, C:0.03, G:0.27, T:0.45
Consensus pattern (4 bp):
GTAT
Found at i:948243 original size:4 final size:4
Alignment explanation
Indices: 948236--948270 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
948226 AAGCAATGGA
948236 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
948271 TAACCTCCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:951602 original size:27 final size:27
Alignment explanation
Indices: 951564--951617 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
951554 AATTATGTAA
951564 GTATATTACATCACTTTTTTTTGTTGC
1 GTATATTACATCACTTTTTTTTGTTGC
951591 GTATATTACATCACTTTTTTTTGTTGC
1 GTATATTACATCACTTTTTTTTGTTGC
951618 TTTCCAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.15, G:0.11, T:0.56
Consensus pattern (27 bp):
GTATATTACATCACTTTTTTTTGTTGC
Found at i:952271 original size:16 final size:18
Alignment explanation
Indices: 952250--952284 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
952240 TTTGCACATC
952250 TATATA-TTC-GTTCAAA
1 TATATACTTCTGTTCAAA
952266 TATATACTTCTGTTCAAA
1 TATATACTTCTGTTCAAA
952284 T
1 T
952285 TCTGCTGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 3 0.18
18 8 0.47
ACGTcount: A:0.34, C:0.14, G:0.06, T:0.46
Consensus pattern (18 bp):
TATATACTTCTGTTCAAA
Found at i:957867 original size:26 final size:26
Alignment explanation
Indices: 957838--957892 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
957828 ATAAATTGAT
* **
957838 TTTTTTAAATTTTATATATTTATATA
1 TTTTTTAAATATTATATATACATATA
*
957864 TTTTTTAGATATTATATATACATATA
1 TTTTTTAAATATTATATATACATATA
957890 TTT
1 TTT
957893 GTATTTTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTTTAAATATTATATATACATATA
Found at i:957878 original size:18 final size:19
Alignment explanation
Indices: 957847--957882 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
957837 TTTTTTTAAA
*
957847 TTTTATATATTTATATATT
1 TTTTAGATATTTATATATT
957866 TTTTAGATA-TTATATAT
1 TTTTAGATATTTATATAT
957883 ACATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTAGATATTTATATATT
Found at i:958470 original size:16 final size:16
Alignment explanation
Indices: 958449--958480 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
958439 TAATGCTTGG
958449 AAACCAATTGTAGGAT
1 AAACCAATTGTAGGAT
958465 AAACCAATTGTAGGAT
1 AAACCAATTGTAGGAT
958481 GGCACAATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (16 bp):
AAACCAATTGTAGGAT
Found at i:960322 original size:30 final size:30
Alignment explanation
Indices: 960276--960369 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
960266 TTTTATTATG
*
960276 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
960307 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
960337 CCAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
960367 CCA
1 CCA
960370 TAAATATGGA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 54 0.89
31 7 0.11
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:960331 original size:15 final size:15
Alignment explanation
Indices: 960286--960363 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
960276 CCAATATCTC
960286 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
960301 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
960316 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
960331 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
960346 GATACCCATATCTTT
1 GATACCCATATCTTT
960361 GAT
1 GAT
960364 TTTCCATAAA
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 31 0.66
16 8 0.17
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:962953 original size:30 final size:30
Alignment explanation
Indices: 962907--963000 Score: 161
Period size: 30 Copynumber: 3.1 Consensus size: 30
962897 TTTTATTATA
*
962907 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
962938 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
962968 CCAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
962998 CCA
1 CCA
963001 TAAATATGGA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
30 54 0.89
31 7 0.11
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.41
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:962962 original size:15 final size:15
Alignment explanation
Indices: 962904--962994 Score: 71
Period size: 15 Copynumber: 6.1 Consensus size: 15
962894 AGATTTTATT
* *
962904 ATACCAATATC-TCG
1 ATACCCATATCTTTG
962918 ATACCCATATCTTTG
1 ATACCCATATCTTTG
** *
962933 ACTTTCCA-ATATTTG
1 A-TACCCATATCTTTG
962948 ATACCCATATCTTTG
1 ATACCCATATCTTTG
** *
962963 ACTTTCCA-ATATTTG
1 A-TACCCATATCTTTG
962978 ATACCCATATCTTTG
1 ATACCCATATCTTTG
962993 AT
1 AT
962995 TTTCCATAAA
Statistics
Matches: 58, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
14 18 0.31
15 32 0.55
16 8 0.14
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.41
Consensus pattern (15 bp):
ATACCCATATCTTTG
Found at i:976544 original size:18 final size:18
Alignment explanation
Indices: 976523--976589 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
976513 TTCATGGCTA
* *
976523 TGGTCAAAGTTATACTGT
1 TGGTCAAAATTATAATGT
*
976541 TGGTCAAAATTATAATGC
1 TGGTCAAAATTATAATGT
*
976559 TGGTCAAAATTGTAATGT
1 TGGTCAAAATTATAATGT
*
976577 TTGTCAAAATTAT
1 TGGTCAAAATTAT
976590 TCTCTGCCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (18 bp):
TGGTCAAAATTATAATGT
Found at i:992938 original size:18 final size:19
Alignment explanation
Indices: 992911--992951 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
992901 AGATTTATAA
992911 TTTTCTTGTTT-TCTT-TG
1 TTTTCTTGTTTATCTTCTG
992928 TTTTGCTTGTTTATCTTCTG
1 TTTT-CTTGTTTATCTTCTG
992948 TTTT
1 TTTT
992952 ATATATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 7 0.33
19 4 0.19
20 6 0.29
ACGTcount: A:0.02, C:0.12, G:0.12, T:0.73
Consensus pattern (19 bp):
TTTTCTTGTTTATCTTCTG
Found at i:993585 original size:21 final size:21
Alignment explanation
Indices: 993547--993586 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
993537 AATTAATTTA
*
993547 ATTTAATTTTTTTGAATTATT
1 ATTTAATTTTTGTGAATTATT
993568 ATTTAATTTATTGT-AATTA
1 ATTTAATTT-TTGTGAATTA
993587 GATAATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
ATTTAATTTTTGTGAATTATT
Found at i:998365 original size:120 final size:120
Alignment explanation
Indices: 998169--998790 Score: 1142
Period size: 120 Copynumber: 5.2 Consensus size: 120
998159 TTTTCAAGTT
998169 ATATATTTAATAATAATTATGTTAATTTATA-TTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
998233 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
998288 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
998353 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
998407 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
998472 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
998527 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
998592 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
998647 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
998712 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATATTTTAATTAAA
998768 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
998791 TAAATATGAT
Statistics
Matches: 495, Mismatches: 4, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
119 152 0.31
120 285 0.58
121 58 0.12
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:998457 original size:239 final size:240
Alignment explanation
Indices: 998169--998790 Score: 1142
Period size: 239 Copynumber: 2.6 Consensus size: 240
998159 TTTTCAAGTT
998169 ATATATTTAATAATAATTATGTTAATTTATA-TTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
998233 TAATATAAGAATATTAATTATTAAGAATTTTTTTAAATTATATAGTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
*
998298 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
998363 ATATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAA
196 ATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
998407 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
998472 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
998537 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
*
998602 ATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
196 ATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
998647 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
* *
998712 TAATATAAGAATATT-ATCCAATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTT
66 TAATATAAGAATATTAAT--TATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
998776 AATAATAATTATGTT
129 AATAATAATTATGTT
998791 TAAATATGAT
Statistics
Matches: 373, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
238 31 0.08
239 183 0.49
240 101 0.27
241 58 0.16
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (240 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
ATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:998526 original size:18 final size:17
Alignment explanation
Indices: 998498--998532 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
998488 ATTATTAAGA
*
998498 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
998515 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
998533 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Done.