Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 170 of 196
Found at i:49627112 original size:17 final size:18
Alignment explanation
Indices: 49627087--49627123 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49627077 CAACTTTATG
*
49627087 CACACTTTA-CCATTTTT
1 CACAATTTAGCCATTTTT
49627104 CACAATTTAGCCATTTTT
1 CACAATTTAGCCATTTTT
49627122 CA
1 CA
49627124 ACATTTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.43
Consensus pattern (18 bp):
CACAATTTAGCCATTTTT
Found at i:49630747 original size:13 final size:13
Alignment explanation
Indices: 49630729--49630756 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
49630719 GATAATAAAA
49630729 CATATAGAATACC
1 CATATAGAATACC
49630742 CATATAGAATACC
1 CATATAGAATACC
49630755 CA
1 CA
49630757 GAAGAGATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.25, G:0.07, T:0.21
Consensus pattern (13 bp):
CATATAGAATACC
Found at i:49632951 original size:21 final size:22
Alignment explanation
Indices: 49632922--49632964 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
49632912 TGAGTAAATT
*
49632922 TAACTCAATTTAATACAATTCA
1 TAACTCAATTCAATACAATTCA
*
49632944 TAAC-CAATTCAATTCAATTCA
1 TAACTCAATTCAATACAATTCA
49632965 CATTATAGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (22 bp):
TAACTCAATTCAATACAATTCA
Found at i:49640780 original size:45 final size:45
Alignment explanation
Indices: 49640716--49640804 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
49640706 AACAGATACT
* * *
49640716 CGGTGGATTCAGCACATAGCAACCATCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
49640761 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
49640805 TTGGTTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:49640970 original size:50 final size:49
Alignment explanation
Indices: 49640818--49641003 Score: 166
Period size: 50 Copynumber: 3.7 Consensus size: 49
49640808 GTTCACATAA
* * * * *
49640818 TAGCCTGCACATAGTACTACACATGTGAGCATTACCATCTGATACACGTAG
1 TAGCCTGCACATAGTACTACACATGCGA-C-CTATCATCTGGTACATGTAG
* *
49640869 TAGCCTGCACATAGTACTACACACTGATCGA--AATTATCTGGT--ATGCATAG
1 TAGCCTGCACATAGTACTACACA-TG--CGACCTATCATCTGGTACATG--TAG
*
49640919 TAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACATGTAG
1 TAGCCTGCACATAGTACTACACATGCGACCTATCA-TCTGGTACATGTAG
* * *
49640969 TAGCCTGCAGATAGTATTACACATGTGACC-ATCAT
1 TAGCCTGCACATAGTACTACACATGCGACCTATCAT
49641004 TTTCACTTTT
Statistics
Matches: 113, Mismatches: 12, Indels: 23
0.76 0.08 0.16
Matches are distributed among these distances:
47 3 0.03
48 3 0.03
49 9 0.08
50 68 0.60
51 23 0.20
52 5 0.04
54 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGCCTGCACATAGTACTACACATGCGACCTATCATCTGGTACATGTAG
Found at i:49642073 original size:23 final size:23
Alignment explanation
Indices: 49642046--49642090 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
49642036 AAATTTGGGC
*
49642046 TATTACAAATTATGTCACTTTAT
1 TATTAAAAATTATGTCACTTTAT
* *
49642069 TATTAAAAATTGTGTCATTTTA
1 TATTAAAAATTATGTCACTTTA
49642091 ATCAAAAGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.49
Consensus pattern (23 bp):
TATTAAAAATTATGTCACTTTAT
Found at i:49643247 original size:26 final size:27
Alignment explanation
Indices: 49643197--49643247 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
49643187 TTCAAATAAT
* *
49643197 AGATTAATGAATAGTGTTCCAGTCACA
1 AGATTAATGAACAGTATTCCAGTCACA
*
49643224 AGATTAAT-AACAGTATTCCTGTCA
1 AGATTAATGAACAGTATTCCAGTCA
49643248 ATCACAGTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (27 bp):
AGATTAATGAACAGTATTCCAGTCACA
Found at i:49653127 original size:46 final size:46
Alignment explanation
Indices: 49653054--49653284 Score: 372
Period size: 46 Copynumber: 5.0 Consensus size: 46
49653044 ACATTGCTAT
* *
49653054 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
49653100 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
* *
49653146 AACTCAGTATGGTTTTCTTTACCGAAACACCATACCTACTTTTAAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
* *
49653192 AACTCAGTATGATTTTCTTTACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
* * * *
49653238 AACTTAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
49653284 A
1 A
49653285 CTTTGCCATG
Statistics
Matches: 173, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 173 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
Found at i:49660659 original size:71 final size:71
Alignment explanation
Indices: 49660429--49660685 Score: 284
Period size: 71 Copynumber: 3.6 Consensus size: 71
49660419 TCTCTCATTC
* * * * * ***
49660429 CTAATCCATGTACTTCACAAGGTTTGAACCTAAGATCTCTATCCTGGAAATC-AGTTTAACTCTC
1 CTAACCCATGAACTTCCCAGGGTCTGAACCTAAGATCTCTAAATTGGAAATCGA-TTTAA--CTC
*
49660493 TGTCATCCT
63 TGTCATACT
* * *
49660502 CTAACCCATGAACTTCCCAGGGTCTAAACCTAATATCTCTAAATTGGAAATGGATTTAACTCTGT
1 CTAACCCATGAACTTCCCAGGGTCTGAACCTAAGATCTCTAAATTGGAAATCGATTTAACTCTGT
49660567 CATACT
66 CATACT
* *
49660573 CTAACCCATGAACTTCCCAGGGTCTCAACCTAATATCTCTAAATTGGAAATCGATTTAACTCTGT
1 CTAACCCATGAACTTCCCAGGGTCTGAACCTAAGATCTCTAAATTGGAAATCGATTTAACTCTGT
*
49660638 CATTCT
66 CATACT
*** * * *
49660644 CTAAATTATGTACTT-CCAGGGTTTGAACCTAAGATTTCTAAA
1 CTAACCCATGAACTTCCCAGGGTCTGAACCTAAGATCTCTAAA
49660686 AGTCACATCA
Statistics
Matches: 160, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
70 23 0.14
71 90 0.56
73 46 0.29
74 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.33
Consensus pattern (71 bp):
CTAACCCATGAACTTCCCAGGGTCTGAACCTAAGATCTCTAAATTGGAAATCGATTTAACTCTGT
CATACT
Found at i:49664011 original size:25 final size:27
Alignment explanation
Indices: 49663959--49664014 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
49663949 ATTTAAATTT
* *
49663959 TTTAAAAATATTTATTTTATTTTATTA
1 TTTAAAAATATTTATATAATTTTATTA
*
49663986 TTTAATAAT-TTTATATAATTTT-TTA
1 TTTAAAAATATTTATATAATTTTATTA
49664011 TTTA
1 TTTA
49664015 TTGAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 7 0.27
26 11 0.42
27 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (27 bp):
TTTAAAAATATTTATATAATTTTATTA
Found at i:49664139 original size:18 final size:18
Alignment explanation
Indices: 49664113--49664147 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
49664103 AATATGTTCT
*
49664113 AAATTACATAATATATAA
1 AAATAACATAATATATAA
49664131 AAATAACATAATATATA
1 AAATAACATAATATATA
49664148 TAAAGTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:49668177 original size:15 final size:15
Alignment explanation
Indices: 49668157--49668187 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
49668147 TTTAGTGTAA
49668157 AAATATTTTAATCAT
1 AAATATTTTAATCAT
49668172 AAATATTTTAATCAT
1 AAATATTTTAATCAT
49668187 A
1 A
49668188 CTCTTGGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATATTTTAATCAT
Found at i:49668714 original size:16 final size:17
Alignment explanation
Indices: 49668682--49668717 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
49668672 ATTTTTTGAA
49668682 TTAGTGAATTCTGTGAT
1 TTAGTGAATTCTGTGAT
49668699 TTAGTGAATT-TGTGAT
1 TTAGTGAATTCTGTGAT
49668715 TTA
1 TTA
49668718 AAAAGAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.25, C:0.03, G:0.22, T:0.50
Consensus pattern (17 bp):
TTAGTGAATTCTGTGAT
Found at i:49669456 original size:46 final size:45
Alignment explanation
Indices: 49669389--49669517 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 45
49669379 AGGGATACAC
* *
49669389 AGGTATGATGTTTCAGTGAAGAAAGTCATACTGAGTTGTGAAAAGT
1 AGGTATGGTGTTTCAGTGAAGAAA-CCATACTGAGTTGTGAAAAGT
*
49669435 AGGTATGGTGTTTCAGTGAAGAAAACCATATTGAGTTGTGAAAAGT
1 AGGTATGGTGTTTCAGTGAAG-AAACCATACTGAGTTGTGAAAAGT
* *
49669481 AGGTATGGTATTTCAATGAAGGAAACCATACTGAGTT
1 AGGTATGGTGTTTCAGTGAA-GAAACCATACTGAGTT
49669518 ATAGCATTAT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 71 0.95
47 4 0.05
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (45 bp):
AGGTATGGTGTTTCAGTGAAGAAACCATACTGAGTTGTGAAAAGT
Found at i:49676000 original size:10 final size:10
Alignment explanation
Indices: 49675985--49676012 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
49675975 CCTTTAATCT
49675985 ATAAGAAACG
1 ATAAGAAACG
49675995 ATAAGAAACG
1 ATAAGAAACG
49676005 ATAAGAAA
1 ATAAGAAA
49676013 GCATACAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.64, C:0.07, G:0.18, T:0.11
Consensus pattern (10 bp):
ATAAGAAACG
Found at i:49676783 original size:22 final size:21
Alignment explanation
Indices: 49676758--49676803 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
49676748 AAATTGTTGC
* *
49676758 ATTTGTTTTGATATTGGTCTTG
1 ATTTGTTCTGAAATT-GTCTTG
*
49676780 ATTTGTTCTGAAATTGTTTTG
1 ATTTGTTCTGAAATTGTCTTG
49676801 ATT
1 ATT
49676804 GTCTGCTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.17, C:0.04, G:0.20, T:0.59
Consensus pattern (21 bp):
ATTTGTTCTGAAATTGTCTTG
Found at i:49676817 original size:23 final size:23
Alignment explanation
Indices: 49676789--49676872 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
49676779 GATTTGTTCT
49676789 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
* * *
49676812 GAAATTGGTATGATTGGCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
49676835 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
*
49676858 GAAATTGTGTTGATT
1 GAAATTGTTTTGATT
49676873 TGTTTATGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.20, C:0.07, G:0.29, T:0.44
Consensus pattern (23 bp):
GAAATTGTTTTGATTGTCTGCTG
Found at i:49678843 original size:34 final size:34
Alignment explanation
Indices: 49678805--49678887 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 34
49678795 TGTCATACGC
49678805 TTACA-AGATGTCTTATTTAAAAAGCTGGAGCCAA
1 TTACACAGAT-TCTTATTTAAAAAGCTGGAGCCAA
* *
49678839 TTACAGCCGATTCTTCTTTAAAAAGCTGGAGCCAA
1 TTACA-CAGATTCTTATTTAAAAAGCTGGAGCCAA
49678874 TTACAGC-GATTCTT
1 TTACA-CAGATTCTT
49678888 CTGACACAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
34 12 0.27
35 30 0.67
36 3 0.07
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (34 bp):
TTACACAGATTCTTATTTAAAAAGCTGGAGCCAA
Found at i:49678889 original size:34 final size:35
Alignment explanation
Indices: 49678815--49678889 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
49678805 TTACAAGATG
*
49678815 TCTTATTTAAAAAGCTGGAGCCAATTACAGCCGAT
1 TCTTCTTTAAAAAGCTGGAGCCAATTACAGCCGAT
49678850 TCTTCTTTAAAAAGCTGGAGCCAATTACAG-CGAT
1 TCTTCTTTAAAAAGCTGGAGCCAATTACAGCCGAT
49678884 TCTTCT
1 TCTTCT
49678890 GACACAAGGT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
34 10 0.26
35 29 0.74
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (35 bp):
TCTTCTTTAAAAAGCTGGAGCCAATTACAGCCGAT
Found at i:49681753 original size:12 final size:12
Alignment explanation
Indices: 49681701--49681755 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
49681691 TTTCTTTTGT
49681701 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
49681714 -TCATTTTC-TC
1 TTCTTTTTCAAC
*
49681724 TTCTTCTTCAAC
1 TTCTTTTTCAAC
*
49681736 TTCTTTTTCAAT
1 TTCTTTTTCAAC
49681748 TTCTTTTT
1 TTCTTTTT
49681756 TGTTTCACAT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
10 1 0.03
11 6 0.18
12 26 0.79
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:49684120 original size:22 final size:23
Alignment explanation
Indices: 49684095--49684154 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
49684085 TGGACTGAAT
49684095 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
49684117 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
49684139 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
49684155 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:49684122 original size:4 final size:4
Alignment explanation
Indices: 49684104--49684137 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
49684094 TATAAAAATT
49684104 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
49684138 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:49686022 original size:74 final size:77
Alignment explanation
Indices: 49685888--49686033 Score: 187
Period size: 73 Copynumber: 1.9 Consensus size: 77
49685878 TTATATATTG
* ** *
49685888 ATTTTAGTAAATTGATATAAGAACGTTTTATTAGTAAGAATTTTATGAAATTATATTTAA-TATT
1 ATTTTAGTAAATTCATATAAGAACAATTTATTAGTAAGAAATTTATGAAATTATATTTAATTATT
49685952 -AATTATTTTAA
66 AAATTATTTTAA
49685963 ATTTTA-TAAATTCATATAAGAA-AATTTATTA-TCAAGAAATTTATGAAATT-TAATATTAATT
1 ATTTTAGTAAATTCATATAAGAACAATTTATTAGT-AAGAAATTTATGAAATTAT-AT-TTAATT
49686024 ATTAAATTAT
63 ATTAAATTAT
49686034 ATGTAATAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
72 2 0.03
73 25 0.40
74 19 0.31
75 10 0.16
76 6 0.10
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.47
Consensus pattern (77 bp):
ATTTTAGTAAATTCATATAAGAACAATTTATTAGTAAGAAATTTATGAAATTATATTTAATTATT
AAATTATTTTAA
Found at i:49686048 original size:24 final size:25
Alignment explanation
Indices: 49686013--49686060 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
49686003 TTATGAAATT
49686013 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
49686037 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
49686061 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:49686209 original size:66 final size:63
Alignment explanation
Indices: 49686137--49686347 Score: 183
Period size: 66 Copynumber: 3.4 Consensus size: 63
49686127 AAATATATTT
49686137 AATATTAATTATTTCAAATTTTCATTTGTAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTT-TAGTATCATATATTATGATTTGAGTAAATTCATATAA
49686202 G
63 G
* * * * * **
49686203 AATATTAATTATTAAGAATTTTA--TTA-AATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTTAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
49686257 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TATTTT--AGTATCATATATTATGATTTGAGTAAATTCATATA
49686321 AG
62 AG
*
49686323 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
49686348 AAATTATATA
Statistics
Matches: 111, Mismatches: 17, Indels: 34
0.69 0.10 0.21
Matches are distributed among these distances:
53 5 0.05
54 13 0.12
55 5 0.05
56 3 0.03
57 2 0.02
58 2 0.02
59 10 0.09
60 8 0.07
61 10 0.09
62 3 0.03
63 3 0.03
64 1 0.01
65 7 0.06
66 34 0.31
67 5 0.05
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTTAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:49686256 original size:120 final size:119
Alignment explanation
Indices: 49686113--49686391 Score: 474
Period size: 120 Copynumber: 2.3 Consensus size: 119
49686103 TTATGTAATC
* *
49686113 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCATTTGT-AGTATCATA
1 ATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-ATTT-TAAGTATCATA
49686175 TATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
62 TATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
49686233 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATAT
1 ATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTA-AGTATCATATAT
49686298 TATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
65 TATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
49686353 ATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 ATATATTTTAATTATAATATATTTAATAATAATTATGTT
49686392 TAAATATGAT
Statistics
Matches: 153, Mismatches: 2, Indels: 8
0.94 0.01 0.05
Matches are distributed among these distances:
118 1 0.01
119 9 0.06
120 141 0.92
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (119 bp):
ATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTAAGTATCATATATT
ATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:49686259 original size:15 final size:15
Alignment explanation
Indices: 49686224--49686275 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
49686214 TTAAGAATTT
*
49686224 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49686238 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49686252 TATTTAATAATAAT-
1 TATTTAATTATAATA
49686266 TATGTTAATT
1 TAT-TTAATT
49686276 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49686374 original size:16 final size:16
Alignment explanation
Indices: 49686353--49686394 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
49686343 TTATTAAATT
*
49686353 ATATATTTTAATTATA
1 ATATATTTTAATAATA
49686369 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
49686384 AT-TATGTTTAA
1 ATATAT-TTTAA
49686395 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:49686379 original size:15 final size:15
Alignment explanation
Indices: 49686344--49686385 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49686334 TTAAGAATTT
*
49686344 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49686358 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49686372 TATTTAATAATAAT
1 TATTTAATTATAAT
49686386 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49686550 original size:16 final size:16
Alignment explanation
Indices: 49686529--49686568 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
49686519 ATATATTAAA
49686529 TAACAATTACAATATT
1 TAACAATTACAATATT
*
49686545 TAACAATAACAATATT
1 TAACAATTACAATATT
*
49686561 TAATAATT
1 TAACAATT
49686569 TACCAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (16 bp):
TAACAATTACAATATT
Found at i:49686628 original size:18 final size:17
Alignment explanation
Indices: 49686600--49686634 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49686590 ATTATTAAGA
*
49686600 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
49686617 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
49686635 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
Found at i:49690085 original size:21 final size:21
Alignment explanation
Indices: 49690054--49690132 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 21
49690044 AGTCAACTCA
*
49690054 TATGAGTTTCAGTTTAACCCT
1 TATGGGTTTCAGTTTAACCCT
* * * *
49690075 TCTGGGTTTCAGTTCAGCTCT
1 TATGGGTTTCAGTTTAACCCT
* * *
49690096 TGTGAGCTTCAGTTTAACCCT
1 TATGGGTTTCAGTTTAACCCT
*
49690117 AATGGGTTTCAGTTTA
1 TATGGGTTTCAGTTTA
49690133 GCTATTTTGA
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (21 bp):
TATGGGTTTCAGTTTAACCCT
Found at i:49690110 original size:42 final size:42
Alignment explanation
Indices: 49690056--49690149 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
49690046 TCAACTCATA
* ** *
49690056 TGAGTTTCAGTTTAACCCTTCTGGGTTTCAGTTCAGCTCTTG
1 TGAGCTTCAGTTTAACCCTAATGGGTTTCAGTTCAGCTATTG
* *
49690098 TGAGCTTCAGTTTAACCCTAATGGGTTTCAGTTTAGCTATTT
1 TGAGCTTCAGTTTAACCCTAATGGGTTTCAGTTCAGCTATTG
49690140 TGAGCTTCAG
1 TGAGCTTCAG
49690150 ATTATAGGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.18, C:0.19, G:0.21, T:0.41
Consensus pattern (42 bp):
TGAGCTTCAGTTTAACCCTAATGGGTTTCAGTTCAGCTATTG
Found at i:49707876 original size:42 final size:42
Alignment explanation
Indices: 49707820--49707919 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
49707810 CTATACGAAC
* *
49707820 GGCACTAAGTGTGCGAAACTAAAATGACGATGTTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAATGACAACGTTGAATAACG
* *
49707862 GGCACTAAGTGTGCGAAATTGAAATGACAACGTTGAATAACG
1 GGCACTAAGTGTGCGAAACTAAAATGACAACGTTGAATAACG
*
49707904 AGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
49707920 TACCGAGAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAACTAAAATGACAACGTTGAATAACG
Found at i:49710071 original size:33 final size:32
Alignment explanation
Indices: 49710029--49710102 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 32
49710019 AAATGAGTAC
49710029 ATTTGTATTATTTATATA-TAATTAGTAAAAAGAT
1 ATTT-TATTATTTAT-TACTAATTAGT-AAAAGAT
49710063 ATTTTATTATTTATTACTAATTAGTAAAAGAT
1 ATTTTATTATTTATTACTAATTAGTAAAAGAT
49710095 -TTTT-TTAT
1 ATTTTATTAT
49710103 GATAAATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
30 4 0.10
31 4 0.10
32 9 0.23
33 18 0.46
34 4 0.10
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (32 bp):
ATTTTATTATTTATTACTAATTAGTAAAAGAT
Found at i:49710429 original size:26 final size:25
Alignment explanation
Indices: 49710406--49710462 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
49710396 AGAAAGAAGC
* *
49710406 AGAATAGAAACGAAACAGGGAGAAAA
1 AGAA-AGAAAAGAAAAAGGGAGAAAA
49710432 AGAAAGAAAAGAAAAAGGGA-AAGAA
1 AGAAAGAAAAGAAAAAGGGAGAA-AA
49710457 AGAAAG
1 AGAAAG
49710463 GAGAAATAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 22 0.79
26 4 0.14
ACGTcount: A:0.67, C:0.04, G:0.28, T:0.02
Consensus pattern (25 bp):
AGAAAGAAAAGAAAAAGGGAGAAAA
Found at i:49711435 original size:38 final size:38
Alignment explanation
Indices: 49711335--49711465 Score: 113
Period size: 38 Copynumber: 3.4 Consensus size: 38
49711325 CCTCGAGTCT
***
49711335 ATGAGACACTGGGTGTCACTATTTTACTTCGGATAGATTTG
1 ATGAGACACTGGGTGTCAC--TTTT-CTTCGGATAGAGCCG
* * *
49711376 ATGAGATACTGGGTATCACTTTTCTTCGGCTAG-GCCG
1 ATGAGACACTGGGTGTCACTTTTCTTCGGATAGAGCCG
* * * *
49711413 ATGAGACACTGGGTGTCAACTTTGCTTCGAAT-TATCCG
1 ATGAGACACTGGGTGTC-ACTTTTCTTCGGATAGAGCCG
*
49711451 ATGAGGCACTGGGTG
1 ATGAGACACTGGGTG
49711466 CCAATCTGGT
Statistics
Matches: 74, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
37 16 0.22
38 37 0.50
39 4 0.05
41 17 0.23
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.32
Consensus pattern (38 bp):
ATGAGACACTGGGTGTCACTTTTCTTCGGATAGAGCCG
Found at i:49719068 original size:20 final size:20
Alignment explanation
Indices: 49719043--49719106 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
49719033 GCATTATTTA
49719043 TTTAGGGTTTAGGATTCAAG
1 TTTAGGGTTTAGGATTCAAG
* *
49719063 TTTAGGGTTTAGGACTCTAG
1 TTTAGGGTTTAGGATTCAAG
* *
49719083 TTTGGGGTTTAAGG-TTTAAG
1 TTTAGGGTTT-AGGATTCAAG
49719103 TTTA
1 TTTA
49719107 AGATTTGAGC
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 33 0.92
21 3 0.08
ACGTcount: A:0.22, C:0.05, G:0.30, T:0.44
Consensus pattern (20 bp):
TTTAGGGTTTAGGATTCAAG
Found at i:49725384 original size:29 final size:28
Alignment explanation
Indices: 49725326--49725384 Score: 66
Period size: 30 Copynumber: 2.0 Consensus size: 28
49725316 TCCGAGCCTT
49725326 GGGGAAAAATGTAATTATGCAAAAGTTTA
1 GGGGAAAAATGTAATTATGCAAAAG-TTA
* *
49725355 GGGGCAAAATTGTAATTGTGACAAAA-TTA
1 GGGG-AAAAATGTAATTATG-CAAAAGTTA
49725384 G
1 G
49725385 AGTCGAGGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 8 0.31
30 13 0.50
31 5 0.19
ACGTcount: A:0.42, C:0.05, G:0.25, T:0.27
Consensus pattern (28 bp):
GGGGAAAAATGTAATTATGCAAAAGTTA
Found at i:49725800 original size:50 final size:50
Alignment explanation
Indices: 49725720--49725912 Score: 278
Period size: 50 Copynumber: 3.8 Consensus size: 50
49725710 ATTTGGGTAA
49725720 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
49725770 AGAGGTCCCATGTAAGACCATGTCTAGGACATGGTGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * *
49725820 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
49725870 AGAACATCCCATGTAAGACCATGTCTGGGATATGGCTTTGGCA
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
49725913 TGTTATTATC
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 93 0.74
51 33 0.26
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:49733180 original size:3 final size:3
Alignment explanation
Indices: 49733172--49733199 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
49733162 TATCTACAAA
49733172 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
49733200 TAGTTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:49734107 original size:36 final size:36
Alignment explanation
Indices: 49734038--49734122 Score: 109
Period size: 36 Copynumber: 2.3 Consensus size: 36
49734028 CTACCTTCAT
* * *
49734038 CCGATTTGCTTCCTTGTTTCTTTGTTTTTCTTTTCTG
1 CCGATTTGC-TCCTAGTTTATTTGTTTTTCTTTTCTA
*
49734075 TCGATTTGCTCCTAGTTTATTT-TCTTTTCTTTTCTA
1 CCGATTTGCTCCTAGTTTATTTGT-TTTTCTTTTCTA
49734111 CCGATTTGCTCC
1 CCGATTTGCTCC
49734123 CCCCGTTTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 1 0.02
36 33 0.79
37 8 0.19
ACGTcount: A:0.07, C:0.24, G:0.12, T:0.58
Consensus pattern (36 bp):
CCGATTTGCTCCTAGTTTATTTGTTTTTCTTTTCTA
Found at i:49737372 original size:91 final size:91
Alignment explanation
Indices: 49737225--49737432 Score: 308
Period size: 91 Copynumber: 2.3 Consensus size: 91
49737215 TTGATTTTAG
* *
49737225 TAAATTCATATAAGAACATTTTATTATTAAGAATGTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTAT
* * *
49737290 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* * * *
49737317 TAAATTCATATAAGAAAAATTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTATA
49737382 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
49737408 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
49737433 GTTATAATTA
Statistics
Matches: 104, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
91 88 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATGTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:49737393 original size:44 final size:43
Alignment explanation
Indices: 49737263--49737407 Score: 116
Period size: 44 Copynumber: 3.2 Consensus size: 43
49737253 AAGAATGTTA
* *
49737263 TGAAATTATATATCATTATTAAATTATATTTAATATTAATTATT
1 TGAAATTATATATAATTATTAAATTATA-TTAATAATAATTATT
* * * *
49737307 TTAAATTGTATA-AATTCATATAAGA-AAAATTATTATCAATAATT-TT
1 TGAAATTATATATAATT-AT-TAA-ATTATATTA--AT-AATAATTATT
*
49737353 ATGAAATTATATATTATTATTAAATTATATGTAATAATAATTATT
1 -TGAAATTATATATAATTATTAAATTATAT-TAATAATAATTATT
*
49737398 TTAAATTATA
1 TGAAATTATA
49737408 CAAATTCATA
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
43 3 0.04
44 31 0.40
45 10 0.13
46 11 0.14
47 20 0.26
48 3 0.04
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
TGAAATTATATATAATTATTAAATTATATTAATAATAATTATT
Found at i:49737399 original size:47 final size:46
Alignment explanation
Indices: 49737260--49737400 Score: 114
Period size: 47 Copynumber: 3.1 Consensus size: 46
49737250 ATTAAGAATG
* *
49737260 TTATGAAATTATATATCATTATTAAATTATATTTAATATTAATTA-T
1 TTATGAAATTATATATAATTATTAAATTATA-TTAATAATAATTATT
* * * * *
49737306 TT-T-AAATTGTATA-AATTCATATAAGA-AAAATT-ATTATCAATAATT
1 TTATGAAATTATATATAATT-AT-TAA-ATTATATTAATAAT-AATTATT
*
49737351 TTATGAAATTATATATTATTATTAAATTATATGTAATAATAATTATT
1 TTATGAAATTATATATAATTATTAAATTATAT-TAATAATAATTATT
49737398 TTA
1 TTA
49737401 AATTATACAA
Statistics
Matches: 71, Mismatches: 13, Indels: 21
0.68 0.12 0.20
Matches are distributed among these distances:
43 6 0.08
44 17 0.24
45 10 0.14
46 10 0.14
47 21 0.30
48 7 0.10
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (46 bp):
TTATGAAATTATATATAATTATTAAATTATATTAATAATAATTATT
Found at i:49737401 original size:26 final size:28
Alignment explanation
Indices: 49737347--49737407 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
49737337 TATTATCAAT
* *
49737347 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
49737375 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
49737401 AATTATA
1 AATTATA
49737408 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:49737603 original size:16 final size:16
Alignment explanation
Indices: 49737582--49737623 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
49737572 TTATTAAATT
*
49737582 ATATATTTTAATTATA
1 ATATATTTTAATAATA
49737598 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
49737613 AT-TATGTTTAA
1 ATATAT-TTTAA
49737624 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:49737608 original size:15 final size:15
Alignment explanation
Indices: 49737573--49737614 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49737563 TTAAGAATTT
*
49737573 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49737587 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49737601 TATTTAATAATAAT
1 TATTTAATTATAAT
49737615 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49737860 original size:16 final size:16
Alignment explanation
Indices: 49737839--49737906 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
49737829 GATTTGCTAT
49737839 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
49737855 TACACCTTTAATCTAA
1 TACACCTCTAATCCAA
49737871 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
49737887 TACACCTCTAATCTAA
1 TACACCTCTAATCCAA
49737903 TACA
1 TACA
49737907 GCGAACCAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:49737880 original size:32 final size:32
Alignment explanation
Indices: 49737839--49737906 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
49737829 GATTTGCTAT
*
49737839 TACACCTCTAATCCAATACACCTTTAATCTAA
1 TACACCTCTAATCCAATACACCTCTAATCTAA
49737871 TACACCTCTAATCCAATACACCTCTAATCTAA
1 TACACCTCTAATCCAATACACCTCTAATCTAA
49737903 TACA
1 TACA
49737907 GCGAACCAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCTAA
Found at i:49739695 original size:16 final size:16
Alignment explanation
Indices: 49739671--49739708 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
49739661 ACCTGTATAT
*
49739671 AACTGATTCTGCTAAC
1 AACTAATTCTGCTAAC
49739687 AACTAATTCTGCTAAC
1 AACTAATTCTGCTAAC
*
49739703 TACTAA
1 AACTAA
49739709 CTGTCTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (16 bp):
AACTAATTCTGCTAAC
Found at i:49744241 original size:16 final size:16
Alignment explanation
Indices: 49744217--49744254 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
49744207 ACTTGTATAT
*
49744217 AACTGATTCTGCTAAC
1 AACTAATTCTGCTAAC
49744233 AACTAATTCTGCTAAC
1 AACTAATTCTGCTAAC
*
49744249 TACTAA
1 AACTAA
49744255 CTATCTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (16 bp):
AACTAATTCTGCTAAC
Found at i:49745334 original size:22 final size:22
Alignment explanation
Indices: 49745296--49745337 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
49745286 TTAAAAAATA
49745296 TATTTTAAAAATGATTTTATGT
1 TATTTTAAAAATGATTTTATGT
*
49745318 TATTTATAAATAT-ATTTTAT
1 TATTT-TAAAAATGATTTTAT
49745338 TTAAAAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
TATTTTAAAAATGATTTTATGT
Found at i:49745512 original size:26 final size:28
Alignment explanation
Indices: 49745467--49745525 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
49745457 AATTTTAAAA
49745467 ATTTAAATATAAAAGAAAAATT-TTATT
1 ATTTAAATATAAAAGAAAAATTATTATT
* *
49745494 ATTTAATTA-AAAAGTAAAATTATTATT
1 ATTTAAATATAAAAGAAAAATTATTATT
*
49745521 TTTTA
1 ATTTA
49745526 GTAATATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (28 bp):
ATTTAAATATAAAAGAAAAATTATTATT
Found at i:49746803 original size:13 final size:13
Alignment explanation
Indices: 49746785--49746815 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
49746775 ATTTAAACAT
49746785 ACACAATACCAAA
1 ACACAATACCAAA
49746798 ACACAATACCAAA
1 ACACAATACCAAA
49746811 ACACA
1 ACACA
49746816 TTCTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.61, C:0.32, G:0.00, T:0.06
Consensus pattern (13 bp):
ACACAATACCAAA
Found at i:49747403 original size:46 final size:46
Alignment explanation
Indices: 49747330--49747506 Score: 266
Period size: 46 Copynumber: 3.8 Consensus size: 46
49747320 ACAAGGCTAT
*
49747330 AACTCAGTATGATTTTCTTCA-CAGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATC-GAAATACCATACCTACTTTTCAC
* *
49747376 GACTCAGTATGGTTTTCTTTATCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATCGAAATACCATACCTACTTTTCAC
* *
49747422 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATCGAAATACCATACCTACTTTTCAC
* * *
49747468 AACTTAGTATGGTTTTCTTCATTGGAATACCATACCTAC
1 AACTCAGTATGGTTTTCTTCATCGAAATACCATACCTAC
49747507 GCTTCAAACT
Statistics
Matches: 120, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
46 119 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCATCGAAATACCATACCTACTTTTCAC
Found at i:49748287 original size:17 final size:17
Alignment explanation
Indices: 49748265--49748308 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
49748255 TCTTTTTAAA
49748265 TCACAAAATTCAATAAG
1 TCACAAAATTCAATAAG
* * *
49748282 TCACAAAATCCACTAAT
1 TCACAAAATTCAATAAG
49748299 TCA-AAAATTC
1 TCACAAAATTC
49748309 TTCTAAATCG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (17 bp):
TCACAAAATTCAATAAG
Found at i:49749693 original size:31 final size:30
Alignment explanation
Indices: 49749657--49749729 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
49749647 GTTTGAGTTA
49749657 GGACTAAAATTTCAA-AATTC-AAAATGTACAT
1 GGACT-AAATTT-AACAATTCGAAAA-GTACAT
49749688 GGACTAAATTTAACCAATTCGAAAAGTACAT
1 GGACTAAATTTAA-CAATTCGAAAAGTACAT
* *
49749719 GAATTAAATTT
1 GGACTAAATTT
49749730 GATCAAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
29 2 0.05
30 6 0.16
31 25 0.68
32 4 0.11
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (30 bp):
GGACTAAATTTAACAATTCGAAAAGTACAT
Found at i:49758669 original size:11 final size:11
Alignment explanation
Indices: 49758650--49758704 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
49758640 CTCTAATATT
49758650 CTCTCAAATTC
1 CTCTCAAATTC
*
49758661 CTCTAAAATTC
1 CTCTCAAATTC
* * *
49758672 CCCTCAATTTA
1 CTCTCAAATTC
*
49758683 CTCTCAAATTT
1 CTCTCAAATTC
49758694 CTCTCAAATTC
1 CTCTCAAATTC
49758705 TTATTTAAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:49758699 original size:22 final size:22
Alignment explanation
Indices: 49758639--49758703 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
49758629 CTAAATCCTT
* *
49758639 TCTCTAATATTCTCTCAAATTCC
1 TCTCAAAT-TTCTCTCAAATTAC
* * * *
49758662 TCTAAAATTCCCCTCAATTTAC
1 TCTCAAATTTCTCTCAAATTAC
49758684 TCTCAAATTTCTCTCAAATT
1 TCTCAAATTTCTCTCAAATT
49758704 CTTATTTAAA
Statistics
Matches: 32, Mismatches: 10, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
22 26 0.81
23 6 0.19
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (22 bp):
TCTCAAATTTCTCTCAAATTAC
Found at i:49759893 original size:7 final size:7
Alignment explanation
Indices: 49759883--49759907 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
49759873 TTGGTATTTA
49759883 GTATTAT
1 GTATTAT
49759890 GTATTAT
1 GTATTAT
49759897 GTATTAT
1 GTATTAT
49759904 GTAT
1 GTAT
49759908 ATAACTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (7 bp):
GTATTAT
Found at i:49760572 original size:18 final size:18
Alignment explanation
Indices: 49760549--49760586 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49760539 TGCCAGGTGC
* *
49760549 GTATCCTAACTCTTTTAT
1 GTATCCTAACCCTTATAT
49760567 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
49760585 GT
1 GT
49760587 TTCATTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.45
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:49760878 original size:21 final size:21
Alignment explanation
Indices: 49760854--49760895 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
49760844 CTATCGGAGG
*
49760854 AACCAGAATCCCCGCC-GAAGC
1 AACCACAA-CCCCGCCGGAAGC
49760875 AACCACAACCCCGCCGGAAGC
1 AACCACAACCCCGCCGGAAGC
49760896 TGGACAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.45, G:0.19, T:0.02
Consensus pattern (21 bp):
AACCACAACCCCGCCGGAAGC
Found at i:49761962 original size:44 final size:44
Alignment explanation
Indices: 49761894--49761978 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
49761884 CAGGCCATGC
* **
49761894 GCTACTGTAGCAAAAGCGTATCCATGTGGGAGCCTT-TTTCAGAG
1 GCTACTGTAACAAAAGCACATCCATGTGGGAG-CTTCTTTCAGAG
*
49761938 GCTACTGTAACAAAAGCACGTCCATGTGGGAGCTTCTTTCA
1 GCTACTGTAACAAAAGCACATCCATGTGGGAGCTTCTTTCA
49761979 ATACTTCTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 3 0.08
44 33 0.92
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (44 bp):
GCTACTGTAACAAAAGCACATCCATGTGGGAGCTTCTTTCAGAG
Found at i:49762154 original size:125 final size:126
Alignment explanation
Indices: 49761928--49762225 Score: 427
Period size: 125 Copynumber: 2.4 Consensus size: 126
49761918 TGTGGGAGCC
* * * *
49761928 TTTTTCAGAGGCTACTGTAACAAAAGCACGTCCATGTGGGAGCTTCTTTCAATACTTCTGCTGAC
1 TTTTTCAGGGGCTACTGTAGCAAAAGCACGTCCACGTGGGAGCTTCTTTCAATACTTCTGCAGAC
* * *
49761993 AAAGCATCCTGCTTAAAGTGTTTTTGACACTTTTTGCTCAGAAACGTCTACTCGAAATTA-
66 AAAGCATCATGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTAT
* *
49762053 TTTTTCAGGGGCTACTGTAGCAAAAGCACGTCCACGTGGGAGCTTCTTTTAGTACTTCTGCAGAC
1 TTTTTCAGGGGCTACTGTAGCAAAAGCACGTCCACGTGGGAGCTTCTTTCAATACTTCTGCAGAC
* * *
49762118 AAAGCATCATTCTTAAAGCGTTTTTTACACTGTTTGCTTAGAAACGTCTACTCGAAATTAT
66 AAAGCATCATGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTAT
* ** * * *
49762179 TTTTTTAGGACCTACTGTAGCAAAAGCGCGACCACGTGAGAGCTTCT
1 TTTTTCAGGGGCTACTGTAGCAAAAGCACGTCCACGTGGGAGCTTCT
49762226 CTAAATTAAT
Statistics
Matches: 154, Mismatches: 18, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
125 113 0.73
126 41 0.27
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (126 bp):
TTTTTCAGGGGCTACTGTAGCAAAAGCACGTCCACGTGGGAGCTTCTTTCAATACTTCTGCAGAC
AAAGCATCATGCTTAAAGCGTTTTTGACACTGTTTGCTCAGAAACGTCTACTCGAAATTAT
Found at i:49762396 original size:96 final size:95
Alignment explanation
Indices: 49762261--49762540 Score: 300
Period size: 95 Copynumber: 2.9 Consensus size: 95
49762251 AGTAACCCTA
* *
49762261 AACCCCAAACACTAATTTATTTGAGTTTTTACTTAAAAACCCTAAACACAAAACCCTTAACTAAT
1 AACCCTAAACCCTAATTTATTTGA-TTTTTACTTAAAAACCCTAAACACAAAACCCTTAACTAAT
*
49762326 TTATTAAAAATTTATAATTAATTTACTCAAGT
65 TT-TAAAAAATTTATAATTAATTTACTCAAGT
* * * * * * *
49762358 AACTCTAAACCCTAATTTATTTGATTTTTCCTTAAAAACCCTTAACTCTAAACCCTCATA-TGAT
1 AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTAAACACAAAACCCTTA-ACTAAT
*
49762422 GTTTAAAAAATTT-TAATTAAATTACTCAAGT
65 -TTTAAAAAATTTATAATTAATTTACTCAAGT
* * * ** *
49762453 AACCCTAAACCTTAATTTAATTGATTTTTTCTTAAAAAACAATAAACACGAAAA--C-TAATCCA
1 AACCCTAAACCCTAATTTATTTGATTTTTACTT-AAAAACCCTAAACAC-AAAACCCTTAA-CTA
*
49762515 ATTTTAAAAAATTTATAATTCATTTA
63 ATTTTAAAAAATTTATAATTAATTTA
49762541 ATTGACAAAC
Statistics
Matches: 151, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
93 1 0.01
94 13 0.09
95 58 0.38
96 52 0.34
97 27 0.18
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.37
Consensus pattern (95 bp):
AACCCTAAACCCTAATTTATTTGATTTTTACTTAAAAACCCTAAACACAAAACCCTTAACTAATT
TTAAAAAATTTATAATTAATTTACTCAAGT
Found at i:49762635 original size:6 final size:6
Alignment explanation
Indices: 49762616--49762647 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
49762606 AAAACACCAA
*
49762616 AACCCT AACTCT AACCCT AACCCT AACCCT AA
1 AACCCT AACCCT AACCCT AACCCT AACCCT AA
49762648 ACCAATAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.19
Consensus pattern (6 bp):
AACCCT
Found at i:49769072 original size:12 final size:13
Alignment explanation
Indices: 49769049--49769073 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49769039 AATCCTTAGG
49769049 TTTAGTTTTTTTT
1 TTTAGTTTTTTTT
49769062 TTTAGTTTTTTT
1 TTTAGTTTTTTT
49769074 GTAAATGTCT
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:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (13 bp):
TTTAGTTTTTTTT
Found at i:49769567 original size:18 final size:18
Alignment explanation
Indices: 49769544--49769580 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49769534 TCATCATTAT
49769544 TATTAGTATTAT-TATTTA
1 TATTAGT-TTATATATTTA
49769562 TATTAGTTTATATATTTA
1 TATTAGTTTATATATTTA
49769580 T
1 T
49769581 CTACATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TATTAGTTTATATATTTA
Found at i:49774021 original size:16 final size:16
Alignment explanation
Indices: 49774000--49774051 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
49773990 TTTGGTTCGC
49774000 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
49774016 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
49774032 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
49774048 TGTA
1 TGTA
49774052 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:49774098 original size:45 final size:44
Alignment explanation
Indices: 49774032--49774126 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
49774022 GGATTAGAGG
* *
49774032 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
49774077 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
49774121 TGTAAT
1 TGTAAT
49774127 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:49774305 original size:16 final size:16
Alignment explanation
Indices: 49774268--49774309 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
49774258 TTAATCATAT
*
49774268 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
49774284 TT-AAATATATTATAA
1 TTAAAATATATTATAA
49774299 TTAAAATATAT
1 TTAAAATATAT
49774310 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:49774316 original size:14 final size:15
Alignment explanation
Indices: 49774277--49774318 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49774267 TTTAAACATA
*
49774277 ATTATTATTAAATAT
1 ATTATAATTAAATAT
49774292 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
49774306 A-TATAATTTAATA
1 ATTATAATTAAATA
49774319 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:49774491 original size:47 final size:46
Alignment explanation
Indices: 49774440--49774600 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
49774430 GATTTAATAA
49774440 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
49774487 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
49774528 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
49774575 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
49774601 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:49785477 original size:24 final size:24
Alignment explanation
Indices: 49785450--49785499 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
49785440 GCCCATAATA
49785450 GGTAGCTCCAAAGAGCAATTAACG
1 GGTAGCTCCAAAGAGCAATTAACG
* *
49785474 GGTAGCTCCGAAGAGCACTTAACG
1 GGTAGCTCCAAAGAGCAATTAACG
49785498 GG
1 GG
49785500 AAACACTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.22, G:0.30, T:0.16
Consensus pattern (24 bp):
GGTAGCTCCAAAGAGCAATTAACG
Found at i:49789659 original size:124 final size:121
Alignment explanation
Indices: 49789431--49789667 Score: 375
Period size: 124 Copynumber: 1.9 Consensus size: 121
49789421 TATGTGGGCT
* *
49789431 TTGTAACTTCATGAAAAAGGCTTCAAATAAGACTTTGATGTATGCGTTGGCTCCTTGAAGTTTTT
1 TTGTAACTTCATGAAAAAGGCTTCAAATAAGACTTTGATGTATGCGTTGGCTCCTTCAAGTTTTC
*
49789496 AATTTCTACATGCCTATGGGCTTTCTTAAATAAAGTTGATAATTTTTCAATTTATA
66 AATTTCTACATGCCTATGGGCCTTCTTAAATAAAGTTGATAATTTTTCAATTTATA
* * * *
49789552 TTGTAACTTCATGACAAAGGCTTCAAATAAGACTTTGATGGTTGTGTGTTGGCTTCTTCAAGATT
1 TTGTAACTTCATGAAAAAGGCTTCAAATAAGACTTTGAT-G-TATGCGTTGGCTCCTTCAAG-TT
*
49789617 TTCAATTTCTACATGCCTATGGGCCTTCTTAAATAAAGTTGATAGTTTTTC
63 TTCAATTTCTACATGCCTATGGGCCTTCTTAAATAAAGTTGATAATTTTTC
49789668 TAGTTGGTCA
Statistics
Matches: 105, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
121 38 0.36
122 1 0.01
123 16 0.15
124 50 0.48
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (121 bp):
TTGTAACTTCATGAAAAAGGCTTCAAATAAGACTTTGATGTATGCGTTGGCTCCTTCAAGTTTTC
AATTTCTACATGCCTATGGGCCTTCTTAAATAAAGTTGATAATTTTTCAATTTATA
Found at i:49791188 original size:60 final size:60
Alignment explanation
Indices: 49791095--49791217 Score: 219
Period size: 60 Copynumber: 2.0 Consensus size: 60
49791085 GGTATATAGA
49791095 TGGGTTGCCTCCCCCACCCATGCCATCTGGAAGTTCTTAATAGGCCTATCTATAATTCAT
1 TGGGTTGCCTCCCCCACCCATGCCATCTGGAAGTTCTTAATAGGCCTATCTATAATTCAT
* * *
49791155 TGGGTTGCCTCCCCCACCCATGCCATTTGGAAGTTTTTAATAGGCTTATCTATAATTCAT
1 TGGGTTGCCTCCCCCACCCATGCCATCTGGAAGTTCTTAATAGGCCTATCTATAATTCAT
49791215 TGG
1 TGG
49791218 TCTTTTGTTA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (60 bp):
TGGGTTGCCTCCCCCACCCATGCCATCTGGAAGTTCTTAATAGGCCTATCTATAATTCAT
Found at i:49801162 original size:17 final size:18
Alignment explanation
Indices: 49801126--49801164 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
49801116 TAGCAAAAGT
**
49801126 AAGACTAAAAACTTGTAC
1 AAGACTAAAAACTTCCAC
49801144 AAGAC-AAAAACTTCCAC
1 AAGACTAAAAACTTCCAC
49801161 AAGA
1 AAGA
49801165 GAAGACTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.54, C:0.21, G:0.10, T:0.15
Consensus pattern (18 bp):
AAGACTAAAAACTTCCAC
Found at i:49803468 original size:33 final size:32
Alignment explanation
Indices: 49803396--49803471 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 32
49803386 ATGTTTAAAT
* * * *
49803396 GTAAGACCATAGCTGGGCTATGGCATTTTAAT
1 GTAAGACCATAACTGGGCTATGGCACTTGAAC
* *
49803428 GAAAAGACCATAACTGGGTTATGGCACCTTGAAC
1 G-TAAGACCATAACTGGGCTATGGCA-CTTGAAC
49803462 GTAAGACCAT
1 GTAAGACCAT
49803472 GGTTGAACCA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
32 1 0.03
33 29 0.83
34 5 0.14
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (32 bp):
GTAAGACCATAACTGGGCTATGGCACTTGAAC
Found at i:49803572 original size:33 final size:32
Alignment explanation
Indices: 49803500--49803576 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 32
49803490 TAAATACATG
* * **
49803500 TGTAAGACCATAGCTGGGCTATGGCATTCTGA
1 TGTAAGACCATAACTGGGCTATGGCATACAAA
49803532 TGATAAGACCATAACTGGG-TCATGGCACTACAAA
1 TG-TAAGACCATAACTGGGCT-ATGGCA-TACAAA
49803566 TGTAAGACCAT
1 TGTAAGACCAT
49803577 GGCAATGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
32 3 0.08
33 30 0.79
34 5 0.13
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (32 bp):
TGTAAGACCATAACTGGGCTATGGCATACAAA
Found at i:49805169 original size:27 final size:25
Alignment explanation
Indices: 49805119--49805185 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 25
49805109 AAAATCTACG
*
49805119 ATATTAATATTGAAAATATATTAAA
1 ATATTAATATTAAAAATATATTAAA
* *
49805144 ATATTAATAAATTAAAAATATGTTAAG
1 ATATTAAT--ATTAAAAATATATTAAA
*
49805171 TTATTTAATATTAAA
1 ATA-TTAATATTAAA
49805186 TTAAAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 8 0.23
26 6 0.17
27 16 0.46
28 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
ATATTAATATTAAAAATATATTAAA
Found at i:49805353 original size:26 final size:26
Alignment explanation
Indices: 49805324--49805381 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
49805314 TTGATTGCAG
* * *
49805324 TAATTGGTTTGATCAA-TTAATTCTAT
1 TAATTGATTTGACCAACTGAATT-TAT
49805350 TAATTGATTTGACCAACTGAATTTAT
1 TAATTGATTTGACCAACTGAATTTAT
49805376 TAATTG
1 TAATTG
49805382 TTTATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.47
Consensus pattern (26 bp):
TAATTGATTTGACCAACTGAATTTAT
Found at i:49807890 original size:6 final size:6
Alignment explanation
Indices: 49807879--49807908 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
49807869 AAAAATTGTG
49807879 ATAATT ATAATT ATAATT ATAATTT ATAAT
1 ATAATT ATAATT ATAATT ATAA-TT ATAAT
49807909 GATTAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:49808264 original size:8 final size:8
Alignment explanation
Indices: 49808253--49808277 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
49808243 ACAATGACGA
49808253 TATGATTT
1 TATGATTT
49808261 TATGATTT
1 TATGATTT
49808269 TATGATTT
1 TATGATTT
49808277 T
1 T
49808278 TTTTAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (8 bp):
TATGATTT
Found at i:49818681 original size:16 final size:16
Alignment explanation
Indices: 49818642--49818690 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
49818632 TATATTCGGT
* *
49818642 GATTTTGTTATTTTAC
1 GATTTTATTATTTTAA
49818658 GAATTTTATTATTTTAA
1 G-ATTTTATTATTTTAA
*
49818675 GATTTTATCATTTTAA
1 GATTTTATTATTTTAA
49818691 AATATTGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 15 0.52
17 14 0.48
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.59
Consensus pattern (16 bp):
GATTTTATTATTTTAA
Found at i:49820937 original size:12 final size:12
Alignment explanation
Indices: 49820920--49820945 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49820910 ATCACTAATT
49820920 TGACCGTAGCCA
1 TGACCGTAGCCA
49820932 TGACCGTAGCCA
1 TGACCGTAGCCA
49820944 TG
1 TG
49820946 GCCGATGGTA
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:0.23, C:0.31, G:0.27, T:0.19
Consensus pattern (12 bp):
TGACCGTAGCCA
Found at i:49827848 original size:15 final size:14
Alignment explanation
Indices: 49827828--49827884 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
49827818 TTATGGAAAG
49827828 TCAAATATCTGGGTA
1 TCAAATAT-TGGGTA
**
49827843 TCAAATATTGGAAA
1 TCAAATATTGGGTA
*
49827857 GTCAAAGATATGGGTA
1 -TCAAATAT-TGGGTA
49827873 TCGAAATATTGG
1 TC-AAATATTGG
49827885 CATAAGAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
14 4 0.12
15 20 0.61
16 9 0.27
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAAATATTGGGTA
Found at i:49827855 original size:30 final size:31
Alignment explanation
Indices: 49827821--49827884 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
49827811 ATCCATATTA
* *
49827821 TGGAAAGTCAAATATCTGGGTATC-AAATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
49827851 TGGAAAGTCAAAGATATGGGTATCGAAATAT
1 TGGAAAGTCAAAGATATGGGTATCGAAATAT
49827882 TGG
1 TGG
49827885 CATAAGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (31 bp):
TGGAAAGTCAAAGATATGGGTATCGAAATAT
Found at i:49831097 original size:85 final size:85
Alignment explanation
Indices: 49830954--49831209 Score: 359
Period size: 85 Copynumber: 3.0 Consensus size: 85
49830944 ACCACAGCTA
* * *
49830954 ATTTATAGTTACTGCCACTTGTTGTGGGTGCACAATATATTTGCAAATTAAACAAACTGCCACTT
1 ATTTATAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTT
*
49831019 GGTTCATGATCGAACCACAT
66 GGTTCATAATCGAACCACAT
* * **
49831039 ATTTATAGTTACTTCCACTTGCTGTGAGTATACAACATATTTGCAGATTAAACAAACTGCCACTT
1 ATTTATAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTT
*
49831104 GGTTCATTATCGAACCACACT
66 GGTTCATAATCGAACCACA-T
** ** **
49831125 ATTTGCAGTTACTGCTGCTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTAACACTT
1 ATTTATAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTT
*
49831190 GGTTCATAATCGAATCACAT
66 GGTTCATAATCGAACCACAT
49831210 TGTTTGCAGA
Statistics
Matches: 150, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
85 77 0.51
86 73 0.49
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (85 bp):
ATTTATAGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTT
GGTTCATAATCGAACCACAT
Found at i:49831173 original size:86 final size:85
Alignment explanation
Indices: 49830960--49831218 Score: 347
Period size: 86 Copynumber: 3.0 Consensus size: 85
49830950 GCTAATTTAT
* * *
49830960 AGTTACTGCCACTTGTTGTGGGTGCACAATATATTTGCAAATTAAACAAACTGCCACTTGGTTCA
1 AGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTTGGTTCA
* **
49831025 TGATCGAACCACATATTTAT
66 TAATCGAACCACATATTTGC
* * **
49831045 AGTTACTTCCACTTGCTGTGAGTATACAACATATTTGCAGATTAAACAAACTGCCACTTGGTTCA
1 AGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTTGGTTCA
*
49831110 TTATCGAACCACACTATTTGC
66 TAATCGAACCACA-TATTTGC
** **
49831131 AGTTACTGCTGCTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTAACACTTGGTTCA
1 AGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTTGGTTCA
* *
49831196 TAATCGAATCACATTGTTTGC
66 TAATCGAACCACA-TATTTGC
49831217 AG
1 AG
49831219 ATTAAACTAT
Statistics
Matches: 151, Mismatches: 22, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
85 70 0.46
86 81 0.54
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (85 bp):
AGTTACTGCCACTTGTTGTGAGTGCACAACATATTTGCAGATTAAACAAACTGCCACTTGGTTCA
TAATCGAACCACATATTTGC
Found at i:49831731 original size:28 final size:27
Alignment explanation
Indices: 49831707--49832037 Score: 204
Period size: 28 Copynumber: 11.7 Consensus size: 27
49831697 TTCAAAATTG
49831707 TAAAATTTGAAAATCAGGGGAAAAACTA
1 TAAAATTTGAAAAT-AGGGGAAAAACTA
* *
49831735 TAAAATCTTTAAAATA-GGGAAAAA-TG
1 TAAAAT-TTGAAAATAGGGGAAAAACTA
** *
49831761 TAAAATCTAAAAAATA-AGGACAAAACTA
1 TAAAAT-TTGAAAATAGGGGA-AAAACTA
* * * *
49831789 TAAAATTTAAAAAATATGGGCAAAGCTA
1 TAAAATTT-GAAAATAGGGGAAAAACTA
* * *
49831817 TAAAATCTAGAAAATAGAGG-CAAACTA
1 TAAAAT-TTGAAAATAGGGGAAAAACTA
* * * *
49831844 TAATATCTGAAAAATAGGGGACAAAATTG
1 TAAAATTTG-AAAATAGGGGA-AAAACTA
* * ** * *
49831873 TAAAATATGAAAAACAAAGGCAAAACTG
1 TAAAATTTG-AAAATAGGGGAAAAACTA
* * *
49831901 TAAGATTTGGGAAAATAGGGGACAAAATTG
1 TAAAATTT--GAAAATAGGGGA-AAAACTA
*
49831931 TAAAATTTGAAGAAATAGGGGCAAAAATTA
1 TAAAATTTG-A-AAATAGGGG-AAAAACTA
49831961 -AAAATTTGAAAAATAGGGGATAAAACTA
1 TAAAATTTG-AAAATAGGGGA-AAAACTA
*
49831989 TAAAATTTGAAAAATAGGGGCAAAACTA
1 TAAAATTTG-AAAATAGGGGAAAAACTA
*
49832017 TAAAATTTGGAAAATAAGGGA
1 TAAAATTT-GAAAATAGGGGA
49832038 CACACGGTCG
Statistics
Matches: 242, Mismatches: 43, Indels: 36
0.75 0.13 0.11
Matches are distributed among these distances:
26 19 0.08
27 33 0.14
28 93 0.38
29 67 0.28
30 29 0.12
31 1 0.00
ACGTcount: A:0.54, C:0.06, G:0.18, T:0.22
Consensus pattern (27 bp):
TAAAATTTGAAAATAGGGGAAAAACTA
Found at i:49831924 original size:58 final size:56
Alignment explanation
Indices: 49831699--49832039 Score: 275
Period size: 58 Copynumber: 6.0 Consensus size: 56
49831689 AATTTTGGTT
* *
49831699 CAAAATTGTAAAATTTG-AAAATCAGGGGAAAAACTATAAAATCTT-TAAAATA-GGGA
1 CAAAATTGTAAAATTTGAAAAAT-AGGGGCAAAACT-TAAAAT-TTGGAAAATAGGGGA
* * * * ** *
49831755 -AAAA-TGTAAAATCTAAAAAATAAGGACAAAACTATAAAATTTAAAAAATATGGG-
1 CAAAATTGTAAAATTTGAAAAATAGGGGCAAAACT-TAAAATTTGGAAAATAGGGGA
** * * * * * *
49831809 CAAAGCTATAAAATCT-AGAAAATAGAGGC-AAACTATAATATCTGAAAAATAGGGGA
1 CAAAATTGTAAAATTTGA-AAAATAGGGGCAAAACT-TAAAATTTGGAAAATAGGGGA
* * ** *
49831865 CAAAATTGTAAAATATGAAAAACAAAGGCAAAACTGTAAGATTTGGGAAAATAGGGGA
1 CAAAATTGTAAAATTTGAAAAATAGGGGCAAAACT-TAAAATTT-GGAAAATAGGGGA
* *
49831923 CAAAATTGTAAAATTTGAAGAAATAGGGGCAAAAATTAAAAATTTGAAAAATAGGGGA
1 CAAAATTGTAAAATTTGAA-AAATAGGGGCAAAACTT-AAAATTTGGAAAATAGGGGA
* * * *
49831981 TAAAACTATAAAATTTGAAAAATAGGGGCAAAACTATAAAATTTGGAAAATAAGGGA
1 CAAAATTGTAAAATTTGAAAAATAGGGGCAAAACT-TAAAATTTGGAAAATAGGGGA
49832038 CA
1 CA
49832040 CACGGTCGTG
Statistics
Matches: 233, Mismatches: 39, Indels: 25
0.78 0.13 0.08
Matches are distributed among these distances:
53 2 0.01
54 31 0.13
55 38 0.16
56 38 0.16
57 46 0.20
58 60 0.26
59 18 0.08
ACGTcount: A:0.54, C:0.07, G:0.18, T:0.22
Consensus pattern (56 bp):
CAAAATTGTAAAATTTGAAAAATAGGGGCAAAACTTAAAATTTGGAAAATAGGGGA
Found at i:49832740 original size:24 final size:24
Alignment explanation
Indices: 49832712--49832769 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
49832702 AAAACCCTTC
*
49832712 TAAAAGAAACTGAAGAGAAATTCT
1 TAAAAGAAACTCAAGAGAAATTCT
*
49832736 TAAAAAAAACTCAAGAGAAATTCT
1 TAAAAGAAACTCAAGAGAAATTCT
49832760 TAAAAAGAAA
1 T-AAAAGAAA
49832770 AACCCAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 23 0.77
25 7 0.23
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.19
Consensus pattern (24 bp):
TAAAAGAAACTCAAGAGAAATTCT
Found at i:49836610 original size:13 final size:14
Alignment explanation
Indices: 49836592--49836640 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 14
49836582 AAGTCAGATA
*
49836592 AAATAATTAAACT-
1 AAATAATTAAAATC
*
49836605 AAATAACTAAAATC
1 AAATAATTAAAATC
49836619 AAATAA-T-AAATC
1 AAATAATTAAAATC
49836631 AAAT-ATTAAA
1 AAATAATTAAA
49836641 GAAGAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 1 0.03
12 10 0.32
13 14 0.45
14 6 0.19
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATAATTAAAATC
Found at i:49838100 original size:24 final size:24
Alignment explanation
Indices: 49838060--49838106 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
49838050 AAAGGGAAAT
*
49838060 AAGAGAAAGTGATGGAAAATGTTG
1 AAGAGAAAGTGAAGGAAAATGTTG
*
49838084 AAGAGAAAG-GAAAGGAAAGTGTT
1 AAGAGAAAGTG-AAGGAAAATGTT
49838107 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (24 bp):
AAGAGAAAGTGAAGGAAAATGTTG
Found at i:49842763 original size:24 final size:25
Alignment explanation
Indices: 49842736--49842782 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
49842726 AAAGGAAAGT
49842736 TTAAAGAACATAAAA-GAAAAAAAA
1 TTAAAGAACATAAAACGAAAAAAAA
** *
49842760 TTAAATTACTTAAAACGAAAAAA
1 TTAAAGAACATAAAACGAAAAAA
49842783 TATGGGGATC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.68, C:0.06, G:0.06, T:0.19
Consensus pattern (25 bp):
TTAAAGAACATAAAACGAAAAAAAA
Found at i:49843350 original size:19 final size:18
Alignment explanation
Indices: 49843323--49843361 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
49843313 ATCTGTATAC
*
49843323 AATTTTTTAATATATTTT
1 AATTTTTTAATATAATTT
*
49843341 AATTTATTTATTATAATTT
1 AATTT-TTTAATATAATTT
49843360 AA
1 AA
49843362 AATAGACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTTTTTAATATAATTT
Found at i:49844369 original size:23 final size:22
Alignment explanation
Indices: 49844338--49844398 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 22
49844328 CCCGGCCCGG
* *
49844338 TTTTAATTAAAATTAAAATTATA
1 TTTTTATTAAAATTAAAACTA-A
49844361 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
49844383 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
49844399 TTGTTATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 16 0.46
23 19 0.54
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:49844392 original size:22 final size:23
Alignment explanation
Indices: 49844343--49844398 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 23
49844333 CCCGGTTTTA
* *
49844343 ATTAAAATTAAAATTATATTTTT
1 ATTAAAATTAAAACTATATTGTT
49844366 ATTAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
49844388 ATTAAAATTAA
1 ATTAAAATTAA
49844399 TTGTTATCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:49844393 original size:16 final size:16
Alignment explanation
Indices: 49844372--49844428 Score: 96
Period size: 16 Copynumber: 3.6 Consensus size: 16
49844362 TTTTATTAAA
*
49844372 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
49844388 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
*
49844404 ATCAAAATTAATTGTT
1 ATTAAAATTAATTGTT
49844420 ATTAAAATT
1 ATTAAAATT
49844429 GTATCAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:49844573 original size:93 final size:93
Alignment explanation
Indices: 49844474--49844643 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 93
49844464 TTTGTAAAAT
* *
49844474 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTGTTACTAAAATTATCAGATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTATTACTAAAATTATCAAATT
49844539 ATATCAAATTATTAATTATTAATTGTTA
66 ATATCAAATTATTAATTATTAATTGTTA
*
49844567 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTATTAGTAAAATTATCAAATT
1 CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTATTACTAAAATTATCAAATT
49844632 ATATCAAATTAT
66 ATATCAAATTAT
49844644 ATCAAGTTTA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (93 bp):
CTAACATTTTGTTAGTAAAATTATTAATTGTTAATTGTATTAATTATTACTAAAATTATCAAATT
ATATCAAATTATTAATTATTAATTGTTA
Found at i:49844638 original size:10 final size:10
Alignment explanation
Indices: 49844623--49844648 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
49844613 TTAGTAAAAT
49844623 TATCAAATTA
1 TATCAAATTA
49844633 TATCAAATTA
1 TATCAAATTA
49844643 TATCAA
1 TATCAA
49844649 GTTTACCTGA
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:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (10 bp):
TATCAAATTA
Found at i:49845018 original size:9 final size:9
Alignment explanation
Indices: 49845001--49845036 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
49844991 ACTGAATAAA
*
49845001 CATCATCCT
1 CATCGTCCT
49845010 CATCGTCCT
1 CATCGTCCT
*
49845019 CATCGTCGT
1 CATCGTCCT
49845028 CATCGTCCT
1 CATCGTCCT
49845037 TTTTGCAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.14, C:0.42, G:0.11, T:0.33
Consensus pattern (9 bp):
CATCGTCCT
Found at i:49847604 original size:111 final size:103
Alignment explanation
Indices: 49847475--49847730 Score: 440
Period size: 111 Copynumber: 2.4 Consensus size: 103
49847465 TTTAAATGAT
49847475 TACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTAT
1 TACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTAT
49847540 ATTAACAAAAAAAAAAACACTACTCATCCACTTAGACTTAGAAGCA
66 ATTAAC--AAAAAAAAACACTACTCATCCACTTAGA--T----GCA
49847586 TACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTAT
1 TACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTAT
49847651 ATTAACAAAAAAAAACACTACTCATCCACTTAGATGCA
66 ATTAACAAAAAAAAACACTACTCATCCACTTAGATGCA
49847689 TACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAA
1 TACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAA
49847731 TTTGTTATAA
Statistics
Matches: 145, Mismatches: 0, Indels: 8
0.95 0.00 0.05
Matches are distributed among these distances:
103 45 0.31
107 1 0.01
109 28 0.19
111 71 0.49
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (103 bp):
TACTTTTATAATATATAGAATTTTAAATTAATAACTCTTTAAACTACTAATTAACTTGCTGTTAT
ATTAACAAAAAAAAACACTACTCATCCACTTAGATGCA
Found at i:49850388 original size:42 final size:40
Alignment explanation
Indices: 49850317--49850459 Score: 137
Period size: 42 Copynumber: 3.4 Consensus size: 40
49850307 TTAGCTCACA
* * *
49850317 CGAGCTTCTATTCAACTCATATGAGTTTTCGCTTAGCTCTAT
1 CGAGCTTCTGTTCAACCCTTATG-GTTTTCG-TTAGCTCTAT
*
49850359 CGAGCTTCTGTTTAACCCTTATGGTTTTTCGTTCAGCTCT-T
1 CGAGCTTCTGTTCAACCCTTATGG-TTTTCGTT-AGCTCTAT
* * *
49850400 ACGAGCTCCCGTTCAACCCTTATGGGTTTCTGTTTAGCTCTCAT
1 -CGAGCTTCTGTTCAACCCTTATGGTTTTC-G-TTAGCTCT-AT
49850444 -GAGCTTCTGTTCAACC
1 CGAGCTTCTGTTCAACC
49850460 TTCGGGCTTC
Statistics
Matches: 84, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
41 8 0.10
42 73 0.87
43 2 0.02
44 1 0.01
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.40
Consensus pattern (40 bp):
CGAGCTTCTGTTCAACCCTTATGGTTTTCGTTAGCTCTAT
Found at i:49851364 original size:22 final size:21
Alignment explanation
Indices: 49851337--49851522 Score: 163
Period size: 22 Copynumber: 9.0 Consensus size: 21
49851327 TAGATTAGAA
*
49851337 TTTTGTATGAATATTTTAAATT
1 TTTTGTATGAATATTGT-AATT
*
49851359 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGTAATT
49851380 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
49851398 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* *
49851419 ATTTTATAATTAA-ATTTGT-ATT
1 -TTTTGT-ATGAATA-TTGTAATT
* * * * *
49851441 TATAGTTTTGGAT-TAGTAATT
1 TTTTG-TATGAATATTGTAATT
49851462 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
49851481 TTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGT-AATT
49851503 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
49851523 AATATTATAG
Statistics
Matches: 131, Mismatches: 20, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.02
19 30 0.23
20 23 0.18
21 26 0.20
22 41 0.31
23 8 0.06
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:49851408 original size:19 final size:19
Alignment explanation
Indices: 49851361--49851417 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
49851351 TTTAAATTTT
* *
49851361 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
49851381 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
49851400 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
49851418 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:49851423 original size:83 final size:86
Alignment explanation
Indices: 49851336--49851581 Score: 222
Period size: 83 Copynumber: 2.8 Consensus size: 86
49851326 TTAGATTAGA
49851336 ATTTTGTATGAATATTT-TAAATTTTTTGTATGAATATTATAATTTTTT-TATGAATATTGTAAT
1 ATTTTGTATGAATATTTATAAATTTTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAAT
* *
49851399 GTTGTATGAATATTGT-AATT
66 TTTGTATGAATATTATAAATT
* * * * * * *
49851419 ATTTTATAATTAA-ATTTGT--ATTTATAGTTTTG--GATTAGTAATTTTTTGTATGAATATTGT
1 ATTTTGT-ATGAATATTTATAAATTTTTTG-TATGAATATTA-TAATTTTTTGTATGAATATTGT
49851479 AATTTTGTATGAATATTATAAATT
63 AATTTTGTATGAATATTATAAATT
**
49851503 -TTTTGTATGAATATTGTAATAATATTATAGTTTTGTATGAATATTGCAATTTTTTTTGTATGAA
1 ATTTTGTATGAATATT-T-ATAA-A-T-T--TTTTGTATGAATATTATAA--TTTTTTGTATGAA
49851567 TATTGTAATTTTGTA
57 TATTGTAATTTTGTA
49851582 ATTTTGTATA
Statistics
Matches: 126, Mismatches: 17, Indels: 29
0.73 0.10 0.17
Matches are distributed among these distances:
81 4 0.03
82 19 0.15
83 50 0.40
84 10 0.08
85 1 0.01
88 1 0.01
89 1 0.01
90 1 0.01
91 3 0.02
92 5 0.04
93 3 0.02
94 28 0.22
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (86 bp):
ATTTTGTATGAATATTTATAAATTTTTTGTATGAATATTATAATTTTTTGTATGAATATTGTAAT
TTTGTATGAATATTATAAATT
Found at i:49851486 original size:19 final size:19
Alignment explanation
Indices: 49851462--49851581 Score: 92
Period size: 19 Copynumber: 6.4 Consensus size: 19
49851452 ATTAGTAATT
49851462 TTTTGTATGAATATTGTAA
1 TTTTGTATGAATATTGTAA
*
49851481 TTTTGTATGAATATTATAAA
1 TTTTGTATGAATATTGT-AA
49851501 TTTT-T-TG--TA-TG-AA
1 TTTTGTATGAATATTGTAA
* * *
49851514 TATTGTAAT-AATATTATAG
1 TTTTGT-ATGAATATTGTAA
*
49851533 TTTTGTATGAATATTGCAA
1 TTTTGTATGAATATTGTAA
49851552 TTTTTTTTGTATGAATATTGTAA
1 ----TTTTGTATGAATATTGTAA
49851575 TTTTGTA
1 TTTTGTA
49851582 ATTTTGTATA
Statistics
Matches: 78, Mismatches: 10, Indels: 26
0.68 0.09 0.23
Matches are distributed among these distances:
13 5 0.06
14 1 0.01
15 1 0.01
16 3 0.04
17 2 0.03
18 5 0.06
19 37 0.47
20 6 0.08
23 18 0.23
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (19 bp):
TTTTGTATGAATATTGTAA
Found at i:49851503 original size:41 final size:40
Alignment explanation
Indices: 49851337--49851522 Score: 175
Period size: 41 Copynumber: 4.5 Consensus size: 40
49851327 TAGATTAGAA
*
49851337 TTTTGTATGAATATTTTAAATTTTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGT-AA--TTTTGTATGAATATTATAATT
* *
49851380 TTTT-TATGAATATTGTAATGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
* * * *
49851419 ATTTTATAATTAA-ATTTGT-ATTTATAGTTTTG--GATTAGTAATT
1 -TTTTGT-ATGAATA-TTGTAATTT-T-G-TATGAATATTA-TAATT
49851462 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTAT-AATT
49851503 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
49851523 AATATTATAG
Statistics
Matches: 118, Mismatches: 12, Indels: 28
0.75 0.08 0.18
Matches are distributed among these distances:
39 22 0.19
40 6 0.05
41 44 0.37
42 33 0.28
43 10 0.08
44 3 0.03
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.55
Consensus pattern (40 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
Found at i:49851527 original size:52 final size:53
Alignment explanation
Indices: 49851471--49851590 Score: 167
Period size: 52 Copynumber: 2.3 Consensus size: 53
49851461 TTTTTGTATG
*
49851471 AATATTGTAATTTTGTATGAATATTATAA-ATTTTTTGTATGAATATTGTAAT
1 AATATTGTAATTTTGTATGAATATTACAATATTTTTTGTATGAATATTGTAAT
* * * *
49851523 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTTGTATGAATATTGTAAT
1 AATATTGTAATTTTGTATGAATATTACAATATTTTTTGTATGAATATTGTAAT
49851576 --T-TTGTAATTTTGTAT
1 AATATTGTAATTTTGTAT
49851591 ATATTGTGTA
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
50 12 0.20
51 1 0.02
52 25 0.42
53 22 0.37
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (53 bp):
AATATTGTAATTTTGTATGAATATTACAATATTTTTTGTATGAATATTGTAAT
Found at i:49851563 original size:23 final size:23
Alignment explanation
Indices: 49851533--49851578 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
49851523 AATATTATAG
49851533 TTTTGTATGAATATTGCAATTTT
1 TTTTGTATGAATATTGCAATTTT
*
49851556 TTTTGTATGAATATTGTAATTTT
1 TTTTGTATGAATATTGCAATTTT
49851579 GTAATTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.02, G:0.13, T:0.59
Consensus pattern (23 bp):
TTTTGTATGAATATTGCAATTTT
Found at i:49854276 original size:16 final size:17
Alignment explanation
Indices: 49854255--49854288 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49854245 TAGCCTAGAA
49854255 TATTT-AGAAAAATTAT
1 TATTTAAGAAAAATTAT
*
49854271 TATTTAAGGAAAATTAT
1 TATTTAAGAAAAATTAT
49854288 T
1 T
49854289 CAATTTATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
TATTTAAGAAAAATTAT
Found at i:49854335 original size:9 final size:9
Alignment explanation
Indices: 49854321--49854349 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
49854311 AGGGACTAGA
49854321 TTGTAAAAG
1 TTGTAAAAG
49854330 TTGTAAAAG
1 TTGTAAAAG
49854339 TTGTAAAAG
1 TTGTAAAAG
49854348 TT
1 TT
49854350 TAGGATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (9 bp):
TTGTAAAAG
Found at i:49854832 original size:42 final size:42
Alignment explanation
Indices: 49854769--49854928 Score: 173
Period size: 42 Copynumber: 3.8 Consensus size: 42
49854759 TCGTGTTTAC
* * * *
49854769 TTTCCGTTTAGCTC-ACACGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTTAGCTCTA-TCGAGCTTCTGTTTAACCCTTATGGG
*
49854811 TTTCCATTTAGCTCTATCGAGCTTCTGTTTAACCCTTATGGG
1 TTTCCGTTTAGCTCTATCGAGCTTCTGTTTAACCCTTATGGG
* ** *
49854853 TTTCCGTTCAGCTCT-TACGAGCTTCCATTCAACCCTTATGGG
1 TTTCCGTTTAGCTCTAT-CGAGCTTCTGTTTAACCCTTATGGG
* *
49854895 TTTCTGTTTAGCTCTCAT-GAGCTTCTGTTCAACC
1 TTTCCGTTTAGCTCT-ATCGAGCTTCTGTTTAACC
49854929 TTCGGGCTTC
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 1 0.01
42 97 0.97
43 1 0.01
44 1 0.01
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.40
Consensus pattern (42 bp):
TTTCCGTTTAGCTCTATCGAGCTTCTGTTTAACCCTTATGGG
Found at i:49854922 original size:21 final size:21
Alignment explanation
Indices: 49854787--49854923 Score: 78
Period size: 21 Copynumber: 6.5 Consensus size: 21
49854777 TAGCTCACAC
* *
49854787 GAGCTTCTGTTTAACTCATAT
1 GAGCTTCTGTTTAGCTCTTAT
* **
49854808 GAGTTTCCATTTAGCTC-TAT
1 GAGCTTCTGTTTAGCTCTTAT
* *
49854828 CGAGCTTCTGTTTAACCCTTAT
1 -GAGCTTCTGTTTAGCTCTTAT
* * * * *
49854850 GGGTTTCCGTTCAGCTCTTAC
1 GAGCTTCTGTTTAGCTCTTAT
** * * *
49854871 GAGCTTCCATTCAACCCTTAT
1 GAGCTTCTGTTTAGCTCTTAT
* * *
49854892 GGGTTTCTGTTTAGCTCTCAT
1 GAGCTTCTGTTTAGCTCTTAT
49854913 GAGCTTCTGTT
1 GAGCTTCTGTT
49854924 CAACCTTCGG
Statistics
Matches: 82, Mismatches: 32, Indels: 4
0.69 0.27 0.03
Matches are distributed among these distances:
20 3 0.04
21 76 0.93
22 3 0.04
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.42
Consensus pattern (21 bp):
GAGCTTCTGTTTAGCTCTTAT
Found at i:49858777 original size:14 final size:13
Alignment explanation
Indices: 49858760--49858789 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
49858750 AATAAACATT
49858760 AAAAAATAATTTTA
1 AAAAAAT-ATTTTA
49858774 AAAAAATATTTTA
1 AAAAAATATTTTA
49858787 AAA
1 AAA
49858790 GTATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAAAATATTTTA
Found at i:49859909 original size:29 final size:26
Alignment explanation
Indices: 49859857--49859910 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
49859847 TTTAAAATAC
*
49859857 TTTTAAAATATTTTTATTTTTATTAT
1 TTTTAAAATATTTTTATGTTTATTAT
49859883 TTTTAAAATAATTTTTTAATGTTTATTA
1 TTTTAAAAT-A-TTTTT-ATGTTTATTA
49859911 AAAAATGGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 1 0.04
28 5 0.21
29 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTAAAATATTTTTATGTTTATTAT
Found at i:49866259 original size:92 final size:91
Alignment explanation
Indices: 49866102--49866310 Score: 269
Period size: 92 Copynumber: 2.3 Consensus size: 91
49866092 TTGATTTTAC
* * * *
49866102 TAAATTGATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
49866167 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
49866194 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
49866258 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
49866286 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
49866311 GTTATAATTA
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 70 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:49866273 original size:24 final size:25
Alignment explanation
Indices: 49866238--49866285 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
49866228 TTATGAAATT
49866238 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
49866262 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
49866286 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Done.