Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 413 of 438
Found at i:128273309 original size:15 final size:15
Alignment explanation
Indices: 128273279--128273334 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
128273269 GATGGAGCCC
128273279 CCTCCTCCACCT---
1 CCTCCTCCACCTCCG
*
128273291 CCTCCTCCGCCTCCG
1 CCTCCTCCACCTCCG
*
128273306 CCTCCCCCACCTCCG
1 CCTCCTCCACCTCCG
*
128273321 CCCCCTCCACCTCC
1 CCTCCTCCACCTCC
128273335 TCCGGCACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
12 11 0.31
15 25 0.69
ACGTcount: A:0.05, C:0.71, G:0.05, T:0.18
Consensus pattern (15 bp):
CCTCCTCCACCTCCG
Found at i:128282724 original size:25 final size:25
Alignment explanation
Indices: 128282683--128282734 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
128282673 TTTTTGAATT
*
128282683 TATTTATTTTTAAAAATTATAATTAA
1 TATTTATTTTTAAAAATAATAA-TAA
128282709 TATTTATTTTT-AAAATAATAATAA
1 TATTTATTTTTAAAAATAATAATAA
128282733 TA
1 TA
128282735 ATAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.20
25 9 0.36
26 11 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTTATTTTTAAAAATAATAATAA
Found at i:128282730 original size:3 final size:3
Alignment explanation
Indices: 128282722--128282760 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
128282712 TTATTTTTAA
128282722 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
128282761 GGGAGATGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:128284763 original size:325 final size:325
Alignment explanation
Indices: 128284167--128284819 Score: 1252
Period size: 325 Copynumber: 2.0 Consensus size: 325
128284157 TGACATTTGC
*
128284167 AATATTGCTTAAAACAAGAAAGAGGCAGTTTAAAGTATACGAAATTAAATAAATAAAATTGGAAC
1 AATATTGCGTAAAACAAGAAAGAGGCAGTTTAAAGTATACGAAATTAAATAAATAAAATTGGAAC
*
128284232 TACACTAAAACAAAAGGTAAAGAGCAAATTTGAAAATAAAGTAGAATAAACCAATTTAATAAAAA
66 TACACAAAAACAAAAGGTAAAGAGCAAATTTGAAAATAAAGTAGAATAAACCAATTTAATAAAAA
*
128284297 CACCAGGCTCAGGTACGTCGTCAGTTTCAATTTCGAAATTGATTATAAATTATGAATGTCTTCTT
131 CACCAGGCTCAGGTACGGCGTCAGTTTCAATTTCGAAATTGATTATAAATTATGAATGTCTTCTT
128284362 ACTGTATGATAAGTCGATTAAAGTGATCGGCAACTTCAAACCACTAATCATTTCTTAGTTGTAAA
196 ACTGTATGATAAGTCGATTAAAGTGATCGGCAACTTCAAACCACTAATCATTTCTTAGTTGTAAA
*
128284427 TTAATTGCGGAAGTATCCTAACAATTAACCCTTGTCAAATGAACAACCTTAAGAGCAGCTCCTAT
261 TTAACTGCGGAAGTATCCTAACAATTAACCCTTGTCAAATGAACAACCTTAAGAGCAGCTCCTAT
128284492 AATATTGCGTAAAACAAGAAAGAGGCAGTTTAAAGTATACGAAATTAAATAAATAAAATTGGAAC
1 AATATTGCGTAAAACAAGAAAGAGGCAGTTTAAAGTATACGAAATTAAATAAATAAAATTGGAAC
128284557 TACACAAAAACAAAAGGTAAAGAGCAAATTTGAAAATAAAGTAGAATAAACCAATTTAATAAAAA
66 TACACAAAAACAAAAGGTAAAGAGCAAATTTGAAAATAAAGTAGAATAAACCAATTTAATAAAAA
*
128284622 CTCCAGGCTCAGGTACGGCGTCAGTTTCAATTTCGAAATTGATTATAAATTATGAATGTCTTCTT
131 CACCAGGCTCAGGTACGGCGTCAGTTTCAATTTCGAAATTGATTATAAATTATGAATGTCTTCTT
128284687 ACTGTATGATAAGTCGATTAAAGTGATCGGCAACTTCAAACCACTAATCATTTCTTAGTTGTAAA
196 ACTGTATGATAAGTCGATTAAAGTGATCGGCAACTTCAAACCACTAATCATTTCTTAGTTGTAAA
*
128284752 TTAACTGCGGAAGTATCCTAACAATTAACCCTTGTCAAATGAACAACCTTAAGAGCAGCTTCTAT
261 TTAACTGCGGAAGTATCCTAACAATTAACCCTTGTCAAATGAACAACCTTAAGAGCAGCTCCTAT
128284817 AAT
1 AAT
128284820 TTAATTCTTT
Statistics
Matches: 322, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
325 322 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (325 bp):
AATATTGCGTAAAACAAGAAAGAGGCAGTTTAAAGTATACGAAATTAAATAAATAAAATTGGAAC
TACACAAAAACAAAAGGTAAAGAGCAAATTTGAAAATAAAGTAGAATAAACCAATTTAATAAAAA
CACCAGGCTCAGGTACGGCGTCAGTTTCAATTTCGAAATTGATTATAAATTATGAATGTCTTCTT
ACTGTATGATAAGTCGATTAAAGTGATCGGCAACTTCAAACCACTAATCATTTCTTAGTTGTAAA
TTAACTGCGGAAGTATCCTAACAATTAACCCTTGTCAAATGAACAACCTTAAGAGCAGCTCCTAT
Found at i:128288999 original size:21 final size:21
Alignment explanation
Indices: 128288973--128289015 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
128288963 CTATAATGTA
128288973 ACTTAATATTAGTTAAACTTT
1 ACTTAATATTAGTTAAACTTT
128288994 ACTTAATATTAGTTAAACTTT
1 ACTTAATATTAGTTAAACTTT
128289015 A
1 A
128289016 GGTAACTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (21 bp):
ACTTAATATTAGTTAAACTTT
Found at i:128307751 original size:18 final size:18
Alignment explanation
Indices: 128307717--128307751 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
128307707 AAAAATTTGC
*
128307717 GATTTTTTTTATTTTTTA
1 GATTTTTTTTATATTTTA
*
128307735 GATTTTTTTTGTATTTT
1 GATTTTTTTTATATTTT
128307752 CACTTTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.09, T:0.77
Consensus pattern (18 bp):
GATTTTTTTTATATTTTA
Found at i:128309221 original size:23 final size:22
Alignment explanation
Indices: 128309188--128309260 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 22
128309178 AGTTATAGTA
*
128309188 TTGCACCGAAGTGTCACTTTCAT
1 TTGCA-CGAAGTGCCACTTTCAT
*
128309211 TTGCACAGAAGTGCCACATTTCAA
1 TTGCAC-GAAGTGCCAC-TTTCAT
*
128309235 TTGCATCGAAGTGCCGCTTTCAT
1 TTGCA-CGAAGTGCCACTTTCAT
128309258 TTG
1 TTG
128309261 TGCGCATAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
22 1 0.02
23 22 0.51
24 19 0.44
25 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (22 bp):
TTGCACGAAGTGCCACTTTCAT
Found at i:128312925 original size:8 final size:8
Alignment explanation
Indices: 128312912--128312944 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
128312902 TTAAGTAAGC
128312912 ATTATTAT
1 ATTATTAT
128312920 ATTATTAT
1 ATTATTAT
128312928 ATTA-TACT
1 ATTATTA-T
128312936 ATTATTAT
1 ATTATTAT
128312944 A
1 A
128312945 AAACATAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 2 0.09
8 19 0.83
9 2 0.09
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (8 bp):
ATTATTAT
Found at i:128314067 original size:19 final size:19
Alignment explanation
Indices: 128314038--128314087 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
128314028 TGTTATGATT
128314038 GATATTGAATAGTGAAATGA
1 GATA-TGAATAGTGAAATGA
128314058 GATATGAATAGTGAAATGA
1 GATATGAATAGTGAAATGA
*
128314077 GATATGGATAG
1 GATATGAATAG
128314088 AGATACATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 25 0.86
20 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (19 bp):
GATATGAATAGTGAAATGA
Found at i:128319132 original size:13 final size:13
Alignment explanation
Indices: 128319096--128319126 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
128319086 CTGCGTCTGC
*
128319096 TTCTTTCCTTTCT
1 TTCTTTCTTTTCT
128319109 TTCTTTCTTTTCT
1 TTCTTTCTTTTCT
128319122 TTCTT
1 TTCTT
128319127 ATTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTCTTTCTTTTCT
Found at i:128320964 original size:21 final size:20
Alignment explanation
Indices: 128320940--128320989 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
128320930 AATCTTAGAC
*
128320940 TAAAATTTATTAGAAAATCTA
1 TAAAATTTATTAAAAAATC-A
* *
128320961 TAAAAATAATTAAAAAATCA
1 TAAAATTTATTAAAAAATCA
*
128320981 TAAATTTTA
1 TAAAATTTA
128320990 AAAACTATAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAAATTTATTAAAAAATCA
Found at i:128322923 original size:32 final size:33
Alignment explanation
Indices: 128322876--128322940 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
128322866 TTAAAAGTTG
* *
128322876 AAATTTTTTTACCAACTTTTAAGGGACTTAAAA
1 AAATTTTTCTACCAACTTTTAAGGAACTTAAAA
128322909 AAATTTTTCT-CCAACTTTTAAGGAACTTAAAA
1 AAATTTTTCTACCAACTTTTAAGGAACTTAAAA
128322941 CCCCATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 21 0.70
33 9 0.30
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (33 bp):
AAATTTTTCTACCAACTTTTAAGGAACTTAAAA
Found at i:128327229 original size:49 final size:49
Alignment explanation
Indices: 128327171--128327270 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
128327161 TTTAAATCAA
*
128327171 TAATAGTAAAATTACTTTTTATCCTTCCAAAAATGATAAGAAATTAATT
1 TAATAGTAAAATTACTTTTTATCCTTCCAAAAATAATAAGAAATTAATT
* *
128327220 TAATAGTAAAATTACTTTTTGTCTTTCCAAAAATAATAAGAAATTAATT
1 TAATAGTAAAATTACTTTTTATCCTTCCAAAAATAATAAGAAATTAATT
128327269 TA
1 TA
128327271 CTCCTTTAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (49 bp):
TAATAGTAAAATTACTTTTTATCCTTCCAAAAATAATAAGAAATTAATT
Found at i:128329354 original size:23 final size:23
Alignment explanation
Indices: 128329302--128329347 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
128329292 AAACAAACAC
128329302 TGGAAAACCAGGAAAATAGTTTT
1 TGGAAAACCAGGAAAATAGTTTT
128329325 TGGAAAACCAGGAAAATA-TTTT
1 TGGAAAACCAGGAAAATAGTTTT
128329347 T
1 T
128329348 CGTAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (23 bp):
TGGAAAACCAGGAAAATAGTTTT
Found at i:128336065 original size:22 final size:24
Alignment explanation
Indices: 128336040--128336086 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
128336030 GAGTGCCAAG
128336040 TGTGTGATAAA-AATA-AAATACA
1 TGTGTGATAAATAATATAAATACA
*
128336062 TGTGTGATAAATAATATACATACA
1 TGTGTGATAAATAATATAAATACA
128336086 T
1 T
128336087 TTGTAATACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.50
23 4 0.18
24 7 0.32
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.32
Consensus pattern (24 bp):
TGTGTGATAAATAATATAAATACA
Found at i:128336073 original size:20 final size:21
Alignment explanation
Indices: 128336040--128336082 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
128336030 GAGTGCCAAG
128336040 TGTGTGATAAAAATAAAATACA
1 TGTGTGAT-AAAATAAAATACA
*
128336062 TGTGTGAT-AAATAATATACA
1 TGTGTGATAAAATAAAATACA
128336082 T
1 T
128336083 ACATTTGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
22 8 0.40
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.33
Consensus pattern (21 bp):
TGTGTGATAAAATAAAATACA
Found at i:128336302 original size:20 final size:20
Alignment explanation
Indices: 128336262--128336302 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
128336252 AAGTATTAAT
* *
128336262 AGATATTTATTATTTATATA
1 AGATATTTATTAATTAAATA
128336282 AGATATTTATTAATTAAATA
1 AGATATTTATTAATTAAATA
128336302 A
1 A
128336303 TTATGTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
AGATATTTATTAATTAAATA
Found at i:128337592 original size:12 final size:12
Alignment explanation
Indices: 128337575--128337599 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
128337565 GCCGACTACT
128337575 GTTACTGTTACC
1 GTTACTGTTACC
128337587 GTTACTGTTACC
1 GTTACTGTTACC
128337599 G
1 G
128337600 ATTCGACACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:128337699 original size:53 final size:53
Alignment explanation
Indices: 128337638--128337758 Score: 199
Period size: 53 Copynumber: 2.3 Consensus size: 53
128337628 TACTGTTAAC
* *
128337638 GTTACTGTTACTGTTTCGGATTTGTTCC-GATGAGGTACTCTGTGTACCGTACT
1 GTTACTGTTACTGTTCCGGATTTG-TCCTGATGAGGTACTCTATGTACCGTACT
*
128337691 GTTACTGTTACCGTTCCGGATTTGTCCTGATGAGGTACTCTATGTACCGTACT
1 GTTACTGTTACTGTTCCGGATTTGTCCTGATGAGGTACTCTATGTACCGTACT
128337744 GTTACTGTTACTGTT
1 GTTACTGTTACTGTT
128337759 ACTGTTCCGA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
52 3 0.05
53 60 0.95
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (53 bp):
GTTACTGTTACTGTTCCGGATTTGTCCTGATGAGGTACTCTATGTACCGTACT
Found at i:128337701 original size:59 final size:59
Alignment explanation
Indices: 128337628--128337767 Score: 188
Period size: 53 Copynumber: 2.5 Consensus size: 59
128337618 CGGATATTGT
* *
128337628 TACTGTTAAC-GTTACTGTTACTGTTTCGGATTTGTTCC-GATGAGGTACTCTGTGTACCG
1 TACTGTT-ACTGTTACTGTTACTGTTCCGGATTTG-TCCTGATGAGGTACTCTATGTACCG
128337687 TACTGTTACTGTTAC-----C-GTTCCGGATTTGTCCTGATGAGGTACTCTATGTACCG
1 TACTGTTACTGTTACTGTTACTGTTCCGGATTTGTCCTGATGAGGTACTCTATGTACCG
128337740 TACTGTTACTGTTACTGTTACTGTTCCG
1 TACTGTTACTGTTACTGTTACTGTTCCG
128337768 ACTTCGGCCG
Statistics
Matches: 71, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
52 3 0.04
53 46 0.65
54 1 0.01
58 3 0.04
59 18 0.25
ACGTcount: A:0.16, C:0.21, G:0.22, T:0.41
Consensus pattern (59 bp):
TACTGTTACTGTTACTGTTACTGTTCCGGATTTGTCCTGATGAGGTACTCTATGTACCG
Found at i:128337751 original size:6 final size:6
Alignment explanation
Indices: 128337740--128337764 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
128337730 CTATGTACCG
128337740 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
128337765 CCGACTTCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:128337940 original size:18 final size:18
Alignment explanation
Indices: 128337880--128338040 Score: 94
Period size: 18 Copynumber: 8.5 Consensus size: 18
128337870 AAAGATCGAC
*
128337880 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
*
128337899 TGTTACTGTAT-ATCTGAT
1 TGTTACTGAATAAT-TGAT
* *
128337917 TTTTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
128337935 TGTTACTGGATAACCGATCAATTGAT
1 TGTTACT-G---A---AT-AATTGAT
* *
128337961 TGATACTGAATAACTGAT
1 TGTTACTGAATAATTGAT
* *
128337979 TATTATTGAATAATTGAT
1 TGTTACTGAATAATTGAT
* *
128337997 TGTTACCGAATAACTG-T
1 TGTTACTGAATAATTGAT
* *
128338014 CTGTTACTGAATAAATAAT
1 -TGTTACTGAATAATTGAT
128338033 TGTT-CTGA
1 TGTTACTGA
128338041 TTGACTAATT
Statistics
Matches: 110, Mismatches: 20, Indels: 26
0.71 0.13 0.17
Matches are distributed among these distances:
17 6 0.05
18 71 0.65
19 16 0.15
22 2 0.02
25 3 0.03
26 12 0.11
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:128344111 original size:42 final size:42
Alignment explanation
Indices: 128344061--128344187 Score: 177
Period size: 42 Copynumber: 3.0 Consensus size: 42
128344051 CTTCATTTTC
* * *
128344061 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACAT-A
* *
128344104 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACATA
*
128344145 TCGATGCCATAGTCCAGCTATGGTCTTACACA-AATCACATA
1 TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACATA
128344186 TC
1 TC
128344188 TCACTGATGC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 11 0.15
42 63 0.84
43 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGTCCAGCTATGGTCTTACACATATTCACATA
Found at i:128344329 original size:31 final size:31
Alignment explanation
Indices: 128344294--128344411 Score: 184
Period size: 31 Copynumber: 3.8 Consensus size: 31
128344284 CTTGTCACTT
* *
128344294 GTAGCCGAAGCTACCACTATTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
128344325 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
128344356 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
128344387 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
128344412 TGTCATTTGT
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
30 3 0.04
31 75 0.93
32 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:128350163 original size:8 final size:8
Alignment explanation
Indices: 128350152--128350190 Score: 69
Period size: 8 Copynumber: 4.8 Consensus size: 8
128350142 TTCTTTTTTT
128350152 TTTTTTAC
1 TTTTTTAC
128350160 TTTTTTAC
1 TTTTTTAC
128350168 TTTTTTAAC
1 TTTTTT-AC
128350177 TTTTTTAC
1 TTTTTTAC
128350185 TTTTTT
1 TTTTTT
128350191 TCTTATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 22 0.73
9 8 0.27
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTAC
Found at i:128350171 original size:17 final size:17
Alignment explanation
Indices: 128350151--128350191 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
128350141 GTTCTTTTTT
128350151 TTTTTTTACTTTTTTAC
1 TTTTTTTACTTTTTTAC
*
128350168 TTTTTTAACTTTTTTAC
1 TTTTTTTACTTTTTTAC
128350185 TTTTTTT
1 TTTTTTT
128350192 CTTATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTTACTTTTTTAC
Found at i:128350276 original size:36 final size:36
Alignment explanation
Indices: 128350207--128350280 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
128350197 ATTTTGTCTC
*
128350207 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
128350244 TTTCTTA-ATTTATTTTACTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
128350280 T
1 T
128350281 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:128350285 original size:18 final size:17
Alignment explanation
Indices: 128350234--128350281 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
128350224 TTTTTTAAGT
*
128350234 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
*
128350252 TTTATTTTACTTATTTAA
1 TTTATATTA-TTATTTAA
128350270 TTTATATTATTA
1 TTTATATTATTA
128350282 ATTTTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 20 0.77
19 3 0.12
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:128350352 original size:22 final size:23
Alignment explanation
Indices: 128350270--128350357 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
128350260 ACTTATTTAA
* **
128350270 TTTATATTATTAATTTTAAAAAA
1 TTTATATTATTATTTTTAAAATT
* * *
128350293 TTTGTAATA-TATATTTAAAATGT
1 TTTATATTATTATTTTTAAAAT-T
*
128350316 TTTATAATATT-TTTTTAAAATT
1 TTTATATTATTATTTTTAAAATT
128350338 TTTA-ATTATTATTTTTAAAA
1 TTTATATTATTATTTTTAAAA
128350358 ATATTTTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
21 5 0.09
22 23 0.43
23 24 0.45
24 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATATTATTATTTTTAAAATT
Found at i:128350425 original size:37 final size:36
Alignment explanation
Indices: 128350384--128350454 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
128350374 TATATATATA
*
128350384 TATTTGTGAAATTAATTATTTATAAATTTTAAAAATG
1 TATTTGTCAAATTAATTATTTA-AAATTTTAAAAATG
* *
128350421 TATTTTTCAAATTAATTTTTTAAAATTTTAAAAA
1 TATTTGTCAAATTAATTATTTAAAATTTTAAAAA
128350455 AATAATTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 12 0.39
37 19 0.61
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (36 bp):
TATTTGTCAAATTAATTATTTAAAATTTTAAAAATG
Found at i:128350455 original size:37 final size:36
Alignment explanation
Indices: 128350326--128350455 Score: 102
Period size: 37 Copynumber: 3.6 Consensus size: 36
128350316 TTTATAATAT
* ** *
128350326 TTTTTTAAAATTTTTAATTATTATTTTTAAAAAT-A
1 TTTTTTAAAATTTTAAAAAATTATTTTTAAAATTAA
** * * * *
128350361 TTTTTTAACTTTTTATATATATATATTTGTGAAATTAA
1 TTTTTTAAAATTTTA-AAAAAT-TATTTTTAAAATTAA
* *
128350399 TTATTTATAAATTTT-AAAAATGTATTTTTCAAATTAA
1 TTTTTTA-AAATTTTAAAAAAT-TATTTTTAAAATTAA
128350436 TTTTTTAAAATTTTAAAAAA
1 TTTTTTAAAATTTTAAAAAA
128350456 ATAATTATTT
Statistics
Matches: 73, Mismatches: 17, Indels: 8
0.74 0.17 0.08
Matches are distributed among these distances:
35 12 0.16
36 11 0.15
37 38 0.52
38 7 0.10
39 5 0.07
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (36 bp):
TTTTTTAAAATTTTAAAAAATTATTTTTAAAATTAA
Found at i:128350531 original size:9 final size:9
Alignment explanation
Indices: 128350506--128350549 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
128350496 ATTTTTTTTC
128350506 TTATTTTAT
1 TTATTTTAT
128350515 TT-TGTTTAT
1 TTAT-TTTAT
*
128350524 CTATTTTAT
1 TTATTTTAT
128350533 TTATTTTTAT
1 TTA-TTTTAT
128350543 TTATTTT
1 TTATTTT
128350550 TTCTGAGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.63
10 10 0.33
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (9 bp):
TTATTTTAT
Found at i:128350542 original size:10 final size:10
Alignment explanation
Indices: 128350509--128350550 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
128350499 TTTTTTCTTA
128350509 TTTTATTT-T
1 TTTTATTTAT
* *
128350518 GTTTATCTA-
1 TTTTATTTAT
128350527 TTTTATTTAT
1 TTTTATTTAT
128350537 TTTTATTTAT
1 TTTTATTTAT
128350547 TTTT
1 TTTT
128350551 TCTGAGGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
9 13 0.48
10 14 0.52
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:128353249 original size:23 final size:24
Alignment explanation
Indices: 128353198--128353249 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
128353188 TTTAAAATTG
* * *
128353198 TAAAAAATATATTATAAAATATTT
1 TAAAATATACATTACAAAATATTT
128353222 T-AAATATACATTACAAAAT-TTT
1 TAAAATATACATTACAAAATATTT
128353244 TAAAAT
1 TAAAAT
128353250 TAATAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 4 0.17
23 19 0.79
24 1 0.04
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
TAAAATATACATTACAAAATATTT
Found at i:128353405 original size:27 final size:27
Alignment explanation
Indices: 128353342--128353405 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
128353332 TTTTAAAAAA
* *
128353342 TATTTAAAATATTATGATTTCTTATAT
1 TATTTAAAATATTATAATTTCTTAAAT
* * *
128353369 TATTAAAAAAATTATAATTTTTTAAAT
1 TATTTAAAATATTATAATTTCTTAAAT
128353396 GTATTTAAAA
1 -TATTTAAAA
128353406 GTTGTATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 22 0.73
28 8 0.27
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (27 bp):
TATTTAAAATATTATAATTTCTTAAAT
Found at i:128353672 original size:2 final size:2
Alignment explanation
Indices: 128353661--128353698 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
128353651 TGTGACTAGT
128353661 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
128353699 TAATTTAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:128353996 original size:23 final size:22
Alignment explanation
Indices: 128353903--128353997 Score: 61
Period size: 23 Copynumber: 4.2 Consensus size: 22
128353893 TAAAGTTAAA
128353903 AAATATTTTTAAAACTAATAAT-T
1 AAAT-TTTTTAAAA-TAATAATAT
* * *
128353926 AAA-ATTTTAAAAAAATATTAT
1 AAATTTTTTAAAATAATAATAT
** * *
128353947 AAAACATTTT-AAATATATATTAC
1 -AAATTTTTTAAAATA-ATAATAT
128353970 AAATTTTTTAAAATTAATAATAT
1 AAATTTTTTAAAA-TAATAATAT
128353993 AAATT
1 AAATT
128353998 AAATAAGTAA
Statistics
Matches: 57, Mismatches: 9, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
20 5 0.09
21 9 0.16
22 14 0.25
23 27 0.47
24 2 0.04
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATTTTTTAAAATAATAATAT
Found at i:128354030 original size:18 final size:18
Alignment explanation
Indices: 128353980--128354031 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
128353970 AAATTTTTTA
*
128353980 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
128353998 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
128354016 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
128354032 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:128354088 original size:7 final size:8
Alignment explanation
Indices: 128354069--128354104 Score: 63
Period size: 8 Copynumber: 4.4 Consensus size: 8
128354059 AAATATAAGA
128354069 AAAAAAGT
1 AAAAAAGT
128354077 AAAAAAGT
1 AAAAAAGT
128354085 AAAAAAGT
1 AAAAAAGT
128354093 AAAAAAAGT
1 -AAAAAAGT
128354102 AAA
1 AAA
128354105 TAAAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAAAGT
Found at i:128354090 original size:16 final size:17
Alignment explanation
Indices: 128354069--128354104 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
128354059 AAATATAAGA
128354069 AAAAAAGT-AAAAAAGT
1 AAAAAAGTAAAAAAAGT
128354085 AAAAAAGTAAAAAAAGT
1 AAAAAAGTAAAAAAAGT
128354102 AAA
1 AAA
128354105 TAAAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAAAGTAAAAAAAGT
Found at i:128354114 original size:8 final size:9
Alignment explanation
Indices: 128354068--128354109 Score: 61
Period size: 8 Copynumber: 4.8 Consensus size: 9
128354058 AAAATATAAG
128354068 AAAAAAAGT
1 AAAAAAAGT
128354077 -AAAAAAGT
1 AAAAAAAGT
128354085 -AAAAAAGT
1 AAAAAAAGT
128354093 AAAAAAAGT
1 AAAAAAAGT
128354102 AAATAAAA
1 AAA-AAAA
128354110 AAATATAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 16 0.52
9 11 0.35
10 4 0.13
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:128363664 original size:18 final size:20
Alignment explanation
Indices: 128363604--128363665 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
128363594 ATTTATTTTT
*
128363604 TTAAATATTATTAAAAT-TC
1 TTAAATATAATTAAAATATC
* *
128363623 ATAAATATAATTAAAA-ATAG
1 TTAAATATAATTAAAATAT-C
128363643 TTAAA-A-AATTAAAATATC
1 TTAAATATAATTAAAATATC
128363661 TTAAA
1 TTAAA
128363666 CCGTAAGTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 13 0.37
19 18 0.51
20 4 0.11
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (20 bp):
TTAAATATAATTAAAATATC
Found at i:128370943 original size:31 final size:31
Alignment explanation
Indices: 128370919--128370982 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
128370909 TAAAAGAGTA
128370919 AAACAACATAATTAAAAAGATTAAAAACAAC
1 AAACAACATAATTAAAAAGATTAAAAACAAC
128370950 AAACAACATAATTAAAAAGATTAAAAACAAC
1 AAACAACATAATTAAAAAGATTAAAAACAAC
128370981 AA
1 AA
128370983 TGTTCCTGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.69, C:0.12, G:0.03, T:0.16
Consensus pattern (31 bp):
AAACAACATAATTAAAAAGATTAAAAACAAC
Found at i:128371946 original size:22 final size:21
Alignment explanation
Indices: 128371916--128371994 Score: 88
Period size: 22 Copynumber: 3.7 Consensus size: 21
128371906 TCCCTAAATA
128371916 ATTATACAGAGAATTTCAAACG
1 ATTATACAGA-AATTTCAAACG
* *
128371938 ATTACACAGAAATTT-AAACA
1 ATTATACAGAAATTTCAAACG
* *
128371958 ATTATACAAAGAATTTCATACG
1 ATTATACAGA-AATTTCAAACG
*
128371980 ATTAGACAGAAATTT
1 ATTATACAGAAATTT
128371995 AAGAAGGTTG
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
20 12 0.26
21 15 0.32
22 20 0.43
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (21 bp):
ATTATACAGAAATTTCAAACG
Found at i:128371948 original size:20 final size:20
Alignment explanation
Indices: 128371920--128371990 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
128371910 TAAATAATTA
*
128371920 TACAGAGAATTTCAAACGAT
1 TACACAGAATTTCAAACGAT
*
128371940 TACACAGAAATTT-AAACAATT
1 TACACAG-AATTTCAAACGA-T
* *
128371961 ATACAAAGAATTTCATACGAT
1 -TACACAGAATTTCAAACGAT
*
128371982 TAGACAGAA
1 TACACAGAA
128371991 ATTTAAGAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
20 18 0.45
21 12 0.30
22 10 0.25
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.25
Consensus pattern (20 bp):
TACACAGAATTTCAAACGAT
Found at i:128371974 original size:42 final size:42
Alignment explanation
Indices: 128371910--128371996 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
128371900 TCCATCTCCC
* *
128371910 TAAATAATTATACAGAGAATTTCAAACGATTACACAGAAATT
1 TAAACAATTATACAAAGAATTTCAAACGATTACACAGAAATT
* *
128371952 TAAACAATTATACAAAGAATTTCATACGATTAGACAGAAATT
1 TAAACAATTATACAAAGAATTTCAAACGATTACACAGAAATT
128371994 TAA
1 TAA
128371997 GAAGGTTGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (42 bp):
TAAACAATTATACAAAGAATTTCAAACGATTACACAGAAATT
Found at i:128373834 original size:13 final size:13
Alignment explanation
Indices: 128373816--128373876 Score: 61
Period size: 13 Copynumber: 4.7 Consensus size: 13
128373806 ATGGCAATGC
128373816 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
128373829 TTTTGAAAAGTG-
1 TTTTGAAAAGTGT
* *
128373841 CTGTGAAAAAGTGT
1 TTTTG-AAAAGTGT
* * *
128373855 TTTTTAGAAGTGC
1 TTTTGAAAAGTGT
128373868 TTTTGAAAA
1 TTTTGAAAA
128373877 ATTTGATTTA
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
12 3 0.08
13 32 0.86
14 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:128373850 original size:26 final size:27
Alignment explanation
Indices: 128373813--128373877 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 27
128373803 AGTATGGCAA
*
128373813 TGCTTTTG-AAAAGTGTTTTTGAAAAG
1 TGCTTGTGAAAAAGTGTTTTTGAAAAG
* *
128373839 TGC-TGTGAAAAAGTGTTTTTTAGAAG
1 TGCTTGTGAAAAAGTGTTTTTGAAAAG
*
128373865 TGCTTTTGAAAAA
1 TGCTTGTGAAAAA
128373878 TTTGATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 3 0.09
26 22 0.67
27 8 0.24
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (27 bp):
TGCTTGTGAAAAAGTGTTTTTGAAAAG
Found at i:128377353 original size:21 final size:22
Alignment explanation
Indices: 128377327--128377375 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
128377317 AAAAAATATA
*
128377327 TAAAATTAT-TAAATATTCAAT
1 TAAAATAATATAAATATTCAAT
128377348 TAAAATAATATAAATATTCAA-
1 TAAAATAATATAAATATTCAAT
128377369 -AAAATAA
1 TAAAATAA
128377376 AAAATAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 7 0.27
21 8 0.31
22 11 0.42
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
TAAAATAATATAAATATTCAAT
Found at i:128377382 original size:22 final size:21
Alignment explanation
Indices: 128377336--128377386 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
128377326 ATAAAATTAT
*
128377336 TAAATATTCAATTAAAATAATA
1 TAAATATTCAA-TAAAATAAAA
128377358 TAAATATTCAA-AAAATAAAA
1 TAAATATTCAATAAAATAAAA
*
128377378 AATAATATT
1 TA-AATATT
128377387 AGCAGACTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 9 0.35
21 6 0.23
22 11 0.42
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATATTCAATAAAATAAAA
Found at i:128378203 original size:2 final size:2
Alignment explanation
Indices: 128378196--128378226 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
128378186 GCCTTATTAC
128378196 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
128378227 AGCATATACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:128389805 original size:29 final size:29
Alignment explanation
Indices: 128389752--128389807 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
128389742 TAACTATTTG
* *
128389752 AACTAATTAATTACAACATACAAATATTA
1 AACTAATTAATAACAACATAAAAATATTA
128389781 AACTAATTAATAAC-ACTATAAAAATAT
1 AACTAATTAATAACAAC-ATAAAAATAT
128389808 AAAAAATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (29 bp):
AACTAATTAATAACAACATAAAAATATTA
Found at i:128389834 original size:13 final size:15
Alignment explanation
Indices: 128389802--128389839 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
128389792 AACACTATAA
128389802 AAATATAAAAAATTAG
1 AAATAT-AAAAATTAG
128389818 AAAT-TAAAAATTA-
1 AAATATAAAAATTAG
128389831 AAATATAAA
1 AAATATAAA
128389840 TTTAAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 4 0.19
14 12 0.57
15 1 0.05
16 4 0.19
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAATATAAAAATTAG
Found at i:128399105 original size:26 final size:24
Alignment explanation
Indices: 128399068--128399121 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
128399058 CGAATTTCAT
*
128399068 ATATTTTTAT-AAAATAATAATATA
1 ATATTTTTATAAAAATAA-AATAAA
128399092 ATATTTTATCATAAAAATAAAATAAA
1 ATATTTT-T-ATAAAAATAAAATAAA
128399118 ATAT
1 ATAT
128399122 CATGAAAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.27
25 1 0.04
26 11 0.42
27 7 0.27
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (24 bp):
ATATTTTTATAAAAATAAAATAAA
Found at i:128406199 original size:52 final size:52
Alignment explanation
Indices: 128406133--128406283 Score: 196
Period size: 52 Copynumber: 2.9 Consensus size: 52
128406123 GACGGAAAAG
* *
128406133 ATGTGATATATGTTCCTGTATAAGACCATAGCTGGGCTATGGCATTAGTGCA
1 ATGTGATATGTGTTCCTGTATAAGACCATAGCTGGGCTATGGCATCAGTGCA
* * **
128406185 ATGTGATATGTGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATATGTGTTCCTGTATAAGACCATAGCTGGGCTATGGCATCAGTGCA
* * *
128406237 ATGTGATAACGTGATT-CTGTATAAGACCATATCTGGGATATGGCATC
1 ATGTGAT-ATGTG-TTCCTGTATAAGACCATAGCTGGGCTATGGCATC
128406284 GGTATGATAT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
52 53 0.61
53 32 0.37
54 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (52 bp):
ATGTGATATGTGTTCCTGTATAAGACCATAGCTGGGCTATGGCATCAGTGCA
Found at i:128406309 original size:46 final size:50
Alignment explanation
Indices: 128406135--128406345 Score: 164
Period size: 52 Copynumber: 4.2 Consensus size: 50
128406125 CGGAAAAGAT
* * * ** **
128406135 GTGATATATGTTCCTGTATAAGACCATAGCTGGGCTATGGCATTAGTGCAA
1 GTGATATGTGATCC-GTATAAGACCATAGCTGGGATATGGCATCGGTGTGA
* *
128406186 TGTGATATGTGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGA
1 -GTGATATGTGAT-CCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGA
* * *
128406238 TGTGATAACGTGATTCTGTATAAGACCATATCTGGGATATGGCATC-G-GT-A
1 -GTGAT-ATGTGA-TCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGA
* * * * * *
128406288 -TGATATGTGATCCGTGTAAGACCATGGCGGGGCTATGGCTTTGGTGT--
1 GTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGA
128406335 GTGATATGTGA
1 GTGATATGTGA
128406346 CTAAATGCAA
Statistics
Matches: 134, Mismatches: 19, Indels: 16
0.79 0.11 0.09
Matches are distributed among these distances:
46 24 0.18
47 6 0.04
48 16 0.12
50 1 0.01
51 2 0.01
52 50 0.37
53 34 0.25
54 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.32
Consensus pattern (50 bp):
GTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCGGTGTGA
Found at i:128407668 original size:14 final size:14
Alignment explanation
Indices: 128407649--128407679 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
128407639 ATATAATAAC
*
128407649 ATAAAATAAAAGAA
1 ATAAAACAAAAGAA
128407663 ATAAAACAAAAGAA
1 ATAAAACAAAAGAA
128407677 ATA
1 ATA
128407680 GAAAAAGAAA
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:0.77, C:0.03, G:0.06, T:0.13
Consensus pattern (14 bp):
ATAAAACAAAAGAA
Found at i:128407733 original size:7 final size:6
Alignment explanation
Indices: 128407701--128407750 Score: 57
Period size: 6 Copynumber: 8.3 Consensus size: 6
128407691 AAGGAGGAGG
* * *
128407701 AAGAAA CAGAAA AGGGAAA AGGAAA AAGAAA AAGAAA AAG-AA AAGAAA
1 AAGAAA AAGAAA A-AGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
128407749 AA
1 AA
128407751 TTTAGGGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 5 0.13
6 28 0.74
7 5 0.13
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:128415929 original size:7 final size:7
Alignment explanation
Indices: 128415919--128415947 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
128415909 TTAAATTAAA
128415919 TTTTTAT
1 TTTTTAT
128415926 TTTTTAT
1 TTTTTAT
128415933 TTTTTAT
1 TTTTTAT
128415940 TTTTTAT
1 TTTTTAT
128415947 T
1 T
128415948 AAATATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:128419392 original size:2 final size:2
Alignment explanation
Indices: 128419385--128419419 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
128419375 TTTTGGGTGT
128419385 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
128419420 TTTGTTCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:128425005 original size:2 final size:2
Alignment explanation
Indices: 128424998--128425025 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
128424988 GCTCTTGCAC
128424998 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128425026 TTGCACATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:128426636 original size:47 final size:47
Alignment explanation
Indices: 128426582--128426733 Score: 241
Period size: 47 Copynumber: 3.2 Consensus size: 47
128426572 TTAGGATTTT
** * *
128426582 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
128426629 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
128426676 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
128426723 ATGTGGTGAAT
1 ATGTGATGAAT
128426734 ATAAGATATG
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 98 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:128426682 original size:22 final size:22
Alignment explanation
Indices: 128426611--128426682 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
128426601 GTATATATGA
128426611 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
128426633 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
128426658 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
128426680 GAT
1 GAT
128426683 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:128426731 original size:25 final size:25
Alignment explanation
Indices: 128426656--128426731 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
128426646 ATGCATATAT
128426656 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
128426681 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
128426703 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
128426728 GTGA
1 GTGA
128426732 ATATAAGATA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:128426791 original size:48 final size:48
Alignment explanation
Indices: 128426737--128426976 Score: 383
Period size: 48 Copynumber: 5.0 Consensus size: 48
128426727 GGTGAATATA
*
128426737 AGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
128426785 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
128426833 AGGTATGTATATGTGGTAAAGCCGAATGGCTAATGTGAGATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * *
128426881 AGATATGCATATGTGGTAAAGCTGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATG
*
128426931 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
128426977 GGCGATGTGC
Statistics
Matches: 176, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
47 1 0.01
48 131 0.74
49 3 0.02
50 40 0.23
51 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:128427025 original size:146 final size:143
Alignment explanation
Indices: 128426737--128427014 Score: 359
Period size: 146 Copynumber: 1.9 Consensus size: 143
128426727 GGTGAATATA
* *
128426737 AGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGCATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
* * * * *
128426802 AAAGCCGAATGGCTAATGTGAAATATGTATGAGGTATGTATATGTGGTAAAGCCGAATGGCTAAT
66 AAAGCCGAATGGCTAATGTGAAATATGTACGAGGTACGTATATGTGGT-AAGCCGAACGACCAAT
128426867 GTGAGATATGTATG
130 GTGAGATATGTATG
128426881 AGATATGCATATGTGGTAAAG-CTGAATGG-TCAATGTGAAATATATATATGAGATATGTATATG
1 AGATATGCATATGTGGTAAAGTC-GAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATG
* * * *
128426944 TGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATGTGCGTATAT-T-GT-GGCCGAACGA
62 TGGTAAAGCCGAATGGCTAATGTGAAATATGTA--CGAGGTACGTATATGTGGTAAGCCGAACGA
128427006 CCAATGTGA
125 CCAATGTGA
128427015 AAGGTGTGTA
Statistics
Matches: 117, Mismatches: 11, Indels: 12
0.84 0.08 0.09
Matches are distributed among these distances:
143 2 0.02
144 47 0.40
145 2 0.02
146 55 0.47
147 1 0.01
148 10 0.09
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (143 bp):
AGATATGCATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATGTACGAGGTACGTATATGTGGTAAGCCGAACGACCAATG
TGAGATATGTATG
Found at i:128427175 original size:37 final size:37
Alignment explanation
Indices: 128427122--128427301 Score: 297
Period size: 37 Copynumber: 4.9 Consensus size: 37
128427112 GGAAATATAT
128427122 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
128427159 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
128427196 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
128427233 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
128427270 TCCAGGTAAGACCCGATAACTTCGTGTGGAGA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGA
128427302 CTTCGTCTGA
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 135 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:128428826 original size:18 final size:17
Alignment explanation
Indices: 128428803--128428856 Score: 56
Period size: 20 Copynumber: 3.0 Consensus size: 17
128428793 GAGACCTTGA
128428803 AAAAAATAATCAAAAAAT
1 AAAAAATAAT-AAAAAAT
128428821 AAAAAATAAATTAAAAAAAT
1 AAAAAAT-AA-T-AAAAAAT
*
128428841 TAAAAA-AATAAAAAAT
1 AAAAAATAATAAAAAAT
128428857 TGAAAAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 7 0.22
17 1 0.03
18 9 0.28
19 2 0.06
20 13 0.41
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAAAATAATAAAAAAT
Found at i:128428845 original size:8 final size:9
Alignment explanation
Indices: 128428823--128428864 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
128428813 CAAAAAATAA
128428823 AAAATAAATT
1 AAAA-AAATT
128428833 AAAAAAATT
1 AAAAAAATT
128428842 AAAAAAA-T
1 AAAAAAATT
128428850 -AAAAAATT
1 AAAAAAATT
128428858 GAAAAAA
1 -AAAAAA
128428865 GAGAAAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 6 0.21
8 2 0.07
9 12 0.41
10 9 0.31
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (9 bp):
AAAAAAATT
Found at i:128428863 original size:18 final size:18
Alignment explanation
Indices: 128428803--128428864 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
128428793 GAGACCTTGA
* *
128428803 AAAAAATAATCAAAAAATA
1 AAAAAA-AATAAAAAAATT
128428822 AAAAATAAATTAAAAAAATT
1 AAAAA-AAA-TAAAAAAATT
128428842 -AAAAAAAT-AAAAAATT
1 AAAAAAAATAAAAAAATT
128428858 GAAAAAA
1 -AAAAAA
128428865 GAGAAAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
16 8 0.22
17 1 0.03
18 8 0.22
19 11 0.30
20 9 0.24
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (18 bp):
AAAAAAAATAAAAAAATT
Found at i:128430027 original size:66 final size:64
Alignment explanation
Indices: 128429950--128430203 Score: 314
Period size: 64 Copynumber: 3.9 Consensus size: 64
128429940 TCATTCATAA
* * * *
128429950 CACATTTAGTTAGATGCATTTGACTCATTTCGATCATAGTATCCTAATTATTTGACATCAGCAT
1 CACATCTAGTTAGATGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * *
128430014 AACACATCCAGTTAGAAGCATTTGATTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCA
1 --CACATCTAGTTAGATGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCA
128430079 T
64 T
* * * *
128430080 CACATTTAGTTAGGTGCATTTGATTCATGTT-GATCATAGCATTCTAATTATTTGATATAAGCAT
1 CACATCTAGTTAGATGCATTTGATTCAT-TTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * ** *
128430144 CATATCTAGTTAAGA-GCATTTGATTCATTTTGATCATAAAATCCTAATTATTTGGCATAA
1 CACATCTAGTT-AGATGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAA
128430204 ACATGATACA
Statistics
Matches: 163, Mismatches: 22, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
63 2 0.01
64 100 0.61
65 4 0.02
66 57 0.35
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.39
Consensus pattern (64 bp):
CACATCTAGTTAGATGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:128430950 original size:146 final size:145
Alignment explanation
Indices: 128430687--128430967 Score: 422
Period size: 146 Copynumber: 1.9 Consensus size: 145
128430677 GCAGATGGTG
* *
128430687 AATCTTATCTCCATGTATCAGCAATGGAGCAGATTTTACCACCAACCTTATCTCTTTGAGGTAGC
1 AATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAACCACCAACCTTATCTCTCTGAGGTAGC
* * *
128430752 AAGAGAGCAGGTTGAAGAATGAGTCTTATCTTTCTGAGGCAGCAAGAAAGCAGACTGA-AGATTG
66 AAGAGAGCAGGTTAAAGAATGAGTCTTATCTTCCTAAGGCAGCAAGAAAGCAGACTGAGA-ATTG
128430816 AAGATTGGAAAAGGCA
130 AAGATTGGAAAAGGCA
* * *
128430832 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC-CTAAGCCTTATTTCTCTGAGGTA
1 AATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAA-CCACCAA-CCTTATCTCTCTGAGGTA
* * *
128430896 GCAAGAGAGCAGGTTAAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGGGAATT
64 GCAAGAGAGCAGGTTAAAGAATGAGTCTTATCTTCCTAAGGCAGCAAGAAAGCAGACTGAGAATT
128430961 GAAGATT
129 GAAGATT
128430968 CTATCTCCCT
Statistics
Matches: 122, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
145 39 0.32
146 82 0.67
147 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (145 bp):
AATCTTATCTCCATGTATCAGCAATGGAGCAGATTTAACCACCAACCTTATCTCTCTGAGGTAGC
AAGAGAGCAGGTTAAAGAATGAGTCTTATCTTCCTAAGGCAGCAAGAAAGCAGACTGAGAATTGA
AGATTGGAAAAGGCA
Found at i:128431429 original size:181 final size:180
Alignment explanation
Indices: 128430832--128431511 Score: 947
Period size: 181 Copynumber: 3.8 Consensus size: 180
128430822 GGAAAAGGCA
* *
128430832 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCTAAGCCTTATTTCTCTGAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAG
* *
128430897 CAAGAGAGCAGGTT-AAA-GAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGGGAAT
66 CAAGAGAGCAGGTTGAAATG-AT-AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGAAT
* * * *
128430960 TGAAGATTCTATCTCCCTGAATTTGCAGCGGAGTAGATCTTCACAGATGGCT
129 TGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGAAGATCTTCGCAGATGGCT
* * * * *
128431012 AATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCTCTAAGCCTTATTTCTCTGAGGAAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAG
* *
128431077 CAAGAGAGCAGGTTGAAGATGATAGTCTTATCTTCCTGAGGTAGCAATGAAGCAGACTAAGAATT
66 CAAGAGAGCAGGTTGAA-ATGATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGAATT
* * *
128431142 GAATATTTTTATCTCCCTCAAGTTGCAGCGGAGCAGATCTTCGCAGATGGCT
130 GAAGA-TTTTATCTCCCTGAAGTTGCAGCGGAGAAGATCTTCGCAGATGGCT
* * * *
128431194 AATCTTATTTCCATGTATTGGCACTGGGGCAGATTTAAGCCACC-AGCCTTATCTCTCTGAGGTA
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC-CCAAGCCTTATCTCTCTGAGGTA
* *
128431258 GCAAGAGAGCAGGTTGAATATGATATTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGAAT
65 GCAAGAGAGCAGGTTGAA-ATGATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGAAT
* *
128431323 TGAAGATTTTATCTCCCTGAAGTTACAGCAGAGAAGATCTTCGCAGATGGCT
129 TGAAGATTTTATCTCCCTGAAGTTGCAGCGGAGAAGATCTTCGCAGATGGCT
* * * *
128431375 AATCTTATCTCCATGTATTGGCAATGGGGCAGATTTAAGCCCCAAGCATTATCTCTCTAAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAG
* * *
128431440 CAAGAAAGCAGGTTGAAAATTGA-AGTCTTATCTTCCTGAAGTAGTAAGGAAGCAGACTGA-AGA
66 CAAGAGAGCAGGTTG-AAA-TGATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGA-A
128431503 TTGAAGATT
128 TTGAAGATT
128431512 GAAAGAGGCG
Statistics
Matches: 450, Mismatches: 41, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
180 79 0.18
181 202 0.45
182 167 0.37
183 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (180 bp):
AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCTGAGGTAG
CAAGAGAGCAGGTTGAAATGATAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAGAATTG
AAGATTTTATCTCCCTGAAGTTGCAGCGGAGAAGATCTTCGCAGATGGCT
Found at i:128431496 original size:363 final size:362
Alignment explanation
Indices: 128430832--128431507 Score: 993
Period size: 363 Copynumber: 1.9 Consensus size: 362
128430822 GGAAAAGGCA
*
128430832 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCTAAGCCTTATTTCTCTGAGGTAG
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCTAAGCCTTATCTCTCTGAGGTAG
*
128430897 CAAGAGAGCAGGTTAAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGGGAATTG
66 CAAGAGAGCAGGTTAAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAGAATTG
* * * *
128430962 AAGATTCTATCTCCCTGAATTTGCAGCGGAGTAGATCTTCACAGATGGCTAATCTTATCTCCATG
131 AAGATTCTATCTCCCTGAAGTTACAGCAGAGAAGATCTTCACAGATGGCTAATCTTATCTCCATG
* * * * * *
128431027 TATCGACAATGGAGCAGATTTAAGCTCTAAGCCTTATTTCTCTGAGGAAGCAAGAGAGCAGGTTG
196 TATCGACAATGGAGCAGATTTAAGCCCCAAGCATTATCTCTCTAAGGAAGCAAGAAAGCAGGTTG
* * *
128431092 AAGATGATAGTCTTATCTTCCTGAGGTAGCAATGAAGCAGACT-AAGAATTGAATATTTTTATCT
261 AAAATGATAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACTGAAG-ATTGAATATTTTTATCT
128431156 CCCTCAAGTTGCAGCGGAGCAGATCTTCGCAGATGGCT
325 CCCTCAAGTTGCAGCGGAGCAGATCTTCGCAGATGGCT
* * * * *
128431194 AATCTTATTTCCATGTATTGGCACTGGGGCAGATTTAAGCCAC-CAGCCTTATCTCTCTGAGGTA
1 AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCC-CTAAGCCTTATCTCTCTGAGGTA
* * *
128431258 GCAAGAGAGCAGGTTGAATATG-AT-ATTCTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAGA
65 GCAAGAGAGCAGGTT-AA-A-GAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAGA
* *
128431321 ATTGAAGATTTTATCTCCCTGAAGTTACAGCAGAGAAGATCTTCGCAGATGGCTAATCTTATCTC
127 ATTGAAGATTCTATCTCCCTGAAGTTACAGCAGAGAAGATCTTCACAGATGGCTAATCTTATCTC
* * * *
128431386 CATGTATTGGCAATGGGGCAGATTTAAGCCCCAAGCATTATCTCTCTAAGGTAGCAAGAAAGCAG
192 CATGTATCGACAATGGAGCAGATTTAAGCCCCAAGCATTATCTCTCTAAGGAAGCAAGAAAGCAG
*
128431451 GTTGAAAATTGA-AGTCTTATCTTCCTGAAGTAGTAAGGAAGCAGACTGAAGATTGAA
257 GTTGAAAA-TGATAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACTGAAGATTGAA
128431508 GATTGAAAGA
Statistics
Matches: 278, Mismatches: 30, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
362 71 0.26
363 197 0.71
364 9 0.03
365 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (362 bp):
AATCTTATCTCCATGTATCGGCAATGGAGCAGATTTAAGCCCTAAGCCTTATCTCTCTGAGGTAG
CAAGAGAGCAGGTTAAAGAATGAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAGAATTG
AAGATTCTATCTCCCTGAAGTTACAGCAGAGAAGATCTTCACAGATGGCTAATCTTATCTCCATG
TATCGACAATGGAGCAGATTTAAGCCCCAAGCATTATCTCTCTAAGGAAGCAAGAAAGCAGGTTG
AAAATGATAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAGACTGAAGATTGAATATTTTTATCTC
CCTCAAGTTGCAGCGGAGCAGATCTTCGCAGATGGCT
Found at i:128431624 original size:43 final size:45
Alignment explanation
Indices: 128431569--128431664 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 45
128431559 AGCCTCAAGC
* *
128431569 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGCTGAAGATTG-AG-T
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
* * * *
128431612 CTTATCTTTCTGATGTAGTAAGAAAGTAGACTGAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
128431657 CTTATCTC
1 CTTATCTC
128431665 CCTAAGCAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 34 0.77
44 2 0.05
45 8 0.18
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGATTGAAGAT
Found at i:128431908 original size:18 final size:19
Alignment explanation
Indices: 128431885--128431926 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
128431875 GGGCTTACAC
128431885 CAAAATAAAACAAAA-A-AA
1 CAAAATAAAA-AAAATATAA
128431903 CAAAATAAAAAAAATATAA
1 CAAAATAAAAAAAATATAA
128431922 CAAAA
1 CAAAA
128431927 CCAAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.18
18 11 0.50
19 7 0.32
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.10
Consensus pattern (19 bp):
CAAAATAAAAAAAATATAA
Found at i:128433620 original size:2 final size:2
Alignment explanation
Indices: 128433613--128433665 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
128433603 TTTTGGGTGT
128433613 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
128433655 TA TA TA TA TA T
1 TA TA TA TA TA T
128433666 TTTTTTTTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:128435059 original size:14 final size:14
Alignment explanation
Indices: 128435040--128435068 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
128435030 ATTGTGTATC
128435040 ACAATGATAGTAAA
1 ACAATGATAGTAAA
128435054 ACAATGATAGTAAA
1 ACAATGATAGTAAA
128435068 A
1 A
128435069 TATAGTGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (14 bp):
ACAATGATAGTAAA
Found at i:128438319 original size:86 final size:86
Alignment explanation
Indices: 128438222--128438380 Score: 257
Period size: 86 Copynumber: 1.8 Consensus size: 86
128438212 TAGATATGGA
* *
128438222 AATATCGTAAACCT-AAATTGATAACTGACATGTTGATTTGAGATTCTTATGCACATTCTAAGGA
1 AATATCATAAA-CTGAAATTGATAACTGACATGCTGATTTGAGATTCTTATGCACATTCTAAGGA
128438286 ATAAAATAAAATCAGACATGAC
65 ATAAAATAAAATCAGACATGAC
* * *
128438308 AATATCATAAACTGAAATTGATAAGTGACATGCTGATTTGAGATTCTTATGCACATTTTAAGGAC
1 AATATCATAAACTGAAATTGATAACTGACATGCTGATTTGAGATTCTTATGCACATTCTAAGGAA
128438373 TAAAATAA
66 TAAAATAA
128438381 TTTTTTTTTC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
85 2 0.03
86 65 0.97
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (86 bp):
AATATCATAAACTGAAATTGATAACTGACATGCTGATTTGAGATTCTTATGCACATTCTAAGGAA
TAAAATAAAATCAGACATGAC
Found at i:128439993 original size:18 final size:19
Alignment explanation
Indices: 128439970--128440015 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
128439960 ATGAAATTTT
*
128439970 AAAATATAACAAA-TAAAA
1 AAAATAAAACAAATTAAAA
128439988 AAAATAAAACAAATTAAAA
1 AAAATAAAACAAATTAAAA
*
128440007 TAAATAAAA
1 AAAATAAAA
128440016 TGTGACAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.17
Consensus pattern (19 bp):
AAAATAAAACAAATTAAAA
Found at i:128440117 original size:23 final size:22
Alignment explanation
Indices: 128440091--128440139 Score: 82
Period size: 21 Copynumber: 2.2 Consensus size: 22
128440081 AAATCAGCAA
128440091 TATACAAAACAATAAATTATATG
1 TATA-AAAACAATAAATTATATG
128440114 TAT-AAAACAATAAATTATATG
1 TATAAAAACAATAAATTATATG
128440135 TATAA
1 TATAA
128440140 CAATTTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 21 0.84
22 1 0.04
23 3 0.12
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (22 bp):
TATAAAAACAATAAATTATATG
Found at i:128440122 original size:21 final size:21
Alignment explanation
Indices: 128440096--128440139 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
128440086 AGCAATATAC
128440096 AAAACAATAAATTATATGTAT
1 AAAACAATAAATTATATGTAT
128440117 AAAACAATAAATTATATGTAT
1 AAAACAATAAATTATATGTAT
128440138 AA
1 AA
128440140 CAATTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (21 bp):
AAAACAATAAATTATATGTAT
Found at i:128441397 original size:18 final size:17
Alignment explanation
Indices: 128441346--128441397 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 17
128441336 ATGAAAAACC
*
128441346 AAAGAAAAAAAA-AAG-
1 AAAGAAAAAAAATCAGA
*
128441361 AAAGAAAAACAATCAGA
1 AAAGAAAAAAAATCAGA
*
128441378 AAAGAAAACAAAATCTGA
1 AAAGAAAA-AAAATCAGA
128441396 AA
1 AA
128441398 TCACCTTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 11 0.37
16 2 0.07
17 8 0.27
18 9 0.30
ACGTcount: A:0.75, C:0.08, G:0.12, T:0.06
Consensus pattern (17 bp):
AAAGAAAAAAAATCAGA
Found at i:128443542 original size:12 final size:12
Alignment explanation
Indices: 128443525--128443549 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
128443515 TTCATCTCTC
128443525 GCCACTACTATT
1 GCCACTACTATT
128443537 GCCACTACTATT
1 GCCACTACTATT
128443549 G
1 G
128443550 ATGCGGCTAA
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:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (12 bp):
GCCACTACTATT
Found at i:128444934 original size:11 final size:11
Alignment explanation
Indices: 128444915--128444944 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
128444905 GAATCACCCT
*
128444915 TGTAAATGCCA
1 TGTACATGCCA
128444926 TGTACATGCCA
1 TGTACATGCCA
128444937 TGTACATG
1 TGTACATG
128444945 AATTCCAATA
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:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (11 bp):
TGTACATGCCA
Found at i:128453809 original size:19 final size:20
Alignment explanation
Indices: 128453777--128453820 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
128453767 TGGAAAATGA
128453777 TTTCTAGAAAATGACTTACT
1 TTTCTAGAAAATGACTTACT
*
128453797 TTTCTAG-AAATGATTTACT
1 TTTCTAGAAAATGACTTACT
128453816 TTTCT
1 TTTCT
128453821 GGTGTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.48
Consensus pattern (20 bp):
TTTCTAGAAAATGACTTACT
Found at i:128457757 original size:14 final size:14
Alignment explanation
Indices: 128457738--128457789 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
128457728 GTTAAAACAT
128457738 AAATATATTTATTA
1 AAATATATTTATTA
* *
128457752 AAATATATATATGA
1 AAATATATTTATTA
*
128457766 ACATAACTAATTTATTA
1 AAAT-A-T-ATTTATTA
128457783 AAATATA
1 AAATATA
128457790 AATTACAAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
14 16 0.55
15 2 0.07
16 2 0.07
17 9 0.31
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (14 bp):
AAATATATTTATTA
Found at i:128462995 original size:38 final size:38
Alignment explanation
Indices: 128462953--128463029 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 38
128462943 ATTTAGCAAC
* *
128462953 GATTTATC-CACAAATGCTACTAAAGAACATGATCTTTA
1 GATTTA-CACACAAACGCTACTAAAGAACATGACCTTTA
* *
128462991 GATTTACACACAAACGCTGCTAAAGAGCATGACCTTTA
1 GATTTACACACAAACGCTACTAAAGAACATGACCTTTA
128463029 G
1 G
128463030 CGGTGCTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.03
38 33 0.97
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (38 bp):
GATTTACACACAAACGCTACTAAAGAACATGACCTTTA
Found at i:128463460 original size:21 final size:21
Alignment explanation
Indices: 128463435--128463484 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
128463425 TTCTGCTCTG
128463435 CTCTGCTTCCCTCGCTGCTAC
1 CTCTGCTTCCCTCGCTGCTAC
*
128463456 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCTAC
*
128463477 CTCCGCTT
1 CTCTGCTT
128463485 TAAGTTGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.02, C:0.48, G:0.16, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCTAC
Found at i:128469337 original size:9 final size:9
Alignment explanation
Indices: 128469320--128469374 Score: 56
Period size: 9 Copynumber: 5.7 Consensus size: 9
128469310 AATGTGTATG
*
128469320 TATTATATA
1 TATTTTATA
128469329 TATTTTATA
1 TATTTTATA
*
128469338 CATTTTATA
1 TATTTTATA
128469347 TATATTATATA
1 TAT-TT-TATA
128469358 TATATTTATTA
1 TAT-TTTA-TA
128469369 TATTTT
1 TATTTT
128469375 TATGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
9 18 0.45
10 7 0.17
11 15 0.38
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TATTTTATA
Found at i:128469348 original size:11 final size:11
Alignment explanation
Indices: 128469322--128469419 Score: 69
Period size: 11 Copynumber: 8.5 Consensus size: 11
128469312 TGTGTATGTA
128469322 TTATATATA-T
1 TTATATATATT
*
128469332 TT-TATACATT
1 TTATATATATT
128469342 TTATATATATT
1 TTATATATATT
*
128469353 ATATATATA-T
1 TTATATATATT
128469363 TTAT-TATATTT
1 TTATATATA-TT
128469374 TTATGTATATATTT
1 TTA--TATATA-TT
128469388 TTAATATCATATT
1 TT-ATAT-ATATT
*
128469401 ATTCATATATTTT
1 -TT-ATATATATT
128469414 TTATAT
1 TTATAT
128469420 TATGTAAATA
Statistics
Matches: 72, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
9 9 0.12
10 9 0.12
11 23 0.32
12 2 0.03
13 10 0.14
14 18 0.25
15 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (11 bp):
TTATATATATT
Found at i:128469399 original size:14 final size:14
Alignment explanation
Indices: 128469334--128469419 Score: 52
Period size: 14 Copynumber: 6.1 Consensus size: 14
128469324 ATATATATTT
*
128469334 TATACATTTTATATA
1 TATATATTTT-TATA
* * *
128469349 TATTATATATATATT
1 TA-TATATTTTTATA
*
128469364 TATTATATTTTTATG
1 TA-TATATTTTTATA
128469379 TATATATTTTTA-A
1 TATATATTTTTATA
* *
128469392 TATCATATTATT-CA
1 TAT-ATATTTTTATA
128469406 TATAT-TTTTTATA
1 TATATATTTTTATA
128469419 T
1 T
128469420 TATGTAAATA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
12 4 0.07
13 7 0.12
14 21 0.38
15 19 0.34
16 5 0.09
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.60
Consensus pattern (14 bp):
TATATATTTTTATA
Found at i:128469736 original size:26 final size:26
Alignment explanation
Indices: 128469706--128469757 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
128469696 ATTATGTATA
*
128469706 TATTTTTAATACTACGTATACATTTT
1 TATTTCTAATACTACGTATACATTTT
* * *
128469732 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATACATTTT
128469758 AATACATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.58
Consensus pattern (26 bp):
TATTTCTAATACTACGTATACATTTT
Found at i:128483160 original size:9 final size:9
Alignment explanation
Indices: 128483094--128483173 Score: 58
Period size: 9 Copynumber: 9.1 Consensus size: 9
128483084 TACGTATAAT
128483094 TAAGTTATG
1 TAAGTTATG
*
128483103 TAAATTATG
1 TAAGTTATG
* * *
128483112 ATATGATATA
1 -TAAGTTATG
*
128483122 T-ATTTATG
1 TAAGTTATG
128483130 T-A-TTATG
1 TAAGTTATG
* *
128483137 TAAGCTACG
1 TAAGTTATG
128483146 TAAGTTATG
1 TAAGTTATG
*
128483155 TGAGTTATG
1 TAAGTTATG
128483164 TAAGTTATG
1 TAAGTTATG
128483173 T
1 T
128483174 TATGATATAT
Statistics
Matches: 53, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
7 6 0.11
8 6 0.11
9 36 0.68
10 5 0.09
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:128483245 original size:9 final size:9
Alignment explanation
Indices: 128483228--128483316 Score: 83
Period size: 9 Copynumber: 9.9 Consensus size: 9
128483218 TAATTCTTTA
128483228 AAGTTATGT
1 AAGTTATGT
128483237 ATA-TTATGT
1 A-AGTTATGT
128483246 AAGTTATGT
1 AAGTTATGT
*
128483255 AAGTTTTGAT
1 AAGTTATG-T
* * *
128483265 ATGATATAT
1 AAGTTATGT
*
128483274 -ATTTATGT
1 AAGTTATGT
128483282 AAGTTATGT
1 AAGTTATGT
* *
128483291 AAATTATGC
1 AAGTTATGT
128483300 AAGTTATGT
1 AAGTTATGT
128483309 AAGTTATG
1 AAGTTATG
128483317 ATTTATATTT
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
8 5 0.08
9 51 0.82
10 6 0.10
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
AAGTTATGT
Found at i:128487327 original size:13 final size:13
Alignment explanation
Indices: 128487305--128487337 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
128487295 AAGGATTTGT
128487305 TTAT-TAAACTAA
1 TTATCTAAACTAA
128487317 TTATCTAAACTAA
1 TTATCTAAACTAA
*
128487330 TTAACTAA
1 TTATCTAA
128487338 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:128491560 original size:20 final size:20
Alignment explanation
Indices: 128491530--128491586 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
128491520 CCACACGGGT
*
128491530 AAGTGACACGGGCGTGTCCCA
1 AAGT-ACACGGACGTGTCCCA
128491551 AAGTACACGGACGTGTCCCA
1 AAGTACACGGACGTGTCCCA
*
128491571 AAGTACACGGATGTGT
1 AAGTACACGGACGTGT
128491587 GCTATGTCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 30 0.88
21 4 0.12
ACGTcount: A:0.28, C:0.25, G:0.30, T:0.18
Consensus pattern (20 bp):
AAGTACACGGACGTGTCCCA
Found at i:128499047 original size:7 final size:7
Alignment explanation
Indices: 128498989--128499202 Score: 83
Period size: 7 Copynumber: 30.6 Consensus size: 7
128498979 TTAAAATTAG
128498989 ACCCTAA
1 ACCCTAA
*
128498996 ACACTAA
1 ACCCTAA
* *
128499003 ATCATAA
1 ACCCTAA
128499010 ACCCTAA
1 ACCCTAA
*
128499017 TCCCCTAA
1 -ACCCTAA
*
128499025 ACCTTAA
1 ACCCTAA
* *
128499032 ATTCTTAA
1 A-CCCTAA
*
128499040 ACTCTAA
1 ACCCTAA
128499047 ACCCT-A
1 ACCCTAA
** *
128499053 AGTCTTA
1 ACCCTAA
* *
128499060 GCCCTTA
1 ACCCTAA
128499067 ACCCTTAA
1 ACCC-TAA
128499075 ACCCTAA
1 ACCCTAA
128499082 ACCCTAA
1 ACCCTAA
* *
128499089 ATCATAA
1 ACCCTAA
*
128499096 ACACTAA
1 ACCCTAA
**
128499103 ACTTTAA
1 ACCCTAA
*
128499110 A-CCTAC
1 ACCCTAA
128499116 ACCCTAA
1 ACCCTAA
* *
128499123 ATCGTAA
1 ACCCTAA
*
128499130 ACACTAA
1 ACCCTAA
* *
128499137 ATCCTTA
1 ACCCTAA
*
128499144 ACACTAA
1 ACCCTAA
* *
128499151 ATCATAA
1 ACCCTAA
*
128499158 ACCATAA
1 ACCCTAA
*
128499165 ACCTTAA
1 ACCCTAA
*
128499172 ACCCCAA
1 ACCCTAA
*
128499179 ACCATAA
1 ACCCTAA
* *
128499186 A-CATAC
1 ACCCTAA
128499192 ACCCTAA
1 ACCCTAA
128499199 ACCC
1 ACCC
128499203 AAAATATATA
Statistics
Matches: 146, Mismatches: 55, Indels: 12
0.69 0.26 0.06
Matches are distributed among these distances:
6 12 0.08
7 116 0.79
8 18 0.12
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.22
Consensus pattern (7 bp):
ACCCTAA
Found at i:128499051 original size:29 final size:29
Alignment explanation
Indices: 128498989--128499053 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
128498979 TTAAAATTAG
128498989 ACCCTAAACACTAAATCATAAACCCTAAT
1 ACCCTAAACACTAAATCATAAACCCTAAT
* * *
128499018 CCCCTAAAC-CTTAAATTCTTAAACTCTAA-
1 ACCCTAAACAC-TAAA-TCATAAACCCTAAT
128499047 ACCCTAA
1 ACCCTAA
128499054 GTCTTAGCCC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 18 0.60
30 11 0.37
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (29 bp):
ACCCTAAACACTAAATCATAAACCCTAAT
Found at i:128499123 original size:34 final size:35
Alignment explanation
Indices: 128499071--128499137 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
128499061 CCCTTAACCC
128499071 TTAAACCCTAAACCCTAAATCATAAACACTAAACT
1 TTAAACCCTAAACCCTAAATCATAAACACTAAACT
* *
128499106 TTAAA-CCTACACCCTAAATCGTAAACACTAAA
1 TTAAACCCTAAACCCTAAATCATAAACACTAAA
128499138 TCCTTAACAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 25 0.83
35 5 0.17
ACGTcount: A:0.48, C:0.28, G:0.01, T:0.22
Consensus pattern (35 bp):
TTAAACCCTAAACCCTAAATCATAAACACTAAACT
Found at i:128499655 original size:40 final size:40
Alignment explanation
Indices: 128499603--128499699 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
128499593 GCATTTTCTG
* *
128499603 AAAAGCGTCGCTAATGCTCGATCTACAGTGACGTT-TTTCA
1 AAAAGCGCCGCTAATGCTCGATCTACAGCGACGTTCTTT-A
* * * ** *
128499643 ACAAGCGCCGCTAATTCTCGATTTATTGCGGCGTTCTTTA
1 AAAAGCGCCGCTAATGCTCGATCTACAGCGACGTTCTTTA
128499683 AAAAGCGCCGCTAATGC
1 AAAAGCGCCGCTAATGC
128499700 CACCAAAGCT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
40 43 0.93
41 3 0.07
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.29
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGATCTACAGCGACGTTCTTTA
Found at i:128499821 original size:155 final size:153
Alignment explanation
Indices: 128499536--128499971 Score: 509
Period size: 155 Copynumber: 2.8 Consensus size: 153
128499526 GCGTTTTTAT
* *
128499536 CGCTAATGCCACTAAAGCTCAACAACAAATGATGTCGTTTTGCTCAACTTTTTTGCGGC-ATTTT
1 CGCTAATGCCACTAAAGCTCAACAACAAATGATGTCGTTTTGCTCAACTTTTTTGAGGCGTTTTT
* ** * *
128499600 CTGAAAAGCG-TCGCTAATGCTCGATCTACAGTGACGTTTTTCAACAAGCGCCGCTAATTCTCGA
66 C-GAAAAGCGCTC-C-AATGCTCGATCTATAACGGCATTTTTCAACAAGCGCCGCTAATTCTCGA
*
128499664 TTTATTGCGGCGTTCTTTAAAAAGCGC
128 TTTATTGCGGCATT-TTTAAAAAGCGC
* * * * * *
128499691 CGCTAATGCCACCAAAGCTCAACAACAAACGATGTCATTTTGGTTAACTTTTTTGATGCGTTTTT
1 CGCTAATGCCACTAAAGCTCAACAACAAATGATGTCGTTTTGCTCAACTTTTTTGAGGCGTTTTT
* * * * * *
128499756 CGAAAAGCGCTACCAATACACGAGCTATAACGGCATTTTTCAATAATCGCCGCTAATTCTTGATT
66 CGAAAAGCGCT-CCAATGCTCGATCTATAACGGCATTTTTCAACAAGCGCCGCTAATTCTCGATT
128499821 TATTGCGGCATTTTTAAAAAGCGC
130 TATTGCGGCATTTTTAAAAAGCGC
* ** * * *
128499845 CGCTAATGCCACTAAAGTTCAACAACAGGTGATGT-GTTTTGCTCAAATTTTTTGAGGTGTTTTC
1 CGCTAATGCCACTAAAGCTCAACAACAAATGATGTCGTTTTGCTCAACTTTTTTGAGGCGTTTTT
* * * * * *
128499909 CTAAAAGCGCGTCTAATGCTCGATCTATAACGGCATTTTTCAAGAAGTGCAGCTAATGCTCGA
66 CGAAAAGCGC-TCCAATGCTCGATCTATAACGGCATTTTTCAACAAGCGCCGCTAATTCTCGA
128499972 CCTATAGCGG
Statistics
Matches: 234, Mismatches: 43, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
153 72 0.31
154 43 0.18
155 111 0.47
156 7 0.03
157 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (153 bp):
CGCTAATGCCACTAAAGCTCAACAACAAATGATGTCGTTTTGCTCAACTTTTTTGAGGCGTTTTT
CGAAAAGCGCTCCAATGCTCGATCTATAACGGCATTTTTCAACAAGCGCCGCTAATTCTCGATTT
ATTGCGGCATTTTTAAAAAGCGC
Found at i:128500993 original size:220 final size:220
Alignment explanation
Indices: 128500609--128501043 Score: 834
Period size: 220 Copynumber: 2.0 Consensus size: 220
128500599 TAATATTCTA
*
128500609 AAAATTTTTACAGTAAAATATTATCCGTGATATAGTAAAATAAGGAAATAAAGTGACAAAAAGGG
1 AAAATTTTTACAGTAAAATATTATCCGTGATATAGTAAAATAAGGAAACAAAGTGACAAAAAGGG
*
128500674 AAATTTTGAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGACTAAAT
66 AAATTTTAAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGACTAAAT
*
128500739 TGTAAAAGTGAGAAAAGTTTTATTGCATAAGAGTAAATACTCAAAATTTGAGGGGTTAAAGTGTA
131 TGTAAAAGTGAGAAAAGTTTTATTGCACAAGAGTAAATACTCAAAATTTGAGGGGTTAAAGTGTA
128500804 AATATGAAAAAGTTGAAGGATTCCG
196 AATATGAAAAAGTTGAAGGATTCCG
128500829 AAAATTTTTACAGTAAAATATTATCCGTGATATAGTAAAATAAGGAAACAAAGTGACAAAAAGGG
1 AAAATTTTTACAGTAAAATATTATCCGTGATATAGTAAAATAAGGAAACAAAGTGACAAAAAGGG
128500894 AAATTTTAAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGACTAAAT
66 AAATTTTAAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGACTAAAT
*
128500959 TGTAAAAGTGAGAAAAGTTTTGTTGCACAAGAGTAAATACTCAAAATTTGAGGGGTTAAAGTGTA
131 TGTAAAAGTGAGAAAAGTTTTATTGCACAAGAGTAAATACTCAAAATTTGAGGGGTTAAAGTGTA
128501024 AATATGAAAAAGTTGAAGGA
196 AATATGAAAAAGTTGAAGGA
128501044 CCAATAGTGT
Statistics
Matches: 211, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
220 211 1.00
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.30
Consensus pattern (220 bp):
AAAATTTTTACAGTAAAATATTATCCGTGATATAGTAAAATAAGGAAACAAAGTGACAAAAAGGG
AAATTTTAAGTTATGTCAATATTGGGAAGTATATTATGATATATTAATTCAAGAAAGGACTAAAT
TGTAAAAGTGAGAAAAGTTTTATTGCACAAGAGTAAATACTCAAAATTTGAGGGGTTAAAGTGTA
AATATGAAAAAGTTGAAGGATTCCG
Found at i:128503310 original size:46 final size:46
Alignment explanation
Indices: 128503258--128503438 Score: 265
Period size: 46 Copynumber: 3.9 Consensus size: 46
128503248 GTGTGCTCTC
** *
128503258 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
128503304 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
*
128503350 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * * * *
128503396 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
128503439 TCATGTCAAA
Statistics
Matches: 125, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 124 0.99
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:128505731 original size:47 final size:46
Alignment explanation
Indices: 128505658--128505977 Score: 190
Period size: 47 Copynumber: 6.8 Consensus size: 46
128505648 TGGGTTATGT
* *
128505658 GAGAGCCAGTATAAGACCATGTCTGGGACATGCCATCGGCATTGAGAC
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCATTGAGAC
* * * *
128505706 GAGGGCTAGTGTAAGACGTGTCTGGGACATGCATCAGTCGCA-T--CAT
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATC-G--GCATTGAGAC
* ** * * * **
128505752 GATAGCCCGTGTAAGACCATGTCTAGGACATGGCATCGGCGTAGAGGT
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTGAGAC
* * * * *
128505800 GAGTGCAAGTGTAAGACATGTCTGGGACATGCATCAGCCTTGATGAT
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGA-GAC
** * * * *
128505847 GTTAGCCAGTGTAAGACGTGTCTGGGACATGCATCGGC--TAAGTTTC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAG--AC
* * *
128505893 -A-TGCTAGTGTAAGACATGTCTGGGACATGCAT-AGCACGTAT-ACAC
1 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCA--T-TGAGAC
128505938 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
128505978 CTCGATGGAG
Statistics
Matches: 208, Mismatches: 43, Indels: 40
0.71 0.15 0.14
Matches are distributed among these distances:
43 2 0.01
44 29 0.14
45 5 0.02
46 28 0.13
47 88 0.42
48 47 0.23
49 7 0.03
50 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (46 bp):
GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAC
Found at i:128505949 original size:91 final size:94
Alignment explanation
Indices: 128505661--128505977 Score: 351
Period size: 94 Copynumber: 3.4 Consensus size: 94
128505651 GTTATGTGAG
* * * * * * *
128505661 AGCCAGTATAAGACCATGTCTGGGACATGCCATCGGCATTGA-GACGAGGGCTAGTGTAAGACGT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGGTC-AGTGCTAGTGTAAGACAT
* *
128505725 GTCTGGGACATGCATCAGTCGCATCATGAT
65 GTCTGGGACATGCATCAGCCGTATCATGAT
* * * *
128505755 AGCCCGTGTAAGACCATGTCTAGGACATGGCATCGGCGTAGAGGTGAGTGCAAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGGTCAGTGCTAGTGTAAGACATG
* * *
128505820 TCTGGGACATGCATCAGCCTTGATGATGTT
66 TCTGGGACATGCATCAGCCGT-ATCATGAT
* *
128505850 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGC-TA-AGTTTCA-TGCTAGTGTAAGACAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAG-GTCAGTGCTAGTGTAAGACAT
* *
128505910 GTCTGGGACATGCAT-AGCACGTATACACGAG
65 GTCTGGGACATGCATCAGC-CGTAT-CATGAT
*
128505941 AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
128505978 CTCGATGGAG
Statistics
Matches: 187, Mismatches: 29, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
90 5 0.03
91 48 0.26
92 17 0.09
93 16 0.09
94 82 0.44
95 19 0.10
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (94 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGGTCAGTGCTAGTGTAAGACATG
TCTGGGACATGCATCAGCCGTATCATGAT
Found at i:128506902 original size:55 final size:55
Alignment explanation
Indices: 128506791--128506917 Score: 141
Period size: 55 Copynumber: 2.3 Consensus size: 55
128506781 AACTTTTAAA
* * * *
128506791 TCAGTATTGTC-CATGGTTAGGCCACACGGACGTGTGCCATAGCCGTGTCTATAAG
1 TCAGTATTG-CACACGGGTAGGCCACACGGACGTATGCCATAGCCGTGCCTATAAG
* * * *
128506846 TCATTATTGCCCACGGGTAGGCCACACGGGCGTATGTCATAGCCGTGCCCTA-AAG
1 TCAGTATTGCACACGGGTAGGCCACACGGACGTATGCCATAGCCGTG-CCTATAAG
*
128506901 TCAGTGTTGCACACGGG
1 TCAGTATTGCACACGGG
128506918 CTGAGGAAGT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
54 1 0.02
55 56 0.93
56 3 0.05
ACGTcount: A:0.21, C:0.26, G:0.28, T:0.24
Consensus pattern (55 bp):
TCAGTATTGCACACGGGTAGGCCACACGGACGTATGCCATAGCCGTGCCTATAAG
Found at i:128507359 original size:30 final size:30
Alignment explanation
Indices: 128507325--128507386 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
128507315 ATACATATTT
128507325 ACTACTAAAACTTATCATTTGATAACTTTA
1 ACTACTAAAACTTATCATTTGATAACTTTA
128507355 ACTACTAAAACTTATCATTTGATAACTTTA
1 ACTACTAAAACTTATCATTTGATAACTTTA
128507385 AC
1 AC
128507387 ATTTCTTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.03, T:0.39
Consensus pattern (30 bp):
ACTACTAAAACTTATCATTTGATAACTTTA
Found at i:128508245 original size:17 final size:17
Alignment explanation
Indices: 128508213--128508255 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
128508203 TAAGGTTCTT
* *
128508213 CAATTCACTTTTCATATA
1 CAATTCAATATTCATA-A
128508231 CAA-TCAATATTCATAA
1 CAATTCAATATTCATAA
128508247 CAATTCAAT
1 CAATTCAAT
128508256 TAATCACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 4 0.18
17 15 0.68
18 3 0.14
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.37
Consensus pattern (17 bp):
CAATTCAATATTCATAA
Found at i:128508283 original size:5 final size:5
Alignment explanation
Indices: 128508273--128508302 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
128508263 ACATACTCAT
*
128508273 AATTC AATTC AATTC AATCC AATTC AATTC
1 AATTC AATTC AATTC AATTC AATTC AATTC
128508303 CACAATACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTC
Found at i:128508922 original size:12 final size:13
Alignment explanation
Indices: 128508905--128508942 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
128508895 ATTTTTCCTT
128508905 CTTTCTTTTCT-C
1 CTTTCTTTTCTCC
128508917 CTTTCTTTTTCTCC
1 CTTTC-TTTTCTCC
128508931 CTATTCTTTTCT
1 CT-TTCTTTTCT
128508943 GTTTCGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.22
13 6 0.26
14 9 0.39
15 3 0.13
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.66
Consensus pattern (13 bp):
CTTTCTTTTCTCC
Found at i:128509051 original size:15 final size:15
Alignment explanation
Indices: 128509031--128509073 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
128509021 ATTATATTAT
*
128509031 AATAATAATTACTTA
1 AATAATAATTACATA
* *
128509046 AATAATAAGTAAATA
1 AATAATAATTACATA
*
128509061 CATAATAATTACA
1 AATAATAATTACA
128509074 AGTATATTTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (15 bp):
AATAATAATTACATA
Found at i:128512736 original size:13 final size:15
Alignment explanation
Indices: 128512708--128512739 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
128512698 ACCCTAATTC
128512708 CTCCTTCTTCTTTTT
1 CTCCTTCTTCTTTTT
128512723 CTCCTT-TT-TTTTT
1 CTCCTTCTTCTTTTT
128512736 CTCC
1 CTCC
128512740 CTATTCTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 2 0.12
15 6 0.35
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (15 bp):
CTCCTTCTTCTTTTT
Found at i:128512860 original size:15 final size:15
Alignment explanation
Indices: 128512840--128512882 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
128512830 ATTATATTAT
*
128512840 AATAATAATTACTTA
1 AATAATAATTACATA
* *
128512855 AATAATAAGTAAATA
1 AATAATAATTACATA
128512870 AATAATAATTACA
1 AATAATAATTACA
128512883 AGTATATGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (15 bp):
AATAATAATTACATA
Found at i:128513617 original size:37 final size:37
Alignment explanation
Indices: 128513567--128513642 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
128513557 GTGGATCGAG
*
128513567 TAAAGTGACACCAAAATCTTTCAACAAAGACTGAAGC
1 TAAAGTGACACCAAAATCTTTCAACAAAGACTAAAGC
*
128513604 TAAAGTGACACCAAAATCTTTCAATAAAGACTAAAGC
1 TAAAGTGACACCAAAATCTTTCAACAAAGACTAAAGC
128513641 TA
1 TA
128513643 GATGATTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.47, C:0.20, G:0.12, T:0.21
Consensus pattern (37 bp):
TAAAGTGACACCAAAATCTTTCAACAAAGACTAAAGC
Found at i:128514757 original size:3 final size:3
Alignment explanation
Indices: 128514749--128514777 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
128514739 TTGGATGTTT
128514749 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
128514778 TAGTATGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:128519172 original size:26 final size:26
Alignment explanation
Indices: 128519139--128519200 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
128519129 TTACTTGAGC
*
128519139 AAAATTTTGACAATTTTACCCCCTA-T
1 AAAATTTTGACAATTATA-CCCCTATT
** *
128519165 AAAATTTTGATGATTATACCCTTATT
1 AAAATTTTGACAATTATACCCCTATT
128519191 AAAATTTTGA
1 AAAATTTTGA
128519201 GAAATTTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.37, C:0.15, G:0.06, T:0.42
Consensus pattern (26 bp):
AAAATTTTGACAATTATACCCCTATT
Found at i:128523634 original size:23 final size:22
Alignment explanation
Indices: 128523584--128523635 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 22
128523574 TTAAAATTTA
*
128523584 ATTTG-AATATGTAAGTTATAT
1 ATTTGAAATATATAAGTTATAT
128523605 -TTT-AAATATATAATGTTATAT
1 ATTTGAAATATATAA-GTTATAT
128523626 ATTTGAAATA
1 ATTTGAAATA
128523636 AATTTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 11 0.42
21 7 0.27
22 3 0.12
23 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (22 bp):
ATTTGAAATATATAAGTTATAT
Found at i:128526929 original size:2 final size:2
Alignment explanation
Indices: 128526924--128526969 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
128526914 ATATAAGTTC
128526924 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
128526966 AT AT
1 AT AT
128526970 TTAAGTATGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:128528719 original size:15 final size:15
Alignment explanation
Indices: 128528691--128528735 Score: 63
Period size: 15 Copynumber: 3.0 Consensus size: 15
128528681 TTATATAGTA
128528691 TAATTAAAGATTAAT
1 TAATTAAAGATTAAT
* *
128528706 TAATTTAAGCTTAAT
1 TAATTAAAGATTAAT
*
128528721 TAATTAAACATTAAT
1 TAATTAAAGATTAAT
128528736 CAATGATAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (15 bp):
TAATTAAAGATTAAT
Done.