Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 406 of 433
Found at i:125574194 original size:132 final size:132
Alignment explanation
Indices: 125573955--125574273 Score: 440
Period size: 132 Copynumber: 2.4 Consensus size: 132
125573945 TAAAGAAACA
* * *
125573955 AGATTTGGCATCTCTATGTTTATAGGAAAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCT
1 AGATTTGGCATCCCTGTGTTTATAGG-GAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCT
* ** * * *
125574020 TACAGTGAAGTAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
65 TACAGCGAAACAGATCAAAGATTTCAACATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGAT
125574085 AGC
130 AGC
* * * *
125574088 AGATTTGGCATCCCTGTGTTTATAGGGAATAGGTCGAAGATAGCAGATCTGGCATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
* * * *
125574153 ACAGCGAAACAGATCAAAGATTTTAACCTGACATCCTTGTGTTTATAGGGAATAAGTTGAAGATA
66 ACAGCGAAACAGATCAAAGATTTCAACATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
125574218 GC
131 GC
* *
125574220 AGATTTGGCATCCCTGTGTTTACAGGGAACAAATCGAAGATATAGCAGATCTGA
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAG--ATAGCAGATCTGA
125574274 TTTTCGGATG
Statistics
Matches: 162, Mismatches: 22, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
132 126 0.78
133 24 0.15
134 12 0.07
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAACAGATCAAAGATTTCAACATGACATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:125574705 original size:175 final size:175
Alignment explanation
Indices: 125574221--125574712 Score: 770
Period size: 175 Copynumber: 2.8 Consensus size: 175
125574211 GAAGATAGCA
* * * * * *
125574221 GATTTGGCATCCCTGTGTTTACAGGGAACAAATCGAAGATATAGCAGATCTGATTTTCGGATGTT
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
* *
125574286 CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGGTACAT
66 CTCACACCAAATCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGGTACAT
**
125574351 AATAGGTCTAACCTTCAGATGTTTATACTGAAGCAAATCCAAGAT
131 AGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAAATCCAAGAT
* *
125574396 GATTTGGCATTCTTGTGTTTACAAAGAACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTT
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
* * * * *
125574461 CTCACACCAAAGT-AGATCAAAGATAACAAATCTAGCATCTCCATTTTGACGGTGAGTAGGTACA
66 CTCACACCAAA-TCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGGTACA
* *
125574525 TAGCAGGTCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGAT
130 TAGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAAATCCAAGAT
125574571 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
1 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
* *
125574636 CTCACACCAAATCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGATATAT
66 CTCACACCAAATCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGGTACAT
*
125574701 AGCAGATCTAAC
131 AGCAGGTCTAAC
125574713 TGTAGCACCC
Statistics
Matches: 286, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
174 1 0.00
175 285 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (175 bp):
GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
CTCACACCAAATCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGTAGGTACAT
AGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAAATCCAAGAT
Found at i:125577381 original size:26 final size:26
Alignment explanation
Indices: 125577350--125577457 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
125577340 TGAAATTCCC
125577350 ATCATGGAACATTTACCTAAACC-ATT
1 ATCATGGAACATTTACCT-AACCAATT
*
125577376 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAACCAATT
*
125577402 ATCATGGAATATTTACCTAATCC-ATT
1 ATCATGGAACATTTACCTAA-CCAATT
125577428 ATCATGGAACATTTACCTAACCAATT
1 ATCATGGAACATTTACCTAACCAATT
125577454 ATCA
1 ATCA
125577458 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
25 6 0.08
26 69 0.90
27 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCAATT
Found at i:125577428 original size:52 final size:52
Alignment explanation
Indices: 125577350--125577457 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
125577340 TGAAATTCCC
*
125577350 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCAATT
* *
125577402 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCAATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCAATT
125577454 ATCA
1 ATCA
125577458 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCAATT
Found at i:125578223 original size:3 final size:3
Alignment explanation
Indices: 125578215--125578264 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
125578205 TCCAAAAATA
125578215 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
125578263 AA
1 AA
125578265 AACAAAGTCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:125578408 original size:14 final size:15
Alignment explanation
Indices: 125578389--125578426 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
125578379 AATCTTTAAG
125578389 GATATG-CAATCTTA
1 GATATGACAATCTTA
125578403 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
125578420 GATATGA
1 GATATGA
125578427 TATGCAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:125578436 original size:19 final size:19
Alignment explanation
Indices: 125578389--125578455 Score: 111
Period size: 19 Copynumber: 3.6 Consensus size: 19
125578379 AATCTTTAAG
125578389 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
125578408 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
125578425 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
125578444 GATATGCAATCT
1 GATATGCAATCT
125578456 GGAAGATATG
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
17 17 0.38
19 28 0.62
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:125588151 original size:206 final size:206
Alignment explanation
Indices: 125587794--125588345 Score: 845
Period size: 206 Copynumber: 2.7 Consensus size: 206
125587784 CTGCTTCTTC
* **
125587794 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCACACGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGA
* * * * * *
125587859 AAACCAAATCAGCTATG-TCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGA
66 AAGCTAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGA
* * * ** * * * *
125587923 TCTGCTTCAGTCTAATCATCTGAATGTTAGATCTGCTATTTGTCTGCTCTCCATCGAATATGGAG
130 TCTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTATATGCTCTCCATCGAATATGGAG
125587988 ACGCCAAACTTA
195 ACGCCAAACTTA
125588000 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGA
125588065 AAGCTAAATCAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGAT
66 AAGCTAAATCAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGAT
* *
125588130 CTGCTTCAGTATAAACATCTGAAGGCCGGATCTACTATGTATATGCTCTCCGTCGAATATGGAGA
131 CTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTATATGCTCTCCATCGAATATGGAGA
* *
125588195 CTCCAAACTTC
196 CGCCAAACTTA
* *
125588206 GATTTGTTCTCTAACAATACAGAGATTCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGA
1 GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGA
* *
125588271 AAGCTAAATCAACTATGATTTTGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGAT
66 AAGCTAAATCAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGAT
125588336 CTTGCTTCAG
131 C-TGCTTCAG
125588346 CTAGATCTGC
Statistics
Matches: 318, Mismatches: 26, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
206 309 0.97
207 9 0.03
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (206 bp):
GATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAGCGTAAGCACGTGA
AAGCTAAATCAGCTATGATTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCTTGGAT
CTGCTTCAGTATAAACATCTGAAGGCCAGATCTACTATGTATATGCTCTCCATCGAATATGGAGA
CGCCAAACTTA
Found at i:125605353 original size:29 final size:29
Alignment explanation
Indices: 125605317--125605384 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
125605307 GGGCCAATTG
125605317 GGCCGTGTGGGCCACACGGGCGTATTTGA
1 GGCCGTGTGGGCCACACGGGCGTATTTGA
*
125605346 GGTCGTGTGGGCCACACGGGCGTATTTGA
1 GGCCGTGTGGGCCACACGGGCGTATTTGA
125605375 GGCCGTGTGG
1 GGCCGTGTGG
125605385 ACCTATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.12, C:0.22, G:0.44, T:0.22
Consensus pattern (29 bp):
GGCCGTGTGGGCCACACGGGCGTATTTGA
Found at i:125606133 original size:27 final size:25
Alignment explanation
Indices: 125606076--125606162 Score: 67
Period size: 26 Copynumber: 3.5 Consensus size: 25
125606066 ATACATAAGA
* *
125606076 ATATAATATTAATATATGTATACTTA-
1 ATATTATAATAATATAT-TATA-TTAT
125606102 ATATT-TAAGTATATATATTATATTAT
1 ATATTATAA-TA-ATATATTATATTAT
125606128 ATTATTATAATAATATA--ATATTAT
1 A-TATTATAATAATATATTATATTAT
*
125606152 -TATAATAATAA
1 ATATTATAATAA
125606163 CTAAAAGAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
22 10 0.19
24 7 0.13
25 5 0.09
26 16 0.30
27 12 0.23
28 3 0.06
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (25 bp):
ATATTATAATAATATATTATATTAT
Found at i:125606143 original size:19 final size:19
Alignment explanation
Indices: 125606121--125606161 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
125606111 TATATATATT
*
125606121 ATATTATATTATTATAATA
1 ATATAATATTATTATAATA
125606140 ATATAATATTATTATAATA
1 ATATAATATTATTATAATA
125606159 ATA
1 ATA
125606162 ACTAAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATAATATTATTATAATA
Found at i:125606182 original size:21 final size:21
Alignment explanation
Indices: 125606150--125606192 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
125606140 ATATAATATT
*
125606150 ATTATAATAATAACTAAAAGA
1 ATTATAATAATAAATAAAAGA
125606171 ATTAGTAA-AATAAATAAAAGA
1 ATTA-TAATAATAAATAAAAGA
125606192 A
1 A
125606193 AAAGAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (21 bp):
ATTATAATAATAAATAAAAGA
Found at i:125606607 original size:80 final size:82
Alignment explanation
Indices: 125606523--125606680 Score: 196
Period size: 80 Copynumber: 2.0 Consensus size: 82
125606513 ATAAAACACG
*
125606523 GAGCAATAGCGGCG-TTTTACCAAAAACGCCGCCAAAAA-CAGAGCA-AAGCCGCGCTTTTAGTA
1 GAGCAATAGCGGCGCTTTT-CCAAAAACGCCGCCAAAAACCAGAGCATAAGCCGCGCTTTTAGCA
*
125606585 AAACGCCGCTAAAAACCA
65 AAACGCCACTAAAAACCA
* *** * * * *
125606603 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGCAA
1 GAGCAATAGCGGCGCTTTTCCAAAAACGCCGCCAAAAACCAGAGCATAAGCCGCGCTTTTAGCAA
125606668 AACGCCACTAAAA
66 AACGCCACTAAAA
125606681 GTCATATAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
80 28 0.43
81 11 0.17
82 26 0.40
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.16
Consensus pattern (82 bp):
GAGCAATAGCGGCGCTTTTCCAAAAACGCCGCCAAAAACCAGAGCATAAGCCGCGCTTTTAGCAA
AACGCCACTAAAAACCA
Found at i:125606630 original size:41 final size:41
Alignment explanation
Indices: 125606545--125606680 Score: 204
Period size: 41 Copynumber: 3.4 Consensus size: 41
125606535 CGTTTTACCA
* * * *
125606545 AAAACGCCGCCAAAAA-CAGAGCA-AAGCCGCGCTTTTAGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
125606584 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
*
125606625 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGC
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
*
125606666 AAAACGCCACTAAAA
1 AAAACGCCGCTAAAA
125606681 GTCATATAAT
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 15 0.17
40 7 0.08
41 67 0.75
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.15
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
Found at i:125606742 original size:47 final size:48
Alignment explanation
Indices: 125606685--125606816 Score: 133
Period size: 54 Copynumber: 2.6 Consensus size: 48
125606675 CTAAAAGTCA
* *
125606685 TATAATCCCTAAAACCCTAAACCCCAAAAAAATA-A-TAAACACTAATC
1 TATAACCCCTAAAACCCTAAACCCCAAAAAAA-ACACTAAACACTAAAC
* *
125606732 TATAACCCCTAAAACACTAAACCCCTAAATCCTAAAAACACCTAAATACTAAAC
1 TATAACCCCTAAAACCCTAAACCCC-AAA----AAAAACA-CTAAACACTAAAC
* *
125606786 TATAACCCTTAAAACCCTAAACTCCAAAAAA
1 TATAACCCCTAAAACCCTAAACCCCAAAAAA
125606817 CATCATATGG
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
47 23 0.33
48 3 0.04
49 3 0.04
51 1 0.01
52 5 0.07
53 3 0.04
54 32 0.46
ACGTcount: A:0.52, C:0.30, G:0.00, T:0.19
Consensus pattern (48 bp):
TATAACCCCTAAAACCCTAAACCCCAAAAAAAACACTAAACACTAAAC
Found at i:125606775 original size:17 final size:17
Alignment explanation
Indices: 125606750--125606784 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
125606740 CTAAAACACT
* *
125606750 AAACCCCTAAATCCTAA
1 AAACACCTAAATACTAA
125606767 AAACACCTAAATACTAA
1 AAACACCTAAATACTAA
125606784 A
1 A
125606785 CTATAACCCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.29, G:0.00, T:0.17
Consensus pattern (17 bp):
AAACACCTAAATACTAA
Found at i:125607849 original size:13 final size:13
Alignment explanation
Indices: 125607831--125607863 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
125607821 GTTAGACTGT
125607831 CTAAAATTTCCCC
1 CTAAAATTTCCCC
125607844 CTAAAATTTCCCC
1 CTAAAATTTCCCC
125607857 CTAAAAT
1 CTAAAAT
125607864 CGGTATCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (13 bp):
CTAAAATTTCCCC
Found at i:125608013 original size:14 final size:14
Alignment explanation
Indices: 125607994--125608033 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
125607984 CTTTCTTCTT
125607994 TAAATCTCCATCTC
1 TAAATCTCCATCTC
*
125608008 TAAATCTCCTTCTC
1 TAAATCTCCATCTC
125608022 TAAATCTCCATC
1 TAAATCTCCATC
125608034 CCTTTGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.28, C:0.35, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAATCTCCATCTC
Found at i:125612340 original size:43 final size:43
Alignment explanation
Indices: 125612289--125612389 Score: 166
Period size: 43 Copynumber: 2.3 Consensus size: 43
125612279 AAGGTTATAT
*
125612289 TCTTTAGCGGCGTTTATGGGAAAAGCGCCGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCATGG
* *
125612332 TCTTTAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCATGG
*
125612375 TCTTTAGCGTCGTTT
1 TCTTTAGCGGCGTTT
125612390 TTTTAAATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTATGGAAAAAGCGCCGCTAAAGGTCATGG
Found at i:125619296 original size:18 final size:18
Alignment explanation
Indices: 125619273--125619312 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
125619263 GTTCCACTAG
*
125619273 TCGATGAATCCTCATTAT
1 TCGATGAACCCTCATTAT
*
125619291 TCGATGTACCCTCATTAT
1 TCGATGAACCCTCATTAT
125619309 TCGA
1 TCGA
125619313 CACACATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (18 bp):
TCGATGAACCCTCATTAT
Found at i:125626312 original size:21 final size:21
Alignment explanation
Indices: 125626282--125626324 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
125626272 AAAATGATGT
*
125626282 AAATTGAAAGTTTA-TGATAG
1 AAATTGAAAGGTTAGTGATAG
125626302 AAATGTGAAAGGTTAGTGATAG
1 AAAT-TGAAAGGTTAGTGATAG
125626324 A
1 A
125626325 TAAATAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 9 0.45
22 7 0.35
ACGTcount: A:0.44, C:0.00, G:0.26, T:0.30
Consensus pattern (21 bp):
AAATTGAAAGGTTAGTGATAG
Found at i:125627035 original size:66 final size:63
Alignment explanation
Indices: 125626950--125627107 Score: 163
Period size: 65 Copynumber: 2.4 Consensus size: 63
125626940 TTTGATCTCA
** * *
125626950 TCATGAAAAGGAAAGGTATACTTTGTGTATACAATTTGAAAAGGCTATGTATACTTTGTTTATAC
1 TCATGAAAAGGTTA-GTATACTTTGTGTATAC-ACTTGAAAAGGCTATGTATACTTTGTGTATAC
* * * * *
125627015 TACATGAAAAGGTTATGTATACTTAGTGTGTACACTTGAAAAGGGTGTGTATACTTTGTGTGTAC
1 T-CATGAAAAGGTTA-GTATACTTTGTGTATACACTTGAAAAGGCTATGTATACTTTGTGTATAC
* **
125627080 TCTTGAAAAGGATTAGTGCACTTTGTGT
1 TCATGAAAAGG-TTAGTATACTTTGTGT
125627108 GTACCATTAA
Statistics
Matches: 77, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
64 19 0.25
65 32 0.42
66 26 0.34
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.37
Consensus pattern (63 bp):
TCATGAAAAGGTTAGTATACTTTGTGTATACACTTGAAAAGGCTATGTATACTTTGTGTATAC
Found at i:125627066 original size:32 final size:33
Alignment explanation
Indices: 125626965--125627090 Score: 139
Period size: 33 Copynumber: 3.9 Consensus size: 33
125626955 AAAAGGAAAG
*
125626965 GTATACTTTGTGTATACAATTTGAAAAGGCTAT
1 GTATACTTTGTGTATACAACTTGAAAAGGCTAT
* * * *
125626998 GTATACTTTGTTTATACTACATGAAAAGGTTAT
1 GTATACTTTGTGTATACAACTTGAAAAGGCTAT
* * * *
125627031 GTATACTTAGTGTGTAC-ACTTGAAAAGGGTGT
1 GTATACTTTGTGTATACAACTTGAAAAGGCTAT
* *
125627063 GTATACTTTGTGTGTAC-TCTTGAAAAGG
1 GTATACTTTGTGTATACAACTTGAAAAGG
125627091 ATTAGTGCAC
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
32 38 0.47
33 42 0.52
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (33 bp):
GTATACTTTGTGTATACAACTTGAAAAGGCTAT
Found at i:125627103 original size:32 final size:32
Alignment explanation
Indices: 125626969--125627111 Score: 108
Period size: 32 Copynumber: 4.4 Consensus size: 32
125626959 GGAAAGGTAT
* * * * *
125626969 ACTTTGTGTATACAATTTGAAAAGGCTATGTAT
1 ACTTTGTGTGTAC-ACTTGAAAAGGATGTGTAC
* * * * * *
125627002 ACTTTGTTTATACTACATGAAAAGGTTATGTAT
1 ACTTTGTGTGTAC-ACTTGAAAAGGATGTGTAC
* * *
125627035 ACTTAGTGTGTACACTTGAAAAGGGTGTGTAT
1 ACTTTGTGTGTACACTTGAAAAGGATGTGTAC
* *
125627067 ACTTTGTGTGTACTCTTGAAAAGGAT-TAGTGC
1 ACTTTGTGTGTACACTTGAAAAGGATGT-GTAC
125627099 ACTTTGTGTGTAC
1 ACTTTGTGTGTAC
125627112 CATTAAAAAG
Statistics
Matches: 93, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
31 1 0.01
32 54 0.58
33 38 0.41
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (32 bp):
ACTTTGTGTGTACACTTGAAAAGGATGTGTAC
Found at i:125629086 original size:19 final size:19
Alignment explanation
Indices: 125629062--125629159 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
125629052 AATCTTTAAG
125629062 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
125629081 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
125629100 GATA--CAATCTTAGACAT
1 GATATGCAATCTTAGATAT
125629117 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
125629136 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
125629157 GAT
1 GAT
125629160 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
21 9 0.12
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:125629093 original size:36 final size:35
Alignment explanation
Indices: 125629052--125629159 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
125629042 ATGAAAATAT
125629052 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
*
125629088 AATC-TT-AGATATGATACAATCTTAGACATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
125629124 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
125629160 CTTGTAATCT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 27 0.46
37 1 0.02
38 7 0.12
40 9 0.15
41 6 0.10
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:125634817 original size:21 final size:20
Alignment explanation
Indices: 125634793--125634859 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
125634783 TCTATTTAAA
125634793 AAAAAGGAAAAAAAAGAAAAG
1 AAAAAGGAAAAAAAA-AAAAG
125634814 AAAAAGAGAAAAAAATAAAAA-
1 AAAAAG-GAAAAAAA-AAAAAG
* *
125634835 AAAGAGAAAAAAATAAAAAAG
1 AAAAAGGAAAAAA-AAAAAAG
125634856 AAAA
1 AAAA
125634860 TGGAGAGGCC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 11 0.28
21 15 0.38
22 12 0.31
23 1 0.03
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (20 bp):
AAAAAGGAAAAAAAAAAAAG
Found at i:125634825 original size:19 final size:19
Alignment explanation
Indices: 125634789--125634854 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
125634779 GACTTCTATT
125634789 TAAAAAAAAG-GAAAAAAAA
1 TAAAAAAAAGAG-AAAAAAA
*
125634808 GAAAAGAAAAAGAGAAAAAAA
1 -TAAA-AAAAAGAGAAAAAAA
125634829 TAAAAAAAAGAGAAAAAAA
1 TAAAAAAAAGAGAAAAAAA
125634848 TAAAAAA
1 TAAAAAA
125634855 GAAAATGGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
19 22 0.52
20 6 0.14
21 13 0.31
22 1 0.02
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (19 bp):
TAAAAAAAAGAGAAAAAAA
Found at i:125634844 original size:17 final size:16
Alignment explanation
Indices: 125634790--125634859 Score: 61
Period size: 17 Copynumber: 4.2 Consensus size: 16
125634780 ACTTCTATTT
*
125634790 AAAAAAAAGGAAAAAA-
1 AAAAAAAA-AAAAAAAG
* * *
125634806 AAGAAAAGAAAAAGAG
1 AAAAAAAAAAAAAAAG
125634822 AAAAAAATAAAAAAAAG
1 AAAAAAA-AAAAAAAAG
*
125634839 AGAAAAAAATAAAAAAG
1 A-AAAAAAAAAAAAAAG
125634856 AAAA
1 AAAA
125634860 TGGAGAGGCC
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
15 5 0.12
16 15 0.35
17 17 0.40
18 6 0.14
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAG
Found at i:125636130 original size:206 final size:206
Alignment explanation
Indices: 125635768--125636735 Score: 1470
Period size: 206 Copynumber: 4.7 Consensus size: 206
125635758 GCAGATCTGG
125635768 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
* ** * *
125635833 GATTTGGCTTTCACGTGCTTACAATGAAGCAAATCTAAGATGATTTGGCATCTCTATATTGTTAG
65 GATTTGGCTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* **
125635898 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGATACATAGCAGATCTGGCCTT
130 AGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTT
* *
125635963 CAGATGTTTATA
195 CAGATGATTAGA
* * * *
125635975 CTGAAGCAGATCCAAGATGATTTGGCATCATTGTGTTTACAAGGAACAAATCGAAGACATAGCTA
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * * *
125636040 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAAA
66 ATTTGGCTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * **
125636105 GAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGATACATAGTACATCTGGCCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTC
* *
125636170 AGATGTTTATA
196 AGATGATTAGA
* * *
125636181 CTGAAGCAGATCCAAGATGATTTGGCATCATTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
125636246 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAGTCTAAAATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
125636311 GAACAAATCGAAGTTTGGCGTCTCCATATTCGATGGAGGGCAGACACATAGCAGATCTAACCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTC
125636376 AGATGATTAGA
196 AGATGATTAGA
* * * *
125636387 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAATGAGCAAATTGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
125636452 ATTTGGTTTTCGCGTGCTTACGCTAAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
125636517 GAACAAATCGAATTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCATATCTAACCTTC
131 GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTC
125636582 AGATGATTAGA
196 AGATGATTAGA
* * * *
125636593 CTGAAGTAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATTGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
*
125636658 ATTTGG-TCTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTATGTATTGTCAG
66 ATTTGGCT-TTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
125636722 AGAACAAATCGAAG
130 AGAACAAATCGAAG
125636736 AAGTAGATTT
Statistics
Matches: 714, Mismatches: 46, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
205 1 0.00
206 706 0.99
207 7 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTC
AGATGATTAGA
Found at i:125636746 original size:43 final size:44
Alignment explanation
Indices: 125636698--125636780 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
125636688 AATCTAAGAT
*
125636698 GATTTGGCATCTATGT-ATTGTCAGAGAACAAATCGAAGAAGTA
1 GATTTGGCATCTATGTGATTGGCAGAGAACAAATCGAAGAAGTA
* * * * *
125636741 GATTTGGCGTCTCTGTGTTTGGCAGAGAGCAGATCGAAGA
1 GATTTGGCATCTATGTGATTGGCAGAGAACAAATCGAAGA
125636781 TATCAACATG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 14 0.42
44 19 0.58
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (44 bp):
GATTTGGCATCTATGTGATTGGCAGAGAACAAATCGAAGAAGTA
Found at i:125637131 original size:14 final size:15
Alignment explanation
Indices: 125637112--125637168 Score: 53
Period size: 17 Copynumber: 3.5 Consensus size: 15
125637102 AATCTTTAAG
125637112 GATATG-CAATCTTA
1 GATATGACAATCTTA
125637126 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
125637143 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
125637162 GATATGA
1 GATATGA
125637169 TATGCAATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.16
17 18 0.47
19 14 0.37
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:125637153 original size:36 final size:38
Alignment explanation
Indices: 125637112--125637190 Score: 126
Period size: 36 Copynumber: 2.1 Consensus size: 38
125637102 AATCTTTAAG
125637112 GATATGCAATCTTAGATATGATA-CAATCTT-AGATAT
1 GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
125637148 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGATA-GCAATCTT-AAGATAT
125637188 GAT
1 GAT
125637191 CTTGTAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 23 0.59
38 7 0.18
40 9 0.23
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:125637159 original size:19 final size:19
Alignment explanation
Indices: 125637112--125637190 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
125637102 AATCTTTAAG
125637112 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
125637131 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
125637148 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
125637167 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
125637188 GAT
1 GAT
125637191 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:125637577 original size:2 final size:2
Alignment explanation
Indices: 125637572--125637597 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
125637562 TTTTCTATGC
125637572 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
125637598 TATTATCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125639220 original size:53 final size:53
Alignment explanation
Indices: 125639139--125639313 Score: 214
Period size: 53 Copynumber: 3.3 Consensus size: 53
125639129 TTGGCTTTCT
*
125639139 AATGGCCGACACCA-GTACGAAAAAAAATCAAAATTTTTTTGTGCTGACCTGTC
1 AATGGCCGGCACCAGGTACG-AAAAAAATCAAAATTTTTTTGTGCTGACCTGTC
* * * * *
125639192 AATGGCCAGCACTAGGTACGAAACAAATC--ATTTTTTTTGTGTTGACCTGTC
1 AATGGCCGGCACCAGGTACGAAAAAAATCAAAATTTTTTTGTGCTGACCTGTC
* ** *
125639243 AATGGCCGGCACCA-GTACAAAAAAAAATCAAAATTTTTTTGTGCTGGTCTATC
1 AATGGCCGGCACCAGGTAC-GAAAAAAATCAAAATTTTTTTGTGCTGACCTGTC
125639296 AATGGCCGGCACCAGGTA
1 AATGGCCGGCACCAGGTA
125639314 TGAGTATTTA
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
50 4 0.04
51 40 0.39
53 50 0.49
54 8 0.08
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (53 bp):
AATGGCCGGCACCAGGTACGAAAAAAATCAAAATTTTTTTGTGCTGACCTGTC
Found at i:125639351 original size:104 final size:103
Alignment explanation
Indices: 125639124--125639352 Score: 282
Period size: 104 Copynumber: 2.2 Consensus size: 103
125639114 TTAAAAAAAA
* *
125639124 TTGTTTTGGCTTTCTAATGGCCGACACCAGTACGAAAAAAAATCAAAATTTTTTTGTGCTGACCT
1 TTGTTTTGGCCTTCTAATGGCCGACACCAGTACAAAAAAAAATCAAAATTTTTTTGTGCTGACCT
* *
125639189 GTCAATGGCCAGCACTAGGTACGAAACAAATCATTTTTT
66 ATCAATGGCCAGCACCAGGTACGAAACAAAT-ATTTTTT
* * * **
125639228 TTGTGTTGACCTGTC-AATGGCCGGCACCAGTACAAAAAAAAATCAAAATTTTTTTGTGCTGGTC
1 TTGTTTTGGCCT-TCTAATGGCCGACACCAGTACAAAAAAAAATCAAAATTTTTTTGTGCTGACC
* * ***
125639292 TATCAATGGCCGGCACCAGGTATGAGTATTTAAT-TTTTTT
65 TATCAATGGCCAGCACCAGGTACGA--AACAAATATTTTTT
125639332 TTGTTTTGGCCTTCTAATGGC
1 TTGTTTTGGCCTTCTAATGGC
125639353 TAGCATCAAC
Statistics
Matches: 105, Mismatches: 16, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
103 2 0.02
104 97 0.92
105 2 0.02
106 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (103 bp):
TTGTTTTGGCCTTCTAATGGCCGACACCAGTACAAAAAAAAATCAAAATTTTTTTGTGCTGACCT
ATCAATGGCCAGCACCAGGTACGAAACAAATATTTTTT
Found at i:125639367 original size:104 final size:103
Alignment explanation
Indices: 125639158--125639374 Score: 240
Period size: 104 Copynumber: 2.1 Consensus size: 103
125639148 CACCAGTACG
* *
125639158 AAAAAAAATCAAAATTTTTTTGTGCTGACCTGTCAATGGCCAGCACTAGGTACGAAACAAATCAT
1 AAAAAAAATCAAAATTTTTTTGTGCTGACCTATCAATGGCCAGCACCAGGTACGAAACAAAT-AT
* **
125639223 TTTTTTTGTGTTGACCTGTCAATGGCCGGCACCAGTACA
65 TTTTTTTGTGTTGACCTGTCAATGGCCAGCACCAACACA
** * * ***
125639262 AAAAAAAATCAAAATTTTTTTGTGCTGGTCTATCAATGGCCGGCACCAGGTATGAGTATTTAAT-
1 AAAAAAAATCAAAATTTTTTTGTGCTGACCTATCAATGGCCAGCACCAGGTACGA--AACAAATA
* * * *
125639326 TTTTTTTTGTTTTGGCCT-TCTAATGGCTAGCATCAACACA
64 TTTTTTTTGTGTTGACCTGTC-AATGGCCAGCACCAACACA
125639366 AAAAAAAAT
1 AAAAAAAAT
125639375 TTGAATTTTT
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
103 2 0.02
104 88 0.94
106 4 0.04
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Consensus pattern (103 bp):
AAAAAAAATCAAAATTTTTTTGTGCTGACCTATCAATGGCCAGCACCAGGTACGAAACAAATATT
TTTTTTGTGTTGACCTGTCAATGGCCAGCACCAACACA
Found at i:125640568 original size:29 final size:31
Alignment explanation
Indices: 125640522--125640579 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
125640512 AATTTAATAG
* *
125640522 ATTTTAGAGAGGTTTAAATAG-CAATTTTCT
1 ATTTTAGAGAGGTATAAAGAGTCAATTTTCT
125640552 ATTTTAGAG-GGTATAAAGAGTCAATTTT
1 ATTTTAGAGAGGTATAAAGAGTCAATTTT
125640580 ATATGAAGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.34, C:0.05, G:0.19, T:0.41
Consensus pattern (31 bp):
ATTTTAGAGAGGTATAAAGAGTCAATTTTCT
Found at i:125641324 original size:21 final size:21
Alignment explanation
Indices: 125641295--125641334 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
125641285 AGCGGTGATG
125641295 ATGACATTAATTACTATAGCA
1 ATGACATTAATTACTATAGCA
* *
125641316 ATGAGATTAGTTACTATAG
1 ATGACATTAATTACTATAG
125641335 TGATAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (21 bp):
ATGACATTAATTACTATAGCA
Found at i:125645058 original size:82 final size:78
Alignment explanation
Indices: 125644955--125645112 Score: 199
Period size: 81 Copynumber: 2.0 Consensus size: 78
125644945 ATTAACTTAT
* * * * *
125644955 TTTTTTATGTCATTTAAAGTAAATACAATTTAAAATAAGGTTAAAAGTCGAGTCAACTAGATCTA
1 TTTTTTATGTCATTAAAAGTAAACACAATCTAAAATAAGGCT-AAAGTCAAGTCAACTAGATCTA
125645020 TGATTTTTTATTTA
65 TGATTTTTTATTTA
* * * *
125645034 TTTTTTATGTCATCTAAATTAGTAAACCCAATCTAAAATAATGCTGAAGTCAAGTCAATTAGATC
1 TTTTTTATGTCAT-TAAA--AGTAAACACAATCTAAAATAAGGCTAAAGTCAAGTCAACTAGATC
125645099 TATGATTTTTTATT
63 TATGATTTTTTATT
125645113 CAATTAGTTG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 13 0.19
80 3 0.04
81 31 0.46
82 20 0.30
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (78 bp):
TTTTTTATGTCATTAAAAGTAAACACAATCTAAAATAAGGCTAAAGTCAAGTCAACTAGATCTAT
GATTTTTTATTTA
Found at i:125646607 original size:22 final size:23
Alignment explanation
Indices: 125646549--125646607 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
125646539 TTAGCATAAA
125646549 TATTTTTCATATTTATCATTAAG
1 TATTTTTCATATTTATCATTAAG
* * **
125646572 TATTATT-ATAATTTA-CTTTACT
1 TATTTTTCAT-ATTTATCATTAAG
125646594 TATTTTTCATATTT
1 TATTTTTCATATTT
125646608 TTTCAACTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
22 16 0.55
23 13 0.45
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTTTTCATATTTATCATTAAG
Found at i:125647037 original size:21 final size:19
Alignment explanation
Indices: 125647011--125647173 Score: 123
Period size: 21 Copynumber: 8.4 Consensus size: 19
125647001 TTAAATGATG
125647011 TTATTTATATTTTTAATTGT
1 TTATTTATATTTTTAA-TGT
125647031 ATTATTTATA-TTTT-AT-T
1 -TTATTTATATTTTTAATGT
125647048 TTATTTATTATTGATTTAGATG-
1 TTATTTA-TATT--TTTA-ATGT
125647070 TTATTTATATTTTTAATTGT
1 TTATTTATATTTTTAA-TGT
125647090 ATTATTTATA-TTTT-AT-T
1 -TTATTTATATTTTTAATGT
125647107 TTATTTATTATTGATTTAGATG-
1 TTATTTA-TATT--TTTA-ATGT
125647129 TTATTTATATTTTTAATTGT
1 TTATTTATATTTTTAA-TGT
125647149 ATTATTTATA-TTTT-AT-T
1 -TTATTTATATTTTTAATGT
125647166 TTATTTAT
1 TTATTTAT
125647174 TATTGATTTA
Statistics
Matches: 122, Mismatches: 0, Indels: 45
0.73 0.00 0.27
Matches are distributed among these distances:
16 22 0.18
17 7 0.06
18 7 0.06
19 15 0.12
20 18 0.15
21 35 0.29
22 18 0.15
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (19 bp):
TTATTTATATTTTTAATGT
Found at i:125647058 original size:19 final size:19
Alignment explanation
Indices: 125647011--125647176 Score: 98
Period size: 19 Copynumber: 8.6 Consensus size: 19
125647001 TTAAATGATG
125647011 TTATTTA-TAT-TTTTAATT
1 TTATTTATTATATTTT-ATT
*
125647029 GTA-TTATTTATATTTTATT
1 TTATTTA-TTATATTTTATT
* *
125647048 TTATTTATTATTGATTTAGATG
1 TTATTTATTA-T-ATTT-TATT
125647070 TTATTTA-TAT-TTTTAATT
1 TTATTTATTATATTTT-ATT
*
125647088 GTA-TTATTTATATTTTATT
1 TTATTTA-TTATATTTTATT
* *
125647107 TTATTTATTATTGATTTAGATG
1 TTATTTATTA-T-ATTT-TATT
125647129 TTATTTA-TAT-TTTTAATT
1 TTATTTATTATATTTT-ATT
*
125647147 GTA-TTATTTATATTTTATT
1 TTATTTA-TTATATTTTATT
125647166 TTATTTATTAT
1 TTATTTATTAT
125647177 TGATTTAGAT
Statistics
Matches: 114, Mismatches: 14, Indels: 39
0.68 0.08 0.23
Matches are distributed among these distances:
17 9 0.08
18 16 0.14
19 34 0.30
20 25 0.22
21 12 0.11
22 18 0.16
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTATTTATTATATTTTATT
Found at i:125647077 original size:59 final size:59
Alignment explanation
Indices: 125647007--125647186 Score: 360
Period size: 59 Copynumber: 3.1 Consensus size: 59
125646997 CCTCTTAAAT
125647007 GATGTTATTTATATTTTTAATTGTATTATTTATATTTTATTTTATTTATTATTGATTTA
1 GATGTTATTTATATTTTTAATTGTATTATTTATATTTTATTTTATTTATTATTGATTTA
125647066 GATGTTATTTATATTTTTAATTGTATTATTTATATTTTATTTTATTTATTATTGATTTA
1 GATGTTATTTATATTTTTAATTGTATTATTTATATTTTATTTTATTTATTATTGATTTA
125647125 GATGTTATTTATATTTTTAATTGTATTATTTATATTTTATTTTATTTATTATTGATTTA
1 GATGTTATTTATATTTTTAATTGTATTATTTATATTTTATTTTATTTATTATTGATTTA
125647184 GAT
1 GAT
125647187 AATAATTAGA
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 121 1.00
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (59 bp):
GATGTTATTTATATTTTTAATTGTATTATTTATATTTTATTTTATTTATTATTGATTTA
Found at i:125648216 original size:13 final size:13
Alignment explanation
Indices: 125648198--125648222 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125648188 TTTTACTTTG
125648198 TTTTAATTTTAAT
1 TTTTAATTTTAAT
125648211 TTTTAATTTTAA
1 TTTTAATTTTAA
125648223 ACACTTTTTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:125648495 original size:29 final size:29
Alignment explanation
Indices: 125648423--125648495 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
125648413 GAAGGCCTTA
* * *
125648423 AAACACACAGACATACGATAGTAATAAGG
1 AAACACACACACAGACGATAGTAATAAGC
*
125648452 AAACACACACGCAGACGATAGTAATAAGC
1 AAACACACACACAGACGATAGTAATAAGC
*
125648481 AAACACATACACAGA
1 AAACACACACACAGA
125648496 TGCAGTAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.52, C:0.22, G:0.15, T:0.11
Consensus pattern (29 bp):
AAACACACACACAGACGATAGTAATAAGC
Found at i:125648822 original size:14 final size:14
Alignment explanation
Indices: 125648781--125648828 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
125648771 ACCCGGGCCC
125648781 ATACAAAAACCAAAA
1 ATACAAAAACC-AAA
*
125648796 AAACAAAATAAACCAAA
1 ATAC--AA-AAACCAAA
125648813 ATACAAAAACCAAA
1 ATACAAAAACCAAA
125648827 AT
1 AT
125648829 TAAAGTCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 10 0.36
15 5 0.18
17 8 0.29
18 5 0.18
ACGTcount: A:0.73, C:0.19, G:0.00, T:0.08
Consensus pattern (14 bp):
ATACAAAAACCAAA
Found at i:125658158 original size:22 final size:23
Alignment explanation
Indices: 125658111--125658159 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
125658101 TTATCAAACC
* *
125658111 TAAAGACGAAGTAAAAATAGTAT
1 TAAAGACGAAATAAAAATAATAT
125658134 TAAAGA-GAAATAAAAAGTAAT-T
1 TAAAGACGAAATAAAAA-TAATAT
125658156 TAAA
1 TAAA
125658160 AACATAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.61, C:0.02, G:0.14, T:0.22
Consensus pattern (23 bp):
TAAAGACGAAATAAAAATAATAT
Found at i:125664866 original size:48 final size:48
Alignment explanation
Indices: 125664792--125665117 Score: 318
Period size: 48 Copynumber: 6.8 Consensus size: 48
125664782 GTACATGATG
* *
125664792 TATCGTA-CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCCCA
1 TATCGTAGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA
* * * *
125664839 TATCGTAGCCGATGCGATGTCCTAGACATGGTCTTACACTAGCACACA
1 TATCGTAGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA
* * * *
125664887 TATC-AATGCCGATGCCATGTCCCAGACATGCTCTTACATTGGCTCTCA
1 TATCGTA-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA
** * * * * * *
125664935 TATAATGGCCAATGCCATGTCCTAGGCATGGTCTTACACTAGCACACA
1 TATCGTAGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA
* * * * *
125664983 TATC-AATGTCGATGCCATGTCCCAGACATGATCTTACATTGGCTCTCA
1 TATCGTA-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA
* * * *
125665031 TATCGTGGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCACACA
1 TATCGTAGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA
* * * *
125665079 TATC-AATGTCAATGCCATGTCCCAGACATGGTATTACAC
1 TATCGTA-GCCGATGCCATGTCCCAGACATGGTCTTACAC
125665118 GGTTACACAT
Statistics
Matches: 221, Mismatches: 52, Indels: 11
0.78 0.18 0.04
Matches are distributed among these distances:
47 8 0.04
48 213 0.96
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
TATCGTAGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA
Found at i:125665059 original size:144 final size:144
Alignment explanation
Indices: 125664799--125665117 Score: 383
Period size: 144 Copynumber: 2.2 Consensus size: 144
125664789 ATGTATCGTA
* * * * * *
125664799 CCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCCCATATCGTAGCCGATGCGATGTCCTAG
1 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATAGCCGATGCCATGTCCCAG
* * *
125664864 ACATGGTCTTACACTAGCACACATATCAATGCCGATGCCATGTCCCAGACATGCTCTTACATTGG
66 ACATGATCTTACACTAGCACACATATCAATGCCGATGCCATGTCCCAGACATGCTCTTACACTAG
* *
125664929 CTCTCATAT-AATGG
131 CACACATATCAAT-G
* * *
125664943 CCAATGCCATGTCCTAGGCATGGTCTTACACTAGCACACATATCA-ATGTCGATGCCATGTCCCA
1 CCAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATA-GCCGATGCCATGTCCCA
* * * * * * *
125665007 GACATGATCTTACATTGGCTCTCATATC-GTGGCCGATGCCATGTCCTAGACATGGTCTTACACT
65 GACATGATCTTACACTAGCACACATATCAAT-GCCGATGCCATGTCCCAGACATGCTCTTACACT
125665071 AGCACACATATCAATG
129 AGCACACATATCAATG
* *
125665087 TCAATGCCATGTCCCAGACATGGTATTACAC
1 CCAATGCCATGTCCCAGACATGGTCTTACAC
125665118 GGTTACACAT
Statistics
Matches: 147, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
143 2 0.01
144 142 0.97
145 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (144 bp):
CCAATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCATAGCCGATGCCATGTCCCAG
ACATGATCTTACACTAGCACACATATCAATGCCGATGCCATGTCCCAGACATGCTCTTACACTAG
CACACATATCAATG
Found at i:125665116 original size:96 final size:96
Alignment explanation
Indices: 125664800--125665116 Score: 508
Period size: 96 Copynumber: 3.3 Consensus size: 96
125664790 TGTATCGTAC
* * * *
125664800 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCCCATATCGTAGCCGATGCGATGTCCTAGA
1 CAATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATCGTGGCCGATGCCATGTCCTAGA
*
125664865 CATGGTCTTACACTAGCACACATATCAATGC
66 CATGGTCTTACACTAGCACACATATCAATGT
* * ** * *
125664896 CGATGCCATGTCCCAGACATGCTCTTACATTGGCTCTCATATAATGGCCAATGCCATGTCCTAGG
1 CAATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATCGTGGCCGATGCCATGTCCTAGA
125664961 CATGGTCTTACACTAGCACACATATCAATGT
66 CATGGTCTTACACTAGCACACATATCAATGT
* *
125664992 CGATGCCATGTCCCAGACATGATCTTACATTGGCTCTCATATCGTGGCCGATGCCATGTCCTAGA
1 CAATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATCGTGGCCGATGCCATGTCCTAGA
125665057 CATGGTCTTACACTAGCACACATATCAATGT
66 CATGGTCTTACACTAGCACACATATCAATGT
*
125665088 CAATGCCATGTCCCAGACATGGTATTACA
1 CAATGCCATGTCCCAGACATGGTCTTACA
125665117 CGGTTACACA
Statistics
Matches: 202, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 202 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (96 bp):
CAATGCCATGTCCCAGACATGGTCTTACATTGGCTCTCATATCGTGGCCGATGCCATGTCCTAGA
CATGGTCTTACACTAGCACACATATCAATGT
Found at i:125675470 original size:50 final size:46
Alignment explanation
Indices: 125675375--125675481 Score: 133
Period size: 50 Copynumber: 2.2 Consensus size: 46
125675365 AATATAATGA
**
125675375 TTTTGCCTTTTAACTTAATGAGTAAACATTTATCAAAACAACGTAG
1 TTTTGCCTTTTAACTTAAAAAGTAAACATTTATCAAAACAACGTAG
* **
125675421 TTTTGCCTTTTAACTTTAGAAAAGGTAAAACCTTTATCAAAATGACGTAG
1 TTTTGCCTTTTAAC-TTA-AAAA-GT-AAACATTTATCAAAACAACGTAG
125675471 TTTTGCCTTTT
1 TTTTGCCTTTT
125675482 CTTATTTGGA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
46 14 0.27
47 3 0.06
48 2 0.04
49 2 0.04
50 31 0.60
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (46 bp):
TTTTGCCTTTTAACTTAAAAAGTAAACATTTATCAAAACAACGTAG
Found at i:125675887 original size:2 final size:2
Alignment explanation
Indices: 125675880--125675932 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
125675870 ATTAATCTCC
125675880 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
125675922 AT AT AT A- AT AT
1 AT AT AT AT AT AT
125675933 TGACCCCAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:125678815 original size:41 final size:40
Alignment explanation
Indices: 125678770--125678850 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
125678760 TGTTACTGGA
* *
125678770 TACTGCATGA-CTGCCACTGGTACTGTGATGGGCTAAGGCCC
1 TACTGCAT-ATCTGACACT-GTACTGAGATGGGCTAAGGCCC
* *
125678811 TACTGCATATTTGATACTGTACTGAGATGGGCTAAGGCCC
1 TACTGCATATCTGACACTGTACTGAGATGGGCTAAGGCCC
125678851 AAACTATTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 22 0.63
41 13 0.37
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
TACTGCATATCTGACACTGTACTGAGATGGGCTAAGGCCC
Found at i:125686137 original size:6 final size:6
Alignment explanation
Indices: 125686121--125686158 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
125686111 ATCAACAACA
*
125686121 TTTCTTT TTTCTT TTTCTT TTTCTT TTT-TT GTTCTT TT
1 TTTC-TT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT
125686159 AGATCAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 4 0.14
6 20 0.71
7 4 0.14
ACGTcount: A:0.00, C:0.13, G:0.03, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:125705353 original size:21 final size:23
Alignment explanation
Indices: 125705309--125705354 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 23
125705299 ATTAATTCCA
125705309 ATGAGATTGAAAATAGCGATAGTG
1 ATGAGATTGAAAATA-CGATAGTG
*
125705333 ATGAGATT-AAAAT-CTATAGTG
1 ATGAGATTGAAAATACGATAGTG
125705354 A
1 A
125705355 GATGTGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
23 5 0.24
24 8 0.38
ACGTcount: A:0.43, C:0.04, G:0.24, T:0.28
Consensus pattern (23 bp):
ATGAGATTGAAAATACGATAGTG
Found at i:125706829 original size:22 final size:21
Alignment explanation
Indices: 125706803--125706849 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
125706793 TACAAATTAA
125706803 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* *
125706825 ATCTCCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
125706846 ATCT
1 ATCT
125706850 AAGATTGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.32
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:125706855 original size:19 final size:19
Alignment explanation
Indices: 125706820--125706917 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
125706810 AGATTACAAG
125706820 ATCATATCTCCAAGATTGCAT
1 ATCATATCT--AAGATTGCAT
125706841 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
*
125706860 ATCATTTCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
125706877 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
125706896 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
125706915 ATC
1 ATC
125706918 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
21 9 0.12
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:125706882 original size:36 final size:37
Alignment explanation
Indices: 125706820--125706917 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
125706810 AGATTACAAG
125706820 ATCATATCTCCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATCT--AAGATTG-ATATCATATCTAAGATTGCAT
*
125706860 ATCATTTCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
125706896 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
125706918 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
36 35 0.65
38 11 0.20
40 8 0.15
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:125707348 original size:45 final size:45
Alignment explanation
Indices: 125707279--125707384 Score: 142
Period size: 45 Copynumber: 2.4 Consensus size: 45
125707269 CGATATCTGC
* * *
125707279 TATCTTTGATCTGTTCCCCATCTAATACAGAGACGCCAAATCTAT
1 TATCTTCGATCTGCTCCCCATCTAATACAAAGACGCCAAATCTAT
* * *
125707324 TATCTTCGATCTGCTCCCCGTCTAATACAAAGACGCCAAATTTGT
1 TATCTTCGATCTGCTCCCCATCTAATACAAAGACGCCAAATCTAT
*
125707369 T-TCTTCAATCTGCTCC
1 TATCTTCGATCTGCTCC
125707385 TTGCAAACTC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 14 0.26
45 40 0.74
ACGTcount: A:0.25, C:0.29, G:0.11, T:0.34
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCATCTAATACAAAGACGCCAAATCTAT
Found at i:125708381 original size:205 final size:205
Alignment explanation
Indices: 125707440--125708358 Score: 1601
Period size: 205 Copynumber: 4.5 Consensus size: 205
125707430 AATCTACTTT
*
125707440 TTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTT-AACGTAAGCAC
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTG-TTTCAACGTAAGCAC
125707504 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
65 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
** *
125707569 GGATCTGGTTCAGTATAAACATCTGAAGGTTGGATTTGCTATGTGTCTGCCCTCCGTCGAAGTGG
130 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
125707634 AGATGCCAGAC
195 AGATGCCAGAC
*
125707645 TTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTT-AACGTAAGCAC
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTG-TTTCAACGTAAGCAC
*
125707709 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
65 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
125707774 GGATCTGCTTTAGTATAAACATCTGAAGGTTGGATTTGCTATGTGTCTGCCCTCCGTCGAAGTGG
130 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
125707839 AGATGCCAGAC
195 AGATGCCAGAC
* *
125707850 TTCGATTTGTTCTTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCACG
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAAGCACG
*
125707915 TGAAAGCCAAATCAGCTATGTCTT-GAATTTGCTCCATGTAAGCACAAGGATGCCAAACCATCTT
66 TGAAAGCCAAATCAGCTATGTCTTCG-ATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
125707979 GGATCTACTTCAGTATAAACATCTGAAGTTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
130 GGATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
*
125708044 AGATGCCAGAA
195 AGATGCCAGAC
*
125708055 TTCGATTTGTTCTCTGGCAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAAGCACG
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAAGCACG
*
125708120 TGAAAGCCAAATCAGCTATGTTTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
* *
125708185 GATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCATCAAAGTGGA
131 GATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGA
125708250 GATGCCAGAC
196 GATGCCAGAC
* *
125708260 TTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAAACACG
1 TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAAGCACG
*
125708325 TGAAAGCCAAATCAGCTATGTCTTCGATCTGCTC
66 TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTC
125708359 TCCGCCAATA
Statistics
Matches: 685, Mismatches: 26, Indels: 6
0.96 0.04 0.01
Matches are distributed among these distances:
204 3 0.00
205 681 0.99
206 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (205 bp):
TTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCAACGTAAGCACG
TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
GATCTACTTCAGTATAAACATCTGAAGGTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGGA
GATGCCAGAC
Found at i:125708396 original size:44 final size:44
Alignment explanation
Indices: 125708345--125708437 Score: 150
Period size: 44 Copynumber: 2.1 Consensus size: 44
125708335 ATCAGCTATG
* **
125708345 TCTTCGATCTGCTCTCCGCCAATACAGAGATGCCAAATCTGGTA
1 TCTTCGATCTGCTCTCCGACAATACAGAGATGCCAAATCTACTA
*
125708389 TCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACTA
1 TCTTCGATCTGCTCTCCGACAATACAGAGATGCCAAATCTACTA
125708433 TCTTC
1 TCTTC
125708438 AACTTATTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCCGACAATACAGAGATGCCAAATCTACTA
Found at i:125708465 original size:44 final size:44
Alignment explanation
Indices: 125708412--125708599 Score: 152
Period size: 44 Copynumber: 4.3 Consensus size: 44
125708402 CTCTGACAAT
* *
125708412 ACAGAGATGCCAAATCTACTATCTTCAACTTATTCCCTATAAAC
1 ACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAAC
** * * * * * *
125708456 ACAGGGATGCCATGT-TGA-AATCCTCGA-TCTGCTTCGCTGTAAGC
1 ACAGGGATGCCAAATCT-ACTATCTTCAACT-TG-TTCCCTATAAAC
* * ** *
125708500 ACA-GGAGTGTCAGATCTGTTATCTTCGA-TCTGTTCCCTATAAAC
1 ACAGGGA-TGCCAAATCTACTATCTTCAACT-TGTTCCCTATAAAC
*
125708544 ACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCCCTATAAAC
1 ACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAAC
125708588 ACAGGGATGCCA
1 ACAGGGATGCCA
125708600 TGCTGAAATC
Statistics
Matches: 113, Mismatches: 23, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
42 1 0.01
43 11 0.10
44 85 0.75
45 16 0.14
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (44 bp):
ACAGGGATGCCAAATCTACTATCTTCAACTTGTTCCCTATAAAC
Found at i:125708618 original size:132 final size:132
Alignment explanation
Indices: 125708381--125708692 Score: 473
Period size: 132 Copynumber: 2.4 Consensus size: 132
125708371 GAGATGCCAA
* * * * * *
125708381 ATCTGGTATCTTCGATCTGCTCTCTGA-CAATACAGAGATGCCAAATCTACTATCTTCAACTTAT
1 ATCTGCTATCTTCGATCTGTTCCCT-ATAAACACAGGGATGCCAAATCTACTATCTTCAACTTAT
* * *
125708445 TCCCTATAAACACAGGGATGCCATGTTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAGTGT
65 TCCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAATAT
125708510 CAG
130 CAG
* * *
125708513 ATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTTATT
*
125708578 CCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATATC
66 CCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAATATC
125708643 AG
131 AG
* *
125708645 ATTTGCTATCTTCGATCAGTTCCCTATAAACACAGGGATGCCAAATCT
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCT
125708693 TGTTTCTTTG
Statistics
Matches: 164, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
131 1 0.01
132 163 0.99
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (132 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTACTATCTTCAACTTATT
CCCTATAAACACAGGGATGCCATGCTGAAATCCTCGATCTGCTTCGCTGTAAGCACAGGAATATC
AG
Found at i:125708635 original size:44 final size:43
Alignment explanation
Indices: 125708444--125708687 Score: 174
Period size: 44 Copynumber: 5.6 Consensus size: 43
125708434 CTTCAACTTA
* *
125708444 TTCCCTATAAACACAGGGATGCCATGTTGAAATCCTCGATCTG
1 TTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * **
125708487 CTTCGCTGTAAGCACA-GGAGTGTCA-GATCTGTTATCTTCGATCTG
1 -TTCCCTATAAACACAGGGA-TGCCATG--CTGAAATCTTCGATCTG
** *
125708532 TTCCCTATAAACACAGGGATGCCAAAT-CTGCTATCTTC-AACTTG
1 TTCCCTATAAACACAGGGATGCC--ATGCTGAAATCTTCGATC-TG
125708576 TTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTG
1 TTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * ** * ** *
125708619 CTTCGCTGTAAGCACAGGAATATCA-GATTTGCTATCTTCGATCAG
1 -TTCCCTATAAACACAGGGATGCCATG--CTGAAATCTTCGATCTG
125708664 TTCCCTATAAACACAGGGATGCCA
1 TTCCCTATAAACACAGGGATGCCA
125708688 AATCTTGTTT
Statistics
Matches: 154, Mismatches: 33, Indels: 26
0.72 0.15 0.12
Matches are distributed among these distances:
42 2 0.01
43 18 0.12
44 104 0.68
45 29 0.19
46 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (43 bp):
TTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTG
Found at i:125708635 original size:88 final size:87
Alignment explanation
Indices: 125708520--125708687 Score: 221
Period size: 88 Copynumber: 1.9 Consensus size: 87
125708510 CAGATCTGTT
* * *
125708520 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAA-CTTGTTCCCTAT
1 ATCTTCGATCTGTTCCCTATAAACACAGGAATACCAAATCTGCTATCTTCAATC-AGTTCCCTAT
125708584 AAACACAGGGATGCCATGCTGAA
65 AAACACAGGGATGCCATGCTGAA
* * * * * * *
125708607 ATCTTCGATCTGCTTCGCTGTAAGCACAGGAATATCAGATTTGCTATCTTCGATCAGTTCCCTAT
1 ATCTTCGATCTG-TTCCCTATAAACACAGGAATACCAAATCTGCTATCTTCAATCAGTTCCCTAT
125708672 AAACACAGGGATGCCA
65 AAACACAGGGATGCCA
125708688 AATCTTGTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
87 12 0.17
88 56 0.81
89 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (87 bp):
ATCTTCGATCTGTTCCCTATAAACACAGGAATACCAAATCTGCTATCTTCAATCAGTTCCCTATA
AACACAGGGATGCCATGCTGAA
Found at i:125709594 original size:1 final size:1
Alignment explanation
Indices: 125709584--125709653 Score: 50
Period size: 1 Copynumber: 70.0 Consensus size: 1
125709574 GGCCTCTCCA
* * * * * * * * **
125709584 TTTTTCTTTTTTCTTTTTCTCTTTTTTCTTTTCTTTTTTTTTTTTTTCTTTTCTTTTTTCCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
125709649 TTTTT
1 TTTTT
125709654 GAAATAGAAG
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:125709608 original size:15 final size:14
Alignment explanation
Indices: 125709584--125709653 Score: 83
Period size: 13 Copynumber: 5.2 Consensus size: 14
125709574 GGCCTCTCCA
*
125709584 TTTTTCT-TTTTTC
1 TTTTTCTCTTTTTT
125709597 TTTTTCTCTTTTTT
1 TTTTTCTCTTTTTT
*
125709611 CTTTTCT-TTTTTT
1 TTTTTCTCTTTTTT
* *
125709624 TTTTTTTCTTTTCT
1 TTTTTCTCTTTTTT
125709638 TTTTTC-CTTTTTT
1 TTTTTCTCTTTTTT
125709651 TTT
1 TTT
125709654 GAAATAGAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
13 27 0.56
14 21 0.44
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTCTCTTTTTT
Found at i:125709615 original size:20 final size:19
Alignment explanation
Indices: 125709592--125709650 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 19
125709582 CATTTTTCTT
125709592 TTTTCTTTTTCTCTTTTTTC
1 TTTTCTTTTT-TCTTTTTTC
*
125709612 TTTTCTTTTTTTTTTTTTTC
1 TTTTC-TTTTTTCTTTTTTC
125709632 TTTTCTTTTTTCCTTTTTT
1 TTTTCTTTTTT-CTTTTTT
125709651 TTTGAAATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.17
20 24 0.69
21 5 0.14
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTCTTTTTTCTTTTTTC
Found at i:125709615 original size:27 final size:27
Alignment explanation
Indices: 125709584--125709650 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 27
125709574 GGCCTCTCCA
125709584 TTTTTCTTTTTTCTTTTTCTCTTTT-T
1 TTTTTCTTTTTTCTTTTTCTCTTTTCT
* *
125709610 TCTTTTCTTTTTTTTTTTTTTCTTTTCT
1 T-TTTTCTTTTTTCTTTTTCTCTTTTCT
125709638 TTTTTCCTTTTTT
1 TTTTT-CTTTTTT
125709651 TTTGAAATAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 1 0.03
27 26 0.72
28 9 0.25
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (27 bp):
TTTTTCTTTTTTCTTTTTCTCTTTTCT
Found at i:125715240 original size:22 final size:21
Alignment explanation
Indices: 125715210--125715256 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
125715200 TACAAATTAA
125715210 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
125715232 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
125715253 ATCT
1 ATCT
125715257 AAGATTGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:125715262 original size:19 final size:19
Alignment explanation
Indices: 125715227--125715288 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
125715217 AGATTACAAG
125715227 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
125715248 ATCATATCTAAGATTGAAT
1 ATCATATCTAAGATTGCAT
125715267 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
125715286 ATC
1 ATC
125715289 CTTAAAGATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
19 30 0.77
20 1 0.03
21 8 0.21
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:125717058 original size:25 final size:25
Alignment explanation
Indices: 125717030--125717081 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
125717020 TTTGGCTTAA
*
125717030 CATTTATTAACCAATATCAGATATT
1 CATTTATTAACCAATATCAAATATT
**
125717055 CATTTATTAGGCAATATCAAATATT
1 CATTTATTAACCAATATCAAATATT
125717080 CA
1 CA
125717082 AATTATTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.06, T:0.38
Consensus pattern (25 bp):
CATTTATTAACCAATATCAAATATT
Found at i:125719812 original size:4 final size:4
Alignment explanation
Indices: 125719803--125719827 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
125719793 CAATAAAACT
125719803 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
125719828 ACACTAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:125720058 original size:13 final size:14
Alignment explanation
Indices: 125720042--125720070 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
125720032 GTATTCTGTG
125720042 AAAAAAT-AAAATA
1 AAAAAATAAAAATA
125720055 AAAAAATAAAAATA
1 AAAAAATAAAAATA
125720069 AA
1 AA
125720071 GAACACATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAAAATAAAAATA
Found at i:125729395 original size:39 final size:39
Alignment explanation
Indices: 125729351--125729549 Score: 317
Period size: 39 Copynumber: 5.1 Consensus size: 39
125729341 AATTATATTA
* *
125729351 CCAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
125729390 CCAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
125729429 CCAGCACGAAGCCTGCGGGACTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * *
125729468 CCAGCAGGAAGCTTGCGGGACTTTGGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
125729507 CCAGCACGAAGCCTGCAGGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
125729546 CCAG
1 CCAG
125729550 TGTCTTGCAT
Statistics
Matches: 146, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 146 1.00
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:125733615 original size:28 final size:28
Alignment explanation
Indices: 125733584--125733641 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
125733574 GGCACTTTTA
125733584 TACTTTCTCCATTATATTATTTTTTCCC
1 TACTTTCTCCATTATATTATTTTTTCCC
*
125733612 TACTTTCTCTATTATATTATTTTTTCCC
1 TACTTTCTCCATTATATTATTTTTTCCC
125733640 TA
1 TA
125733642 TAAATAGATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.19, C:0.22, G:0.00, T:0.59
Consensus pattern (28 bp):
TACTTTCTCCATTATATTATTTTTTCCC
Found at i:125734208 original size:22 final size:19
Alignment explanation
Indices: 125734158--125734196 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
125734148 CTTGGTTACC
125734158 GAACAATGAGAGATTGGTT
1 GAACAATGAGAGATTGGTT
125734177 GAACAATGAGAGATTGGTT
1 GAACAATGAGAGATTGGTT
125734196 G
1 G
125734197 TCTAACACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.26
Consensus pattern (19 bp):
GAACAATGAGAGATTGGTT
Found at i:125734365 original size:13 final size:13
Alignment explanation
Indices: 125734347--125734371 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
125734337 TTTTACTTTG
125734347 TTTTAATTTTAAT
1 TTTTAATTTTAAT
125734360 TTTTAATTTTAA
1 TTTTAATTTTAA
125734372 ACACTTTTTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTAATTTTAAT
Found at i:125736334 original size:19 final size:20
Alignment explanation
Indices: 125736296--125736334 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
125736286 AATTTTTTGT
*
125736296 TGATCATTTGTTATTTTTTC
1 TGATCATTTGTTACTTTTTC
*
125736316 TGATCCTTTG-TACTTTTTC
1 TGATCATTTGTTACTTTTTC
125736335 ATTTTTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.13, C:0.15, G:0.10, T:0.62
Consensus pattern (20 bp):
TGATCATTTGTTACTTTTTC
Found at i:125736505 original size:22 final size:22
Alignment explanation
Indices: 125736462--125736683 Score: 122
Period size: 22 Copynumber: 10.1 Consensus size: 22
125736452 ATTTTAACTG
*
125736462 TTTTATAATATTATTTTTTTAAAA
1 TTTTA-AATA-TATATTTTTAAAA
125736486 TTTTAAATATATATTTTT-AAA
1 TTTTAAATATATATTTTTAAAA
125736507 -TTTAAATAT-TATATTTT-AAA
1 TTTTAAATATATAT-TTTTAAAA
*
125736527 TTTTAAATAT-TATTTTTAATA
1 TTTTAAATATATATTTTTAAAA
* * ** * * *
125736548 TTATAAAATATTTAAAATATATTAT
1 TT-TTAAATATAT-ATTTTTA-AAA
* ** *
125736573 TTTTAAAGATATAACCTTTCAAA
1 TTTTAAATATAT-ATTTTTAAAA
* * * *
125736596 -TTT-ATTATTTGTTTTATAATA
1 TTTTAAATATATATTTT-TAAAA
*
125736617 TTTTAAATGTATA-TTTTAAAA
1 TTTTAAATATATATTTTTAAAA
125736638 TTTTTAAATATATA-TTTTAAAA
1 -TTTTAAATATATATTTTTAAAA
125736660 TTTTAAATATA-ATTTTTTAAAA
1 TTTTAAATATATA-TTTTTAAAA
125736682 TT
1 TT
125736684 ATGATTTATT
Statistics
Matches: 153, Mismatches: 32, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
19 3 0.02
20 23 0.15
21 41 0.27
22 54 0.35
23 10 0.07
24 20 0.13
25 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (22 bp):
TTTTAAATATATATTTTTAAAA
Found at i:125736560 original size:19 final size:19
Alignment explanation
Indices: 125736463--125736559 Score: 95
Period size: 20 Copynumber: 4.5 Consensus size: 19
125736453 TTTTAACTGT
125736463 TTTATAATATTATTTTTTTAAAA
1 TTTA-AATATTA--TTTTT-AAA
125736486 TTTTAAATATATATTTTTAAA
1 -TTTAAATAT-TATTTTTAAA
125736507 TTTAAATATTATATTTTAAA
1 TTTAAATATTAT-TTTTAAA
125736527 TTTTAAATATTATTTTTAATA
1 -TTTAAATATTATTTTTAA-A
125736548 TTATAAAATATT
1 TT-T-AAATATT
125736560 TAAAATATAT
Statistics
Matches: 67, Mismatches: 0, Indels: 14
0.83 0.00 0.17
Matches are distributed among these distances:
19 3 0.04
20 24 0.36
21 17 0.25
22 12 0.18
23 5 0.07
24 6 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTAAATATTATTTTTAAA
Found at i:125736632 original size:13 final size:12
Alignment explanation
Indices: 125736614--125736658 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
125736604 TTGTTTTATA
125736614 ATATTTTAAATGT
1 ATATTTTAAAT-T
125736627 ATATTTTAAA--
1 ATATTTTAAATT
125736637 AT-TTTTAAATAT
1 ATATTTTAAAT-T
125736649 ATATTTTAAA
1 ATATTTTAAA
125736659 ATTTTAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 7 0.25
10 2 0.07
12 2 0.07
13 17 0.61
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (12 bp):
ATATTTTAAATT
Found at i:125740947 original size:13 final size:13
Alignment explanation
Indices: 125740929--125740987 Score: 64
Period size: 13 Copynumber: 4.2 Consensus size: 13
125740919 GAATATCTTT
125740929 AAAAATAATTTTAA
1 AAAAATAATTTT-A
125740943 AAAATCATAATTTTA
1 AAAA--ATAATTTTA
*
125740958 AAATATAATTTTA
1 AAAAATAATTTTA
125740971 AAAAATTATATTTTA
1 AAAAA-TA-ATTTTA
125740986 AA
1 AA
125740988 TTAAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
13 13 0.33
14 6 0.15
15 12 0.31
16 8 0.21
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAAATAATTTTA
Found at i:125740954 original size:16 final size:15
Alignment explanation
Indices: 125740929--125740987 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
125740919 GAATATCTTT
125740929 AAAA-ATAATTTTAA
1 AAAATATAATTTTAA
125740943 AAAATCATAATTTT--
1 AAAAT-ATAATTTTAA
125740957 AAAATATAATTTTAA
1 AAAATATAATTTTAA
125740972 AAAAT-TATATTTTAA
1 AAAATATA-ATTTTAA
125740987 A
1 A
125740988 TTAAAAATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
13 8 0.20
14 11 0.28
15 13 0.32
16 8 0.20
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATATAATTTTAA
Found at i:125740968 original size:29 final size:27
Alignment explanation
Indices: 125740921--125740987 Score: 98
Period size: 29 Copynumber: 2.4 Consensus size: 27
125740911 AAACATTTGA
125740921 ATATCTTTAAAAATAATTTTAAAAAATC
1 ATAT-TTTAAAAATAATTTTAAAAAATC
*
125740949 ATAATTTTAAAATATAATTTTAAAAAATT
1 AT-ATTTTAAAA-ATAATTTTAAAAAATC
125740978 ATATTTTAAA
1 ATATTTTAAA
125740988 TTAAAAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 17 0.47
29 19 0.53
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (27 bp):
ATATTTTAAAAATAATTTTAAAAAATC
Found at i:125741019 original size:22 final size:22
Alignment explanation
Indices: 125740966--125741041 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
125740956 TAAAATATAA
* *
125740966 TTTTAAAAAATTATATTTTAAA-
1 TTTTAAAATA-TATATTTAAAAT
*
125740988 -TTAAAAATATATATTTAAAAT
1 TTTTAAAATATATATTTAAAAT
*
125741009 TTTTAAAATATACATTTAAAAT
1 TTTTAAAATATATATTTAAAAT
*
125741031 ATTATAAAATA
1 -TTTTAAAATA
125741042 AATAATAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.22
21 7 0.16
22 19 0.42
23 9 0.20
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTTAAAATATATATTTAAAAT
Found at i:125741038 original size:23 final size:23
Alignment explanation
Indices: 125740987--125741041 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
125740977 TATATTTTAA
*
125740987 ATTA-AAAATATATATTTAAAAT
1 ATTATAAAATATACATTTAAAAT
*
125741009 -TTTTAAAATATACATTTAAAAT
1 ATTATAAAATATACATTTAAAAT
125741031 ATTATAAAATA
1 ATTATAAAATA
125741042 AATAATAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 17 0.61
23 9 0.32
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTATAAAATATACATTTAAAAT
Found at i:125741053 original size:28 final size:26
Alignment explanation
Indices: 125741014--125741075 Score: 61
Period size: 28 Copynumber: 2.2 Consensus size: 26
125741004 AAAATTTTTA
*
125741014 AAATATACATTTAAAATATTATAAAAT
1 AAATATAAATTTAAAATATT-TAAAAT
* *
125741041 AAATAATAAATTTGAAATCTTTAAAAAT
1 AAAT-ATAAATTTAAAATATTT-AAAAT
125741069 AATATAT
1 AA-ATAT
125741076 TTTAAATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 5 0.17
28 22 0.76
29 2 0.07
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (26 bp):
AAATATAAATTTAAAATATTTAAAAT
Found at i:125742909 original size:21 final size:19
Alignment explanation
Indices: 125742885--125742924 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
125742875 AAGTAATGAA
125742885 ATAAAAATATTATAAATAATT
1 ATAAAAATATTA-AAA-AATT
*
125742906 ATAAAATTATTAAAAAATT
1 ATAAAAATATTAAAAAATT
125742925 TATTTGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 3 0.17
21 11 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAAATATTAAAAAATT
Found at i:125744786 original size:28 final size:29
Alignment explanation
Indices: 125744738--125744804 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 29
125744728 ATAAAATTTG
*
125744738 TATTATAAAAATATT-ATTTAA-TTAAAA
1 TATTATAAAAATATTAATTAAAGTTAAAA
* *
125744765 TATTATAAATTATATTAATTAAAGTTAAGA
1 TATTATAAA-AATATTAATTAAAGTTAAAA
125744795 TATTAATAAA
1 TATT-ATAAA
125744805 GACAATTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 9 0.27
28 5 0.15
29 5 0.15
30 9 0.27
31 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (29 bp):
TATTATAAAAATATTAATTAAAGTTAAAA
Found at i:125744959 original size:35 final size:34
Alignment explanation
Indices: 125744907--125744973 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 34
125744897 TTTATACTTG
125744907 TTATTAAATAGATATTTATTATT-ATTATTATTAAT
1 TTATTAAATAGATATTTA-TATTAATTA-TATTAAT
*
125744942 TTATTAAAT-TATAATTTATATTAATTATATTA
1 TTATTAAATAGAT-ATTTATATTAATTATATTA
125744974 TGAGATCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 11 0.38
35 18 0.62
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (34 bp):
TTATTAAATAGATATTTATATTAATTATATTAAT
Found at i:125744967 original size:16 final size:16
Alignment explanation
Indices: 125744929--125744970 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
125744919 TATTTATTAT
125744929 TATT-ATTATTAATTTA
1 TATTAATTA-TAATTTA
*
125744945 T-TAAATTATAATTTA
1 TATTAATTATAATTTA
125744960 TATTAATTATA
1 TATTAATTATA
125744971 TTATGAGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTAATTATAATTTA
Found at i:125745776 original size:15 final size:15
Alignment explanation
Indices: 125745758--125745875 Score: 65
Period size: 15 Copynumber: 8.1 Consensus size: 15
125745748 GCTATTATTA
125745758 TTATTATATTTCTAT
1 TTATTATATTTCTAT
* *
125745773 TTATATTTATTT-T-G
1 TTAT-TATATTTCTAT
* * *
125745787 TTATTCTAATACTA-
1 TTATTATATTTCTAT
125745801 TTATTAT-TTATCTAAT
1 TTATTATATT-TCT-AT
*
125745817 TT-TTAT-TTATCTAC
1 TTATTATATT-TCTAT
125745831 TTA-T--ATTTCTACT
1 TTATTATATTTCTA-T
125745844 ATTATTATATTTCTAT
1 -TTATTATATTTCTAT
125745860 TTATTATATTTCTAT
1 TTATTATATTTCTAT
125745875 T
1 T
125745876 CCTATTTATA
Statistics
Matches: 80, Mismatches: 10, Indels: 26
0.69 0.09 0.22
Matches are distributed among these distances:
12 4 0.05
13 7 0.09
14 20 0.25
15 33 0.41
16 9 0.11
17 7 0.09
ACGTcount: A:0.27, C:0.08, G:0.01, T:0.64
Consensus pattern (15 bp):
TTATTATATTTCTAT
Found at i:125745791 original size:29 final size:29
Alignment explanation
Indices: 125745753--125745863 Score: 91
Period size: 29 Copynumber: 3.8 Consensus size: 29
125745743 TTATTGCTAT
125745753 TATTATTATTATATTTCTATTTATATTTA
1 TATTATTATTATATTTCTATTTATATTTA
* * * * *
125745782 TTTTGTTATTCTAATACTA-TTATTATTTA
1 TATTATTATTATATTTCTATTTA-TATTTA
* * * * *
125745811 TCTAATTTTTAT-TTATCTACTTATATTTC
1 TATTATTATTATATT-TCTATTTATATTTA
*
125745840 TACTATTATTATATTTCTATTTAT
1 TATTATTATTATATTTCTATTTAT
125745864 TATATTTCTA
Statistics
Matches: 60, Mismatches: 18, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
28 4 0.07
29 51 0.85
30 5 0.08
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.63
Consensus pattern (29 bp):
TATTATTATTATATTTCTATTTATATTTA
Found at i:125745874 original size:29 final size:29
Alignment explanation
Indices: 125745752--125745875 Score: 89
Period size: 29 Copynumber: 4.3 Consensus size: 29
125745742 ATTATTGCTA
125745752 TTAT-TATTATTATATTTCTATTTA-TAT
1 TTATCTATTATTATATTTCTATTTATTAT
* * * * *
125745779 TTATTTTGTTATTCTAATACTA-TTATTAT
1 TTA-TCTATTATTATATTTCTATTTATTAT
* *
125745808 TTATCTAATTTTTAT-TTATCTACTTA-TAT
1 TTATCT-ATTATTATATT-TCTATTTATTAT
*
125745837 TTCTACTATTATTATATTTCTATTTATTAT
1 TTAT-CTATTATTATATTTCTATTTATTAT
125745867 ATT-TCTATT
1 -TTATCTATT
125745876 CCTATTTATA
Statistics
Matches: 74, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
27 3 0.04
28 7 0.09
29 51 0.69
30 11 0.15
31 2 0.03
ACGTcount: A:0.27, C:0.08, G:0.01, T:0.64
Consensus pattern (29 bp):
TTATCTATTATTATATTTCTATTTATTAT
Found at i:125745882 original size:44 final size:44
Alignment explanation
Indices: 125745756--125745920 Score: 118
Period size: 44 Copynumber: 3.8 Consensus size: 44
125745746 TTGCTATTAT
* ** *
125745756 TATTATTATATTTCTATTTA-TATTTATTTTGTTAT-TCTA-ATAC
1 TATTATTAT-TTTCTATTTATTATTT-TCTACTTATATTTATATAC
*
125745799 TATTATTATTTATCTAATTT-TTATTTATCTACTTATA-TT-TCTAC
1 TATTATTATTT-TCT-ATTTATTATTT-TCTACTTATATTTATATAC
*
125745843 TATTATTATATTTCTATTTATTATATTTCTA-TTCCTATTTATATAC
1 TATTATTAT-TTTCTATTTATTAT-TTTCTACTT-ATATTTATATAC
*
125745889 TAATATTATTTTC-A-TTATTATTTT-T-CTTATAT
1 TATTATTATTTTCTATTTATTATTTTCTACTTATAT
125745921 ATGTTTTTTA
Statistics
Matches: 101, Mismatches: 9, Indels: 27
0.74 0.07 0.20
Matches are distributed among these distances:
40 3 0.03
41 3 0.03
42 5 0.05
43 25 0.25
44 43 0.43
45 10 0.10
46 12 0.12
ACGTcount: A:0.28, C:0.09, G:0.01, T:0.62
Consensus pattern (44 bp):
TATTATTATTTTCTATTTATTATTTTCTACTTATATTTATATAC
Found at i:125746022 original size:3 final size:3
Alignment explanation
Indices: 125746014--125746057 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
125746004 TTTAAAACTT
125746014 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
125746058 TTGTCCTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:125747117 original size:26 final size:26
Alignment explanation
Indices: 125747088--125747195 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
125747078 TGGTACAATT
125747088 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
125747114 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
125747140 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
125747166 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
125747192 TGAT
1 TGAT
125747196 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:125750478 original size:31 final size:31
Alignment explanation
Indices: 125750415--125750478 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
125750405 TGAAAAATAG
* * * *
125750415 ATATTTATTTATTATTATTATTAATTTAAAT
1 ATATTTATTAATTATAATAATTAAATTAAAT
125750446 ATATTTATTAATTA-AATAATTAAATTATAAT
1 ATATTTATTAATTATAATAATTAAATTA-AAT
125750477 AT
1 AT
125750479 TTTTGTTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
ATATTTATTAATTATAATAATTAAATTAAAT
Found at i:125751625 original size:21 final size:21
Alignment explanation
Indices: 125751599--125751659 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
125751589 GTCGTATTTG
125751599 AGGCACCTCTTGTGTCGTATC
1 AGGCACCTCTTGTGTCGTATC
* *
125751620 AGGCACCTCGTT-TATCGTTTC
1 AGGCACCTC-TTGTGTCGTATC
125751641 AGGCA-CT-TATGTGTCGTAT
1 AGGCACCTCT-TGTGTCGTAT
125751660 ACTGATCAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 8 0.24
21 21 0.64
22 2 0.06
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (21 bp):
AGGCACCTCTTGTGTCGTATC
Found at i:125754070 original size:27 final size:26
Alignment explanation
Indices: 125754040--125754101 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
125754030 AGATAATTAA
125754040 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
125754067 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
125754094 AATAAAAT
1 AATAAAAT
125754102 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:125755046 original size:118 final size:118
Alignment explanation
Indices: 125754840--125755052 Score: 372
Period size: 118 Copynumber: 1.8 Consensus size: 118
125754830 TTTTACCCAA
125754840 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
1 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
* **
125754905 TCAGTCACGATTTGGGCCATACTCATAACCTCGGCTAGTGGAGTTTTACTAGT
66 TCAGTCACGATCTAAGCCATACTCATAACCTCGGCTAGTGGAGTTTTACTAGT
125754958 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
1 CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
***
125755023 TCAGTCACGATCTAAGTTGTACTCATAACC
66 TCAGTCACGATCTAAGCCATACTCATAACC
125755053 ATGGAAAACA
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 89 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
CACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCACCCTACCCCGGTTACTCAG
TCAGTCACGATCTAAGCCATACTCATAACCTCGGCTAGTGGAGTTTTACTAGT
Found at i:125755870 original size:43 final size:42
Alignment explanation
Indices: 125755817--125755932 Score: 162
Period size: 42 Copynumber: 2.7 Consensus size: 42
125755807 TTTGCTGAAA
* * * *
125755817 AGGAGTGTTTGGCTGCAG-GTTTTAGGGATTCCAGGGCTGGAAT
1 AGGACTGTTTGGCTGCAGAGATAT-GGCATT-CAGGGCTGGAAT
*
125755860 AGGACTGTTTGGCTGCAGAGATATGGCATTCTGGGCTGGAAT
1 AGGACTGTTTGGCTGCAGAGATATGGCATTCAGGGCTGGAAT
125755902 AGGACTGTTTGGCTGCAGAGATATGGCATTC
1 AGGACTGTTTGGCTGCAGAGATATGGCATTC
125755933 TGTCTTTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
42 42 0.63
43 22 0.33
44 3 0.04
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (42 bp):
AGGACTGTTTGGCTGCAGAGATATGGCATTCAGGGCTGGAAT
Found at i:125755904 original size:42 final size:42
Alignment explanation
Indices: 125755850--125755934 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
125755840 AGGGATTCCA
125755850 GGGCTGGAATAGGACTGTTTGGCTGCAGAGATATGGCATTCT
1 GGGCTGGAATAGGACTGTTTGGCTGCAGAGATATGGCATTCT
125755892 GGGCTGGAATAGGACTGTTTGGCTGCAGAGATATGGCATTCT
1 GGGCTGGAATAGGACTGTTTGGCTGCAGAGATATGGCATTCT
125755934 G
1 G
125755935 TCTTTTTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.28
Consensus pattern (42 bp):
GGGCTGGAATAGGACTGTTTGGCTGCAGAGATATGGCATTCT
Found at i:125756022 original size:11 final size:11
Alignment explanation
Indices: 125756006--125756035 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
125755996 ATATTTAACT
125756006 AAAATAAAATA
1 AAAATAAAATA
125756017 AAAATAAAATA
1 AAAATAAAATA
125756028 ATAAATAA
1 A-AAATAA
125756036 GAAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:125756043 original size:18 final size:17
Alignment explanation
Indices: 125756008--125756074 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 17
125755998 ATTTAACTAA
*
125756008 AATAAAATAAAAATAAAAT
1 AATAAAA-AGAAA-AAAAT
125756027 AATAAATAAGAAAAAAA-
1 AATAAA-AAGAAAAAAAT
* *
125756044 AA-GAAAAGAAAATAAT
1 AATAAAAAGAAAAAAAT
125756060 AAATAAAAAGAAAAA
1 -AATAAAAAGAAAAA
125756075 GAAAAAGAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
15 9 0.23
16 2 0.05
17 4 0.10
18 13 0.33
19 10 0.26
20 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.13
Consensus pattern (17 bp):
AATAAAAAGAAAAAAAT
Found at i:125756056 original size:23 final size:24
Alignment explanation
Indices: 125756030--125756079 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
125756020 ATAAAATAAT
125756030 AAATAAGAAAAAAAAAG-AAAAGA
1 AAATAAGAAAAAAAAAGAAAAAGA
* *
125756053 AAATAATAAATAAAAAGAAAAAGA
1 AAATAAGAAAAAAAAAGAAAAAGA
125756077 AAA
1 AAA
125756080 AGAAAGATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.08
Consensus pattern (24 bp):
AAATAAGAAAAAAAAAGAAAAAGA
Found at i:125756056 original size:30 final size:30
Alignment explanation
Indices: 125756006--125756084 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
125755996 ATATTTAACT
* * *
125756006 AAAATAAAATAAAAATAAAATAATAAATAA
1 AAAAAAAAAGAAAAAGAAAATAATAAATAA
125756036 GAAAAAAAAAG-AAAAGAAAATAATAAATAA
1 -AAAAAAAAAGAAAAAGAAAATAATAAATAA
*
125756066 AAAGAAAAAGAAAAAGAAA
1 AAAAAAAAAGAAAAAGAAA
125756085 GATTGGGTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
29 9 0.21
30 26 0.60
31 8 0.19
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (30 bp):
AAAAAAAAAGAAAAAGAAAATAATAAATAA
Found at i:125762400 original size:27 final size:26
Alignment explanation
Indices: 125762370--125762431 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
125762360 AGATAATTAA
125762370 AATAAAATCCTAAAT-TTGAATAATCCT
1 AATAAAAT-CTAAATATT-AATAATCCT
* * *
125762397 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCTAAATATTAATAATCCT
125762424 AATAAAAT
1 AATAAAAT
125762432 AAAATAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 23 0.79
28 4 0.14
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (26 bp):
AATAAAATCTAAATATTAATAATCCT
Found at i:125764706 original size:16 final size:16
Alignment explanation
Indices: 125764685--125764718 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
125764675 CATAGTATTT
*
125764685 TTTTAAAATTATTTTA
1 TTTTAAAATTATTATA
*
125764701 TTTTAATATTATTATA
1 TTTTAAAATTATTATA
125764717 TT
1 TT
125764719 ATGTTTACTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTAAAATTATTATA
Found at i:125764714 original size:19 final size:19
Alignment explanation
Indices: 125764692--125764779 Score: 63
Period size: 22 Copynumber: 4.3 Consensus size: 19
125764682 TTTTTTTAAA
*
125764692 ATTATTTTATTTTAATATT
1 ATTATTTTATTTTATTATT
*
125764711 ATTATATTATGTTTACTT-TT
1 ATTATTTTAT-TTTA-TTATT
*
125764731 -TTGAATTTCTATATTATTATT
1 ATT--ATTT-TATTTTATTATT
125764752 ATTATTATTATTGTTACTTATT
1 ATTATT-TTATT-TTA-TTATT
125764774 ATTATT
1 ATTATT
125764780 ACTGTTATGT
Statistics
Matches: 54, Mismatches: 5, Indels: 17
0.71 0.07 0.22
Matches are distributed among these distances:
19 11 0.20
20 14 0.26
21 13 0.24
22 16 0.30
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTATTTTATTTTATTATT
Found at i:125764750 original size:3 final size:3
Alignment explanation
Indices: 125764742--125764967 Score: 78
Period size: 3 Copynumber: 73.7 Consensus size: 3
125764732 TGAATTTCTA
* * *
125764742 TAT TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * *
125764788 GTACA TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TA- TATT
1 -TA-T TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TA-T
* **
125764832 TAT TAT CT-T TAA TA- TAT TA- TAT T-T TACT T-T CCT TACCT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA--T TAT TAT
* * * * ** *
125764876 TAT GTCA- TAC T-T TCT TTT GTAT TTT TGC TAT TAT TGT TAT TAT TAT
1 TAT -T-AT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
125764922 TAT TAT TAT TAT TAT TAT TATT TAT TA- TATT TAT ATAA TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT -TAT TAT TAT TA
125764968 ATAGGTACTT
Statistics
Matches: 169, Mismatches: 27, Indels: 54
0.68 0.11 0.22
Matches are distributed among these distances:
2 17 0.10
3 124 0.73
4 24 0.14
5 4 0.02
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:125764780 original size:19 final size:19
Alignment explanation
Indices: 125764750--125764786 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
125764740 TATATTATTA
*
125764750 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
125764769 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
125764787 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:125765353 original size:20 final size:19
Alignment explanation
Indices: 125765313--125765357 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
125765303 GTATTAATCT
*
125765313 TAGTACATATATTTTATTA
1 TAGTATATATATTTTATTA
125765332 TACGTATATATATATTTA-TA
1 TA-GTATATATAT-TTTATTA
125765352 TAGTAT
1 TAGTAT
125765358 TATTTTCGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.26
20 13 0.57
21 4 0.17
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (19 bp):
TAGTATATATATTTTATTA
Found at i:125770612 original size:16 final size:17
Alignment explanation
Indices: 125770581--125770614 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
125770571 CAATTAACCC
125770581 CTCAATTACGATAATTTT
1 CTCAATTAC-ATAATTTT
125770599 CTCAATTA-ATAATTTT
1 CTCAATTACATAATTTT
125770615 TCTAGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.47
Consensus pattern (17 bp):
CTCAATTACATAATTTT
Found at i:125777798 original size:73 final size:71
Alignment explanation
Indices: 125777608--125777838 Score: 291
Period size: 75 Copynumber: 3.2 Consensus size: 71
125777598 TGATGTTTTT
* * * * * *
125777608 ATTTCTGTTTTCAAAATTCAACTCATATGGCGAGAAATGGGTTGAGCCTCAAGACACGTTGAGGT
1 ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGT
*
125777673 GTTTTCA
66 -ATTTCA
*
125777680 ATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTGT-TTTC--AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGA
*
125777745 GATAATTTCA
63 GGT-ATTTCA
* * *
125777755 ACTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
1 ATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGG
125777820 TATTTCA
65 TATTTCA
*
125777827 ATTTCCGTTTTC
1 ATTTCTGTTTTC
125777839 CAACTTATGC
Statistics
Matches: 138, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
71 2 0.01
72 21 0.15
73 54 0.39
74 2 0.01
75 59 0.43
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (71 bp):
ATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGT
ATTTCA
Found at i:125778195 original size:87 final size:85
Alignment explanation
Indices: 125777933--125778218 Score: 272
Period size: 87 Copynumber: 3.3 Consensus size: 85
125777923 TATTTTTCAA
* ** *
125777933 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAGCAC--ACTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTTGGATCACGTACTGA-GTATTTTCAAT
* *
125777996 TTTTGCTTTTTAATTTTTTTTT
65 TTCTG-TTTTTAATTTATTTTT
* * * *
125778018 CAAGAAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTTGGTTCACGTGCTGAAGTATTTTCA
1 -AA-AAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTTGGATCACGTACTG-AGTATTTTCA
** * * * *
125778083 AAATCTACTTTTCAAATTAAATTTT
63 ATTTCT-GTTTT-TAATTTATTTTT
* *
125778108 AAAAAA-CAACTCATATTGCGAGAGGAGAGTTGAGCTTTGGCTCACGTACTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTTGGATCACGTACTGAG-TATTTTCAAT
125778172 TTCTGTTTTTAATGTCTATTTTT
65 TTCTGTTTTTAAT-T-TATTTTT
* * *
125778195 AAAAAGTCAATTCATATTACGAGA
1 AAAAAATCAACTCATATTGCGAGA
125778219 AATGAGTTGA
Statistics
Matches: 162, Mismatches: 28, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
85 3 0.02
86 9 0.06
87 101 0.62
88 19 0.12
89 21 0.13
90 9 0.06
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.36
Consensus pattern (85 bp):
AAAAAATCAACTCATATTGCGAGAGGAGAGTTGAGCCTTGGATCACGTACTGAGTATTTTCAATT
TCTGTTTTTAATTTATTTTT
Found at i:125780038 original size:3 final size:3
Alignment explanation
Indices: 125780030--125780132 Score: 73
Period size: 3 Copynumber: 32.3 Consensus size: 3
125780020 TGAATTTCTA
* *
125780030 TAT TAT TAT TAT TAT TAT TAT TAT TACT TAT TAT TAT TAC TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * *
125780076 GTACA TAT TATT TAT ACAA TACT TAA TAT TAT TAT TAT TA- TATT TAC
1 -TA-T TAT TA-T TAT -TAT TA-T TAT TAT TAT TAT TAT TAT TA-T TAT
125780123 TAT TAT TAT T
1 TAT TAT TAT T
125780133 TATAAATATT
Statistics
Matches: 78, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
2 2 0.03
3 61 0.78
4 15 0.19
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (3 bp):
TAT
Done.