Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 263 of 320
Found at i:85491464 original size:48 final size:48
Alignment explanation
Indices: 85491382--85491510 Score: 235
Period size: 48 Copynumber: 2.7 Consensus size: 48
85491372 CGTCTCGAGA
85491382 CCGATG-CATGTCCCAGATAT-GTCTTACACTAGCACTAGTTTCAATG
1 CCGATGCCATGTCCCAGATATGGTCTTACACTAGCACTAGTTTCAATG
*
85491428 CCGATGCCATGTCCCAGATATGGTCTTACACTAGCACTCGTTTCAATG
1 CCGATGCCATGTCCCAGATATGGTCTTACACTAGCACTAGTTTCAATG
85491476 CCGATGCCATGTCCCAGATATGGTCTTACACTAGC
1 CCGATGCCATGTCCCAGATATGGTCTTACACTAGC
85491511 TCATAATAAT
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
46 6 0.08
47 14 0.17
48 60 0.75
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGATATGGTCTTACACTAGCACTAGTTTCAATG
Found at i:85492084 original size:25 final size:25
Alignment explanation
Indices: 85492056--85492111 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 25
85492046 GTTTTCATGG
85492056 TAACACCTTTCACAAAAGTTGTTGC-
1 TAACACCTTTCACAAAAGTTGTT-CA
85492081 TAACACCTTTCACAAAAGTTGTTCA
1 TAACACCTTTCACAAAAGTTGTTCA
85492106 TAACAC
1 TAACAC
85492112 GCCTAATACT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.36, C:0.25, G:0.09, T:0.30
Consensus pattern (25 bp):
TAACACCTTTCACAAAAGTTGTTCA
Found at i:85495199 original size:26 final size:26
Alignment explanation
Indices: 85495168--85495275 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
85495158 ATGAAATTCC
*
85495168 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
85495194 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
85495220 ATCATGGAATATTTATCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
85495246 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
85495272 ATCA
1 ATCA
85495276 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:85497748 original size:12 final size:12
Alignment explanation
Indices: 85497731--85497758 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
85497721 CATTATTATA
85497731 TCATACCTCATG
1 TCATACCTCATG
85497743 TCATACCTCATG
1 TCATACCTCATG
85497755 TCAT
1 TCAT
85497759 CAAATTACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.32, G:0.07, T:0.36
Consensus pattern (12 bp):
TCATACCTCATG
Found at i:85499341 original size:34 final size:34
Alignment explanation
Indices: 85499302--85499371 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
85499292 CATGGATTTT
85499302 TAAAATAAAAAATAAATATTTTAAAATAAAATTA
1 TAAAATAAAAAATAAATATTTTAAAATAAAATTA
85499336 TAAAATAAAAAATAAATATTTTAAAATAAAATTA
1 TAAAATAAAAAATAAATATTTTAAAATAAAATTA
85499370 TA
1 TA
85499372 TTACCAGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (34 bp):
TAAAATAAAAAATAAATATTTTAAAATAAAATTA
Found at i:85499347 original size:20 final size:21
Alignment explanation
Indices: 85499324--85499366 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
85499314 TAAATATTTT
85499324 AAAATAAA-ATTATAAAATAA
1 AAAATAAATATTATAAAATAA
*
85499344 AAAATAAATATTTTAAAATAA
1 AAAATAAATATTATAAAATAA
85499365 AA
1 AA
85499367 TTATATTACC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAATAAATATTATAAAATAA
Found at i:85499364 original size:14 final size:13
Alignment explanation
Indices: 85499310--85499345 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
85499300 TTTAAAATAA
*
85499310 AAAATAAATATTTT
1 AAAATAAA-ATTAT
85499324 AAAATAAAATTAT
1 AAAATAAAATTAT
85499337 AAAATAAAA
1 AAAATAAAA
85499346 AATAAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATAAAATTAT
Found at i:85513527 original size:17 final size:17
Alignment explanation
Indices: 85513506--85513539 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
85513496 CTCAAAGTTG
*
85513506 TTTTTTATTTTAAAAATA
1 TTTTTT-TTTCAAAAATA
85513524 TTTTTTTTTCAAAAAT
1 TTTTTTTTTCAAAAAT
85513540 GCTTCAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTTTTTCAAAAATA
Found at i:85516369 original size:23 final size:24
Alignment explanation
Indices: 85516343--85516477 Score: 108
Period size: 23 Copynumber: 5.8 Consensus size: 24
85516333 TGATAAATAG
85516343 TAAGCTCTAT-TGAGCTGAAATGA
1 TAAGCTCTATATGAGCTGAAATGA
*
85516366 TAAGCTCTAT-CGAGCTGAACA-G-
1 TAAGCTCTATATGAGCTGAA-ATGA
*
85516388 TAAGCTC-ATATGAGCTG-AATCGG
1 TAAGCTCTATATGAGCTGAAAT-GA
* **
85516411 TAAGCTCCA-ATGAGCTGAAAACA
1 TAAGCTCTATATGAGCTGAAATGA
85516434 GTAAGCTCT-TATGAGCTGATATATCGA
1 -TAAGCTCTATATGAGCTGA-A-AT-GA
85516461 TAAGCTC-ATATGAGCTG
1 TAAGCTCTATATGAGCTG
85516478 TGGTGAGTCC
Statistics
Matches: 91, Mismatches: 8, Indels: 23
0.75 0.07 0.19
Matches are distributed among these distances:
20 1 0.01
21 3 0.03
22 14 0.15
23 34 0.37
24 20 0.22
25 1 0.01
26 17 0.19
27 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (24 bp):
TAAGCTCTATATGAGCTGAAATGA
Found at i:85516392 original size:45 final size:47
Alignment explanation
Indices: 85516341--85516477 Score: 160
Period size: 45 Copynumber: 2.9 Consensus size: 47
85516331 GCTGATAAAT
85516341 AGTAAGCTCTAT-TGAGCTGAAAT-GATAAGCTCTATCGAGCTG-AAC
1 AGTAAGCTCTATATGAGCTGAAATCGATAAGCTCTAT-GAGCTGAAAC
* *
85516386 AGTAAGCTC-ATATGAGCTG-AATCGGTAAGCTCCAATGAGCTGAAAAC
1 AGTAAGCTCTATATGAGCTGAAATCGATAAGCT-CTATGAGCTG-AAAC
85516433 AGTAAGCTCT-TATGAGCTGATATATCGATAAGCTCATATGAGCTG
1 AGTAAGCTCTATATGAGCTGA-A-ATCGATAAGCTC-TATGAGCTG
85516478 TGGTGAGTCC
Statistics
Matches: 78, Mismatches: 4, Indels: 15
0.80 0.04 0.15
Matches are distributed among these distances:
44 5 0.06
45 29 0.37
46 3 0.04
47 21 0.27
49 2 0.03
50 18 0.23
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.26
Consensus pattern (47 bp):
AGTAAGCTCTATATGAGCTGAAATCGATAAGCTCTATGAGCTGAAAC
Found at i:85516654 original size:21 final size:21
Alignment explanation
Indices: 85516630--85516675 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
85516620 TCAATTTCTC
* *
85516630 AAATCATATATATATTCAATT
1 AAATCAAATATATATACAATT
* *
85516651 AAATTAAATATATATACATTT
1 AAATCAAATATATATACAATT
85516672 AAAT
1 AAAT
85516676 ACTCAATTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATCAAATATATATACAATT
Found at i:85519254 original size:21 final size:22
Alignment explanation
Indices: 85519212--85519259 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
85519202 AGAATATTAT
* *
85519212 TAAAATTTATAAAATTATTAAA
1 TAAAATTTATAAAAATAATAAA
*
85519234 TAAATTTTA-AAAAATAATAAA
1 TAAAATTTATAAAAATAATAAA
*
85519255 AAAAA
1 TAAAA
85519260 ATAAAAACCA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATTTATAAAAATAATAAA
Found at i:85519719 original size:13 final size:12
Alignment explanation
Indices: 85519697--85519730 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
85519687 GGCTCGCATG
85519697 TATTAATTTTTTA
1 TATT-ATTTTTTA
85519710 TATTA-TTTTTA
1 TATTATTTTTTA
85519721 TATTATTTTT
1 TATTATTTTT
85519731 AAATATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 5 0.25
13 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TATTATTTTTTA
Found at i:85519736 original size:13 final size:11
Alignment explanation
Indices: 85519704--85519731 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
85519694 ATGTATTAAT
85519704 TTTTTATATTA
1 TTTTTATATTA
85519715 TTTTTATATTA
1 TTTTTATATTA
85519726 TTTTTA
1 TTTTTA
85519732 AATATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTTATATTA
Found at i:85524031 original size:21 final size:21
Alignment explanation
Indices: 85524007--85524078 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
85523997 CCATGGTATC
85524007 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
* * **
85524028 TTTCATATCATGTTGCTATGGTATC-
1 TTTCA-ACCATGGT-CT-T-ACA-CA
85524053 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
85524074 TTTCA
1 TTTCA
85524079 TTTCAGAAAG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 11 0.30
22 7 0.19
23 4 0.11
24 7 0.19
25 6 0.16
26 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:85524076 original size:138 final size:138
Alignment explanation
Indices: 85523821--85524077 Score: 372
Period size: 138 Copynumber: 1.9 Consensus size: 138
85523811 TGCCATATTG
* * * *
85523821 TCTTTCAGCTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
** * * **
85523886 TTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTATTATTCATTTCCCGTTATGTTA
66 CACATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTATTACACATTTCCCGTTATGTTA
85523951 CCATAGTA
131 CCATAGTA
*
85523959 TCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTTCCATGGTATCTTTCAACCATGGTCTT
1 TCTTTCAACCATGGTCTTACACATTTTC-TATCATGTTGCCATGGTATCTTTCAACCATGGTCTT
* * *
85524023 ACACATTTCATATCATGTTGCTATGGTATCTTTCAACCATGGTCTTACACATTTC
65 ACACATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTATTACACATTTC
85524078 ATTTCAGAAA
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
137 4 0.04
138 100 0.96
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (138 bp):
TCTTTCAACCATGGTCTTACACATTTTCTATCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
CACATTTCACATCATGTTGCCATGGTATCTTTCAACCATGGTATTACACATTTCCCGTTATGTTA
CCATAGTA
Found at i:85524077 original size:46 final size:46
Alignment explanation
Indices: 85523821--85524079 Score: 331
Period size: 46 Copynumber: 5.6 Consensus size: 46
85523811 TGCCATATTG
* * *
85523821 TCTTTCAGCTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATGTCATGTTGCCATGGTA
** **
85523867 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
* ** ** * * *
85523913 TCTTTCAACCATGGTATTATTCATTTCCCGTTATGTTACCATAGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
* *
85523959 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTTCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
* *
85524005 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCTATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
85524051 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACACATTTCAT
85524080 TTCAGAAAGC
Statistics
Matches: 193, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 189 0.98
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATGTCATGTTGCCATGGTA
Found at i:85526991 original size:12 final size:12
Alignment explanation
Indices: 85526969--85527009 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
85526959 TTTTTCTCCA
*
85526969 TTTCTTCTTCTT
1 TTTCTTATTCTT
*
85526981 CTTCTTATTCTT
1 TTTCTTATTCTT
85526993 TTTCTTATTCTT
1 TTTCTTATTCTT
85527005 TTTCT
1 TTTCT
85527010 CTTCTCAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.05, C:0.22, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTCTTATTCTT
Found at i:85529856 original size:22 final size:25
Alignment explanation
Indices: 85529830--85529932 Score: 112
Period size: 22 Copynumber: 4.4 Consensus size: 25
85529820 AATTAAACAT
85529830 AGAGCACTAATGTGCT-AT-A-CAG
1 AGAGCACTAATGTGCTAATAATCAG
*
85529852 AGAGCACAAATGTGCT-A-AA-C-G
1 AGAGCACTAATGTGCTAATAATCAG
* *
85529873 AAGAGAACTAATGTGCTAATAATCGG
1 -AGAGCACTAATGTGCTAATAATCAG
*
85529899 AGAGCACTAACGTGCTAATAATCAG
1 AGAGCACTAATGTGCTAATAATCAG
85529924 AGAGCACTA
1 AGAGCACTA
85529933 CCGTATTAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.01
22 32 0.46
23 1 0.01
24 2 0.03
25 32 0.46
26 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.19
Consensus pattern (25 bp):
AGAGCACTAATGTGCTAATAATCAG
Found at i:85529915 original size:47 final size:44
Alignment explanation
Indices: 85529830--85529916 Score: 111
Period size: 47 Copynumber: 1.9 Consensus size: 44
85529820 AATTAAACAT
* *
85529830 AGAGCACTAATGTGCTATACAGAGAGCACAAATGTGCTAAACGA
1 AGAGAACTAATGTGCTATACAGAGAGCACAAACGTGCTAAACGA
* *
85529874 AGAGAACTAATGTGCTAATAATCGGAGAGCACTAACGTGCTAA
1 AGAGAACTAATGTGCT-AT-A-CAGAGAGCACAAACGTGCTAA
85529917 TAATCAGAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 15 0.42
45 2 0.06
46 1 0.03
47 18 0.50
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (44 bp):
AGAGAACTAATGTGCTATACAGAGAGCACAAACGTGCTAAACGA
Found at i:85529942 original size:25 final size:25
Alignment explanation
Indices: 85529874--85529953 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
85529864 TGCTAAACGA
* * * *
85529874 AGAGAACTAATGTGCTAATAATCGG
1 AGAGCACTAACGTACTAATAATCAG
*
85529899 AGAGCACTAACGTGCTAATAATCAG
1 AGAGCACTAACGTACTAATAATCAG
* * *
85529924 AGAGCACTACCGTATTAATAATTAG
1 AGAGCACTAACGTACTAATAATCAG
85529949 AGAGC
1 AGAGC
85529954 GCGCTAAGGT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (25 bp):
AGAGCACTAACGTACTAATAATCAG
Found at i:85532979 original size:15 final size:15
Alignment explanation
Indices: 85532959--85532987 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
85532949 GGACTTAGAA
85532959 CGGGGAAAAGATAAT
1 CGGGGAAAAGATAAT
85532974 CGGGGAAAAGATAA
1 CGGGGAAAAGATAA
85532988 AGTTATCGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.34, T:0.10
Consensus pattern (15 bp):
CGGGGAAAAGATAAT
Found at i:85533231 original size:41 final size:42
Alignment explanation
Indices: 85533186--85533286 Score: 125
Period size: 41 Copynumber: 2.4 Consensus size: 42
85533176 GGCCATATTT
*
85533186 GGCACTTAGAGTGTGAGACCA-AGATAGCTTCGGCTATGTA-A
1 GGCACTTAGTGTGTGAGACCATA-ATAGCTTCGGCTATGTATA
* ** *
85533227 GGCACTTAGTGTGTGAAATTATAATAGCTTCGGCTATGTATT
1 GGCACTTAGTGTGTGAGACCATAATAGCTTCGGCTATGTATA
*
85533269 GGCACTTAGTGTATGAGA
1 GGCACTTAGTGTGTGAGA
85533287 TATCGAGTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 34 0.67
42 17 0.33
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (42 bp):
GGCACTTAGTGTGTGAGACCATAATAGCTTCGGCTATGTATA
Found at i:85537973 original size:39 final size:39
Alignment explanation
Indices: 85537921--85538048 Score: 168
Period size: 39 Copynumber: 3.3 Consensus size: 39
85537911 TATGAGATTG
*
85537921 AAAATATTCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * *
85537960 AAAATATCCGGACATGAGATCTGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * **
85537999 AATATATCCGGAC-TTAGGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGA-GGTCCGCAGGCTATATGCTGGA
85538038 AAAATATCCGG
1 AAAATATCCGG
85538049 GTTAAAGACC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
38 2 0.03
39 74 0.97
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:85547071 original size:19 final size:19
Alignment explanation
Indices: 85547021--85547072 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
85547011 TAAATTTATT
* *
85547021 TAAT-ATTTTTATAAATTT
1 TAATAATTTTTAAAAATTA
85547039 TAATAATGTTTTAAAAACTTA
1 TAATAAT-TTTTAAAAA-TTA
85547060 TAA-AATTTTTAAA
1 TAATAATTTTTAAA
85547073 TTATTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 4 0.14
19 9 0.31
20 11 0.38
21 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
TAATAATTTTTAAAAATTA
Found at i:85548823 original size:21 final size:21
Alignment explanation
Indices: 85548798--85548840 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
85548788 AAATTTGTGG
*
85548798 CATTCGAAAAATAAAGATGGA
1 CATTCGAAAAATAAAAATGGA
85548819 CATTCGAAAAATAAAAATGGA
1 CATTCGAAAAATAAAAATGGA
85548840 C
1 C
85548841 TCTTAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (21 bp):
CATTCGAAAAATAAAAATGGA
Found at i:85550512 original size:46 final size:46
Alignment explanation
Indices: 85550462--85550557 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
85550452 AATAAGCAAA
85550462 ACATTAACTAATAAAATAACCTAAGTTATCTAAATATTGTAAATTT
1 ACATTAACTAATAAAATAACCTAAGTTATCTAAATATTGTAAATTT
85550508 ACATTAACTAATAAAATAACCTAAGTTATCTAAATATTGTAAATTT
1 ACATTAACTAATAAAATAACCTAAGTTATCTAAATATTGTAAATTT
85550554 ACAT
1 ACAT
85550558 AAAAATTACA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.36
Consensus pattern (46 bp):
ACATTAACTAATAAAATAACCTAAGTTATCTAAATATTGTAAATTT
Found at i:85554824 original size:25 final size:24
Alignment explanation
Indices: 85554775--85554825 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
85554765 AAAACTTAAA
*
85554775 AATAGATAATATATAAAATAATTT
1 AATAGATAATATATAAAACAATTT
*
85554799 AATATGAT-ATATAATAAAACAGTTT
1 AATA-GATAATAT-ATAAAACAATTT
85554824 AA
1 AA
85554826 AGTAAAAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (24 bp):
AATAGATAATATATAAAACAATTT
Found at i:85556290 original size:44 final size:44
Alignment explanation
Indices: 85556178--85556290 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 44
85556168 GGAATTGTCG
* * * *
85556178 CTTCAATCTACTCCACTGTAACTTTAGAGAGACTAGACTTGTAG
1 CTTCAATCTACTCCACTGCAACTTTAGAGAAACTAGACTTGCAA
* * * *
85556222 CTTTTAATCTATTCTACTGCAACTTTAGAGAAATTAGACTTGCAA
1 C-TTCAATCTACTCCACTGCAACTTTAGAGAAACTAGACTTGCAA
* *
85556267 CTTCAATCTGCTCCACAGCAACTT
1 CTTCAATCTACTCCACTGCAACTT
85556291 CAGGGAGATA
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
44 19 0.35
45 36 0.65
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCAACTTTAGAGAAACTAGACTTGCAA
Found at i:85556802 original size:46 final size:46
Alignment explanation
Indices: 85556751--85556944 Score: 221
Period size: 46 Copynumber: 4.2 Consensus size: 46
85556741 AAAATTTGGT
* * * *
85556751 TTCTTCCATCCATTCCACTGCAACTCAGGGGTATAAGATTTGTACC
1 TTCTTCAATCCATCCCACTGCAACTCAGAGGTATAAGATTTGTATC
* *
85556797 ATCTTCAATCCATCCCACTGCAGCTCAGAGGTATAAGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAGAGGTATAAGATTTGTATC
* * * **
85556843 TTCTTCAATCCATCCTATTGCAATTC-GAAGGTATGTGATTTGTATC
1 TTCTTCAATCCATCCCACTGCAACTCAG-AGGTATAAGATTTGTATC
* * **
85556889 TTCTTTAATCCATCCCACTGCAACTCAG-GAGTATAGGATTTGTGGC
1 TTCTTCAATCCATCCCACTGCAACTCAGAG-GTATAAGATTTGTATC
85556935 TTCTTCAATC
1 TTCTTCAATC
85556945 AATTGATCTG
Statistics
Matches: 123, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
45 2 0.02
46 120 0.98
47 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (46 bp):
TTCTTCAATCCATCCCACTGCAACTCAGAGGTATAAGATTTGTATC
Found at i:85563525 original size:27 final size:26
Alignment explanation
Indices: 85563489--85563545 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
85563479 AAGAGTTTAA
85563489 AATATATGAAAAATATTTAAAATAAAT
1 AATATATGAAAAATATTT-AAATAAAT
* ** *
85563516 AATATGTGAAGCATCTTTAAATAAAT
1 AATATATGAAAAATATTTAAATAAAT
85563542 AATA
1 AATA
85563546 CATATAGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (26 bp):
AATATATGAAAAATATTTAAATAAAT
Found at i:85564989 original size:23 final size:24
Alignment explanation
Indices: 85564947--85564991 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
85564937 ATTCTCATAA
*
85564947 TAAATATTAATATTTTAATAATTT
1 TAAATATTAATATTTAAATAATTT
*
85564971 TAAATTTTAA-ATTTAAATAAT
1 TAAATATTAATATTTAAATAAT
85564992 CTTTTATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAAATATTAATATTTAAATAATTT
Found at i:85567704 original size:14 final size:14
Alignment explanation
Indices: 85567685--85567716 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
85567675 AATAAATAAT
*
85567685 AAATCAAAAAGTAG
1 AAATCAAAAAGAAG
85567699 AAATCAAAAAGAAG
1 AAATCAAAAAGAAG
85567713 AAAT
1 AAAT
85567717 GAGTTTTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.12, T:0.12
Consensus pattern (14 bp):
AAATCAAAAAGAAG
Found at i:85569351 original size:18 final size:17
Alignment explanation
Indices: 85569317--85569365 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
85569307 TTCATAAATA
*
85569317 AAAAAAATTTATT-ACTC
1 AAAAATATTT-TTAACTC
85569334 AAAAATACTTTTTAACTC
1 AAAAATA-TTTTTAACTC
*
85569352 AAAATTATTTTTAA
1 AAAAATATTTTTAA
85569366 AAAATATTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAAATATTTTTAACTC
Found at i:85572873 original size:18 final size:17
Alignment explanation
Indices: 85572851--85572898 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
85572841 AATGTTTATT
85572851 TTTTTAATAATTTTTACAA
1 TTTTTAAT-ATTTTTAC-A
*
85572870 TTTTTAATTTTTTTACA
1 TTTTTAATATTTTTACA
85572887 -TTTTAA-ATTTTT
1 TTTTTAATATTTTT
85572899 TGACCAACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 5 0.19
16 6 0.22
17 1 0.04
18 7 0.26
19 8 0.30
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTAATATTTTTACA
Found at i:85572889 original size:17 final size:18
Alignment explanation
Indices: 85572851--85572899 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
85572841 AATGTTTATT
*
85572851 TTTTTAATAATTTTTACAA
1 TTTTTAAT-TTTTTTACAA
85572870 TTTTTAATTTTTTTAC-A
1 TTTTTAATTTTTTTACAA
*
85572887 TTTTAAATTTTTT
1 TTTTTAATTTTTT
85572900 GACCAACCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 13 0.46
18 7 0.25
19 8 0.29
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTAATTTTTTTACAA
Found at i:85573710 original size:20 final size:20
Alignment explanation
Indices: 85573685--85573722 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
85573675 TTATTATCAA
85573685 ATTAGTCATTATTTTGGTTT
1 ATTAGTCATTATTTTGGTTT
**
85573705 ATTAGTTTTTATTTTGGT
1 ATTAGTCATTATTTTGGT
85573723 AAATAAAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.16, T:0.63
Consensus pattern (20 bp):
ATTAGTCATTATTTTGGTTT
Found at i:85581051 original size:30 final size:30
Alignment explanation
Indices: 85581003--85581103 Score: 123
Period size: 30 Copynumber: 3.4 Consensus size: 30
85580993 GAGCCCAAAC
* * *
85581003 ACAAGCCC-AAATACCTCAGACCTGTTACA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
85581032 ACAAACCCAAAATAGCTCAGACCCGTTACA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
* * *
85581062 GCAAACCCAAAATAGCCCAGACCCGTTATA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
*
85581092 CACACACCCAAA
1 -ACAAACCCAAA
85581104 CAGATCGGTT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 7 0.11
30 46 0.74
31 9 0.15
ACGTcount: A:0.42, C:0.36, G:0.10, T:0.13
Consensus pattern (30 bp):
ACAAACCCAAAATAGCTCAGACCCGTTACA
Found at i:85582473 original size:21 final size:20
Alignment explanation
Indices: 85582449--85582567 Score: 61
Period size: 21 Copynumber: 6.0 Consensus size: 20
85582439 ATATTTCAAC
* *
85582449 TTATATATCTTATATATTTAT
1 TTATATATATTATACA-TTAT
*
85582470 TTATTTATATTATACATTAT
1 TTATATATATTATACATTAT
* * * *
85582490 TT-TAAAAACT-TACATTTT
1 TTATATATATTATACATTAT
*
85582508 TATATTATATATTATAAATTAT
1 T-TA-TATATATTATACATTAT
*
85582530 TTCAT-T-TATTAT-TATT-T
1 TT-ATATATATTATACATTAT
*
85582547 TTATATACTATTATATATTAT
1 TTATATA-TATTATACATTAT
85582568 CTATTTTAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 20
0.69 0.13 0.19
Matches are distributed among these distances:
16 2 0.03
17 4 0.05
18 11 0.15
19 17 0.23
20 11 0.15
21 21 0.28
22 8 0.11
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
TTATATATATTATACATTAT
Found at i:85582489 original size:28 final size:28
Alignment explanation
Indices: 85582429--85582489 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
85582419 GTAGATTATT
85582429 ATTATATATTATATTTCAACTTATATATC
1 ATTATATATTATATTT-AACTTATATATC
*
85582458 -TTATATATT-TATTT-ATTTATATTATAC
1 ATTATATATTATATTTAACTTATA-TAT-C
85582485 ATTAT
1 ATTAT
85582490 TTTAAAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 6 0.21
28 13 0.46
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (28 bp):
ATTATATATTATATTTAACTTATATATC
Found at i:85582565 original size:26 final size:28
Alignment explanation
Indices: 85582536--85582604 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
85582526 TTATTTCATT
*
85582536 TATTATTATTTTTATA-T-ACTATTATA
1 TATTATTATTTTTATATTCACTATTAAA
* *
85582562 TATTATCTATTTTAAAATTCACTATTAAA
1 TATTAT-TATTTTTATATTCACTATTAAA
85582591 TATTA-TATTTTTAT
1 TATTATTATTTTTAT
85582605 GTATTTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
26 6 0.17
27 15 0.43
28 1 0.03
29 13 0.37
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (28 bp):
TATTATTATTTTTATATTCACTATTAAA
Found at i:85593085 original size:205 final size:205
Alignment explanation
Indices: 85592546--85593216 Score: 977
Period size: 205 Copynumber: 3.3 Consensus size: 205
85592536 TATGCCGCAG
* * * *
85592546 CATAGCAGATCTCACCTTCAGATGTTTATGCTGAAA-TAGATCCAAGATGGTTTGGTATCCTTGT
1 CATAGCAGATCTCACCTTCAGATGTTTATACT-AAAGCAGATCCAAGATGATTTGGCATCCTTGT
* * * * *
85592610 GCTTGCAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATTAAGCAAATC
65 GCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
* * * *
85592675 TAAGATGATTTGGCATCTCTATATTGGCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCGACG
130 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCAAAGTCTGGCATCTCCACTTCAACG
* *
85592740 GAGGGCAGACA
195 GAGAGCAGATA
** * * * * *
85592751 CATAGCAGATCTGGCCTTCAGATGATTAGATTGAAGAAAGATCCAAGATGATTTGGCATCCTTGT
1 CATAGCAGATCTCACCTTCAGATGTTTATACTAAAG-CAGATCCAAGATGATTTGGCATCCTTGT
* *
85592816 GCTTACAGGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCATGTGTTTACGATGAAGCAAATC
65 GCTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
* *
85592881 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCAAAGTCTGGCATCTCCACCTCAACA
130 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCAAAGTCTGGCATCTCCACTTCAACG
85592946 GAGAGCAGATA
195 GAGAGCAGATA
* *
85592957 CATAGCAGATCTCACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTAGCATCCTTGTA
1 CATAGCAGATCTCACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATCCTTGTG
85593022 CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
* * *
85593087 AGGATGATTTGGCATCTCTGTTTTGTCAGAGAGCAAATCAAAGTCTAGCATCTCCACTTCAACGG
131 AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCAAAGTCTGGCATCTCCACTTCAACGG
*
85593152 GGAGCAGATA
196 AGAGCAGATA
* * *
85593162 CATAGCAGACCTCACCTTCAGATAATTT-TACTGAAGCAAGATCCAAGATGATTTG
1 CATAGCAGATCTCACCTTCAGAT-GTTTATACTAAAGC-AGATCCAAGATGATTTG
85593217 ATACTCTTAT
Statistics
Matches: 416, Mismatches: 46, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
204 2 0.00
205 214 0.51
206 200 0.48
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (205 bp):
CATAGCAGATCTCACCTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGCATCCTTGTG
CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
AAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATCAAAGTCTGGCATCTCCACTTCAACGG
AGAGCAGATA
Found at i:85593572 original size:30 final size:30
Alignment explanation
Indices: 85593524--85593610 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
85593514 TAGCCCAAAC
* *
85593524 ACAAGCCC-AAATACCTCAGACCCGTTACA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
*
85593553 ACAAACCCAAAATAGCTCAGACTCGTTACA
1 ACAAACCCAAAATAGCTCAGACCCGTTACA
* *
85593583 GCAAACCCAAAATAGCCCAGACCCGTTA
1 ACAAACCCAAAATAGCTCAGACCCGTTA
85593611 TACACACACC
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 7 0.14
30 44 0.86
ACGTcount: A:0.40, C:0.34, G:0.11, T:0.14
Consensus pattern (30 bp):
ACAAACCCAAAATAGCTCAGACCCGTTACA
Found at i:85593626 original size:30 final size:30
Alignment explanation
Indices: 85593532--85593627 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
85593522 ACACAAGCCC
*
85593532 AAATA-CCTCAGACCCGTTACA-ACAAACCCA
1 AAATAGCC-CAGACCCGTTACACACACA-CCA
* * *
85593562 AAATAGCTCAGACTCGTTACAGCAAAC-CCA
1 AAATAGCCCAGACCCGTTACA-CACACACCA
* *
85593592 AAATAGCCCAGACCCGTTATACACACACCT
1 AAATAGCCCAGACCCGTTACACACACACCA
85593622 AAATAG
1 AAATAG
85593628 ACCGGTTACA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
29 4 0.08
30 46 0.87
31 1 0.02
32 2 0.04
ACGTcount: A:0.42, C:0.32, G:0.10, T:0.16
Consensus pattern (30 bp):
AAATAGCCCAGACCCGTTACACACACACCA
Found at i:85594961 original size:7 final size:7
Alignment explanation
Indices: 85594944--85595089 Score: 53
Period size: 7 Copynumber: 21.4 Consensus size: 7
85594934 AAATTTGTAG
85594944 ATTAT-T
1 ATTATAT
85594950 ATTATAT
1 ATTATAT
85594957 ATTATAT
1 ATTATAT
85594964 -TT-TA-
1 ATTATAT
85594968 ACTTATAT
1 A-TTATAT
85594976 ATCT-TAT
1 AT-TATAT
*
85594983 A-TATTT
1 ATTATAT
85594989 ATT-TAT
1 ATTATAT
*
85594995 ATTATAC
1 ATTATAT
85595002 ATTAT-T
1 ATTATAT
* *
85595008 -TTAAAA
1 ATTATAT
*
85595014 ACTTACAT
1 A-TTATAT
*
85595022 -TTTTAT
1 ATTATAT
85595028 ATTATAT
1 ATTATAT
*
85595035 ATTATAA
1 ATTATAT
*
85595042 ATTATTT
1 ATTATAT
85595049 CATT-TATT
1 -ATTATA-T
*
85595057 ATTATTT
1 ATTATAT
*
85595064 TTATATACT
1 AT-TATA-T
85595073 ATTATAT
1 ATTATAT
*
85595080 ATTATCT
1 ATTATAT
85595087 ATT
1 ATT
85595090 TTAAAATTCA
Statistics
Matches: 102, Mismatches: 20, Indels: 35
0.65 0.13 0.22
Matches are distributed among these distances:
5 6 0.06
6 21 0.21
7 55 0.54
8 18 0.18
9 2 0.02
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.58
Consensus pattern (7 bp):
ATTATAT
Found at i:85595387 original size:3 final size:3
Alignment explanation
Indices: 85595379--85595419 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
85595369 TATGTTACTA
*
85595379 TAT TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT ATAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
85595420 GTATTTGTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:85595677 original size:16 final size:16
Alignment explanation
Indices: 85595656--85595689 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
85595646 ATTATACTTC
85595656 TATTTACCTATTACTA
1 TATTTACCTATTACTA
85595672 TATTTACCTATTACTA
1 TATTTACCTATTACTA
85595688 TA
1 TA
85595690 ATATGCTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTACCTATTACTA
Found at i:85599994 original size:18 final size:18
Alignment explanation
Indices: 85599947--85600043 Score: 104
Period size: 18 Copynumber: 5.4 Consensus size: 18
85599937 AGTCACTCTT
*
85599947 TAACAGTCAGTTATTCAG
1 TAACAGTCAATTATTCAG
* * *
85599965 TACCAATAAATTATTCAG
1 TAACAGTCAATTATTCAG
*
85599983 TAATAGTCAATTATTCAG
1 TAACAGTCAATTATTCAG
* * *
85600001 TAGCAGTCAGTTATCCAG
1 TAACAGTCAATTATTCAG
*
85600019 TAACAGTCAGTTATTCAG
1 TAACAGTCAATTATTCAG
*
85600037 TAGCAGT
1 TAACAGT
85600044 AAGTTGTTTA
Statistics
Matches: 64, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.33
Consensus pattern (18 bp):
TAACAGTCAATTATTCAG
Found at i:85600039 original size:36 final size:36
Alignment explanation
Indices: 85599947--85600048 Score: 141
Period size: 36 Copynumber: 2.8 Consensus size: 36
85599937 AGTCACTCTT
* * * *
85599947 TAACAGTCAGTTATTCAGTACCAATAAATTATTCAG
1 TAACAGTCAGTTATTCAGTAGCAGTAAGTTATCCAG
* * *
85599983 TAATAGTCAATTATTCAGTAGCAGTCAGTTATCCAG
1 TAACAGTCAGTTATTCAGTAGCAGTAAGTTATCCAG
85600019 TAACAGTCAGTTATTCAGTAGCAGTAAGTT
1 TAACAGTCAGTTATTCAGTAGCAGTAAGTT
85600049 GTTTAGTACC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (36 bp):
TAACAGTCAGTTATTCAGTAGCAGTAAGTTATCCAG
Found at i:85600179 original size:6 final size:6
Alignment explanation
Indices: 85600170--85600204 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
85600160 CACCGTAATG
85600170 GTAACA GTAACA GTAACA GTAACA GTAACA GTAAC
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAAC
85600205 GTACGGAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
GTAACA
Found at i:85602348 original size:18 final size:18
Alignment explanation
Indices: 85602325--85602431 Score: 115
Period size: 18 Copynumber: 5.9 Consensus size: 18
85602315 TAAATAAAGG
*
85602325 TACTGAGTAACTGACTGC
1 TACTGAATAACTGACTGC
*
85602343 TACTGAATAACTGACTGT
1 TACTGAATAACTGACTGC
* * *
85602361 TACTGAATAAGTTATTGC
1 TACTGAATAACTGACTGC
* *
85602379 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGC
* * * *
85602397 TACTGAATAATTTATTGG
1 TACTGAATAACTGACTGC
85602415 TACTGAATAACTGACTG
1 TACTGAATAACTGACTG
85602432 TTAAAGAGTG
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 73 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGACTGC
Found at i:85602380 original size:36 final size:36
Alignment explanation
Indices: 85602340--85602434 Score: 163
Period size: 36 Copynumber: 2.6 Consensus size: 36
85602330 AGTAACTGAC
85602340 TGCTACTGAATAACTGACTGTTACTGAATAAGTTAT
1 TGCTACTGAATAACTGACTGTTACTGAATAAGTTAT
* *
85602376 TGCTACTGAATAATTGACTGTTACTGAATAATTTAT
1 TGCTACTGAATAACTGACTGTTACTGAATAAGTTAT
*
85602412 TGGTACTGAATAACTGACTGTTA
1 TGCTACTGAATAACTGACTGTTA
85602435 AAGAGTGACT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.38
Consensus pattern (36 bp):
TGCTACTGAATAACTGACTGTTACTGAATAAGTTAT
Found at i:85604984 original size:28 final size:28
Alignment explanation
Indices: 85604936--85604991 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
85604926 AAAAACCTAA
*
85604936 CCCAAAAAAAAAAAGAAAAACCTAGCCC
1 CCCAAAAAAAAAAAGAAAACCCTAGCCC
85604964 CCCAAAAAAAAACCAAG-AAACCCTAGCC
1 CCCAAAAAAAAA--AAGAAAACCCTAGCC
85604992 ACCTAGCCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 12 0.48
29 10 0.40
30 3 0.12
ACGTcount: A:0.57, C:0.32, G:0.07, T:0.04
Consensus pattern (28 bp):
CCCAAAAAAAAAAAGAAAACCCTAGCCC
Found at i:85607549 original size:16 final size:17
Alignment explanation
Indices: 85607528--85607559 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
85607518 GACATTTATG
85607528 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
85607544 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
85607560 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:85616010 original size:53 final size:53
Alignment explanation
Indices: 85615950--85616147 Score: 168
Period size: 53 Copynumber: 3.5 Consensus size: 53
85615940 TTTTAAATTG
85615950 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* * ** *
85616003 ACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTAAGGTATTTT-TAGTTTT--AAATT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT--------TTTAA--T-TTTTGT--TTTTCAAAATC
*
85616065 G
53 A
* *
85616066 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTGGTTTTTCAAAATCA
1 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
* *
85616119 ACTCATATTGCTAGAGGTGAGTTGAGCCT
1 ACTCATATTGCGAGAGGTGAGTTAAGCCT
85616148 CGGGCACGCT
Statistics
Matches: 113, Mismatches: 16, Indels: 32
0.70 0.10 0.20
Matches are distributed among these distances:
51 4 0.04
52 3 0.03
53 60 0.53
55 2 0.02
61 3 0.03
63 33 0.29
64 4 0.04
65 4 0.04
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (53 bp):
ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCA
Found at i:85616079 original size:116 final size:116
Alignment explanation
Indices: 85615863--85616167 Score: 542
Period size: 116 Copynumber: 2.6 Consensus size: 116
85615853 GTTGAGGTAT
* * *
85615863 TTTTAATTGTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
85615927 GAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
66 GAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
85615978 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
*
85616043 AAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
66 GAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
* *
85616094 TTTTTATTTTGGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
85616158 GAGGTATTTT
66 GAGGTATTTT
85616168 CAATTTTTTG
Statistics
Matches: 182, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
115 29 0.16
116 153 0.84
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (116 bp):
TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTATTTTTAGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:85616286 original size:73 final size:71
Alignment explanation
Indices: 85616107--85616286 Score: 238
Period size: 70 Copynumber: 2.5 Consensus size: 71
85616097 TTATTTTGGT
* * * *
85616107 TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAAT
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGATGAGGTAATTTCAAT
*
85616172 TTTTTG
66 TTTCTG
** *
85616178 TTTT-AATTTTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAA
1 TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGATGAGGTAATTTCAA
85616242 -TTTCTG
65 TTTTCTG
*
85616248 TTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTT-TCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
85616287 ACCTTTTAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
70 41 0.44
71 24 0.26
72 2 0.02
73 26 0.28
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (71 bp):
TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGATGAGGTAATTTCAAT
TTTCTG
Found at i:85616586 original size:55 final size:56
Alignment explanation
Indices: 85616526--85616644 Score: 179
Period size: 57 Copynumber: 2.1 Consensus size: 56
85616516 TGAGGTATTC
*
85616526 TTAATTTTTGTTGTTTC-AAAAA-TCAACTCATGTTGCGAGAGGTGAGTTAAGCCTT
1 TTAATTTTTGTT-TTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
* *
85616581 TTAATTTTTGTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTT
1 TTAATTTTTGTTTTTC-AAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
85616638 TTAATTT
1 TTAATTT
85616645 CTGCGAGAGT
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
54 4 0.07
55 12 0.21
56 5 0.09
57 37 0.64
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.43
Consensus pattern (56 bp):
TTAATTTTTGTTTTTCAAAAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCCTT
Found at i:85616652 original size:30 final size:30
Alignment explanation
Indices: 85616616--85616677 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
85616606 CAACTCATAT
85616616 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
85616646 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
85616676 TG
1 TG
85616678 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:85619122 original size:8 final size:8
Alignment explanation
Indices: 85619109--85619140 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
85619099 AAATATTCAG
85619109 AATAATAA
1 AATAATAA
85619117 AATAATAA
1 AATAATAA
85619125 AATAATAA
1 AATAATAA
*
85619133 AACAATAA
1 AATAATAA
85619141 GAGCTGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (8 bp):
AATAATAA
Found at i:85620674 original size:15 final size:16
Alignment explanation
Indices: 85620639--85620678 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
85620629 ACTAACTGTT
85620639 AAAAAAAAGCAGTTAA
1 AAAAAAAAGCAGTTAA
*
85620655 AAAAAAAAGCTG-TAA
1 AAAAAAAAGCAGTTAA
85620670 CAAAAAAAA
1 -AAAAAAAA
85620679 CAAAAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.72, C:0.07, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAAAAAAGCAGTTAA
Found at i:85620859 original size:16 final size:16
Alignment explanation
Indices: 85620838--85620913 Score: 73
Period size: 17 Copynumber: 4.6 Consensus size: 16
85620828 AAAATGGTAT
*
85620838 AAAAAATAAAATACTAA
1 AAAAAATAAAATAC-GA
*** *
85620855 AAAAAATATCTTAATGA
1 AAAAAATAAAAT-ACGA
85620872 AA-AAATAAAATACGA
1 AAAAAATAAAATACGA
85620887 AAAGAAATAAAATACGA
1 AAA-AAATAAAATACGA
85620904 AAAAAATAAA
1 AAAAAATAAA
85620914 TTTTTTGGGA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
15 5 0.11
16 13 0.28
17 28 0.60
18 1 0.02
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.17
Consensus pattern (16 bp):
AAAAAATAAAATACGA
Found at i:85621130 original size:25 final size:26
Alignment explanation
Indices: 85621102--85621163 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 26
85621092 ATTATGTACT
85621102 AAAATAATA-TAAAAAATAAAATATG
1 AAAATAATATTAAAAAATAAAATATG
*
85621127 AAAATAGTATATTTTAAAAAATAAAATCTG
1 AAAATA--ATA--TTAAAAAATAAAATATG
85621157 AAAATAA
1 AAAATAA
85621164 AAAAAACCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 6 0.19
27 3 0.10
28 1 0.03
30 21 0.68
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (26 bp):
AAAATAATATTAAAAAATAAAATATG
Found at i:85625512 original size:25 final size:25
Alignment explanation
Indices: 85625465--85625512 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
85625455 TTATAATATG
* * * *
85625465 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
85625490 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
85625513 GTTTAAATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:85625596 original size:11 final size:11
Alignment explanation
Indices: 85625560--85625615 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
85625550 CATGGTATGT
85625560 ATGATATGCAC
1 ATGATATGCAC
* *
85625571 ATGACATG--T
1 ATGATATGCAC
85625580 ATGATATGCAC
1 ATGATATGCAC
*
85625591 ATGATATG--T
1 ATGATATGCAC
85625600 ATGATATGCAC
1 ATGATATGCAC
85625611 ATGAT
1 ATGAT
85625616 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:85625615 original size:20 final size:20
Alignment explanation
Indices: 85625549--85625615 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
85625539 ATTTTGATAA
*
85625549 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
85625569 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
85625589 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
85625609 ACATGAT
1 ACATGAT
85625616 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:85625726 original size:23 final size:23
Alignment explanation
Indices: 85625665--85625782 Score: 155
Period size: 23 Copynumber: 4.9 Consensus size: 23
85625655 AAGGAAGTGT
* *
85625665 AAAGGGCTTATGCCCTAGTTATGA
1 AAAGGGCTT-TGCCCCAGTTATTA
85625689 TAAAGGGCTTATGCCCCAGTTATTA
1 -AAAGGGCTT-TGCCCCAGTTATTA
85625714 AAAGGGCTTTGCCCCAGTTATTA
1 AAAGGGCTTTGCCCCAGTTATTA
85625737 AAAGGGCTTTGCCCCAGTTATTA
1 AAAGGGCTTTGCCCCAGTTATTA
**
85625760 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAG-GGCTTTGCC-CCAGTTAT
85625783 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
23 41 0.47
24 16 0.18
25 30 0.34
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTTGCCCCAGTTATTA
Found at i:85626013 original size:31 final size:31
Alignment explanation
Indices: 85625975--85626038 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
85625965 CGTTTACAGT
85625975 AAAGGCTTCGGTCC-AGTAATATGAAATATGA
1 AAAGGCTTCGG-CCTAGTAATATGAAATATGA
**
85626006 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCTAGTAATATGAAATATGA
85626037 AA
1 AA
85626039 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 28 0.93
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCTAGTAATATGAAATATGA
Found at i:85631810 original size:39 final size:39
Alignment explanation
Indices: 85631750--85631887 Score: 222
Period size: 39 Copynumber: 3.5 Consensus size: 39
85631740 CGTGATTTAG
* * *
85631750 AGCCCGAAGTCTAGCTGAAGCACATAAGTGTTAAACGGA
1 AGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACGGA
*
85631789 AGCCCGAAGGCTAACTAAAGCACACAAGTGTTAAACGGA
1 AGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACGGA
*
85631828 AGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGGA
1 AGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACGGA
*
85631867 AGCTCGAAGGCTAACTGAAGC
1 AGCCCGAAGGCTAACTGAAGC
85631888 TCATCAGAGC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.38, C:0.23, G:0.25, T:0.14
Consensus pattern (39 bp):
AGCCCGAAGGCTAACTGAAGCACACAAGTGTTAAACGGA
Found at i:85631888 original size:18 final size:18
Alignment explanation
Indices: 85631826--85631889 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
85631816 GTGTTAAACG
*
85631826 GAAGCCCGAAGGCTAACT
1 GAAGCTCGAAGGCTAACT
* * *
85631844 GAAGCACACAAGTGCTAAACG
1 GAAGCTC-GAAG-GCT-AACT
85631865 GAAGCTCGAAGGCTAACT
1 GAAGCTCGAAGGCTAACT
85631883 GAAGCTC
1 GAAGCTC
85631890 ATCAGAGCTG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 16 0.43
19 6 0.16
20 6 0.16
21 9 0.24
ACGTcount: A:0.36, C:0.25, G:0.27, T:0.12
Consensus pattern (18 bp):
GAAGCTCGAAGGCTAACT
Found at i:85633358 original size:14 final size:14
Alignment explanation
Indices: 85633339--85633365 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
85633329 CACCCTTTAG
85633339 GAAATTTCGTCCTC
1 GAAATTTCGTCCTC
85633353 GAAATTTCGTCCT
1 GAAATTTCGTCCT
85633366 TAAGAATAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (14 bp):
GAAATTTCGTCCTC
Found at i:85636730 original size:51 final size:51
Alignment explanation
Indices: 85636655--85636756 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 51
85636645 AGAGATAGAA
* * * *
85636655 AGTACCAGCAATAATGTCTGGAGCCGTGGCTTCTTCTCTAGCTCAGATAGC
1 AGTACCAGCAATAACGTCTAGAGCCGTGGCTTCTTCTCTAGATCAAATAGC
85636706 AGTACCAGCAATAACGTCTAGAGCCGTGGCTTCTTCTCTAGATCAAATAGC
1 AGTACCAGCAATAACGTCTAGAGCCGTGGCTTCTTCTCTAGATCAAATAGC
85636757 GTATGTACGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (51 bp):
AGTACCAGCAATAACGTCTAGAGCCGTGGCTTCTTCTCTAGATCAAATAGC
Found at i:85638381 original size:20 final size:20
Alignment explanation
Indices: 85638356--85638403 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
85638346 TCCGAATTTT
85638356 TTATTTTTTTCGTA-ATATAA
1 TTATTTTTTT-GTATATATAA
* *
85638376 TTATTTTTTTGTATATTTAT
1 TTATTTTTTTGTATATATAA
85638396 TTATTTTT
1 TTATTTTT
85638404 ATTATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (20 bp):
TTATTTTTTTGTATATATAA
Found at i:85638395 original size:16 final size:16
Alignment explanation
Indices: 85638355--85638413 Score: 52
Period size: 20 Copynumber: 3.6 Consensus size: 16
85638345 CTCCGAATTT
85638355 TTTATTTTTTTCGTAATA
1 TTTATTTTTTT-GT-ATA
85638373 TAATTATTTTTTTGTATA
1 T--TTATTTTTTTGTATA
*
85638391 TTTATTTATTT-T-TA
1 TTTATTTTTTTGTATA
85638405 -TTATTTTTT
1 TTTATTTTTT
85638414 AAAAAAAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
13 8 0.22
14 2 0.05
15 1 0.03
16 9 0.24
18 5 0.14
19 2 0.05
20 10 0.27
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTATTTTTTTGTATA
Found at i:85639161 original size:39 final size:39
Alignment explanation
Indices: 85639099--85639238 Score: 181
Period size: 39 Copynumber: 3.6 Consensus size: 39
85639089 ATTGTGATTT
* * * *
85639099 GAAGCCCAAAGTCTAGCTGAAGCACATAACTGCTAAACG
1 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * *
85639138 GAAGCCCAAAGGCTAATTAAAGCACACAAGTGTTAAACG
1 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
** *
85639177 GAAGCCTGAAGGCTAACTGAAGCACACAAGTGCTAAAAG
1 GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
*
85639216 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCAAAGGCTAACTGAAGC
85639239 TCATCAAAGC
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.40, C:0.23, G:0.24, T:0.14
Consensus pattern (39 bp):
GAAGCCCAAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:85639220 original size:21 final size:21
Alignment explanation
Indices: 85639117--85639220 Score: 67
Period size: 21 Copynumber: 5.2 Consensus size: 21
85639107 AAGTCTAGCT
* *
85639117 GAAGCACATAACTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
* **
85639138 GAAGCCCA-AAG-GCT-AATT
1 GAAGCACACAAGTGCTAAACG
* *
85639156 AAAGCACACAAGTGTTAAACG
1 GAAGCACACAAGTGCTAAACG
** *
85639177 GAAGC-CTGAAG-GCT-AACT
1 GAAGCACACAAGTGCTAAACG
*
85639195 GAAGCACACAAGTGCTAAAAG
1 GAAGCACACAAGTGCTAAACG
85639216 GAAGC
1 GAAGC
85639221 CCGAAGGCTA
Statistics
Matches: 59, Mismatches: 18, Indels: 12
0.66 0.20 0.13
Matches are distributed among these distances:
18 16 0.27
19 12 0.20
20 11 0.19
21 20 0.34
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.13
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:85642414 original size:6 final size:6
Alignment explanation
Indices: 85642403--85642441 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
85642393 ATTTATTTTA
85642403 TTTATT TTTATT TTTATT TTTATTT TTTATTT TTTATT T
1 TTTATT TTTATT TTTATT TTTA-TT TTTA-TT TTTATT T
85642442 AATTTTCTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 19 0.59
7 13 0.41
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:85642423 original size:7 final size:7
Alignment explanation
Indices: 85642394--85642441 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
85642384 TCTGAGTCCA
85642394 TTTATTT
1 TTTATTT
85642401 TATT-TATT
1 T-TTAT-TT
85642409 TTTA-TT
1 TTTATTT
85642415 TTTA-TT
1 TTTATTT
85642421 TTTATTT
1 TTTATTT
85642428 TTTATTT
1 TTTATTT
85642435 TTTATTT
1 TTTATTT
85642442 AATTTTCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
6 12 0.32
7 20 0.54
8 5 0.14
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTATTT
Found at i:85642446 original size:12 final size:12
Alignment explanation
Indices: 85642398--85642447 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
85642388 AGTCCATTTA
85642398 TTTTA-TTTA-T
1 TTTTATTTTATT
85642408 TTTTATTTTTATT
1 TTTTA-TTTTATT
*
85642421 TTTATTTTTTATT
1 TTT-TATTTTATT
*
85642434 TTTTATTTAATT
1 TTTTATTTTATT
85642446 TT
1 TT
85642448 CTTAAGATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 5 0.15
12 13 0.39
13 14 0.42
14 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:85648182 original size:6 final size:6
Alignment explanation
Indices: 85648171--85648216 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
85648161 ATAATTTAAT
85648171 AAATAA AAATAA AAATAA AAATCTAA AAAT-A AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
85648217 AAATATAGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 5 0.14
6 26 0.70
8 6 0.16
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:85648204 original size:19 final size:20
Alignment explanation
Indices: 85648174--85648211 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
85648164 ATTTAATAAA
85648174 TAAAAATAAAAATAAAAATC
1 TAAAAATAAAAATAAAAATC
85648194 TAAAAAT-AAAATAAAAAT
1 TAAAAATAAAAATAAAAAT
85648212 AAAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAATC
Found at i:85648218 original size:20 final size:20
Alignment explanation
Indices: 85648168--85648221 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
85648158 CAAATAATTT
85648168 AATAAATAAAAATAAAAATAAA
1 AATAAA-AAAAAT-AAAATAAA
**
85648190 AAT-CTAAAAATAAAATAAA
1 AATAAAAAAAATAAAATAAA
85648209 AATAAAAAAAATA
1 AATAAAAAAAATA
85648222 TAGTTTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 11 0.41
20 13 0.48
22 3 0.11
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.19
Consensus pattern (20 bp):
AATAAAAAAAATAAAATAAA
Found at i:85648250 original size:9 final size:9
Alignment explanation
Indices: 85648236--85648294 Score: 91
Period size: 9 Copynumber: 6.6 Consensus size: 9
85648226 TTTATACAAA
85648236 TAATTCGGT
1 TAATTCGGT
85648245 TAATTCGGT
1 TAATTCGGT
85648254 TAATTCGGT
1 TAATTCGGT
* *
85648263 TAATTTGGG
1 TAATTCGGT
*
85648272 TAATTCGGG
1 TAATTCGGT
85648281 TAATTCGGT
1 TAATTCGGT
85648290 TAATT
1 TAATT
85648295 TTATACTTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:85648972 original size:50 final size:50
Alignment explanation
Indices: 85648916--85649092 Score: 282
Period size: 50 Copynumber: 3.5 Consensus size: 50
85648906 TTTCGATCAC
*
85648916 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCAT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCAT
*
85648966 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAAGTCAT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCAT
* * * **
85649016 GTCTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCAT
*
85649066 ATGTGTAGTACTAAGTGCAGGCTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTA
85649093 TGCGTACTAG
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 117 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (50 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGATAGGTCAT
Found at i:85649917 original size:180 final size:179
Alignment explanation
Indices: 85649662--85650016 Score: 543
Period size: 180 Copynumber: 2.0 Consensus size: 179
85649652 CCGAGATCTG
* * * *
85649662 TACCATGAGATATATAATTTTTAGTGAAGAAAGATCGGAACTATCAGACAGTGAAATAAGGGTAT
1 TACCATGAGATAAATAATTTTTAGTGAAGAAAGATAGAAACTATCAGACAATGAAATAAGGGTAT
85649727 ATTTAATGAATAAACCGTACTAATTGGA-TAAACCAAAAATTCTGAAAATTTTATGGTAAGAATA
66 ATTTAATGAATAAACCGTACTAATT-GACTAAACCAAAAATTCTGAAAATTTT-TGGTAAGAATA
* * *
85649791 TATGTGAGTCTAGTTTCTGGAAAAATTAGCAGTTCTTAATTTGGAGTCTCT
129 TATATGAGTCTAGTTTCTGGAAAAATTAACAGATCTTAATTTGGAGTCTCT
* * * **
85649842 TACCATGAGATAAATAATTTTTAGTGAAGAGAGGTAGAAACTGTTGGACAATGAAATAAGGGTA-
1 TACCATGAGATAAATAATTTTTAGTGAAGAAAGATAGAAACTATCAGACAATGAAATAAGGGTAT
* *
85649906 ACTTTAATGAATAAACTGTTCTAATTGACTAAACCAAAAATTCTGAAAATTTTTGGTAAGAATAT
66 A-TTTAATGAATAAACCGTACTAATTGACTAAACCAAAAATTCTGAAAATTTTTGGTAAGAATAT
85649971 ATATGAGTCTAGTTTCTGGAAAAATTAACAGATCTTAATTTGGAGT
130 ATATGAGTCTAGTTTCTGGAAAAATTAACAGATCTTAATTTGGAGT
85650017 TCCGTAGCTC
Statistics
Matches: 159, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
179 58 0.36
180 101 0.64
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (179 bp):
TACCATGAGATAAATAATTTTTAGTGAAGAAAGATAGAAACTATCAGACAATGAAATAAGGGTAT
ATTTAATGAATAAACCGTACTAATTGACTAAACCAAAAATTCTGAAAATTTTTGGTAAGAATATA
TATGAGTCTAGTTTCTGGAAAAATTAACAGATCTTAATTTGGAGTCTCT
Found at i:85650788 original size:33 final size:33
Alignment explanation
Indices: 85650719--85650832 Score: 113
Period size: 33 Copynumber: 3.5 Consensus size: 33
85650709 CTTTGGGTCA
* *
85650719 TATCCACCGCAGTACAGCACTTCT-TCAGGCCGG
1 TATCCACCACAGTACAGCACTTCTCT-AGGCCTG
* * *
85650752 TATCAACCACAGTATAGCACTTCTCTTGGCCTG
1 TATCCACCACAGTACAGCACTTCTCTAGGCCTG
* * * * **
85650785 TATCCACCGCAGTACAACACTACCCCCGGCCTG
1 TATCCACCACAGTACAGCACTTCTCTAGGCCTG
85650818 TATCCACCACAGTAC
1 TATCCACCACAGTAC
85650833 TCCACTCCTC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
33 65 0.98
34 1 0.02
ACGTcount: A:0.25, C:0.38, G:0.16, T:0.22
Consensus pattern (33 bp):
TATCCACCACAGTACAGCACTTCTCTAGGCCTG
Found at i:85650827 original size:66 final size:66
Alignment explanation
Indices: 85650719--85650862 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 66
85650709 CTTTGGGTCA
* * ** * * *
85650719 TATCCACCGCAGTACAGCACTTCTTCAGGCCGGTATCAACCACAGTA-TAGCACTTCTCTTGGCC
1 TATCCACCGCAGTACAACACTACCCCAGGCCGGTATCAACCACAGTACT-CCACTCCTCCTGGCC
85650783 TG
65 TG
* * * **
85650785 TATCCACCGCAGTACAACACTACCCCCGGCCTGTATCCACCACAGTACTCCACTCCTCCTGGGTT
1 TATCCACCGCAGTACAACACTACCCCAGGCCGGTATCAACCACAGTACTCCACTCCTCCTGGCCT
85650850 G
66 G
85650851 TATCCACCGCAG
1 TATCCACCGCAG
85650863 CATGACACTC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 64 0.98
67 1 0.02
ACGTcount: A:0.22, C:0.38, G:0.17, T:0.23
Consensus pattern (66 bp):
TATCCACCGCAGTACAACACTACCCCAGGCCGGTATCAACCACAGTACTCCACTCCTCCTGGCCT
G
Found at i:85660658 original size:29 final size:29
Alignment explanation
Indices: 85660560--85660661 Score: 80
Period size: 29 Copynumber: 3.4 Consensus size: 29
85660550 TTTTTTTTTA
* * *
85660560 GTCACTCAATTATAAAAAGTTACAAAATG
1 GTCACTCAACTATGAAAAGTTATAAAATG
* * * ****
85660589 GTCACTCAACTATAAGTAAACTTCTTTTTTG
1 GTCACTCAACTAT--GAAAAGTTATAAAATG
85660620 GTCAAC-CAACTATGAAAAGTTATAAAATG
1 GTC-ACTCAACTATGAAAAGTTATAAAATG
85660649 GTCACTCAACTAT
1 GTCACTCAACTAT
85660662 TCAATTTTGT
Statistics
Matches: 52, Mismatches: 17, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
28 2 0.04
29 31 0.60
31 17 0.33
32 2 0.04
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (29 bp):
GTCACTCAACTATGAAAAGTTATAAAATG
Found at i:85661455 original size:15 final size:17
Alignment explanation
Indices: 85661424--85661455 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
85661414 TAAGTTTTTC
85661424 GTAATTATCTAATTTAA
1 GTAATTATCTAATTTAA
85661441 GTAATT-TCT-ATTTAA
1 GTAATTATCTAATTTAA
85661456 CCCTTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 3 0.20
17 6 0.40
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
GTAATTATCTAATTTAA
Found at i:85664130 original size:65 final size:62
Alignment explanation
Indices: 85664009--85664220 Score: 172
Period size: 65 Copynumber: 3.2 Consensus size: 62
85663999 GTGCACATTT
* * ** * * *
85664009 CCTTTTCAAGTGGTACACACGAAGTGTACATACCCTTTTCAATTTGTATACTCAAAGTGCACATA
1 CCTTTTCAAGT-GTACACA--AAGTATACCTTGCCTTTTCAA-GTGTATACACAAAGTGTACATA
85664074 A
62 A
* * * * * **
85664075 CCTTTTCAAGTGTACATATATAGTGTACCTTGCCTTTTCAAGTGGTGTACACAAAGTATACCTTT
1 CCTTTTCAAGTGTACACA-A-AGTATACCTTGCCTTTTCAAGT-GTATACACAAAGTGTACATAA
* * *
85664140 CCTTTTCATATGGTATACACAAAGTATACCTTTCCTTTTCAAGTGTACACACAAAGTGTACATAA
1 CCTTTTCA-A--GTGTACACAAAGTATACCTTGCCTTTTCAAGTGTATACACAAAGTGTACATAA
85664205 CCTTTTCAAGTTGTAC
1 CCTTTTCAAG-TGTAC
85664221 CATTTGGGTA
Statistics
Matches: 116, Mismatches: 24, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 3 0.03
65 68 0.59
66 32 0.28
67 1 0.01
68 7 0.06
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (62 bp):
CCTTTTCAAGTGTACACAAAGTATACCTTGCCTTTTCAAGTGTATACACAAAGTGTACATAA
Found at i:85664144 original size:33 final size:33
Alignment explanation
Indices: 85663970--85664215 Score: 156
Period size: 33 Copynumber: 7.5 Consensus size: 33
85663960 TTTCCGATGG
* * * * * **
85663970 ACCTTTCCTTTTCTAGTTGTACACTCAAGGTGC
1 ACCTTTCCTTTTCAAGTGGTATACACAAAGTAT
* * * *
85664003 ACATTTCCTTTTCAAGTGGTACACACGAAGTGT
1 ACCTTTCCTTTTCAAGTGGTATACACAAAGTAT
* ** * * * **
85664036 ACATACCCTTTTCAATTTGTATACTCAAAGTGC
1 ACCTTTCCTTTTCAAGTGGTATACACAAAGTAT
* ** * * * * *
85664069 ACATAACCTTTTCAAGT-GTACATATATAGTGT
1 ACCTTTCCTTTTCAAGTGGTATACACAAAGTAT
* *
85664101 ACCTTGCCTTTTCAAGTGGTGTACACAAAGTAT
1 ACCTTTCCTTTTCAAGTGGTATACACAAAGTAT
85664134 ACCTTTCCTTTTCATA-TGGTATACACAAAGTAT
1 ACCTTTCCTTTTCA-AGTGGTATACACAAAGTAT
* *
85664167 ACCTTTCCTTTTCAAGT-GTACACACAAAGTGT
1 ACCTTTCCTTTTCAAGTGGTATACACAAAGTAT
* **
85664199 ACATAACCTTTTCAAGT
1 ACCTTTCCTTTTCAAGT
85664216 TGTACCATTT
Statistics
Matches: 171, Mismatches: 39, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
32 51 0.30
33 119 0.70
34 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.36
Consensus pattern (33 bp):
ACCTTTCCTTTTCAAGTGGTATACACAAAGTAT
Found at i:85664144 original size:98 final size:98
Alignment explanation
Indices: 85663976--85664220 Score: 222
Period size: 98 Copynumber: 2.5 Consensus size: 98
85663966 ATGGACCTTT
* * * * ** * *
85663976 CCTTTTCTAGTTGTACACTCAAGGTGCACATTTCCTTTTCAAGTGGTACACACGAAGTGTACATA
1 CCTTTTCAAG-TGTACACACAAAGTGTACATAACCTTTTCAAGTGGTACACACAAAGTATACATA
* * *
85664041 CCCTTTTCA-ATTTGTATACTCAAAGTGCACATAA
65 CCCTTTTCATA-TGGTATACACAAAGTACACATAA
* * * * ** ** * **
85664075 CCTTTTCAAGTGTACATATATAGTGTACCTTGCCTTTTCAAGTGGTGTACACAAAGTATACCTTT
1 CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGTGGTACACACAAAGTATACATAC
* * **
85664140 CCTTTTCATATGGTATACACAAAGTATACCTTT
66 CCTTTTCATATGGTATACACAAAGTACACATAA
*
85664173 CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGTTGTAC
1 CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGTGGTAC
85664221 CATTTGGGTA
Statistics
Matches: 113, Mismatches: 32, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
98 103 0.91
99 10 0.09
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (98 bp):
CCTTTTCAAGTGTACACACAAAGTGTACATAACCTTTTCAAGTGGTACACACAAAGTATACATAC
CCTTTTCATATGGTATACACAAAGTACACATAA
Found at i:85664943 original size:20 final size:22
Alignment explanation
Indices: 85664901--85664948 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
85664891 TGTAAAAGTG
*
85664901 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAAACTTTC
85664923 ATTT-TCTATCAA-AAACTTTC
1 ATTTATCTATCAATAAACTTTC
85664943 AATTTA
1 -ATTTA
85664949 CAGCATATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 7 0.30
21 12 0.52
22 4 0.17
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAAACTTTC
Found at i:85665418 original size:13 final size:13
Alignment explanation
Indices: 85665400--85665425 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85665390 GCACATAATT
85665400 GATAAAATTTTTC
1 GATAAAATTTTTC
85665413 GATAAAATTTTTC
1 GATAAAATTTTTC
85665426 ATGCAATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
GATAAAATTTTTC
Found at i:85667501 original size:16 final size:18
Alignment explanation
Indices: 85667470--85667502 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
85667460 AGGTTGTACG
85667470 AACATAAGTGCTTCAGTT
1 AACATAAGTGCTTCAGTT
85667488 AACA-AAGT-CTTCAGT
1 AACATAAGTGCTTCAGT
85667503 CTATCAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (18 bp):
AACATAAGTGCTTCAGTT
Found at i:85671730 original size:33 final size:32
Alignment explanation
Indices: 85671693--85671845 Score: 128
Period size: 33 Copynumber: 4.7 Consensus size: 32
85671683 TACCCAAATG
** *
85671693 GTACAGCTTGAAAAGGTTATGTACACTTTGTGT
1 GTACA-CTTGAAAAGGAAAGGTACACTTTGTGT
*
85671726 GTACACTTGAAAAGGAAAGGTATACTTTGTGT
1 GTACACTTGAAAAGGAAAGGTACACTTTGTGT
* * *
85671758 ATAC-CATATGAAAAGGATAGGTATACTTTGTGT
1 GTACAC-T-TGAAAAGGAAAGGTACACTTTGTGT
* * * * * *
85671791 ATACCATTTGAAAAGGGAATGTACACCTTGAGT
1 GTA-CACTTGAAAAGGAAAGGTACACTTTGTGT
*
85671824 GTACAACTAGAAAAGGAAAGGT
1 GTAC-ACTTGAAAAGGAAAGGT
85671846 TCATCGGAAA
Statistics
Matches: 97, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
31 1 0.01
32 28 0.29
33 66 0.68
34 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (32 bp):
GTACACTTGAAAAGGAAAGGTACACTTTGTGT
Found at i:85673152 original size:17 final size:17
Alignment explanation
Indices: 85673130--85673165 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
85673120 GTGTTACATC
85673130 ATTGGTACCACATTTCT
1 ATTGGTACCACATTTCT
85673147 ATTGGTACCACATTTCT
1 ATTGGTACCACATTTCT
85673164 AT
1 AT
85673166 CATCAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (17 bp):
ATTGGTACCACATTTCT
Found at i:85674930 original size:12 final size:13
Alignment explanation
Indices: 85674907--85674939 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
85674897 TGCGTCTGTT
85674907 TCTTTATTCTTTC
1 TCTTTATTCTTTC
*
85674920 TCTTT-TTCTTTT
1 TCTTTATTCTTTC
85674932 TCTTTATT
1 TCTTTATT
85674940 TCATTTACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (13 bp):
TCTTTATTCTTTC
Found at i:85675004 original size:22 final size:22
Alignment explanation
Indices: 85674962--85675005 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
85674952 TCATTTGTTT
* *
85674962 TATTATAATTACTTTATTATTA
1 TATTATAATTACTTAAATATTA
85674984 TATTAT-ATATACTTAAATATTA
1 TATTATAAT-TACTTAAATATTA
85675006 AGTAAAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTATAATTACTTAAATATTA
Found at i:85681689 original size:21 final size:21
Alignment explanation
Indices: 85681664--85681706 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
85681654 CATCTGTTTC
*
85681664 TTTC-TTCTTTCTCTTTTTGTT
1 TTTCTTTCTTTC-CTTTCTGTT
85681685 TTTCTTTCTTTCCTTTCTGTT
1 TTTCTTTCTTTCCTTTCTGTT
85681706 T
1 T
85681707 CGTTTTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.00, C:0.21, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTCTTTCTTTCCTTTCTGTT
Found at i:85681731 original size:44 final size:44
Alignment explanation
Indices: 85681656--85681740 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
85681646 AGCTTTTGCA
* * * * *
85681656 TCTGTTTCTTTCTTCTTTCTCTTTTTGTTTTTCTTTCTTTCCTT
1 TCTGTTTCTTTCTACTTTCCCTCTTTCTTTTTCTTTATTTCCTT
85681700 TCTGTTTCGTTT-TACTTTCCCTCTTTCTTTTTCTTTATTTC
1 TCTGTTTC-TTTCTACTTTCCCTCTTTCTTTTTCTTTATTTC
85681741 ATTTACTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 32 0.91
45 3 0.09
ACGTcount: A:0.02, C:0.24, G:0.05, T:0.69
Consensus pattern (44 bp):
TCTGTTTCTTTCTACTTTCCCTCTTTCTTTTTCTTTATTTCCTT
Found at i:85691586 original size:3 final size:3
Alignment explanation
Indices: 85691580--85691613 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
85691570 AGAAAAAGAA
*
85691580 GAC GAC GAC GAC GAC GAC GAC GAT GAC GAC GAC G
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC G
85691614 GTATCCAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.29, G:0.35, T:0.03
Consensus pattern (3 bp):
GAC
Found at i:85709641 original size:22 final size:22
Alignment explanation
Indices: 85709600--85709641 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
85709590 AATCTTTGAC
* *
85709600 ATAATTTAATTAGTTTATTTTT
1 ATAATTTAATTAATTAATTTTT
*
85709622 ATAATTTTATTAATTAATTT
1 ATAATTTAATTAATTAATTT
85709642 AAATAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
ATAATTTAATTAATTAATTTTT
Found at i:85714253 original size:43 final size:43
Alignment explanation
Indices: 85714192--85714278 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
85714182 CACTCGAAAG
85714192 AAAGGAGGCAATTTTATTTTGTTAGAGTGGGATGGCACTAGGT
1 AAAGGAGGCAATTTTATTTTGTTAGAGTGGGATGGCACTAGGT
85714235 AAAGGAGGCAATTTTATTTTGTTAGAGTGGGATGGCACTAGGT
1 AAAGGAGGCAATTTTATTTTGTTAGAGTGGGATGGCACTAGGT
85714278 A
1 A
85714279 GAATTAGGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.29, C:0.07, G:0.32, T:0.32
Consensus pattern (43 bp):
AAAGGAGGCAATTTTATTTTGTTAGAGTGGGATGGCACTAGGT
Found at i:85717774 original size:3 final size:3
Alignment explanation
Indices: 85717766--85717800 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
85717756 GTAAGAAGGA
85717766 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
85717801 GCTTTTGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:85717958 original size:3 final size:3
Alignment explanation
Indices: 85717950--85718007 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
85717940 ATGCCCTTGT
* *
85717950 TTC TTC TTC TTC TTC TTC TTC TTC TCC TTC TCC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
85717998 TTC TTC TTC T
1 TTC TTC TTC T
85718008 CGTGTACTGT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:85719336 original size:28 final size:28
Alignment explanation
Indices: 85719291--85719346 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
85719281 AAATAAGTCA
85719291 TTAAAATTATTTAAAAAATTATATTAATT
1 TTAAAATTATTTAAAAAATTA-ATTAATT
*
85719320 TTAATATT-TTTAAAAAATTAATTAATT
1 TTAAAATTATTTAAAAAATTAATTAATT
85719347 GATGATGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 7 0.27
28 12 0.46
29 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
TTAAAATTATTTAAAAAATTAATTAATT
Found at i:85724090 original size:11 final size:11
Alignment explanation
Indices: 85724074--85724104 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
85724064 GTAATGTTAA
85724074 AATATATACAT
1 AATATATACAT
85724085 AATATATACAT
1 AATATATACAT
85724096 ATATATATA
1 A-ATATATA
85724105 AAATAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.63
12 7 0.37
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (11 bp):
AATATATACAT
Found at i:85724629 original size:22 final size:23
Alignment explanation
Indices: 85724571--85724647 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 23
85724561 GAAATATACA
* *
85724571 ATATAGAA-ATATACAT-ACAAT
1 ATATAAAATATATACATAATAAT
85724592 AGTATAAAAGGTATATA-ACTAATAAT
1 A-TATAAAA--TATATACA-TAATAAT
*
85724618 AT-TAAAATATATACATAATAGT
1 ATATAAAATATATACATAATAAT
85724640 ATATAAAA
1 ATATAAAA
85724648 ACATAATATT
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
21 1 0.02
22 20 0.44
23 6 0.13
24 6 0.13
25 7 0.16
26 5 0.11
ACGTcount: A:0.57, C:0.05, G:0.06, T:0.31
Consensus pattern (23 bp):
ATATAAAATATATACATAATAAT
Found at i:85724653 original size:18 final size:17
Alignment explanation
Indices: 85724630--85724669 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
85724620 TAAAATATAT
*
85724630 ACATAATAGTATATAAAA
1 ACATAATAGTA-AAAAAA
*
85724648 ACATAATATTAAAAAAA
1 ACATAATAGTAAAAAAA
85724665 ACATA
1 ACATA
85724670 TACACATAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.65, C:0.07, G:0.03, T:0.25
Consensus pattern (17 bp):
ACATAATAGTAAAAAAA
Found at i:85724806 original size:3 final size:3
Alignment explanation
Indices: 85724800--85724825 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
85724790 AAACATATAC
85724800 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
85724826 TTTTATAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:85727190 original size:6 final size:6
Alignment explanation
Indices: 85727158--85727196 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
85727148 TCTCGAAAAT
* * *
85727158 TTTTGT TTTTGC TTTTGC TTTTGC TTTTCC TTTTCC TTT
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTT
85727197 CCATTTCCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.18, G:0.10, T:0.72
Consensus pattern (6 bp):
TTTTGC
Found at i:85728393 original size:18 final size:19
Alignment explanation
Indices: 85728370--85728405 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
85728360 GGCTGTAGGT
85728370 GCTAAAA-CAAATTAATTA
1 GCTAAAAGCAAATTAATTA
*
85728388 GCTAAAAGCAATTTAATT
1 GCTAAAAGCAAATTAATT
85728406 GGCTGTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.31
Consensus pattern (19 bp):
GCTAAAAGCAAATTAATTA
Found at i:85734877 original size:21 final size:21
Alignment explanation
Indices: 85734836--85734877 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
85734826 GTCTTTTTTT
*
85734836 AATGAATGTTTTGAATAAAAA
1 AATGAATATTTTGAATAAAAA
*
85734857 AATGTAATATTTTGCATAAAA
1 AATG-AATATTTTGAATAAAA
85734878 CTGTTATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (21 bp):
AATGAATATTTTGAATAAAAA
Found at i:85737108 original size:3 final size:3
Alignment explanation
Indices: 85737093--85737167 Score: 116
Period size: 3 Copynumber: 24.7 Consensus size: 3
85737083 GGCAGCAGCA
85737093 AAG AGAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
85737138 AAG AAG AAG AAG AAG AAGG AGG AAG AAG AA
1 AAG AAG AAG AAG AAG AA-G AAG AAG AAG AA
85737168 AAAATGTTAG
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 2 0.03
3 60 0.90
4 5 0.07
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:85740095 original size:33 final size:34
Alignment explanation
Indices: 85740038--85740121 Score: 91
Period size: 33 Copynumber: 2.5 Consensus size: 34
85740028 GCCACATCTG
* *
85740038 TACTCTACTCCTTCCAG-CTCATATCCACCACCA
1 TACTCTACTCCTCCCGGCCTCATATCCACCACCA
* * *
85740071 TACTCTACTCCTCCCGGCCT-ATATCCAGCGCCG
1 TACTCTACTCCTCCCGGCCTCATATCCACCACCA
* *
85740104 TTCTCTACTCCACCCGGC
1 TACTCTACTCCTCCCGGC
85740122 TCGAGTTCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 41 0.95
34 2 0.05
ACGTcount: A:0.18, C:0.46, G:0.10, T:0.26
Consensus pattern (34 bp):
TACTCTACTCCTCCCGGCCTCATATCCACCACCA
Found at i:85740563 original size:21 final size:22
Alignment explanation
Indices: 85740504--85740706 Score: 102
Period size: 21 Copynumber: 9.1 Consensus size: 22
85740494 CATAAAAAAT
85740504 AATA-AATTATCAAAATTATTAA
1 AATATAATT-TCAAAATTATTAA
*
85740526 AATAATAATATTAAAAATTATTAA
1 AAT-ATAAT-TTCAAAATTATTAA
*
85740550 ACT-TAATTTCAAAATTATT-A
1 AATATAATTTCAAAATTATTAA
* *
85740570 AA-A-AATTT-AAGCA-TA-AAA
1 AATATAATTTCAA-AATTATTAA
* *
85740588 AATAATAAATTAATAACATTATTAA
1 AAT-ATAATTTCA-AA-ATTATTAA
*
85740613 AATAATAATATTAAAAAATTATT-A
1 AAT-ATAAT-TT-CAAAATTATTAA
* * *
85740637 AACATAATTTCAGAATTATTCA
1 AATATAATTTCAAAATTATTAA
* *
85740659 AATAATAATATTAAAAAATTATGAA
1 AAT-ATAAT-TT-CAAAATTATTAA
*
85740684 ACT-TAATTTCAAAATTATTAA
1 AATATAATTTCAAAATTATTAA
85740705 AA
1 AA
85740707 ATTTTAAGTA
Statistics
Matches: 139, Mismatches: 22, Indels: 41
0.69 0.11 0.20
Matches are distributed among these distances:
18 7 0.05
19 6 0.04
20 3 0.02
21 34 0.24
22 15 0.11
23 17 0.12
24 24 0.17
25 27 0.19
26 4 0.03
27 2 0.01
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (22 bp):
AATATAATTTCAAAATTATTAA
Found at i:85740614 original size:25 final size:25
Alignment explanation
Indices: 85740586--85740680 Score: 101
Period size: 25 Copynumber: 4.0 Consensus size: 25
85740576 TTAAGCATAA
*
85740586 AAAATAATAA-ATTAATAACATTATT
1 AAAATAATAATATTAA-AAAATTATT
85740611 AAAATAATAATATTAAAAAATTATT
1 AAAATAATAATATTAAAAAATTATT
* * *
85740636 -AAA-CATAAT-TT-CAGAATTATT
1 AAAATAATAATATTAAAAAATTATT
*
85740657 CAAATAATAATATTAAAAAATTAT
1 AAAATAATAATATTAAAAAATTAT
85740681 GAAACTTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
21 8 0.14
22 5 0.09
23 10 0.17
24 5 0.09
25 25 0.43
26 5 0.09
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (25 bp):
AAAATAATAATATTAAAAAATTATT
Found at i:85740654 original size:88 final size:88
Alignment explanation
Indices: 85740426--85740656 Score: 340
Period size: 87 Copynumber: 2.6 Consensus size: 88
85740416 TTTTCCAATA
* * * * *
85740426 AAAATTTATTAAATTAATAATACTAAAAAATTATTAGACTTAATTTTAAAAATATTAAAAAATCG
1 AAAA-TTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTCAAAATTATTAAAAAATCG
85740491 AAGCATAAAAAATAATAAATTATC
65 AAGCATAAAAAATAATAAATTATC
**
85740515 AAAATTATTAAAATAATAATATT-AAAAATTATTAAACTTAATTTCAAAATTATTAAAAAATTTA
1 AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTCAAAATTATTAAAAAATCGA
85740579 AGCATAAAAAATAATAAATTAAT-
66 AGCATAAAAAATAATAAATT-ATC
* * *
85740602 AACATTATTAAAATAATAATATTAAAAAATTATTAAACATAATTTCAGAATTATT
1 AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTCAAAATTATT
85740657 CAAATAATAA
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
87 78 0.60
88 48 0.37
89 4 0.03
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (88 bp):
AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTCAAAATTATTAAAAAATCGA
AGCATAAAAAATAATAAATTATC
Found at i:85740662 original size:46 final size:46
Alignment explanation
Indices: 85740426--85740778 Score: 307
Period size: 46 Copynumber: 7.9 Consensus size: 46
85740416 TTTTCCAATA
* * * *
85740426 AAAATTTATTAAATTAATAATACTAAAAAATTATTAGACTTAATTTT
1 AAAA-TTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTC
* * *
85740473 AAAAATATTAAAA-AATCGAAGCA-TAAAAAA-TAATAAA-TT-A--TC
1 AAAATTATTAAAATAAT--AA-TATTAAAAAATTATTAAACTTAATTTC
85740515 AAAATTATTAAAATAATAATATT-AAAAATTATTAAACTTAATTTC
1 AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTC
* *
85740560 AAAATTATTAAAA-AATTTAAGCA-TAAAAAA-TAATAAA-TTAA--T-
1 AAAATTATTAAAATAA--TAA-TATTAAAAAATTATTAAACTTAATTTC
* *
85740602 AACATTATTAAAATAATAATATTAAAAAATTATTAAACATAATTTC
1 AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTC
* * *
85740648 AGAATTATTCAAATAATAATATTAAAAAATTATGAAACTTAATTTC
1 AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTC
** *
85740694 AAAATTATTAAAAATTTTAAGTA-TAAAAAA-TAATAAA-TTAA--T-
1 AAAATTATT-AAAATAATAA-TATTAAAAAATTATTAAACTTAATTTC
* *
85740736 AACATTATTAAAATAATAATATTAAATAATTATTAAACTTAAT
1 AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAAT
85740779 AAAAAAAATT
Statistics
Matches: 248, Mismatches: 31, Indels: 57
0.74 0.09 0.17
Matches are distributed among these distances:
40 9 0.04
41 33 0.13
42 47 0.19
43 15 0.06
44 3 0.01
45 29 0.12
46 76 0.31
47 33 0.13
48 3 0.01
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (46 bp):
AAAATTATTAAAATAATAATATTAAAAAATTATTAAACTTAATTTC
Done.