Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 75 of 356
Found at i:23554947 original size:27 final size:25
Alignment explanation
Indices: 23554881--23554952 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 25
23554871 TATCTTATGT
* *
23554881 ATATATTTTAAT-TATATTATGTAT
1 ATATTTTTTAATCTATATTATGTAC
23554905 ATATTTTTTACA-CTATATTATGTAC
1 ATATTTTTTA-ATCTATATTATGTAC
*
23554930 ATATTTTTTTATATCTATTTTAT
1 ATA-TTTTTTA-ATCTATATTAT
23554953 ACATATGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
24 9 0.22
25 15 0.38
26 8 0.20
27 8 0.20
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.60
Consensus pattern (25 bp):
ATATTTTTTAATCTATATTATGTAC
Found at i:23555027 original size:25 final size:24
Alignment explanation
Indices: 23554999--23555054 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
23554989 GTTATATTTT
*
23554999 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
23555024 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
23555047 CACTATTA
1 CACTATTA
23555055 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:23572692 original size:14 final size:13
Alignment explanation
Indices: 23572668--23572714 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
23572658 CACGCCGAGG
23572668 TATTTTTAATTTC
1 TATTTTTAATTTC
23572681 TATTTTTCAATTTC
1 TATTTTT-AATTTC
**
23572695 TGCTTTTAATTTC
1 TATTTTTAATTTC
*
23572708 TGTTTTT
1 TATTTTT
23572715 CAAAAATCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.17, C:0.11, G:0.04, T:0.68
Consensus pattern (13 bp):
TATTTTTAATTTC
Found at i:23572767 original size:99 final size:99
Alignment explanation
Indices: 23572585--23572963 Score: 411
Period size: 99 Copynumber: 4.0 Consensus size: 99
23572575 CACTGAAGTA
* * *
23572585 TTTTCAATTTCT-TTTTTCAATTTATGCTTTTCAAAAATCAACTCATATTG-GAGAGGTGAGCTG
1 TTTTCAATTTCTGCTTTT-AATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * *
23572648 AGCCTCGGGGCACGCCGAGGTATTTTTAATTTCTAT
65 AGCCTCAGGGCACGCTGAGGTATTTTCAATTTCT-T
*
23572684 TTTTCAATTTCTGCTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTGCTTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
23572749 GCCTCAGGGCACG-TGAGGTATTTTCAATTTCTT
66 GCCTCAGGGCACGCTGAGGTATTTTCAATTTCTT
* ** * *
23572782 TTTTCAATTTTTGCCTTACAAATTCTGCTTTT---AAATCAACTTATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTCTG-CTTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
23572844 AGCCTCAGGACACGCTGAGGTATTTTCAATTTTCGTT
65 AGCCTCAGGGCACGCTGAGGTATTTTCAA-TTTC-TT
* *
23572881 TTTTCAATTTATG-TTTCTAA------------AAAAATCAACTCATATTGCGAGAAGTGAGTTG
1 TTTTCAATTTCTGCTTT-TAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
23572933 AGCCTCAGGACA-GCTGAGGTAATTTCAATTT
65 AGCCTCAGGGCACGCTGAGGTATTTTCAATTT
23572964 TTGTTTGTCA
Statistics
Matches: 251, Mismatches: 20, Indels: 30
0.83 0.07 0.10
Matches are distributed among these distances:
87 3 0.01
88 15 0.06
89 40 0.16
96 42 0.17
97 16 0.06
98 19 0.08
99 87 0.35
100 29 0.12
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (99 bp):
TTTTCAATTTCTGCTTTTAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCAGGGCACGCTGAGGTATTTTCAATTTCTT
Found at i:23573165 original size:147 final size:146
Alignment explanation
Indices: 23572881--23573483 Score: 754
Period size: 147 Copynumber: 4.1 Consensus size: 146
23572871 AATTTTCGTT
* * * *
23572881 TTTTCAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA-
1 TTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* * *
23572945 GCTGAGGTAATTTCAATTTTTGTTTGTC-AAAACTCAACTCAAATTGCAAGAGGTGAGTTGAGCC
66 GCTGAGGTAATTTCAATTTTTGTTTGTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAACC
*
23573009 TCAAGACACGTTGAGGTA
131 TCAAG--ACGCTGAGGTA
* *
23573027 TTTT-AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
23573091 CGCTGAGGTAATTTCAATTTTTGTTTGTC-AAAAATCAATTCATATTGCAAGAGGTGAGTT-AAG
65 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAA-
*
23573154 CCTCAAGACACGATGAGGTA
129 CCTCAAG--ACGCTGAGGTA
* * *
23573174 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGT-TTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * *
23573239 CGTTGAGGTATTTTCAATTTCTT-TTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGA
65 CGCTGAGGTAATTTCAATTT-TTGTTTGTC-AAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
23573303 ACCTCAAGACGCTGAGGTA
128 ACCTCAAGACGCTGAGGTA
* * *
23573322 ATTTCAATTTTTGTTTGT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
* * * * * * *
23573386 GTTAAGGTATTTTCAATTTCTGTCTT-TCAAAAAAAATCAGCTCATATTGCGAGAGGTAAGTTGA
66 GCTGAGGTAATTTCAATTTTTGT-TTGTC--AAAAAATCAACTCATATTGCAAGAGGTGAGTTGA
*
23573450 ACCTCAAGACGCTGAGGTG
128 ACCTCAAGACGCTGAGGTA
*
23573469 TTTTCCATTTCTGTT
1 TTTTCAATTTCTGTT
23573484 CTTCAATTTC
Statistics
Matches: 409, Mismatches: 36, Indels: 23
0.87 0.08 0.05
Matches are distributed among these distances:
145 12 0.03
146 114 0.28
147 145 0.35
148 96 0.23
149 5 0.01
150 35 0.09
151 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (146 bp):
TTTTCAATTTCTGTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
GCTGAGGTAATTTCAATTTTTGTTTGTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAACC
TCAAGACGCTGAGGTA
Found at i:23573233 original size:75 final size:74
Alignment explanation
Indices: 23572881--23573483 Score: 717
Period size: 73 Copynumber: 8.2 Consensus size: 74
23572871 AATTTTCGTT
* * * * *
23572881 TTTTCAATTTATGTTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA-
1 TTTTCAATTTCTGTTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
23572945 GCTGAGGTA
66 GCTGAGGTA
* * * * * * *
23572954 ATTTCAATTTTTGTTTGT-CAAAACTCAACTCAAATTGCAAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
*
23573018 GTTGAGGTA
66 GCTGAGGTA
* * * *
23573027 TTTT-AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTGT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
23573091 CGCTGAGGTA
65 CGCTGAGGTA
* * * * *
23573101 ATTTCAATTTTTGTTTGT-CAAAAATCAATTCATATTGCAAGAGGTGAGTT-AAGCCTCAAGACA
1 TTTTCAATTTCTGTTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTCAAGACA
*
23573164 CGATGAGGTA
65 CGCTGAGGTA
*
23573174 TTTTCAATTTCTGTCTT-TAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTTCTGT-TTGT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
*
23573238 ACGTTGAGGTA
64 ACGCTGAGGTA
* * *
23573249 TTTTCAATTTCTTTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGTTTGT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
23573312 CGCTGAGGTA
65 CGCTGAGGTA
* * *
23573322 ATTTCAATTTTTGTTTGT-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
* *
23573386 GTTAAGGTA
66 GCTGAGGTA
* *
23573395 TTTTCAATTTCTGTCTT-TCAAAAAAAATCAGCTCATATTGCGAGAGGTAAGTTGAACCTCAAG-
1 TTTTCAATTTCTGT-TTGT--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGA
*
23573458 -ACGCTGAGGTG
63 CACGCTGAGGTA
*
23573469 TTTTCCATTTCTGTT
1 TTTTCAATTTCTGTT
23573484 CTTCAATTTC
Statistics
Matches: 455, Mismatches: 59, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
71 40 0.09
72 51 0.11
73 132 0.29
74 78 0.17
75 113 0.25
76 41 0.09
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (74 bp):
TTTTCAATTTCTGTTTGTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAC
GCTGAGGTA
Found at i:23573596 original size:15 final size:14
Alignment explanation
Indices: 23573560--23573592 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
23573550 CGCTGAGGTA
23573560 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
23573574 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
23573588 TTTTC
1 TTTTC
23573593 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:23573600 original size:91 final size:90
Alignment explanation
Indices: 23573458--23573937 Score: 440
Period size: 91 Copynumber: 5.3 Consensus size: 90
23573448 GAACCTCAAG
* * * * * * *
23573458 ACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGC
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGC
23573523 GAGAGGTGAGTTGAGCCTTGACTCAC
66 GAGAGGTGAGTTGAGCCTTGA-TCAC
* *
23573549 ACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTT-TGTTTTTCCAAAAAATCAACTTATATTG
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTC-AATTTATGTTTTTCAAAAAAATCAACTCATATTG
* * * **
23573613 CGAGAGGTGAGTTCAACC-TCAAGAC
65 CGAGAGGTGAGTTGAGCCTTGATCAC
* * * *
23573638 ACGCTGAGATATTTTCAATTTCTTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATT
1 ACGCTGAGGTATTTTCAAATTC--TGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATT
* *
23573703 GCGAGAGGTGAGTTAAGCCTCAGATCAC
64 GCGAGAGGTGAGTTGAGCCT-TGATCAC
* * * *
23573731 ACGCCGAGGTATTTTCAATTGATT-TTTTTTTCAATTTATGATTTGC--AAAAATCAACTCATAT
1 ACGCTGAGGTATTTTCAA---ATTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAT
* *
23573793 TACGAGAGGTGAGTTGAGCCTTGGGTCAC
63 TGCGAGAGGTGAGTTGAGCCTT-GATCAC
** * * * *
23573822 ATACCGATGTATTTTCAAAATCTGTTTTACAAATTT-TG-TTTT---AAAAATCAACTCATATTG
1 ACGCTGAGGTATTTTCAAATTCTGTTTTTC-AATTTATGTTTTTCAAAAAAATCAACTCATATTG
* *
23573882 CGAGAAGTGAGTTGAGCCTTGGCTCAC
65 CGAGAGGTGAGTTGAGCCTT-GATCAC
** * * *
23573909 GTGCTGAGCTATTTTCAATTTATGTTTTT
1 ACGCTGAGGTATTTTCAAATTCTGTTTTT
23573938 AATGTCTAGT
Statistics
Matches: 323, Mismatches: 54, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
87 62 0.19
88 5 0.02
89 30 0.09
90 12 0.04
91 169 0.52
92 5 0.02
93 38 0.12
96 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (90 bp):
ACGCTGAGGTATTTTCAAATTCTGTTTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTTGATCAC
Found at i:23573733 original size:182 final size:177
Alignment explanation
Indices: 23573416--23573807 Score: 488
Period size: 182 Copynumber: 2.2 Consensus size: 177
23573406 TGTCTTTCAA
* * * * * *
23573416 AAAAAATCAGCTCATATTGCGAGAGGTAAGTTGAACCTCAAGACGCTGAGGTGTTTTCCATTTCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAAGACGCTGAGATATTTTCAATTTCT
* * * *
23573481 GTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTTGACT
66 GTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTAGACT
* *
23573546 CACACGCTGAGGTATTTTCAA-ATTCTGTTTTTCAAATTT-TGTTTTTCC
131 CACACGCCGAGGTATTTTCAATATT-TGTTTTTC-AATTTATG-ATTTCC
*
23573594 AAAAAATCAACTTATATTGCGAGAGGTGAGTTCAACCTCAAGACACGCTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAAG--ACGCTGAGATATTTTCAATTT
* *
23573659 CTTTTTTTTTCAATTTATGT-TTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
64 C--TGTTCTTCAATTTATGTGTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
* *
23573723 CAGA-TCACACGCCGAGGTATTTTCAATTGATTTTTTTTTCAATTTATGATTTGC
126 -AGACTCACACGCCGAGGTATTTTCAA-T-ATTTGTTTTTCAATTTATGATTTCC
*
23573777 -AAAAATCAACTCATATTACGAGAGGTGAGTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTT
23573808 GAGCCTTGGG
Statistics
Matches: 185, Mismatches: 19, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
178 38 0.21
180 19 0.10
181 2 0.01
182 103 0.56
183 11 0.06
184 9 0.05
185 3 0.02
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.36
Consensus pattern (177 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAAGACGCTGAGATATTTTCAATTTCT
GTTCTTCAATTTATGTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTAGACT
CACACGCCGAGGTATTTTCAATATTTGTTTTTCAATTTATGATTTCC
Found at i:23574652 original size:18 final size:18
Alignment explanation
Indices: 23574629--23574682 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
23574619 CCACCACCGA
23574629 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
23574647 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
23574659 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
23574677 CTCCAC
1 CTCCAC
23574683 CACCTACTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 1 0.04
16 1 0.04
17 3 0.11
18 13 0.46
ACGTcount: A:0.24, C:0.50, G:0.07, T:0.19
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:23574653 original size:30 final size:30
Alignment explanation
Indices: 23574619--23574746 Score: 211
Period size: 30 Copynumber: 4.3 Consensus size: 30
23574609 CTAGCCTTTG
*
23574619 CCACCACCGACTCCACTAGCCACACTTGCT
1 CCACCACCTACTCCACTAGCCACACTTGCT
*
23574649 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCTACTCCACTAGCCACACTTGCT
*
23574679 CCACCACCTACTCCACTAGCTACACTTGCT
1 CCACCACCTACTCCACTAGCCACACTTGCT
* *
23574709 TCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCTACTCCACTAGCCACACTTGCT
23574739 CCACCACC
1 CCACCACC
23574747 ACTTGTACCT
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 91 1.00
ACGTcount: A:0.24, C:0.49, G:0.07, T:0.20
Consensus pattern (30 bp):
CCACCACCTACTCCACTAGCCACACTTGCT
Found at i:23575316 original size:23 final size:25
Alignment explanation
Indices: 23575223--23575354 Score: 91
Period size: 23 Copynumber: 5.6 Consensus size: 25
23575213 TCTTTTTTGT
* *
23575223 TATTAT-TATATTTC-TTAATATTA
1 TATTATGTATATATCATTAATACTA
* * *
23575246 TATTATATATATATTCTTTTA-AC-A
1 TATTATGTATATA-TCATTAATACTA
* * *
23575270 TATTAGGTATAT-TC-TAAATTCTA
1 TATTATGTATATATCATTAATACTA
*
23575293 TATTACGTATATAT-ATT-ATACTA
1 TATTATGTATATATCATTAATACTA
* *
23575316 TTTTATGTATATATCTTTAATACTA
1 TATTATGTATATATCATTAATACTA
*
23575341 TATTATTTATATAT
1 TATTATGTATATAT
23575355 TTTTTTCTAC
Statistics
Matches: 84, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
21 2 0.02
22 3 0.04
23 35 0.42
24 20 0.24
25 21 0.25
26 3 0.04
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.55
Consensus pattern (25 bp):
TATTATGTATATATCATTAATACTA
Found at i:23575328 original size:25 final size:25
Alignment explanation
Indices: 23575290--23575431 Score: 87
Period size: 25 Copynumber: 5.7 Consensus size: 25
23575280 ATTCTAAATT
*
23575290 CTATATTACGTATATATA-TT-ATA
1 CTATATTATGTATATATATTTAATA
* *
23575313 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTAATA
* * *
23575338 CTATATTATTTATATATTTTTTTCTACATG
1 CTATATTATGTATATA---TATT-TA-ATA
* *
23575368 TTATCTTATGTATATAT-TTTAAT-
1 CTATATTATGTATATATATTTAATA
* * * *
23575391 -TATATTATGTATGTATTTTTTACA
1 CTATATTATGTATATATATTTAATA
*
23575415 CTATATTATGTACATAT
1 CTATATTATGTATATAT
23575432 TTTTTTATAT
Statistics
Matches: 93, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
22 14 0.15
23 19 0.20
24 4 0.04
25 33 0.35
26 2 0.02
27 1 0.01
28 3 0.03
29 2 0.02
30 15 0.16
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.56
Consensus pattern (25 bp):
CTATATTATGTATATATATTTAATA
Found at i:23575418 original size:77 final size:80
Alignment explanation
Indices: 23575299--23575469 Score: 197
Period size: 77 Copynumber: 2.2 Consensus size: 80
23575289 TCTATATTAC
* * * * * *
23575299 GTATATATATTATACTATTTTATGTATATATCTTTAATACTATATTATTTATATATTTTTTTCTA
1 GTATATATTTTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTATA
*
23575364 -C-ATGTTAT-CTTAT
66 TCTAT-TTATACATAT
* * * *
23575377 GTATATATTTTA-ATTATATTATGTATGTATTTTTTACACTATATTATGTACATATTTTTTTATA
1 GTATATATTTTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTATA
23575441 TCTATTTATACATAT
66 TCTATTTATACATAT
*
23575456 GTATATATTATATA
1 GTATATATTTTATA
23575470 TATCTTAACA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
77 43 0.56
78 16 0.21
79 17 0.22
80 1 0.01
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.57
Consensus pattern (80 bp):
GTATATATTTTATACTATATTATGTATATATCTTTAACACTATATTATGTACATATTTTTTTATA
TCTATTTATACATAT
Found at i:23575524 original size:25 final size:24
Alignment explanation
Indices: 23575496--23575551 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
23575486 GTTATATTTT
*
23575496 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
23575521 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
23575544 CACTATTA
1 CACTATTA
23575552 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:23580621 original size:17 final size:16
Alignment explanation
Indices: 23580589--23580622 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
23580579 TATATAAATA
*
23580589 ACAAATTTTAATTTTT
1 ACAAATTTTAAATTTT
23580605 ACAAATATTTAAATTTT
1 ACAAAT-TTTAAATTTT
23580622 A
1 A
23580623 AAAAAGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
ACAAATTTTAAATTTT
Found at i:23582900 original size:16 final size:17
Alignment explanation
Indices: 23582846--23582892 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
23582836 ATAGTATCTA
23582846 AAATAT-AATA-ATAATG
1 AAATATAAATAGATAA-G
23582862 AAAATATAAATAGATAAG
1 -AAATATAAATAGATAAG
23582880 AAATAT-AATAGAT
1 AAATATAAATAGAT
23582893 GAGTAATAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.25
17 12 0.43
18 5 0.18
19 4 0.14
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.28
Consensus pattern (17 bp):
AAATATAAATAGATAAG
Found at i:23583081 original size:17 final size:17
Alignment explanation
Indices: 23583059--23583098 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
23583049 AAATAGGAAT
23583059 AATAATATGGTAAAAAA
1 AATAATATGGTAAAAAA
* *
23583076 AATAATATGTTAATAAA
1 AATAATATGGTAAAAAA
23583093 AATAAT
1 AATAAT
23583099 GGTAGTAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (17 bp):
AATAATATGGTAAAAAA
Found at i:23583082 original size:23 final size:23
Alignment explanation
Indices: 23583028--23583075 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
23583018 ATATATGTTG
*
23583028 ATAACAATAATAATATATAAAAA
1 ATAAGAATAATAATATATAAAAA
* *
23583051 ATAGGAATAATAATATGGTAAAAA
1 ATAAGAATAATAATAT-ATAAAAA
23583075 A
1 A
23583076 AATAATATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (23 bp):
ATAAGAATAATAATATATAAAAA
Found at i:23583292 original size:3 final size:3
Alignment explanation
Indices: 23582914--23583272 Score: 137
Period size: 3 Copynumber: 120.3 Consensus size: 3
23582904 AAATGAAAAT
23582914 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
* * * * * * *
23582960 A-A ATG ATA ACA GTG ATA TTA GTA ATA A-A ATA ATA GAAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * * *
23583004 GTA CATTA ATA ATA ATA TATG TTG ATA ACA ATA ATA ATA TATA A-A A-A
1 ATA -A-TA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA
** * * * * * * *
23583051 ATA GGA ATA ATA AT- ATG GTA AAA AAA ATA AT- ATG TTA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
23583097 ATG GTA GTA GTA ATA ATA ATTA ATG GTA ATA A-A ATA CATA ATA ATA
1 ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA -ATA ATA ATA
* * * * * *
23583143 ATA ATA ATA CATT A-A ATT ACA ATA ATA A-A GTA ATA ATA GTG ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** * * * *
23583187 ATG ATA ATA ATA ATA GTA GCA A-A A-A ATA ATA ATA TTA GTG GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
23583233 ATA GTA ATA ATA AAA ATA TTA ATA TTA GTA TTA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23583273 CGGCGTAGTA
Statistics
Matches: 263, Mismatches: 75, Indels: 36
0.70 0.20 0.10
Matches are distributed among these distances:
2 20 0.08
3 222 0.84
4 19 0.07
5 2 0.01
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:23583326 original size:28 final size:28
Alignment explanation
Indices: 23583286--23583357 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
23583276 CGTAGTAGAA
*
23583286 AATAATAATAATAATGGCAAATAA-AAAT
1 AATAATAATAATAATAGC-AATAATAAAT
*
23583314 AATAGTAATAATAATAGCAATAATAAAT
1 AATAATAATAATAATAGCAATAATAAAT
* * *
23583342 AGTACTAATAACAATA
1 AATAATAATAATAATA
23583358 ATACAAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 5 0.13
28 33 0.87
ACGTcount: A:0.61, C:0.06, G:0.07, T:0.26
Consensus pattern (28 bp):
AATAATAATAATAATAGCAATAATAAAT
Found at i:23583328 original size:12 final size:12
Alignment explanation
Indices: 23583311--23583352 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
23583301 GGCAAATAAA
23583311 AATAATAGTAAT
1 AATAATAGTAAT
*
23583323 AATAATAGCAAT
1 AATAATAGTAAT
*
23583335 AATAAATAGTACT
1 AAT-AATAGTAAT
23583348 AATAA
1 AATAA
23583353 CAATAATACA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.29
Consensus pattern (12 bp):
AATAATAGTAAT
Found at i:23583631 original size:3 final size:3
Alignment explanation
Indices: 23583575--23583614 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
23583565 AACGATAGTT
*
23583575 ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23583615 AATTTTTGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:23584089 original size:29 final size:29
Alignment explanation
Indices: 23584033--23584089 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
23584023 ATAAATCCAA
* *
23584033 TTTTTTTTAAAAAGTTCATTTCTGCTCTG
1 TTTTTTTAAAAAAGTTCATTTCTCCTCTG
*
23584062 TTTTTTTAAAAAAAGTT-ATTTTTCCTCT
1 TTTTTTT-AAAAAAGTTCATTTCTCCTCT
23584090 TTGCTCTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (29 bp):
TTTTTTTAAAAAAGTTCATTTCTCCTCTG
Found at i:23595660 original size:22 final size:22
Alignment explanation
Indices: 23595635--23595679 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
23595625 ACCATGCCAT
*
23595635 TTTTTGCATTACAGTATTACAC
1 TTTTTGCATCACAGTATTACAC
*
23595657 TTTTTGCATCACGGTATTACAC
1 TTTTTGCATCACAGTATTACAC
23595679 T
1 T
23595680 CTGCCGCCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.44
Consensus pattern (22 bp):
TTTTTGCATCACAGTATTACAC
Found at i:23600015 original size:9 final size:9
Alignment explanation
Indices: 23600001--23600041 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
23599991 ATAAGTATAA
23600001 AATTAACCG
1 AATTAACCG
23600010 AATTAACCG
1 AATTAACCG
*
23600019 AATTACCCG
1 AATTAACCG
*
23600028 AATTAACAG
1 AATTAACCG
23600037 AATTA
1 AATTA
23600042 TTTTTATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:23600078 original size:14 final size:14
Alignment explanation
Indices: 23600053--23600099 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
23600043 TTTTATAAAA
23600053 TTATATTTTTTATATT
1 TTATA-TTTTTAT-TT
23600069 TT-TATTTTTATTT
1 TTATATTTTTATTT
*
23600082 TTAGATTTTTATTT
1 TTATATTTTTATTT
23600096 TTAT
1 TTAT
23600100 TTATTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 4 0.14
14 20 0.71
15 2 0.07
16 2 0.07
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (14 bp):
TTATATTTTTATTT
Found at i:23600082 original size:5 final size:6
Alignment explanation
Indices: 23600060--23600101 Score: 57
Period size: 6 Copynumber: 6.5 Consensus size: 6
23600050 AAATTATATT
23600060 TTTTATA TTTTTA TTTTTA TTTTTAGA TTTTTA TTTTTA TTT
1 TTTT-TA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
23600102 ATTACATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 23 0.70
7 4 0.12
8 6 0.18
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:23600084 original size:20 final size:20
Alignment explanation
Indices: 23600059--23600101 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
23600049 AAAATTATAT
*
23600059 TTTTTATATTTTTATTTTTA
1 TTTTTAGATTTTTATTTTTA
23600079 TTTTTAGATTTTTATTTTTA
1 TTTTTAGATTTTTATTTTTA
23600099 TTT
1 TTT
23600102 ATTACATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTAGATTTTTATTTTTA
Found at i:23601017 original size:20 final size:20
Alignment explanation
Indices: 23600992--23601062 Score: 79
Period size: 20 Copynumber: 3.2 Consensus size: 20
23600982 TTCAATAATC
23600992 TTAACATGATGTATACATGT
1 TTAACATGATGTATACATGT
23601012 TTAACATGATACATGATGTATACATGT
1 TTAAC-------ATGATGTATACATGT
23601039 TTAACATGATGTATACATGT
1 TTAACATGATGTATACATGT
23601059 TTAA
1 TTAA
23601063 GTTTGGTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
20 24 0.55
27 20 0.45
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (20 bp):
TTAACATGATGTATACATGT
Found at i:23601025 original size:27 final size:27
Alignment explanation
Indices: 23600995--23601048 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
23600985 AATAATCTTA
23600995 ACATGATGTATACATGTTTAACATGAT
1 ACATGATGTATACATGTTTAACATGAT
23601022 ACATGATGTATACATGTTTAACATGAT
1 ACATGATGTATACATGTTTAACATGAT
23601049 GTATACATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (27 bp):
ACATGATGTATACATGTTTAACATGAT
Found at i:23601036 original size:11 final size:11
Alignment explanation
Indices: 23601020--23601057 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
23601010 GTTTAACATG
23601020 ATACATGATGT
1 ATACATGATGT
*
23601031 ATACATG-TTT
1 ATACATGATGT
23601041 A-ACATGATGT
1 ATACATGATGT
23601051 ATACATG
1 ATACATG
23601058 TTTAAGTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 5 0.22
10 6 0.26
11 12 0.52
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (11 bp):
ATACATGATGT
Found at i:23605751 original size:28 final size:28
Alignment explanation
Indices: 23605715--23605771 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
23605705 ATGTAATTTG
* *
23605715 ACAAGAAAATTATCAAAGTACAAGTTTA
1 ACAAAAAAATTATCAAAATACAAGTTTA
23605743 ACAAAAAAATTATCAAAATACAAGTTTA
1 ACAAAAAAATTATCAAAATACAAGTTTA
23605771 A
1 A
23605772 GAGATCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.58, C:0.11, G:0.07, T:0.25
Consensus pattern (28 bp):
ACAAAAAAATTATCAAAATACAAGTTTA
Found at i:23605825 original size:16 final size:17
Alignment explanation
Indices: 23605785--23605832 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
23605775 ATCAAAAGGT
* *
23605785 AAAATAAAATTAAATGG
1 AAAATAAAAATAAATAG
*
23605802 AGAATAAAAAT-AATAG
1 AAAATAAAAATAAATAG
*
23605818 AAAATAAAAAAAAAT
1 AAAATAAAAATAAAT
23605833 CATTACTACC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (17 bp):
AAAATAAAAATAAATAG
Found at i:23609243 original size:4 final size:4
Alignment explanation
Indices: 23609234--23609353 Score: 240
Period size: 4 Copynumber: 30.0 Consensus size: 4
23609224 GATCTAAATG
23609234 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
23609282 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
23609330 GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT
23609354 AAGTTTGTGA
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 116 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:23613429 original size:29 final size:31
Alignment explanation
Indices: 23613371--23613443 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 31
23613361 AAAATTCAAA
*
23613371 AAAAATTACATCTTAGACCCCTAAACTTTCCT
1 AAAAATTACATTTTAGACCCCTAAACTTT-CT
* *
23613403 -TAAATTACATTTTA-A-CCCTAAATTTTCT
1 AAAAATTACATTTTAGACCCCTAAACTTTCT
23613431 AAAAATTACATTT
1 AAAAATTACATTT
23613444 AGCCCCAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 2 0.06
29 21 0.58
30 1 0.03
31 12 0.33
ACGTcount: A:0.40, C:0.21, G:0.01, T:0.38
Consensus pattern (31 bp):
AAAAATTACATTTTAGACCCCTAAACTTTCT
Found at i:23627055 original size:75 final size:75
Alignment explanation
Indices: 23626855--23627814 Score: 1293
Period size: 75 Copynumber: 12.5 Consensus size: 75
23626845 TTTATTTTTG
* * *
23626855 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
23626919 AATTTCTGTT
66 AATTTCTGTC
** ** *
23626929 TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGATATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGTTGAGGTATTT
* *
23626992 TCAATTTCTATT
64 TCAATTTCTGTC
*
23627004 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGTTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
23627069 AATTTCTGTTCAATTTATGTC
66 AA----T-TTC------TGTC
**
23627090 TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
23627155 AATTTCTGCC
66 AATTTCTGTC
** *
23627165 TTTCAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTT
1 TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
*
23627230 CAATTTCTATC
65 CAATTTCTGTC
**
23627241 TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
23627306 AATTTCTGCC
66 AATTTCTGTC
**
23627316 TTTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
1 TTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTT
23627381 TCAATTTCTGTC
64 TCAATTTCTGTC
23627393 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
23627458 AATTTCTGTC
66 AATTTCTGTC
*
23627468 TTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
23627533 AATTTTTGTC
66 AATTTCTGTC
**
23627543 TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
23627608 AATTTCTGTC
66 AATTTCTGTC
* * *
23627618 TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTAT
1 TTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGTTGAGGTAT
* *
23627682 TTTTAATTTCT-AC
62 TTTCAATTTCTGTC
* *
23627695 TTTTCAAAAAAACAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAA-ATCACGCCCTGAGG
1 -TTTC--AAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA-CACG--TTGAGG
*
23627759 TATTTTCAATTTCTGTT
59 TATTTTCAATTTCTGTC
23627776 TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 TTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTT
23627815 AAACCTTAGG
Statistics
Matches: 812, Mismatches: 44, Indels: 55
0.89 0.05 0.06
Matches are distributed among these distances:
73 40 0.05
74 4 0.00
75 342 0.42
76 110 0.14
77 115 0.14
78 29 0.04
79 35 0.04
80 67 0.08
81 3 0.00
82 1 0.00
86 66 0.08
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (75 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
AATTTCTGTC
Found at i:23627136 original size:86 final size:86
Alignment explanation
Indices: 23627004--23627162 Score: 291
Period size: 86 Copynumber: 1.8 Consensus size: 86
23626994 AATTTCTATT
** *
23627004 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGTTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
23627069 AATTTCTGTTCAATTTATGTC
66 AATTTCTGTTCAATTTATGTC
23627090 TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
23627155 AATTTCTG
66 AATTTCTG
23627163 CCTTTCAAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (86 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
AATTTCTGTTCAATTTATGTC
Found at i:23628178 original size:29 final size:31
Alignment explanation
Indices: 23628120--23628192 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 31
23628110 AAAAATTCAA
*
23628120 AAAAATTACATCTTAGACCCCTAAACTTTCCT
1 AAAAATTACATTTTAGACCCCTAAACTTT-CT
* *
23628152 -TAAATTACATTTTA-A-CCCTAAATTTTCT
1 AAAAATTACATTTTAGACCCCTAAACTTTCT
23628180 AAAAATTACATTT
1 AAAAATTACATTT
23628193 AGCACCAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 2 0.06
29 21 0.58
30 1 0.03
31 12 0.33
ACGTcount: A:0.40, C:0.21, G:0.01, T:0.38
Consensus pattern (31 bp):
AAAAATTACATTTTAGACCCCTAAACTTTCT
Found at i:23631816 original size:16 final size:15
Alignment explanation
Indices: 23631795--23631831 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
23631785 TTTAAATATA
23631795 TATAATTATATAATT
1 TATAATTATATAATT
23631810 GTATAA-T-TATAATT
1 -TATAATTATATAATT
23631824 TATAATTA
1 TATAATTA
23631832 CGAATTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
13 5 0.26
14 8 0.42
15 1 0.05
16 5 0.26
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
TATAATTATATAATT
Found at i:23631829 original size:13 final size:14
Alignment explanation
Indices: 23631803--23631831 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23631793 TATATAATTA
23631803 TATAATTGTATAAT
1 TATAATTGTATAAT
23631817 TATAATT-TATAAT
1 TATAATTGTATAAT
23631830 TA
1 TA
23631832 CGAATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (14 bp):
TATAATTGTATAAT
Found at i:23634194 original size:22 final size:22
Alignment explanation
Indices: 23634133--23634194 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
23634123 GGATTTACAG
* *
23634133 TATATGATTAAGGGTTTAATGTT
1 TATA-GATTATGGGTTTAAGGTT
***
23634156 TAT-GAGTTATTATTTTAAGGTT
1 TATAGA-TTATGGGTTTAAGGTT
23634178 TATAGATTATGGGTTTA
1 TATAGATTATGGGTTTA
23634195 GGGATTATGG
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
21 2 0.07
22 22 0.76
23 5 0.17
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (22 bp):
TATAGATTATGGGTTTAAGGTT
Found at i:23634230 original size:25 final size:25
Alignment explanation
Indices: 23634189--23634236 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
23634179 ATAGATTATG
23634189 GGTTTAGGGATTATGGTTTAAGGGT
1 GGTTTAGGGATTATGGTTTAAGGGT
*
23634214 GGTTTAAGGG-TTGTGGTTTAAGG
1 GGTTT-AGGGATTATGGTTTAAGG
23634237 TTTAAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.40
Consensus pattern (25 bp):
GGTTTAGGGATTATGGTTTAAGGGT
Found at i:23634303 original size:7 final size:7
Alignment explanation
Indices: 23634293--23634327 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
23634283 AAGATTTATA
23634293 GTTTAGG
1 GTTTAGG
23634300 GTTTAGG
1 GTTTAGG
*
23634307 GATTAGG
1 GTTTAGG
23634314 AGTTTAGG
1 -GTTTAGG
23634322 GTTTAG
1 GTTTAG
23634328 ATTAATGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (7 bp):
GTTTAGG
Found at i:23634421 original size:14 final size:14
Alignment explanation
Indices: 23634404--23634442 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
23634394 ATCATTATAG
23634404 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
* *
23634418 TTTAGGGTATATGG
1 TTTAGGGTTTATGA
*
23634432 TTTAGAGTTTA
1 TTTAGGGTTTA
23634443 AAGTGTATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:23634484 original size:15 final size:15
Alignment explanation
Indices: 23634466--23634513 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
23634456 ATTATTTTAA
23634466 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
23634481 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
23634495 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
23634510 GGTT
1 GGTT
23634514 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:23634486 original size:22 final size:21
Alignment explanation
Indices: 23634461--23634510 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
23634451 GAGTTATTAT
*
23634461 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
23634483 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
23634504 TTTAAGG
1 TTTAAGG
23634511 GTTGGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:23634519 original size:14 final size:15
Alignment explanation
Indices: 23634502--23634542 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
23634492 TATGGTTTAT
23634502 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
23634516 GGTTTAAGGCTTAGG
1 GGTTTAAGGGTTAGG
23634531 GG-TTAAGGGTTA
1 GGTTTAAGGGTTA
23634543 AGTGTTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.20, C:0.02, G:0.44, T:0.34
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:23634533 original size:21 final size:21
Alignment explanation
Indices: 23634495--23634534 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23634485 TAGGGATTAT
* *
23634495 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGCTTAAGGGTTGG
*
23634516 GGTTTAAGGCTTAGGGGTT
1 GGTTTAAGGCTTAAGGGTT
23634535 AAGGGTTAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.42, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGCTTAAGGGTTGG
Found at i:23642577 original size:26 final size:26
Alignment explanation
Indices: 23642541--23642595 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
23642531 ACCCAAGACG
23642541 AATGCACTTAATCATGTTTTTTTATT
1 AATGCACTTAATCATGTTTTTTTATT
23642567 AATGCACTTAATCATGTTTTTTTATT
1 AATGCACTTAATCATGTTTTTTTATT
23642593 AAT
1 AAT
23642596 CGTTATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (26 bp):
AATGCACTTAATCATGTTTTTTTATT
Found at i:23642914 original size:6 final size:6
Alignment explanation
Indices: 23642903--23642951 Score: 59
Period size: 6 Copynumber: 8.5 Consensus size: 6
23642893 GCTACGAAAT
*
23642903 AATAAA AATAAA AATAAA AAT-AA AAT-AA AAT-AA AATAAA GAATGAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA -AATAAA
23642949 AAT
1 AAT
23642952 GGGCCATTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
5 15 0.38
6 20 0.50
7 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:23642921 original size:5 final size:5
Alignment explanation
Indices: 23642907--23642941 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
23642897 CGAAATAATA
23642907 AAAAT AAAAAT AAAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT AAA
23642942 GAATGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:23642923 original size:21 final size:21
Alignment explanation
Indices: 23642907--23642951 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
23642897 CGAAATAATA
23642907 AAAATAAAAATAAAAATAAAAT
1 AAAAT-AAAATAAAAATAAAAT
23642929 AAAATAAAATAAAGAATGAAAAT
1 AAAATAAAATAAA-AAT-AAAAT
23642952 GGGCCATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 8 0.38
23 5 0.24
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (21 bp):
AAAATAAAATAAAAATAAAAT
Found at i:23643272 original size:31 final size:32
Alignment explanation
Indices: 23643213--23643275 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
23643203 TTTTCAAAAA
*
23643213 AATTATTTTTTAAAATATTATAAAAATAAACC
1 AATTATTTTTTAAAATATTACAAAAATAAACC
*
23643245 AATT-TTTTTTGAAAAT-TTACAAGAATAAACC
1 AATTATTTTTT-AAAATATTACAAAAATAAACC
23643276 TTAAAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 19 0.68
32 9 0.32
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (32 bp):
AATTATTTTTTAAAATATTACAAAAATAAACC
Found at i:23643919 original size:17 final size:18
Alignment explanation
Indices: 23643890--23643926 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
23643880 GATATATCTT
23643890 TTTTAAATATTTACT-TA
1 TTTTAAATATTTACTATA
23643907 TTTT-AATATTTTACTATA
1 TTTTAAATA-TTTACTATA
23643925 TT
1 TT
23643927 CATTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.22
17 10 0.56
18 4 0.22
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTAAATATTTACTATA
Found at i:23644645 original size:18 final size:18
Alignment explanation
Indices: 23644624--23644665 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
23644614 GCCATTTTAA
23644624 TTATATTCT-TTTTTTATT
1 TTATATT-TATTTTTTATT
23644642 TTAT-TTTATTTTTTATT
1 TTATATTTATTTTTTATT
23644659 TT-TATTT
1 TTATATTT
23644666 TATTATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.09
17 16 0.73
18 4 0.18
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (18 bp):
TTATATTTATTTTTTATT
Found at i:23644666 original size:18 final size:17
Alignment explanation
Indices: 23644633--23644669 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
23644623 ATTATATTCT
23644633 TTTTTTATTTTATTTTA
1 TTTTTTATTTTATTTTA
23644650 TTTTTTATTTTTATTTTA
1 TTTTTTA-TTTTATTTTA
23644668 TT
1 TT
23644670 ATTTCGTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTATTTTATTTTA
Found at i:23644993 original size:25 final size:25
Alignment explanation
Indices: 23644965--23645018 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
23644955 ATATATTTTA
23644965 ATTATAACGATTAAT-AAAAAACATG
1 ATTA-AACGATTAATAAAAAAACATG
**
23644990 ATTAAGTGATTAATAAAAAAACATG
1 ATTAAACGATTAATAAAAAAACATG
23645015 ATTA
1 ATTA
23645019 GTGGCATTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.56, C:0.06, G:0.09, T:0.30
Consensus pattern (25 bp):
ATTAAACGATTAATAAAAAAACATG
Found at i:23645190 original size:9 final size:9
Alignment explanation
Indices: 23645169--23645211 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
23645159 CTGTGGGGCT
23645169 ATAAAAATA
1 ATAAAAATA
*
23645178 GATAAAAATG
1 -ATAAAAATA
*
23645188 ATAATAATA
1 ATAAAAATA
*
23645197 ATAATAATA
1 ATAAAAATA
23645206 ATAAAA
1 ATAAAA
23645212 GAGGAGGTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 21 0.72
10 8 0.28
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (9 bp):
ATAAAAATA
Found at i:23660708 original size:3 final size:3
Alignment explanation
Indices: 23660702--23660992 Score: 101
Period size: 3 Copynumber: 93.7 Consensus size: 3
23660692 TGAATTTCTA
23660702 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TACT TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT
* * * *
23660749 ATGT TAT GTACA TAT TAT T-T ATACT TACT TAA TGT TAT T-T TAT TAT
1 -TAT TAT -TA-T TAT TAT TAT -TA-T TA-T TAT TAT TAT TAT TAT TAT
* *
23660795 TAT TAT TAT TATT TAT AAA TAT TAGT GTAT T-T TAT T-T TAT TCAT TA-
1 TAT TAT TAT TA-T TAT TAT TAT TA-T -TAT TAT TAT TAT TAT T-AT TAT
*
23660841 TAT TAT GT-T TACT T-T T-T TGAAT T-T CTA- TAT TAT TAT TA- TGT
1 TAT TAT -TAT TA-T TAT TAT T--AT TAT -TAT TAT TAT TAT TAT TAT
* * *
23660882 TACT TAT TAT TAT TAA TGT TAT GTACA TAT TAT T-T ATAT TA- TACT
1 TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT TAT TAT -TAT TAT TA-T
* * * *
23660927 TAA T-T TAT TAT TAT TACA TAC TAT TAT TAT T-T ATAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT -TAT TAT TAT TAT
*
23660972 TA- TATT TAT ATAA TAT TAT TA
1 TAT TA-T TAT -TAT TAT TAT TA
23660993 ATAGGTACTT
Statistics
Matches: 219, Mismatches: 30, Indels: 78
0.67 0.09 0.24
Matches are distributed among these distances:
2 25 0.11
3 144 0.66
4 45 0.21
5 5 0.02
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:23660732 original size:160 final size:162
Alignment explanation
Indices: 23660585--23660896 Score: 353
Period size: 166 Copynumber: 1.9 Consensus size: 162
23660575 ATTATCGTTA
* *
23660585 TTATTATA-TTAGTGTATATTTTA-TT-TACATACGTATATG-TA-TTTA-TATCTACATAGTAT
1 TTATTATAGTTA-TGTACATATTATTTATACATACGTA-ATGTTATTTTATTAT-TA-ATAGTAT
*
23660644 T-TTT-TAAATTATT-T-TATTTTA-TATT-ATTATATTATGTTTTAGTTTTTTTGAATTTCTAT
62 TATTTATAAA-TATTATGTATTTTATTATTCATTATATTATG-TTTA-CTTTTTTGAATTTCTAT
23660703 ATTATTATTATTATTA-TTATTATTATTATTATTACTTAT
124 ATTATTATTA-TATTACTTATTATTATTATTATTACTTAT
* * * *
23660742 TTATTATATGTTATGTACATATTATTTATACTTACTTAATGTTATTTTATTATTATTATTATTAT
1 TTATTATA-GTTATGTACATATTATTTATACATACGTAATGTTATTTTATTATTAATAGTATTAT
23660807 TTATAAATATTAGTGTATTTTATTTTATTCATTATATTATGTTTACTTTTTTGAATTTCTATATT
65 TTATAAATATTA-TGTATTTTA--TTATTCATTATATTATGTTTACTTTTTTGAATTTCTATATT
*
23660872 ATTATTATGTTACTTATTATTATTA
127 ATTATTATATTACTTATTATTATTA
23660897 ATGTTATGTA
Statistics
Matches: 130, Mismatches: 8, Indels: 25
0.80 0.05 0.15
Matches are distributed among these distances:
157 8 0.06
158 9 0.07
159 8 0.06
160 16 0.12
161 13 0.10
162 7 0.05
163 1 0.01
164 7 0.05
165 4 0.03
166 38 0.29
167 8 0.06
168 11 0.08
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (162 bp):
TTATTATAGTTATGTACATATTATTTATACATACGTAATGTTATTTTATTATTAATAGTATTATT
TATAAATATTATGTATTTTATTATTCATTATATTATGTTTACTTTTTTGAATTTCTATATTATTA
TTATATTACTTATTATTATTATTATTACTTAT
Found at i:23660845 original size:40 final size:39
Alignment explanation
Indices: 23660704--23660846 Score: 100
Period size: 40 Copynumber: 3.6 Consensus size: 39
23660694 AATTTCTATA
* *
23660704 TTATTATTATTATTATTATTATTA-TTATTATTACTT-AT-
1 TTATT-TTATTATTATTA-TATTATTTATAAATACTTAATG
* * **
23660742 TTATTATATGTTATGTA-CATATTATTTATACTTACTTAATG
1 TTATT-T-TATTAT-TATTATATTATTTATAAATACTTAATG
*
23660783 TTATTTTATTATTATTATTATTATTTATAAATA-TTAGTG
1 TTATTTTATTATTATTA-TATTATTTATAAATACTTAATG
23660822 -TATTTTATTTTATTCATTATATTAT
1 TTATTTTA--TTATT-ATTATATTAT
23660847 GTTTACTTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
38 21 0.24
39 27 0.31
40 29 0.34
41 9 0.10
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (39 bp):
TTATTTTATTATTATTATATTATTTATAAATACTTAATG
Found at i:23661242 original size:21 final size:20
Alignment explanation
Indices: 23661204--23661242 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
23661194 CCGTCATCAT
* *
23661204 TTATTATTTATTTTATATTA
1 TTATTATATATTTCATATTA
23661224 TTATGTATATATTTCATAT
1 TTAT-TATATATTTCATAT
23661243 ACGTCTGTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
TTATTATATATTTCATATTA
Found at i:23672898 original size:73 final size:74
Alignment explanation
Indices: 23672814--23673317 Score: 597
Period size: 73 Copynumber: 7.0 Consensus size: 74
23672804 TTTTATTTTG
** * * *
23672814 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
23672879 AATTTCTGTT
65 AATTTCTGTC
** ** ** *
23672889 TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGATATTTT
1 TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTT
* *
23672953 CAATTTCTATT
64 CAATTTCTGTC
**
23672964 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA-GTATTTTC
1 TTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
23673028 AATTTCTGTC
65 AATTTCTGTC
23673038 TTTCAAAAAAATCAA-TCATA-T--GAGAAATGA-TT-A--CT-AAGACA---T--GGTATTTTC
1 TTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
23673089 AA-TT-T-TC
65 AATTTCTGTC
23673096 TTTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC-TTGAGGTATTT
1 TTTC---AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
23673160 TCAATTTCT-TC
63 TCAATTTCTGTC
23673171 TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
23673236 AATTTCTG-C
65 AATTTCTGTC
23673245 TTTCAAAAAAATCAACTCATATTGCGAG--ATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTC-AAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
23673308 AATTTCTGTC
65 AATTTCTGTC
23673318 AATCAACCAT
Statistics
Matches: 390, Mismatches: 14, Indels: 52
0.86 0.03 0.11
Matches are distributed among these distances:
58 6 0.02
59 1 0.00
60 13 0.03
61 15 0.04
62 2 0.01
64 9 0.02
65 8 0.02
66 3 0.01
68 3 0.01
69 8 0.02
70 7 0.02
71 1 0.00
72 44 0.11
73 104 0.27
74 81 0.21
75 46 0.12
77 39 0.10
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (74 bp):
TTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
ATTTCTGTC
Found at i:23673540 original size:74 final size:76
Alignment explanation
Indices: 23673353--23673707 Score: 432
Period size: 75 Copynumber: 4.7 Consensus size: 76
23673343 CAAACACTTA
*
23673353 ATTTTCAA-TTCTG-C-TTC-AAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
1 ATTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
*
23673414 CACGTTGAGGT
66 CACGCTGAGGT
**
23673425 ATTTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
1 ATTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
23673489 CACG-TGAGGT
66 CACGCTGAGGT
*
23673499 A-TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGT
1 ATTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-
*
23673562 TCACATGCTGAGGT
65 --ACACGCTGAGGT
* * *
23673576 ATTTTTAATTTCT-ACTTTTCAAAAAAAACAATCAACTCATATTGCGAGAGGTGAG-TGAACCTC
1 ATTTTCAATTTCTGTC-TTTC--AAAAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
23673639 AA-ATCACGCCCTGA-GT
62 AAGA-CACG--CTGAGGT
23673655 A-TTTCAATTTCTGT-TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 ATTTTCAATTTCTGTCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
23673708 AAACCTTAGG
Statistics
Matches: 250, Mismatches: 14, Indels: 34
0.84 0.05 0.11
Matches are distributed among these distances:
72 8 0.03
73 24 0.10
74 46 0.18
75 74 0.30
76 12 0.05
77 13 0.05
78 27 0.11
79 3 0.01
80 17 0.07
81 26 0.10
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (76 bp):
ATTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
CACGCTGAGGT
Found at i:23673722 original size:156 final size:151
Alignment explanation
Indices: 23673355--23673740 Score: 449
Period size: 156 Copynumber: 2.6 Consensus size: 151
23673345 AACACTTAAT
* * *
23673355 TTTCAA-TTCTG-C-TTC-AAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--A
1 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCA
* *
23673414 CACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTG
66 CACGCTGAGGTATTTTCAATTTCTCTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTG
*
23673479 AGCCTCAAGACACGTGAGGTA
131 AACCTCAAGACACGTGAGGTA
*
23673500 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGTTC
1 TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-TC
* * **
23673564 ACATGCTGAGGTATTTTTAATTTCTACT-TTTCAAAAAAAACAATCAACTCATATTGCGAGAGGT
65 ACACGCTGAGGTATTTTCAATTTCT-CTCTTTC---AAAAA-AATCAACTCATATTGCGAGAAAT
23673628 GAG-TGAACCTCAA-ATCACGCCCTGA-GTA
125 GAGTTGAACCTCAAGA-CACG---TGAGGTA
* *
23673656 TTTCAATTTCTGT-TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAACCTTAGGTC
1 TTTCAATTTCTGTCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTC
*
23673720 ACACGCTGA-ATA-TTTCAATTT
65 ACACGCTGAGGTATTTTCAATTT
23673741 TTTTTGCTTT
Statistics
Matches: 206, Mismatches: 17, Indels: 27
0.82 0.07 0.11
Matches are distributed among these distances:
145 6 0.03
146 5 0.02
147 1 0.00
148 4 0.02
149 37 0.18
151 26 0.13
152 1 0.00
153 1 0.00
154 26 0.13
155 30 0.15
156 63 0.31
157 6 0.03
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (151 bp):
TTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCA
CACGCTGAGGTATTTTCAATTTCTCTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTG
AACCTCAAGACACGTGAGGTA
Found at i:23677726 original size:13 final size:14
Alignment explanation
Indices: 23677700--23677728 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
23677690 ATATAAATTA
23677700 TATAATTGTATAAT
1 TATAATTGTATAAT
23677714 TATAATT-TATAAT
1 TATAATTGTATAAT
23677727 TA
1 TA
23677729 CGAATTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (14 bp):
TATAATTGTATAAT
Found at i:23678677 original size:19 final size:18
Alignment explanation
Indices: 23678653--23678694 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
23678643 AAGATATAAA
23678653 AAAAAAGTATAATCTTT-TT
1 AAAAAA-TATAAT-TTTATT
*
23678672 AAAAAATTTAATTTTATT
1 AAAAAATATAATTTTATT
23678690 AAAAA
1 AAAAA
23678695 TTAATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 12 0.57
19 6 0.29
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
AAAAAATATAATTTTATT
Found at i:23680100 original size:22 final size:22
Alignment explanation
Indices: 23680039--23680100 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
23680029 GGATTTACAG
* *
23680039 TATATGATTAAGGGTTTAATGTT
1 TATA-GATTATGGGTTTAAGGTT
***
23680062 TAT-GAGTTATTATTTTAAGGTT
1 TATAGA-TTATGGGTTTAAGGTT
23680084 TATAGATTATGGGTTTA
1 TATAGATTATGGGTTTA
23680101 GGGATTATGG
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
21 2 0.07
22 22 0.76
23 5 0.17
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (22 bp):
TATAGATTATGGGTTTAAGGTT
Found at i:23680136 original size:25 final size:25
Alignment explanation
Indices: 23680095--23680142 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
23680085 ATAGATTATG
23680095 GGTTTAGGGATTATGGTTTAAGGGT
1 GGTTTAGGGATTATGGTTTAAGGGT
*
23680120 GGTTTAAGGG-TTGTGGTTTAAGG
1 GGTTT-AGGGATTATGGTTTAAGG
23680143 TTTAAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.40
Consensus pattern (25 bp):
GGTTTAGGGATTATGGTTTAAGGGT
Found at i:23680208 original size:7 final size:7
Alignment explanation
Indices: 23680198--23680232 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
23680188 AAGATTTATA
23680198 GTTTAGG
1 GTTTAGG
23680205 GTTTAGG
1 GTTTAGG
*
23680212 GATTAGG
1 GTTTAGG
23680219 AGTTTAGG
1 -GTTTAGG
23680227 GTTTAG
1 GTTTAG
23680233 ATTAATTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (7 bp):
GTTTAGG
Found at i:23680330 original size:14 final size:14
Alignment explanation
Indices: 23680313--23680351 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
23680303 ATCATTATAG
23680313 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
* *
23680327 TTTAGGGTATATGG
1 TTTAGGGTTTATGA
*
23680341 TTTAGAGTTTA
1 TTTAGGGTTTA
23680352 AAGTGTATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:23680393 original size:15 final size:15
Alignment explanation
Indices: 23680375--23680422 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
23680365 ATTATTTTAA
23680375 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
23680390 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
23680404 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
23680419 GGTT
1 GGTT
23680423 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:23680395 original size:22 final size:21
Alignment explanation
Indices: 23680370--23680419 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
23680360 GAGTTATTAT
*
23680370 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
23680392 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
23680413 TTTAAGG
1 TTTAAGG
23680420 GTTGGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:23680428 original size:14 final size:15
Alignment explanation
Indices: 23680411--23680451 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
23680401 TATGGTTTAT
23680411 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
23680425 GGTTTAAGGCTTAGG
1 GGTTTAAGGGTTAGG
23680440 GG-TTAAGGGTTA
1 GGTTTAAGGGTTA
23680452 AGTGTTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.20, C:0.02, G:0.44, T:0.34
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:23680442 original size:21 final size:21
Alignment explanation
Indices: 23680404--23680443 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23680394 TAGGGATTAT
* *
23680404 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGCTTAAGGGTTGG
*
23680425 GGTTTAAGGCTTAGGGGTT
1 GGTTTAAGGCTTAAGGGTT
23680444 AAGGGTTAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.42, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGCTTAAGGGTTGG
Found at i:23689014 original size:11 final size:11
Alignment explanation
Indices: 23688995--23689027 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
23688985 TTTGATGATT
23688995 ATTTG-TTTAA
1 ATTTGTTTTAA
23689005 ATTTGTTTTAA
1 ATTTGTTTTAA
*
23689016 ATTTTTTTTAA
1 ATTTGTTTTAA
23689027 A
1 A
23689028 GTAAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (11 bp):
ATTTGTTTTAA
Found at i:23691994 original size:16 final size:16
Alignment explanation
Indices: 23691943--23691994 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
23691933 AACGGCATGT
23691943 TAAAACATCAGAAGTA
1 TAAAACATCAGAAGTA
* * * *
23691959 TAAATCTAACA-CAGTT
1 TAAAAC-ATCAGAAGTA
23691975 TAAAACATCAGAAGTA
1 TAAAACATCAGAAGTA
23691991 TAAA
1 TAAA
23691995 TCTAAACCCG
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
15 3 0.12
16 20 0.77
17 3 0.12
ACGTcount: A:0.54, C:0.13, G:0.10, T:0.23
Consensus pattern (16 bp):
TAAAACATCAGAAGTA
Found at i:23692103 original size:204 final size:203
Alignment explanation
Indices: 23691749--23692155 Score: 787
Period size: 204 Copynumber: 2.0 Consensus size: 203
23691739 AATAATAGTT
23691749 AGAATATAAATCTAACACAGATTAAAACATCAGAAGTATAAATCTAAACCCGACAAGCAACTCTG
1 AGAATATAAATCTAACACAGATTAAAACATCAGAAGTATAAATCTAAACCCGACAAGCAACTCTG
*
23691814 CCTTCAGCCAACCATATCTAGATATATGATACATAACACAACCTCGCATTAAAATTTTGCGGGTA
66 CCTTCAGCCAACCATATCTAGATATATGATACATAACACAACCTCACATTAAAATTTTGCGGGTA
23691879 AAGAATCAGTTCATAGATATGGTAAATGATATATTGCCCTATAATGTCAGCAGCAACGGCATGTT
131 AAGAATCAGTTCATAGATATGGTAAATGATATATTGCCCTATAATGTCAGCAGCAACGGCATGTT
23691944 AAAACATC
196 AAAACATC
*
23691952 AGAAGTATAAATCTAACACAGTTTAAAACATCAGAAGTATAAATCTAAACCCGACAAGCAACTCT
1 AGAA-TATAAATCTAACACAGATTAAAACATCAGAAGTATAAATCTAAACCCGACAAGCAACTCT
23692017 GCCTTCAGCCAACCATATCTAGATATATGATACATAACACAACCTCACATTAAAATTTTGCGGGT
65 GCCTTCAGCCAACCATATCTAGATATATGATACATAACACAACCTCACATTAAAATTTTGCGGGT
23692082 AAAGAATCAGTTCATAGATATGGTAAATGATATATTGCCCTATAATGTCAGCAGCAACGGCATGT
130 AAAGAATCAGTTCATAGATATGGTAAATGATATATTGCCCTATAATGTCAGCAGCAACGGCATGT
23692147 TAAAACATC
195 TAAAACATC
23692156 TAAGCAAGTG
Statistics
Matches: 201, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
203 4 0.02
204 197 0.98
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (203 bp):
AGAATATAAATCTAACACAGATTAAAACATCAGAAGTATAAATCTAAACCCGACAAGCAACTCTG
CCTTCAGCCAACCATATCTAGATATATGATACATAACACAACCTCACATTAAAATTTTGCGGGTA
AAGAATCAGTTCATAGATATGGTAAATGATATATTGCCCTATAATGTCAGCAGCAACGGCATGTT
AAAACATC
Found at i:23696055 original size:5 final size:5
Alignment explanation
Indices: 23696045--23696076 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
23696035 CCCAATTCAA
*
23696045 AATAT AATAT AATAT AATAT AATAT GATAT AA
1 AATAT AATAT AATAT AATAT AATAT AATAT AA
23696077 AAATTATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:23705004 original size:25 final size:25
Alignment explanation
Indices: 23704948--23705004 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
23704938 ATATTTGCAA
* * *
23704948 CATATTTCACATTCTATTTTTCATT
1 CATATTTCACATTCCATTTCTCATC
23704973 CACTATTTCAC-TTCCATTTCTCATAC
1 CA-TATTTCACATTCCATTTCTCAT-C
23704999 CATATT
1 CATATT
23705005 ATTTCAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.25, C:0.26, G:0.00, T:0.49
Consensus pattern (25 bp):
CATATTTCACATTCCATTTCTCATC
Found at i:23705196 original size:37 final size:38
Alignment explanation
Indices: 23705101--23705198 Score: 101
Period size: 40 Copynumber: 2.6 Consensus size: 38
23705091 ACACACCAAT
*
23705101 TTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAAA
1 TTGGCACCCAGTGCCTCATCGGATAACTCGAAG--ATAAA
* * * *
23705141 TTGACATCCAGTGTCTCATCGGCTAAACT-GAAG-TAAA
1 TTGGCACCCAGTGCCTCATCGGAT-AACTCGAAGATAAA
*
23705178 TTGGCACCCAATGCCTCATCG
1 TTGGCACCCAGTGCCTCATCG
23705199 AATATATCCG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
37 21 0.44
40 24 0.50
41 3 0.06
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (38 bp):
TTGGCACCCAGTGCCTCATCGGATAACTCGAAGATAAA
Found at i:23706556 original size:20 final size:20
Alignment explanation
Indices: 23706528--23706568 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23706518 AATCTCAAAA
* * *
23706528 ACTGTCACTTAGGTATTGAT
1 ACTGACACTAAGGTACTGAT
23706548 ACTGACACTAAGGTACTGAT
1 ACTGACACTAAGGTACTGAT
23706568 A
1 A
23706569 TTTTCTTTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (20 bp):
ACTGACACTAAGGTACTGAT
Found at i:23708121 original size:40 final size:40
Alignment explanation
Indices: 23708077--23708160 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
23708067 TATTTATTTT
23708077 ATTTTATTTTATTTTTATGAGTTTTAGATGACCTTGAATA
1 ATTTTATTTTATTTTTATGAGTTTTAGATGACCTTGAATA
*
23708117 ATTTTATTTTATTTTTATGAGTTTTAGATGAGCTTGAATA
1 ATTTTATTTTATTTTTATGAGTTTTAGATGACCTTGAATA
23708157 ATTT
1 ATTT
23708161 AGTTAATATT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.27, C:0.04, G:0.13, T:0.56
Consensus pattern (40 bp):
ATTTTATTTTATTTTTATGAGTTTTAGATGACCTTGAATA
Found at i:23711386 original size:28 final size:28
Alignment explanation
Indices: 23711355--23711417 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
23711345 TTTATCTTTA
* *
23711355 TTTTTTAGATGTTACAATTTTTCCCCTT
1 TTTTTTAAATGTTACAATTTTACCCCTT
* * *
23711383 TTTTTCCAAATTTTACAATTTTACCTCTT
1 TTTTT-TAAATGTTACAATTTTACCCCTT
23711412 TTTTTT
1 TTTTTT
23711418 TTCCAGATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
28 5 0.18
29 23 0.82
ACGTcount: A:0.19, C:0.17, G:0.03, T:0.60
Consensus pattern (28 bp):
TTTTTTAAATGTTACAATTTTACCCCTT
Found at i:23711475 original size:28 final size:28
Alignment explanation
Indices: 23711444--23711522 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 28
23711434 TTTTCTCATA
* * *
23711444 TTTTCTAGATTTTATAGTTTT-GCCTTT
1 TTTTCTAGATTTTACAGTTTTACCCTAT
* *
23711471 GTTTTCCAAATTTTACAGTTTTACCCTAT
1 -TTTTCTAGATTTTACAGTTTTACCCTAT
23711500 TTTT-TAGATTTTACAGTTTTACC
1 TTTTCTAGATTTTACAGTTTTACC
23711523 TAGAATTATA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 17 0.40
28 22 0.51
29 4 0.09
ACGTcount: A:0.20, C:0.15, G:0.09, T:0.56
Consensus pattern (28 bp):
TTTTCTAGATTTTACAGTTTTACCCTAT
Found at i:23714017 original size:11 final size:11
Alignment explanation
Indices: 23714001--23714029 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
23713991 AGAAGGAAGA
23714001 AGAAACAGCAG
1 AGAAACAGCAG
23714012 AGAAACAGCAG
1 AGAAACAGCAG
23714023 AGAAACA
1 AGAAACA
23714030 AAAGTCTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.59, C:0.17, G:0.24, T:0.00
Consensus pattern (11 bp):
AGAAACAGCAG
Found at i:23721282 original size:12 final size:12
Alignment explanation
Indices: 23721267--23721297 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
23721257 CAAAATAATC
23721267 ATAAAAAGAAAA
1 ATAAAAAGAAAA
23721279 ATAAAAAGAAAA
1 ATAAAAAGAAAA
23721291 ATAAAAA
1 ATAAAAA
23721298 TAAGACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (12 bp):
ATAAAAAGAAAA
Found at i:23721298 original size:6 final size:6
Alignment explanation
Indices: 23721267--23721300 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
23721257 CAAAATAATC
* *
23721267 ATAAAA AGAAAA ATAAAA AGAAAA ATAAAA ATAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAA
23721301 GACAAAAGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (6 bp):
ATAAAA
Found at i:23723398 original size:15 final size:14
Alignment explanation
Indices: 23723378--23723434 Score: 78
Period size: 15 Copynumber: 3.9 Consensus size: 14
23723368 CGATGAATTT
23723378 ATTGAATCTATATTG
1 ATTGAAT-TATATTG
*
23723393 ATTGAAATTATTTTG
1 ATTG-AATTATATTG
23723408 ATTGAATTTATATTG
1 ATTGAA-TTATATTG
23723423 ATTGAATTATAT
1 ATTGAATTATAT
23723435 AATATACATG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
14 8 0.21
15 27 0.71
16 3 0.08
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (14 bp):
ATTGAATTATATTG
Found at i:23723865 original size:21 final size:21
Alignment explanation
Indices: 23723811--23723869 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
23723801 ACCGATCAGA
23723811 CACTTTATGTGTCGTATTTTAGG
1 CACTTTATGTGTCG--TTTTAGG
* **
23723834 CACCTCGTGTGTCGTTTTAGG
1 CACTTTATGTGTCGTTTTAGG
23723855 CACTTTATGTGTCGT
1 CACTTTATGTGTCGT
23723870 ATACTGATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 19 0.63
23 11 0.37
ACGTcount: A:0.14, C:0.19, G:0.24, T:0.44
Consensus pattern (21 bp):
CACTTTATGTGTCGTTTTAGG
Found at i:23724785 original size:15 final size:15
Alignment explanation
Indices: 23724752--23724785 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23724742 AGTTATGTCT
*
23724752 ATGTATGGAATTATA
1 ATGTATGGAATTAGA
*
23724767 ATGTATGGAATTAGC
1 ATGTATGGAATTAGA
23724782 ATGT
1 ATGT
23724786 CAAAAAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (15 bp):
ATGTATGGAATTAGA
Found at i:23725806 original size:19 final size:19
Alignment explanation
Indices: 23725784--23725823 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
23725774 TTAAACTTTT
* *
23725784 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCGATTCTA
23725803 ATTAAACTTTTCGATTCTA
1 ATTAAACTTTTCGATTCTA
23725822 AT
1 AT
23725824 AAAAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.53
Consensus pattern (19 bp):
ATTAAACTTTTCGATTCTA
Found at i:23727488 original size:30 final size:30
Alignment explanation
Indices: 23727432--23727488 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
23727422 ACAGTCATGA
* * *
23727432 CACACGGGCGTATGGTTTGCCTGTGTGTAT
1 CACACGGGCGTATGGATTACCCGTGTGTAT
*
23727462 CACACGGGCGTGTGGATTACCCGTGTG
1 CACACGGGCGTATGGATTACCCGTGTG
23727489 GAAGTGTCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.14, C:0.23, G:0.35, T:0.28
Consensus pattern (30 bp):
CACACGGGCGTATGGATTACCCGTGTGTAT
Found at i:23729318 original size:6 final size:6
Alignment explanation
Indices: 23729295--23729385 Score: 130
Period size: 6 Copynumber: 15.3 Consensus size: 6
23729285 TCAAAATATG
* *
23729295 AAAA-A AAAATA AACATA AAAATA AAAATA AAAATA AACATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* * *
23729342 AAAATA AAAATA AACATA AAAATA AAAATA AACATA AAGATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
23729386 TGAACTCAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
5 4 0.05
6 73 0.95
ACGTcount: A:0.79, C:0.04, G:0.01, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:23729326 original size:24 final size:24
Alignment explanation
Indices: 23729295--23729385 Score: 157
Period size: 24 Copynumber: 3.8 Consensus size: 24
23729285 TCAAAATATG
23729295 AAAA-AAAAATAAACATAAAAATA
1 AAAATAAAAATAAACATAAAAATA
23729318 AAAATAAAAATAAACATAAAAATA
1 AAAATAAAAATAAACATAAAAATA
23729342 AAAATAAAAATAAACATAAAAATA
1 AAAATAAAAATAAACATAAAAATA
* *
23729366 AAAATAAACATAAAGATAAA
1 AAAATAAAAATAAACATAAA
23729386 TGAACTCAAT
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
23 4 0.06
24 61 0.94
ACGTcount: A:0.79, C:0.04, G:0.01, T:0.15
Consensus pattern (24 bp):
AAAATAAAAATAAACATAAAAATA
Found at i:23730710 original size:21 final size:21
Alignment explanation
Indices: 23730676--23730738 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
23730666 ATAAAATAAC
*
23730676 AAAT-AAGAATTAAAGAAAGA
1 AAATAAAGAAATAAAGAAAGA
*
23730696 AAATAAAGAAATAAAGAATGA
1 AAATAAAGAAATAAAGAAAGA
*
23730717 AAATGAAACAAAAATAAAGAAA
1 AAAT--AA-AGAAATAAAGAAA
23730739 AAGTTAGGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.11
21 18 0.51
23 2 0.06
24 11 0.31
ACGTcount: A:0.73, C:0.02, G:0.13, T:0.13
Consensus pattern (21 bp):
AAATAAAGAAATAAAGAAAGA
Found at i:23743442 original size:26 final size:27
Alignment explanation
Indices: 23743413--23743475 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
23743403 ATTAAATTGT
23743413 ATTAATAATAATTATGA-TAAAATATA
1 ATTAATAATAATTATGATTAAAATATA
* * *
23743439 ATTAA-ATTATTTATTATTAAAATATA
1 ATTAATAATAATTATGATTAAAATATA
*
23743465 TTTAATAATAA
1 ATTAATAATAA
23743476 GCTTATTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
25 8 0.28
26 18 0.62
27 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
ATTAATAATAATTATGATTAAAATATA
Found at i:23748936 original size:22 final size:24
Alignment explanation
Indices: 23748887--23748964 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 24
23748877 ATTCAATTTG
*
23748887 AATATATAAACTATATTTTAAATATTAA
1 AATATAT-AACT-TA-TATAAAT-TTAA
23748915 AATATTATAA-TTA-A-AAATTTAA
1 AATA-TATAACTTATATAAATTTAA
*
23748937 AATATATAACTTATATATATTTAA
1 AATATATAACTTATATAAATTTAA
23748961 AATA
1 AATA
23748965 AATTTTAATA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
21 5 0.11
22 11 0.25
23 5 0.11
24 11 0.25
26 2 0.05
27 1 0.02
28 6 0.14
29 3 0.07
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (24 bp):
AATATATAACTTATATAAATTTAA
Found at i:23749222 original size:22 final size:22
Alignment explanation
Indices: 23749191--23749239 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
23749181 AAACATAATA
23749191 AAAAATTTATA-ATGAAATTATTT
1 AAAAATTTATATAT-AAATT-TTT
*
23749214 AAAAA-TTATATATATATTTTT
1 AAAAATTTATATATAAATTTTT
23749235 AAAAA
1 AAAAA
23749240 AAAACCTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 8 0.33
22 9 0.38
23 7 0.29
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAAATTTATATATAAATTTTT
Found at i:23750565 original size:15 final size:15
Alignment explanation
Indices: 23750526--23750568 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23750516 GGTTTTATAT
23750526 TTGATATTTATT-AA
1 TTGATATTTATTAAA
* *
23750540 TGTTATTTTTATTAAA
1 T-TGATATTTATTAAA
23750556 TTGATATTTATTA
1 TTGATATTTATTA
23750569 TGAAATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 1 0.04
15 19 0.83
16 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
TTGATATTTATTAAA
Found at i:23750814 original size:19 final size:19
Alignment explanation
Indices: 23750790--23750826 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23750780 GAAATAAGGG
*
23750790 AAGGAAAGAAGGAAAAAGA
1 AAGGAAAGAAAGAAAAAGA
23750809 AAGGAAAGAAAGAAAAAG
1 AAGGAAAGAAAGAAAAAG
23750827 GGAAAATTGG
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:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAGGAAAGAAAGAAAAAGA
Found at i:23752047 original size:18 final size:18
Alignment explanation
Indices: 23752026--23752065 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23752016 AACGACTGAA
23752026 ACTGAATAAATGAATATT
1 ACTGAATAAATGAATATT
* * *
23752044 ACTGATTAACTGATTATT
1 ACTGAATAAATGAATATT
23752062 ACTG
1 ACTG
23752066 TTGACTAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (18 bp):
ACTGAATAAATGAATATT
Found at i:23757032 original size:15 final size:15
Alignment explanation
Indices: 23756993--23757035 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23756983 GGTTTTATAT
23756993 TTGATATTTATT-AA
1 TTGATATTTATTAAA
* *
23757007 TGTTATTTTTATTAAA
1 T-TGATATTTATTAAA
23757023 TTGATATTTATTA
1 TTGATATTTATTA
23757036 TGAAATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 1 0.04
15 19 0.83
16 3 0.13
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (15 bp):
TTGATATTTATTAAA
Found at i:23758315 original size:6 final size:6
Alignment explanation
Indices: 23758304--23758330 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23758294 TGTGCACCGC
23758304 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
23758331 CCTTACAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:23763923 original size:46 final size:46
Alignment explanation
Indices: 23763808--23763934 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 46
23763798 GATCAGAGGG
*
23763808 TGCCATGGTGTCTTTCAA-TCATGGTCTTATTCA-TTCTCGACTTGA
1 TGCCATAGTGTCTTTCAACT-ATGGTCTTATTCATTTCTCGACTTGA
* * * * * *
23763853 TGCCACAGTGCCTTTCAACCATGGTCTTATTCATTTTTCG-TTGTGT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTCGACT-TGA
23763899 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTT
23763935 GATTCGTGAT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
45 29 0.42
46 40 0.58
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (46 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTCGACTTGA
Found at i:23763987 original size:45 final size:45
Alignment explanation
Indices: 23763938--23764111 Score: 152
Period size: 45 Copynumber: 3.9 Consensus size: 45
23763928 TTCATTTGAT
* ** *
23763938 TCGTGATGTCATATTGTCTTTCAG-TGATGGTCTTACTCGATAAAA
1 TCGTGATGCCATAAAGTATTTCAGCT-ATGGTCTTACTCGATAAAA
* * *
23763983 TCGTGATGCCATAAAGTATTTCTGCTATGGTTTTACTCGATAGAA
1 TCGTGATGCCATAAAGTATTTCAGCTATGGTCTTACTCGATAAAA
* * ** * * * *
23764028 TCATGATGCCATAACGCCTTTTAGCTATCGTCTTACTTGATAGAA
1 TCGTGATGCCATAAAGTATTTCAGCTATGGTCTTACTCGATAAAA
* * * * *
23764073 TAGTGATGCCATAACGTCTTTCAACTATGATCTTACTCG
1 TCGTGATGCCATAAAGTATTTCAGCTATGGTCTTACTCG
23764112 TTTCTAGTAT
Statistics
Matches: 104, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
45 103 0.99
46 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (45 bp):
TCGTGATGCCATAAAGTATTTCAGCTATGGTCTTACTCGATAAAA
Found at i:23764539 original size:16 final size:16
Alignment explanation
Indices: 23764501--23764533 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23764491 CCATTTTGCC
*
23764501 ATTAAA-ATAACATAT
1 ATTAAATATAAAATAT
23764516 ATTAAATATAAAATAT
1 ATTAAATATAAAATAT
23764532 AT
1 AT
23764534 GTAATAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTAAATATAAAATAT
Found at i:23773137 original size:26 final size:26
Alignment explanation
Indices: 23773108--23773215 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
23773098 TGGTACAAAT
23773108 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
23773134 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23773160 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
23773186 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23773212 TGAT
1 TGAT
23773216 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:23776596 original size:22 final size:23
Alignment explanation
Indices: 23776568--23776645 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 23
23776558 TCATAAATAT
*
23776568 TATATTATTAATAAACT-TAT-AA
1 TATATTA-GAATAAACTATATAAA
*
23776590 TATATTAGATTAAACTATATAAA
1 TATATTAGAATAAACTATATAAA
* *
23776613 TATATTTGAAAAAAAAACTATATAAA
1 TATA-TT--AGAATAAACTATATAAA
23776639 TATATTA
1 TATATTA
23776646 TTTATAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
21 7 0.15
22 10 0.22
23 7 0.15
24 2 0.04
25 2 0.04
26 18 0.39
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.40
Consensus pattern (23 bp):
TATATTAGAATAAACTATATAAA
Found at i:23777595 original size:15 final size:16
Alignment explanation
Indices: 23777562--23777599 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
23777552 TATATTTTAA
*
23777562 ATAAATATTAATTACT
1 ATAAAAATTAATTACT
*
23777578 ATAAAAATT-ATTAGT
1 ATAAAAATTAATTACT
23777593 ATAAAAA
1 ATAAAAA
23777600 AATAATTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (16 bp):
ATAAAAATTAATTACT
Found at i:23782447 original size:180 final size:180
Alignment explanation
Indices: 23782145--23782500 Score: 493
Period size: 180 Copynumber: 2.0 Consensus size: 180
23782135 ATGTGAATAG
* * *
23782145 TATAGTTTAAATAATAATAGTGAACTTAGGTTGTAAATAAGAACACTCATGTCAAGAAACTGGCA
1 TATAGTTTAAATAATAATAATGAACTTAGGTAGTAAACAAGAACACTCATGTCAAGAAACTGGCA
* * * ** *
23782210 ATGGATACTCAGAGGGAGGCATTCTTAAATTTAGAATGCCTTTCTATTTCACTTCTAATTACCTG
66 ATAGATACTCAGAGGAAAGCATTCTTAAAGATAGAATACCTTTCTATTTCACTTCTAATTACCTG
*
23782275 CACTGCAACTTACTTGAGATTGTAATGAAGTCCTTCATTTCTTTTTATTT
131 CACTGCAACTTACCTGAGATTGTAATGAAGTCCTTCATTTCTTTTTATTT
* *
23782325 TATAGTTTAAGCT-ATAATAATGAACTTAGGTAGTAACCAAGAA-A-TCCTATGTCAAGAAACTG
1 TATAGTTTAA-ATAATAATAATGAACTTAGGTAGTAAACAAGAACACT-C-ATGTCAAGAAACTG
* ** *
23782387 GCAATAGATATTCAGAGGAAAGCATTCTTAAAGATAGTGTACCTTTCTTTTTCACTTCTAATTAC
63 GCAATAGATACTCAGAGGAAAGCATTCTTAAAGATAGAATACCTTTCTATTTCACTTCTAATTAC
* * *
23782452 CTGCACTGCAACTTACCTGAGATTGTGATGAATTCCTTCTTTTCTTTTT
128 CTGCACTGCAACTTACCTGAGATTGTAATGAAGTCCTTCATTTCTTTTT
23782501 GGTTTATGCT
Statistics
Matches: 154, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
178 1 0.01
179 2 0.01
180 150 0.97
181 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (180 bp):
TATAGTTTAAATAATAATAATGAACTTAGGTAGTAAACAAGAACACTCATGTCAAGAAACTGGCA
ATAGATACTCAGAGGAAAGCATTCTTAAAGATAGAATACCTTTCTATTTCACTTCTAATTACCTG
CACTGCAACTTACCTGAGATTGTAATGAAGTCCTTCATTTCTTTTTATTT
Found at i:23785554 original size:5 final size:5
Alignment explanation
Indices: 23785544--23785570 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
23785534 CACCACCACC
23785544 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
23785571 ACAACTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:23794932 original size:18 final size:17
Alignment explanation
Indices: 23794902--23794935 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23794892 AATGACTTAG
23794902 AAAATATAATAAATATA
1 AAAATATAATAAATATA
*
23794919 AAAATTATACTAAATAT
1 AAAA-TATAATAAATAT
23794936 TGTTATATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATATAATAAATATA
Found at i:23796518 original size:19 final size:19
Alignment explanation
Indices: 23796479--23796517 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23796469 TACTTATAAA
* *
23796479 TTATATTTATTTATATATT
1 TTATATATATATATATATT
23796498 TTATATATATATATAT-TT
1 TTATATATATATATATATT
23796516 TT
1 TT
23796518 TTAAAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATATATATATATATATT
Found at i:23796623 original size:17 final size:17
Alignment explanation
Indices: 23796601--23796635 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
23796591 TTCATTATAT
23796601 TTACATTTTATTACATA
1 TTACATTTTATTACATA
*
23796618 TTACATTTTATTATATA
1 TTACATTTTATTACATA
23796635 T
1 T
23796636 ATTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (17 bp):
TTACATTTTATTACATA
Found at i:23796646 original size:17 final size:18
Alignment explanation
Indices: 23796626--23796679 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 18
23796616 TATTACATTT
23796626 TATTA-TATATATTTTTA
1 TATTATTATATATTTTTA
*
23796643 TATTACTTATTATATGGTTTA
1 TATTA-TTA-TATAT-TTTTA
23796664 TATTATTATATATTTT
1 TATTATTATATATTTT
23796680 GGTTATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
17 5 0.16
18 2 0.06
19 7 0.23
20 8 0.26
21 9 0.29
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (18 bp):
TATTATTATATATTTTTA
Found at i:23807277 original size:16 final size:16
Alignment explanation
Indices: 23807258--23807309 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
23807248 TACGAGAATT
*
23807258 TTTGAAAACACGAGAA
1 TTTGAAAACACGAAAA
* *
23807274 TTTGTAAACACAAAAA
1 TTTGAAAACACGAAAA
*
23807290 TTTTAGAAACACGAAAA
1 TTTGA-AAACACGAAAA
23807307 TTT
1 TTT
23807310 TTGGAAAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
16 16 0.55
17 13 0.45
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.27
Consensus pattern (16 bp):
TTTGAAAACACGAAAA
Found at i:23807430 original size:16 final size:16
Alignment explanation
Indices: 23807406--23807679 Score: 116
Period size: 17 Copynumber: 15.4 Consensus size: 16
23807396 TTTTCTTAAA
* *
23807406 AAAAATTTTAAATACG
1 AAAATTTTTAAACACG
*
23807422 AGAATTTTTAAAACACG
1 AAAATTTTT-AAACACG
23807439 AAAATTTTTAAAACACAG
1 AAAATTTTT-AAACAC-G
23807457 AAATATTTTTTTTTAAAACACG
1 AAA-A----TTTTT-AAACACG
*
23807479 AAAATTTTTCTGAAAACAAG
1 AAAA-TTTT-T--AAACACG
*
23807499 AAAATTTTTGAAACACT
1 AAAATTTTT-AAACACG
* *
23807516 AGAATTTTGAAAACACG
1 AAAATTTT-TAAACACG
* *
23807533 AAGATTTTTGAAACATG
1 AAAATTTTT-AAACACG
*
23807550 AGAATTTTTAAAAGCACG
1 AAAATTTTT-AAA-CACG
** *
23807568 AGGATTATTGAAAGCACG
1 AAAATT-TTTAAA-CACG
* *
23807586 AAAATTTGTAAAAACG
1 AAAATTTTTAAACACG
* *
23807602 ACAATTTTTGAAATACG
1 AAAATTTTT-AAACACG
*
23807619 AGAAATTTTTTAAACGCG
1 A-AAA-TTTTTAAACACG
23807637 AAAATTTTTTTCAAACACG
1 AAAA--TTTTT-AAACACG
* *
23807656 AAAACTTTTGAAAACGCG
1 AAAA-TTTT-TAAACACG
23807674 AAAATT
1 AAAATT
23807680 CGAAAATTTC
Statistics
Matches: 203, Mismatches: 36, Indels: 37
0.74 0.13 0.13
Matches are distributed among these distances:
16 17 0.08
17 77 0.38
18 58 0.29
19 23 0.11
20 11 0.05
21 1 0.00
22 4 0.02
23 12 0.06
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (16 bp):
AAAATTTTTAAACACG
Found at i:23807466 original size:19 final size:17
Alignment explanation
Indices: 23807239--23807679 Score: 234
Period size: 18 Copynumber: 25.1 Consensus size: 17
23807229 AAAGTTTTTT
* *
23807239 TTTTTAAAATACGAGAA
1 TTTTTAAAACACGAAAA
*
23807256 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAAAA
*
23807274 TTTGT-AAACAC-AAAA
1 TTTTTAAAACACGAAAA
*
23807289 ATTTTAGAAACACGAAAA
1 TTTTTA-AAACACGAAAA
* *
23807307 TTTTTGGAAAAAACGAAAT
1 TTTTT--AAAACACGAAAA
**
23807326 TTTCTTAAAACACGACATT
1 TTT-TTAAAACACGA-AAA
* *
23807345 TTTTTGAAACACGAGAA
1 TTTTTAAAACACGAAAA
* **
23807362 TTTTTAAAACAAGACATT
1 TTTTTAAAACACGA-AAA
* **
23807380 TTTTTGAAACAC-AATT
1 TTTTTAAAACACGAAAA
*
23807396 TTTTCTTAAA-A--AAAA
1 TTTT-TAAAACACGAAAA
* *
23807411 -TTTT-AAATACGAGAA
1 TTTTTAAAACACGAAAA
23807426 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAAAA
23807443 TTTTTAAAACACAGAAATA
1 TTTTTAAAACAC-GAAA-A
23807462 TTTTTTTTTAAAACACGAAAA
1 ----TTTTTAAAACACGAAAA
*
23807483 TTTTTCTGAAAACAAGAAAA
1 -TTTT-T-AAAACACGAAAA
* * *
23807503 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAAAA
* *
23807520 TTTTGAAAACACGAAGA
1 TTTTTAAAACACGAAAA
* * *
23807537 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAAAA
**
23807554 TTTTTAAAAGCACGAGGA
1 TTTTTAAAA-CACGAAAA
* *
23807572 TTATTGAAAGCACGAAAA
1 TT-TTTAAAACACGAAAA
* *
23807590 TTTGTAAAA-ACGACAA
1 TTTTTAAAACACGAAAA
* *
23807606 TTTTTGAAATACGAGAAA
1 TTTTTAAAACACGA-AAA
* *
23807624 TTTTTTAAACGCGAAAA
1 TTTTTAAAACACGAAAA
*
23807641 TTTTTTTCAAACACGAAAA
1 --TTTTTAAAACACGAAAA
* *
23807660 CTTTTGAAAACGCGAAAA
1 -TTTTTAAAACACGAAAA
23807678 TT
1 TT
23807680 CGAAAATTTC
Statistics
Matches: 330, Mismatches: 65, Indels: 58
0.73 0.14 0.13
Matches are distributed among these distances:
12 3 0.01
13 2 0.01
14 3 0.01
15 11 0.03
16 31 0.09
17 102 0.31
18 104 0.32
19 43 0.13
20 14 0.04
21 1 0.00
22 4 0.01
23 12 0.04
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Done.