Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 347 of 352
Found at i:110998120 original size:12 final size:12
Alignment explanation
Indices: 110998103--110998127 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110998093 TGTACGTAAA
110998103 ATATATATGTAT
1 ATATATATGTAT
110998115 ATATATATGTAT
1 ATATATATGTAT
110998127 A
1 A
110998128 AGTAGTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:111011819 original size:30 final size:30
Alignment explanation
Indices: 111011783--111011842 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
111011773 GATGGACAGT
111011783 AGCGTATATGTAAGTACTCAAGAAGACAAG
1 AGCGTATATGTAAGTACTCAAGAAGACAAG
*
111011813 AGCGTATATGTAAGTGCTCAAGAAGACAAG
1 AGCGTATATGTAAGTACTCAAGAAGACAAG
111011843 TGTTGCTACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (30 bp):
AGCGTATATGTAAGTACTCAAGAAGACAAG
Found at i:111019387 original size:27 final size:27
Alignment explanation
Indices: 111019340--111019393 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
111019330 ATGAAAAAAA
*
111019340 GGTGGTGTAGGTGCCAGAGGCGGCACC
1 GGTGGTGTAGGTGCCAGAGGCAGCACC
* *
111019367 GGTGGTGTGGGT-CACATAGGCAGCACC
1 GGTGGTGTAGGTGC-CAGAGGCAGCACC
111019394 TTTGTTTCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.17, C:0.22, G:0.44, T:0.17
Consensus pattern (27 bp):
GGTGGTGTAGGTGCCAGAGGCAGCACC
Found at i:111019577 original size:17 final size:17
Alignment explanation
Indices: 111019557--111019662 Score: 83
Period size: 17 Copynumber: 5.8 Consensus size: 17
111019547 AAATTTTCAG
111019557 ATTTTATTTTTTAT-ATT
1 ATTTTATTTTTTATCA-T
111019574 ATTTTTTATACTTTTT-TCAT
1 A--TTTTAT--TTTTTATCAT
*
111019594 ATTTTATTGTATTTTTTTCAT
1 ATTTTA---T-TTTTTATCAT
111019615 ATTTTATTTCTTT-TCAT
1 ATTTTATTT-TTTATCAT
*
111019632 ATTTTATTTTTTTTCAT
1 ATTTTATTTTTTATCAT
111019649 ATTTTATTTTTTAT
1 ATTTTATTTTTTAT
111019663 ATTATTTTTG
Statistics
Matches: 76, Mismatches: 2, Indels: 22
0.76 0.02 0.22
Matches are distributed among these distances:
16 3 0.04
17 33 0.43
18 9 0.12
19 6 0.08
20 8 0.11
21 17 0.22
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.74
Consensus pattern (17 bp):
ATTTTATTTTTTATCAT
Found at i:111019622 original size:16 final size:16
Alignment explanation
Indices: 111019598--111019660 Score: 99
Period size: 17 Copynumber: 3.8 Consensus size: 16
111019588 TTTCATATTT
*
111019598 TATTGTATTTTTTTCA
1 TATTTTATTTTTTTCA
111019614 TATTTTATTTCTTTTCA
1 TATTTTATTT-TTTTCA
111019631 TATTTTATTTTTTTTCA
1 TATTTTA-TTTTTTTCA
111019648 TATTTTATTTTTT
1 TATTTTATTTTTT
111019661 ATATTATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
16 15 0.34
17 26 0.59
18 3 0.07
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (16 bp):
TATTTTATTTTTTTCA
Found at i:111019669 original size:34 final size:34
Alignment explanation
Indices: 111019597--111019670 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
111019587 TTTTCATATT
*
111019597 TTATTGTATTTTTTTCATATTTTATTTCTTTTCA
1 TTATTTTATTTTTTTCATATTTTATTTCTTTTCA
111019631 -TATTTTATTTTTTTTCATATTTTATTT-TTTAT-A
1 TTATTTTA-TTTTTTTCATATTTTATTTCTTT-TCA
111019664 TTATTTT
1 TTATTTT
111019671 TGTAAAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
33 10 0.28
34 26 0.72
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.74
Consensus pattern (34 bp):
TTATTTTATTTTTTTCATATTTTATTTCTTTTCA
Found at i:111019671 original size:12 final size:11
Alignment explanation
Indices: 111019563--111019658 Score: 54
Period size: 11 Copynumber: 8.5 Consensus size: 11
111019553 TCAGATTTTA
111019563 TTTTTTATATT
1 TTTTTTATATT
*
111019574 ATTTTTTATACT
1 -TTTTTTATATT
*
111019586 TTTTTCATA-T
1 TTTTTTATATT
* *
111019596 TTTATTGTATT
1 TTTTTTATATT
*
111019607 TTTTTCATATT
1 TTTTTTATATT
* *
111019618 TTATTTCT-TT
1 TTTTTTATATT
111019628 TCATATTTTAT-TT
1 T--T-TTTTATATT
*
111019641 TTTTTCATATT
1 TTTTTTATATT
111019652 TTATTTT
1 TT-TTTT
111019659 TTATATTATT
Statistics
Matches: 63, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
10 15 0.24
11 27 0.43
12 14 0.22
13 7 0.11
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.74
Consensus pattern (11 bp):
TTTTTTATATT
Found at i:111019983 original size:11 final size:11
Alignment explanation
Indices: 111019967--111019998 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
111019957 AATAAATTTA
111019967 TAAATTAAATT
1 TAAATTAAATT
111019978 TAAATTAAATT
1 TAAATTAAATT
*
111019989 AAAATTAAAT
1 TAAATTAAAT
111019999 CAACAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAATTAAATT
Found at i:111019988 original size:16 final size:16
Alignment explanation
Indices: 111019967--111019998 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
111019957 AATAAATTTA
*
111019967 TAAATTAAATTTAAAT
1 TAAATTAAAATTAAAT
111019983 TAAATTAAAATTAAAT
1 TAAATTAAAATTAAAT
111019999 CAACAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAATTAAAATTAAAT
Found at i:111020160 original size:8 final size:8
Alignment explanation
Indices: 111020147--111020187 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
111020137 GCTTGCTCCT
111020147 TCTTCTTC
1 TCTTCTTC
*
111020155 TCTTCTTT
1 TCTTCTTC
111020163 TCTTCTTC
1 TCTTCTTC
111020171 TCTTCTT-
1 TCTTCTTC
111020178 TCTT-TTC
1 TCTTCTTC
111020185 TCT
1 TCT
111020188 CATTTCTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 2 0.07
7 7 0.23
8 21 0.70
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (8 bp):
TCTTCTTC
Found at i:111020167 original size:16 final size:15
Alignment explanation
Indices: 111020146--111020196 Score: 70
Period size: 16 Copynumber: 3.4 Consensus size: 15
111020136 TGCTTGCTCC
111020146 TTCTTCTTCTCTTCTT
1 TTCTTCTTCTCTTC-T
111020162 TTCTTCTTCTCTTCT
1 TTCTTCTTCTCTTCT
111020177 TTCTT-TTCTC-TCAT
1 TTCTTCTTCTCTTC-T
111020191 TTCTTC
1 TTCTTC
111020197 CCCAAATGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.06
14 11 0.33
15 6 0.18
16 14 0.42
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (15 bp):
TTCTTCTTCTCTTCT
Found at i:111020399 original size:17 final size:16
Alignment explanation
Indices: 111020368--111020425 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 16
111020358 CAGTCTACTT
111020368 CAGCTTTTTTCTTTTCAG
1 CAGC-TTTTT-TTTTCAG
*
111020386 CAGCCTTTTTTTTTCAA
1 CAG-CTTTTTTTTTCAG
111020403 CAG--TTTTTTTTCAG
1 CAGCTTTTTTTTTCAG
*
111020417 CATCTTTTT
1 CAGCTTTTT
111020426 AGCGTTTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 12 0.35
16 4 0.12
17 9 0.26
18 8 0.24
19 1 0.03
ACGTcount: A:0.14, C:0.21, G:0.09, T:0.57
Consensus pattern (16 bp):
CAGCTTTTTTTTTCAG
Found at i:111025372 original size:39 final size:40
Alignment explanation
Indices: 111025324--111025479 Score: 237
Period size: 39 Copynumber: 4.0 Consensus size: 40
111025314 AGTTGATTCC
* *
111025324 ACTCCCCCATGCTACTTTG-TTTTATTATTAATTAAAACT
1 ACTCCCCCATACTATTTTGTTTTTATTATTAATTAAAACT
*
111025363 ACTCTCCCATACTATTTTG-TTTTATTATTAATTAAAACT
1 ACTCCCCCATACTATTTTGTTTTTATTATTAATTAAAACT
* * *
111025402 ATTCCCTCATACTATTTTGTTTTTATTATTAATTAAAACC
1 ACTCCCCCATACTATTTTGTTTTTATTATTAATTAAAACT
111025442 AC-CCCCCATACTATTTTGTTTTTATTATTAATTAAAAC
1 ACTCCCCCATACTATTTTGTTTTTATTATTAATTAAAAC
111025480 CATACTTTAT
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
39 87 0.81
40 20 0.19
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (40 bp):
ACTCCCCCATACTATTTTGTTTTTATTATTAATTAAAACT
Found at i:111026606 original size:13 final size:13
Alignment explanation
Indices: 111026588--111026612 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111026578 GAGTTTTGAG
111026588 TTCTTCGATCTGC
1 TTCTTCGATCTGC
111026601 TTCTTCGATCTG
1 TTCTTCGATCTG
111026613 TTCCCTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTCTTCGATCTGC
Found at i:111026659 original size:44 final size:44
Alignment explanation
Indices: 111026595--111027164 Score: 549
Period size: 44 Copynumber: 13.0 Consensus size: 44
111026585 GAGTTCTTCG
*
111026595 ATCTGCT-TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* *
111026638 ATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * *
111026680 ATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAT
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
111026726 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
111026770 ATCTGCTGTTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCT-ATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** ** * * * *
111026813 ATGCTGAAATCTTCGATCTGCTTTACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
*
111026859 ATCTGCTATCTTCGATATGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
111026903 ATCTGCTGTTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCT-ATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
** ** * * * *
111026946 ATGCTGAAATCTTCGATCTGCTTTACTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAA
*
111026992 ATCTGCTATCTTCGATCTGTTCTCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
* * *
111027036 ATCTGCTGTTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAA
**
111027078 ATGC-GAAATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 AT-CTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
*
111027122 ATCTGCTATCTTC-AACTTGTTCCCTATAAGCACAGGGATGCCA
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCA
111027165 TGCTGAAATC
Statistics
Matches: 427, Mismatches: 72, Indels: 55
0.77 0.13 0.10
Matches are distributed among these distances:
42 34 0.08
43 44 0.10
44 241 0.56
45 102 0.24
46 6 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
Found at i:111026841 original size:133 final size:133
Alignment explanation
Indices: 111026594--111027164 Score: 956
Period size: 133 Copynumber: 4.3 Consensus size: 133
111026584 TGAGTTCTTC
* * *
111026594 GATCTGCT-TCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCT-ATCTTCAACTTG
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTTCAACTTG
*
111026657 TTCCCTATAAACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATG
66 TTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATG
111026722 TCA
131 TCA
*
111026725 TATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTTCAACTTG
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTTCAACTTG
*
111026790 TTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTACTGTAAGCACAGGAATG
66 TTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATG
111026855 TCA
131 TCA
*
111026858 GATCTGCTATCTTCGATATGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTTCAACTTG
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTTCAACTTG
*
111026923 TTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTTACTGTAAGCACAGGAATG
66 TTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATG
111026988 TCA
131 TCA
*
111026991 GATCTGCTATCTTCGATCTGTTCTCTATAAGCACAGGGATGCCAAATCTGCTG-TTTTCAACTTG
1 GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTTCAACTTG
* * *
111027055 TTCCCTATAAGCACAGGGATGCCATGC-GAAATCTTCGATCTG-TTCCCTATAAGCACAGGGATG
66 TTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATG
*
111027118 CCA
131 TCA
* *
111027121 AATCTGCTATCTTC-AACTTGTTCCCTATAAGCACAGGGATGCCA
1 GATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCA
111027165 TGCTGAAATC
Statistics
Matches: 419, Mismatches: 18, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
129 2 0.00
130 57 0.14
131 22 0.05
132 80 0.19
133 258 0.62
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (133 bp):
GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTTCAACTTG
TTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATG
TCA
Found at i:111027632 original size:205 final size:205
Alignment explanation
Indices: 111027262--111028019 Score: 1191
Period size: 205 Copynumber: 3.7 Consensus size: 205
111027252 AAATCTATTT
** * * * ** *
111027262 CTTCGATTTTTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
* * * * *
111027327 GTGAAAGCTAAATCAACTATG-ATTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * *
111027391 GGATCCGCTTCAGCAT-AAA-CATCCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGT
131 GGATCTGCTTCAG--TGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGT
111027454 GAAGATGCCAAA
194 GAAGATGCCAAA
*
111027466 CTTCGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
*
111027531 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
111027596 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGTTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
*
111027661 ATATGCCAAA
196 AGATGCCAAA
* *
111027671 CTTTGATTCGTTCTCTGACGATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
* *
111027736 GTGAAAGCCAAATCATCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
*
111027801 GGATCTGCTTCAGTGAAATCATTTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
131 GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
111027866 AGATGCCAAA
196 AGATGCCAAA
* *
111027876 CTTCGATTCGTTCTCTAACAATACAGAGACGACAAATCATCTTAAATTTGC-TTCATCGTAATCA
1 CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTC-TCGTAATCA
* *
111027940 CGTGAAAGCCAAATTAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATCCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCT
*
111028005 TGGATCTACTTCAGT
130 TGGATCTGCTTCAGT
111028020 ATAACATCTG
Statistics
Matches: 516, Mismatches: 34, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
203 1 0.00
204 81 0.16
205 434 0.84
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (205 bp):
CTTCGATTCGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTTCTCGTAATCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGTGAAATCATCTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
AGATGCCAAA
Found at i:111033325 original size:20 final size:20
Alignment explanation
Indices: 111033288--111033325 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
111033278 TGATGGGGAG
*
111033288 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
111033308 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
111033326 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:111035280 original size:46 final size:46
Alignment explanation
Indices: 111035228--111035500 Score: 422
Period size: 46 Copynumber: 5.9 Consensus size: 46
111035218 GTGTGCTCTT
*
111035228 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
111035274 TGATATGAAATGTTTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
111035320 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
111035366 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
** *
111035412 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * * * *
111035458 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
111035501 TCATGTCAAA
Statistics
Matches: 214, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 213 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
Found at i:111039548 original size:13 final size:15
Alignment explanation
Indices: 111039518--111039548 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
111039508 TTCCAGATTT
111039518 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
111039533 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
111039548 T
1 T
111039549 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:111039634 original size:15 final size:14
Alignment explanation
Indices: 111039592--111039641 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
111039582 ATAGCTTTGA
*
111039592 ATGCAAATGATGTG
1 ATGCAAATGATGAG
111039606 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
111039621 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
111039635 ATGCAAA
1 ATGCAAA
111039642 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:111041134 original size:13 final size:13
Alignment explanation
Indices: 111041116--111041144 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
111041106 TTCCAGATTT
111041116 TCTTTTCTACCTC
1 TCTTTTCTACCTC
111041129 TCTTTTCTACCTC
1 TCTTTTCTACCTC
111041142 TCT
1 TCT
111041145 GTAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.38, G:0.00, T:0.55
Consensus pattern (13 bp):
TCTTTTCTACCTC
Found at i:111041230 original size:15 final size:14
Alignment explanation
Indices: 111041188--111041237 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
111041178 ATAACTTTGA
*
111041188 ATGCAAATGATGTG
1 ATGCAAATGATGAG
111041202 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
111041217 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
111041231 ATGCAAA
1 ATGCAAA
111041238 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:111045726 original size:40 final size:40
Alignment explanation
Indices: 111045627--111045767 Score: 200
Period size: 40 Copynumber: 3.5 Consensus size: 40
111045617 CCCACGCTAC
111045627 TTTGTTTTATTATTAATTAAAACTA--CCCTCCCATACTAT
1 TTTGTTTTATTATTAATTAAAACTATTCCCT-CCATACTAT
*
111045666 TTTGTTTTATTATTAATTAAAAATATTCCCT-CATACTAT
1 TTTGTTTTATTATTAATTAAAACTATTCCCTCCATACTAT
* *
111045705 TTTGTTTTTATTATTAGTTAAAACCATT-CCTCCATACTAT
1 TTTG-TTTTATTATTAATTAAAACTATTCCCTCCATACTAT
111045745 TTTGTTTTTATTATTAATTAAAA
1 TTTG-TTTTATTATTAATTAAAA
111045768 TCATACTTTA
Statistics
Matches: 93, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
39 39 0.42
40 50 0.54
41 4 0.04
ACGTcount: A:0.31, C:0.14, G:0.04, T:0.51
Consensus pattern (40 bp):
TTTGTTTTATTATTAATTAAAACTATTCCCTCCATACTAT
Found at i:111047633 original size:22 final size:23
Alignment explanation
Indices: 111047608--111047653 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
111047598 GAAAGAGGGG
111047608 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATGGTATTTTGAGGAGAGA
* *
111047630 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATGGTATTTTGAGGAGAGA
111047653 A
1 A
111047654 GAAATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.30, C:0.04, G:0.33, T:0.33
Consensus pattern (23 bp):
ATCGATGGTATTTTGAGGAGAGA
Found at i:111048290 original size:39 final size:40
Alignment explanation
Indices: 111048179--111048320 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
111048169 ATAAAGTATG
* *
111048179 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGAGGGAATA
*
111048219 GTTTTAATTAATGATAAAAACAAAATAGTATGAGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGAGGGAATA
* * * *
111048259 GTTTTAATTAATAAT-AAAACAAACTAATATGAGAGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGAGGGAATA
111048298 GTTTTAATTAATAAT-AAAACAAA
1 GTTTTAATTAATAATAAAAACAAA
111048321 GTAGCGTGGG
Statistics
Matches: 94, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 43 0.46
40 51 0.54
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.31
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGAGGGAATA
Found at i:111052159 original size:21 final size:21
Alignment explanation
Indices: 111052135--111052183 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
111052125 TCTTTTAATG
111052135 TTTACATTATAATATTATAT-A
1 TTTACATT-TAATATTATATAA
*
111052156 TTTA-ATTTAATTTTATATAA
1 TTTACATTTAATATTATATAA
*
111052176 ATTACATT
1 TTTACATT
111052184 CTATACATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 10 0.42
20 7 0.29
21 7 0.29
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTACATTTAATATTATATAA
Found at i:111054019 original size:17 final size:18
Alignment explanation
Indices: 111053990--111054026 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
111053980 GATGCTAAGG
111053990 ATGAGTAAAAAACTTTTA
1 ATGAGTAAAAAACTTTTA
111054008 ATGAGT-AAAAACTTTTA
1 ATGAGTAAAAAACTTTTA
111054025 AT
1 AT
111054027 AAAATCCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (18 bp):
ATGAGTAAAAAACTTTTA
Found at i:111055605 original size:32 final size:32
Alignment explanation
Indices: 111055556--111055623 Score: 86
Period size: 30 Copynumber: 2.1 Consensus size: 32
111055546 TAATAAAGTT
111055556 AAATTTATACTTTAATCTCTCCTAAAAATAATAA
1 AAATTTATACTTTAATCT-T-CTAAAAATAATAA
* *
111055590 AAATTTA-A-TTTAATCTTTTAAAAATTATAA
1 AAATTTATACTTTAATCTTCTAAAAATAATAA
111055620 AAAT
1 AAAT
111055624 ATAGGCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 15 0.47
31 1 0.03
32 8 0.25
33 1 0.03
34 7 0.22
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (32 bp):
AAATTTATACTTTAATCTTCTAAAAATAATAA
Found at i:111070010 original size:10 final size:10
Alignment explanation
Indices: 111069981--111070021 Score: 64
Period size: 10 Copynumber: 4.0 Consensus size: 10
111069971 TTAAATTCTA
111069981 AAAGATAAATT
1 AAAGATAAA-T
111069992 AAAGATAAAT
1 AAAGATAAAT
*
111070002 AAGGATAAAT
1 AAAGATAAAT
111070012 AAAGATAAAT
1 AAAGATAAAT
111070022 GCTAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
10 19 0.68
11 9 0.32
ACGTcount: A:0.66, C:0.00, G:0.12, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:111070822 original size:15 final size:15
Alignment explanation
Indices: 111070804--111070833 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
111070794 AAATTTTAAT
111070804 TTTTTATAATTTATA
1 TTTTTATAATTTATA
111070819 TTTTTATAATTTATA
1 TTTTTATAATTTATA
111070834 AAGGATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:111084220 original size:26 final size:26
Alignment explanation
Indices: 111084184--111084238 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
111084174 ATTCACTGAA
*
111084184 TCATCTCTAAACTATTTTTAACTAAT
1 TCATCTCTAAACCATTTTTAACTAAT
111084210 TCATCTCTAAACCATTTTTAACTAAT
1 TCATCTCTAAACCATTTTTAACTAAT
111084236 TCA
1 TCA
111084239 ATCAACTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.44
Consensus pattern (26 bp):
TCATCTCTAAACCATTTTTAACTAAT
Found at i:111085480 original size:3 final size:3
Alignment explanation
Indices: 111085472--111085508 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
111085462 TTATAGAGTT
*
111085472 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
111085509 CAAAAGGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:111098200 original size:21 final size:21
Alignment explanation
Indices: 111098176--111098224 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
111098166 CCTTTTAATG
111098176 TTTACATTATAATATTATAT-A
1 TTTACATT-TAATATTATATAA
*
111098197 TTTA-ATTTAATTTTATATAA
1 TTTACATTTAATATTATATAA
*
111098217 ATTACATT
1 TTTACATT
111098225 GTATACATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 10 0.42
20 7 0.29
21 7 0.29
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTACATTTAATATTATATAA
Found at i:111100084 original size:10 final size:10
Alignment explanation
Indices: 111100065--111100114 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
111100055 TGAAATTTTA
111100065 AAAGATAAAT
1 AAAGATAAAT
111100075 ACAA-ATAAAT
1 A-AAGATAAAT
111100085 AAAGATAAAT
1 AAAGATAAAT
111100095 AAAGATAAAT
1 AAAGATAAAT
111100105 GAAA-ATAAAT
1 -AAAGATAAAT
111100115 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:111102463 original size:22 final size:20
Alignment explanation
Indices: 111102428--111102477 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
111102418 TTTATAAATG
*
111102428 TTTTTAT-AATTTTATATGTA
1 TTTTTATAAAATTT-TATGTA
111102448 TTTTTATAAAATTTTATGTA
1 TTTTTATAAAATTTTATGTA
111102468 TTTTTATAAA
1 TTTTTATAAA
111102478 GAAATAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTTATAAAATTTTATGTA
Found at i:111119079 original size:21 final size:21
Alignment explanation
Indices: 111119053--111119093 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
111119043 AGACGAGCAA
* *
111119053 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
111119074 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
111119094 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:111122445 original size:8 final size:9
Alignment explanation
Indices: 111122429--111122464 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
111122419 CCAGTTAACA
111122429 AATTTTTTT
1 AATTTTTTT
111122438 AATTTTTTT
1 AATTTTTTT
111122447 AATTTTTGTT
1 AATTTTT-TT
*
111122457 GATTTTTT
1 AATTTTTT
111122465 GGGAGGTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 17 0.68
10 8 0.32
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (9 bp):
AATTTTTTT
Found at i:111122452 original size:18 final size:19
Alignment explanation
Indices: 111122429--111122464 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
111122419 CCAGTTAACA
111122429 AATTTTT-TTAATTTTTTT
1 AATTTTTGTTAATTTTTTT
*
111122447 AATTTTTGTTGATTTTTT
1 AATTTTTGTTAATTTTTT
111122465 GGGAGGTCAC
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:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (19 bp):
AATTTTTGTTAATTTTTTT
Found at i:111124390 original size:21 final size:21
Alignment explanation
Indices: 111124349--111124391 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
111124339 TTTATATATT
* *
111124349 TATTTATATAAATATATTAAA
1 TATTTAGATAAATATAATAAA
111124370 TATTTAGA-AAATATCAATAAA
1 TATTTAGATAAATAT-AATAAA
111124391 T
1 T
111124392 TCGAAATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TATTTAGATAAATATAATAAA
Found at i:111126157 original size:22 final size:22
Alignment explanation
Indices: 111126117--111126158 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
111126107 GCACAAATGA
111126117 ACAGAGAGCACTGAAGTGCTAT
1 ACAGAGAGCACTGAAGTGCTAT
*
111126139 ACAGAGGGCA-TGAATGTGCT
1 ACAGAGAGCACTGAA-GTGCT
111126159 GAACGAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (22 bp):
ACAGAGAGCACTGAAGTGCTAT
Found at i:111130145 original size:28 final size:30
Alignment explanation
Indices: 111130105--111130173 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 30
111130095 TGTGCTAATT
* *
111130105 TGGTGTGTTTGGGAGGA-CTATG-TGATTC
1 TGGTGTGTTTGGGAGGATATATGATCATTC
111130133 TGGTGTGTTTGGGAGGATTATATGATCATTC
1 TGGTGTGTTTGGGAGGA-TATATGATCATTC
111130164 TGGTGTGTTT
1 TGGTGTGTTT
111130174 TGGTTGGATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
28 17 0.47
30 4 0.11
31 15 0.42
ACGTcount: A:0.14, C:0.06, G:0.36, T:0.43
Consensus pattern (30 bp):
TGGTGTGTTTGGGAGGATATATGATCATTC
Found at i:111130516 original size:24 final size:23
Alignment explanation
Indices: 111130485--111130531 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
111130475 ATGACATGAT
*
111130485 TATTCTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTGGGTTGGA
111130508 TATTACTGGTGTGTTTGGGTTGGA
1 TATT-CTGGTGTGTTTGGGTTGGA
111130532 ATCCGTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.11, C:0.04, G:0.36, T:0.49
Consensus pattern (23 bp):
TATTCTGGTGTGTTTGGGTTGGA
Found at i:111134339 original size:18 final size:18
Alignment explanation
Indices: 111134307--111134341 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
111134297 ATGTTTTCTT
**
111134307 AAATGGAAATGGAAAATG
1 AAATGGAAAAAGAAAATG
111134325 AAATGGAAAAAGAAAAT
1 AAATGGAAAAAGAAAAT
111134342 ATGTGACCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.14
Consensus pattern (18 bp):
AAATGGAAAAAGAAAATG
Found at i:111135662 original size:25 final size:25
Alignment explanation
Indices: 111135634--111135682 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
111135624 GATGAATAGT
* *
111135634 TTTATATTTAATAT-TTATATATTTC
1 TTTATA-TAAATATATTAAATATTTC
111135659 TTTATATAAATATATTAAATATTT
1 TTTATATAAATATATTAAATATTT
111135683 AGAAAATATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TTTATATAAATATATTAAATATTTC
Found at i:111141642 original size:24 final size:24
Alignment explanation
Indices: 111141615--111141666 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
111141605 TTAGTAAGTC
*
111141615 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
111141639 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
111141663 AAAT
1 AAAT
111141667 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:111143612 original size:24 final size:24
Alignment explanation
Indices: 111143585--111143636 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
111143575 TTAGTAAGTC
*
111143585 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
111143609 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
111143633 AAAT
1 AAAT
111143637 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:111145477 original size:12 final size:12
Alignment explanation
Indices: 111145460--111145484 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
111145450 AGCTAAAAAG
111145460 ATGAAAAATTAA
1 ATGAAAAATTAA
111145472 ATGAAAAATTAA
1 ATGAAAAATTAA
111145484 A
1 A
111145485 ATAGCTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
ATGAAAAATTAA
Found at i:111149058 original size:27 final size:25
Alignment explanation
Indices: 111149028--111149077 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
111149018 AGCTCCTGGA
*
111149028 ACAAGAAACAAAAATAAGAAGACATCT
1 ACAAG-AAC-AAAATAACAAGACATCT
*
111149055 ACAAGAGCAAAATAACAAGACAT
1 ACAAGAACAAAATAACAAGACAT
111149078 ACAGAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 2 0.10
27 5 0.24
ACGTcount: A:0.62, C:0.16, G:0.12, T:0.10
Consensus pattern (25 bp):
ACAAGAACAAAATAACAAGACATCT
Found at i:111157584 original size:27 final size:27
Alignment explanation
Indices: 111157554--111157607 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
111157544 CAACTAAATT
111157554 GATATTTAGTTAAACTCGTGAATCTAA
1 GATATTTAGTTAAACTCGTGAATCTAA
111157581 GATATTTAGTTAAACTCGTGAATCTAA
1 GATATTTAGTTAAACTCGTGAATCTAA
111157608 CTCAATTAGA
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):
GATATTTAGTTAAACTCGTGAATCTAA
Found at i:111185406 original size:13 final size:12
Alignment explanation
Indices: 111185387--111185420 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 12
111185377 ACCTAAGTGC
111185387 TTTTTTTTTTCT
1 TTTTTTTTTTCT
111185399 TCTTTTTTTTTCT
1 T-TTTTTTTTTCT
111185412 TTTTTTTTT
1 TTTTTTTTT
111185421 CATTCCATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTTCT
Found at i:111185417 original size:10 final size:10
Alignment explanation
Indices: 111185390--111185419 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
111185380 TAAGTGCTTT
111185390 TTTTTTTCTTC
1 TTTTTTT-TTC
111185401 TTTTTTTTTC
1 TTTTTTTTTC
111185411 TTTTTTTTT
1 TTTTTTTTT
111185420 TCATTCCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:111192951 original size:301 final size:298
Alignment explanation
Indices: 111192459--111193093 Score: 1002
Period size: 301 Copynumber: 2.1 Consensus size: 298
111192449 TAAGCATATC
* ** *
111192459 AATAAACCCAATTTATTCCCAAATTCTTCTGAACATCCATTGAAACTCGATAAAATATTAGATTA
1 AATAAACCCAACTTATTTTCAAATTCTTCTGAACATCCATTGAAACTCGATAAAATATCAGATTA
* * *
111192524 TGAACAGAAACAGGCTAATGACTTCATCATCGTCATCGAAAGCATAAATCCAATTAAAAAACCCA
66 TGAACAGAAACAAGCTAATGAATTCATCATCGTCATCGAAAGCATAAATCCAATTAAAAAACACA
111192589 TAAAATTTCAACAACTACAAACCCTTTGAACAACACATTTATCAACAGAAAATACAACCTACCAA
131 TAAAATTTCAACAACTACAAACCCTTTGAACAACACATTTATCAACAGAAAATACAACCTACCAA
* *
111192654 AAGGACCAGCAAGTTAAGCACAAAACTAACTACAACACAATTCTTCTAAGATATTCCATATTTAT
196 AAGGACCAGCAAGTTAAACACAAAACTAACTAC-ACACAATTCTTCTAAGAAATTCCATATTTAT
* * * **
111192719 AGGGATAGCTTTAGGGCACTAGCATATCAACGTATTGCA
260 AAGGATAGCATTAAGGCACTAGCATATCAACACATTGCA
*
111192758 AATAAACCCAACTTATTTTCAAATTCTTCTGAACATCCATTGAAACTTGATAAGTAAATATCAGA
1 AATAAACCCAACTTATTTTCAAATTCTTCTGAACATCCATTGAAACTCGAT-A--AAATATCAGA
* *
111192823 TTATGAACAGAAACAAGCTAATGAATTCATTATCGTCATTGAAAGCATAAATCCAATT-AAAAAC
63 TTATGAACAGAAACAAGCTAATGAATTCATCATCGTCATCGAAAGCATAAATCCAATTAAAAAAC
* *
111192887 ACATAAAATTTCAACAACTACAAACCGTTTGAACAACACATTTATCAACAGAAAATAGAACCTAC
128 ACATAAAATTTCAACAACTACAAACCCTTTGAACAACACATTTATCAACAGAAAATACAACCTAC
* * * *
111192952 CAAAAGGACCAGCAAGTTAAACACTAAATTAACTACAGACAATTCTTCTAAGAAATTCCATTTTT
193 CAAAAGGACCAGCAAGTTAAACACAAAACTAACTACACACAATTCTTCTAAGAAATTCCATATTT
* *
111193017 GTAAGGATAGCATTAAGGCAGTAGCATATCAACACATTGCA
258 ATAAGGATAGCATTAAGGCACTAGCATATCAACACATTGCA
111193058 AATAAACCCAACTTATTTTCAAATTCTTCTGAACAT
1 AATAAACCCAACTTATTTTCAAATTCTTCTGAACAT
111193094 TAGACTATGA
Statistics
Matches: 308, Mismatches: 25, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
299 47 0.15
300 97 0.31
301 101 0.33
302 63 0.20
ACGTcount: A:0.43, C:0.21, G:0.10, T:0.26
Consensus pattern (298 bp):
AATAAACCCAACTTATTTTCAAATTCTTCTGAACATCCATTGAAACTCGATAAAATATCAGATTA
TGAACAGAAACAAGCTAATGAATTCATCATCGTCATCGAAAGCATAAATCCAATTAAAAAACACA
TAAAATTTCAACAACTACAAACCCTTTGAACAACACATTTATCAACAGAAAATACAACCTACCAA
AAGGACCAGCAAGTTAAACACAAAACTAACTACACACAATTCTTCTAAGAAATTCCATATTTATA
AGGATAGCATTAAGGCACTAGCATATCAACACATTGCA
Found at i:111194222 original size:31 final size:32
Alignment explanation
Indices: 111194186--111194252 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 32
111194176 TTATAAAATG
* *
111194186 GTCACTGAACTATTCGAAA-GTTTTAATTTAA
1 GTCACTAAACTATTCAAAAGGTTTTAATTTAA
* *
111194217 GTCACTAAATTATTCAAAAGGTTTTTATTTAA
1 GTCACTAAACTATTCAAAAGGTTTTAATTTAA
111194249 GTCA
1 GTCA
111194253 ATGGGCTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.40
Consensus pattern (32 bp):
GTCACTAAACTATTCAAAAGGTTTTAATTTAA
Found at i:111195756 original size:18 final size:19
Alignment explanation
Indices: 111195715--111195756 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
111195705 TAACATTTAT
*
111195715 AAGATACAAATTACCAATAT
1 AAGATACAAA-TACCAATAC
*
111195735 AAGATACAAA-ACCAGTAC
1 AAGATACAAATACCAATAC
111195753 AAGA
1 AAGA
111195757 GATATGGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.50
20 10 0.50
ACGTcount: A:0.57, C:0.17, G:0.10, T:0.17
Consensus pattern (19 bp):
AAGATACAAATACCAATAC
Found at i:111201826 original size:33 final size:32
Alignment explanation
Indices: 111201767--111201831 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
111201757 AGTTTTATTG
*
111201767 GGTACGGTTCGATTTAATTTTATGATAACATAA
1 GGTACGGTTCGATTTAATTGTATGATAA-ATAA
111201800 GGTACGGTTCGATTTAATATGT-TGATAAATAA
1 GGTACGGTTCGATTTAAT-TGTATGATAAATAA
111201832 TTATGAGATG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.13
33 24 0.80
34 2 0.07
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (32 bp):
GGTACGGTTCGATTTAATTGTATGATAAATAA
Found at i:111202288 original size:17 final size:17
Alignment explanation
Indices: 111202266--111202298 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
111202256 TTTTTTACTT
111202266 AAAAAAATGGGTAATTA
1 AAAAAAATGGGTAATTA
111202283 AAAAAAATGGGTAATT
1 AAAAAAATGGGTAATT
111202299 TAGTCATTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (17 bp):
AAAAAAATGGGTAATTA
Found at i:111211944 original size:35 final size:33
Alignment explanation
Indices: 111211876--111211944 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 33
111211866 TGAATTTTTT
*
111211876 TATATTTAATTGAATAAAACTCAAATTTTAATA
1 TATATTTAATTGAAAAAAACTCAAATTTTAATA
* *
111211909 TATATTTAATTGTATAAAAAAGTGAAATTTTAATA
1 TATATTTAATTG-A-AAAAAACTCAAATTTTAATA
111211944 T
1 T
111211945 TTATGCTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 12 0.39
34 1 0.03
35 18 0.58
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (33 bp):
TATATTTAATTGAAAAAAACTCAAATTTTAATA
Found at i:111216845 original size:5 final size:5
Alignment explanation
Indices: 111216835--111216867 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
111216825 AAGTTTTATA
111216835 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
111216868 GGCTCATTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:111225195 original size:31 final size:30
Alignment explanation
Indices: 111225139--111225196 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
111225129 TAACAAAATT
* *
111225139 AATAATAAAACAAAAGTTATACAATATTCA
1 AATAAAAAAACAAAAGTAATACAATATTCA
111225169 AATAAAAACAACAAAA-TAATATCAATAT
1 AATAAAAA-AACAAAAGTAATA-CAATAT
111225197 AATAGTAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.64, C:0.10, G:0.02, T:0.24
Consensus pattern (30 bp):
AATAAAAAAACAAAAGTAATACAATATTCA
Found at i:111241226 original size:21 final size:21
Alignment explanation
Indices: 111241202--111241255 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
111241192 GTTAATTGCA
111241202 CTAAACATTCTTAAATT-ATCT
1 CTAAACATT-TTAAATTGATCT
111241223 CT-AA-ATTTTAAATTGATCT
1 CTAAACATTTTAAATTGATCT
*
111241242 CTAAAC-TTTAAAAT
1 CTAAACATTTTAAAT
111241256 ATTCTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 7 0.24
19 9 0.31
20 11 0.38
21 2 0.07
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.43
Consensus pattern (21 bp):
CTAAACATTTTAAATTGATCT
Found at i:111241243 original size:19 final size:18
Alignment explanation
Indices: 111241212--111241262 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
111241202 CTAAACATTC
*
111241212 TTAAATTATCTCTAAATT
1 TTAAATTATCTCTAAACT
111241230 TTAAATTGATCTCTAAACT
1 TTAAATT-ATCTCTAAACT
*
111241249 TTAAAATAT-TCTAA
1 TTAAATTATCTCTAA
111241263 TTTAGTCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 5 0.17
18 9 0.30
19 16 0.53
ACGTcount: A:0.41, C:0.12, G:0.02, T:0.45
Consensus pattern (18 bp):
TTAAATTATCTCTAAACT
Found at i:111245002 original size:18 final size:18
Alignment explanation
Indices: 111244962--111245004 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
111244952 GTTCAATGTA
111244962 TAATTAATTTAAAATTTT
1 TAATTAATTTAAAATTTT
* *
111244980 CAATTAA-TTAAATTTATT
1 TAATTAATTTAAAATT-TT
111244998 TAATTAA
1 TAATTAA
111245005 AGACCTATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTTAAAATTTT
Found at i:111248129 original size:40 final size:40
Alignment explanation
Indices: 111248074--111248156 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
111248064 GGTATGAGAG
* *
111248074 AATGTGTACATATTTTGCGTAAATATTAATAGAATGTATA
1 AATGTGTACATATTTTGCATAAATATTAACAGAATGTATA
* * *
111248114 AATGTTTATATATTTTGCATAAATATTGACAGAATGTATA
1 AATGTGTACATATTTTGCATAAATATTAACAGAATGTATA
111248154 AAT
1 AAT
111248157 AGTATGAGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (40 bp):
AATGTGTACATATTTTGCATAAATATTAACAGAATGTATA
Found at i:111251691 original size:15 final size:14
Alignment explanation
Indices: 111251671--111251705 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
111251661 TGAAAATGGC
111251671 TCAAAATATTGTTTT
1 TCAAAATATT-TTTT
111251686 TCAAAATATTTTTT
1 TCAAAATATTTTTT
*
111251700 TTAAAA
1 TCAAAA
111251706 CTTTTAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (14 bp):
TCAAAATATTTTTT
Found at i:111254923 original size:29 final size:28
Alignment explanation
Indices: 111254864--111254925 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
111254854 AAGCATCTTG
**
111254864 TATATTTTTATATATATTTTTAATATTT
1 TATATTTTTATATATATTTTTAATAAAT
*
111254892 TATATTTTTATGTCAT-TTTTATAATAAAT
1 TATATTTTTATAT-ATATTTT-TAATAAAT
111254921 TATAT
1 TATAT
111254926 ATATTTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.63
Consensus pattern (28 bp):
TATATTTTTATATATATTTTTAATAAAT
Found at i:111259571 original size:20 final size:20
Alignment explanation
Indices: 111259527--111259565 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
111259517 TCCTAAACTT
111259527 TGAATCTTAAACCTAAACCA
1 TGAATCTTAAACCTAAACCA
*
111259547 TGAATCTTAAACTTAAACC
1 TGAATCTTAAACCTAAACC
111259566 TCGAATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.23, G:0.05, T:0.28
Consensus pattern (20 bp):
TGAATCTTAAACCTAAACCA
Found at i:111259658 original size:22 final size:23
Alignment explanation
Indices: 111259610--111259660 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
111259600 AAAAATTACC
*
111259610 AAAATTATGTATAAATGACATGG
1 AAAATTATGTATAAATGACATGA
* * *
111259633 AAAATT-TGTTTAAATGTCATTA
1 AAAATTATGTATAAATGACATGA
111259655 AAAATT
1 AAAATT
111259661 GGAAATGGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (23 bp):
AAAATTATGTATAAATGACATGA
Found at i:111266117 original size:102 final size:99
Alignment explanation
Indices: 111266011--111266335 Score: 352
Period size: 102 Copynumber: 3.2 Consensus size: 99
111266001 AAATTTATAT
* *
111266011 TAAAAAATCACAAAACACTAAACTAAACACTAACAACTTATATAACTTAATCTTAAATTACTAAC
1 TAAAAAATCACAAAACACTAAA-TAAACACTAACAA-TT-TATAACCTAATCATAAATTACTAAC
* * *
111266076 AAAATAGTTATAAAATTATTTAAAAAAATTATATTAC
63 AAAATAATTATAAAATTTTTTAAAAAAATTACATTAC
*
111266113 TAAAAAATCACAAAACCCTAAATTAAACACTAACAATTTATAACCTAATCCCATAAATTACTAAC
1 TAAAAAATCACAAAACACTAAA-TAAACACTAACAATTTATAACCTAAT--CATAAATTACTAAC
*
111266178 AAAATAAATAACTTATAACATTTTTTAAAAACGAAATTACATTAC
63 ---A-AAATAA-TTATAAAATTTTTT-AAAA--AAATTACATTAC
* *
111266223 TAAAAAATAACAAAACAC---A-AAACACTAACAATTTATAACCTAATCATAAACTACTAACAAA
1 TAAAAAATCACAAAACACTAAATAAACACTAACAATTTATAACCTAATCATAAATTACTAACAAA
* * *
111266284 ATAACTATAAATTTATTTTTTTAAAAATTTACATTAC
66 ATAATTATAAA---ATTTTTTAAAAAAATTACATTAC
*
111266321 TAAAAACTCACAAAA
1 TAAAAAATCACAAAA
111266336 AATAACAATT
Statistics
Matches: 193, Mismatches: 17, Indels: 30
0.80 0.07 0.12
Matches are distributed among these distances:
98 29 0.15
99 6 0.03
100 14 0.07
101 9 0.05
102 47 0.24
103 13 0.07
105 26 0.13
106 5 0.03
107 13 0.07
108 4 0.02
110 27 0.14
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.29
Consensus pattern (99 bp):
TAAAAAATCACAAAACACTAAATAAACACTAACAATTTATAACCTAATCATAAATTACTAACAAA
ATAATTATAAAATTTTTTAAAAAAATTACATTAC
Found at i:111267012 original size:12 final size:12
Alignment explanation
Indices: 111266995--111267019 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
111266985 ATTTTGACCT
111266995 TGTATATATATA
1 TGTATATATATA
111267007 TGTATATATATA
1 TGTATATATATA
111267019 T
1 T
111267020 AAATATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGTATATATATA
Found at i:111269139 original size:15 final size:16
Alignment explanation
Indices: 111269119--111269148 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
111269109 CCAAGGAGGG
111269119 AAAGCTTAAA-ACAGA
1 AAAGCTTAAATACAGA
111269134 AAAGCTTAAATACAG
1 AAAGCTTAAATACAG
111269149 GCGCCCCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.17
Consensus pattern (16 bp):
AAAGCTTAAATACAGA
Found at i:111285238 original size:16 final size:16
Alignment explanation
Indices: 111285219--111285249 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
111285209 AAATAACATA
*
111285219 ATTTAATTTTAAAAAT
1 ATTTAAATTTAAAAAT
111285235 ATTTAAATTTAAAAA
1 ATTTAAATTTAAAAA
111285250 AAAAGAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTAAATTTAAAAAT
Found at i:111285974 original size:22 final size:21
Alignment explanation
Indices: 111285935--111285984 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
111285925 AGTTTTTTTT
*
111285935 AATATTTACATATTTTTAGTTC
1 AATATTTACATATATTTA-TTC
111285957 AATATTTA-ATATAATTTATTC
1 AATATTTACATAT-ATTTATTC
111285978 ATATATT
1 A-ATATT
111285985 AAAATTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (21 bp):
AATATTTACATATATTTATTC
Found at i:111291754 original size:230 final size:230
Alignment explanation
Indices: 111291344--111291769 Score: 665
Period size: 230 Copynumber: 1.9 Consensus size: 230
111291334 GAGGAGACCA
* * *
111291344 CAACAAGCCGAAAGTCACCAGAGATATAACAAAAATCCCATTAAAACATAAGTTAAGAAGGCCGA
1 CAACAAGCCAAAAGTCACCAGAGATATAACAAAAATCCCATTAAAACAAAAGTTAAGAAGACCGA
* * * * *
111291409 GAACACGACGAGATATAAGACATAAATCAAGTTTCCTTTGTGTAAGACCTATGTTACTCTGGCTC
66 GAACACGACGACATATAAGACATAAATCAAGTTTCCTTCGTGTAAGACCTATGTTACACCGACTC
111291474 TTCATTTTTCTTTTAAGCACCCAATTCCAACACTCATGTCCGACGTATATTTGGACATTGGCATG
131 TTCATTTTTCTTTTAAGCACCCAATTCCAACACTCATGTCCGACGTATATTTGGACATTGGCATG
111291539 TACAGTGTATATCTAGACATCGGTTTGCAAGGGAC
196 TACAGTGTATATCTAGACATCGGTTTGCAAGGGAC
* * * *
111291574 CAACAAGGCAAAAGTCACCGGAGATATAA-AAAATTCCCATTAAAACAAAAAGTTAAGAATACCG
1 CAACAAGCCAAAAGTCACCAGAGATATAACAAAAATCCCATTAAAAC-AAAAGTTAAGAAGACCG
* * * *
111291638 AGAACATGACTACATATAAGACATATATCAAGTTTCCTTCGTGTAAGACCTATGTTGCACCGACT
65 AGAACACGACGACATATAAGACATAAATCAAGTTTCCTTCGTGTAAGACCTATGTTACACCGACT
* * *
111291703 CTTCATTTTTCTTTTAAGTACTCAATTCCAACACTCATGTCCGATGTATATTTGGACATTGGCAT
130 CTTCATTTTTCTTTTAAGCACCCAATTCCAACACTCATGTCCGACGTATATTTGGACATTGGCAT
111291768 GT
195 GT
111291770 TGTCCAGTGT
Statistics
Matches: 176, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
229 16 0.09
230 160 0.91
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (230 bp):
CAACAAGCCAAAAGTCACCAGAGATATAACAAAAATCCCATTAAAACAAAAGTTAAGAAGACCGA
GAACACGACGACATATAAGACATAAATCAAGTTTCCTTCGTGTAAGACCTATGTTACACCGACTC
TTCATTTTTCTTTTAAGCACCCAATTCCAACACTCATGTCCGACGTATATTTGGACATTGGCATG
TACAGTGTATATCTAGACATCGGTTTGCAAGGGAC
Found at i:111292181 original size:187 final size:187
Alignment explanation
Indices: 111291865--111292221 Score: 615
Period size: 187 Copynumber: 1.9 Consensus size: 187
111291855 TGTCGGACAC
* * **
111291865 ATATTGTAAAACAATTCCATTACCATGATAAATGTCAGATATAACAGATCAAATTTGTAGTACAA
1 ATATTGTAAAACAATTCCATTACCATGATAAATGCCAAATATAACAGATCAAATTCATAGTACAA
*
111291930 ATAGATATAACAAAGAAAAATGAATCGGTTTAGCATGAGACATGGTTAATAGAACTACATGCATC
66 ATAGATATAACAAAGAAAAATGAATCGGTTTAGCATGAGACATGGTTAATAGAACTAAATGCATC
* *
111291995 ACGTAATATAGAGTAGGAAGGATTTGCAAAACTTAAATCACATCCTCCGAGGAGAAT
131 ACATAATATAGAGTAAGAAGGATTTGCAAAACTTAAATCACATCCTCCGAGGAGAAT
* *
111292052 ATATTGTAGAACAATTCCATTACCATGATAAATGCCAAATATAACGGATCAAATTCATAGTACAA
1 ATATTGTAAAACAATTCCATTACCATGATAAATGCCAAATATAACAGATCAAATTCATAGTACAA
* *
111292117 ATAGATATAACAAATAAAAATGGATCGGTTTAGCATGAGACATGGTTAATAGAACTAAATGCATC
66 ATAGATATAACAAAGAAAAATGAATCGGTTTAGCATGAGACATGGTTAATAGAACTAAATGCATC
111292182 ACATAATATAGAGTAAGAAGGATTTGCAAAACTTAAATCA
131 ACATAATATAGAGTAAGAAGGATTTGCAAAACTTAAATCA
111292222 ATGTAATGAG
Statistics
Matches: 159, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
187 159 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (187 bp):
ATATTGTAAAACAATTCCATTACCATGATAAATGCCAAATATAACAGATCAAATTCATAGTACAA
ATAGATATAACAAAGAAAAATGAATCGGTTTAGCATGAGACATGGTTAATAGAACTAAATGCATC
ACATAATATAGAGTAAGAAGGATTTGCAAAACTTAAATCACATCCTCCGAGGAGAAT
Found at i:111292869 original size:3 final size:3
Alignment explanation
Indices: 111292863--111292894 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
111292853 TTATTCCGAA
111292863 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
111292895 GCGTTATCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:111293185 original size:10 final size:11
Alignment explanation
Indices: 111293163--111293203 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
111293153 ATAGTTTCCC
111293163 AAACCCTAAAA
1 AAACCCTAAAA
111293174 AAACCC--AAA
1 AAACCCTAAAA
*
111293183 AAACTCCTATAA
1 AAAC-CCTAAAA
111293195 AAACCCTAA
1 AAACCCTAA
111293204 TCAAACAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
9 7 0.28
10 2 0.08
11 10 0.40
12 6 0.24
ACGTcount: A:0.59, C:0.29, G:0.00, T:0.12
Consensus pattern (11 bp):
AAACCCTAAAA
Found at i:111297092 original size:36 final size:36
Alignment explanation
Indices: 111297045--111297117 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
111297035 TACCCAAAAG
111297045 ACTCCTTTCAAAAACTAATAGTGAAAATATTAATTT
1 ACTCCTTTCAAAAACTAATAGTGAAAATATTAATTT
111297081 ACTCCTTTCAAAAACTAATAGTGAAAATATTAATTT
1 ACTCCTTTCAAAAACTAATAGTGAAAATATTAATTT
111297117 A
1 A
111297118 GCCCAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (36 bp):
ACTCCTTTCAAAAACTAATAGTGAAAATATTAATTT
Found at i:111304973 original size:13 final size:13
Alignment explanation
Indices: 111304955--111305005 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
111304945 TGTTTGGCAA
111304955 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
111304968 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
* *
111304981 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
111304994 TGCTTTTGAAAA
1 TGCTTTTGAAAA
111305006 TTTTAGGTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:111305191 original size:27 final size:26
Alignment explanation
Indices: 111305143--111305199 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
111305133 AGCAATAATA
*
111305143 TAAAATAATTTATTATAAATT-ATTGT
1 TAAAATAATTAATTATAAATTAATT-T
111305169 TAAAA-AATTAATATATAATATTAATTT
1 TAAAATAATTAAT-TATAA-ATTAATTT
111305196 TAAA
1 TAAA
111305200 TATTTCTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.22
26 10 0.37
27 8 0.30
28 3 0.11
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
TAAAATAATTAATTATAAATTAATTT
Found at i:111307516 original size:11 final size:10
Alignment explanation
Indices: 111307495--111307521 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
111307485 AAAGGGGTTC
111307495 TTTTTTCTTT
1 TTTTTTCTTT
111307505 TTTTTTCTTT
1 TTTTTTCTTT
111307515 TTTTTTC
1 TTTTTTC
111307522 CTTCTTCGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:111308373 original size:2 final size:2
Alignment explanation
Indices: 111308366--111308392 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
111308356 TCCCAATTCT
111308366 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
111308393 CTATTTACGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111321114 original size:177 final size:170
Alignment explanation
Indices: 111320741--111321120 Score: 514
Period size: 177 Copynumber: 2.2 Consensus size: 170
111320731 TATTATACAG
111320741 GTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATT
1 GTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATT
* * *
111320806 ACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATAGAGCGGATTAAAGGA
66 ACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATTACAATAGAGCGGATTAAAGGA
* *
111320871 TCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCAG
131 TCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAA
* *
111320911 GTTTTATCTCCCTGAGATTACAGTGGAATAGACCAAAAGAATTTCAGAGATCTTATCTCCCTGAG
1 GTCTTATCTCCCTGAGATTACAGTGGAACAGACC-AAAGAATTTC--AGATCTTATCTCCCTGAG
* * *
111320976 ATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAA
63 ATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGA-TTACAATAGAGCGGA-T--
* * *
111321039 AATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAA
124 --TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAA
* *
111321088 GTCTTATTTCCCTGAAGA-TGCAGTGGAACAGAC
1 GTCTTATCTCCCTG-AGATTACAGTGGAACAGAC
111321121 TGAAAACAAT
Statistics
Matches: 183, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
170 32 0.17
171 11 0.06
172 27 0.15
173 43 0.23
177 67 0.37
178 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (170 bp):
GTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGATCTTATCTCCCTGAGATT
ACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATTACAATAGAGCGGATTAAAGGA
TCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAA
Found at i:111324143 original size:19 final size:19
Alignment explanation
Indices: 111324119--111324176 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
111324109 ATTGGATAAA
*
111324119 GACGAATCCAAGACAGTCG
1 GACGAATCCAAGACAGTAG
*
111324138 GACGAATCCAAGAGAGTAG
1 GACGAATCCAAGACAGTAG
* *
111324157 GACGAATCCAGGAGAGTAG
1 GACGAATCCAAGACAGTAG
111324176 G
1 G
111324177 CAAGGGCCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.33, T:0.10
Consensus pattern (19 bp):
GACGAATCCAAGACAGTAG
Found at i:111327819 original size:29 final size:29
Alignment explanation
Indices: 111327768--111327838 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
111327758 TTTTCACAAA
*
111327768 TTTAAAATTTAATTTTTGAACTTTT-ATT
1 TTTAAAATTTAATTTTTGAACTTTTAAAT
*
111327796 TTTAAGAATTTAATTTATT-TACTTTTCAAAT
1 TTTAA-AATTTAATTT-TTGAACTTTT-AAAT
111327827 TTTAAAATTTAA
1 TTTAAAATTTAA
111327839 GTCCAATTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
28 5 0.14
29 16 0.43
30 9 0.24
31 7 0.19
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (29 bp):
TTTAAAATTTAATTTTTGAACTTTTAAAT
Found at i:111340755 original size:5 final size:5
Alignment explanation
Indices: 111340745--111340769 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
111340735 TATTATTTTT
111340745 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
111340770 TTCAACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:111341431 original size:16 final size:17
Alignment explanation
Indices: 111341402--111341438 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 17
111341392 AATTTAATTG
111341402 AAAAATAGTCAAATTGAT
1 AAAAATAGTCAAATT-AT
111341420 AAAAAT-GT-AAATTAT
1 AAAAATAGTCAAATTAT
111341435 AAAA
1 AAAA
111341439 GTTAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 5 0.26
17 2 0.11
18 6 0.32
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (17 bp):
AAAAATAGTCAAATTAT
Found at i:111341642 original size:25 final size:25
Alignment explanation
Indices: 111341609--111341656 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
111341599 ATAATTATTT
* *
111341609 ATTTTAATATATAT-TTTATAATTAA
1 ATTTAAATAAATATGTTT-TAATTAA
111341634 ATTTAAATAAATATGTTTTAATT
1 ATTTAAATAAATATGTTTTAATT
111341657 GTTAAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTTAAATAAATATGTTTTAATTAA
Found at i:111342454 original size:4 final size:4
Alignment explanation
Indices: 111342445--111342473 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
111342435 AGCAAATGTC
111342445 GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
111342474 CATGCTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.48
Consensus pattern (4 bp):
GTAT
Found at i:111351962 original size:18 final size:18
Alignment explanation
Indices: 111351921--111351963 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
111351911 AACATTTACA
111351921 TATTGTGTAATTTAATTTT
1 TATT-TGTAATTTAATTTT
**
111351940 T-TTTGTAATTTTGTTTT
1 TATTTGTAATTTAATTTT
111351957 TATTTGT
1 TATTTGT
111351964 GATCTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 13 0.62
18 7 0.33
19 1 0.05
ACGTcount: A:0.19, C:0.00, G:0.12, T:0.70
Consensus pattern (18 bp):
TATTTGTAATTTAATTTT
Found at i:111352871 original size:19 final size:19
Alignment explanation
Indices: 111352849--111352926 Score: 75
Period size: 19 Copynumber: 3.7 Consensus size: 19
111352839 GCTAGATCCA
111352849 AGCTTGAATACAAGATGTG
1 AGCTTGAATACAAGATGTG
* *
111352868 AGCTTGAATACAAGCTAGCTTAATCA
1 AGCTTGAATACAAG--A---T-GT-G
111352894 AGCTTGAATACAAGATGTG
1 AGCTTGAATACAAGATGTG
111352913 AGCTTGAATACAAG
1 AGCTTGAATACAAG
111352927 CTAGCTTAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
19 28 0.58
20 1 0.02
21 2 0.04
24 2 0.04
25 1 0.02
26 14 0.29
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (19 bp):
AGCTTGAATACAAGATGTG
Found at i:111352897 original size:14 final size:16
Alignment explanation
Indices: 111352849--111352942 Score: 60
Period size: 19 Copynumber: 6.0 Consensus size: 16
111352839 GCTAGATCCA
*
111352849 AGCTTGAATACAAGATGT
1 AGCTTGAATACAAG--CT
111352867 GAGCTTGAATACAAGCT
1 -AGCTTGAATACAAGCT
111352884 AGCTT-AAT-C-A---
1 AGCTTGAATACAAGCT
*
111352894 AGCTTGAATACAAGATGT
1 AGCTTGAATACAAG--CT
111352912 GAGCTTGAATACAAGCT
1 -AGCTTGAATACAAGCT
111352929 AGCTT-AAT-CAAGCT
1 AGCTTGAATACAAGCT
111352943 TGAGCTTAGA
Statistics
Matches: 64, Mismatches: 2, Indels: 23
0.72 0.02 0.26
Matches are distributed among these distances:
10 5 0.08
11 3 0.05
12 1 0.02
13 2 0.03
14 7 0.11
15 6 0.09
16 10 0.16
17 2 0.03
19 28 0.44
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (16 bp):
AGCTTGAATACAAGCT
Found at i:111352900 original size:45 final size:45
Alignment explanation
Indices: 111352847--111352945 Score: 198
Period size: 45 Copynumber: 2.2 Consensus size: 45
111352837 ATGCTAGATC
111352847 CAAGCTTGAATACAAGATGTGAGCTTGAATACAAGCTAGCTTAAT
1 CAAGCTTGAATACAAGATGTGAGCTTGAATACAAGCTAGCTTAAT
111352892 CAAGCTTGAATACAAGATGTGAGCTTGAATACAAGCTAGCTTAAT
1 CAAGCTTGAATACAAGATGTGAGCTTGAATACAAGCTAGCTTAAT
111352937 CAAGCTTGA
1 CAAGCTTGA
111352946 GCTTAGAAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAAGCTTGAATACAAGATGTGAGCTTGAATACAAGCTAGCTTAAT
Found at i:111354810 original size:53 final size:52
Alignment explanation
Indices: 111354722--111354887 Score: 190
Period size: 52 Copynumber: 3.1 Consensus size: 52
111354712 TCTTACACGG
* * * *
111354722 ATCACATATCACACTGATGCCATATCCCTAATATGGTCTTACACAGAAGTACAT
1 ATCACATCTCAC-C-GATGCCATAGCCCTGATATGGTCTTATACAGAAGTACAT
* * *
111354776 AATCACATCTCACCGATGCCATAGCCCTGTTATGGTCTTATA-TGAGAGTACTT
1 -ATCACATCTCACCGATGCCATAGCCCTGATATGGTCTTATACAGA-AGTACAT
* * * *
111354829 ATCACATCACACCGATGCCATAGCCCTGCTATGGTCTTATACGGAAGCACAT
1 ATCACATCTCACCGATGCCATAGCCCTGATATGGTCTTATACAGAAGTACAT
111354881 ATCACAT
1 ATCACAT
111354888 GTTGCCATGG
Statistics
Matches: 97, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
52 53 0.55
53 32 0.33
54 1 0.01
55 11 0.11
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (52 bp):
ATCACATCTCACCGATGCCATAGCCCTGATATGGTCTTATACAGAAGTACAT
Found at i:111361694 original size:30 final size:29
Alignment explanation
Indices: 111361660--111361724 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
111361650 AACCCTCTAA
* *
111361660 AATTACA-CTCATAAATTTTCTTAAAATTTT
1 AATTACAGCTCA-AAATTTT-TGAAAAATTT
*
111361690 AATTAGATGCTCAAAATTTTTGAAAAATTT
1 AATTACA-GCTCAAAATTTTTGAAAAATTT
111361720 AATTA
1 AATTA
111361725 GACCCTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
30 19 0.63
31 7 0.23
32 4 0.13
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (29 bp):
AATTACAGCTCAAAATTTTTGAAAAATTT
Found at i:111361725 original size:30 final size:32
Alignment explanation
Indices: 111361667--111361726 Score: 88
Period size: 30 Copynumber: 1.9 Consensus size: 32
111361657 TAAAATTACA
* *
111361667 CTCATAAATTTTCTTAAAATTTTAATTAGATG
1 CTCATAAATTTTCTGAAAAATTTAATTAGATG
111361699 CTCA-AAATTTT-TGAAAAATTTAATTAGA
1 CTCATAAATTTTCTGAAAAATTTAATTAGA
111361727 CCCTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 15 0.58
31 7 0.27
32 4 0.15
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (32 bp):
CTCATAAATTTTCTGAAAAATTTAATTAGATG
Found at i:111363549 original size:131 final size:131
Alignment explanation
Indices: 111363307--111363550 Score: 389
Period size: 131 Copynumber: 1.9 Consensus size: 131
111363297 TGTTGAAAAT
* * * * *
111363307 GAAGAGAATTCAGGCCAGCTACAATGATATGGGGTTACCTACTAATGGTTATCGTGATATCGACA
1 GAAGAGAATTCAAGCCAACTACAATGATATGGGGATACCTACTAATGGTTATCGTGATACCAACA
* **
111363372 CCCCAAGATTCCCAATCTCAAGACTTTGGTGGGTATTGTGAAACCCAAACTTAGGTATTGGTTAT
66 CCCCAAGATTCCCAATCTCAAGACTTTGGTAGGTACCGTGAAACCCAAACTTAGGTATTGGTTAT
111363437 A
131 A
*
111363438 GAAGAGAATTCAAGCCAACTACAATGATATGGGGATACCTAGTAATGGTTATCGTGATACCAACA
1 GAAGAGAATTCAAGCCAACTACAATGATATGGGGATACCTACTAATGGTTATCGTGATACCAACA
* *
111363503 CCCCAAGATTCCCAATCTCAAGACTTTTGTAGGTACCGTGACACCCAA
66 CCCCAAGATTCCCAATCTCAAGACTTTGGTAGGTACCGTGAAACCCAA
111363551 GCCTGAGTAT
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
131 102 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.26
Consensus pattern (131 bp):
GAAGAGAATTCAAGCCAACTACAATGATATGGGGATACCTACTAATGGTTATCGTGATACCAACA
CCCCAAGATTCCCAATCTCAAGACTTTGGTAGGTACCGTGAAACCCAAACTTAGGTATTGGTTAT
A
Found at i:111365708 original size:21 final size:21
Alignment explanation
Indices: 111365657--111365708 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
111365647 AGTTACAAGG
111365657 TCAGCCCACATGGCAGTGTACC
1 TCAG-CCACATGGCAGTGTACC
* *
111365679 ACAGTCACATGGCAGTGT-CTC
1 TCAGCCACATGGCAGTGTAC-C
111365700 TCAGCCACA
1 TCAGCCACA
111365709 CGTCCGTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 21 0.84
22 3 0.12
ACGTcount: A:0.25, C:0.35, G:0.21, T:0.19
Consensus pattern (21 bp):
TCAGCCACATGGCAGTGTACC
Found at i:111370553 original size:43 final size:43
Alignment explanation
Indices: 111370506--111370591 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
111370496 TATGTCTAAT
*
111370506 TTCGAATAATATAAATTGGAAAAAGAAATTCTTCAAGTAACAA
1 TTCGAATAACATAAATTGGAAAAAGAAATTCTTCAAGTAACAA
111370549 TTCGAATAACATAAATTGGAAAAAGAAATTCTTCAAGTAACAA
1 TTCGAATAACATAAATTGGAAAAAGAAATTCTTCAAGTAACAA
111370592 AGAAAAAGCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (43 bp):
TTCGAATAACATAAATTGGAAAAAGAAATTCTTCAAGTAACAA
Found at i:111373481 original size:31 final size:31
Alignment explanation
Indices: 111373443--111373505 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
111373433 TCACTGATTG
* **
111373443 AAGATAGAATCGAGTCTTAGAAAGGAAATGA
1 AAGATAGAATCAAGTCCCAGAAAGGAAATGA
111373474 AAGATAGAATCAAGTCCCAGAAAGGAAATGA
1 AAGATAGAATCAAGTCCCAGAAAGGAAATGA
111373505 A
1 A
111373506 CTTTGTTCCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.51, C:0.10, G:0.24, T:0.16
Consensus pattern (31 bp):
AAGATAGAATCAAGTCCCAGAAAGGAAATGA
Found at i:111389931 original size:26 final size:27
Alignment explanation
Indices: 111389888--111389945 Score: 93
Period size: 26 Copynumber: 2.2 Consensus size: 27
111389878 TTTTCCATAG
111389888 TTTTAGGGTTAGATTTTTTTCTTTTCAT
1 TTTTAGGGTTAGATTTTTTTCTTTT-AT
111389916 TTTTA-GGTTAGA-TTTTTTCTTTTAT
1 TTTTAGGGTTAGATTTTTTTCTTTTAT
111389941 TTTTA
1 TTTTA
111389946 TATTATATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 7 0.23
26 11 0.37
27 7 0.23
28 5 0.17
ACGTcount: A:0.16, C:0.05, G:0.12, T:0.67
Consensus pattern (27 bp):
TTTTAGGGTTAGATTTTTTTCTTTTAT
Found at i:111406116 original size:90 final size:89
Alignment explanation
Indices: 111405928--111406116 Score: 191
Period size: 90 Copynumber: 2.1 Consensus size: 89
111405918 AACAGTTTAT
* * ** * *
111405928 CTACAAACATTAGTGGTACATCCACAAAATTTATTGGTAGCCTTGATCTACAAACCCGTTACGTA
1 CTAC-AACATTAGTGGCACATCCACAAAATTTACTGACAGCCTTCATCTACAAACCCGTTACGAA
*
111405993 TTCACAGACACTGGCAGCGTATTAA
65 TTAACAGACACTGGCAGCGTATTAA
* * * * * **
111406018 CTTGCAACATTGGTGGCACGTCCACAATATTTACTGACAGCTTTCATCTACAAACCCGTTGTGAA
1 C-TACAACATTAGTGGCACATCCACAAAATTTACTGACAGCCTTCATCTACAAACCCGTTACGAA
* *
111406083 TTAACA-ACTACTGGTAGTGTATTAA
65 TTAACAGAC-ACTGGCAGCGTATTAA
111406108 GCTACAACA
1 -CTACAACA
111406117 CTTGTGGTTC
Statistics
Matches: 79, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
89 2 0.03
90 74 0.94
91 3 0.04
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (89 bp):
CTACAACATTAGTGGCACATCCACAAAATTTACTGACAGCCTTCATCTACAAACCCGTTACGAAT
TAACAGACACTGGCAGCGTATTAA
Found at i:111408695 original size:27 final size:27
Alignment explanation
Indices: 111408651--111408714 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
111408641 GTAATTATAG
* *
111408651 TAATT-AAAAATATGTTATTTAAAAAA
1 TAATTAAAAAACATATTATTTAAAAAA
*
111408677 TAATTAAAAAACATATTATTTAAAAAC
1 TAATTAAAAAACATATTATTTAAAAAA
111408704 TAATTAAAAAA
1 TAATTAAAAAA
111408715 TTAAATGCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 5 0.15
27 29 0.85
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (27 bp):
TAATTAAAAAACATATTATTTAAAAAA
Found at i:111408703 original size:15 final size:15
Alignment explanation
Indices: 111408654--111408703 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
111408644 ATTATAGTAA
* *
111408654 TTAAAAATATGTTAT
1 TTAAAAACATATTAT
111408669 TTAAAAA-ATA--AT
1 TTAAAAACATATTAT
*
111408681 TAAAAAACATATTAT
1 TTAAAAACATATTAT
111408696 TTAAAAAC
1 TTAAAAAC
111408704 TAATTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 8 0.28
13 3 0.10
14 2 0.07
15 16 0.55
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (15 bp):
TTAAAAACATATTAT
Found at i:111411230 original size:22 final size:22
Alignment explanation
Indices: 111411205--111411251 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
111411195 ATATATTACT
*
111411205 TTAAATTAATT-ATAATATATAA
1 TTAAATTAATTGATAA-AAATAA
*
111411227 TTAAATTATTTGATAAAAATAA
1 TTAAATTAATTGATAAAAATAA
111411249 TTA
1 TTA
111411252 TTAAATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TTAAATTAATTGATAAAAATAA
Found at i:111412288 original size:22 final size:22
Alignment explanation
Indices: 111412246--111412290 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
111412236 ACAACAAAGC
* *
111412246 AGTAACAATATAATAGTAAAAT
1 AGTAACAAAATAAGAGTAAAAT
111412268 AGTAACAAAATAAGGAG-AAAAT
1 AGTAACAAAATAA-GAGTAAAAT
111412290 A
1 A
111412291 ACAAGAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.62, C:0.04, G:0.13, T:0.20
Consensus pattern (22 bp):
AGTAACAAAATAAGAGTAAAAT
Found at i:111413013 original size:2 final size:2
Alignment explanation
Indices: 111413006--111413030 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
111412996 GAAATCCCTA
111413006 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
111413031 AAATCAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:111416175 original size:2 final size:2
Alignment explanation
Indices: 111416163--111416202 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
111416153 TTAAGCACTA
*
111416163 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111416203 CAAATTGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111416656 original size:20 final size:21
Alignment explanation
Indices: 111416622--111416676 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
111416612 ACAAATAATT
111416622 TAAAAATTATAAAATA-TTCAA
1 TAAAAATTATAAAATAGTTC-A
111416643 TAAAAATTAT-AAATAGTTCA
1 TAAAAATTATAAAATAGTTCA
* *
111416663 TAAAATTTCTAAAA
1 TAAAAATTATAAAA
111416677 AAATTAGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (21 bp):
TAAAAATTATAAAATAGTTCA
Found at i:111421201 original size:21 final size:23
Alignment explanation
Indices: 111421177--111421218 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
111421167 ATAATATTGT
111421177 AATAAACTTAA-AT-TTAACAAA
1 AATAAACTTAACATGTTAACAAA
*
111421198 AATAAATTTAACATGTTAACA
1 AATAAACTTAACATGTTAACA
111421219 GTTGAACCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 2 0.11
23 6 0.33
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (23 bp):
AATAAACTTAACATGTTAACAAA
Found at i:111444320 original size:25 final size:26
Alignment explanation
Indices: 111444288--111444342 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
111444278 TTATTAAATT
*
111444288 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
111444313 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
111444338 A-ATAT
1 ATATAT
111444343 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:111444529 original size:44 final size:45
Alignment explanation
Indices: 111444480--111444574 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
111444470 TTACACCTCT
* *
111444480 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
111444524 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
111444569 ATTACA
1 ATTACA
111444575 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:111444574 original size:16 final size:16
Alignment explanation
Indices: 111444555--111444606 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
111444545 GATTTGCTAT
* *
111444555 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
111444571 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
111444587 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
111444603 TACA
1 TACA
111444607 GCGAACCAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:111445348 original size:5 final size:5
Alignment explanation
Indices: 111445338--111445363 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
111445328 AAACTGAAGT
111445338 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
111445364 AACTTTATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:111452729 original size:35 final size:35
Alignment explanation
Indices: 111452626--111452731 Score: 91
Period size: 35 Copynumber: 3.2 Consensus size: 35
111452616 GAATACTATT
* *
111452626 TAAATTTTAAAATATTTTAATTAATATTATATCAA
1 TAAAATTTAAAATATTTTAATTAATATTGTATCAA
* * * *
111452661 TAAGATTTATTTAA-ATTTT-A--AAT-TAGT-T-TA
1 TAAAATTTA--AAATATTTTAATTAATATTGTATCAA
111452691 TAAAATTTAAAATATTTTAATTAATATTGTATCAA
1 TAAAATTTAAAATATTTTAATTAATATTGTATCAA
111452726 TAAAAT
1 TAAAAT
111452732 GATTTAGTAC
Statistics
Matches: 52, Mismatches: 10, Indels: 18
0.65 0.12 0.22
Matches are distributed among these distances:
28 2 0.04
29 5 0.10
30 10 0.19
31 1 0.02
32 5 0.10
33 6 0.12
34 1 0.02
35 15 0.29
36 5 0.10
37 2 0.04
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (35 bp):
TAAAATTTAAAATATTTTAATTAATATTGTATCAA
Found at i:111453194 original size:19 final size:18
Alignment explanation
Indices: 111453170--111453216 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
111453160 AAATATTCTC
*
111453170 AAATTATTATTTAAATTTT
1 AAATTATT-TGTAAATTTT
111453189 AAATTAATTTGTAAATTTT
1 AAATT-ATTTGTAAATTTT
*
111453208 AAAATATTT
1 AAATTATTT
111453217 TAATTAAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.16
19 18 0.72
20 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
AAATTATTTGTAAATTTT
Found at i:111456871 original size:21 final size:21
Alignment explanation
Indices: 111456846--111456910 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
111456836 TAGCCTTCGG
111456846 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * * *
111456867 GCTTCAG-ATAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
111456885 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
111456906 GCTTC
1 GCTTC
111456911 AGAGCATGCA
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 7 0.21
19 7 0.21
20 7 0.21
21 12 0.36
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.38
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:111456882 original size:39 final size:39
Alignment explanation
Indices: 111456828--111456913 Score: 163
Period size: 39 Copynumber: 2.2 Consensus size: 39
111456818 GCTCTGGTGA
*
111456828 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGATAGCCTTCGGGCTTCCGTTTAGCACTTATGT
111456867 GCTTCAGATAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGATAGCCTTCGGGCTTCCGTTTAGCACTTATGT
111456906 GCTTCAGA
1 GCTTCAGA
111456914 GCATGCAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.15, C:0.26, G:0.23, T:0.36
Consensus pattern (39 bp):
GCTTCAGATAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:111458659 original size:78 final size:78
Alignment explanation
Indices: 111458540--111458774 Score: 434
Period size: 78 Copynumber: 3.0 Consensus size: 78
111458530 GTTGAGTTAG
*
111458540 TACTTGAACATTCAAAACCTAAGTTTATCCCGACCCATTTTTTTAGTTTGTAATATTTTATATTA
1 TACTTGAACATTCAAAACCTAAGTTTGTCCCGACCCATTTTTTTAGTTTGTAATATTTTATATTA
*
111458605 TGTTGATTTTATA
66 TGTTAATTTTATA
111458618 TACTTGAACATTCAAAACCTAAGTTTGTCCCGACCCATTTTTTTAGTTTGTAATATTTTATATTA
1 TACTTGAACATTCAAAACCTAAGTTTGTCCCGACCCATTTTTTTAGTTTGTAATATTTTATATTA
111458683 TGTTAATTTTATA
66 TGTTAATTTTATA
* *
111458696 TACTTGAACATTCAAAACCTAAGTTTGTCTCGACCCTTTTTTTTAGTTTGTAATATTTTATATTA
1 TACTTGAACATTCAAAACCTAAGTTTGTCCCGACCCATTTTTTTAGTTTGTAATATTTTATATTA
111458761 TGTTAATTTTATA
66 TGTTAATTTTATA
111458774 T
1 T
111458775 GTTACGTAAT
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 153 1.00
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.49
Consensus pattern (78 bp):
TACTTGAACATTCAAAACCTAAGTTTGTCCCGACCCATTTTTTTAGTTTGTAATATTTTATATTA
TGTTAATTTTATA
Found at i:111459599 original size:12 final size:12
Alignment explanation
Indices: 111459584--111459617 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
111459574 GTGAATAAAG
111459584 AAGATAAATGGA
1 AAGATAAATGGA
111459596 AAGAT-AATGGA
1 AAGATAAATGGA
111459607 AAGATAGAATG
1 AAGATA-AATG
111459618 TGGCGTGTAG
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:0.56, C:0.00, G:0.26, T:0.18
Consensus pattern (12 bp):
AAGATAAATGGA
Done.