Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 55 of 444
Found at i:13299292 original size:33 final size:33
Alignment explanation
Indices: 13299217--13299297 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
13299207 TGACAATGAT
* * * *
13299217 TAAATATAAGACCATAATTGGGCTATTGCATTC
1 TAAATATAAGGCCATAATTGGGCTATGGCACTA
* *
13299250 T-GATGATAAGGCCATAATTGGGTTATGGCACTA
1 TAAAT-ATAAGGCCATAATTGGGCTATGGCACTA
13299283 TAAATATAAGGCCAT
1 TAAATATAAGGCCAT
13299298 GGCTGGGCCA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 2 0.05
33 35 0.90
34 2 0.05
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (33 bp):
TAAATATAAGGCCATAATTGGGCTATGGCACTA
Found at i:13305270 original size:93 final size:93
Alignment explanation
Indices: 13305158--13305329 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13305148 GCCCATAAGT
* *
13305158 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13305223 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13305251 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13305316 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
13305330 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13305325 original size:46 final size:46
Alignment explanation
Indices: 13305150--13305325 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
13305140 TGTAACCCGC
* * *
13305150 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
13305196 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
13305246 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
13305289 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13305326 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:13307744 original size:29 final size:29
Alignment explanation
Indices: 13307705--13307792 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
13307695 CAAAGATAAC
*
13307705 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
13307734 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
13307763 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
13307793 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:13307763 original size:15 final size:15
Alignment explanation
Indices: 13307705--13307783 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
13307695 CAAAGATAAC
*
13307705 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
13307719 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
13307734 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
13307748 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
13307763 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
13307778 AAGAAA
1 AAGAAA
13307784 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:13307792 original size:15 final size:15
Alignment explanation
Indices: 13307716--13307792 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
13307706 AGAAAACCGA
13307716 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
13307731 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
13307745 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
13307759 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
13307775 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
13307790 ATA
1 ATA
13307793 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:13310853 original size:93 final size:93
Alignment explanation
Indices: 13310741--13310912 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13310731 GCCCATAAGT
* *
13310741 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13310806 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13310834 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13310899 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
13310913 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13310908 original size:46 final size:46
Alignment explanation
Indices: 13310733--13310908 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
13310723 TGTAACCCGC
* * *
13310733 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
13310779 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
13310829 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
13310872 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13310909 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:13313333 original size:30 final size:30
Alignment explanation
Indices: 13313289--13313377 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
13313279 CAAAGATAAC
13313289 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
13313318 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
13313348 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
13313378 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:13313337 original size:15 final size:15
Alignment explanation
Indices: 13313289--13313368 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
13313279 CAAAGATAAC
*
13313289 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
13313303 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
13313318 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
13313333 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
13313348 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
13313363 AAGAAA
1 AAGAAA
13313369 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:13313377 original size:15 final size:15
Alignment explanation
Indices: 13313300--13313377 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
13313290 AGAAAACCGA
13313300 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
13313315 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
13313329 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
13313344 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
13313360 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
13313375 ATA
1 ATA
13313378 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:13316434 original size:93 final size:93
Alignment explanation
Indices: 13316322--13316493 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
13316312 GCCCATAAGT
* *
13316322 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13316387 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
13316415 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13316480 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
13316494 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13316489 original size:46 final size:46
Alignment explanation
Indices: 13316314--13316489 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
13316304 TGTAACCCGC
* * *
13316314 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
13316360 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
13316410 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
13316453 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13316490 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:13318792 original size:21 final size:22
Alignment explanation
Indices: 13318749--13318802 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
13318739 AGGAGTCAAA
13318749 ACGCCCGTGTGGAGAGAGACAC
1 ACGCCCGTGTGGAGAGAGACAC
13318771 ACAG-CCGTGTGGCAGAG-G-CAC
1 AC-GCCCGTGTGG-AGAGAGACAC
13318792 ACGCCCGTGTG
1 ACGCCCGTGTG
13318803 AAACAAGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 1 0.03
21 12 0.41
22 11 0.38
23 5 0.17
ACGTcount: A:0.22, C:0.30, G:0.37, T:0.11
Consensus pattern (22 bp):
ACGCCCGTGTGGAGAGAGACAC
Found at i:13346870 original size:11 final size:11
Alignment explanation
Indices: 13346847--13346881 Score: 61
Period size: 11 Copynumber: 3.1 Consensus size: 11
13346837 CGGCCCGACC
13346847 ATATTATTTTTT
1 ATATTA-TTTTT
13346859 ATATTATTTTT
1 ATATTATTTTT
13346870 ATATTATTTTT
1 ATATTATTTTT
13346881 A
1 A
13346882 AATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.74
12 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:13347034 original size:29 final size:30
Alignment explanation
Indices: 13347001--13347061 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
13346991 TAACTTAACA
13347001 AACAAATG-CTTCTAAAAATAAT-A-AAAATT
1 AACAAATGCCTT-T-AAAATAATAAGAAAATT
13347030 AACAAATGCCTTTAAAATAATAAGAAAATT
1 AACAAATGCCTTTAAAATAATAAGAAAATT
13347060 AA
1 AA
13347062 TAATAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
28 8 0.28
29 10 0.34
30 11 0.38
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (30 bp):
AACAAATGCCTTTAAAATAATAAGAAAATT
Found at i:13350919 original size:25 final size:26
Alignment explanation
Indices: 13350844--13350937 Score: 88
Period size: 25 Copynumber: 3.8 Consensus size: 26
13350834 TTTGTACGAG
* **
13350844 CATGTAACCGGGAAGCTCTTCCGAGC
1 CATGTAACCGGGAAGCTCATAAGAGC
* **
13350870 CATATAA-CGGGAAGCTCATGTGAGC
1 CATGTAACCGGGAAGCTCATAAGAGC
13350895 CATGTAA-CGGGAAGCTCATAAGAGC
1 CATGTAACCGGGAAGCTCATAAGAGC
* *
13350920 C--GTAATCGAGAAGCTCAT
1 CATGTAACCGGGAAGCTCAT
13350938 GCTAGTCAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
23 4 0.07
24 11 0.19
25 38 0.64
26 6 0.10
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (26 bp):
CATGTAACCGGGAAGCTCATAAGAGC
Found at i:13350975 original size:49 final size:49
Alignment explanation
Indices: 13350904--13351050 Score: 178
Period size: 49 Copynumber: 3.0 Consensus size: 49
13350894 CCATGTAACG
* *
13350904 GGAAGCTCATA-AGAGCC-GTAATCGAGAAGCTCATGCT-AGTCAATATC
1 GGAAGCTC-TAGAGAGCCATTAATCGAGAAGCTCATGCTAAGCCAATATC
*
13350951 AGGAAGCTCTAGAGAGCCATTAATCGGGAAGCTCATG-TAAGCCAATATC
1 -GGAAGCTCTAGAGAGCCATTAATCGAGAAGCTCATGCTAAGCCAATATC
* *
13351000 GAAAAGCTCCAGAGAGCCATTAATCGAGAAGCTCATGC-AAGCCATATATC
1 G-GAAGCTCTAGAGAGCCATTAATCGAGAAGCTCATGCTAAGCCA-ATATC
13351050 G
1 G
13351051 AGATGCTCAT
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
47 2 0.02
48 16 0.18
49 63 0.72
50 6 0.07
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (49 bp):
GGAAGCTCTAGAGAGCCATTAATCGAGAAGCTCATGCTAAGCCAATATC
Found at i:13351050 original size:25 final size:24
Alignment explanation
Indices: 13350867--13351060 Score: 107
Period size: 25 Copynumber: 7.9 Consensus size: 24
13350857 AGCTCTTCCG
* * *
13350867 AGCCATATAACGGGAAGCTCATGTG
1 AGCCATATATCGAGAAGCTCATG-A
* * * *
13350892 AGCCATGTAACGGGAAGCTCATAA
1 AGCCATATATCGAGAAGCTCATGA
* *
13350916 GAGCCGTA-ATCGAGAAGCTCATGCT
1 -AGCCATATATCGAGAAGCTCATG-A
*
13350941 AGTCA-ATATC-AGGAAGCTC-TAGA
1 AGCCATATATCGA-GAAGCTCAT-GA
*
13350964 GAGCCAT-TAATCGGGAAGCTCATGTA
1 -AGCCATAT-ATCGAGAAGCTCATG-A
*
13350990 AGCCA-ATATCGAAAAGCTCCA-GA
1 AGCCATATATCGAGAAGCT-CATGA
13351013 GAGCCAT-TAATCGAGAAGCTCATGCA
1 -AGCCATAT-ATCGAGAAGCTCATG-A
*
13351039 AGCCATATATCGAGATGCTCAT
1 AGCCATATATCGAGAAGCTCAT
13351061 ATGAGCTACA
Statistics
Matches: 132, Mismatches: 18, Indels: 38
0.70 0.10 0.20
Matches are distributed among these distances:
23 4 0.03
24 49 0.37
25 75 0.57
26 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (24 bp):
AGCCATATATCGAGAAGCTCATGA
Found at i:13351281 original size:20 final size:20
Alignment explanation
Indices: 13351235--13351284 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
13351225 CATGGCATAT
* *
13351235 TATACAA-TTCACACATACA
1 TATACAATTTAACACATAAA
* *
13351254 TATTCAATTTAACATATAAA
1 TATACAATTTAACACATAAA
13351274 TATACAATTTA
1 TATACAATTTA
13351285 GTTACACAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (20 bp):
TATACAATTTAACACATAAA
Found at i:13363288 original size:25 final size:25
Alignment explanation
Indices: 13363249--13363299 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
13363239 ATGATATCGC
*
13363249 TTGAAAAACTTATTCACATACAAAT
1 TTGAAAAACTAATTCACATACAAAT
*
13363274 TTGAAAATCTAATTCACATACAAAT
1 TTGAAAAACTAATTCACATACAAAT
13363299 T
1 T
13363300 AATTTAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (25 bp):
TTGAAAAACTAATTCACATACAAAT
Found at i:13364727 original size:19 final size:19
Alignment explanation
Indices: 13364703--13364742 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
13364693 GTTGATGATG
*
13364703 TCTATGAAATATTTTTTAT
1 TCTATGAAATATTATTTAT
13364722 TCTATGAAATATTATTTAT
1 TCTATGAAATATTATTTAT
13364741 TC
1 TC
13364743 ATTCATGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (19 bp):
TCTATGAAATATTATTTAT
Found at i:13373761 original size:54 final size:54
Alignment explanation
Indices: 13373697--13373804 Score: 198
Period size: 54 Copynumber: 2.0 Consensus size: 54
13373687 ATATGTCTCG
13373697 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
* *
13373751 AGGCTCAACTCACCTTTCGTAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
13373805 GACAGAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:13373994 original size:55 final size:55
Alignment explanation
Indices: 13373910--13374077 Score: 266
Period size: 55 Copynumber: 3.0 Consensus size: 55
13373900 GCGTGCCCCG
**
13373910 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTCTGAAAAACAGAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAAAACAGAAATTAAAA
*
13373965 AGGCTCAACTCACCTCTCGCATTATGAGTTGATTTCTGAAAAACAGAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAAAACAGAAATTAAAA
*
13374020 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TGAAGAAAACAGAATTTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTG-A-AAAACAGAAATT-AAAA
13374077 A
1 A
13374078 CAGAAATTGA
Statistics
Matches: 105, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
54 2 0.02
55 87 0.83
56 11 0.10
57 5 0.05
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (55 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAAAACAGAAATTAAAA
Found at i:13374079 original size:14 final size:14
Alignment explanation
Indices: 13374060--13374089 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13374050 GATTTTGAAG
*
13374060 AAAACAGAATTTGA
1 AAAACAGAAATTGA
13374074 AAAACAGAAATTGA
1 AAAACAGAAATTGA
13374088 AA
1 AA
13374090 TTACCTCAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (14 bp):
AAAACAGAAATTGA
Found at i:13374158 original size:73 final size:73
Alignment explanation
Indices: 13374069--13374236 Score: 201
Period size: 73 Copynumber: 2.3 Consensus size: 73
13374059 GAAAACAGAA
* * * * *
13374069 TTTGAAAAACAGAAATTGAAATTACCTCAGTGTATCCTGAGGCTCAAATCACCTCTCGTAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTACCCCGAGGCTCAAATCACCTCTCGCAATATG
13374134 AGTTGATT
66 AGTTGATT
* * * * * * **
13374142 TTTGACAAACAAAAATTTAAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATG
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTACCCCGAGGCTCAAATCACCTCTCGCAATATG
13374207 AGTTGATT
66 AGTTGATT
* *
13374215 TCTGAAAAACAGAAATTAAAAA
1 TTTGAAAAACAGAAATTGAAAA
13374237 GGCTCAACTC
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
73 78 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (73 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAGCGTACCCCGAGGCTCAAATCACCTCTCGCAATATG
AGTTGATT
Found at i:13374177 original size:271 final size:271
Alignment explanation
Indices: 13373697--13374434 Score: 1306
Period size: 271 Copynumber: 2.7 Consensus size: 271
13373687 ATATGTCTCG
*
13373697 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAAAGGCTCAACT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAAAACAGAAATTAAAAAGGCTCAACT
* * * *
13373761 CACCTTTCGTAATATGAGTTGATTTTTG-A-AAAACAGAAATT-AAAGACAGAAATTGAAATTAC
66 CACCTCTCGCAATATGAGTTGA-TTTTGAAGAAAACAGAATTTGAAAAACAGAAATTGAAATTAC
13373823 CTCAGCGTATCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGACAAACAAAAATT
130 CTCAGCGTATCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGACAAACAAAAATT
13373888 TAAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTCTGAAAAA
195 TAAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTCTGAAAAA
13373953 CAGAAATTAAAA
260 CAGAAATTAAAA
*
13373965 AGGCTCAACTCACCTCTCGCATTATGAGTTGATTTCTGAAAAACAGAAATTAAAAAGGCTCAACT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAAAACAGAAATTAAAAAGGCTCAACT
13374030 CACCTCTCGCAATATGAGTTGATTTTGAAGAAAACAGAATTTGAAAAACAGAAATTGAAATTACC
66 CACCTCTCGCAATATGAGTTGATTTTGAAGAAAACAGAATTTGAAAAACAGAAATTGAAATTACC
* *
13374095 TCAGTGTATCCTGAGGCTCAAATCACCTCTCGTAATATGAGTTGATTTTTGACAAACAAAAATTT
131 TCAGCGTATCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGACAAACAAAAATTT
13374160 AAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTCTGAAAAAC
196 AAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTCTGAAAAAC
13374225 AGAAATTAAAA
261 AGAAATTAAAA
*
13374236 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTCTGAAAAACAGAAATTAAAAAGGCTCAACT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAAAACAGAAATTAAAAAGGCTCAACT
13374301 CACCTCTCGCAATATGAGTTGATTTTGAAGAAAACAGAATTTGAAAAACAGAAATTGAAATTACC
66 CACCTCTCGCAATATGAGTTGATTTTGAAGAAAACAGAATTTGAAAAACAGAAATTGAAATTACC
* * * *
13374366 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGA-AAACAGAAATTT
131 TCAGCGTATCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGACAAACAAAAATTT
13374430 GAAAA
196 -AAAA
13374435 ACAGAAATTG
Statistics
Matches: 449, Mismatches: 16, Indels: 7
0.95 0.03 0.01
Matches are distributed among these distances:
268 54 0.12
269 34 0.08
270 22 0.05
271 339 0.76
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (271 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAAAACAGAAATTAAAAAGGCTCAACT
CACCTCTCGCAATATGAGTTGATTTTGAAGAAAACAGAATTTGAAAAACAGAAATTGAAATTACC
TCAGCGTATCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGACAAACAAAAATTT
AAAATACCTCGGCGTGCCCCGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTCTGAAAAAC
AGAAATTAAAA
Found at i:13374265 original size:55 final size:55
Alignment explanation
Indices: 13374181--13374348 Score: 266
Period size: 55 Copynumber: 3.0 Consensus size: 55
13374171 GCGTGCCCCG
**
13374181 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTCTGAAAAACAGAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAAAACAGAAATTAAAA
*
13374236 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTCTGAAAAACAGAAATTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAAAACAGAAATTAAAA
*
13374291 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TGAAGAAAACAGAATTTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTG-A-AAAACAGAAATT-AAAA
13374348 A
1 A
13374349 CAGAAATTGA
Statistics
Matches: 105, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
54 2 0.02
55 87 0.83
56 11 0.10
57 5 0.05
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (55 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTCTGAAAAACAGAAATTAAAA
Found at i:13374350 original size:14 final size:14
Alignment explanation
Indices: 13374331--13374360 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
13374321 GATTTTGAAG
*
13374331 AAAACAGAATTTGA
1 AAAACAGAAATTGA
13374345 AAAACAGAAATTGA
1 AAAACAGAAATTGA
13374359 AA
1 AA
13374361 TTACCTCAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (14 bp):
AAAACAGAAATTGA
Found at i:13374432 original size:14 final size:14
Alignment explanation
Indices: 13374413--13374448 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
13374403 TGAGTCGATT
13374413 TTTGAAAACAGAAA
1 TTTGAAAACAGAAA
13374427 TTTGAAAAACAGAAA
1 TTTG-AAAACAGAAA
13374442 -TTGAAAA
1 TTTGAAAA
13374449 TACCTCAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 7 0.33
15 10 0.48
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (14 bp):
TTTGAAAACAGAAA
Found at i:13374437 original size:15 final size:15
Alignment explanation
Indices: 13374413--13374448 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
13374403 TGAGTCGATT
13374413 TTTG-AAAACAGAAA
1 TTTGAAAAACAGAAA
13374427 TTTGAAAAACAGAAA
1 TTTGAAAAACAGAAA
13374442 -TTGAAAA
1 TTTGAAAA
13374449 TACCTCAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.22
Consensus pattern (15 bp):
TTTGAAAAACAGAAA
Found at i:13374466 original size:87 final size:87
Alignment explanation
Indices: 13374291--13374514 Score: 342
Period size: 87 Copynumber: 2.6 Consensus size: 87
13374281 GAAATTAAAA
* *
13374291 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAGAAAACAG-AATTTGAAAAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTT--TGAAAACAGAAATTTGAAAAACAGAAA
* **
13374355 TTGAAATTACCTCAGCGTGTCCTG
64 TTGAAAATACCTCAGCGTACCCTG
13374379 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAACAGAAATTTGAAAAACAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAACAGAAATTTGAAAAACAGAAATT
13374444 GAAAATACCTCAGCGTACCCTG
66 GAAAATACCTCAGCGTACCCTG
* * * *
13374466 AGGCTTAACTCACTTCTCGCAATATGAGTCGATTTCTGAGAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAACAGAAAT
13374515 AAAATATCAA
Statistics
Matches: 126, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
86 8 0.06
87 83 0.66
88 35 0.28
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAACAGAAATTTGAAAAACAGAAATT
GAAAATACCTCAGCGTACCCTG
Found at i:13392627 original size:52 final size:48
Alignment explanation
Indices: 13392551--13392757 Score: 213
Period size: 47 Copynumber: 4.2 Consensus size: 48
13392541 CCATGGCAGC
* * * *
13392551 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAG
1 ATGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGATATGGCATC--AG
*
13392602 AAATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGGCATC-G
1 --ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCAG
* * *
13392651 ATGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCAG
* * * * * *
13392699 -TGTGATATGTG-ATCCGTGTAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCAG
13392745 TATGTGATATGTG
1 -ATGTGATATGTG
13392758 ACTATGTGCA
Statistics
Matches: 135, Mismatches: 16, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
46 26 0.19
47 55 0.41
48 12 0.09
49 1 0.01
52 30 0.22
53 11 0.08
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (48 bp):
ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGATATGGCATCAG
Found at i:13392738 original size:93 final size:98
Alignment explanation
Indices: 13392569--13392776 Score: 239
Period size: 93 Copynumber: 2.1 Consensus size: 98
13392559 TGTGATTTCC
* * *
13392569 GTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATATGTGCTTCCGTATAAGACCATA
1 GTATAAGACCATAGCTGGGATATGGCATC-GAG--ATGTGATATGTGCATCCGTATAAGACCATA
*
13392634 TCTGGGATATGGCATC-G-ATGTGATATGTG-CTACT
63 GCTGGGATATGGCATCGGTATGTGATATGTGACTA-T
* * *
13392668 GTATAAGACCATATCTGGGATATGGCATC-AG-TGTGATATGTG-ATCCGTGTAAGACCATGGCT
1 GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAGCT
* *
13392730 GGGCTATGGCCTCGGTATGTGATATGTGACTAT
66 GGGATATGGCATCGGTATGTGATATGTGACTAT
**
13392763 GTGCAAGACCATAG
1 GTATAAGACCATAG
13392777 TTTTACTATG
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
93 27 0.29
94 12 0.13
95 24 0.26
96 3 0.03
97 2 0.02
99 26 0.28
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (98 bp):
GTATAAGACCATAGCTGGGATATGGCATCGAGATGTGATATGTGCATCCGTATAAGACCATAGCT
GGGATATGGCATCGGTATGTGATATGTGACTAT
Found at i:13395500 original size:27 final size:25
Alignment explanation
Indices: 13395454--13395517 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 25
13395444 ATATATACGC
*
13395454 AAATATATTAAAAATATATACAT-AT
1 AAATATA-AAAAAATATATACATAAT
13395479 ATAATATTAAAAAAAGTATATACATAAT
1 A-AATA-TAAAAAAA-TATATACATAAT
13395507 AAATATAAAAA
1 AAATATAAAAA
13395518 CATAATATGG
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
25 1 0.03
26 15 0.44
27 15 0.44
28 3 0.09
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (25 bp):
AAATATAAAAAAATATATACATAAT
Found at i:13395822 original size:30 final size:30
Alignment explanation
Indices: 13395758--13395823 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
13395748 ATATATGTAT
*
13395758 AATATAGTTATATATAAAAATACATACAAC
1 AATATAGTTATATATAAAAATACATAAAAC
13395788 -ATATAGTATATATATAAAAA-A-ATAAACAC
1 AATATAGT-TATATATAAAAATACATAAA-AC
13395817 AATATAG
1 AATATAG
13395824 ATGGTATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
28 4 0.12
29 10 0.31
30 18 0.56
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.29
Consensus pattern (30 bp):
AATATAGTTATATATAAAAATACATAAAAC
Found at i:13395963 original size:11 final size:9
Alignment explanation
Indices: 13395922--13396028 Score: 59
Period size: 9 Copynumber: 12.3 Consensus size: 9
13395912 TATACATGAT
13395922 ATATATATA
1 ATATATATA
13395931 AGTATA-ATA
1 A-TATATATA
* *
13395940 TTACTAGAT-
1 ATA-TATATA
*
13395949 ATATATGTA
1 ATATATATA
13395958 ATATATATA
1 ATATATATA
13395967 ATATATA-A
1 ATATATATA
13395975 ATAATATATA
1 AT-ATATATA
*
13395985 GA-AAATATA
1 -ATATATATA
13395994 ATAT-T-TA
1 ATATATATA
* *
13396001 AAAGA-ATA
1 ATATATATA
*
13396009 ATATACATA
1 ATATATATA
13396018 ATA-ATATA
1 ATATATATA
13396026 ATA
1 ATA
13396029 AGAAAATATT
Statistics
Matches: 75, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
7 4 0.05
8 22 0.29
9 41 0.55
10 7 0.09
11 1 0.01
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (9 bp):
ATATATATA
Found at i:13395972 original size:20 final size:20
Alignment explanation
Indices: 13395920--13395994 Score: 64
Period size: 20 Copynumber: 3.6 Consensus size: 20
13395910 TATATACATG
13395920 ATAT-ATATATAAGTATAATAT
1 ATATAATATATAA--ATAATAT
**
13395941 -TACTAGATATATATGTAATAT
1 ATA-TA-ATATATAAATAATAT
13395962 ATATAATATATAAATAATAT
1 ATATAATATATAAATAATAT
* *
13395982 ATAGAAAATATAA
1 ATATAATATATAA
13395995 TATTTAAAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
20 26 0.59
21 9 0.20
22 2 0.05
23 7 0.16
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (20 bp):
ATATAATATATAAATAATAT
Found at i:13396028 original size:20 final size:19
Alignment explanation
Indices: 13395956--13396029 Score: 53
Period size: 20 Copynumber: 3.7 Consensus size: 19
13395946 GATATATATG
13395956 TAATATATATAAT-ATATAAA
1 TAATA-ATATAATAATAT-AA
*
13395976 TAAT-ATATAGAAAATATAA
1 TAATAATATA-ATAATATAA
* * *
13395995 TATTTAAAAGAATAATATACA
1 TA-ATAATATAATAATATA-A
13396016 TAATAATATAATAA
1 TAATAATATAATAA
13396030 GAAAATATTA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
18 5 0.12
19 5 0.12
20 25 0.61
21 6 0.15
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (19 bp):
TAATAATATAATAATATAA
Found at i:13396042 original size:24 final size:25
Alignment explanation
Indices: 13395964--13396054 Score: 67
Period size: 25 Copynumber: 3.9 Consensus size: 25
13395954 TGTAATATAT
*
13395964 ATAATATATA-AATAATAT-ATAGA
1 ATAATATATATAATAATATAAAAGA
13395987 A-AATATA-AT-AT--T-TAAAAGA
1 ATAATATATATAATAATATAAAAGA
*
13396006 ATAATATACATAATAATATAATAAGA
1 ATAATATATATAATAATATAA-AAGA
13396032 A-AATAT-TATAATAAGTACTAAAA
1 ATAATATATATAATAA-TA-TAAAA
13396055 ATATCCACAT
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
18 1 0.02
19 6 0.11
20 6 0.11
21 5 0.09
22 8 0.15
23 1 0.02
24 8 0.15
25 12 0.22
26 8 0.15
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (25 bp):
ATAATATATATAATAATATAAAAGA
Found at i:13396308 original size:3 final size:3
Alignment explanation
Indices: 13396294--13396335 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
13396284 AAGTATACTC
* *
13396294 TAA TATA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA CAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13396336 TTAGAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13398900 original size:30 final size:30
Alignment explanation
Indices: 13398866--13398933 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
13398856 TGGCCCAAGA
*
13398866 GTAAATACTCAAAA-TTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTT-AAGGACTAATAGT
*
13398896 GTAAATATGAAAAGTTTAAGGACTAATAGT
1 GTAAATATCAAAAGTTTAAGGACTAATAGT
*
13398926 GAAAATAT
1 GTAAATAT
13398934 TTTAAGGATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (30 bp):
GTAAATATCAAAAGTTTAAGGACTAATAGT
Found at i:13401406 original size:46 final size:46
Alignment explanation
Indices: 13401354--13401626 Score: 395
Period size: 46 Copynumber: 5.9 Consensus size: 46
13401344 GTGTGCTCTT
** *
13401354 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
**
13401400 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
13401446 TGATATGCAATGAATAAGACCATGGTTGAAAGATACCATGGCAACT
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
13401492 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * *
13401538 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * * * *
13401584 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
13401627 TCATGTCAAA
Statistics
Matches: 211, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 210 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:13407294 original size:21 final size:21
Alignment explanation
Indices: 13407270--13407320 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
13407260 TAATACTACA
* *
13407270 TAAATATATATGCAAATATAT
1 TAAAAATATATACAAATATAT
13407291 TAAAAATATATACATATATAATAT
1 TAAAAATATATACA-A-AT-ATAT
13407315 TAAAAA
1 TAAAAA
13407321 AAGTATATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 12 0.48
22 1 0.04
23 2 0.08
24 10 0.40
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (21 bp):
TAAAAATATATACAAATATAT
Found at i:13407322 original size:27 final size:26
Alignment explanation
Indices: 13407292--13407346 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
13407282 CAAATATATT
13407292 AAAAATATATACAT-ATATAATATTAAA
1 AAAAATATATACATAAT-TAATA-TAAA
*
13407319 AAAAGTATATACATAATTAATATAAA
1 AAAAATATATACATAATTAATATAAA
13407345 AA
1 AA
13407347 CATAATATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.23
27 18 0.69
28 2 0.08
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (26 bp):
AAAAATATATACATAATTAATATAAA
Found at i:13407846 original size:15 final size:16
Alignment explanation
Indices: 13407811--13407849 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
13407801 TAATATATAC
13407811 ATAATATATAGAAAAA
1 ATAATATATAGAAAAA
* *
13407827 ATAATATTTA-AAAGA
1 ATAATATATAGAAAAA
13407842 ATAATATA
1 ATAATATA
13407850 CATAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (16 bp):
ATAATATATAGAAAAA
Found at i:13408144 original size:3 final size:3
Alignment explanation
Indices: 13408130--13408171 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
13408120 AAGTATACTC
* *
13408130 TAA TATA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA CAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13408172 TTAGAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13408847 original size:8 final size:8
Alignment explanation
Indices: 13408834--13408858 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13408824 TGGTTGCGGC
13408834 GCAAGTGG
1 GCAAGTGG
13408842 GCAAGTGG
1 GCAAGTGG
13408850 GCAAGTGG
1 GCAAGTGG
13408858 G
1 G
13408859 GGGTAGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:13409575 original size:17 final size:16
Alignment explanation
Indices: 13409549--13409582 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
13409539 AAAAAAATAT
13409549 TCATCATATTAATAACA
1 TCATCATATT-ATAACA
*
13409566 TCATCTTATTATAACA
1 TCATCATATTATAACA
13409582 T
1 T
13409583 TAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (16 bp):
TCATCATATTATAACA
Found at i:13409989 original size:21 final size:19
Alignment explanation
Indices: 13409953--13409999 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
13409943 GTTTAGAAAT
13409953 TATTTTTATCATATTAACAA
1 TATTTTTATCATATTAA-AA
*
13409973 TATTTTTAT-AGTAATTAATA
1 TATTTTTATCA-T-ATTAAAA
13409993 TATTTTT
1 TATTTTT
13410000 TAAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.04
20 18 0.75
21 5 0.21
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.57
Consensus pattern (19 bp):
TATTTTTATCATATTAAAA
Found at i:13410515 original size:14 final size:14
Alignment explanation
Indices: 13410496--13410525 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13410486 ACCATTTTAC
13410496 TATTTTGTTATTAT
1 TATTTTGTTATTAT
13410510 TATTTTGTTATTAT
1 TATTTTGTTATTAT
13410524 TA
1 TA
13410526 CTTAGATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (14 bp):
TATTTTGTTATTAT
Found at i:13412244 original size:14 final size:14
Alignment explanation
Indices: 13412227--13412268 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
13412217 AGGGGAAAAA
13412227 ATAAAATAAATAAT
1 ATAAAATAAATAAT
*
13412241 ATAAAATAAATATT
1 ATAAAATAAATAAT
*
13412255 ATAAAGTAAATAAT
1 ATAAAATAAATAAT
13412269 TTGAATGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (14 bp):
ATAAAATAAATAAT
Found at i:13413433 original size:18 final size:20
Alignment explanation
Indices: 13413394--13413438 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
13413384 ATTTGTGTCG
*
13413394 AAAT-AAAAACAGAATAATA
1 AAATAAAAAACAAAATAATA
13413413 AAATAAAAAACAAAAT-A-A
1 AAATAAAAAACAAAATAATA
13413431 AAATAAAA
1 AAATAAAA
13413439 TAGTCACCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 5 0.21
20 10 0.42
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.13
Consensus pattern (20 bp):
AAATAAAAAACAAAATAATA
Found at i:13419131 original size:14 final size:15
Alignment explanation
Indices: 13419108--13419136 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13419098 AAAAGAAAAT
13419108 AAAATAAAAAATAAA
1 AAAATAAAAAATAAA
13419123 AAAAT-AAAAATAAA
1 AAAATAAAAAATAAA
13419137 GAACACATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAATAAAAAATAAA
Found at i:13425261 original size:28 final size:28
Alignment explanation
Indices: 13425230--13425288 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
13425220 AATACCAGAT
13425230 AAACTACCATCAATAGATTAATAATGTA
1 AAACTACCATCAATAGATTAATAATGTA
*
13425258 AAACTACCATCAATGGATTAATAATGTA
1 AAACTACCATCAATAGATTAATAATGTA
13425286 AAA
1 AAA
13425289 TAATTAGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (28 bp):
AAACTACCATCAATAGATTAATAATGTA
Found at i:13429188 original size:24 final size:24
Alignment explanation
Indices: 13429142--13429188 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
13429132 TGTCATTTTA
* * * *
13429142 TTTTAAAATTTTTTTATATAAGTT
1 TTTTAAAAATATTTTAAAAAAGTT
13429166 TTTTAAAAATATTTTAAAAAAGT
1 TTTTAAAAATATTTTAAAAAAGT
13429189 GATGAGACTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (24 bp):
TTTTAAAAATATTTTAAAAAAGTT
Found at i:13431419 original size:48 final size:48
Alignment explanation
Indices: 13431344--13431568 Score: 236
Period size: 48 Copynumber: 4.7 Consensus size: 48
13431334 AGGGTAAATT
* *
13431344 GCCGATGCTATGTCCTAGACATGGTCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAG
* * * *** *
13431392 GCCGATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCGCCTC-ATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGA-G
* * *
13431440 GCCGATGCCATGTCCCAGACATGGTATTACATTGGCTCACATGTTGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAG
* * * * * *
13431488 GCCGATGCCATGTCCCAGACATGTTTTTACACTGGCTCTCATATTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAG
* * * *
13431536 GCCTACGTCATGTCCCAGGCATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
13431569 AGCACACAAT
Statistics
Matches: 144, Mismatches: 31, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
47 1 0.01
48 142 0.99
49 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAG
Found at i:13431505 original size:96 final size:96
Alignment explanation
Indices: 13431341--13431527 Score: 295
Period size: 96 Copynumber: 1.9 Consensus size: 96
13431331 AAGAGGGTAA
* * *
13431341 ATTGCCGATGCTATGTCCTAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTC
1 ATTGCCGATGCCATGTCCCAGACATGGTATTACACTGGCTCACATGTCGAGGCCGATGCCATGTC
13431406 CCAGACATAG-TCTTACACTAGCTCTCGCCTC
66 CCAGACAT-GTTCTTACACTAGCTCTCGCCTC
* *
13431437 ATTGCCGATGCCATGTCCCAGACATGGTATTACATTGGCTCACATGTTGAGGCCGATGCCATGTC
1 ATTGCCGATGCCATGTCCCAGACATGGTATTACACTGGCTCACATGTCGAGGCCGATGCCATGTC
* *
13431502 CCAGACATGTTTTTACACTGGCTCTC
66 CCAGACATGTTCTTACACTAGCTCTC
13431528 ATATTGTGGC
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 1 0.01
96 82 0.99
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.28
Consensus pattern (96 bp):
ATTGCCGATGCCATGTCCCAGACATGGTATTACACTGGCTCACATGTCGAGGCCGATGCCATGTC
CCAGACATGTTCTTACACTAGCTCTCGCCTC
Found at i:13431548 original size:96 final size:96
Alignment explanation
Indices: 13431344--13431568 Score: 272
Period size: 96 Copynumber: 2.3 Consensus size: 96
13431334 AGGGTAAATT
* * *
13431344 GCCGATGCTATGTCCTAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCA
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCA
* * *
13431409 GACATAGTCTTACACTAGCTCTCGCCTCATT
66 GACATAGTCTTACACTAGCTCTCACATCATG
* * * *
13431440 GCCGATGCCATGTCCCAGACATGGTATTACATTGGCTCACATGTTGAGGCCGATGCCATGTCCCA
1 GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCA
* * * **
13431505 GACAT-GTTTTTACACTGGCTCTCATATTGTG
66 GACATAG-TCTTACACTAGCTCTCACATCATG
* * *
13431536 GCCTACGTCATGTCCCAGGCATGGTCTTACACT
1 GCCGACGCCATGTCCCAGACATGGTCTTACACT
13431569 AGCACACAAT
Statistics
Matches: 109, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
95 1 0.01
96 108 0.99
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.28
Consensus pattern (96 bp):
GCCGACGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGGCCGATGCCATGTCCCA
GACATAGTCTTACACTAGCTCTCACATCATG
Found at i:13431613 original size:30 final size:30
Alignment explanation
Indices: 13431577--13431636 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
13431567 CTAGCACACA
13431577 ATCAATGCTGATGTCAATTCCAAACATGGT
1 ATCAATGCTGATGTCAATTCCAAACATGGT
13431607 ATCAATGCTGATGTCAATTCCAAACATGGT
1 ATCAATGCTGATGTCAATTCCAAACATGGT
13431637 CTTACACTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (30 bp):
ATCAATGCTGATGTCAATTCCAAACATGGT
Found at i:13431686 original size:48 final size:46
Alignment explanation
Indices: 13431616--13431733 Score: 128
Period size: 38 Copynumber: 2.7 Consensus size: 46
13431606 TATCAATGCT
*
13431616 GATGTCA-ATTCCAAACATGGTCTTACACTGGCTTTCATAACATTTTC
1 GATGTCATGTTCCAAACATGGTCTTACACTGGC--TCATAACATTTTC
13431663 GATGTCATGTTCCAAACATGG---T---CT--CTCATAACATTTTC
1 GATGTCATGTTCCAAACATGGTCTTACACTGGCTCATAACATTTTC
* *
13431701 GATGTCATGTTCCTAATATGGTCTTACACTGGC
1 GATGTCATGTTCCAAACATGGTCTTACACTGGC
13431734 ACACGAAATG
Statistics
Matches: 59, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
38 32 0.54
40 1 0.02
41 1 0.02
42 2 0.03
44 2 0.03
45 1 0.02
46 1 0.02
47 7 0.12
48 12 0.20
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.36
Consensus pattern (46 bp):
GATGTCATGTTCCAAACATGGTCTTACACTGGCTCATAACATTTTC
Found at i:13431701 original size:38 final size:38
Alignment explanation
Indices: 13431650--13431724 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
13431640 ACACTGGCTT
13431650 TCATAACATTTTCGATGTCATGTTCCAAACATGGTCTC
1 TCATAACATTTTCGATGTCATGTTCCAAACATGGTCTC
* *
13431688 TCATAACATTTTCGATGTCATGTTCCTAATATGGTCT
1 TCATAACATTTTCGATGTCATGTTCCAAACATGGTCT
13431725 TACACTGGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.40
Consensus pattern (38 bp):
TCATAACATTTTCGATGTCATGTTCCAAACATGGTCTC
Found at i:13436146 original size:15 final size:15
Alignment explanation
Indices: 13436126--13436154 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
13436116 CGTGTTAATT
13436126 AATAATATTGAAAAA
1 AATAATATTGAAAAA
13436141 AATAATATTGAAAA
1 AATAATATTGAAAA
13436155 TTATCTTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AATAATATTGAAAAA
Found at i:13443272 original size:12 final size:12
Alignment explanation
Indices: 13443255--13443280 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13443245 GTGAATTGAG
13443255 TGGAAATAACCA
1 TGGAAATAACCA
13443267 TGGAAATAACCA
1 TGGAAATAACCA
13443279 TG
1 TG
13443281 TAAGCATGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (12 bp):
TGGAAATAACCA
Found at i:13447599 original size:227 final size:227
Alignment explanation
Indices: 13447204--13447888 Score: 1345
Period size: 227 Copynumber: 3.0 Consensus size: 227
13447194 GATATCGAAA
*
13447204 TTGTTAGTATTACAACCTAGGGTCATTTTGTAAAGCCATGCTCGAATGGTTTACGCCATTAAAAC
1 TTGTTAGTATTACAACCTAGGGTCATTTTGCAAAGCCATGCTCGAATGGTTTACGCCATTAAAAC
13447269 CATTAAAGAAATCGGTCTAGAGCCGGCAGAATCTAGGTTTATACATGCTCTTAGGGTTATTTGTT
66 CATTAAAGAAATCGGTCTAGAGCCGGCAGAATCTAGGTTTATACATGCTCTTAGGGTTATTTGTT
*
13447334 CAGTTAGCAACGCTAATTGGAAGAAACAAGTTGAAGCATTTATGAGCCTAGGATGGAGTAAAGAG
131 CAGTTAGCAACGCTAATTGGAAGAAAAAAGTTGAAGCATTTATGAGCCTAGGATGGAGTAAAGAG
13447399 GAAATTTTTATTACTTTAAGGAAATACCCTCT
196 GAAATTTTTATTACTTTAAGGAAATACCCTCT
13447431 TTGTTAGTATTACAACCTAGGGTCATTTTGCAAAGCCATGCTCGAATGGTTTACGCCATTAAAAC
1 TTGTTAGTATTACAACCTAGGGTCATTTTGCAAAGCCATGCTCGAATGGTTTACGCCATTAAAAC
13447496 CATTAAAGAAATCGGTCTAGAGCCGGCAGAATCTAGGTTTATACATGCTCTTAGGGTTATTTGTT
66 CATTAAAGAAATCGGTCTAGAGCCGGCAGAATCTAGGTTTATACATGCTCTTAGGGTTATTTGTT
13447561 CAGTTAGCAACGCTAATTGGAAGAAAAAAGTTGAAGCATTTATGAGCCTAGGATGGAGTAAAGAG
131 CAGTTAGCAACGCTAATTGGAAGAAAAAAGTTGAAGCATTTATGAGCCTAGGATGGAGTAAAGAG
13447626 GAAATTTTTATTACTTTAAGGAAATACCCTCT
196 GAAATTTTTATTACTTTAAGGAAATACCCTCT
13447658 TTGTTAGTATTACAACCTAGGGTCATTTTGCAAAGCCATGCTCGAATGGTTTACGCCATTAAAAC
1 TTGTTAGTATTACAACCTAGGGTCATTTTGCAAAGCCATGCTCGAATGGTTTACGCCATTAAAAC
13447723 CATTAAAGAAATCGGTCTAGAGCCGGCAGAATCTAGGTTTATACATGCTCTTAGGGTTATTTGTT
66 CATTAAAGAAATCGGTCTAGAGCCGGCAGAATCTAGGTTTATACATGCTCTTAGGGTTATTTGTT
13447788 CAGTTAGCAACGCTAATTGGAAG-AAAAAGTTGAAGCATTTATGAGCCTAGGATGGAGTAAAGAG
131 CAGTTAGCAACGCTAATTGGAAGAAAAAAGTTGAAGCATTTATGAGCCTAGGATGGAGTAAAGAG
13447852 GAAATTTTTATTACTTTAAGGAAATACCCTCT
196 GAAATTTTTATTACTTTAAGGAAATACCCTCT
13447884 TTGTT
1 TTGTT
13447889 TAGCTTGTTC
Statistics
Matches: 456, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
226 78 0.17
227 378 0.83
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.31
Consensus pattern (227 bp):
TTGTTAGTATTACAACCTAGGGTCATTTTGCAAAGCCATGCTCGAATGGTTTACGCCATTAAAAC
CATTAAAGAAATCGGTCTAGAGCCGGCAGAATCTAGGTTTATACATGCTCTTAGGGTTATTTGTT
CAGTTAGCAACGCTAATTGGAAGAAAAAAGTTGAAGCATTTATGAGCCTAGGATGGAGTAAAGAG
GAAATTTTTATTACTTTAAGGAAATACCCTCT
Found at i:13457790 original size:20 final size:19
Alignment explanation
Indices: 13457762--13457811 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
13457752 ATATATCCTT
*
13457762 ATTTTATTTATTTCTAATCA
1 ATTTGATTTATTT-TAATCA
13457782 ATTTGATTTGATTTTAATCA
1 ATTTGATTT-ATTTTAATCA
*
13457802 AATTGATTTA
1 ATTTGATTTA
13457812 ATTACCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 22 0.81
21 4 0.15
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (19 bp):
ATTTGATTTATTTTAATCA
Found at i:13458860 original size:20 final size:21
Alignment explanation
Indices: 13458835--13458873 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
13458825 TAAATATAAT
13458835 ATTAATAT-TTTTAAAATTCA
1 ATTAATATATTTTAAAATTCA
13458855 ATTAATATATTTTAAAATT
1 ATTAATATATTTTAAAATT
13458874 TAGTATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTAATATATTTTAAAATTCA
Found at i:13460524 original size:15 final size:15
Alignment explanation
Indices: 13460504--13460535 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13460494 GATATTGAGA
13460504 TTTTTTTT--AAGAT
1 TTTTTTTTAAAAGAT
13460517 TTTTTTTTAAAAGAT
1 TTTTTTTTAAAAGAT
13460532 TTTT
1 TTTT
13460536 AAGTTCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
15 9 0.53
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (15 bp):
TTTTTTTTAAAAGAT
Found at i:13460575 original size:15 final size:15
Alignment explanation
Indices: 13460555--13460602 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
13460545 TTGAGTCTAA
* * *
13460555 AAAAAATTCAAGCCT
1 AAAAAACTCAAACCC
13460570 AAAAAACTCAAACCC
1 AAAAAACTCAAACCC
13460585 AAAAAAC-CTAAACCC
1 AAAAAACTC-AAACCC
13460600 AAA
1 AAA
13460603 CACAAGCCCG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 1 0.03
15 28 0.97
ACGTcount: A:0.60, C:0.27, G:0.02, T:0.10
Consensus pattern (15 bp):
AAAAAACTCAAACCC
Found at i:13462874 original size:15 final size:15
Alignment explanation
Indices: 13462850--13462905 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
13462840 ACCTTCGGCA
* *
13462850 TCATCTTCATCCTTG
1 TCATCGTCATCATTG
*
13462865 TCATCGTCATCATCG
1 TCATCGTCATCATTG
* *
13462880 TCGTCGTCATCGTTG
1 TCATCGTCATCATTG
*
13462895 TCGTCGTCATC
1 TCATCGTCATC
13462906 TTCAACTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.12, C:0.32, G:0.16, T:0.39
Consensus pattern (15 bp):
TCATCGTCATCATTG
Found at i:13463905 original size:24 final size:25
Alignment explanation
Indices: 13463878--13463929 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
13463868 AATAGATGCC
13463878 TTAGCATCTCAATAACTC-AAGTGT
1 TTAGCATCTCAATAACTCTAAGTGT
*
13463902 TTAGTATCTCAATAACTCTTAAGTGT
1 TTAGCATCTCAATAACTC-TAAGTGT
13463928 TT
1 TT
13463930 TTTTTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 17 0.68
26 8 0.32
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (25 bp):
TTAGCATCTCAATAACTCTAAGTGT
Found at i:13466864 original size:17 final size:15
Alignment explanation
Indices: 13466829--13466859 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13466819 TTTAAAATTT
13466829 ATAAAATATTTAAAA
1 ATAAAATATTTAAAA
13466844 ATAAAATATTTAAAA
1 ATAAAATATTTAAAA
13466859 A
1 A
13466860 AATAAGTATA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAAAATATTTAAAA
Found at i:13467717 original size:19 final size:20
Alignment explanation
Indices: 13467695--13467739 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
13467685 TTTTTTAAAT
*
13467695 ATTTTTATAAA-TT-TTTTG
1 ATTTTTAAAAAGTTATTTTG
13467713 AATTTTTAAAAAGTTATTTTG
1 -ATTTTTAAAAAGTTATTTTG
13467734 ATTTTT
1 ATTTTT
13467740 TTTTAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 10 0.43
20 8 0.35
21 5 0.22
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (20 bp):
ATTTTTAAAAAGTTATTTTG
Found at i:13467853 original size:24 final size:24
Alignment explanation
Indices: 13467821--13467866 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
13467811 TATTTAAGTT
* *
13467821 ACTTGAACTCTAAAATTCAAATTG
1 ACTTAAACTCAAAAATTCAAATTG
13467845 ACTTAAACTCAAAAATTCAAAT
1 ACTTAAACTCAAAAATTCAAAT
13467867 ATTTCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.30
Consensus pattern (24 bp):
ACTTAAACTCAAAAATTCAAATTG
Found at i:13469887 original size:14 final size:14
Alignment explanation
Indices: 13469848--13469890 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
13469838 AATATTAAAT
* *
13469848 TTTATCAAAATATT
1 TTTATAAAAATATA
13469862 TTATATTAAAAATATA
1 TT-TA-TAAAAATATA
13469878 TTTATAAAAATAT
1 TTTATAAAAATAT
13469891 TTCATTATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 11 0.44
15 4 0.16
16 10 0.40
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTATAAAAATATA
Found at i:13474675 original size:28 final size:28
Alignment explanation
Indices: 13474628--13474696 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
13474618 ATTTAAACCC
13474628 TAGGGGT-ATATT-GGTAATTTTGCTCTT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
13474655 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
13474683 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
13474697 TGATCTACGC
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 9 0.22
28 31 0.77
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:13476344 original size:20 final size:20
Alignment explanation
Indices: 13476321--13476358 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13476311 CACATCCAAA
*
13476321 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
13476341 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
13476359 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:13482667 original size:28 final size:28
Alignment explanation
Indices: 13482620--13482688 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
13482610 ATTTAAACCC
13482620 TAGGGGT-ATATT-GGTAATTTTGCTCTT
1 TAGGGGTAAT-TTCGGTAATTTTGCTCTT
13482647 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
13482675 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
13482689 TGATCTACGC
Statistics
Matches: 40, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
27 9 0.22
28 31 0.77
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.45
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:13484332 original size:20 final size:20
Alignment explanation
Indices: 13484309--13484346 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13484299 CACATCCAAA
*
13484309 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
13484329 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
13484347 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:13493204 original size:18 final size:18
Alignment explanation
Indices: 13493181--13493219 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
13493171 ATCTTTCATG
13493181 AGTTTGGAAACCAAATTA
1 AGTTTGGAAACCAAATTA
13493199 AGTTTGGAAACCAAATTA
1 AGTTTGGAAACCAAATTA
13493217 AGT
1 AGT
13493220 CTTTTCGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (18 bp):
AGTTTGGAAACCAAATTA
Found at i:13505570 original size:2 final size:2
Alignment explanation
Indices: 13505565--13505595 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13505555 ATGATGTGTG
13505565 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13505596 GTGAAAAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13519238 original size:10 final size:10
Alignment explanation
Indices: 13519225--13519257 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
13519215 ATTATTTTTA
13519225 ATTATATATT
1 ATTATATATT
13519235 ATTAT-TACTT
1 ATTATATA-TT
13519245 ATTATATATT
1 ATTATATATT
13519255 ATT
1 ATT
13519258 TTTCTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 2 0.10
10 17 0.81
11 2 0.10
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (10 bp):
ATTATATATT
Found at i:13519239 original size:20 final size:20
Alignment explanation
Indices: 13519214--13519274 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
13519204 TTGTTATAAG
13519214 TATTATTTTTAATTATATAT
1 TATTATTTTTAATTATATAT
*
13519234 TATTATTACTT-ATTATATAT
1 TATTATT-TTTAATTATATAT
13519254 TATT-TTTCTTAAATTAT-TAT
1 TATTATTT-TT-AATTATATAT
13519274 T
1 T
13519275 TTACATCTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
19 4 0.11
20 24 0.69
21 7 0.20
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTATTTTTAATTATATAT
Found at i:13519239 original size:37 final size:32
Alignment explanation
Indices: 13519198--13519277 Score: 79
Period size: 37 Copynumber: 2.3 Consensus size: 32
13519188 ATATTATAAA
*
13519198 ATTATTTTGTTATAAGTATTATTTTTAATTATATATT
1 ATTATTTTATTAT-A-TATTATTTTT-ATTA-A-ATT
*
13519235 ATTATTACTTATTATATATTATTTTTCTTAAATT
1 ATTATT--TTATTATATATTATTTTTATTAAATT
13519269 ATTATTTTA
1 ATTATTTTA
13519278 CATCTCTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
32 3 0.08
34 9 0.23
35 1 0.03
36 3 0.08
37 16 0.41
38 1 0.03
39 6 0.15
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (32 bp):
ATTATTTTATTATATATTATTTTTATTAAATT
Found at i:13519335 original size:44 final size:44
Alignment explanation
Indices: 13519224--13519338 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 44
13519214 TATTATTTTT
*
13519224 AATTATATATTATT-ATTACTTAT-TATAT-ATTATTTTTCTTA
1 AATTATATATTATTAATTACTTATATATATAATTATTTTTCATA
*
13519265 AATTAT-TATT-TTACATCT-CTTTTATATATAATTATATTTTCATA
1 AATTATATATTATTA-AT-TACTTATATATATAATTAT-TTTTCATA
*
13519309 TATTATAT-TTATTAATTACTTATATATATA
1 AATTATATATTATTAATTACTTATATATATA
13519339 TATTGTTTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
39 2 0.03
40 4 0.07
41 12 0.20
42 6 0.10
43 6 0.10
44 27 0.44
45 4 0.07
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (44 bp):
AATTATATATTATTAATTACTTATATATATAATTATTTTTCATA
Found at i:13519439 original size:18 final size:19
Alignment explanation
Indices: 13519416--13519463 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
13519406 ATATAATCTT
13519416 TATTATGTTTCA-TTTTTA
1 TATTATGTTTCATTTTTTA
* *
13519434 TATTATCTATTTATTTTTTA
1 TATTATGT-TTCATTTTTTA
13519454 TATATATGTT
1 TAT-TATGTT
13519464 ATGTATATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 7 0.29
19 3 0.12
20 10 0.42
21 4 0.17
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (19 bp):
TATTATGTTTCATTTTTTA
Found at i:13520029 original size:16 final size:17
Alignment explanation
Indices: 13520008--13520041 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13519998 TTCTTTTTTG
*
13520008 CTTTATAT-GTATTATT
1 CTTTATATCGTAGTATT
13520024 CTTTATATCGTAGTATT
1 CTTTATATCGTAGTATT
13520041 C
1 C
13520042 ATTTTTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTTATATCGTAGTATT
Found at i:13520894 original size:23 final size:22
Alignment explanation
Indices: 13520827--13520901 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
13520817 CCTGATCAGT
** *
13520827 ATACGACACATAAAGTGCCTAA
1 ATACGACACACGAGGTGCCTAA
13520849 A-ACGACACACGAGGTGCCT-A
1 ATACGACACACGAGGTGCCTAA
*
13520869 ATACAACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCT-AA
13520892 ATACGACACA
1 ATACGACACA
13520902 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.04
21 32 0.71
22 1 0.02
23 10 0.22
ACGTcount: A:0.41, C:0.27, G:0.19, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTAA
Found at i:13520913 original size:23 final size:22
Alignment explanation
Indices: 13520827--13520911 Score: 84
Period size: 21 Copynumber: 3.9 Consensus size: 22
13520817 CCTGATCAGT
*
13520827 ATACGACACATAAAGTGCCTAA
1 ATACGACACACAAAGTGCCTAA
* *
13520849 A-ACGACACACGAGGTGCCT-A
1 ATACGACACACAAAGTGCCTAA
* * *
13520869 ATACAACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCT-AA
*
13520892 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
13520912 GATCGGTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
20 2 0.04
21 32 0.62
22 1 0.02
23 17 0.33
ACGTcount: A:0.40, C:0.26, G:0.19, T:0.15
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTAA
Found at i:13521312 original size:15 final size:14
Alignment explanation
Indices: 13521288--13521327 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
13521278 CATATATTAT
13521288 ATAATTCAATCAAA
1 ATAATTCAATCAAA
*
13521302 ATAATTTCAATCAAT
1 ATAA-TTCAATCAAA
13521317 ATAAATTCAAT
1 AT-AATTCAAT
13521328 AAATTCATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 17 0.74
16 2 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAATTCAATCAAA
Found at i:13526446 original size:27 final size:28
Alignment explanation
Indices: 13526409--13526548 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
13526399 AGCATGGCTG
* *
13526409 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
13526435 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
13526463 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
13526490 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
13526517 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
13526544 CCAGA
1 CCAGA
13526549 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:13528204 original size:26 final size:25
Alignment explanation
Indices: 13528168--13528303 Score: 200
Period size: 26 Copynumber: 5.2 Consensus size: 25
13528158 CATGAAATTC
*
13528168 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCTA
*
13528194 TTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCTA
*
13528220 TTTTCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
13528246 TTATCATTGAACATTTACCTAACCTA
1 TTATCA-TGAACATTTACCTAACCTA
13528272 TTATCATTGAACATTTACCTAACCTA
1 TTATCA-TGAACATTTACCTAACCTA
13528298 TTATCA
1 TTATCA
13528304 ATTTGTACCA
Statistics
Matches: 105, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
26 103 0.98
27 2 0.02
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.36
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCTA
Found at i:13529636 original size:18 final size:18
Alignment explanation
Indices: 13529615--13529658 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
13529605 AATAATACTA
*
13529615 ATATATATTAGAATATAT
1 ATATATATTAGAATAGAT
*
13529633 ATATATAATAGAATAGAT
1 ATATATATTAGAATAGAT
*
13529651 AAATATAT
1 ATATATAT
13529659 AATAGAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.39
Consensus pattern (18 bp):
ATATATATTAGAATAGAT
Found at i:13529656 original size:20 final size:19
Alignment explanation
Indices: 13529580--13529671 Score: 82
Period size: 20 Copynumber: 4.6 Consensus size: 19
13529570 AAATAAATGA
13529580 AATAGAAATAGATAAATAATAT
1 AATAG-AATA-ATAAAT-ATAT
13529602 AA-A-AATAATACTAATATAT
1 AATAGAATAATA--AATATAT
* *
13529621 ATTAGAAT-ATATATATAT
1 AATAGAATAATAAATATAT
13529639 AATAGAATAGATAAATATAT
1 AATAGAATA-ATAAATATAT
13529659 AATAGAATTAATA
1 AATAGAA-TAATA
13529672 TTCTAACATC
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
18 16 0.27
19 9 0.15
20 26 0.44
21 6 0.10
22 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.33
Consensus pattern (19 bp):
AATAGAATAATAAATATAT
Found at i:13530032 original size:24 final size:21
Alignment explanation
Indices: 13529998--13530086 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
13529988 ACAAAAAAGA
*
13529998 TTTGTCTAAGTCACTTCGTTTCTT
1 TTTGTCCAAGTCACTTC---TCTT
*
13530022 TTTGTCCAAGTTACTTCTCTT
1 TTTGTCCAAGTCACTTCTCTT
**
13530043 TTTGTCCAAGTTGCTTCTCTT
1 TTTGTCCAAGTCACTTCTCTT
* *
13530064 TTTGTCTAACTCACTTC-CTT
1 TTTGTCCAAGTCACTTCTCTT
13530084 TTT
1 TTT
13530087 TCTTTGTGAG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 6 0.10
21 37 0.64
24 15 0.26
ACGTcount: A:0.12, C:0.24, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTGTCCAAGTCACTTCTCTT
Found at i:13530084 original size:20 final size:21
Alignment explanation
Indices: 13530018--13530086 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
13530008 TCACTTCGTT
13530018 TCTTTTTGTCCAAGTTACTTC
1 TCTTTTTGTCCAAGTTACTTC
*
13530039 TCTTTTTGTCCAAGTTGCTTC
1 TCTTTTTGTCCAAGTTACTTC
* * *
13530060 TCTTTTTGTCTAACTCACTTC
1 TCTTTTTGTCCAAGTTACTTC
13530081 -CTTTTT
1 TCTTTTT
13530087 TCTTTGTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.14
21 37 0.86
ACGTcount: A:0.12, C:0.25, G:0.09, T:0.55
Consensus pattern (21 bp):
TCTTTTTGTCCAAGTTACTTC
Found at i:13531134 original size:21 final size:20
Alignment explanation
Indices: 13531104--13531170 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
13531094 CTCACAAAGA
* * *
13531104 AAAAAGGAAGTGAGTTAGAC
1 AAAAAGGAAGTAACTTGGAC
*
13531124 AAAAAGTGAAGCAACTTGGAC
1 AAAAAG-GAAGTAACTTGGAC
13531145 AAAAAGAGAAGTAACTTGGAC
1 AAAAAG-GAAGTAACTTGGAC
13531166 AAAAA
1 AAAAA
13531171 CAAACGAAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 6 0.15
21 34 0.85
ACGTcount: A:0.54, C:0.09, G:0.24, T:0.13
Consensus pattern (20 bp):
AAAAAGGAAGTAACTTGGAC
Found at i:13531148 original size:20 final size:21
Alignment explanation
Indices: 13531121--13531170 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
13531111 AAGTGAGTTA
*
13531121 GACAAAAAGTGAAGCAACTTG
1 GACAAAAAGAGAAGCAACTTG
*
13531142 GACAAAAAGAGAAGTAACTTG
1 GACAAAAAGAGAAGCAACTTG
13531163 GACAAAAA
1 GACAAAAA
13531171 CAAACGAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.54, C:0.12, G:0.22, T:0.12
Consensus pattern (21 bp):
GACAAAAAGAGAAGCAACTTG
Found at i:13531185 original size:24 final size:22
Alignment explanation
Indices: 13531131--13531192 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 22
13531121 GACAAAAAGT
* *
13531131 GAAGCAACTTGGAC-AAAAAGA
1 GAAGTAACTTGGACAAAAAAAA
13531152 GAAGTAACTTGGACAAAAACAAA
1 GAAGTAACTTGGACAAAAA-AAA
* *
13531175 CGAAGTGACTTAGACAAA
1 -GAAGTAACTTGGACAAA
13531193 TCTTTTTTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 13 0.38
22 4 0.12
23 2 0.06
24 15 0.44
ACGTcount: A:0.52, C:0.15, G:0.21, T:0.13
Consensus pattern (22 bp):
GAAGTAACTTGGACAAAAAAAA
Found at i:13531322 original size:14 final size:14
Alignment explanation
Indices: 13531303--13531329 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13531293 CTTAGTTCTG
13531303 TTTTTGTTTTTGTT
1 TTTTTGTTTTTGTT
13531317 TTTTTGTTTTTGT
1 TTTTTGTTTTTGT
13531330 CCAAACTCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (14 bp):
TTTTTGTTTTTGTT
Found at i:13531725 original size:13 final size:13
Alignment explanation
Indices: 13531709--13531733 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13531699 GTTTACCTAT
13531709 TTTGTTTCTTTTC
1 TTTGTTTCTTTTC
13531722 TTTGTTTCTTTT
1 TTTGTTTCTTTT
13531734 ATATATATAA
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:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTGTTTCTTTTC
Found at i:13534182 original size:46 final size:46
Alignment explanation
Indices: 13533909--13534182 Score: 369
Period size: 46 Copynumber: 6.0 Consensus size: 46
13533899 TTTGACATGA
* * * * *
13533909 TGCCATAGTGTCTTTCAACTATGGTCTTAC-TCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACAT-A-TTTCATATCAGGT
* *
13533955 TGCCATGGTATCTTTCAACCATGGTCTTATTC-T-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTA--CATATTTCATATCAGGT
* * *
13534001 TGCCATGGTATCTTTCAATCATGGTCTTA-TTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACAT-ATTTCATATCAGGT
13534047 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGT
*
13534093 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGT
13534139 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAG
13534183 AGAGCACACT
Statistics
Matches: 210, Mismatches: 11, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
44 1 0.00
45 4 0.02
46 202 0.96
47 1 0.00
48 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAGGT
Found at i:13536045 original size:11 final size:11
Alignment explanation
Indices: 13536029--13536076 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
13536019 CTTTATGTAC
13536029 TAATAAAATAA
1 TAATAAAATAA
*
13536040 TAATAAAATATC
1 TAATAAAATA-A
* *
13536052 TTATGAAAATAT
1 TAAT-AAAATAA
13536064 TAATAAAATAA
1 TAATAAAATAA
13536075 TA
1 TA
13536077 TTTATCTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
11 18 0.60
12 6 0.20
13 6 0.20
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:13541306 original size:18 final size:17
Alignment explanation
Indices: 13541283--13541329 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
13541273 ATTATCTTCT
13541283 TTCATTAAGTTTTTAAGA
1 TTCATT-AGTTTTTAAGA
*
13541301 TTCATTTGTTTTTAAGA
1 TTCATTAGTTTTTAAGA
*
13541318 TTCATTTGTTTT
1 TTCATTAGTTTT
13541330 CCTTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 22 0.79
18 6 0.21
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (17 bp):
TTCATTAGTTTTTAAGA
Found at i:13541329 original size:16 final size:17
Alignment explanation
Indices: 13541291--13541329 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
13541281 CTTTCATTAA
13541291 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTT
13541308 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTT
13541325 GTTTT
1 GTTTT
13541330 CCTTTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.62
Consensus pattern (17 bp):
GTTTTTAAGATTCATTT
Found at i:13544217 original size:15 final size:15
Alignment explanation
Indices: 13544197--13544229 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
13544187 TTCAAAATAT
13544197 CCAAAGATTATAAAA
1 CCAAAGATTATAAAA
13544212 CCAAAGATTATAAAA
1 CCAAAGATTATAAAA
13544227 CCA
1 CCA
13544230 CCTGCTCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.58, C:0.18, G:0.06, T:0.18
Consensus pattern (15 bp):
CCAAAGATTATAAAA
Found at i:13553582 original size:41 final size:41
Alignment explanation
Indices: 13553521--13553603 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
13553511 TAGCAGGAAA
*
13553521 TACTGTCATGCATTCAAAATTCAAATATGTTGAATTGGATT
1 TACTGCCATGCATTCAAAATTCAAATATGTTGAATTGGATT
*
13553562 TACTGCCATGCATTCGAAATTCAAATATGTTGAATTGGATT
1 TACTGCCATGCATTCAAAATTCAAATATGTTGAATTGGATT
13553603 T
1 T
13553604 GTTTTTTGTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.39
Consensus pattern (41 bp):
TACTGCCATGCATTCAAAATTCAAATATGTTGAATTGGATT
Found at i:13562881 original size:23 final size:22
Alignment explanation
Indices: 13562827--13562886 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
13562817 AAATTATAAA
13562827 AAAAATTCAAACAATAGAAAATT
1 AAAAATTCAAA-AATAGAAAATT
*
13562850 CAAAATTCAAAAATA-AAAATAT
1 AAAAATTCAAAAATAGAAAAT-T
13562872 AAAAAGTTCATAAAA
1 AAAAA-TTCA-AAAA
13562887 ATTCAAAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 5 0.16
22 9 0.28
23 14 0.44
24 4 0.12
ACGTcount: A:0.67, C:0.08, G:0.03, T:0.22
Consensus pattern (22 bp):
AAAAATTCAAAAATAGAAAATT
Found at i:13570225 original size:29 final size:28
Alignment explanation
Indices: 13570185--13570258 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 28
13570175 CTAATTTAGT
* *
13570185 AAAA-ATAAAAATATATTTTATCTCTTTA
1 AAAATATAAAAATATATTTAATAT-TTTA
*
13570213 AAAATATAAAAATTTAATTTAATATTTTA
1 AAAATATAAAAATAT-ATTTAATATTTTA
*
13570242 AAAATTATATAAATATA
1 AAAA-TATAAAAATATA
13570259 ATATATTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 4 0.11
29 18 0.47
30 16 0.42
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (28 bp):
AAAATATAAAAATATATTTAATATTTTA
Found at i:13570858 original size:28 final size:29
Alignment explanation
Indices: 13570822--13570881 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
13570812 ATTATAACTT
13570822 ATTTTAATATTT-TAA-T-ATATAATATTA
1 ATTTTAATATTTCTAAGTAAT-TAATATTA
13570849 ATTTTAAATATTTCTAAGTAATTAATATTA
1 ATTTT-AATATTTCTAAGTAATTAATATTA
13570879 ATT
1 ATT
13570882 ATTTATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 5 0.17
28 7 0.24
29 3 0.10
30 12 0.41
31 2 0.07
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
ATTTTAATATTTCTAAGTAATTAATATTA
Found at i:13570928 original size:18 final size:19
Alignment explanation
Indices: 13570887--13570928 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
13570877 TAATTATTTA
*
13570887 TTAAATTTAATTAGAATAT
1 TTAAACTTAATTAGAATAT
* *
13570906 ATAAACTTATTTA-AATAT
1 TTAAACTTAATTAGAATAT
13570924 TTAAA
1 TTAAA
13570929 TATAATAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
TTAAACTTAATTAGAATAT
Found at i:13572168 original size:26 final size:26
Alignment explanation
Indices: 13572139--13572246 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
13572129 TGGTACAAAT
13572139 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
13572165 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13572191 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
13572217 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13572243 TGAT
1 TGAT
13572247 GGGCATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:13573753 original size:26 final size:26
Alignment explanation
Indices: 13573724--13573776 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
13573714 TTTACAGTTT
13573724 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
13573750 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
13573776 T
1 T
13573777 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:13579151 original size:26 final size:26
Alignment explanation
Indices: 13579122--13579229 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
13579112 TGGTACAAAT
13579122 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
13579148 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13579174 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
13579200 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13579226 TGAT
1 TGAT
13579230 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:13584210 original size:54 final size:55
Alignment explanation
Indices: 13584151--13584261 Score: 190
Period size: 54 Copynumber: 2.0 Consensus size: 55
13584141 TGGTAGCCGA
*
13584151 TGCTCTAAGTCGTAGAACTGTATCTGA-TTGAGAGCAATGTTTGCTCG-TTGAGTC
1 TGCTCTAAGTCGTAGAACAGTATCTGATTTGAGAGCAATGTTT-CTCGTTTGAGTC
13584205 TGCTCTAAGTCGTAGAACAGTATCTGATTTGAGAGCAATGTTTCTCGTTTGAGTC
1 TGCTCTAAGTCGTAGAACAGTATCTGATTTGAGAGCAATGTTTCTCGTTTGAGTC
13584260 TG
1 TG
13584262 TATGATGATG
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
54 30 0.56
55 24 0.44
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (55 bp):
TGCTCTAAGTCGTAGAACAGTATCTGATTTGAGAGCAATGTTTCTCGTTTGAGTC
Found at i:13589725 original size:64 final size:63
Alignment explanation
Indices: 13589644--13589826 Score: 183
Period size: 64 Copynumber: 2.8 Consensus size: 63
13589634 AGACATTATG
* *
13589644 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTA-GTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
13589708 ATGTAGCTAGGTCGCATGCGTGGCT-CCAGGTGAAGGACACATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-GTGTA-CAC-CATGTAGACAAGAGAGCTACGAGAT
13589772 AA
62 AA
* * * *
13589774 AT-TGGCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-AGTGTACACCATGTAG-ACAAGAGAGC
13589827 CGAACTCTAT
Statistics
Matches: 97, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 15 0.15
64 30 0.31
65 23 0.24
66 28 0.29
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTAGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:13590906 original size:2 final size:2
Alignment explanation
Indices: 13590899--13590952 Score: 81
Period size: 2 Copynumber: 25.5 Consensus size: 2
13590889 TCATGACATG
13590899 TA TA TA TA TA TA TA TA TA TGA CTA GTA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA T-A -TA -TA TA TA TA TA TA TA TA TA
13590942 TA TA TA TA TA T
1 TA TA TA TA TA T
13590953 GACTAGTCTC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
2 44 0.90
3 4 0.08
4 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13597391 original size:20 final size:20
Alignment explanation
Indices: 13597368--13597419 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
13597358 TAATTTAGCC
13597368 ATTTTTATTTTTATTTTAAT
1 ATTTTTATTTTTATTTTAAT
* *
13597388 ATTTTT-TATTTAATTTTTAT
1 ATTTTTAT-TTTTATTTTAAT
13597408 ATTTTTATTTTT
1 ATTTTTATTTTT
13597420 TTGCTTCTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (20 bp):
ATTTTTATTTTTATTTTAAT
Found at i:13597403 original size:12 final size:13
Alignment explanation
Indices: 13597374--13597411 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
13597364 AGCCATTTTT
13597374 ATTTTTAT-TTTA
1 ATTTTTATATTTA
*
13597386 ATATTTTTTATTTA
1 AT-TTTTATATTTA
13597400 ATTTTTATATTT
1 ATTTTTATATTT
13597412 TTATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 2 0.09
13 14 0.64
14 6 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (13 bp):
ATTTTTATATTTA
Found at i:13597417 original size:14 final size:14
Alignment explanation
Indices: 13597368--13597419 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
13597358 TAATTTAGCC
13597368 ATTTTTATTTTTAT
1 ATTTTTATTTTTAT
*
13597382 -TTTAATATTTTT-T
1 ATTT-TTATTTTTAT
*
13597395 A-TTTAATTTTTAT
1 ATTTTTATTTTTAT
13597408 ATTTTTATTTTT
1 ATTTTTATTTTT
13597420 TTGCTTCTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
12 6 0.20
13 8 0.27
14 16 0.53
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
ATTTTTATTTTTAT
Done.