Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 20 of 318
Found at i:7734834 original size:20 final size:19
Alignment explanation
Indices: 7734798--7734839 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
7734788 CACTTTTATC
*
7734798 TTTTTCATGTCTTTTCTTTG
1 TTTTTCATGTCTGTTC-TTG
7734818 TTTTTC-TGTTCTGTTCTTG
1 TTTTTCATG-TCTGTTCTTG
7734837 TTT
1 TTT
7734840 AATTGTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.02, C:0.14, G:0.12, T:0.71
Consensus pattern (19 bp):
TTTTTCATGTCTGTTCTTG
Found at i:7738716 original size:16 final size:15
Alignment explanation
Indices: 7738675--7738726 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
7738665 TGGTTCATTG
*
7738675 TAATAGAATAGAACTA
1 TAAT-GAATAGAGCTA
7738691 TAATTGAATAGAGCTA
1 TAA-TGAATAGAGCTA
*
7738707 TAATGAAATAGAGCTG
1 TAATG-AATAGAGCTA
7738723 TAAT
1 TAAT
7738727 TAGTAATTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 2 0.06
16 29 0.91
17 1 0.03
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (15 bp):
TAATGAATAGAGCTA
Found at i:7744701 original size:29 final size:29
Alignment explanation
Indices: 7744668--7744725 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
7744658 TCAAAGGTTC
7744668 TAACAAACCCAATTTACAAAAGCTGCAAA
1 TAACAAACCCAATTTACAAAAGCTGCAAA
*
7744697 TAACAAACCCAATTTACAGAAGCTGCAAA
1 TAACAAACCCAATTTACAAAAGCTGCAAA
7744726 ACATGATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.50, C:0.24, G:0.09, T:0.17
Consensus pattern (29 bp):
TAACAAACCCAATTTACAAAAGCTGCAAA
Found at i:7747710 original size:93 final size:93
Alignment explanation
Indices: 7747598--7747769 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
7747588 CGCCCATAAG
* *
7747598 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7747663 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
7747691 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
7747756 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
7747770 TCAACCATCC
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:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:7747766 original size:46 final size:46
Alignment explanation
Indices: 7747591--7747766 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
7747581 TGTAACCCGC
* * *
7747591 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
7747637 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
7747687 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7747730 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
7747767 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 63 0.58
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7753933 original size:132 final size:131
Alignment explanation
Indices: 7753669--7753934 Score: 343
Period size: 131 Copynumber: 2.0 Consensus size: 131
7753659 TTGCCTCGCC
* * * * * * * * *
7753669 TTAGAAAACGCGAGTGAAGTTCCAAAGGGATATTCGATTATTTTGAACAAACGGGAGATTGCGAC
1 TTAGAAAACACGAATGAAATTCCAAAGGGACATTCAATTATGTTGAACAAACGAGAAATTGCAAC
* ** *
7753734 CCAGCACGATAGGCACTATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTAAAGAGTT
66 CCAGCACGATAGGCACTATTCCCCAAATTGCCAAACATCGAACATCGCCTTCGTTTTAAAGAATT
7753799 T
131 T
* * *
7753800 TTAGAAAACATGAATGAAATTCTAAAGGGACATTCAATTATGTTGAGCAAACGAGAAATTGCAAC
1 TTAGAAAACACGAATGAAATTCCAAAGGGACATTCAATTATGTTGAACAAACGAGAAATTGCAAC
* * * *
7753865 CCAGCACGTTAGGGCACTATTCCGCAAATTGCCAAATATCTAACATCGCCTTCGTTTTAAAGAAT
66 CCAGCACGATA-GGCACTATTCCCCAAATTGCCAAACATCGAACATCGCCTTCGTTTTAAAGAAT
7753930 TT
130 TT
7753932 TTA
1 TTA
7753935 AATGAATAAT
Statistics
Matches: 114, Mismatches: 20, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
131 63 0.55
132 51 0.45
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (131 bp):
TTAGAAAACACGAATGAAATTCCAAAGGGACATTCAATTATGTTGAACAAACGAGAAATTGCAAC
CCAGCACGATAGGCACTATTCCCCAAATTGCCAAACATCGAACATCGCCTTCGTTTTAAAGAATT
T
Found at i:7754940 original size:10 final size:10
Alignment explanation
Indices: 7754927--7754969 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
7754917 AAATAAATAA
7754927 ATAGATATAT
1 ATAGATATAT
* *
7754937 ATAGTTACAT
1 ATAGATATAT
7754947 ATAGATATAT
1 ATAGATATAT
* *
7754957 ATACATGTAT
1 ATAGATATAT
7754967 ATA
1 ATA
7754970 AATGAAAGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (10 bp):
ATAGATATAT
Found at i:7757271 original size:46 final size:46
Alignment explanation
Indices: 7757204--7757378 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
7757194 TGTAACCCGC
7757204 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
7757250 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * ** * *
7757300 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
* *
7757343 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
7757379 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.57
47 25 0.23
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:7757324 original size:93 final size:93
Alignment explanation
Indices: 7757212--7757382 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
7757202 GCCCATAAGT
** *
7757212 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTC-AGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGA-ACTCAACTCA
7757276 ACGAGCTCGGATGCCTAGTTACATCTCAC
65 ACGAGCTCGGATGCCTAGTTACATCTCAC
* *
7757305 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
*
7757370 CGAGTTCGGATGC
66 CGAGCTCGGATGC
7757383 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCACATCCATAAGTGAACTCGAACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:7760684 original size:20 final size:20
Alignment explanation
Indices: 7760647--7760684 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7760637 TGATGGGGAG
*
7760647 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
7760667 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
7760685 AGAGAGAGAA
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:7762647 original size:46 final size:46
Alignment explanation
Indices: 7762580--7762715 Score: 218
Period size: 46 Copynumber: 3.0 Consensus size: 46
7762570 AGTGTGCTCT
*
7762580 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
*
7762626 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
7762672 CTGATATGAAATGAACAAGACCATGGTTGAAAGACACTATGGCA
1 CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCA
7762716 TCATGTCAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:7772761 original size:21 final size:21
Alignment explanation
Indices: 7772718--7772762 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7772708 ATAACCTGTA
* *
7772718 AAATTATTAATAATTTCATTT
1 AAATTATTAATAAATTAATTT
7772739 AAATTA-TAATAAATTAATATT
1 AAATTATTAATAAATTAAT-TT
7772760 AAA
1 AAA
7772763 ACTATAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATTATTAATAAATTAATTT
Found at i:7790275 original size:26 final size:27
Alignment explanation
Indices: 7790225--7790276 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
7790215 CATATTCAGG
7790225 CGAAATCAGAGATAAGATTACCACAGC
1 CGAAATCAGAGATAAGATTACCACAGC
*
7790252 CGAAATCATAGAT-AGATTACCACAG
1 CGAAATCAGAGATAAGATTACCACAG
7790277 GTGGGAACCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.17
Consensus pattern (27 bp):
CGAAATCAGAGATAAGATTACCACAGC
Found at i:7792589 original size:15 final size:16
Alignment explanation
Indices: 7792571--7792600 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7792561 TGACATTAAT
7792571 ATTTAA-CAAAATAAC
1 ATTTAATCAAAATAAC
7792586 ATTTAATCAAAATAA
1 ATTTAATCAAAATAA
7792601 TTACGGACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTTAATCAAAATAAC
Found at i:7795322 original size:18 final size:19
Alignment explanation
Indices: 7795287--7795324 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
7795277 ACATGTATAC
*
7795287 TTTATTTTTTTTACGAACTT
1 TTTATATTTTTTA-GAACTT
7795307 TTTATATTTTTT-GAACTT
1 TTTATATTTTTTAGAACTT
7795325 GTAAGGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.08, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTATATTTTTTAGAACTT
Found at i:7796436 original size:14 final size:16
Alignment explanation
Indices: 7796407--7796440 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
7796397 TGTTTTTATC
7796407 AAAATAAAATATTTAA
1 AAAATAAAATATTTAA
7796423 AAAAT-AAATA-TTAA
1 AAAATAAAATATTTAA
7796437 AAAA
1 AAAA
7796441 CACATTCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 5 0.28
16 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATAAAATATTTAA
Found at i:7801384 original size:21 final size:21
Alignment explanation
Indices: 7801358--7801397 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7801348 TTGGGTCATC
7801358 TTCTTCTTCCTCTTGTTCTGG
1 TTCTTCTTCCTCTTGTTCTGG
* *
7801379 TTCTTCTTCTTGTTGTTCT
1 TTCTTCTTCCTCTTGTTCT
7801398 TCTTCAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.25, G:0.12, T:0.62
Consensus pattern (21 bp):
TTCTTCTTCCTCTTGTTCTGG
Found at i:7803264 original size:14 final size:14
Alignment explanation
Indices: 7803245--7803272 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7803235 TTTGCTCTAC
7803245 TACTTATTCCGCTT
1 TACTTATTCCGCTT
7803259 TACTTATTCCGCTT
1 TACTTATTCCGCTT
7803273 CACAGTAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.07, T:0.50
Consensus pattern (14 bp):
TACTTATTCCGCTT
Found at i:7819290 original size:21 final size:21
Alignment explanation
Indices: 7819251--7819290 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7819241 TATTTAAGTA
*
7819251 TAATTTTTTAAAATTTATTCT
1 TAATTTTTTAAAATATATTCT
7819272 TAATTTTTTGAAAA-ATATT
1 TAATTTTTT-AAAATATATT
7819291 TATTTTAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TAATTTTTTAAAATATATTCT
Found at i:7825643 original size:9 final size:9
Alignment explanation
Indices: 7825622--7825691 Score: 52
Period size: 10 Copynumber: 7.4 Consensus size: 9
7825612 TTATCTATAG
7825622 TTTTTAATA
1 TTTTTAATA
*
7825631 -TTTTATTA
1 TTTTTAATA
*
7825639 TTTTTAAAA
1 TTTTTAATA
**
7825648 TTGTGAAATGA
1 TT-TTTAAT-A
*
7825659 TTTTAAATA
1 TTTTTAATA
7825668 TATTTTAATAA
1 T-TTTTAAT-A
7825679 TTTTTAATA
1 TTTTTAATA
7825688 TTTT
1 TTTT
7825692 GTTGTTCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
8 7 0.15
9 15 0.31
10 21 0.44
11 5 0.10
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTAATA
Found at i:7826221 original size:19 final size:19
Alignment explanation
Indices: 7826197--7826253 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 19
7826187 TTCTACGTAA
7826197 AATTAAATATTTTTTAAAT
1 AATTAAATATTTTTTAAAT
*
7826216 AATTAAATCA-TTTTTACAT
1 AATTAAAT-ATTTTTTAAAT
7826235 AAGTTTAAAATATTTTTTA
1 AA--TT-AAATATTTTTTA
7826254 TTGATATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
19 18 0.56
20 1 0.03
21 3 0.09
22 10 0.31
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (19 bp):
AATTAAATATTTTTTAAAT
Found at i:7827861 original size:21 final size:21
Alignment explanation
Indices: 7827837--7827890 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
7827827 TTGTATTGTA
*
7827837 TAAAAATAAATATTTTAAA-AT
1 TAAAAATAAATA-TATAAATAT
* * *
7827858 TAAATATACATATATAAATTT
1 TAAAAATAAATATATAAATAT
7827879 TAAAAATAAATA
1 TAAAAATAAATA
7827891 AATTAAAACA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAAATAAATATATAAATAT
Found at i:7827865 original size:27 final size:27
Alignment explanation
Indices: 7827835--7827890 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
7827825 ATTTGTATTG
*
7827835 TATAAAAATA-AATATTTTAAAATTAAA
1 TATAAAAATATAA-ATTTTAAAAATAAA
* *
7827862 TATACATATATAAATTTTAAAAATAAA
1 TATAAAAATATAAATTTTAAAAATAAA
7827889 TA
1 TA
7827891 AATTAAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
TATAAAAATATAAATTTTAAAAATAAA
Found at i:7829908 original size:31 final size:31
Alignment explanation
Indices: 7829871--7829931 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
7829861 TTGGTTACTA
7829871 AACTATTTAAAAATT-TTCATTTAAGTCATTG
1 AACTATTTAAAAATTCTT-ATTTAAGTCATTG
*
7829902 AACTATTTAAAAGTTCTTATTTAAGTCATT
1 AACTATTTAAAAATTCTTATTTAAGTCATT
7829932 AGGTTGTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.46
Consensus pattern (31 bp):
AACTATTTAAAAATTCTTATTTAAGTCATTG
Found at i:7831735 original size:21 final size:20
Alignment explanation
Indices: 7831693--7831735 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
7831683 TATTGTGTAA
**
7831693 TTTGATTTTTTTTTTGCAAT
1 TTTGATTTTTTTTTAACAAT
*
7831713 TTTGATTTTTTTTATAACCAT
1 TTTGATTTTTTTT-TAACAAT
7831734 TT
1 TT
7831736 CACCTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTGATTTTTTTTTAACAAT
Found at i:7832370 original size:12 final size:12
Alignment explanation
Indices: 7832353--7832378 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7832343 ATCAGATTAA
7832353 ATTATAATTTTT
1 ATTATAATTTTT
7832365 ATTATAATTTTT
1 ATTATAATTTTT
7832377 AT
1 AT
7832379 GATAGTAAAA
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTATAATTTTT
Found at i:7839321 original size:19 final size:19
Alignment explanation
Indices: 7839279--7839379 Score: 75
Period size: 19 Copynumber: 5.3 Consensus size: 19
7839269 ATGGAAGTAA
*
7839279 TAAAATATGTATAATAAA-AT
1 TAAAATGTGTA-AA-AAATAT
7839299 TAAAATGTGTAAAAAATAT
1 TAAAATGTGTAAAAAATAT
* *
7839318 TAAAATAATG-AAAGTAATA-
1 TAAAAT-GTGTAAA-AAATAT
* * * *
7839337 GAATATGTATAATAAA-AT
1 TAAAATGTGTAAAAAATAT
7839355 TAAAATGTGTAAAAAATAT
1 TAAAATGTGTAAAAAATAT
7839374 TAAAAT
1 TAAAAT
7839380 AAAGTCAGCT
Statistics
Matches: 62, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
17 1 0.02
18 18 0.29
19 27 0.44
20 16 0.26
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (19 bp):
TAAAATGTGTAAAAAATAT
Found at i:7839342 original size:56 final size:56
Alignment explanation
Indices: 7839273--7839381 Score: 209
Period size: 56 Copynumber: 1.9 Consensus size: 56
7839263 TAATCGATGG
7839273 AAGTAATAAAATATGTATAATAAAATTAAAATGTGTAAAAAATATTAAAATAATGA
1 AAGTAATAAAATATGTATAATAAAATTAAAATGTGTAAAAAATATTAAAATAATGA
*
7839329 AAGTAATAGAATATGTATAATAAAATTAAAATGTGTAAAAAATATTAAAATAA
1 AAGTAATAAAATATGTATAATAAAATTAAAATGTGTAAAAAATATTAAAATAA
7839382 AGTCAGCTGA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (56 bp):
AAGTAATAAAATATGTATAATAAAATTAAAATGTGTAAAAAATATTAAAATAATGA
Found at i:7884305 original size:16 final size:15
Alignment explanation
Indices: 7884264--7884457 Score: 72
Period size: 16 Copynumber: 12.2 Consensus size: 15
7884254 CCTTTTTCCG
7884264 TTTT-TTTTCATTTCAA
1 TTTTATTTT-ATTTC-A
7884280 TTTATATTTTAATTTCA
1 TTT-TATTTT-ATTTCA
7884297 TTTTATTTTATATTCA
1 TTTTATTTTAT-TTCA
* *
7884313 TTTCACATTTCATTTCA
1 TTT--TATTTTATTTCA
** * *
7884330 TTACATTTCATTTAA
1 TTTTATTTTATTTCA
*
7884345 ATTTATTTT-TTTCA
1 TTTTATTTTATTTCA
* * *
7884359 TTTAAATTTATTTAA
1 TTTTATTTTATTTCA
* *
7884374 ATTTATTTTTTTTCA
1 TTTTATTTTATTTCA
*
7884389 TATTCATTTT-TTTC-
1 T-TTTATTTTATTTCA
*
7884403 TGTTTCCATTTTTTTTCA
1 T-TTT--ATTTTATTTCA
* *
7884421 TTTCAATTTATATTTTAA
1 TTT-TATTT-TA-TTTCA
*
7884439 TTTTATTTCATATTCA
1 TTTTATTTTAT-TTCA
7884455 TTT
1 TTT
7884458 CAATGTTAAT
Statistics
Matches: 134, Mismatches: 29, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
14 13 0.10
15 37 0.28
16 39 0.29
17 22 0.16
18 23 0.17
ACGTcount: A:0.24, C:0.10, G:0.01, T:0.65
Consensus pattern (15 bp):
TTTTATTTTATTTCA
Found at i:7884317 original size:5 final size:5
Alignment explanation
Indices: 7884291--7884632 Score: 74
Period size: 5 Copynumber: 63.6 Consensus size: 5
7884281 TTATATTTTA
* * *
7884291 ATTTC ATTTT ATTTT ATATTC ATTTCAC ATTTC ATTTC ATTAC ATTTC
1 ATTTC ATTTC ATTTC AT-TTC ATTT--C ATTTC ATTTC ATTTC ATTTC
* * * * *
7884339 ATTTAA ATTT- ATTT- TTTTC ATTTAA ATTT- ATTTAA ATTT- ATTTT
1 ATTT-C ATTTC ATTTC ATTTC ATTT-C ATTTC ATTT-C ATTTC ATTTC
* * * * * *
7884383 TTTTC ATATTC ATTT- TTTTC TGTTTCC ATTTT TTTTC ATTTC AATTTAT
1 ATTTC AT-TTC ATTTC ATTTC -ATTT-C ATTTC ATTTC ATTTC -ATTT-C
* * * *
7884432 ATTTTA ATTTT ATTTC ATATTC ATTTC AATGTTA ATTTC ATTTC ACATTC
1 A-TTTC ATTTC ATTTC AT-TTC ATTTC -AT-TTC ATTTC ATTTC A-TTTC
* * *
7884482 ATTAC AACTTTC ATTTCAC ATTTC ATTT- -TTTGT TTTTC ATTTTC ATTT-
1 ATTTC -A-TTTC ATTT--C ATTTC ATTTC ATTT-C ATTTC A-TTTC ATTTC
* * * *
7884530 TTTTCC ATTTC AATTT- -TTTCC ATATTC ATTTT TTTCTC ATTTC AATTTAT
1 ATTT-C ATTTC -ATTTC ATTT-C AT-TTC ATTTC ATT-TC ATTTC -ATTT-C
*
7884580 ATTTTA ATTTC ATTTC AAATTTC ATTTC ATTTC ATATTC ATTTC ATATTC
1 A-TTTC ATTTC ATTTC --ATTTC ATTTC ATTTC AT-TTC ATTTC AT-TTC
7884630 ATT
1 ATT
7884633 CCAATTTTTT
Statistics
Matches: 255, Mismatches: 39, Indels: 86
0.67 0.10 0.23
Matches are distributed among these distances:
3 6 0.02
4 21 0.08
5 113 0.44
6 86 0.34
7 29 0.11
ACGTcount: A:0.24, C:0.14, G:0.01, T:0.61
Consensus pattern (5 bp):
ATTTC
Found at i:7884359 original size:19 final size:19
Alignment explanation
Indices: 7884335--7884371 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
7884325 TTTCATTACA
7884335 TTTCATTTAAATTTATTTT
1 TTTCATTTAAATTTATTTT
7884354 TTTCATTTAAATTTATTT
1 TTTCATTTAAATTTATTT
7884372 AAATTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTCATTTAAATTTATTTT
Found at i:7884360 original size:29 final size:29
Alignment explanation
Indices: 7884325--7884385 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
7884315 TCACATTTCA
*
7884325 TTTCA-TTACATTTCATTTAAATTTATTTT
1 TTTCATTTAAATTT-ATTTAAATTTATTTT
7884354 TTTCATTTAAATTTATTTAAATTTATTTT
1 TTTCATTTAAATTTATTTAAATTTATTTT
7884383 TTT
1 TTT
7884386 TCATATTCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (29 bp):
TTTCATTTAAATTTATTTAAATTTATTTT
Found at i:7884386 original size:30 final size:31
Alignment explanation
Indices: 7884325--7884389 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
7884315 TCACATTTCA
*
7884325 TTTCA-TTACATTTCATTTAAATTTA-TTTT
1 TTTCATTTAAATTTCATTTAAATTTATTTTT
7884354 TTTCATTTAAATTT-ATTTAAATTTATTTTT
1 TTTCATTTAAATTTCATTTAAATTTATTTTT
7884384 TTTCAT
1 TTTCAT
7884390 ATTCATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.65
Consensus pattern (31 bp):
TTTCATTTAAATTTCATTTAAATTTATTTTT
Found at i:7884457 original size:28 final size:28
Alignment explanation
Indices: 7884410--7884484 Score: 82
Period size: 28 Copynumber: 2.7 Consensus size: 28
7884400 TTCTGTTTCC
* *
7884410 ATTTTTTTTCAT-TTCAATTT-ATATTTTA
1 ATTTTATTTCATATTC-ATTTCA-ATGTTA
7884438 ATTTTATTTCATATTCATTTCAATGTTA
1 ATTTTATTTCATATTCATTTCAATGTTA
* *
7884466 ATTTCATTTCACATTCATT
1 ATTTTATTTCATATTCATT
7884485 ACAACTTTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 37 0.90
29 4 0.10
ACGTcount: A:0.27, C:0.12, G:0.01, T:0.60
Consensus pattern (28 bp):
ATTTTATTTCATATTCATTTCAATGTTA
Found at i:7884482 original size:23 final size:22
Alignment explanation
Indices: 7884465--7884508 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 22
7884455 TTTCAATGTT
7884465 AATTTCATTTCACATTCATTAC
1 AATTTCATTTCACATTCATTAC
7884487 AACTTTCATTTCACATTTCATT
1 AA-TTTCATTTCACA-TTCATT
7884509 TTTTGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 12 0.60
24 6 0.30
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTTCATTTCACATTCATTAC
Found at i:7884505 original size:12 final size:12
Alignment explanation
Indices: 7884466--7884509 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
7884456 TTCAATGTTA
7884466 ATTTCATTTCAC
1 ATTTCATTTCAC
*
7884478 A-TTCATTACA-
1 ATTTCATTTCAC
7884488 ACTTTCATTTCAC
1 A-TTTCATTTCAC
7884501 ATTTCATTT
1 ATTTCATTT
7884510 TTTGTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 1 0.04
11 8 0.30
12 17 0.63
13 1 0.04
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTTCATTTCAC
Found at i:7884561 original size:31 final size:31
Alignment explanation
Indices: 7884514--7884577 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
7884504 TCATTTTTTG
*
7884514 TTTTTCATTTTCATTTTTTTC-CATTTCAAT
1 TTTTTCATATTCATTTTTTTCTCATTTCAAT
7884544 TTTTTCCATATTCATTTTTTTCTCATTTCAAT
1 TTTTT-CATATTCATTTTTTTCTCATTTCAAT
7884576 TT
1 TT
7884578 ATATTTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 5 0.16
31 15 0.48
32 11 0.35
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTTCATATTCATTTTTTTCTCATTTCAAT
Found at i:7884621 original size:11 final size:11
Alignment explanation
Indices: 7884598--7884632 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
7884588 TTCATTTCAA
7884598 ATTTCAT-TTC
1 ATTTCATATTC
7884608 ATTTCATATTC
1 ATTTCATATTC
7884619 ATTTCATATTC
1 ATTTCATATTC
7884630 ATT
1 ATT
7884633 CCAATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTCATATTC
Found at i:7884630 original size:17 final size:17
Alignment explanation
Indices: 7884566--7884631 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 17
7884556 CATTTTTTTC
7884566 TCATTTCAATTT-ATATTT
1 TCATTTC-ATTTCATA-TT
* *
7884584 TAATTTCATTTCAAATT
1 TCATTTCATTTCATATT
7884601 TCATTTCATTTCATA-T
1 TCATTTCATTTCATATT
7884617 TCATTTCATATTCAT
1 TCATTTCAT-TTCAT
7884632 TCCAATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
16 10 0.24
17 24 0.57
18 8 0.19
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.56
Consensus pattern (17 bp):
TCATTTCATTTCATATT
Found at i:7884678 original size:148 final size:148
Alignment explanation
Indices: 7884258--7884681 Score: 401
Period size: 147 Copynumber: 2.9 Consensus size: 148
7884248 TTGTCACCTT
* * *
7884258 TTTCCGTTTTTTTTCATTTCAATTTATATTTTAATTTCATTT--TATTTTATATTCATTTCACAT
1 TTTCCATTTTTTTTCATTTCAATTTATATTTTAATTTCATTTCATATTTCAT-TTCATTTCATA-
* * * * *
7884321 TTCATTTCAT-TACATTTC-ATTTAAATTTATTTTTTTCATTTAAA-TTTATTTAAATTTATTTT
64 TTCATTTCATATTCATTACAATTTAATTTTATTTTTTT-AATTAAATTTTATTT-TATTTATTTT
* * **
7884383 TTTTCATATTCATTTTTTTCTG
127 TTTCCATATTCAATTTTTTCCA
* *
7884405 TTTCCATTTTTTTTCATTTCAATTTATATTTTAATTTTATTTCATA-TTCATTTCAATGTTAAT-
1 TTTCCATTTTTTTTCATTTCAATTTATATTTTAATTTCATTTCATATTTCATTTC-AT-TTCATA
* * * ** * *
7884468 TTCATTTCACATTCATTACAACTTTCATTTCA--CATTTCATT---TTTTGTTTTTCATTTTCAT
64 TTCATTTCATATTCATTACAA-TTTAATTTTATTTTTTTAATTAAATTTT-ATTTT-A-TTT-AT
7884528 TTTTTTCCAT-TTCAATTTTTTCCA
124 TTTTTTCCATATTCAATTTTTTCCA
*
7884552 TATT-CATTTTTTTCTCATTTCAATTTATATTTTAATTTCATTTCAAATTTCATTTCATTTCATA
1 T-TTCCATTTTTTT-TCATTTCAATTTATATTTTAATTTCATTTCATATTTCATTTCATTTCATA
* * *
7884616 TTCATTTCATATTCATTCCAATTT-TTTTTATTTTTTTAATTAAATTTTATTTTATTTAATTTTT
64 TTCATTTCATATTCATTACAATTTAATTTTATTTTTTTAATTAAATTTTATTTTATTTATTTTTT
7884680 TC
129 TC
7884682 TCATTTTAAA
Statistics
Matches: 223, Mismatches: 33, Indels: 42
0.75 0.11 0.14
Matches are distributed among these distances:
145 3 0.01
146 8 0.04
147 93 0.42
148 89 0.40
149 15 0.07
150 11 0.05
151 4 0.02
ACGTcount: A:0.24, C:0.13, G:0.01, T:0.62
Consensus pattern (148 bp):
TTTCCATTTTTTTTCATTTCAATTTATATTTTAATTTCATTTCATATTTCATTTCATTTCATATT
CATTTCATATTCATTACAATTTAATTTTATTTTTTTAATTAAATTTTATTTTATTTATTTTTTTC
CATATTCAATTTTTTCCA
Found at i:7884687 original size:148 final size:146
Alignment explanation
Indices: 7884258--7884687 Score: 393
Period size: 148 Copynumber: 2.9 Consensus size: 146
7884248 TTGTCACCTT
* * *
7884258 TTTCCGTTTTTTTTCATTTCAATTTATATTTTAATTTCATTT--TATTTTATATTCATTTCACAT
1 TTTCCATTTTTTTTCATTTCAATTTATATTTTAATTTCATTTCATATTTCAT-TTCATTTCATA-
* * * * *
7884321 TTCATTTCAT-TACATTTC-ATTTAAATTTATTTTTTTCATTTAAA-TTTATTTAAATTTATTTT
64 TTCATTTCATATTCATTACAATTTAATTTTATTTTTTT-AATTAAATTTTATTT-TATTTA-TTT
* **
7884383 TTTTCATATTCATTTTTTTCTG
126 TTTTCAT-TTCAATTTTTTCCA
* *
7884405 TTTCCATTTTTTTTCATTTCAATTTATATTTTAATTTTATTTCATA-TTCATTTCAATGTTAAT-
1 TTTCCATTTTTTTTCATTTCAATTTATATTTTAATTTCATTTCATATTTCATTTC-AT-TTCATA
* * * ** * *
7884468 TTCATTTCACATTCATTACAACTTTCATTTCA--CATTTCATT---TTTTGTTTTTCATTTTCAT
64 TTCATTTCATATTCATTACAA-TTTAATTTTATTTTTTTAATTAAATTTT-ATTTT-A-TTT-AT
7884528 TTTTTTCCATTTCAATTTTTTCCA
124 TTTTTT-CATTTCAATTTTTTCCA
*
7884552 TATT-CATTTTTTTCTCATTTCAATTTATATTTTAATTTCATTTCAAATTTCATTTCATTTCATA
1 T-TTCCATTTTTTT-TCATTTCAATTTATATTTTAATTTCATTTCATATTTCATTTCATTTCATA
* *
7884616 TTCATTTCATATTCATTCCAATTT-TTTTTATTTTTTTAATTAAATTTTATTTTATTTAATTTTT
64 TTCATTTCATATTCATTACAATTTAATTTTATTTTTTTAATTAAATTTTATTTTATTT-ATTTTT
7884680 TCTCATTT
128 T-TCATTT
7884688 TAAATTTCAT
Statistics
Matches: 228, Mismatches: 32, Indels: 45
0.75 0.10 0.15
Matches are distributed among these distances:
145 3 0.01
146 8 0.04
147 92 0.40
148 94 0.41
149 16 0.07
150 11 0.05
151 4 0.02
ACGTcount: A:0.24, C:0.13, G:0.01, T:0.62
Consensus pattern (146 bp):
TTTCCATTTTTTTTCATTTCAATTTATATTTTAATTTCATTTCATATTTCATTTCATTTCATATT
CATTTCATATTCATTACAATTTAATTTTATTTTTTTAATTAAATTTTATTTTATTTATTTTTTTC
ATTTCAATTTTTTCCA
Found at i:7884704 original size:10 final size:10
Alignment explanation
Indices: 7884598--7884706 Score: 53
Period size: 10 Copynumber: 10.6 Consensus size: 10
7884588 TTCATTTCAA
*
7884598 ATTTCATTTC
1 ATTTCATTTT
*
7884608 ATTTCATATTC
1 ATTTCAT-TTT
*
7884619 ATTTCATATTC
1 ATTTCAT-TTT
*
7884630 ATTCCAATTTT
1 ATTTC-ATTTT
*
7884641 -TTTTATTTT
1 ATTTCATTTT
* **
7884650 -TTTAATTAA
1 ATTTCATTTT
*
7884659 ATTTTATTTT
1 ATTTCATTTT
*
7884669 ATTTAATTTT
1 ATTTCATTTT
7884679 -TTCTCATTTT
1 ATT-TCATTTT
7884689 AAATTTCATTTT
1 --ATTTCATTTT
7884701 ATTTCA
1 ATTTCA
7884707 AAATTTTAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 14
0.75 0.11 0.13
Matches are distributed among these distances:
9 13 0.16
10 36 0.45
11 20 0.25
12 9 0.11
13 2 0.03
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (10 bp):
ATTTCATTTT
Found at i:7884739 original size:26 final size:25
Alignment explanation
Indices: 7884684--7884738 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
7884674 ATTTTTTCTC
* * *
7884684 ATTTTAAATTTCATTTTATTTCAAA
1 ATTTTAAAATTCATTTAAATTCAAA
7884709 ATTTTAAAATTCATTTAAATTCAAA
1 ATTTTAAAATTCATTTAAATTCAAA
*
7884734 TTTTT
1 ATTTT
7884739 TCTCATTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTTTAAAATTCATTTAAATTCAAA
Found at i:7885903 original size:18 final size:17
Alignment explanation
Indices: 7885872--7885905 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7885862 AGTTGATAAA
*
7885872 TTGAATTAATTTGTATT
1 TTGAATTAAATTGTATT
7885889 TTGAGATTAAATTGTAT
1 TTGA-ATTAAATTGTAT
7885906 ATAATTGTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (17 bp):
TTGAATTAAATTGTATT
Found at i:7886653 original size:28 final size:28
Alignment explanation
Indices: 7886596--7886658 Score: 65
Period size: 28 Copynumber: 2.2 Consensus size: 28
7886586 ATTATATATC
* ** *
7886596 CATTTCAATTTCTATTCAATTTAAATTT
1 CATTTCAACTTCTATTCAATAAAAAATT
7886624 CATTTCAACTTC-ATTTCAATAAAAAATT
1 CATTTCAACTTCTA-TTCAATAAAAAATT
7886652 CAATTTC
1 C-ATTTC
7886659 TTTTTTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 1 0.03
28 23 0.79
29 5 0.17
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (28 bp):
CATTTCAACTTCTATTCAATAAAAAATT
Found at i:7886756 original size:111 final size:111
Alignment explanation
Indices: 7886613--7886927 Score: 494
Period size: 112 Copynumber: 2.8 Consensus size: 111
7886603 ATTTCTATTC
* *
7886613 AATTTAAATTTCATTTCAACTTCATTTCAATAAAAAATTCAATTTCTTTTTTAAATTTTACCCAT
1 AATTT-AATTTCATTCCAACTTCATTTCAATAAAAAATTCAATTTCTTTTTTAAATTTTACTCAT
7886678 ATATCTTTTTTAAATATAATTTCATTTCACATTCCC-A-AATTTAATTT
65 ATATCTTTTTTAAATATAATTTCATTT--CATTCCCAATAATTTAATTT
*
7886725 AATTTAATTTCATTCCAACTTCATTTAAATAAAAAATTCAATTTCTTTTTTAAATTTTACTC--A
1 AATTTAATTTCATTCCAACTTCATTTCAATAAAAAATTCAATTTCTTTTTTAAATTTTACTCATA
7886788 TATCTTTTTTAAATATAATTTCATTTCATTCCCAAATTTAATTTAATTT
66 TATCTTTTTTAAATATAATTTCATTTCATTCCC-AA--TAATTTAATTT
*
7886837 AATTTAATTTCATTCCAACTTCATTTCAATAAAAAATTTAATTTCTTTTTTAAATTTTACTCATA
1 AATTTAATTTCATTCCAACTTCATTTCAATAAAAAATTCAATTTCTTTTTTAAATTTTACTCATA
* *
7886902 TATCTTTCTTAAATATAATTCCATTT
66 TATCTTTTTTAAATATAATTTCATTT
7886928 TAATTTCACT
Statistics
Matches: 189, Mismatches: 7, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
107 7 0.04
109 28 0.15
111 54 0.29
112 75 0.40
114 25 0.13
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (111 bp):
AATTTAATTTCATTCCAACTTCATTTCAATAAAAAATTCAATTTCTTTTTTAAATTTTACTCATA
TATCTTTTTTAAATATAATTTCATTTCATTCCCAATAATTTAATTT
Found at i:7886864 original size:5 final size:5
Alignment explanation
Indices: 7886822--7886846 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7886812 TTCATTCCCA
7886822 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
7886847 CATTCCAACT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:7890108 original size:51 final size:51
Alignment explanation
Indices: 7890037--7890204 Score: 228
Period size: 51 Copynumber: 3.2 Consensus size: 51
7890027 CTGATCACAT
*
7890037 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTAACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
7890088 TTATCACTTGTAACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTAACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* * *
7890139 TTGTCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCAC
1 TTATCACTTG-----TA--ACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
7890197 TTGTCACT
1 TTATCACT
7890205 GATCAGAAGT
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
51 59 0.56
56 2 0.02
58 45 0.42
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTAACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:7890146 original size:58 final size:58
Alignment explanation
Indices: 7890078--7890209 Score: 201
Period size: 58 Copynumber: 2.3 Consensus size: 58
7890068 CTAAAGCTAC
* *
7890078 CACTTATCACTTATCACTTGTAACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTGTCACTTATCACTTATAACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
* * * *
7890136 CACTTGTCACTTGTCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTAT
1 CACTTGTCACTTATCACTTATAACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
*
7890194 CACTTGTCACTGATCA
1 CACTTGTCACTTATCA
7890210 GAAGTACTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 66 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (58 bp):
CACTTGTCACTTATCACTTATAACTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
Found at i:7892835 original size:46 final size:46
Alignment explanation
Indices: 7892770--7892955 Score: 248
Period size: 46 Copynumber: 4.0 Consensus size: 46
7892760 TTATCTTTGA
* * * * * ** *
7892770 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
***
7892816 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
7892862 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
7892908 CA-GATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATG-TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
7892954 CA
1 CA
7892956 GAGAGCACAC
Statistics
Matches: 126, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 125 0.99
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:7894979 original size:3 final size:3
Alignment explanation
Indices: 7894965--7895013 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
7894955 TTTTATACTA
*
7894965 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7895008 AA- AAT A
1 AAT AAT A
7895014 TCTCATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7894987 original size:11 final size:11
Alignment explanation
Indices: 7894971--7895009 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
7894961 ACTAAATAAT
7894971 TAATAATAAAA
1 TAATAATAAAA
*
7894982 TAATAATGAAA
1 TAATAATAAAA
7894993 TAATAATAAAA
1 TAATAATAAAA
7895004 TAATAA
1 TAATAA
7895010 AATATCTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:7894996 original size:19 final size:19
Alignment explanation
Indices: 7894972--7895013 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
7894962 CTAAATAATT
*
7894972 AATAATAAAATAATAATGA
1 AATAATAAAATAATAATAA
7894991 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
7895010 AATA
1 AATA
7895014 TCTCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:7895036 original size:20 final size:21
Alignment explanation
Indices: 7894983--7895058 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
7894973 ATAATAAAAT
* *
7894983 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
7895002 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
7895023 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
7895044 TAATCATAAAATATC
1 -AATAATAAAATATC
7895059 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:7895324 original size:30 final size:31
Alignment explanation
Indices: 7895256--7895314 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
7895246 CACAGTTAAA
** *
7895256 ATATTTACACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAACCCCTCAAATTTTTC
7895287 ATATTTACACT-TTAACCCCTCAAATTTT
1 ATATTTACACTATTAACCCCTCAAATTTT
7895315 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.31, C:0.22, G:0.02, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAACCCCTCAAATTTTTC
Found at i:7897218 original size:27 final size:28
Alignment explanation
Indices: 7897188--7897263 Score: 79
Period size: 27 Copynumber: 2.8 Consensus size: 28
7897178 TATATACTAA
7897188 TAAAATAATAATAATAAAATATTTTAT-
1 TAAAATAATAATAATAAAATATTTTATC
*
7897215 TAAAATATTAATAA-AATAAT-TTTTATC
1 TAAAATAATAATAATAA-AATATTTTATC
* *
7897242 T-AATTAAATAATTATAAAATAT
1 TAAAAT-AATAATAATAAAATAT
7897264 CAAAATATCT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
26 11 0.28
27 26 0.65
28 3 0.08
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAAATAATAATAATAAAATATTTTATC
Found at i:7900188 original size:14 final size:14
Alignment explanation
Indices: 7900171--7900202 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
7900161 CTGAAATATG
7900171 AAATCTTAAAAAAA
1 AAATCTTAAAAAAA
*
7900185 AAATCTTAAAAATA
1 AAATCTTAAAAAAA
7900199 AAAT
1 AAAT
7900203 TATGATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (14 bp):
AAATCTTAAAAAAA
Found at i:7902917 original size:29 final size:27
Alignment explanation
Indices: 7902835--7902918 Score: 64
Period size: 29 Copynumber: 3.0 Consensus size: 27
7902825 AAATGTCACA
7902835 AGAAAATTAAGTATTTAAA-ATAAAAAT
1 AGAAAATTAA-TATTTAAATATAAAAAT
* * * *
7902862 ATTAAATTTTAAT-TTTAATTTTAAAAAAT
1 A-GAAA-ATTAATATTTAAATAT-AAAAAT
7902891 AGAAAATATAATATTTAAATATCAAAAA
1 AGAAAAT-TAATATTTAAATAT-AAAAA
7902919 ATACTTTTGA
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
27 7 0.17
28 12 0.29
29 23 0.55
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (27 bp):
AGAAAATTAATATTTAAATATAAAAAT
Found at i:7903252 original size:22 final size:21
Alignment explanation
Indices: 7903195--7903253 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
7903185 TTAAATACTT
**
7903195 TTTTTAAAATTTATAATTATA
1 TTTTTAAAATTTATAAAAATA
*
7903216 TGTTTTAGAATTTTATAAAAAATA
1 T-TTTTA-AAATTTAT-AAAAATA
*
7903240 TTTTTAAACTTTAT
1 TTTTTAAAATTTAT
7903254 TTTTTTTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 1 0.03
22 12 0.39
23 12 0.39
24 6 0.19
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TTTTTAAAATTTATAAAAATA
Found at i:7904845 original size:23 final size:23
Alignment explanation
Indices: 7904819--7904862 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7904809 TATATAATTT
*
7904819 TTAAAAAATTATAAAATTATAAA
1 TTAAAAAATAATAAAATTATAAA
* *
7904842 TTAATACATAATAAAATTATA
1 TTAAAAAATAATAAAATTATA
7904863 TTTTAACCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
TTAAAAAATAATAAAATTATAAA
Found at i:7905345 original size:9 final size:9
Alignment explanation
Indices: 7905333--7905373 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
7905323 CAGTTAAGTT
*
7905333 ATTAATATA
1 ATTAATTTA
*
7905342 ATTAGTTTA
1 ATTAATTTA
*
7905351 ATTAGTTTA
1 ATTAATTTA
7905360 ATTAATTTA
1 ATTAATTTA
7905369 ATTAA
1 ATTAA
7905374 AAATTATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (9 bp):
ATTAATTTA
Found at i:7908731 original size:21 final size:21
Alignment explanation
Indices: 7908707--7908770 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
7908697 CTCATTTTCT
7908707 AACATGACATTTATTTATTAA
1 AACATGACATTTATTTATTAA
*
7908728 AACA--ATA-TT-TTTA-TAA
1 AACATGACATTTATTTATTAA
7908744 GCAACATGACATTTATTTATTAA
1 --AACATGACATTTATTTATTAA
7908767 AACA
1 AACA
7908771 ATATTTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
16 3 0.09
17 4 0.12
18 6 0.18
19 2 0.06
20 2 0.06
21 10 0.29
22 4 0.12
23 3 0.09
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (21 bp):
AACATGACATTTATTTATTAA
Found at i:7908753 original size:39 final size:39
Alignment explanation
Indices: 7908707--7908788 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
7908697 CTCATTTTCT
7908707 AACATGACATTTATTTATTAAAACAATATTTTTATAAGC
1 AACATGACATTTATTTATTAAAACAATATTTTTATAAGC
7908746 AACATGACATTTATTTATTAAAACAATATTTTTATAAGC
1 AACATGACATTTATTTATTAAAACAATATTTTTATAAGC
7908785 AACA
1 AACA
7908789 AAAGTTAAGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.39
Consensus pattern (39 bp):
AACATGACATTTATTTATTAAAACAATATTTTTATAAGC
Found at i:7911667 original size:93 final size:93
Alignment explanation
Indices: 7911555--7911726 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
7911545 CGCCCATAAG
*
7911555 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCAGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTC
7911619 AACAAGTTCGGATGCCTAGTTACATCTCA
65 AACAAGTTCGGATGCCTAGTTACATCTCA
* *
7911648 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
7911713 ACGAGTTCGGATGC
66 ACAAGTTCGGATGC
7911727 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:7911721 original size:46 final size:46
Alignment explanation
Indices: 7911548--7911723 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
7911538 TGTAACCCGC
* *
7911548 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* * * *
7911594 CCATAAGTGAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
7911644 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
7911687 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
7911724 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 59 0.55
47 27 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:7913545 original size:46 final size:46
Alignment explanation
Indices: 7913485--7913666 Score: 258
Period size: 46 Copynumber: 4.0 Consensus size: 46
7913475 TTTGACATGA
* * * *
7913485 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
* * *
7913531 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATTAGGT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
* *
7913577 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
7913623 TGCCATAGTATCTTTCAACCATGGTCTTACGCATTTCATATCAG
1 TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
7913667 AGAGCACACT
Statistics
Matches: 123, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 119 0.97
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATAGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:7916019 original size:52 final size:53
Alignment explanation
Indices: 7915963--7916071 Score: 123
Period size: 53 Copynumber: 2.1 Consensus size: 53
7915953 ATTACAATGT
* *
7915963 CATTGGTGCAATGT-AATATGTG-CTCCTGTATAAGACCATAGCTGGACTATGG
1 CATTGGTGCAATGTGAATATGTGTCTCC-GTATAAGACCATAGCTGGAATATGA
** * * * *
7916015 CATTGGTGTGATGTGATTATTTGTTTCCGTATAAGACCATATCTGGAATATGA
1 CATTGGTGCAATGTGAATATGTGTCTCCGTATAAGACCATAGCTGGAATATGA
7916068 CATT
1 CATT
7916072 TGTATGATAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
52 12 0.26
53 32 0.68
54 3 0.06
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (53 bp):
CATTGGTGCAATGTGAATATGTGTCTCCGTATAAGACCATAGCTGGAATATGA
Found at i:7922085 original size:49 final size:50
Alignment explanation
Indices: 7922018--7922150 Score: 164
Period size: 49 Copynumber: 2.7 Consensus size: 50
7922008 TCCATCAAGT
* *
7922018 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGA-A-AT-TGAAAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTAACTATC-ACATATCCG-AAC
* * * **
7922067 CGATGCTATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCGTGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTAACTATCACATATCCGAAC
7922117 CGATGCCATGTCCTAGACATGGTCTTACACTAAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTAAC
7922151 ACATCTCGTA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.49
50 35 0.49
51 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTAACTATCACATATCCGAAC
Found at i:7922134 original size:50 final size:47
Alignment explanation
Indices: 7922018--7922288 Score: 213
Period size: 46 Copynumber: 5.7 Consensus size: 47
7922008 TCCATCAAGT
* * * **
7922018 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAAT-T-GAAAC
1 CGATGCCATGTCCTAGACAT-GTCTTACACTAGCT-TC-ACATCTCG-TGC
* *
7922067 CGATGCTATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCGTGC
1 CGATGCCATGTCCTAGACAT-GTCTTACACTAGCT-TCACATCT-CGTGC
* *
7922117 CGATGCCATGTCCTAGACATGGTCTTACACTA---ACACATCTCGTAAC
1 CGATGCCATGTCCTAGACAT-GTCTTACACTAGCTTCACATCTCGT-GC
* * * *
7922163 CGAT-ACATGTCCCAAACATGTCTTACACTGGCTT-ACATCTCGTAGC
1 CGATGCCATGTCCTAGACATGTCTTACACTAGCTTCACATCTCGT-GC
* *
7922209 CGATG-CATGTTCC-AGACATGTCTTACACTGGCTT-ACATCTCGAGGC
1 CGATGCCATG-TCCTAGACATGTCTTACACTAGCTTCACATCTCG-TGC
*
7922255 CGATG-CATGTCCTAAACATGTCTTACACTAGCTT
1 CGATGCCATGTCCTAGACATGTCTTACACTAGCTT
7922289 TCGTGTAATA
Statistics
Matches: 190, Mismatches: 21, Indels: 25
0.81 0.09 0.11
Matches are distributed among these distances:
44 10 0.05
45 18 0.09
46 88 0.46
47 3 0.02
48 3 0.02
49 35 0.18
50 32 0.17
51 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCTAGACATGTCTTACACTAGCTTCACATCTCGTGC
Found at i:7922203 original size:46 final size:46
Alignment explanation
Indices: 7922066--7922288 Score: 220
Period size: 46 Copynumber: 4.8 Consensus size: 46
7922056 GAAATTGAAA
* * * *
7922066 CCGATGCTATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCGT-G
1 CCGATGC-ATGTCCCAAACAT-GTCTTACACTGGCT-T-ACATCT-CGTAG
* * ** *
7922116 CCGATGCCATGTCCTAGACATGGTCTTACACTAAC--ACATCTCGTAA
1 CCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACATCTCGTAG
*
7922162 CCGATACATGTCCCAAACATGTCTTACACTGGCTTACATCTCGTAG
1 CCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGTAG
* *
7922208 CCGATGCATGTTCCAGACATGTCTTACACTGGCTTACATCTCG-AGG
1 CCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGTA-G
* *
7922254 CCGATGCATGTCCTAAACATGTCTTACACTAGCTT
1 CCGATGCATGTCCCAAACATGTCTTACACTGGCTT
7922289 TCGTGTAATA
Statistics
Matches: 152, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
44 11 0.07
45 16 0.11
46 92 0.61
50 32 0.21
51 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.29
Consensus pattern (46 bp):
CCGATGCATGTCCCAAACATGTCTTACACTGGCTTACATCTCGTAG
Found at i:7922247 original size:92 final size:92
Alignment explanation
Indices: 7922018--7922288 Score: 282
Period size: 92 Copynumber: 2.9 Consensus size: 92
7922008 TCCATCAAGT
* ** * *
7922018 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAATTGAAACCGATGCTATGTCCTAG
1 CGATGCCATGTCCTAGACATGGTCTTACACTAAC-A-C-ATCTCG-AACCGATGC-ATGTCCTAA
7922083 ACATGGTCTTACACTAGCTCTCACATATCCGTGC
61 ACAT-GTCTTACACTAGCT-TCACATATCCGTGC
* *
7922117 CGATGCCATGTCCTAGACATGGTCTTACACTAACACATCTCGTAACCGATACATGTCCCAAACAT
1 CGATGCCATGTCCTAGACATGGTCTTACACTAACACATCTCG-AACCGATGCATGTCCTAAACAT
* *
7922182 GTCTTACACTGGCTT-ACATCT-CGTAGC
65 GTCTTACACTAGCTTCACATATCCGT-GC
** *
7922209 CGATG-CATGTTCC-AGACAT-GTCTTACACTGGCTTACATCTCGAGGCCGATGCATGTCCTAAA
1 CGATGCCATG-TCCTAGACATGGTCTTACACTAAC--ACATCTCGA-ACCGATGCATGTCCTAAA
7922271 CATGTCTTACACTAGCTT
62 CATGTCTTACACTAGCTT
7922289 TCGTGTAATA
Statistics
Matches: 151, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
90 11 0.07
91 14 0.09
92 55 0.36
93 1 0.01
94 13 0.09
95 11 0.07
96 11 0.07
97 1 0.01
98 1 0.01
99 33 0.22
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (92 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTAACACATCTCGAACCGATGCATGTCCTAAACATG
TCTTACACTAGCTTCACATATCCGTGC
Found at i:7922786 original size:11 final size:11
Alignment explanation
Indices: 7922772--7922824 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
7922762 AGATAAATAT
7922772 TATTTTATTAA
1 TATTTTATTAA
*
7922783 TATTTTAATAA
1 TATTTTATTAA
* * *
7922794 GATATT-TTAT
1 TATTTTATTAA
*
7922804 TATTTTATTAT
1 TATTTTATTAA
7922815 TATTTTATTA
1 TATTTTATTA
7922825 GTATATAAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
10 6 0.18
11 28 0.82
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:7924516 original size:46 final size:46
Alignment explanation
Indices: 7924464--7924676 Score: 282
Period size: 46 Copynumber: 4.6 Consensus size: 46
7924454 GCTCTCTGAA
*
7924464 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
7924510 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* ** * * *
7924556 ATGAAAAGAATAAGACCATGGTTGAGAGATACCATAGCAACATGGC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * ** * * *
7924602 GGGAAGTGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
7924648 ATGAAATGTGTAAGACCATGGTTGAAAGA
1 ATGAAATGTGTAAGACCATGGTTGAAAGA
7924677 GACAATGGTT
Statistics
Matches: 143, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 143 1.00
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:7924684 original size:16 final size:16
Alignment explanation
Indices: 7924660--7924692 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7924650 GAAATGTGTA
*
7924660 AGACCATGGTTGAAAG
1 AGACAATGGTTGAAAG
7924676 AGACAATGGTTGAAAG
1 AGACAATGGTTGAAAG
7924692 A
1 A
7924693 TACCATAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.30, T:0.18
Consensus pattern (16 bp):
AGACAATGGTTGAAAG
Found at i:7924685 original size:62 final size:62
Alignment explanation
Indices: 7924614--7924738 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 62
7924604 GAAGTGAATA
* * * * ****
7924614 AGACCATGGTTGAAAGATACCATGGCAGCGTGATATGAAATGTGTAAGACCATGGTTGAAAG
1 AGACAATGGTTGAAAGATACCATAGCAACGTGACATGAAAAAAATAAGACCATGGTTGAAAG
*
7924676 AGACAATGGTTGAAAGATACCATAGCAATGTGACATGAAAAAAATAAGACCATGGTTGAAAG
1 AGACAATGGTTGAAAGATACCATAGCAACGTGACATGAAAAAAATAAGACCATGGTTGAAAG
7924738 A
1 A
7924739 TACCATGGCA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.42, C:0.12, G:0.26, T:0.21
Consensus pattern (62 bp):
AGACAATGGTTGAAAGATACCATAGCAACGTGACATGAAAAAAATAAGACCATGGTTGAAAG
Found at i:7924697 original size:108 final size:107
Alignment explanation
Indices: 7924568--7924783 Score: 281
Period size: 108 Copynumber: 2.0 Consensus size: 107
7924558 GAAAAGAATA
* * * * ***
7924568 AGACCATGGTTGAGAGATACCATAGCAACATGGCGGGAAGTGAATAAGACCATGGTTGAAAGATA
1 AGACAATGGTTGAAAGATACCATAGCAACATGACAGGAAAAAAATAAGACCATGGTTGAAAGATA
* * * *
7924633 CCATGGCAGCGTGATATG-AAATGTGTAAGACCATGGTTGAAAG
66 CCATGGCAACATGACA-GAAAATG-GTAAGACCATAGTTGAAAG
** *
7924676 AGACAATGGTTGAAAGATACCATAGCAATGTGACATGAAAAAAATAAGACCATGGTTGAAAGATA
1 AGACAATGGTTGAAAGATACCATAGCAACATGACAGGAAAAAAATAAGACCATGGTTGAAAGATA
7924741 CCATGGCAACATGACAGAAAATGGTAAGACCATAGTTGAAAG
66 CCATGGCAACATGACAGAAAATGGTAAGACCATAGTTGAAAG
7924783 A
1 A
7924784 CATTATGGCA
Statistics
Matches: 93, Mismatches: 14, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
107 20 0.22
108 73 0.78
ACGTcount: A:0.41, C:0.13, G:0.26, T:0.19
Consensus pattern (107 bp):
AGACAATGGTTGAAAGATACCATAGCAACATGACAGGAAAAAAATAAGACCATGGTTGAAAGATA
CCATGGCAACATGACAGAAAATGGTAAGACCATAGTTGAAAG
Found at i:7924733 original size:46 final size:45
Alignment explanation
Indices: 7924676--7924783 Score: 135
Period size: 46 Copynumber: 2.4 Consensus size: 45
7924666 TGGTTGAAAG
* **
7924676 AGACAATGGTTGAAAGATACCATAGCAATGTGACATGAAAAAAATA
1 AGACCATGGTTGAAAGATACCATAGCAACATGACA-GAAAAAAATA
* ***
7924722 AGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGGTA
1 AGACCATGGTTGAAAGATACCATAGCAACATGACAGAAAAAAATA
*
7924767 AGACCATAGTTGAAAGA
1 AGACCATGGTTGAAAGA
7924784 CATTATGGCA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
45 23 0.43
46 31 0.57
ACGTcount: A:0.46, C:0.13, G:0.22, T:0.19
Consensus pattern (45 bp):
AGACCATGGTTGAAAGATACCATAGCAACATGACAGAAAAAAATA
Found at i:7929440 original size:18 final size:18
Alignment explanation
Indices: 7929413--7929452 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
7929403 TACATCATTC
*
7929413 TATTTGTTTTATT-TTTCA
1 TATTTATTTTATTATTT-A
7929431 TATTTATTTTATTATTTA
1 TATTTATTTTATTATTTA
7929449 TATT
1 TATT
7929453 CCAAGTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (18 bp):
TATTTATTTTATTATTTA
Found at i:7936191 original size:14 final size:14
Alignment explanation
Indices: 7936172--7936201 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7936162 TTATATCAAG
7936172 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
7936186 ACCAATCCAATTCA
1 ACCAATCCAAATCA
7936200 AC
1 AC
7936202 ATATTTTCAA
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:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:7948078 original size:12 final size:12
Alignment explanation
Indices: 7948063--7948093 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7948053 TTCTCTTTTA
7948063 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
7948075 TTTTTCTTTCTC
1 TTTTTCTTTCCC
7948087 TTTTTCT
1 TTTTTCT
7948094 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:7948194 original size:16 final size:16
Alignment explanation
Indices: 7948173--7948203 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7948163 TTTATTATTT
7948173 TATTAACATAATATAA
1 TATTAACATAATATAA
*
7948189 TATTAATATAATATA
1 TATTAACATAATATA
7948204 TTAAAATATC
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:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:7949376 original size:40 final size:41
Alignment explanation
Indices: 7949326--7949410 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 41
7949316 TATAACCACT
*
7949326 TTTTATTATA-TTTTCAATTTGTGTCTTGTTTTAAGAATTG
1 TTTTAGTATATTTTTCAATTTGTGTCTTGTTTTAAGAATTG
** * * *
7949366 TTTTAGTATATTTTTTTATTTGTTTCTTGTTTTAATATTTG
1 TTTTAGTATATTTTTCAATTTGTGTCTTGTTTTAAGAATTG
7949407 TTTT
1 TTTT
7949411 TATGTTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
40 9 0.24
41 29 0.76
ACGTcount: A:0.19, C:0.04, G:0.11, T:0.67
Consensus pattern (41 bp):
TTTTAGTATATTTTTCAATTTGTGTCTTGTTTTAAGAATTG
Found at i:7949942 original size:31 final size:31
Alignment explanation
Indices: 7949906--7949986 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 31
7949896 TCAAAAAGCC
7949906 TAATTAATCTTCTGAATTTTTTTTAAAACTT
1 TAATTAATCTTCTGAATTTTTTTTAAAACTT
* ** *
7949937 TAATTAGAAC-TCT-AA-AATTTTTAAAATTT
1 TAATTA-ATCTTCTGAATTTTTTTTAAAACTT
7949966 TAATTAATCTCTTCTGAATTT
1 TAATTAA--TCTTCTGAATTT
7949987 AATGATATTA
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
28 1 0.03
29 17 0.46
30 3 0.08
31 12 0.32
32 4 0.11
ACGTcount: A:0.36, C:0.10, G:0.04, T:0.51
Consensus pattern (31 bp):
TAATTAATCTTCTGAATTTTTTTTAAAACTT
Found at i:7964550 original size:50 final size:50
Alignment explanation
Indices: 7964475--7964651 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
7964465 CCATGGAAAC
7964475 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * * *
7964525 AAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
7964575 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * * *
7964625 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
7964652 CTGATCAGTG
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:7964667 original size:31 final size:31
Alignment explanation
Indices: 7964629--7964799 Score: 252
Period size: 31 Copynumber: 5.5 Consensus size: 31
7964619 AAATGACAAC
7964629 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
7964660 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
7964691 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
7964722 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* * **
7964753 CGAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
7964784 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
7964800 TGACTACAAG
Statistics
Matches: 126, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 126 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:7964817 original size:7 final size:7
Alignment explanation
Indices: 7964805--7964833 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
7964795 AGCTTTGACT
7964805 ACAAGTG
1 ACAAGTG
7964812 ACAAGTG
1 ACAAGTG
7964819 ACAAGTG
1 ACAAGTG
7964826 ACAAGTG
1 ACAAGTG
7964833 A
1 A
7964834 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:7964940 original size:47 final size:47
Alignment explanation
Indices: 7964837--7964962 Score: 148
Period size: 47 Copynumber: 2.7 Consensus size: 47
7964827 CAAGTGATTT
* * *
7964837 CTGTATAAGACTATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGCTA
* * *
7964884 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATG-CTA
* *
7964932 C-GTGTAAGACCATAGT-TGGGCTATGGCATCA
1 CTGTATAAGACCATA-TCTGGGATATGGCATCA
7964963 TTATGTAAAG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
47 64 0.94
48 4 0.06
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.31
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGCTA
Found at i:7971901 original size:61 final size:62
Alignment explanation
Indices: 7971805--7971921 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 62
7971795 CAGAAAAAAC
* *
7971805 AATAAACTGTTTTAAATACTTACCACATGTCTATCAAAGATCAAAATACATGTCGATTGTCG
1 AATAAACTGTTTTAAATACTTACCACATGCCTATCAAAGAACAAAATACATGTCGATTGTCG
* * * * *
7971867 AATAAATTG-TTTAAATACTTACTACGTGCCTATCAAGGAACTAAATACATGTCGA
1 AATAAACTGTTTTAAATACTTACCACATGCCTATCAAAGAACAAAATACATGTCGA
7971922 ACATATATTC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
61 40 0.83
62 8 0.17
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (62 bp):
AATAAACTGTTTTAAATACTTACCACATGCCTATCAAAGAACAAAATACATGTCGATTGTCG
Found at i:7972511 original size:76 final size:78
Alignment explanation
Indices: 7972381--7972531 Score: 207
Period size: 76 Copynumber: 2.0 Consensus size: 78
7972371 AAAGAAAAAA
* *
7972381 CAAATTTTTATAAGCAGAAATTATAAATTTTTACAAACAAATTATGTTAATTTTTTATTATATAA
1 CAAATTTTTATAAACAAAAATTATAAATTTTTACAAACAAATTATGTTAATTTTTTATTATATAA
7972446 ATATTATTTATCT
66 ATATTATTTATCT
* * * **
7972459 CAAATTTTTATAAATAAAAATTAT-TA-TTTTACAAACAAATTATTTTGTTTTTTTATTATATAA
1 CAAATTTTTATAAACAAAAATTATAAATTTTTACAAACAAATTATGTTAATTTTTTATTATATAA
* *
7972522 TTGTTATTTA
66 ATATTATTTA
7972532 CCTCTCAATA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
76 42 0.66
77 1 0.02
78 21 0.33
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.50
Consensus pattern (78 bp):
CAAATTTTTATAAACAAAAATTATAAATTTTTACAAACAAATTATGTTAATTTTTTATTATATAA
ATATTATTTATCT
Found at i:7972714 original size:21 final size:21
Alignment explanation
Indices: 7972684--7972731 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
7972674 AATTATATAA
7972684 AAATAT-TTTAAAATTTA-ATT
1 AAATATATTT-AAATTTATATT
*
7972704 AAATATATTTATATTTATATT
1 AAATATATTTAAATTTATATT
7972725 AAATATA
1 AAATATA
7972732 AAAATAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATATATTTAAATTTATATT
Found at i:7974044 original size:48 final size:48
Alignment explanation
Indices: 7973952--7974044 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
7973942 AATGATAGCC
* ** *
7973952 TCATAAATCTTAGTTTGGCTTTCACTATTCAAAAGGTATTGTGGTAGT
1 TCATAAATCTTAGTTTGACTTTCACTATTCAAAAACTATGGTGGTAGT
* * *
7974000 TCATAAATCTTGGTTTGACTTTCACTATTGAAAAACTGTGGTGGT
1 TCATAAATCTTAGTTTGACTTTCACTATTCAAAAACTATGGTGGT
7974045 TCAAAAGGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (48 bp):
TCATAAATCTTAGTTTGACTTTCACTATTCAAAAACTATGGTGGTAGT
Found at i:7974229 original size:17 final size:17
Alignment explanation
Indices: 7974207--7974239 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7974197 ACAATTTAAT
7974207 ATTGATATTAAAATTAC
1 ATTGATATTAAAATTAC
7974224 ATTGATATTAAAATTA
1 ATTGATATTAAAATTA
7974240 AAAATATTAA
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:0.48, C:0.03, G:0.06, T:0.42
Consensus pattern (17 bp):
ATTGATATTAAAATTAC
Found at i:7974455 original size:12 final size:12
Alignment explanation
Indices: 7974438--7974469 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
7974428 AACGTGAACC
7974438 AATGAAAACAAA
1 AATGAAAACAAA
*
7974450 AATGAAAACATA
1 AATGAAAACAAA
7974462 AATGAAAA
1 AATGAAAA
7974470 GTACCTTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.72, C:0.06, G:0.09, T:0.12
Consensus pattern (12 bp):
AATGAAAACAAA
Found at i:7976764 original size:87 final size:87
Alignment explanation
Indices: 7976618--7976839 Score: 297
Period size: 87 Copynumber: 2.6 Consensus size: 87
7976608 CGCTTTCTCT
*
7976618 TGCCAGTAATCAGGA-TATCAGTTTCCAATACCTT-GATCTCCCTCATTGCTGATAGATCCATCT
1 TGCCAGTAATC-GGAGTATCAGTTTCCAAT-CCTTCGATCTCCCTCACTGCTGATAGATCCATCT
7976681 T-TCCAGTGACACAAAGGTTATCAG
64 TAT-CAGTGACACAAAGGTTATCAG
* * *
7976705 TGCCAGTAATCGGAGTATCAGTTTCCAATGCTTCAATCTCCCTCACTGCTGATATATCCATCTTA
1 TGCCAGTAATCGGAGTATCAGTTTCCAATCCTTCGATCTCCCTCACTGCTGATAGATCCATCTTA
**
7976770 TCAGTGACACAAAGGTTATCTT
66 TCAGTGACACAAAGGTTATCAG
* * * * *
7976792 TGCCAGTAATCAGAGCATCAGTTTCCCATTCTTCGATCTCCCCCACTG
1 TGCCAGTAATCGGAGTATCAGTTTCCAATCCTTCGATCTCCCTCACTG
7976840 TTTTATCAAT
Statistics
Matches: 120, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
86 6 0.05
87 113 0.94
88 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (87 bp):
TGCCAGTAATCGGAGTATCAGTTTCCAATCCTTCGATCTCCCTCACTGCTGATAGATCCATCTTA
TCAGTGACACAAAGGTTATCAG
Found at i:7976905 original size:75 final size:75
Alignment explanation
Indices: 7976767--7976908 Score: 167
Period size: 75 Copynumber: 1.9 Consensus size: 75
7976757 TATATCCATC
* * ** * * *
7976767 TTATCAGTGACACAAAGGTTATCTTTGCCAGTAATCAGAGCATCAGTTTCCCATTCTTCGATCTC
1 TTATCAATGACACAAAGATTATCAGTGCCAGTAATCAGAGCATAAGTTTCCAATACTTCGATCTC
7976832 CCCCACTGTT
66 CCCCACTGTT
* ** * * *
7976842 TTATCAATTACACAAAGATTATCAGTGCCAGTAATTGGGGCATAAGTTTCTAATACTTTGATCTC
1 TTATCAATGACACAAAGATTATCAGTGCCAGTAATCAGAGCATAAGTTTCCAATACTTCGATCTC
7976907 CC
66 CC
7976909 TCATTGCTGA
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
75 54 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (75 bp):
TTATCAATGACACAAAGATTATCAGTGCCAGTAATCAGAGCATAAGTTTCCAATACTTCGATCTC
CCCCACTGTT
Found at i:7977804 original size:39 final size:39
Alignment explanation
Indices: 7977761--7977845 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
7977751 TTCGCAGCTA
7977761 CAAGCTTTGGTTTCTTTT-CCTTGACTAGCTTTGGAGTTG
1 CAAGCTTTGGTTTCTTTTCCCTT-ACTAGCTTTGGAGTTG
* *
7977800 CAAGCCTTGGTTTCTTTTCCCTTACTTGCTTTGGAGTTG
1 CAAGCTTTGGTTTCTTTTCCCTTACTAGCTTTGGAGTTG
7977839 CAAGCTT
1 CAAGCTT
7977846 CAGTGTGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
39 38 0.90
40 4 0.10
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.45
Consensus pattern (39 bp):
CAAGCTTTGGTTTCTTTTCCCTTACTAGCTTTGGAGTTG
Found at i:7988307 original size:18 final size:18
Alignment explanation
Indices: 7988266--7988312 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
7988256 TAAAAAGAAA
* *
7988266 CCTCATCAGACTCGTCAT
1 CCTCATCAGAATCATCAT
* *
7988284 CGTCATCAGAATCATCTT
1 CCTCATCAGAATCATCAT
7988302 CCTCATCAGAA
1 CCTCATCAGAA
7988313 CCACTCTCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.28, C:0.34, G:0.11, T:0.28
Consensus pattern (18 bp):
CCTCATCAGAATCATCAT
Found at i:8000951 original size:31 final size:31
Alignment explanation
Indices: 8000914--8000979 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
8000904 TAAAATATAC
*
8000914 ACATGAAACATTGATTGTAG-TTCAACCATAT
1 ACATGAAACATTAATT-TAGATTCAACCATAT
* * *
8000945 ACATGAAACTTTAATTTTGATTCAATCATAT
1 ACATGAAACATTAATTTAGATTCAACCATAT
8000976 ACAT
1 ACAT
8000980 TTAAAGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 2 0.07
31 28 0.93
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.36
Consensus pattern (31 bp):
ACATGAAACATTAATTTAGATTCAACCATAT
Found at i:8001030 original size:21 final size:21
Alignment explanation
Indices: 8001004--8001079 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 21
8000994 ACGTTAATTT
8001004 ATTATTTGTTAAATAAATATA
1 ATTATTTGTTAAATAAATATA
*
8001025 ATTATTTTTGTATGCAATATATAAT-TT
1 ATTA--TTTGT-T--AA-ATA-AATATA
8001052 ATTATTTGTTAAATAAATATA
1 ATTATTTGTTAAATAAATATA
8001073 ATTATTT
1 ATTATTT
8001080 TTGTATGCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 16
0.71 0.03 0.25
Matches are distributed among these distances:
20 3 0.07
21 15 0.33
22 2 0.04
23 5 0.11
24 2 0.04
25 5 0.11
26 2 0.04
27 8 0.18
28 3 0.07
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (21 bp):
ATTATTTGTTAAATAAATATA
Found at i:8001043 original size:25 final size:25
Alignment explanation
Indices: 8001015--8001098 Score: 104
Period size: 25 Copynumber: 3.4 Consensus size: 25
8001005 TTATTTGTTA
8001015 AATAAATATAATTATTTTTGTATGC
1 AATAAATATAATTATTTTTGTATGC
*
8001040 AAT--ATATAATTTATTATTTGT-T-A
1 AATAAATATAA-TTATT-TTTGTATGC
8001063 AATAAATATAATTATTTTTGTATGC
1 AATAAATATAATTATTTTTGTATGC
*
8001088 AATATATATAA
1 AATAAATATAA
8001099 AATATAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
23 14 0.28
24 12 0.24
25 24 0.48
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (25 bp):
AATAAATATAATTATTTTTGTATGC
Found at i:8001046 original size:23 final size:23
Alignment explanation
Indices: 8001020--8001095 Score: 93
Period size: 23 Copynumber: 3.2 Consensus size: 23
8001010 TGTTAAATAA
8001020 ATATAATTATTTTTGTATGCAAT
1 ATATAATTATTTTTGTATGCAAT
*
8001043 ATATAATTTATTATTTGT-T-AAAT
1 ATATAA-TTATT-TTTGTATGCAAT
8001066 AAATATAATTATTTTTGTATGCAAT
1 --ATATAATTATTTTTGTATGCAAT
8001091 ATATA
1 ATATA
8001096 TAAAATATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
23 19 0.42
24 12 0.27
25 14 0.31
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (23 bp):
ATATAATTATTTTTGTATGCAAT
Found at i:8001054 original size:48 final size:48
Alignment explanation
Indices: 8000998--8001095 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
8000988 ATAAATACGT
8000998 TAATTTATTATTTGTTAAATAAATATAATTATTTTTGTATGCAATATA
1 TAATTTATTATTTGTTAAATAAATATAATTATTTTTGTATGCAATATA
8001046 TAATTTATTATTTGTTAAATAAATATAATTATTTTTGTATGCAATATA
1 TAATTTATTATTTGTTAAATAAATATAATTATTTTTGTATGCAATATA
8001094 TA
1 TA
8001096 TAAAATATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (48 bp):
TAATTTATTATTTGTTAAATAAATATAATTATTTTTGTATGCAATATA
Found at i:8001056 original size:27 final size:28
Alignment explanation
Indices: 8001019--8001095 Score: 89
Period size: 21 Copynumber: 3.0 Consensus size: 28
8001009 TTGTTAAATA
8001019 AATATAATTATTTTTGTATGCAATATAT
1 AATATAATTATTTTTGTATGCAATATAT
*
8001047 AAT-TTATTA--TTTGT-T--AA-ATA-
1 AATATAATTATTTTTGTATGCAATATAT
8001067 AATATAATTATTTTTGTATGCAATATAT
1 AATATAATTATTTTTGTATGCAATATAT
8001095 A
1 A
8001096 TAAAATATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 16
0.68 0.04 0.28
Matches are distributed among these distances:
20 3 0.08
21 8 0.21
22 2 0.05
23 5 0.13
24 2 0.05
25 5 0.13
26 2 0.05
27 8 0.21
28 4 0.10
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (28 bp):
AATATAATTATTTTTGTATGCAATATAT
Found at i:8001757 original size:16 final size:16
Alignment explanation
Indices: 8001726--8001773 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
8001716 TGAAAATTTT
*
8001726 AAAAATATTAAAAAAATA
1 AAAAATATT--AAAACTA
*
8001744 AAAATTTATTAAAACTA
1 AAAA-ATATTAAAACTA
8001761 AAAAATATTAAAA
1 AAAAATATTAAAA
8001774 AATAATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 8 0.31
17 10 0.38
18 4 0.15
19 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAATATTAAAACTA
Found at i:8016113 original size:50 final size:50
Alignment explanation
Indices: 8016055--8016154 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
8016045 TATTATTCAG
* **
8016055 ATTCACAATTTAAATAGTCTTTAGTTTTAATTATAAAAACTTATATAAAC
1 ATTCACAATTTAAATAGTCTGTAACTTTAATTATAAAAACTTATATAAAC
8016105 ATTCACAATTTAAATAGTCTGTAACTTTAATTATAAAAACTTATATAAAC
1 ATTCACAATTTAAATAGTCTGTAACTTTAATTATAAAAACTTATATAAAC
8016155 TTAATTTAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (50 bp):
ATTCACAATTTAAATAGTCTGTAACTTTAATTATAAAAACTTATATAAAC
Found at i:8016464 original size:13 final size:13
Alignment explanation
Indices: 8016433--8016465 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
8016423 AATAAATATA
8016433 TTATAA-AATTTT
1 TTATAATAATTTT
8016445 TTA-AATAATTTT
1 TTATAATAATTTT
8016457 TTATAATAA
1 TTATAATAA
8016466 ACTTTTTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 12 0.63
13 5 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATAATAATTTT
Found at i:8018939 original size:3 final size:3
Alignment explanation
Indices: 8018933--8018963 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8018923 AAGCATGTTG
8018933 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8018964 AATTTTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:8024999 original size:22 final size:22
Alignment explanation
Indices: 8024974--8025018 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8024964 TTTAATAAAA
8024974 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
8024996 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
8025018 A
1 A
8025019 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:8029592 original size:22 final size:22
Alignment explanation
Indices: 8029567--8029611 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8029557 TTTAATAAAA
8029567 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
8029589 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
8029611 A
1 A
8029612 CACTTACTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:8036923 original size:3 final size:3
Alignment explanation
Indices: 8036915--8036944 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
8036905 TTGCAAAAGT
8036915 TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8036945 TTTCAGCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:8040921 original size:52 final size:48
Alignment explanation
Indices: 8040859--8041030 Score: 179
Period size: 47 Copynumber: 3.6 Consensus size: 48
8040849 ATGTGATTTT
* * *
8040859 CGTATAAGACCATAGCTGGGCTACGGCTTCGGAGAAATGTGATATGTGCTTC
1 CGTATAAGACCATAGCTGGGATATGGCATC-GAG---TGTGATATGTGCTTC
* * *
8040911 CGTATAAGACCATATCCGGGATATGGCATCG-GTGTGATATGTGCTAC
1 CGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGCTTC
* * *
8040958 TGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTG-ATC
1 CGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGCTTC
* * *
8041004 CGTGTAAGACCATGGCTGGGCTATGGC
1 CGTATAAGACCATAGCTGGGATATGGC
8041031 CCCGGTATGT
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 23 0.22
47 54 0.52
50 1 0.01
51 1 0.01
52 25 0.24
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (48 bp):
CGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGCTTC
Found at i:8040965 original size:47 final size:47
Alignment explanation
Indices: 8040896--8041016 Score: 181
Period size: 47 Copynumber: 2.6 Consensus size: 47
8040886 TTCGGAGAAA
* *
8040896 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGG
1 TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
* *
8040943 TGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
* *
8040990 TGTGATATGTGAT-CCGTGTAAGACCAT
1 TGTGATATGTGCTACCGTATAAGACCAT
8041017 GGCTGGGCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
46 12 0.18
47 55 0.82
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATCCGGGATATGGCATCAG
Found at i:8047332 original size:24 final size:23
Alignment explanation
Indices: 8047304--8047352 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
8047294 TAAATTATTA
*
8047304 ATTTTTATATTTT-TTTAATGATT
1 ATTTTT-TATTTTCTTGAATGATT
*
8047327 ATTTTTTATTTTCTTGAATTATT
1 ATTTTTTATTTTCTTGAATGATT
8047350 ATT
1 ATT
8047353 ATGATTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (23 bp):
ATTTTTTATTTTCTTGAATGATT
Found at i:8059563 original size:40 final size:39
Alignment explanation
Indices: 8059479--8059613 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 39
8059469 CGTTTGAATA
* * * *
8059479 AAAAACACCGCTAAAAATC-AATCATTAGCGGCGCTATATA
1 AAAAACGCCGCTAAAAATCGAGT-ATTAGCGGCGCT-TTTC
*
8059519 AAAAACGCCGCTAAAGATCGAGTATTAGCGGCGCTTTTC
1 AAAAACGCCGCTAAAAATCGAGTATTAGCGGCGCTTTTC
* *
8059558 TAAAAACGCCACTAAAAAT-GAGCATTAGCGGCG-TTTTAC
1 -AAAAACGCCGCTAAAAATCGAGTATTAGCGGCGCTTTT-C
8059597 AAAAAGCGCCGC-AAAAA
1 AAAAA-CGCCGCTAAAAA
8059614 CCTAAACCTA
Statistics
Matches: 82, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
38 14 0.17
39 21 0.26
40 45 0.55
41 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (39 bp):
AAAAACGCCGCTAAAAATCGAGTATTAGCGGCGCTTTTC
Found at i:8059848 original size:41 final size:41
Alignment explanation
Indices: 8059653--8059848 Score: 311
Period size: 41 Copynumber: 4.8 Consensus size: 41
8059643 TTTTTAGCGA
* *
8059653 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGCTCTGGTC
* * * *
8059694 TTTAGCGGCGTTTTTGATGAAGCGCCACTAATGCTCTGGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGCTCTGGTC
* *
8059735 TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAAATCTCTGGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGCTCTGGTC
8059776 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGCTCTGGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGCTCTGGTC
*
8059817 TTTAGGGGCGTTTTTTAAGAAGCGCCGCTAAA
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAA
8059849 AGCATTTTAT
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 144 1.00
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGCTCTGGTC
Found at i:8080453 original size:29 final size:29
Alignment explanation
Indices: 8080411--8080468 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
8080401 TAAATAAATT
8080411 CTTTTTTGGAACTACATAGATCTATGGAA
1 CTTTTTTGGAACTACATAGATCTATGGAA
8080440 CTTTTTTGGAACTACATAGATCTATGGAA
1 CTTTTTTGGAACTACATAGATCTATGGAA
8080469 TCGGTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (29 bp):
CTTTTTTGGAACTACATAGATCTATGGAA
Found at i:8081646 original size:14 final size:14
Alignment explanation
Indices: 8081627--8081654 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8081617 TATTTACCTT
8081627 CGATCAATATTATC
1 CGATCAATATTATC
8081641 CGATCAATATTATC
1 CGATCAATATTATC
8081655 TTTATCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
CGATCAATATTATC
Found at i:8082225 original size:23 final size:23
Alignment explanation
Indices: 8082199--8082244 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
8082189 GGGATATTAG
8082199 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
8082222 ATATTGACTAGTTATATACGAAC
1 ATATTGACTAGTTATATACGAAC
8082245 TCAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (23 bp):
ATATTGACTAGTTATATACGAAC
Found at i:8099058 original size:48 final size:49
Alignment explanation
Indices: 8099005--8099097 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
8098995 CACCAATTAA
* * *
8099005 TCCTAAACCCTAAATCGT-AAATAGAAACTCTAAACCCCTAACCCTATC
1 TCCTAAACCCTAAATCATAAAACAAAAACTCTAAACCCCTAACCCTATC
*
8099053 TCCTAAACCCTAAATCATAAAACAAAAACTCTAAACCCTTAACCC
1 TCCTAAACCCTAAATCATAAAACAAAAACTCTAAACCCCTAACCC
8099098 CTATTTTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 17 0.43
49 23 0.57
ACGTcount: A:0.43, C:0.33, G:0.02, T:0.22
Consensus pattern (49 bp):
TCCTAAACCCTAAATCATAAAACAAAAACTCTAAACCCCTAACCCTATC
Found at i:8099221 original size:21 final size:21
Alignment explanation
Indices: 8099205--8099249 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
8099195 CACTAACTCT
*
8099205 TAACCTCTAACATCTAACCCC
1 TAACCCCTAACATCTAACCCC
8099226 TAACCCCTAAC-TACTAACCCC
1 TAACCCCTAACAT-CTAACCCC
8099247 TAA
1 TAA
8099250 ACCTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.36, C:0.42, G:0.00, T:0.22
Consensus pattern (21 bp):
TAACCCCTAACATCTAACCCC
Done.