Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001371.1 Hibiscus syriacus cultivar Beakdansim tig00002683_pilon, whole genome shotgun sequence
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: 365156
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
File 1 of 2
Found at i:3905 original size:2 final size:2
Alignment explanation
Indices: 3900--3996 Score: 180
Period size: 2 Copynumber: 49.5 Consensus size: 2
3890 TTTAAAAAAT
3900 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3941 TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3982 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
3997 GTCGCAGCCG
Statistics
Matches: 93, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
1 2 0.02
2 91 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4445 original size:12 final size:12
Alignment explanation
Indices: 4428--4490 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
4418 TAAAAAGAAG
4428 AATAAGAAAATA
1 AATAAGAAAATA
4440 AATAAGAAAA-A
1 AATAAGAAAATA
*
4451 ATTAA-ATAAATA
1 AATAAGA-AAATA
*
4463 AATAAATAAAAT-
1 AAT-AAGAAAATA
**
4475 GTTAAGAAAATA
1 AATAAGAAAATA
4487 AATA
1 AATA
4491 TTAGTCAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
10 1 0.03
11 15 0.38
12 16 0.41
13 6 0.15
14 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.22
Consensus pattern (12 bp):
AATAAGAAAATA
Found at i:4479 original size:24 final size:23
Alignment explanation
Indices: 4430--4490 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
4420 AAAAGAAGAA
4430 TAAGAAAATAAATAAGAAAAAAT
1 TAAGAAAATAAATAAGAAAAAAT
*
4453 TAA-ATAAATAAATAA-ATAAAATGT
1 TAAGA-AAATAAATAAGA-AAAA-AT
4477 TAAGAAAATAAATA
1 TAAGAAAATAAATA
4491 TTAGTCAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
22 2 0.06
23 17 0.52
24 13 0.39
25 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (23 bp):
TAAGAAAATAAATAAGAAAAAAT
Found at i:5766 original size:36 final size:35
Alignment explanation
Indices: 5726--5971 Score: 128
Period size: 36 Copynumber: 7.3 Consensus size: 35
5716 TATAAAAAAA
5726 TTAAAAACTATAAAATATATATTTTCAAAAATGTCT
1 TTAAAAACTATAAAATATATATTTTCAAAAATGT-T
* * * *
5762 TTAAAAATTATATAATATATATTTTGAACAATGTT
1 TTAAAAACTATAAAATATATATTTTCAAAAATGTT
* * * *
5797 TT-AAAACTAT---ATATATA-TAT-ATATAT-AT
1 TTAAAAACTATAAAATATATATTTTCAAAAATGTT
* * * * * *
5825 ATATATA-TAT-ATATATATATATTCAAAAATATT
1 TTAAAAACTATAAAATATATATTTTCAAAAATGTT
* *
5858 TT-AAAATTAT-ATATATATA-TTTC-AAAATGTTTT
1 TTAAAAACTATAAAATATATATTTTCAAAAATG--TT
* *
5891 TTAAAAACTATATATTATATATTTTC-AAAATGTTT
1 TTAAAAACTATAAAATATATATTTTCAAAAATG-TT
* * **
5926 TTCAAAAACTAT-ATA-ATATATTTCCAAAACCGTT
1 TT-AAAAACTATAAAATATATATTTTCAAAAATGTT
*
5960 TCAAAAACTATA
1 TTAAAAACTATA
5972 TTTTTCAAAT
Statistics
Matches: 161, Mismatches: 34, Indels: 32
0.71 0.15 0.14
Matches are distributed among these distances:
28 5 0.03
29 5 0.03
30 9 0.06
31 13 0.08
32 9 0.06
33 27 0.17
34 26 0.16
35 18 0.11
36 49 0.30
ACGTcount: A:0.47, C:0.07, G:0.02, T:0.43
Consensus pattern (35 bp):
TTAAAAACTATAAAATATATATTTTCAAAAATGTT
Found at i:5811 original size:2 final size:2
Alignment explanation
Indices: 5804--5846 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
5794 GTTTTAAAAC
5804 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5846 T
1 T
5847 TCAAAAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5947 original size:34 final size:32
Alignment explanation
Indices: 5834--6013 Score: 137
Period size: 36 Copynumber: 5.6 Consensus size: 32
5824 TATATATATA
* * *
5834 TATATATATATATTCAAAAATATTTT--AAAAT
1 TATATATATATTTTC-AAAATGTTTTCAAAAAC
*
5865 TATATATATATATTTCAAAATGTTTTTTAAAAAC
1 TATATATATAT-TTTCAAAATG-TTTTCAAAAAC
5899 TATATATTATATATTTTCAAAATGTTTTTCAAAAAC
1 --TATA-TATATATTTTCAAAATG-TTTTCAAAAAC
* *
5935 TATATAATATATTTCCAAAACCG-TTTCAAAAAC
1 TATAT-ATATATTTTCAAAA-TGTTTTCAAAAAC
5968 ----TATAT-TTTTC-AAATGTTTTC-AAAAC
1 TATATATATATTTTCAAAATGTTTTCAAAAAC
5993 TATATTATATATTTTCGAAAA
1 TATA-TATATATTTTC-AAAA
6014 CCAATTTTTA
Statistics
Matches: 123, Mismatches: 8, Indels: 34
0.75 0.05 0.21
Matches are distributed among these distances:
25 6 0.05
26 7 0.06
27 4 0.03
28 4 0.03
29 1 0.01
30 5 0.04
31 21 0.17
32 7 0.06
33 14 0.11
34 21 0.17
35 1 0.01
36 25 0.20
37 7 0.06
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (32 bp):
TATATATATATTTTCAAAATGTTTTCAAAAAC
Found at i:5967 original size:33 final size:34
Alignment explanation
Indices: 5832--5972 Score: 130
Period size: 33 Copynumber: 4.1 Consensus size: 34
5822 TATATATATA
* ** *
5832 TATATATATATATATTCAAAAATATTTT--AAAAT
1 TATATATATATAT-TTCCAAAACGTTTTCAAAAAC
* *
5865 TATATATATATATTT-CAAAATGTTTTTTAAAAAC
1 TATATATATATATTTCCAAAACG-TTTTCAAAAAC
* *
5899 TATATATTATATATTTTCAAAATGTTTTTCAAAAAC
1 TATATA-TATATATTTCCAAAACG-TTTTCAAAAAC
5935 TATATA-ATATATTTCCAAAACCG-TTTCAAAAAC
1 TATATATATATATTTCCAAAA-CGTTTTCAAAAAC
5968 TATAT
1 TATAT
5973 TTTTCAAATG
Statistics
Matches: 96, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
31 5 0.05
32 6 0.06
33 28 0.29
34 23 0.24
35 10 0.10
36 24 0.25
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (34 bp):
TATATATATATATTTCCAAAACGTTTTCAAAAAC
Found at i:6036 original size:36 final size:37
Alignment explanation
Indices: 5983--6052 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
5973 TTTTCAAATG
*
5983 TTTTCAAAACTATATTATAT-ATTTTCGAAAACCAAT
1 TTTTAAAAACTATATTATATGATTTTCGAAAACCAAT
* *
6019 TTTTAAAAAGTATATTATATGTTTTTCGAAAACC
1 TTTTAAAAACTATATTATATGATTTTCGAAAACC
6053 GTTTTAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 18 0.60
37 12 0.40
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (37 bp):
TTTTAAAAACTATATTATATGATTTTCGAAAACCAAT
Found at i:6063 original size:36 final size:36
Alignment explanation
Indices: 5988--6063 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
5978 AAATGTTTTC
*
5988 AAAACTATATTATATATTTTCGAAAACCAATTTTTA
1 AAAACTATATTATATATTTTCGAAAACCAATTTTAA
* * *
6024 AAAAGTATATTATATGTTTTTCGAAAACC-GTTTTAA
1 AAAACTATATTATAT-ATTTTCGAAAACCAATTTTAA
6060 AAAA
1 AAAA
6064 TATTTTCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 23 0.66
37 12 0.34
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.39
Consensus pattern (36 bp):
AAAACTATATTATATATTTTCGAAAACCAATTTTAA
Found at i:7000 original size:85 final size:84
Alignment explanation
Indices: 6911--7645 Score: 729
Period size: 85 Copynumber: 8.8 Consensus size: 84
6901 TCTTGACTTA
* * * **
6911 AGTTATGCTGTGAATTTGGCAT-T-CCCTTGAGCTGAATGTAATCGAACTCAAAGGTCTTTCATG
1 AGTTATGCTGT-AA-TTGG-ATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTG
6974 ACAGATAACCCTTCTCGCCTTG
63 ACAGATAACCCTTCTCGCCTTG
** * * **
6996 AGTTATGCTGTAAATTTTATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGACGAC
1 AGTTATGCTGT-AATTGGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGAC
** *
7061 AGATAGTCCTTATCGCCTTG
65 AGATAACCCTTCTCGCCTTG
* * * * * *
7081 AGCTATACTGTAAATTGGATATGCTTTTGAGCTGAAATGTAATCGAACTTGAAGGTCTTTGTTGA
1 AGTTATGCTGT-AATTGGATGTGCCTTTGAGCTG-AGTGTAATCGAACTCGAAGGTCTTTGTTGA
* * *
7146 CAGATAGCCTTTCTCACCTTG
64 CAGATAACCCTTCTCGCCTTG
* * * *
7167 AGCTATGCAGTAAATTGGATGTACCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGG
1 AGTTATGCTGT-AATTGGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGA
* *
7232 CAGATATCCCTTCTCACCTTG
64 CAGATAACCCTTCTCGCCTTG
* * * *
7253 AGCTATGCTGCAAAT-GATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACA
1 AGTTATGCTGTAATTGGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACA
* * *
7317 GATAACCCTTCTCACATTA
66 GATAACCCTTCTCGCCTTG
* * * * * *
7336 AGTTATGTTGTAAATGGGATATGCCTTTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTATTGG
1 AGTTATGCTGT-AATTGGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGA
*
7401 CAGATAGCCCTTCTCGCCTTG
64 CAGATAACCCTTCTCGCCTTG
* ** * *
7422 AGTTATGCTGCAA-AAGATGTGCCTTTGAGCTGAGTGTAATCGAACTCAAAGGTCTTGGTTGACA
1 AGTTATGCTGTAATTGGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACA
7486 GATAACCCTTCTCGCC---
66 GATAACCCTTCTCGCCTTG
* * *
7502 ----ATGCTGTAAATTGGACGTGCCTTTGAGCTGAGTGTAATCGAACTCGAATGTCTTTTGTTGG
1 AGTTATGCTGT-AATTGGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGA
* * *
7563 CAGATAGCCCTTCTCGTCTTA
64 CAGATAACCCTTCTCGCCTTG
* * * * * * *
7584 AGCTATGCTGCAAAT-GATGTGCCTTTGAGCCGAGTGTAATCAAAATCGAAGGTCTTGGTTGA
1 AGTTATGCTGTAATTGGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGA
7646 ATGTGTTTTT
Statistics
Matches: 548, Mismatches: 85, Indels: 36
0.82 0.13 0.05
Matches are distributed among these distances:
76 6 0.01
77 2 0.00
78 36 0.07
79 22 0.04
83 62 0.11
84 113 0.21
85 162 0.30
86 145 0.26
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (84 bp):
AGTTATGCTGTAATTGGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACA
GATAACCCTTCTCGCCTTG
Found at i:7166 original size:86 final size:85
Alignment explanation
Indices: 6937--7645 Score: 778
Period size: 86 Copynumber: 8.4 Consensus size: 85
6927 TGGCATTCCC
* * ** * * *
6937 TTGAGCTGAATGTAATCGAACTCAAAGGTCTTTCATGACAGATAACCCTTCTCGCCTTGAGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCACCTTGAGCTAT
** *
7002 GCTGTAAATTTTATATGCCT
66 GCTGTAAATTGGATGTGCCT
* ** * * *
7022 TTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGACGACAGATAGTCCTTATCGCCTTGAGCTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCACCTTGAGCTAT
* * *
7087 ACTGTAAATTGGATATGCTT
66 GCTGTAAATTGGATGTGCCT
* * *
7107 TTGAGCTGAAATGTAATCGAACTTGAAGGTCTTTGTTGACAGATAGCCTTTCTCACCTTGAGCTA
1 TTGAGCTG-AGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCACCTTGAGCTA
* *
7172 TGCAGTAAATTGGATGTACCT
65 TGCTGTAAATTGGATGTGCCT
* *
7193 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATATCCCTTCTCACCTTGAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAGCCCTTCTCACCTTGAGCTA
*
7258 TGCTGCAAA-T-GATGTGCCT
65 TGCTGTAAATTGGATGTGCCT
* * * * *
7277 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACATTAAGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCACCTTGAGCTAT
* * *
7342 GTTGTAAATGGGATATGCCT
66 GCTGTAAATTGGATGTGCCT
* * * * *
7362 TTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTATTGGCAGATAGCCCTTCTCGCCTTGAGTTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAGCCCTTCTCACCTTGAGCTA
* *
7427 TGCTGCAAA--AGATGTGCCT
65 TGCTGTAAATTGGATGTGCCT
* * * *
7446 TTGAGCTGAGTGTAATCGAACTCAAAGGTCTTGGTTGACAGATAACCCTTCT---C----GCCAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCACCTTGAGCTAT
*
7504 GCTGTAAATTGGACGTGCCT
66 GCTGTAAATTGGATGTGCCT
* * ** *
7524 TTGAGCTGAGTGTAATCGAACTCGAATGTCTTTTGTTGGCAGATAGCCCTTCTCGTCTTAAGCTA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAGCCCTTCTCACCTTGAGCTA
*
7589 TGCTGCAAA-T-GATGTGCCT
65 TGCTGTAAATTGGATGTGCCT
* * * *
7608 TTGAGCCGAGTGTAATCAAAATCGAAGGTCTTGGTTGA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGA
7646 ATGTGTTTTT
Statistics
Matches: 531, Mismatches: 78, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
76 10 0.02
78 36 0.07
79 19 0.04
80 1 0.00
82 1 0.00
83 59 0.11
84 108 0.20
85 141 0.27
86 156 0.29
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (85 bp):
TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAGCCCTTCTCACCTTGAGCTAT
GCTGTAAATTGGATGTGCCT
Found at i:7365 original size:169 final size:169
Alignment explanation
Indices: 6937--7645 Score: 903
Period size: 169 Copynumber: 4.2 Consensus size: 169
6927 TGGCATTCCC
* * *** * *
6937 TTGAGCTGAATGTAATCGAACTCAAAGGTCTTTCATGACAGATAACCCTTCTCGCCTTGAGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGCTAT
** * ** *
7002 GCTGTAAATTTTATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC-TTTGACGACAGATA
66 GCTGTAAATTGGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATA
* * * * * *
7066 GTCCTTATCGCCTTGAGCTATACTGTAAATTGGATATGCTT
131 GCCCTTCTCGCCTTGAGCTATGCTGCAAA-T-GATGTGCCT
* * * * *
7107 TTGAGCTGAAATGTAATCGAACTTGAAGGTCTTTGTTGACAGATAGCCTTTCTCACCTTGAGCTA
1 TTGAGCTG-AGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGCTA
* * *
7172 TGCAGTAAATTGGATGTACCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGAT
65 TGCTGTAAATTGGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGAT
* *
7237 ATCCCTTCTCACCTTGAGCTATGCTGCAAATGATGTGCCT
130 AGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCT
* * *
7277 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACATTAAGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGCTAT
* * * *
7342 GTTGTAAATGGGATATGCCTTTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTATTGGCAGATA
66 GCTGTAAATTGGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATA
* *
7407 GCCCTTCTCGCCTTGAGTTATGCTGCAAAAGATGTGCCT
131 GCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCT
* *
7446 TTGAGCTGAGTGTAATCGAACTCAAAGGTCTTGGTTGACAGATAACCCTTCT---C----GCCAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGCTAT
** *
7504 GCTGTAAATTGGACGTGCCTTTGAGCTGAGTGTAATCGAACTCGAATGTCTTTTGTTGGCAGATA
66 GCTGTAAATTGGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATA
* *
7569 GCCCTTCTCGTCTTAAGCTATGCTGCAAATGATGTGCCT
131 GCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCT
* * *
7608 TTGAGCCGAGTGTAATCAAAATCGAAGGTCTTGGTTGA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGA
7646 ATGTGTTTTT
Statistics
Matches: 474, Mismatches: 63, Indels: 12
0.86 0.11 0.02
Matches are distributed among these distances:
162 130 0.27
169 193 0.41
170 23 0.05
171 94 0.20
172 34 0.07
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (169 bp):
TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACCTTGAGCTAT
GCTGTAAATTGGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATA
GCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCT
Found at i:7621 original size:331 final size:334
Alignment explanation
Indices: 6937--7645 Score: 940
Period size: 331 Copynumber: 2.1 Consensus size: 334
6927 TGGCATTCCC
* * *** * * *
6937 TTGAGCTGAATGTAATCGAACTCAAAGGTCTTTCATGACAGATAACCCTTCTCGCCTTGAGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACATTAAGTTAT
*** *
7002 GCTGTAAATTTTATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGACGACAGATAG
66 GCTGTAAATGGGATATGCCTTTGAGCTGAACGTAATCGAACTCGAAGGTCTTTGACGACAGATAG
* * * * **
7067 TCCTTATCGCCTTGAGCTATACTGTAAATTGGATATGCTTTTGAGCTGAAATGTAATCGAACTTG
131 CCCTTATCGCCTTGAGCTATACTGCAAA-TAGATATGCCTTTGAGCTGAAATGTAATCGAACTCA
* * * * *
7132 AAGGTCTTTGTTGACAGATAGCCTTTCTCACCTTGAGCTATGCAGTAAATTGGATGTACCTTTGA
195 AAGGTCTTGGTTGACAGATAACCCTTCT--CC-T--GCCATGCAGTAAATTGGACGTACCTTTGA
* *
7197 GCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATATCCCTTCTCACCTTGAGCTATGCT
255 GCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTAAGCTATGCT
7262 GCAAATGATGTGCCT
320 GCAAATGATGTGCCT
7277 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACATTAAGTTAT
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACATTAAGTTAT
* * * * *
7342 GTTGTAAATGGGATATGCCTTTGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTATTGGCAGATA
66 GCTGTAAATGGGATATGCCTTTGAGCTGAACGTAATCGAACTCGAAGGTCTTTGA-CGACAGATA
* * * * *
7407 GCCCTTCTCGCCTTGAGTTATGCTGCAAA-AGATGTGCCTTTGAGCTG-AGTGTAATCGAACTCA
130 GCCCTTATCGCCTTGAGCTATACTGCAAATAGATATGCCTTTGAGCTGAAATGTAATCGAACTCA
* *
7470 AAGGTCTTGGTTGACAGATAACCCTTCT-C-GCCATGCTGTAAATTGGACGTGCCTTTGAGCTGA
195 AAGGTCTTGGTTGACAGATAACCCTTCTCCTGCCATGCAGTAAATTGGACGTACCTTTGAGCTGA
* **
7533 GTGTAATCGAACTCGAATGTCTTTTGTTGGCAGATAGCCCTTCTCGTCTTAAGCTATGCTGCAAA
260 GTGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTAAGCTATGCTGCAAA
7598 TGATGTGCCT
325 TGATGTGCCT
* * *
7608 TTGAGCCGAGTGTAATCAAAATCGAAGGTCTTGGTTGA
1 TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGA
7646 ATGTGTTTTT
Statistics
Matches: 325, Mismatches: 43, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
331 135 0.42
335 1 0.00
338 38 0.12
339 15 0.05
340 105 0.32
341 31 0.10
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (334 bp):
TTGAGCTGAGTGTAATCGAACTCGAAGGTCTTGGTTGACAGATAACCCTTCTCACATTAAGTTAT
GCTGTAAATGGGATATGCCTTTGAGCTGAACGTAATCGAACTCGAAGGTCTTTGACGACAGATAG
CCCTTATCGCCTTGAGCTATACTGCAAATAGATATGCCTTTGAGCTGAAATGTAATCGAACTCAA
AGGTCTTGGTTGACAGATAACCCTTCTCCTGCCATGCAGTAAATTGGACGTACCTTTGAGCTGAG
TGTAATCGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTCACCTTAAGCTATGCTGCAAAT
GATGTGCCT
Found at i:15791 original size:20 final size:21
Alignment explanation
Indices: 15758--15797 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
15748 TTTTAACGTA
**
15758 ATTGATATTCATTTT-AAACC
1 ATTGATATAAATTTTCAAACC
15778 ATTGATATAAATTTTCAAAC
1 ATTGATATAAATTTTCAAAC
15798 AATTTGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATAAATTTTCAAACC
Found at i:19161 original size:23 final size:21
Alignment explanation
Indices: 19110--19170 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 21
19100 TTTGGTGCAA
*
19110 AGGGAATCGA-TCCCCCCTTG
1 AGGGAACCGATTCCCCCCTTG
*
19130 AGGGAACCGATTCCCCCTTTG
1 AGGGAACCGATTCCCCCCTTG
19151 AAGGGGAACCGATTCCCCCC
1 -A-GGGAACCGATTCCCCCC
19171 ACAGGAGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.26
21 9 0.26
22 1 0.03
23 16 0.46
ACGTcount: A:0.21, C:0.36, G:0.25, T:0.18
Consensus pattern (21 bp):
AGGGAACCGATTCCCCCCTTG
Found at i:22604 original size:18 final size:20
Alignment explanation
Indices: 22583--22628 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 20
22573 AAAAGGCATT
22583 AATAAAAAAGAA-A-ATAA-A
1 AATAAAAAA-AACATATAATA
22601 AATAATAAAAAACATATAATA
1 AATAA-AAAAAACATATAATA
22622 AATAAAA
1 AATAAAA
22629 TAATATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 7 0.29
19 5 0.21
20 6 0.25
21 6 0.25
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (20 bp):
AATAAAAAAAACATATAATA
Found at i:22699 original size:36 final size:35
Alignment explanation
Indices: 22657--22890 Score: 249
Period size: 36 Copynumber: 6.4 Consensus size: 35
22647 ATATAAAAAA
*
22657 TTAAAAACTATATAATATATATTTTCAAAAATATCT
1 TTAAAAACTATATAATATATATTTTCAAAAATGT-T
* *
22693 TTAAAAATTATATAATATATATTTTCAACAATGTT
1 TTAAAAACTATATAATATATATTTTCAAAAATGTT
22728 TTAAAAACTATATAATATATATATTTTTTCAAAAATGTT
1 TTAAAAACTATAT-A-ATATATA--TTTTCAAAAATGTT
* *
22767 TTAAAAATTATATATTATATATTTTTTC-AAAATGTTTT
1 TTAAAAACTATATA--ATATATATTTTCAAAAATG--TT
*
22805 TTAAAAACTATATTATATATATATTT--AAAATGTTT
1 TTAAAAACTATATAATATATAT-TTTCAAAAATG-TT
* *
22840 TTCAAAAACTATATAATATATATTTCCAAAAACCGTT
1 TT-AAAAACTATATAATATATATTTTCAAAAA-TGTT
22877 TTCAAAAACTATAT
1 TT-AAAAACTATAT
22891 TTTTCAAAAT
Statistics
Matches: 173, Mismatches: 13, Indels: 23
0.83 0.06 0.11
Matches are distributed among these distances:
35 20 0.12
36 70 0.40
37 35 0.20
38 16 0.09
39 32 0.18
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (35 bp):
TTAAAAACTATATAATATATATTTTCAAAAATGTT
Found at i:23016 original size:2 final size:2
Alignment explanation
Indices: 23009--23033 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22999 TACTATATTA
23009 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
23034 ATAAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25326 original size:31 final size:31
Alignment explanation
Indices: 25288--25351 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
25278 TAATGATCAC
* *
25288 ATCTTAATTAAATATAAATATAAATTATTAA
1 ATCTTAATTAAATAAAAATAAAAATTATTAA
25319 ATCTTAATTAAATAAAAATAAAAATTATTAA
1 ATCTTAATTAAATAAAAATAAAAATTATTAA
25350 AT
1 AT
25352 ATTATATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (31 bp):
ATCTTAATTAAATAAAAATAAAAATTATTAA
Found at i:28891 original size:31 final size:33
Alignment explanation
Indices: 28853--28914 Score: 92
Period size: 31 Copynumber: 1.9 Consensus size: 33
28843 AAAACGAACC
**
28853 AAAAATAATTTGATGACTAAA-ACA-AAATTAT
1 AAAAATAATTAAATGACTAAATACATAAATTAT
28884 AAAAATAATTAAATGACTAAATACATAAATT
1 AAAAATAATTAAATGACTAAATACATAAATT
28915 CCCTATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 19 0.70
32 3 0.11
33 5 0.19
ACGTcount: A:0.60, C:0.06, G:0.05, T:0.29
Consensus pattern (33 bp):
AAAAATAATTAAATGACTAAATACATAAATTAT
Found at i:32108 original size:23 final size:22
Alignment explanation
Indices: 32063--32114 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
32053 TTACAATAAG
32063 AATATTTTATAATATAATCAAAT
1 AATATTTTATAATATAA-CAAAT
*
32086 TATATTGTTATAATATTAA-AAAT
1 AATATT-TTATAATA-TAACAAAT
32109 AATATT
1 AATATT
32115 ATTAGTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 14 0.56
24 8 0.32
25 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
AATATTTTATAATATAACAAAT
Found at i:32175 original size:28 final size:28
Alignment explanation
Indices: 32099--32172 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 28
32089 ATTGTTATAA
*
32099 TATTAA-AAATAATATTATTAGTAAAAT
1 TATTAATAAATAATATTAATAGTAAAAT
* *
32126 TATTAATAAATATATGTTAATAGT-TAAT
1 TATTAATAAATA-ATATTAATAGTAAAAT
* *
32154 TTTTATTAAATAATATTAA
1 TATTAATAAATAATATTAA
32173 ATAATATATT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
27 12 0.31
28 18 0.46
29 9 0.23
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
TATTAATAAATAATATTAATAGTAAAAT
Found at i:48236 original size:21 final size:22
Alignment explanation
Indices: 48190--48237 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
48180 TCCTTGTATG
*
48190 GGGGAATCGGTTCCCATTCAAA
1 GGGGAATCGGTGCCCATTCAAA
* *
48212 GGGGAATCGGTGCCCCTTCAAG
1 GGGGAATCGGTGCCCATTCAAA
48234 GGGG
1 GGGG
48238 TATCAATTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.38, T:0.19
Consensus pattern (22 bp):
GGGGAATCGGTGCCCATTCAAA
Found at i:53646 original size:20 final size:20
Alignment explanation
Indices: 53617--53697 Score: 92
Period size: 20 Copynumber: 4.0 Consensus size: 20
53607 ACCGTTAGAC
53617 AGGGGGAATCGGTACCCCCT
1 AGGGGGAATCGGTACCCCCT
* *
53637 -GGGGGAAATCTGTAACCCCT
1 AGGGGG-AATCGGTACCCCCT
*
53657 AGGGGGAATCGGTACCCCAT
1 AGGGGGAATCGGTACCCCCT
* *
53677 GGGGGGAAATCTGTACCCCCT
1 AGGGGG-AATCGGTACCCCCT
53698 GGACATTCTG
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
19 5 0.10
20 28 0.56
21 17 0.34
ACGTcount: A:0.22, C:0.27, G:0.33, T:0.17
Consensus pattern (20 bp):
AGGGGGAATCGGTACCCCCT
Found at i:53672 original size:40 final size:41
Alignment explanation
Indices: 53617--53697 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 41
53607 ACCGTTAGAC
*
53617 AGGGGGAATCGGTACCCCCT-GGGGGAAATCTGTAACCCCT
1 AGGGGGAATCGGTACCCCATGGGGGGAAATCTGTAACCCCT
*
53657 AGGGGGAATCGGTACCCCATGGGGGGAAATCTGTACCCCCT
1 AGGGGGAATCGGTACCCCATGGGGGGAAATCTGTAACCCCT
53698 GGACATTCTG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 19 0.50
41 19 0.50
ACGTcount: A:0.22, C:0.27, G:0.33, T:0.17
Consensus pattern (41 bp):
AGGGGGAATCGGTACCCCATGGGGGGAAATCTGTAACCCCT
Found at i:57575 original size:44 final size:44
Alignment explanation
Indices: 57520--57618 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
57510 TTTAGCGGTA
* * *
57520 TTTTTCAGATACATACACCACAACAGGTCTGGTATATAGAGGAG
1 TTTTTCAGATACAAACACCACAAAAGGTCTGATATATAGAGGAG
* * * * *
57564 TTTTTCGGATACAAACGCCGCAAAAGGTCTGATATATAGCGGCG
1 TTTTTCAGATACAAACACCACAAAAGGTCTGATATATAGAGGAG
57608 TTTTTCAGATA
1 TTTTTCAGATA
57619 AAAATGCCGT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
TTTTTCAGATACAAACACCACAAAAGGTCTGATATATAGAGGAG
Found at i:57638 original size:44 final size:44
Alignment explanation
Indices: 57546--57676 Score: 154
Period size: 44 Copynumber: 3.0 Consensus size: 44
57536 ACCACAACAG
* * * * *
57546 GTCTGGTATATAGAGGAGTTTTTCGGATACAAACGCCGCAAAAG
1 GTCTGGTATATAGCGGCGTTTTTCAGATAAAAACGCCGCAAAAA
* * *
57590 GTCTGATATATAGCGGCGTTTTTCAGATAAAAATGCCGTAAAAA
1 GTCTGGTATATAGCGGCGTTTTTCAGATAAAAACGCCGCAAAAA
** * *
57634 GTCTGGTATATAGCGGCGTTTTTTTGTTACAAACGCCGCAAAA
1 GTCTGGTATATAGCGGCGTTTTTCAGATAAAAACGCCGCAAAA
57677 TATCTAAACT
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 72 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (44 bp):
GTCTGGTATATAGCGGCGTTTTTCAGATAAAAACGCCGCAAAAA
Found at i:58115 original size:21 final size:21
Alignment explanation
Indices: 58074--58115 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
58064 TTGTTGATAT
*
58074 GTTGCTTCTCTCTATGTTTCC
1 GTTGCTTCTCTCTATGCTTCC
* *
58095 GTTGTTTCTCTCTCTGCTTCC
1 GTTGCTTCTCTCTATGCTTCC
58116 CTCGCTTCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.02, C:0.31, G:0.14, T:0.52
Consensus pattern (21 bp):
GTTGCTTCTCTCTATGCTTCC
Found at i:61470 original size:2 final size:2
Alignment explanation
Indices: 61463--61494 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
61453 AAGCAAGGAG
61463 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61495 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63490 original size:20 final size:20
Alignment explanation
Indices: 63427--63560 Score: 187
Period size: 20 Copynumber: 6.7 Consensus size: 20
63417 TTTCCCAAAT
63427 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * * ** *
63447 TCGTAACGTGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
63468 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
63488 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
63508 TCACAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
63528 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
63548 TCGCAATGCGAAT
1 TCGCAATGCGAAT
63561 CTGACTATCA
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 84 0.87
21 13 0.13
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:63782 original size:22 final size:22
Alignment explanation
Indices: 63757--63820 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
63747 GGCGACATCC
63757 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* * *
63779 GTCCCCATCGCCGACTATATCA
1 GTCCCCATCTCCGACGAAATCA
* *
63801 GTCTCCATCTCCGGCGAAAT
1 GTCCCCATCTCCGACGAAAT
63821 AATTCACGGT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.23, C:0.39, G:0.16, T:0.22
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:64215 original size:20 final size:20
Alignment explanation
Indices: 64190--64239 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
64180 TGCGATTCTT
64190 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
64210 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
64230 GTGTTGCGAT
1 GCGTTGCGAT
64240 TTTCATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:64245 original size:20 final size:20
Alignment explanation
Indices: 64207--64261 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
64197 GATAGTCAAA
* **
64207 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
64227 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
64247 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
64262 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:64269 original size:20 final size:20
Alignment explanation
Indices: 64226--64269 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
64216 CGATAGTCAT
** *
64226 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
64246 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
64266 TTTC
1 TTTC
64270 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:66165 original size:20 final size:20
Alignment explanation
Indices: 66140--66196 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
66130 AGAATAGTTT
*
66140 ACTATCGCAATGCGAAAATG
1 ACTATCGCAACGCGAAAATG
66160 ACTATCGCAACGCGAAAATG
1 ACTATCGCAACGCGAAAATG
* *
66180 ACTATCACAACGAGAAA
1 ACTATCGCAACGCGAAA
66197 TTGCATTGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.23, G:0.18, T:0.16
Consensus pattern (20 bp):
ACTATCGCAACGCGAAAATG
Found at i:66241 original size:20 final size:20
Alignment explanation
Indices: 66216--66302 Score: 84
Period size: 20 Copynumber: 4.3 Consensus size: 20
66206 GATTCTTTCG
*
66216 TTGCGATAGTTAAATTCGTA
1 TTGCGATAGTCAAATTCGTA
**
66236 TTGCGATAGTCATTTTCGTA
1 TTGCGATAGTCAAATTCGTA
** *
66256 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGTA
* ** *
66276 TTGTGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGTA
66296 TTGCGAT
1 TTGCGAT
66303 TTTGTTGTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.43
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGTA
Found at i:66261 original size:40 final size:40
Alignment explanation
Indices: 66216--66409 Score: 128
Period size: 40 Copynumber: 5.2 Consensus size: 40
66206 GATTCTTTCG
* * *
66216 TTGCGATAGTTAAATTCGTATTGCGATAGTCATTTTCGTA
1 TTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCA
** *
66256 TTGCGATAGTCATTTTCGCATTGTGATAGTCATTTTCGCA
1 TTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCA
*** **
66296 TTGCGAT--T-TTGTT-G--TTGCGATTTTCA-TTTCGCA
1 TTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCA
*
66329 TTGCGAT--TC---TCTCG--TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAAT-TCGCATTGCGATAGTCATTTTCGCA
* ** * *
66363 TTGCGATAGTTATTTTCGCGTTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCA
66403 TTGCGAT
1 TTGCGAT
66410 TTTAAGTTTC
Statistics
Matches: 128, Mismatches: 15, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
31 1 0.01
32 1 0.01
33 26 0.20
34 22 0.17
36 2 0.02
37 3 0.02
38 4 0.03
39 1 0.01
40 68 0.53
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.44
Consensus pattern (40 bp):
TTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCA
Found at i:66366 original size:20 final size:20
Alignment explanation
Indices: 66341--66409 Score: 129
Period size: 20 Copynumber: 3.5 Consensus size: 20
66331 GCGATTCTCT
66341 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
66361 CGTTGCGATAGTTATTTTCG
1 CGTTGCGATAGTCATTTTCG
66381 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
66401 CGTTGCGAT
1 CGTTGCGAT
66410 TTTAAGTTTC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.14, C:0.19, G:0.26, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:66984 original size:21 final size:21
Alignment explanation
Indices: 66893--66997 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 21
66883 GACTCACCTG
*
66893 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
66915 T-ATCGTTTAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
66935 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
66956 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
66977 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
66998 CCAACATTCT
Statistics
Matches: 61, Mismatches: 21, Indels: 3
0.72 0.25 0.04
Matches are distributed among these distances:
20 3 0.05
21 57 0.93
22 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:66990 original size:42 final size:42
Alignment explanation
Indices: 66890--67000 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 42
66880 CCTGACTCAC
* * * * *
66890 CTGTCATCGTTCAAGAGGCCTCC-CCTATCGTTTAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCACCGTTCAAGAGGCCA
* **
66932 CTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
*
66974 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
67001 ACATTCTAGA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.93
43 2 0.04
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCACCGTTCAAGAGGCCA
Found at i:68385 original size:14 final size:14
Alignment explanation
Indices: 68366--68401 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
68356 ATTGTTTAAT
68366 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
68380 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
68394 TGATTTGT
1 TGATTTGT
68402 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:68595 original size:34 final size:33
Alignment explanation
Indices: 68509--68602 Score: 134
Period size: 33 Copynumber: 2.8 Consensus size: 33
68499 AACAAACTAC
* **
68509 CGCAACGCGGAAATGACTATCGCAACGAGAGAAT
1 CGCAATGC-GAAATGAAAATCGCAACGAGAGAAT
*
68543 CGCAATGCGAAATGAAAATCGCAACGAGTGAAT
1 CGCAATGCGAAATGAAAATCGCAACGAGAGAAT
68576 CGCAATGCGAAAATGAAAATCGCAACG
1 CGCAATGCG-AAATGAAAATCGCAACG
68603 CGAAATTAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
33 31 0.56
34 24 0.44
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.13
Consensus pattern (33 bp):
CGCAATGCGAAATGAAAATCGCAACGAGAGAAT
Found at i:68598 original size:20 final size:19
Alignment explanation
Indices: 68540--68608 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
68530 GCAACGAGAG
68540 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
68559 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
68573 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
68593 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
68609 TAGTTTTGCG
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
14 8 0.20
16 5 0.12
17 2 0.05
18 3 0.07
19 12 0.29
20 11 0.27
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:68674 original size:33 final size:33
Alignment explanation
Indices: 68617--68712 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
68607 ATTAGTTTTG
68617 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
*
68651 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
** *
68684 CGTTGCGATAGTCATTTCTGCGTTGCGAT
1 CGTTGCGATTTTCATTTC-GCATTGCGAT
68713 AGTCAATTCT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 34 0.60
34 23 0.40
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:68709 original size:20 final size:20
Alignment explanation
Indices: 68684--68772 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
68674 GCGATTCTCT
68684 CGTTGCGATAGTCATTTCTG
1 CGTTGCGATAGTCATTTCTG
*
68704 CGTTGCGATAGTCAATTCTG
1 CGTTGCGATAGTCATTTCTG
*
68724 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCTG
* *
68744 TGTTGTGATAGTCATATTC-G
1 CGTTGCGATAGTCAT-TTCTG
68764 CGTTGCGAT
1 CGTTGCGAT
68773 TTCCGCATTG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 58 0.95
21 3 0.05
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCTG
Found at i:71242 original size:24 final size:24
Alignment explanation
Indices: 71191--71242 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
71181 ATCTGAGTAT
** *
71191 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
71215 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
71239 TGAC
1 TGAC
71243 TAGTACTCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:72095 original size:20 final size:20
Alignment explanation
Indices: 72070--72116 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
72060 AAATTCAGTA
*
72070 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
72090 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCGCG
72110 TTGCGAT
1 TTGCGAT
72117 TTACGTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:72126 original size:20 final size:20
Alignment explanation
Indices: 72103--72236 Score: 196
Period size: 20 Copynumber: 6.7 Consensus size: 20
72093 CGATAGTCAG
*
72103 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
72123 ATTCGCATTGCGATTTACAT
1 ATTCGCATTGCGATTTACGT
72143 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
72163 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * **
72183 AATCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
72204 ATTCGCCTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
72224 ATTCGCATTGCGA
1 ATTCGCATTGCGA
72237 ATTAGGAAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
20 85 0.85
21 15 0.15
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:72232 original size:61 final size:60
Alignment explanation
Indices: 72103--72236 Score: 214
Period size: 61 Copynumber: 2.2 Consensus size: 60
72093 CGATAGTCAG
* * *
72103 ATTCGCGTTGCGATTTACGTATTCGCATTGCGATTTACATATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACAAATTCGCATTGCGATTTACGT
* *
72163 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCAAATTCGCCTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGA-TTTACAAATTCGCATTGCGATTTACGT
72224 ATTCGCATTGCGA
1 ATTCGCATTGCGA
72237 ATTAGGAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
60 31 0.46
61 37 0.54
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (60 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACAAATTCGCATTGCGATTTACGT
Found at i:72259 original size:21 final size:21
Alignment explanation
Indices: 72233--72278 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
72223 TATTCGCATT
72233 GCGAATTAGGAAAATCACAAC
1 GCGAATTAGGAAAATCACAAC
* * * *
72254 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCACAAC
72275 GCGA
1 GCGA
72279 TAGTCAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCACAAC
Found at i:72891 original size:20 final size:20
Alignment explanation
Indices: 72866--72913 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
72856 TCACAGAAGA
72866 TAAGATTACCAGTAGAAATG
1 TAAGATTACCAGTAGAAATG
* * *
72886 TAAGATAACCAGTGGGAATG
1 TAAGATTACCAGTAGAAATG
72906 TAAGATTA
1 TAAGATTA
72914 TCAGGGAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.08, G:0.23, T:0.25
Consensus pattern (20 bp):
TAAGATTACCAGTAGAAATG
Found at i:73143 original size:35 final size:35
Alignment explanation
Indices: 73071--73144 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
73061 CAAGTTGGAA
*
73071 AAAATTTATATATTTTTTAAAAAAATTAAATTCAT
1 AAAATTTATATATTTTTTAAAAAAATTAAAATCAT
* *
73106 AAAATTTATATATTTTTTTACAAAATTGAAAAT-AT
1 AAAATTTATATATTTTTTAAAAAAATT-AAAATCAT
73141 AAAA
1 AAAA
73145 AAGTTTCATG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 31 0.89
36 4 0.11
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (35 bp):
AAAATTTATATATTTTTTAAAAAAATTAAAATCAT
Found at i:79120 original size:13 final size:13
Alignment explanation
Indices: 79102--79135 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
79092 ATGGGCAAAT
*
79102 TTTGAAAACTATG
1 TTTGAAAACAATG
79115 TTTGAAAACAATG
1 TTTGAAAACAATG
79128 TTTGAAAA
1 TTTGAAAA
79136 TTAATGTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:83635 original size:34 final size:32
Alignment explanation
Indices: 83582--83651 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
83572 ACCTTACAAC
*
83582 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTTACGGGCTAAACTAGAACCTT
*
83614 TCCCTAGCTTTTATACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTT-TACGGGCTAAACTAGAACCTT
83648 TCCC
1 TCCC
83652 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 4 0.12
34 23 0.68
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTTACGGGCTAAACTAGAACCTT
Found at i:83959 original size:21 final size:21
Alignment explanation
Indices: 83933--83974 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
83923 CCAGAATGGG
*
83933 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
83954 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
83975 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:84038 original size:21 final size:21
Alignment explanation
Indices: 84012--84052 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
84002 GTTGAACAGA
84012 GGGGGAATCGGTACCCCCTGT
1 GGGGGAATCGGTACCCCCTGT
84033 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
84053 GACATTCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.29, G:0.39, T:0.17
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCCTGT
Found at i:84129 original size:15 final size:15
Alignment explanation
Indices: 84109--84138 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
84099 ACCCCATGGG
84109 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
84124 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
84139 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:84148 original size:21 final size:21
Alignment explanation
Indices: 84087--84166 Score: 73
Period size: 22 Copynumber: 4.0 Consensus size: 21
84077 AAAACCTGCA
*
84087 GGGGGAATCTGTACCCCATGG
1 GGGGGAATCTGTACCCCCTGG
*
84108 GGGGGTATCTGTA--CCC---
1 GGGGGAATCTGTACCCCCTGG
*
84124 -GGGGTATCTGTACCCCCTGGG
1 GGGGGAATCTGTACCCCCT-GG
*
84145 GGGGGAATCTATACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
84166 G
1 G
84167 CAATCTTGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
15 12 0.25
17 3 0.06
19 2 0.04
21 15 0.31
22 16 0.33
ACGTcount: A:0.15, C:0.26, G:0.38, T:0.21
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:84160 original size:37 final size:36
Alignment explanation
Indices: 84088--84160 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
84078 AAACCTGCAG
* *
84088 GGGGAATCTGTACCCCATGGGGGGGTATCTGTACCC
1 GGGGAATCTGTACCCCATGGGGGGGAATCTATACCC
* *
84124 GGGGTATCTGTACCCCCTGGGGGGGGAATCTATACCC
1 GGGGAATCTGTACCCCAT-GGGGGGGAATCTATACCC
84161 CCTGGGCAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 16 0.50
37 16 0.50
ACGTcount: A:0.16, C:0.26, G:0.36, T:0.22
Consensus pattern (36 bp):
GGGGAATCTGTACCCCATGGGGGGGAATCTATACCC
Found at i:84288 original size:29 final size:32
Alignment explanation
Indices: 84256--84316 Score: 101
Period size: 29 Copynumber: 2.0 Consensus size: 32
84246 AAACTTTGAA
84256 TAAATTCAATT-AAGTCC-AAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAAACCATTTTG
84285 TAAATTCAATTCAAGTCCAAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAAACCATTTTG
84317 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 11 0.38
30 6 0.21
31 5 0.17
32 7 0.24
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (32 bp):
TAAATTCAATTCAAGTCCAAAAAACCATTTTG
Found at i:86104 original size:3 final size:3
Alignment explanation
Indices: 86096--86133 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
86086 TACGTCCTCA
* *
86096 TTC TTC TTC TTC TTC TTC TTC TTG TTT TTC TTC -TC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
86134 CCTTTCTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:87177 original size:34 final size:32
Alignment explanation
Indices: 87124--87193 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
87114 ACCTTACAAC
*
87124 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTTACGGGCTAAACTAGAACCTT
*
87156 TCCCTAGCTTTTATACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTT-TACGGGCTAAACTAGAACCTT
87190 TCCC
1 TCCC
87194 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 4 0.12
34 23 0.68
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTTACGGGCTAAACTAGAACCTT
Found at i:87501 original size:21 final size:21
Alignment explanation
Indices: 87475--87516 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
87465 CCATAATGGG
*
87475 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
87496 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
87517 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:87580 original size:21 final size:21
Alignment explanation
Indices: 87554--87594 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
87544 GTTGAACAGA
87554 GGGGGAATCGGTACCCCCTGT
1 GGGGGAATCGGTACCCCCTGT
87575 GGGGGAATCGGTACCCCCTG
1 GGGGGAATCGGTACCCCCTG
87595 GACATTCTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.29, G:0.39, T:0.17
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCCTGT
Found at i:87654 original size:21 final size:21
Alignment explanation
Indices: 87629--87707 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
87619 AAAACCTGCA
87629 GGGGGAATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
*
87650 GGGGGTATCTGTA--CCC---
1 GGGGGAATCTGTACCCCCTGG
*
87666 -GGGGTATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
*
87686 GGGGGAATCTATACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
87707 G
1 G
87708 CAATCTTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
15 12 0.24
17 3 0.06
19 3 0.06
21 31 0.63
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.22
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:87671 original size:15 final size:15
Alignment explanation
Indices: 87651--87680 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
87641 ACCCCCTGGG
87651 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
87666 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
87681 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:87675 original size:36 final size:36
Alignment explanation
Indices: 87630--87701 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
87620 AAACCTGCAG
* *
87630 GGGGAATCTGTACCCCCTGGGGGGGTATCTGTACCC
1 GGGGAATCTGTACCCCCTGGGGGGGAATCTATACCC
*
87666 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
1 GGGGAATCTGTACCCCCTGGGGGGGAATCTATACCC
87702 CCTGGGCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.15, C:0.28, G:0.35, T:0.22
Consensus pattern (36 bp):
GGGGAATCTGTACCCCCTGGGGGGGAATCTATACCC
Found at i:87829 original size:29 final size:31
Alignment explanation
Indices: 87797--87856 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
87787 AAACTTTGAA
87797 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
87826 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
87857 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:90893 original size:32 final size:32
Alignment explanation
Indices: 90843--90933 Score: 114
Period size: 32 Copynumber: 2.8 Consensus size: 32
90833 CCAAGGGAGA
*
90843 ACTTATGGCC-TAAGAGCCTACCCAAGGAAAT-
1 ACTTAGGGCCTTAA-AGCCTACCCAAGGAAATG
*
90874 ACATTGGGGCCTTAAAGCCTACCCAAGGAAATG
1 AC-TTAGGGCCTTAAAGCCTACCCAAGGAAATG
* *
90907 TCTTAGGGCCTGAAAGCCTACCCAAGG
1 ACTTAGGGCCTTAAAGCCTACCCAAGG
90934 TCACCTTAGG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
31 2 0.04
32 46 0.88
33 4 0.08
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (32 bp):
ACTTAGGGCCTTAAAGCCTACCCAAGGAAATG
Found at i:94628 original size:16 final size:18
Alignment explanation
Indices: 94609--94644 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
94599 TCACATATAT
94609 TATAAAAA-AATA-TAAA
1 TATAAAAATAATATTAAA
94625 TATAAAAATAATATTAAA
1 TATAAAAATAATATTAAA
94643 TA
1 TA
94645 AATGATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 4 0.22
18 6 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAAATAATATTAAA
Found at i:97728 original size:25 final size:25
Alignment explanation
Indices: 97678--97726 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
97668 GCTTTTGAAA
*
97678 AAAATAAAAGTTTAGGTACTAAAAC
1 AAAATAAAAGTATAGGTACTAAAAC
*
97703 AAAATAAAAGTGATAGTTACTAAA
1 AAAATAAAAGT-ATAGGTACTAAA
97727 CATATAGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.57, C:0.06, G:0.12, T:0.24
Consensus pattern (25 bp):
AAAATAAAAGTATAGGTACTAAAAC
Found at i:98797 original size:38 final size:37
Alignment explanation
Indices: 98714--98835 Score: 146
Period size: 38 Copynumber: 3.4 Consensus size: 37
98704 TTTTCACCCT
* * *
98714 AAACCCGAACCCGACCCGACCTGAATATCATACTTAAA
1 AAACCCG-ACCCGACTCGACCCGAATATCACACTTAAA
98752 AAA----ACCCGA-TCAGACCCGAATATCACACTTAAAA
1 AAACCCGACCCGACTC-GACCCGAATATCACACTT-AAA
*
98786 AAATCCGACCCGACTCGACCCGAATATCACACTTAAA
1 AAACCCGACCCGACTCGACCCGAATATCACACTTAAA
98823 AAACCCGACCCGA
1 AAACCCGACCCGA
98836 ACAAAATAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
32 1 0.01
33 22 0.30
34 6 0.08
37 15 0.21
38 27 0.37
39 2 0.03
ACGTcount: A:0.41, C:0.34, G:0.11, T:0.14
Consensus pattern (37 bp):
AAACCCGACCCGACTCGACCCGAATATCACACTTAAA
Found at i:99620 original size:26 final size:26
Alignment explanation
Indices: 99587--99647 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
99577 ATGTGGAGAC
99587 GAAGAACAATGTTCAACACAAGGGAA
1 GAAGAACAATGTTCAACACAAGGGAA
99613 GAAGAACAATGTTCAACACAAGGGAA
1 GAAGAACAATGTTCAACACAAGGGAA
*
99639 GATGAACAA
1 GAAGAACAA
99648 CAATGGCACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.51, C:0.15, G:0.23, T:0.11
Consensus pattern (26 bp):
GAAGAACAATGTTCAACACAAGGGAA
Found at i:102574 original size:30 final size:30
Alignment explanation
Indices: 102535--102596 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
102525 TATCCAAACG
*
102535 ACCAACATGATGGGAACACTGATCAAACAA
1 ACCAACATGATGGGAACACAGATCAAACAA
* *
102565 ACCAGCATGATGGGAACACAGATCGAACAA
1 ACCAACATGATGGGAACACAGATCAAACAA
102595 AC
1 AC
102597 ATGCAAGACG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.24, G:0.19, T:0.11
Consensus pattern (30 bp):
ACCAACATGATGGGAACACAGATCAAACAA
Found at i:103528 original size:41 final size:41
Alignment explanation
Indices: 103483--103613 Score: 113
Period size: 41 Copynumber: 3.2 Consensus size: 41
103473 ACAAACGCTT
103483 CAATAGATTATAAATTTTGCGGCGATTTAGCCAAAACGCCG
1 CAATAGATTATAAATTTTGCGGCGATTTAGCCAAAACGCCG
* ** * * * * *
103524 CAATATAGTGGTAAA-CTGGCAGCGTTTTTA-CCACAAACGCCA
1 CAATAGA-TTATAAATTTTGCGGCG-ATTTAGCCA-AAACGCCG
* * *
103566 CAATAGAGTATAAATTTTGCGGCGATTGAGTCAAAACGCCG
1 CAATAGATTATAAATTTTGCGGCGATTTAGCCAAAACGCCG
*
103607 TAATAGA
1 CAATAGA
103614 GCGGTAAATT
Statistics
Matches: 65, Mismatches: 20, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
41 35 0.54
42 30 0.46
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (41 bp):
CAATAGATTATAAATTTTGCGGCGATTTAGCCAAAACGCCG
Found at i:103634 original size:83 final size:83
Alignment explanation
Indices: 103432--103653 Score: 273
Period size: 83 Copynumber: 2.7 Consensus size: 83
103422 CGTTTTTCTA
* * * * * ** *
103432 AAAACGCCGCAATAGGGTGCTAAATTAGCGGCGTTTATATCACAAACGCTTCAATAGATTATAAA
1 AAAACGCCGCAATAGAGTGGTAAATTGGCGGCGTTTTTACCACAAACGCCACAATAGAGTATAAA
*
103497 TTTTGCGGCGATTTAGCC
66 TTTTGCGGCGATTGAGCC
* * *
103515 AAAACGCCGCAATATAGTGGTAAACTGGCAGCGTTTTTACCACAAACGCCACAATAGAGTATAAA
1 AAAACGCCGCAATAGAGTGGTAAATTGGCGGCGTTTTTACCACAAACGCCACAATAGAGTATAAA
*
103580 TTTTGCGGCGATTGAGTC
66 TTTTGCGGCGATTGAGCC
* * * * * *
103598 AAAACGCCGTAATAGAGCGGTAAATTGGCGGCGTTTTGACAAAAAACGCCGCAATA
1 AAAACGCCGCAATAGAGTGGTAAATTGGCGGCGTTTTTACCACAAACGCCACAATA
103654 TATTACACAT
Statistics
Matches: 117, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
83 117 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (83 bp):
AAAACGCCGCAATAGAGTGGTAAATTGGCGGCGTTTTTACCACAAACGCCACAATAGAGTATAAA
TTTTGCGGCGATTGAGCC
Found at i:104419 original size:23 final size:21
Alignment explanation
Indices: 104372--104411 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
104362 CGAGCAATTA
104372 GTTTTTTACTGAACACGAAAT
1 GTTTTTTACTGAACACGAAAT
104393 GTTTTTTACTGAACACGAA
1 GTTTTTTACTGAACACGAA
104412 TGATGTTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.38
Consensus pattern (21 bp):
GTTTTTTACTGAACACGAAAT
Found at i:105515 original size:21 final size:21
Alignment explanation
Indices: 105497--105595 Score: 101
Period size: 21 Copynumber: 4.6 Consensus size: 21
105487 ATGAAGCAAG
*
105497 GGAAACAGAGAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
**
105518 GGAAGCAGCTAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
*
105539 GGAAGCAGAGAGAGAAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
* *
105560 GGCAGTACAGAGAGAGGCAGCGGC
1 GGAAG--CAGAGAGA-GCAGCAGC
*
105584 AGAA-CAGAGAGA
1 GGAAGCAGAGAGA
105596 AGTAATATAT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
21 48 0.75
23 8 0.12
24 8 0.12
ACGTcount: A:0.39, C:0.18, G:0.40, T:0.02
Consensus pattern (21 bp):
GGAAGCAGAGAGAGCAGCAGC
Found at i:106068 original size:43 final size:43
Alignment explanation
Indices: 105935--106177 Score: 124
Period size: 43 Copynumber: 5.6 Consensus size: 43
105925 CATACAGTTA
* * *
105935 GCGGCGTTTTTGATA-AAAACGCCGC-AAAATCTCAATACATATTCT
1 GCGGCGTTTTTG-TAGAAAACGCCGCTAAAA-ATCAAAACCTA-T-T
* * * * *
105980 GCAGCG--TTTGTAAGAAAACGCCGGTAAAAATAAAAATCTACT
1 GCGGCGTTTTTGT-AGAAAACGCCGCTAAAAATCAAAACCTATT
* *
106022 GCGGCGTTTTTGTAGAAAACGCCGCTAAACATCAACGA-CTATT
1 GCGGCGTTTTTGTAGAAAACGCCGCTAAAAATCAA-AACCTATT
** * * *
106065 GCGGCGTTTTAAT-GATAAACGCCGCTAAATATCAATACCTTTT
1 GCGGCGTTTTTGTAGA-AAACGCCGCTAAAAATCAAAACCTATT
* * ** ***
106108 GCGGCGTTTGTTG-A-ACAATCGCCGCTATATGTTGTAACCTATT
1 GCGGCGTTT-TTGTAGA-AAACGCCGCTAAAAATCAAAACCTATT
*
106151 GCGGCGTTTTTTGTTGAAAAACGCCGC
1 GCGGCG-TTTTTGTAG-AAAACGCCGC
106178 AAACTTTAGC
Statistics
Matches: 152, Mismatches: 32, Indels: 28
0.72 0.15 0.13
Matches are distributed among these distances:
42 10 0.07
43 99 0.65
44 25 0.16
45 17 0.11
46 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (43 bp):
GCGGCGTTTTTGTAGAAAACGCCGCTAAAAATCAAAACCTATT
Found at i:106213 original size:15 final size:15
Alignment explanation
Indices: 106182--106241 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
106172 CGCCGCAAAC
* *
106182 TTTAGCGGCGCTATT
1 TTTAGCGGCGTTTTT
106197 TTTAGCGGCGTTTTT
1 TTTAGCGGCGTTTTT
*
106212 TTTA-CGCCGTATGTGTT
1 TTTAGCGGCGT-T-T-TT
106229 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
106242 AAAAACGCCG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
14 5 0.14
15 18 0.49
16 2 0.05
17 7 0.19
18 5 0.14
ACGTcount: A:0.10, C:0.17, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTAGCGGCGTTTTT
Found at i:107817 original size:634 final size:639
Alignment explanation
Indices: 106566--107819 Score: 1915
Period size: 634 Copynumber: 2.0 Consensus size: 639
106556 GAAAGTATTA
*
106566 AGTAACTAATGAATAAAATAATAATAAACTAAAAATATTTTAATTCTAATTTCTAATAAAATAAT
1 AGTAACTAA-GAATAAAATAATAATAAACTAAAAACATTTTAATTCTAATTTCTAATAAAATAAT
* *
106631 AAATATAATTTTAAAAGTTAGTAAAGTATCCTATATCAAATTATATATTACAAATAATCAATAAA
65 AAATATAATATTAAAAGATAGTAAAGTATCCTATATCAAATTATATATTACAAATAATCAATAAA
* * ** ** *
106696 AATAGGCTTAATAAATACTTTTTTCCTTGTAGTAGACTCAATTTATCATTTACACCATATGATTT
130 AAAAGGCTTAAGAAATACTTTTACCCCCGTAGTAAACTCAATTTATCATTTACACCATATGATTT
*
106761 TTTTTTGCCTCAATTTAGCCCTCGAAGTTGTTTAGGGTATTCATCCTAGCCCTTGAAGTCAATGA
195 TTTTTTGCCTCAATTTAGCCCTCGAAGTTGTTTAGGGTATTCATCATAGCCCTTGAAGTCAATGA
* * *
106826 CCGTTTAGACTAATAAATTTGTGAGTTTTCTGCGTCTGTGGATTAAGGGGTTAAGTTAAAATATT
260 CCGTTTAGACTAAAAAATTTGTGAGTTTTCTGCGTCTGTGGATTAAGGGGTCAAGTGAAAATATT
106891 TATTAAACACAATGATTAGACCAAATTCCCAAAATTTTATTATTTATTTCAATGAGATTAAGGGA
325 TATTAAACACAATGATTAGACCAAATTCCCAAAATTTTATTATTTATTTCAATGAGATTAAGGGA
106956 TTAGGTCAAATTTTTAGGGATTTTTTCTAATCGTTGTATTTAGTAAATATTTTATTATTTATTTT
390 TTAGGTCAAATTTTTAGGGATTTTTTCTAATCGTTGTATTTAGTAAATATTTTATTATTTATTTT
* * *
107021 TTAAAATAAATTTCACAACATCATCGAGCCACGTCAGTAATATTGGCTGATGCGAAAATTGTTGG
455 TTAAAATAAATTTCACAAAATCATCAAGCCACGTCAGTAATATTGGCTGATGCGAAAATTGCTGG
*
107086 CGTTGATAAACGCAGAAGACTAACAGTTCTAATAGTCAAAACAAACTTTGAGGGAAAAGATGAAT
520 CGTTGATAAACGCAAAAGACTAACAGTTCTAATAGTCAAAACAAACTTTGAGGGAAAAGATGAAT
107151 ATCCTAAACAACTTCGAGGGTTAAATAGGGAAAAACCTATAGGGAATAAACATAC
585 ATCCTAAACAACTTCGAGGGTTAAATAGGGAAAAACCTATAGGGAATAAACATAC
* *
107206 AGTAACTAA-AATAAAATAGTAATAAAC-AAAGACATTTTAATTCTAA-TTCATAATAAAATAAT
1 AGTAACTAAGAATAAAATAATAATAAACTAAAAACATTTTAATTCTAATTTC-TAATAAAATAAT
* *
107268 AAATATAATATTAAAAGATAGTAAAGTGTCCTATATCAAA-T-TATATTACAAATAATTAATAAA
65 AAATATAATATTAAAAGATAGTAAAGTATCCTATATCAAATTATATATTACAAATAATCAATAAA
* *** * **
107331 AAAA-GATCTAAGGGCTACTTTTACCCCCGTAGTAAACTCAATTTATCATTTTCTGTC-TATGAT
130 AAAAGGCT-TAAGAAATACTTTTACCCCCGTAGTAAACTCAATTTATCATTTAC-ACCATATGAT
* *
107394 TTTTTTTTGCCTCAA-TTAGCCCTCGAAGTTGTTTAGGGTATTCATCATATCCCTTGAAGTCAGT
193 TTTTTTTTGCCTCAATTTAGCCCTCGAAGTTGTTTAGGGTATTCATCATAGCCCTTGAAGTCAAT
* * *
107458 GACCATTTTA-ACTAAAAAATTTGTGA-TTCTTTTGTGTCTGTGGATTAAGGGG-CAAGGTGAAA
258 GACC-GTTTAGACTAAAAAATTTGTGAGTT-TTCTGCGTCTGTGGATTAAGGGGTCAA-GTGAAA
107520 ATATTTATTAAACACAATGATTAGACCAAATTCCCAAAATTTTATTATTTATTTCAATGAGATTA
320 ATATTTATTAAACACAATGATTAGACCAAATTCCCAAAATTTTATTATTTATTTCAATGAGATTA
107585 AGGGATTAGGTCAAATTTTTAGGGA-TTTTT-TAATCGTTGTATTTAGTAAATATTTTATTATTT
385 AGGGATTAGGTCAAATTTTTAGGGATTTTTTCTAATCGTTGTATTTAGTAAATATTTTATTATTT
* * * * * *
107648 ATTATTTT-TAATAAATTTCACAAAATCTTCAAGTCATGTCAGTAATATTGGCTGATGTGGAAAT
450 ATT-TTTTAAAATAAATTTCACAAAATCATCAAGCCACGTCAGTAATATTGGCTGATGCGAAAAT
* * * * *
107712 TGCTGGCGTTGATAAACGCAAAAGACTAACAGTTCTAATAGTTAAAATAGACTTTGAGGGTAAGG
514 TGCTGGCGTTGATAAACGCAAAAGACTAACAGTTCTAATAGTCAAAACAAACTTTGAGGGAAAAG
107777 ATGAATATCCTAAACAACTTCGAGGGTTAAATTGAGGGAAAAA
579 ATGAATATCCTAAACAACTTCGAGGGTTAAA-T-AGGGAAAAA
107820 GTCCATAGGG
Statistics
Matches: 560, Mismatches: 45, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
632 173 0.31
633 14 0.03
634 192 0.34
635 84 0.15
636 5 0.01
637 66 0.12
638 17 0.03
640 9 0.02
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (639 bp):
AGTAACTAAGAATAAAATAATAATAAACTAAAAACATTTTAATTCTAATTTCTAATAAAATAATA
AATATAATATTAAAAGATAGTAAAGTATCCTATATCAAATTATATATTACAAATAATCAATAAAA
AAAGGCTTAAGAAATACTTTTACCCCCGTAGTAAACTCAATTTATCATTTACACCATATGATTTT
TTTTTGCCTCAATTTAGCCCTCGAAGTTGTTTAGGGTATTCATCATAGCCCTTGAAGTCAATGAC
CGTTTAGACTAAAAAATTTGTGAGTTTTCTGCGTCTGTGGATTAAGGGGTCAAGTGAAAATATTT
ATTAAACACAATGATTAGACCAAATTCCCAAAATTTTATTATTTATTTCAATGAGATTAAGGGAT
TAGGTCAAATTTTTAGGGATTTTTTCTAATCGTTGTATTTAGTAAATATTTTATTATTTATTTTT
TAAAATAAATTTCACAAAATCATCAAGCCACGTCAGTAATATTGGCTGATGCGAAAATTGCTGGC
GTTGATAAACGCAAAAGACTAACAGTTCTAATAGTCAAAACAAACTTTGAGGGAAAAGATGAATA
TCCTAAACAACTTCGAGGGTTAAATAGGGAAAAACCTATAGGGAATAAACATAC
Found at i:109219 original size:19 final size:20
Alignment explanation
Indices: 109183--109220 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
109173 TTCTAAATCC
**
109183 TTTTTCAAGATTTTATTTTG
1 TTTTTCAAGATTCCATTTTG
109203 TTTTTCAA-ATTCCATTTT
1 TTTTTCAAGATTCCATTTT
109221 CATTTCTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.21, C:0.11, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTTCAAGATTCCATTTTG
Found at i:116252 original size:6 final size:6
Alignment explanation
Indices: 116243--116267 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
116233 GGGATGATAA
116243 ACGGGG ACGGGG ACGGGG ACGGGG A
1 ACGGGG ACGGGG ACGGGG ACGGGG A
116268 AAACCCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.64, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:116508 original size:12 final size:12
Alignment explanation
Indices: 116493--116527 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
116483 CGATTCTCGG
116493 CCCAATACCCGA
1 CCCAATACCCGA
116505 CCCAATACCCGA
1 CCCAATACCCGA
*
116517 CCTAATACCCG
1 CCCAATACCCG
116528 TTTAAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.49, G:0.09, T:0.11
Consensus pattern (12 bp):
CCCAATACCCGA
Found at i:116653 original size:25 final size:25
Alignment explanation
Indices: 116619--116687 Score: 129
Period size: 25 Copynumber: 2.8 Consensus size: 25
116609 ATCCCCGCGG
116619 TTTTTTAAACGGGGACGGGTACCGA
1 TTTTTTAAACGGGGACGGGTACCGA
*
116644 TTTTTTAAACGGGGACGGGTACCGG
1 TTTTTTAAACGGGGACGGGTACCGA
116669 TTTTTTAAACGGGGACGGG
1 TTTTTTAAACGGGGACGGG
116688 GACGGGGGGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.22, C:0.14, G:0.35, T:0.29
Consensus pattern (25 bp):
TTTTTTAAACGGGGACGGGTACCGA
Found at i:123921 original size:63 final size:64
Alignment explanation
Indices: 123834--123974 Score: 196
Period size: 63 Copynumber: 2.2 Consensus size: 64
123824 CGAATGCTTT
* * *
123834 TTGTGTACCGATGCACAAGTCATGCATCGATGCACTCTTGAATATTTTGAAACATCGAATG-CA
1 TTGTGTACCGATGCACAAGCCATGCATCGATGCACTCCTGAATATTTTGAAACATCGAATGTAA
** *
123897 TTGTGTACCGATGCACATA-CCATGCATCGATGCACTCCTGGCTCTTTTGAAACATCGAATGTAA
1 TTGTGTACCGATGCACA-AGCCATGCATCGATGCACTCCTGAATATTTTGAAACATCGAATGTAA
123961 TTAGTGTACCGATG
1 TT-GTGTACCGATG
123975 TACCGATGCA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
63 54 0.78
64 4 0.06
65 11 0.16
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (64 bp):
TTGTGTACCGATGCACAAGCCATGCATCGATGCACTCCTGAATATTTTGAAACATCGAATGTAA
Found at i:125438 original size:2 final size:2
Alignment explanation
Indices: 125431--125460 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
125421 TATAAAATGC
125431 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125461 TTACAGGGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126009 original size:85 final size:83
Alignment explanation
Indices: 125725--126092 Score: 314
Period size: 85 Copynumber: 4.4 Consensus size: 83
125715 AAAGGTCGAT
* * * * *
125725 ATCTATAGCGGCATTTTTTGGAACAAACGTCGCAAAAGGTTGATATATATAGCGAC-GTTTTGGA
1 ATCTATAGCGACATTTTTT-GAACAAACGCCGCAAAAGG-TCA-ATATATAGCGGCATTTTTGGA
* ** *
125789 ATAAACGTTGCAAAACG-TCGAT
63 ACAAACGCCGCAAAA-GTTC-AG
* * * * *
125811 ATCTATAGC-ATCATTTTTTGAACAAACTCCTCAAAATGTC-ATATCTAGTGGCATTTTTGGAAC
1 ATCTATAGCGA-CATTTTTTGAACAAACGCCGCAAAAGGTCAATATATAGCGGCATTTTTGGAAC
*
125874 AAACACCGCAAAA-TGTCAG
65 AAACGCCGCAAAAGT-TCAG
* * * * *
125893 ATTTATAGCGACATTTTTGGAACAAATGCCGCAAAAGGTCAAATATATAGCGGCGTTTTTGAAAC
1 ATCTATAGCGACATTTTTTGAACAAACGCCGCAAAAGGTC-AATATATAGCGGCATTTTTGGAAC
*
125958 AAACGCCGCAAAAGATTGAG
65 AAACGCCGCAAAAG-TTCAG
* * *
125978 ATCTATAGCGACATTTTTTGAACAAACGCCGCAAAAGATCGAGATCTATAGCAGCATTTTTGGAA
1 ATCTATAGCGACATTTTTTGAACAAACGCCGCAAAAGGTC-A-ATATATAGCGGCATTTTTGGAA
* * *
126043 CAAACGTCGTAAAAGGTCAG
64 CAAACGCCGCAAAAGTTCAG
* *** *
126063 ATATATAGCGGTGTTTTTGGAACAAACGCC
1 ATCTATAGCGACATTTTTTGAACAAACGCC
126093 ATAAAAGATT
Statistics
Matches: 227, Mismatches: 45, Indels: 21
0.77 0.15 0.07
Matches are distributed among these distances:
82 42 0.19
83 21 0.09
84 32 0.14
85 83 0.37
86 49 0.22
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (83 bp):
ATCTATAGCGACATTTTTTGAACAAACGCCGCAAAAGGTCAATATATAGCGGCATTTTTGGAACA
AACGCCGCAAAAGTTCAG
Found at i:126042 original size:128 final size:125
Alignment explanation
Indices: 125861--126132 Score: 359
Period size: 128 Copynumber: 2.1 Consensus size: 125
125851 ATATCTAGTG
* * *
125861 GCATTTTTGGAACAAACACCGCAAAATGTCAGATTTATAGCGACATTTTTGGAACAAATGCCGCA
1 GCATTTTTTGAACAAACACCGCAAAATGTCAGATCTATAGCGACATTTTTGGAACAAACGCCGCA
*
125926 AAAGGTCAAATATATAGCGGCGTTTTTGAAACAAACGCCGCAAAAGATTGAGATCTATAGC
66 AAAGGTCAAATATATAGCGGCGTTTTTGAAACAAACGCCACAAAAGATT-AGATCTATAGC
* *
125987 GACATTTTTTGAACAAACGCCGCAAAA-GATCGAGATCTATAGC-AGCATTTTTGGAACAAACGT
1 G-CATTTTTTGAACAAACACCGCAAAATG-TC-AGATCTATAGCGA-CATTTTTGGAACAAACGC
* * * * *
126050 CGTAAAAGGTCAGATATATAGCGGTGTTTTTGGAACAAACGCCATAAAAGATTAGATCTATAGC
62 CGCAAAAGGTCAAATATATAGCGGCGTTTTTGAAACAAACGCCACAAAAGATTAGATCTATAGC
**
126114 GGTTTTTTTGATACAAACA
1 GCATTTTTTGA-ACAAACA
126133 TCGCTAATTA
Statistics
Matches: 127, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
126 10 0.08
127 44 0.35
128 73 0.57
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (125 bp):
GCATTTTTTGAACAAACACCGCAAAATGTCAGATCTATAGCGACATTTTTGGAACAAACGCCGCA
AAAGGTCAAATATATAGCGGCGTTTTTGAAACAAACGCCACAAAAGATTAGATCTATAGC
Found at i:126098 original size:42 final size:42
Alignment explanation
Indices: 125714--126115 Score: 333
Period size: 42 Copynumber: 9.5 Consensus size: 42
125704 GTCAATTTCT
* *
125714 AAAAGGTCGATATCTATAGCGGCATTTTTTGGAACAAACGTCGC
1 AAAAGGTC-AGATCTATAGCGGCA-TTTTTGGAACAAACGCCGC
* * * * * * **
125758 AAAAGGTTGATATATATAGCGAC-GTTTTGGAATAAACGTTGC
1 AAAAGG-TCAGATCTATAGCGGCATTTTTGGAACAAACGCCGC
* * ** * * *
125800 AAAACGTCGATATCTATAGCATCATTTTTTGAACAAACTCCTC
1 AAAAGGTC-AGATCTATAGCGGCATTTTTGGAACAAACGCCGC
* * * *
125843 AAAATGTCATATC--TAGTGGCATTTTTGGAACAAACACCGC
1 AAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAACGCCGC
* * * *
125883 AAAATGTCAGATTTATAGCGACATTTTTGGAACAAATGCCGC
1 AAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAACGCCGC
* * * *
125925 AAAAGGTCAAATATATAGCGGCGTTTTTGAAACAAACGCCGC
1 AAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAACGCCGC
* * * *
125967 AAAAGATTGAGATCTATAGCGACATTTTTTGAACAAACGCCGC
1 AAAAG-GTCAGATCTATAGCGGCATTTTTGGAACAAACGCCGC
* * * *
126010 AAAAGATCGAGATCTATAGCAGCATTTTTGGAACAAACGTCGT
1 AAAAGGTC-AGATCTATAGCGGCATTTTTGGAACAAACGCCGC
* ** **
126053 AAAAGGTCAGATATATAGCGGTGTTTTTGGAACAAACGCCAT
1 AAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAACGCCGC
* *
126095 AAAAGATTAGATCTATAGCGG
1 AAAAGGTCAGATCTATAGCGG
126116 TTTTTTTGAT
Statistics
Matches: 288, Mismatches: 63, Indels: 16
0.78 0.17 0.04
Matches are distributed among these distances:
40 32 0.11
41 1 0.00
42 147 0.51
43 89 0.31
44 18 0.06
45 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (42 bp):
AAAAGGTCAGATCTATAGCGGCATTTTTGGAACAAACGCCGC
Found at i:126114 original size:170 final size:167
Alignment explanation
Indices: 125714--126131 Score: 389
Period size: 170 Copynumber: 2.5 Consensus size: 167
125704 GTCAATTTCT
* * * * * *
125714 AAAAGGTC-GATATCTATAGCGGCATTTTTTGGAACAAACGTCGCAAAAGGTTGATATATATAGC
1 AAAAGGTCAGATA--TATAGCGACA-TTTTTGGAACAAACGCCACAAAA-GATCAAATATATAGC
* * * ** * * *
125778 GACG-TTTTGGAATAAACGTTGCAAAACG-TCGATATCTATAGCATCATTTTTTGAACAAACTCC
62 GGCGTTTTTGAAACAAACGCCGCAAAA-GATTGAGATCTATAGCATCATTTTTTGAACAAACGCC
* *
125841 TCAAAATGTCATATCTAGTGGCATTTTTGGAACAAACACCGC
126 GCAAAATGTCAGATCTAGTGGCATTTTTGGAACAAACACCGC
* * * * *
125883 AAAATGTCAGATTTATAGCGACATTTTTGGAACAAATGCCGCAAAAGGTCAAATATATAGCGGCG
1 AAAAGGTCAGATATATAGCGACATTTTTGGAACAAACGCCACAAAAGATCAAATATATAGCGGCG
125948 TTTTTGAAACAAACGCCGCAAAAGATTGAGATCTATAGCGA-CATTTTTTGAACAAACGCCGCAA
66 TTTTTGAAACAAACGCCGCAAAAGATTGAGATCTATAGC-ATCATTTTTTGAACAAACGCCGCAA
** *
126012 AA-GATCGAGATCTA-TAGCAGCATTTTTGGAACAAACGTCGT
130 AATG-TC-AGATCTAGT-G--GCATTTTTGGAACAAACACCGC
*** * * * * **
126053 AAAAGGTCAGATATATAGCGGTGTTTTTGGAACAAACGCCATAAAAGATTAGATCTATAGCGGTT
1 AAAAGGTCAGATATATAGCGACATTTTTGGAACAAACGCCACAAAAGATCAAATATATAGCGGCG
*
126118 TTTTTGATACAAAC
66 TTTTTGAAACAAAC
126132 ATCGCTAATT
Statistics
Matches: 204, Mismatches: 36, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
166 17 0.08
167 77 0.38
168 17 0.08
169 7 0.03
170 86 0.42
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (167 bp):
AAAAGGTCAGATATATAGCGACATTTTTGGAACAAACGCCACAAAAGATCAAATATATAGCGGCG
TTTTTGAAACAAACGCCGCAAAAGATTGAGATCTATAGCATCATTTTTTGAACAAACGCCGCAAA
ATGTCAGATCTAGTGGCATTTTTGGAACAAACACCGC
Found at i:127038 original size:31 final size:31
Alignment explanation
Indices: 127021--127084 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
127011 ATAAATTATC
*
127021 CTTAGGGTTAAATCTAGGACTTAGATTAAAA
1 CTTAGGGTTAAATCTAGGACTTAAATTAAAA
*
127052 CTTAGGGTTAAATCTAGGACTTAGATTAAAA
1 CTTAGGGTTAAATCTAGGACTTAAATTAAAA
127083 CT
1 CT
127085 ATATTTCAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.33
Consensus pattern (31 bp):
CTTAGGGTTAAATCTAGGACTTAAATTAAAA
Found at i:127043 original size:19 final size:19
Alignment explanation
Indices: 127021--127075 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
127011 ATAAATTATC
127021 CTTAGGGTTAAATCTAGGA
1 CTTAGGGTTAAATCTAGGA
*
127040 CTTA-GATT-AA---A--A
1 CTTAGGGTTAAATCTAGGA
127052 CTTAGGGTTAAATCTAGGA
1 CTTAGGGTTAAATCTAGGA
127071 CTTAG
1 CTTAG
127076 ATTAAAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 14
0.63 0.05 0.33
Matches are distributed among these distances:
12 5 0.19
13 3 0.11
14 3 0.11
17 3 0.11
18 3 0.11
19 10 0.37
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (19 bp):
CTTAGGGTTAAATCTAGGA
Found at i:128522 original size:21 final size:21
Alignment explanation
Indices: 128472--128522 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
128462 ATTGAGCCTT
* * *
128472 GAGGAGAGACGATGGTGATCA
1 GAGGAGCGACAATGGTGACCA
128493 GAGGAGCGACAATGGTGACCA
1 GAGGAGCGACAATGGTGACCA
*
128514 GAGGCGCGA
1 GAGGAGCGA
128523 TGATCCGGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.43, T:0.10
Consensus pattern (21 bp):
GAGGAGCGACAATGGTGACCA
Found at i:137030 original size:60 final size:60
Alignment explanation
Indices: 136957--137131 Score: 133
Period size: 60 Copynumber: 2.9 Consensus size: 60
136947 CGTCCCTAAT
* * * *
136957 CTATGAACCTCATTTCAAATTGGTCCCTAAATTTTTAAACATTTCAATTTCATACT-TAAA
1 CTATGATCTTCATTTCAAATTGATCCCTAAATTTTTAAACATTTCAATTTCAT-CTCCAAA
* * * *
137017 CTATGA-CTATCA-TTCTAAATTAAT-CTTCAAATTTTCAAACATTTCATTTTCATCTCCAAA
1 CTATGATCT-TCATTTC-AAATTGATCCCT-AAATTTTTAAACATTTCAATTTCATCTCCAAA
* * * * * * * *
137077 TTATGATCTTCATTTTAAATTGCTCCCCAGACTTTATGAATATTTCAATTTCATC
1 CTATGATCTTCATTTCAAATTGATCCCTA-AATTTTTAAACATTTCAATTTCATC
137132 CTAACTTATA
Statistics
Matches: 88, Mismatches: 19, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
59 8 0.09
60 56 0.64
61 24 0.27
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.42
Consensus pattern (60 bp):
CTATGATCTTCATTTCAAATTGATCCCTAAATTTTTAAACATTTCAATTTCATCTCCAAA
Found at i:137360 original size:60 final size:61
Alignment explanation
Indices: 137283--137443 Score: 193
Period size: 60 Copynumber: 2.7 Consensus size: 61
137273 TGCAAGATCT
* * **
137283 AAAAGTTTAGGGACTAATTTAAAATGAGATTCATAGTTTGGA-GATGAAATTGGAATGTTC
1 AAAAGTTTAAGGACTAATTTAAAATGAGATTCATAGTTTGGATGATGAAATTAGAACATTC
* * * * *
137343 AAAATTTTAAGGACTAATTTAAAATGAGAGTCATAATTT-AATGATGAAATTAGAACATTT
1 AAAAGTTTAAGGACTAATTTAAAATGAGATTCATAGTTTGGATGATGAAATTAGAACATTC
* *
137403 AAACGTTTAAGGATTAATTTAAAATG-GATGTCATAGTTTGG
1 AAAAGTTTAAGGACTAATTTAAAATGAGAT-TCATAGTTTGG
137444 GGACATATAC
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
59 3 0.04
60 80 0.96
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (61 bp):
AAAAGTTTAAGGACTAATTTAAAATGAGATTCATAGTTTGGATGATGAAATTAGAACATTC
Found at i:140967 original size:72 final size:72
Alignment explanation
Indices: 140882--141030 Score: 199
Period size: 72 Copynumber: 2.1 Consensus size: 72
140872 CTTCCATTTT
* * **
140882 ATTTTTCCCAATATTTACAACTTCTAAATTTTTCAACTGTCCAAAACTTGGAGGAAGAGGACCAT
1 ATTTTTCCAAATATCTACAACTTCTAAATTTGCCAACTGTCCAAAACTTGGAGGAAGAGGACCAT
140947 TTAATTG
66 TTAATTG
* ** * * * *
140954 ATTTTTCCAAATATCTAGAGTTTCTAAATTTGCCAATTTTCCAAAATTTGGAGGAAGAGTACCAT
1 ATTTTTCCAAATATCTACAACTTCTAAATTTGCCAACTGTCCAAAACTTGGAGGAAGAGGACCAT
141019 TTAATTG
66 TTAATTG
141026 ATTTT
1 ATTTT
141031 CTGAAACATC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (72 bp):
ATTTTTCCAAATATCTACAACTTCTAAATTTGCCAACTGTCCAAAACTTGGAGGAAGAGGACCAT
TTAATTG
Found at i:142556 original size:14 final size:14
Alignment explanation
Indices: 142537--142567 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
142527 TGCCAAAGAG
*
142537 GTCAAGTCAACTAA
1 GTCAAGTAAACTAA
142551 GTCAAGTAAACTAA
1 GTCAAGTAAACTAA
142565 GTC
1 GTC
142568 TACGGAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (14 bp):
GTCAAGTAAACTAA
Found at i:143364 original size:3 final size:3
Alignment explanation
Indices: 143342--143404 Score: 103
Period size: 3 Copynumber: 21.3 Consensus size: 3
143332 TCTACAAAAA
143342 TAT TA- TAT TA- TAT TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
143386 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
143405 TATAGGCCCC
Statistics
Matches: 57, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.07
3 50 0.88
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:144602 original size:5 final size:5
Alignment explanation
Indices: 144592--144665 Score: 75
Period size: 5 Copynumber: 14.8 Consensus size: 5
144582 CCATTATGAG
144592 TTTTA TTTTA TTTTA TTACTT- TTATTA CTTTTA -TTT- TTTTA TTTTA
1 TTTTA TTTTA TTTTA TT--TTA TT-TTA -TTTTA TTTTA TTTTA TTTTA
*
144638 TTTTA TGTTA TTTTA -TTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
144666 TTCTCTTTAA
Statistics
Matches: 59, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
4 10 0.17
5 40 0.68
6 5 0.08
7 4 0.07
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:144659 original size:9 final size:9
Alignment explanation
Indices: 144592--144694 Score: 88
Period size: 9 Copynumber: 11.0 Consensus size: 9
144582 CCATTATGAG
144592 TTTTATTTTA
1 TTTTA-TTTA
144602 TTTTA-TTA
1 TTTTATTTA
144610 CTTTTA-TTA
1 -TTTTATTTA
144619 CTTTTATTT-
1 -TTTTATTTA
144628 TTTTATTTTA
1 TTTTA-TTTA
144638 TTTTATGTTA
1 TTTTAT-TTA
144648 TTTTATTTA
1 TTTTATTTA
144657 TTTTATTT-
1 TTTTATTTA
*
144665 TTTCTCTTTA
1 TTT-TATTTA
*
144675 ATTTATTTAA
1 TTTTATTT-A
144685 TATTTATTTA
1 T-TTTATTTA
144695 ATACTTTTTA
Statistics
Matches: 80, Mismatches: 4, Indels: 18
0.78 0.04 0.18
Matches are distributed among these distances:
8 11 0.14
9 37 0.46
10 25 0.31
11 7 0.09
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (9 bp):
TTTTATTTA
Found at i:144680 original size:37 final size:38
Alignment explanation
Indices: 144592--144694 Score: 99
Period size: 37 Copynumber: 2.8 Consensus size: 38
144582 CCATTATGAG
* * *
144592 TTTTATTTTATTTTA-TTACTTTTA-TTACTTTTATTT
1 TTTTACTTTAATTTATTTAATTTTATTTACTTTTATTT
* *
144628 TTTTATTTTATTTTATGTT-ATTTTATTTA-TTTTATTT
1 TTTTACTTTAATTTAT-TTAATTTTATTTACTTTTATTT
144665 TTTCT-CTTTAATTTATTTAATATTTATTTA
1 TTT-TACTTTAATTTATTTAAT-TTTATTTA
144695 ATACTTTTTA
Statistics
Matches: 58, Mismatches: 3, Indels: 10
0.82 0.04 0.14
Matches are distributed among these distances:
36 17 0.29
37 27 0.47
38 14 0.24
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (38 bp):
TTTTACTTTAATTTATTTAATTTTATTTACTTTTATTT
Found at i:145769 original size:19 final size:19
Alignment explanation
Indices: 145741--145783 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
145731 GCTAAAAGAG
*
145741 AAATTAAAAAGTGCTTTAAA
1 AAATAAAAAAG-GCTTTAAA
*
145761 AAATAAAAAAGGTTTTAAA
1 AAATAAAAAAGGCTTTAAA
145780 AAAT
1 AAAT
145784 GAATCAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.28
Consensus pattern (19 bp):
AAATAAAAAAGGCTTTAAA
Found at i:147289 original size:36 final size:35
Alignment explanation
Indices: 147240--147340 Score: 125
Period size: 34 Copynumber: 2.8 Consensus size: 35
147230 AAAAAAAACC
147240 ATTTTAAAA-AATATATACTATATGTTTTCAAAAAT
1 ATTTTAAAACAATATATA-TATATGTTTTCAAAAAT
147275 ATTTTAAAACAATATAT-TATATGTTTTCAAAAAT
1 ATTTTAAAACAATATATATATATGTTTTCAAAAAT
*
147309 ACGTTTTCAAAAACTATATTATATATATGTTT
1 A--TTTT--AAAACAATA-TATATATATGTTT
147341 ACCAAAACCG
Statistics
Matches: 58, Mismatches: 1, Indels: 9
0.85 0.01 0.13
Matches are distributed among these distances:
34 18 0.31
35 9 0.16
36 11 0.19
38 8 0.14
39 3 0.05
40 9 0.16
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (35 bp):
ATTTTAAAACAATATATATATATGTTTTCAAAAAT
Found at i:147296 original size:34 final size:33
Alignment explanation
Indices: 147240--147332 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 33
147230 AAAAAAAACC
147240 ATTTTAAAAAATATATACTATATGTTTTCAAAAAT
1 ATTTTAAAAAATATAT--TATATGTTTTCAAAAAT
147275 ATTTTAAAACAATATATTATATGTTTTCAAAAAT
1 ATTTTAAAA-AATATATTATATGTTTTCAAAAAT
*
147309 ACGTTTTCAAAAACTATATTATAT
1 A--TTTT-AAAAAATATATTATAT
147333 ATATGTTTAC
Statistics
Matches: 53, Mismatches: 1, Indels: 7
0.87 0.02 0.11
Matches are distributed among these distances:
34 18 0.34
35 9 0.17
36 22 0.42
37 4 0.08
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (33 bp):
ATTTTAAAAAATATATTATATGTTTTCAAAAAT
Found at i:147428 original size:40 final size:38
Alignment explanation
Indices: 147244--147427 Score: 157
Period size: 39 Copynumber: 4.8 Consensus size: 38
147234 AAAACCATTT
* *
147244 TAAAAAATATATACTATATGTTTTCAAAAA---TATTT-
1 TAAAAACTATATATTATATGTTTTCAAAAACCGT-TTTC
* *
147279 T-AAAACAATATATTATATGTTTTCAAAAATACGTTTTC
1 TAAAAACTATATATTATATGTTTTCAAAAA-CCGTTTTC
* * *
147317 -AAAAACTATATTATATATATGTTTACCAAAACCGATTTTT
1 TAAAAACTATA-TAT-TATATGTTTTCAAAAACCG-TTTTC
147357 TAAAAAACTATATATTATAT-TACTTTCAAAAACCGTTTTC
1 T-AAAAACTATATATTATATGT--TTTCAAAAACCGTTTTC
**
147397 TAAAAGTTATATATTATATGTTTTTCAAAAA
1 TAAAAACTATATATTATATG-TTTTCAAAAA
147428 ATATTTTTTA
Statistics
Matches: 121, Mismatches: 13, Indels: 26
0.76 0.08 0.16
Matches are distributed among these distances:
34 25 0.21
35 1 0.01
37 3 0.02
38 9 0.07
39 31 0.26
40 28 0.23
41 14 0.12
42 10 0.08
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (38 bp):
TAAAAACTATATATTATATGTTTTCAAAAACCGTTTTC
Found at i:148059 original size:72 final size:72
Alignment explanation
Indices: 147893--148059 Score: 235
Period size: 72 Copynumber: 2.3 Consensus size: 72
147883 CCTTGTTGTT
* * * * *
147893 GTAGATGACTCATTTGCTGTGAAGTTAAGTCGATCTATTGGGCATGATATCCTTCGTCGTGAAGT
1 GTAGGTGACTCATTCGTTGTGAAGTTAAGTCGATCTATTGGGAACGATATCCTTCGTCGTGAAGT
147958 TGAAATC
66 TGAAATC
* * * * *
147965 GTAGGTGGCTCATTCATCGTGAAGTTGAGTCGATCTCTTGGGAACGATATCCTTCGTCGTGAAGT
1 GTAGGTGACTCATTCGTTGTGAAGTTAAGTCGATCTATTGGGAACGATATCCTTCGTCGTGAAGT
148030 TGAAATC
66 TGAAATC
*
148037 GTGGGTGACTCATTCGTTGTGAA
1 GTAGGTGACTCATTCGTTGTGAA
148060 ACTGAGTTCA
Statistics
Matches: 81, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 81 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.34
Consensus pattern (72 bp):
GTAGGTGACTCATTCGTTGTGAAGTTAAGTCGATCTATTGGGAACGATATCCTTCGTCGTGAAGT
TGAAATC
Found at i:159744 original size:20 final size:20
Alignment explanation
Indices: 159721--159762 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
159711 AAAATAAAGT
159721 AAAAAAGTGCTTT-AAAAATG
1 AAAAAAG-GCTTTGAAAAATG
*
159741 AAAAAAGGTTTTGAAAAATG
1 AAAAAAGGCTTTGAAAAATG
159761 AA
1 AA
159763 TCAATGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.57, C:0.02, G:0.17, T:0.24
Consensus pattern (20 bp):
AAAAAAGGCTTTGAAAAATG
Found at i:161319 original size:82 final size:80
Alignment explanation
Indices: 161198--161352 Score: 183
Period size: 82 Copynumber: 1.9 Consensus size: 80
161188 AAAAAAACCA
* * *
161198 TTTTAAAAGCTATATATTATATGTTTTCAATACTACGTTTTC-AAAATGA-ATATTATATATATG
1 TTTTAAAAACTATATATTATATGCTTTCAAAAC-ACGTTTTCTAAAA-GATATA-TAT-TATATG
161261 -TTTTTCAAAACCCATTTT
62 TTTTTTCAAAACCCATTTT
*
161279 TTTTAAAAAACTATATATTATATTGCTTTCAAAA-ACCGTTTTCTAAAAGCTATATATTATATGT
1 TTTT-AAAAACTATATATTATA-TGCTTTCAAAACA-CGTTTTCTAAAAGATATATATTATATGT
161343 TTTTTCAAAA
63 TTTTTCAAAA
161353 ATATTTTCAA
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
81 11 0.17
82 37 0.58
83 16 0.25
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (80 bp):
TTTTAAAAACTATATATTATATGCTTTCAAAACACGTTTTCTAAAAGATATATATTATATGTTTT
TTCAAAACCCATTTT
Found at i:161360 original size:39 final size:38
Alignment explanation
Indices: 161201--161360 Score: 103
Period size: 39 Copynumber: 4.0 Consensus size: 38
161191 AAAACCATTT
* *
161201 TAAAAGCTATATATTATATG-TTTTCAATACTACGTTTTC
1 TAAAAGCTATATATTATATGTTTTTCAAAAATA--TTTTC
* * *
161240 -AAAATG-AATATTATATATATGTTTTTCAAAACCCATTTTTTT
1 TAAAA-GCTATA-TAT-TATATGTTTTTCAAAA---ATATTTTC
* * **
161282 TAAAAAACTATATATTATAT-TGCTTTCAAAAACCGTTTTC
1 T-AAAAGCTATATATTATATGT-TTTTCAAAAA-TATTTTC
161322 TAAAAGCTATATATTATATGTTTTTTCAAAAATATTTTC
1 TAAAAGCTATATATTATATG-TTTTTCAAAAATATTTTC
161361 AAAGACTATA
Statistics
Matches: 92, Mismatches: 15, Indels: 28
0.68 0.11 0.21
Matches are distributed among these distances:
38 7 0.08
39 27 0.29
40 20 0.22
41 10 0.11
42 17 0.18
43 3 0.03
44 8 0.09
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.46
Consensus pattern (38 bp):
TAAAAGCTATATATTATATGTTTTTCAAAAATATTTTC
Found at i:163203 original size:162 final size:160
Alignment explanation
Indices: 163003--163300 Score: 368
Period size: 162 Copynumber: 1.9 Consensus size: 160
162993 TTTAGGTATT
* * *
163003 TTTTTATCAAATTTGAACCACATGCTCCTAAATCATTGTAAAATAACTATGTA-CTTTCAATTTC
1 TTTTTATCAAATTTAAACCACATGATCCTAAATCATTGTAAAATAA-TATGTATC-TTCAATTCC
** * * *
163067 TCTTTTTGATAAAATTTATTTTTCTATTTTTTT-AATTTGATCCCTCAACTTTACATTAATTTC-
64 TCTTCCTAAT-AAA-TTATCTTTCTATTTTTTTCAATTTAATCCCTCAACTTTACA-TAATTTCT
163130 TCATTTATTCATTTTATTTTTTAATTTTAAATCCA
126 TCATTTATTCATTTTATTTTTTAATTTTAAATCCA
* * * *
163165 TTTTTATCATATTTAAACTACATGATCCTAATTCATTGTAGAATAATATGTATCTTCAATTCCTC
1 TTTTTATCAAATTTAAACCACATGATCCTAAATCATTGTAAAATAATATGTATCTTCAATTCCTC
* * * * *
163230 TTCCTAATAAATTGTCTTTCTATTTTTTTCAATTTAATCCTTTAACTTTGCATGATTTCTTCATT
66 TTCCTAATAAATTATCTTTCTATTTTTTTCAATTTAATCCCTCAACTTTACATAATTTCTTCATT
*
163295 TCTTCA
131 TATTCA
163301 AGTCATCCTT
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
159 22 0.19
160 31 0.27
161 21 0.18
162 41 0.36
ACGTcount: A:0.29, C:0.16, G:0.04, T:0.51
Consensus pattern (160 bp):
TTTTTATCAAATTTAAACCACATGATCCTAAATCATTGTAAAATAATATGTATCTTCAATTCCTC
TTCCTAATAAATTATCTTTCTATTTTTTTCAATTTAATCCCTCAACTTTACATAATTTCTTCATT
TATTCATTTTATTTTTTAATTTTAAATCCA
Found at i:165623 original size:23 final size:23
Alignment explanation
Indices: 165597--165653 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
165587 TACATGATCA
*
165597 TTCGGGACATTTATACGCGGTCC
1 TTCGAGACATTTATACGCGGTCC
* * * *
165620 TTCGAGACATATCTATGTGGTCC
1 TTCGAGACATTTATACGCGGTCC
165643 TTCGAGACATT
1 TTCGAGACATT
165654 CTATGTGGCA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (23 bp):
TTCGAGACATTTATACGCGGTCC
Found at i:165668 original size:22 final size:23
Alignment explanation
Indices: 165615--165661 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
165605 ATTTATACGC
165615 GGTCCTTCGAGACATATCTATGT
1 GGTCCTTCGAGACATATCTATGT
165638 GGTCCTTCGAGACAT-TCTATGT
1 GGTCCTTCGAGACATATCTATGT
165660 GG
1 GG
165662 CACTTCGGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (23 bp):
GGTCCTTCGAGACATATCTATGT
Found at i:166964 original size:236 final size:236
Alignment explanation
Indices: 166551--167023 Score: 937
Period size: 236 Copynumber: 2.0 Consensus size: 236
166541 TGACGCTCTG
166551 ATACAGCTAAATGTAACACCCTAAACCAGTATAACACAAACTTGACCGATTAGAATGTCACACTG
1 ATACAGCTAAATGTAACACCCTAAACCAGTATAACACAAACTTGACCGATTAGAATGTCACACTG
166616 AACCACCGAAGTGAGTAACCCATAAATTTCTTTAATTTCTCGATAAAATGACTGTTAAAAACCAT
66 AACCACCGAAGTGAGTAACCCATAAATTTCTTTAATTTCTCGATAAAATGACTGTTAAAAACCAT
166681 TTAAAATAAAGATATTTAAACATAAATATGTAATAATTCACATTCGAGAGCTTCTAAAATAATTT
131 TTAAAATAAAGATATTTAAACATAAATATGTAATAATTCACATTCGAGAGCTTCTAAAATAATTT
*
166746 TATCAAAATAATACAAATTGAGTATATTCAAAAATAATGTT
196 TATCAAAATAATACAAACTGAGTATATTCAAAAATAATGTT
166787 ATACAGCTAAATGTAACACCCTAAACCAGTATAACACAAACTTGACCGATTAGAATGTCACACTG
1 ATACAGCTAAATGTAACACCCTAAACCAGTATAACACAAACTTGACCGATTAGAATGTCACACTG
166852 AACCACCGAAGTGAGTAACCCATAAATTTCTTTAATTTCTCGATAAAATGACTGTTAAAAACCAT
66 AACCACCGAAGTGAGTAACCCATAAATTTCTTTAATTTCTCGATAAAATGACTGTTAAAAACCAT
166917 TTAAAATAAAGATATTTAAACATAAATATGTAATAATTCACATTCGAGAGCTTCTAAAATAATTT
131 TTAAAATAAAGATATTTAAACATAAATATGTAATAATTCACATTCGAGAGCTTCTAAAATAATTT
166982 TATCAAAATAATACAAACTGAGTATATTCAAAAATAATGTT
196 TATCAAAATAATACAAACTGAGTATATTCAAAAATAATGTT
167023 A
1 A
167024 CGAATCGAAT
Statistics
Matches: 236, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
236 236 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (236 bp):
ATACAGCTAAATGTAACACCCTAAACCAGTATAACACAAACTTGACCGATTAGAATGTCACACTG
AACCACCGAAGTGAGTAACCCATAAATTTCTTTAATTTCTCGATAAAATGACTGTTAAAAACCAT
TTAAAATAAAGATATTTAAACATAAATATGTAATAATTCACATTCGAGAGCTTCTAAAATAATTT
TATCAAAATAATACAAACTGAGTATATTCAAAAATAATGTT
Found at i:170030 original size:33 final size:33
Alignment explanation
Indices: 169958--170057 Score: 132
Period size: 33 Copynumber: 3.1 Consensus size: 33
169948 AAACATGAAA
* *
169958 AATAAGTTGGCCACCTACCAA-A-GAATTTTCC
1 AATAAGTTGGCCACCAACCAAGATTAATTTTCC
* * *
169989 AATGAGTTGGCCACAAACCAAGATTAATTTTTC
1 AATAAGTTGGCCACCAACCAAGATTAATTTTCC
*
170022 AATAAGTTGGCCACCAACCAAGATTAAATTTCC
1 AATAAGTTGGCCACCAACCAAGATTAATTTTCC
170055 AAT
1 AAT
170058 CTTGCCAAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
31 18 0.31
32 1 0.02
33 39 0.67
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (33 bp):
AATAAGTTGGCCACCAACCAAGATTAATTTTCC
Found at i:174766 original size:33 final size:33
Alignment explanation
Indices: 174699--174798 Score: 150
Period size: 33 Copynumber: 3.1 Consensus size: 33
174689 AAACATGAAA
* *
174699 AATAAGTTGGCCACCTACCAA-A-GAATTTTCC
1 AATAAGTTGGCCACCAACCAAGATTAATTTTCC
*
174730 AATAAGTTGGCCACCAACCAAGATTAATTTTTC
1 AATAAGTTGGCCACCAACCAAGATTAATTTTCC
*
174763 AATAAGTTGGCCACCAACCAAGATTAAATTTCC
1 AATAAGTTGGCCACCAACCAAGATTAATTTTCC
174796 AAT
1 AAT
174799 CTTGCCAAAC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
31 20 0.32
32 1 0.02
33 41 0.66
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (33 bp):
AATAAGTTGGCCACCAACCAAGATTAATTTTCC
Found at i:175658 original size:34 final size:32
Alignment explanation
Indices: 175596--175665 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
175586 ACCTTACAAC
* *
175596 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
* *
175628 TCCCTAGCTTTTACACGGGATAAGCTAGAACTTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
175662 TCCC
1 TCCC
175666 CTTTACGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:175970 original size:21 final size:21
Alignment explanation
Indices: 175944--175996 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
175934 TGCCCATAAT
175944 ATGGTGCATCGGTGCACTATC
1 ATGGTGCATCGGTGCACTATC
175965 ATGGTGCATCGGTGCACTATC
1 ATGGTGCATCGGTGCACTATC
175986 ATGGTGCATCG
1 ATGGTGCATCG
175997 ATACCCCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (21 bp):
ATGGTGCATCGGTGCACTATC
Found at i:176106 original size:20 final size:20
Alignment explanation
Indices: 176081--176127 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
176071 GCACAGCCTT
176081 GATGCACAGAAGGATGCATC
1 GATGCACAGAAGGATGCATC
176101 GATGCACAGAAGGATGCATC
1 GATGCACAGAAGGATGCATC
176121 GATGCAC
1 GATGCAC
176128 TAATTGCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.30, T:0.15
Consensus pattern (20 bp):
GATGCACAGAAGGATGCATC
Found at i:176217 original size:21 final size:20
Alignment explanation
Indices: 176148--176267 Score: 134
Period size: 21 Copynumber: 5.8 Consensus size: 20
176138 CGGTGTTTGA
* *
176148 GTGCATGGATGCACTACATG
1 GTGCATGGATGCACTGCAGG
**
176168 GTGCATCAATGCACTAGTGCA-G
1 GTGCATGGATGCAC---TGCAGG
176190 GTGCATGGATGCACTGCAGG
1 GTGCATGGATGCACTGCAGG
*
176210 GATGCATGGATGCACTACAAGG
1 G-TGCATGGATGCACTGC-AGG
176232 GTGCATGGATGCACTGCAGGG
1 GTGCATGGATGCACTGCA-GG
176253 GTGCATGGATGCACT
1 GTGCATGGATGCACT
176268 TTGACACCCT
Statistics
Matches: 86, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
19 4 0.05
20 15 0.17
21 47 0.55
22 17 0.20
23 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (20 bp):
GTGCATGGATGCACTGCAGG
Done.