Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008839.1 Hibiscus syriacus cultivar Beakdansim tig00112043_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: 172815
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:3820 original size:3 final size:3
Alignment explanation
Indices: 3812--3916 Score: 128
Period size: 3 Copynumber: 36.3 Consensus size: 3
3802 ACCCTGCAAA
* * *
3812 AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT AAT AAT AAA AAT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
3860 ATT AAT AAT AAT -AT AAT -AT AAT AAT AAT -AT AAT AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
3904 AGT AAT TAT AAT A
1 AAT AAT AAT AAT A
3917 TATATATATT
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
2 7 0.08
3 79 0.92
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:8048 original size:35 final size:35
Alignment explanation
Indices: 8002--8072 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
7992 ACTTGAAATG
*
8002 TATATATTTGGTATATATAGACCTGGAATTGTTAT
1 TATATATTTGGTATATATAGACCTGGAATTATTAT
8037 TATATATTTGGTATATATAGACCTGGAATTATTAT
1 TATATATTTGGTATATATAGACCTGGAATTATTAT
8072 T
1 T
8073 CTTTCAATCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.46
Consensus pattern (35 bp):
TATATATTTGGTATATATAGACCTGGAATTATTAT
Found at i:15418 original size:17 final size:18
Alignment explanation
Indices: 15381--15420 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
15371 TTCTAGTATA
*
15381 TTAATAAATTATAATGTT
1 TTAATAAATTATAAGGTT
15399 TTAATAAATTA-AAGGTT
1 TTAATAAATTATAAGGTT
15416 TTAAT
1 TTAAT
15421 TTAGAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (18 bp):
TTAATAAATTATAAGGTT
Found at i:15602 original size:15 final size:15
Alignment explanation
Indices: 15584--15649 Score: 96
Period size: 15 Copynumber: 4.4 Consensus size: 15
15574 TTCCAGAAAA
15584 TGAATTACTAGAATT
1 TGAATTACTAGAATT
*
15599 TGAATTACTGGAATT
1 TGAATTACTAGAATT
* **
15614 TGAATTACTGGAAAA
1 TGAATTACTAGAATT
15629 TGAATTACTAGAATT
1 TGAATTACTAGAATT
15644 TGAATT
1 TGAATT
15650 CTGGAAAATG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.38
Consensus pattern (15 bp):
TGAATTACTAGAATT
Found at i:15643 original size:45 final size:44
Alignment explanation
Indices: 15579--15665 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
15569 TGGTTTTCCA
**
15579 GAAAATGAATTACTAGAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTAGAATTTGAATT-CTGGAAAATGAATTACTG
15624 GAAAATGAATTACTAGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTAGAATTTGAATTCTGGAAAATGAATTAC
15666 ATTTCTGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.43, C:0.07, G:0.17, T:0.33
Consensus pattern (44 bp):
GAAAATGAATTACTAGAATTTGAATTCTGGAAAATGAATTACTG
Found at i:15663 original size:29 final size:30
Alignment explanation
Indices: 15584--15665 Score: 121
Period size: 30 Copynumber: 2.8 Consensus size: 30
15574 TTCCAGAAAA
* ** *
15584 TGAATTACTAGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTAGAATT
15614 TGAATTACTGGAAAATGAATTACTAGAATT
1 TGAATTACTGGAAAATGAATTACTAGAATT
15644 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
15666 ATTTCTGTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 16 0.33
30 32 0.67
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTAGAATT
Found at i:15671 original size:20 final size:20
Alignment explanation
Indices: 15648--15717 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
15638 AGAATTTGAA
15648 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
15668 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
15688 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
15708 TTCTGGAAAA
1 TTCTGGAAAA
15718 CATCTGGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:15939 original size:28 final size:27
Alignment explanation
Indices: 15884--15948 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
15874 TTTACTAAAA
*
15884 TATTATTGAAATATATAAATAATATTAT
1 TATTATT-AAATATATAAAAAATATTAT
15912 TCATTATTAAATATATAAAAAA-ATTTAT
1 T-ATTATTAAATATATAAAAAATA-TTAT
15940 TATATATTA
1 TAT-TATTA
15949 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 3 0.09
28 24 0.73
29 6 0.18
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
TATTATTAAATATATAAAAAATATTAT
Found at i:15974 original size:31 final size:32
Alignment explanation
Indices: 15884--15981 Score: 84
Period size: 31 Copynumber: 3.2 Consensus size: 32
15874 TTTACTAAAA
*
15884 TATTATTGAAATATAT--AAATA-ATATTAT-T
1 TATTATT-AAATATATAAAAAAATATATTATAT
* *
15913 CATTATTAAATATATAAAAAAATTTATTATA-
1 TATTATTAAATATATAAAAAAATATATTATAT
*
15944 TATTATTAAA-ATA-AAAATATAATATCTTATAT
1 TATTATTAAATATATAAAA-A-AATATATTATAT
15976 TATTAT
1 TATTAT
15982 AATATAATTG
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
28 8 0.14
29 10 0.18
30 8 0.14
31 24 0.43
32 6 0.11
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (32 bp):
TATTATTAAATATATAAAAAAATATATTATAT
Found at i:16018 original size:31 final size:32
Alignment explanation
Indices: 15972--16050 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 32
15962 ATAATATCTT
* *
15972 ATATTATTATAATATAATTGATTATTTTA-TAT-A
1 ATATTAATA-AATATAA-T-ATTATATTACTATAA
16005 ATATTAA-AAATATAATATTATATTACTATAA
1 ATATTAATAAATATAATATTATATTACTATAA
16036 ATATTAATAAATATA
1 ATATTAATAAATATA
16051 TTTTAAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 8 0.20
30 4 0.10
31 15 0.37
32 8 0.20
33 6 0.15
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (32 bp):
ATATTAATAAATATAATATTATATTACTATAA
Found at i:16026 original size:22 final size:23
Alignment explanation
Indices: 16001--16044 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
15991 GATTATTTTA
*
16001 TATAATATTAAAAATA-TAATAT
1 TATAATACTAAAAATATTAATAT
* *
16023 TATATTACTATAAATATTAATA
1 TATAATACTAAAAATATTAATA
16045 AATATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAATACTAAAAATATTAATAT
Found at i:16050 original size:16 final size:16
Alignment explanation
Indices: 15999--16050 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
15989 TTGATTATTT
15999 TATATAATATTAA-AAA
1 TATA-AATATTAATAAA
* *
16015 TAT-AATATTATATTAC
1 TATAAATATTA-ATAAA
16031 TATAAATATTAATAAA
1 TATAAATATTAATAAA
16047 TATA
1 TATA
16051 TTTTAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 7 0.24
15 1 0.03
16 14 0.48
17 7 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAAATATTAATAAA
Found at i:16308 original size:42 final size:42
Alignment explanation
Indices: 16249--16368 Score: 204
Period size: 42 Copynumber: 2.9 Consensus size: 42
16239 ATGAATTACA
* *
16249 TTCCGGAAAACGAATTACGTGAAATAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
16291 TTCCGGAAAACGAATTACGTGAAACAAATACGGGAAAATATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
16333 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
16369 TTCGGGGAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:30488 original size:14 final size:14
Alignment explanation
Indices: 30469--30528 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 14
30459 TTATTATATT
30469 TTATATTAATATAA
1 TTATATTAATATAA
* *
30483 TTATATAAATATTA
1 TTATATTAATATAA
* * *
30497 TT-TTTTATTAAAA
1 TTATATTAATATAA
* *
30510 TAATATTTATATAA
1 TTATATTAATATAA
30524 TTATA
1 TTATA
30529 ATTTATTTAG
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
13 7 0.22
14 25 0.78
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTATATTAATATAA
Found at i:32295 original size:21 final size:21
Alignment explanation
Indices: 32265--32312 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
32255 GCAGGGGTAC
* *
32265 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
*
32286 ATGCCAAGCCCACCAGTTCAT
1 ATGCCAAGCCCACCACTTCAT
32307 ATGCCA
1 ATGCCA
32313 TCTCCGCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.21
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:32346 original size:21 final size:21
Alignment explanation
Indices: 32316--32409 Score: 145
Period size: 21 Copynumber: 4.5 Consensus size: 21
32306 TATGCCATCT
32316 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
* *
32337 CCGCAAGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
32358 CCGCCA-GGTTACATTCCGAGC
1 CCG-CAGGGTTACATTCCGAGC
*
32379 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
32400 CCGCAGGGTT
1 CCGCAGGGTT
32410 TTATACCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.03
21 63 0.94
22 2 0.03
ACGTcount: A:0.19, C:0.34, G:0.26, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:33031 original size:34 final size:34
Alignment explanation
Indices: 32928--33032 Score: 147
Period size: 34 Copynumber: 3.1 Consensus size: 34
32918 AAATGTTTTA
* * *
32928 AAAATACAAATTATATTATTCAAAATTTAAAATA
1 AAAATAAAAATTATATTATTCGAAATTTAAAATT
*
32962 AAAATAAAAATAATATTATTCGAAATTTAAAATT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATT
* * *
32996 AAAATATAAATTATAGTATTCGAAATTTAACATT
1 AAAATAAAAATTATATTATTCGAAATTTAAAATT
33030 AAA
1 AAA
33033 TTTCAACTTA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCGAAATTTAAAATT
Found at i:33669 original size:128 final size:128
Alignment explanation
Indices: 33442--34422 Score: 1712
Period size: 128 Copynumber: 7.7 Consensus size: 128
33432 AGTTCCCGGG
* *
33442 GGACATAAGTGACATAATA-GGCAATGATAACATATTCTCTGACAAAATAATGGAAGTCGCACCC
1 GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCACCC
*
33506 CCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTATCCCCGAA
66 CCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAA
* **
33569 GGACATGAGTGACATAATAGGGCAATGATTACATATTCTCTGACAAAATAATGGAAAACGCACCC
1 GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCACCC
* *
33634 CCGAGTACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAA
66 CCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAA
* *
33697 GGATATGAATGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCACCC
1 GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCACCC
*
33762 CCGGGAACGCGCCTTCAAGTCCCTTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAA
66 CCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAA
*
33825 GGACATGAATGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCACCC
1 GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCACCC
* * * *
33890 CCGGGAACGCGTCTTCAAGTCTCCTGAGAAATAATAGGTACTTATATGAATAGTGTCCCCGAG
66 CCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAA
33953 GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCACCC
1 GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCACCC
*
34018 CCGGGAACGTGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAA
66 CCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAA
* *
34081 GGACATGAATGTCATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCACCC
1 GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCACCC
* *
34146 CCGGGAATGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAG
66 CCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAA
* *
34209 GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAAAAAATGAAAGGCGCACC
1 GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGAC-AAAATAATGGAAGGCGCACC
*
34274 CCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAG
65 CCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAA
* *
34338 GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAGAATAATGGAAGTCGCACCC
1 GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCACCC
34403 CCGGGAACGCGCCTTCAAGT
66 CCGGGAACGCGCCTTCAAGT
34423 GAATAATACC
Statistics
Matches: 811, Mismatches: 41, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
127 18 0.02
128 668 0.82
129 125 0.15
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (128 bp):
GGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCACCC
CCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAATAGTGTCCCCGAA
Found at i:34513 original size:8 final size:8
Alignment explanation
Indices: 34500--34539 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
34490 TCACAAGCTT
34500 TCAAATTC
1 TCAAATTC
34508 TCAAATTC
1 TCAAATTC
* *
34516 CCAAACTC
1 TCAAATTC
34524 T-AAATTC
1 TCAAATTC
34531 TCAAATTC
1 TCAAATTC
34539 T
1 T
34540 TTGAAAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.35
Consensus pattern (8 bp):
TCAAATTC
Found at i:37543 original size:13 final size:13
Alignment explanation
Indices: 37525--37571 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
37515 AAATATTTTC
37525 AATATATTTATTT
1 AATATATTTATTT
* *
37538 AATATA-ATAATT
1 AATATATTTATTT
*
37550 AATATATTTATTC
1 AATATATTTATTT
37563 AATATATTT
1 AATATATTT
37572 TCATGTTCTG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (13 bp):
AATATATTTATTT
Found at i:39821 original size:16 final size:15
Alignment explanation
Indices: 39788--39818 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
39778 AAATTCTAAA
39788 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
39803 TATTTTAATAAAAAT
1 TATTTAAATAAAAAT
39818 T
1 T
39819 TATCTGTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:42024 original size:29 final size:28
Alignment explanation
Indices: 41982--42185 Score: 223
Period size: 29 Copynumber: 7.1 Consensus size: 28
41972 ACCTTTTTCG
** * * *
41982 AAATAATTTTCAAACTATCACCTTTTTCG
1 AAATAATTACCAAAATATCACCGTTTT-A
* *
42011 AAATAATTCCCAAAATATCACTGTTTTAA
1 AAATAATTACCAAAATATCACCGTTTT-A
42040 AAATAATTACCAAAATATCACCGTTTTA
1 AAATAATTACCAAAATATCACCGTTTTA
42068 ACAAT-ATTACCAAAATATCACCGTTTTA
1 A-AATAATTACCAAAATATCACCGTTTTA
42096 ACAATAATTACCAAAATATCACCGTTTTA
1 A-AATAATTACCAAAATATCACCGTTTTA
* *
42125 ACAATAATTACGAAAATAGCACTC-TTTTA
1 A-AATAATTACCAAAATATCAC-CGTTTTA
* * *
42154 AAATTAATTACGAAAATAGCACCTTTTTA
1 AAA-TAATTACCAAAATATCACCGTTTTA
42183 AAA
1 AAA
42186 CTATTTATCA
Statistics
Matches: 159, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
28 33 0.21
29 125 0.79
30 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.33
Consensus pattern (28 bp):
AAATAATTACCAAAATATCACCGTTTTA
Found at i:42094 original size:57 final size:58
Alignment explanation
Indices: 42012--42183 Score: 240
Period size: 57 Copynumber: 3.0 Consensus size: 58
42002 CCTTTTTCGA
* *
42012 AATAATTCCCAAAATATCACTGTTTTAAAAATAATTACCAAAATATCACCGTTTTAAC
1 AATAATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACCGTTTTAAC
*
42070 AAT-ATTACCAAAATATCACCGTTTTAACAATAATTACCAAAATATCACCGTTTTAAC
1 AATAATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACCGTTTTAAC
* * * * * *
42127 AATAATTACGAAAATAGCACTC-TTTTAAAATTAATTACGAAAATAGCACCTTTTTAA
1 AATAATTACCAAAATATCAC-CGTTTTAAAAATAATTACCAAAATATCACCGTTTTAA
42184 AACTATTTAT
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
57 54 0.53
58 47 0.46
59 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.33
Consensus pattern (58 bp):
AATAATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATATCACCGTTTTAAC
Found at i:42142 original size:86 final size:87
Alignment explanation
Indices: 42012--42183 Score: 233
Period size: 86 Copynumber: 2.0 Consensus size: 87
42002 CCTTTTTCGA
* * *
42012 AATAATTCCCAAAATATCACTGTTTTAAAAATAATTACCAAAATATCAC-CGTTTTAACAA-T-A
1 AATAATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATAGCACTC-TTTTAA-AATTAA
*
42074 TTACCAAAATATCACCGTTTTAAC
64 TTACCAAAATAGCACCGTTTTAAC
* *
42098 AATAATTACCAAAATATCACCGTTTTAACAATAATTACGAAAATAGCACTCTTTTAAAATTAATT
1 AATAATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATAGCACTCTTTTAAAATTAATT
* *
42163 ACGAAAATAGCACCTTTTTAA
66 ACCAAAATAGCACCGTTTTAA
42184 AACTATTTAT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 2 0.03
86 51 0.68
87 22 0.29
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.33
Consensus pattern (87 bp):
AATAATTACCAAAATATCACCGTTTTAAAAATAATTACCAAAATAGCACTCTTTTAAAATTAATT
ACCAAAATAGCACCGTTTTAAC
Found at i:42198 original size:29 final size:29
Alignment explanation
Indices: 42012--42183 Score: 233
Period size: 29 Copynumber: 6.0 Consensus size: 29
42002 CCTTTTTCGA
* * *
42012 AATAATTCCCAAAATATCACTGTTTTAAA
1 AATAATTACCAAAATATCACCGTTTTAAC
42041 AATAATTACCAAAATATCACCGTTTTAAC
1 AATAATTACCAAAATATCACCGTTTTAAC
42070 AAT-ATTACCAAAATATCACCGTTTTAAC
1 AATAATTACCAAAATATCACCGTTTTAAC
42098 AATAATTACCAAAATATCACCGTTTTAAC
1 AATAATTACCAAAATATCACCGTTTTAAC
* *
42127 AATAATTACGAAAATAGCACTC-TTTTAA-
1 AATAATTACCAAAATATCAC-CGTTTTAAC
* * *
42155 AATTAATTACGAAAATAGCACCTTTTTAA
1 AA-TAATTACCAAAATATCACCGTTTTAA
42184 AACTATTTAT
Statistics
Matches: 134, Mismatches: 5, Indels: 8
0.91 0.03 0.05
Matches are distributed among these distances:
28 31 0.23
29 102 0.76
30 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.33
Consensus pattern (29 bp):
AATAATTACCAAAATATCACCGTTTTAAC
Found at i:42711 original size:21 final size:21
Alignment explanation
Indices: 42679--42760 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
42669 TTTTTATTCT
42679 TAGTGC-TATTATAATATTTA
1 TAGTGCTTATTATAATATTTA
* **
42699 TAGTGTTTATTATTTTATTTA
1 TAGTGCTTATTATAATATTTA
** *
42720 TAGTGCTTATTATTTTATCTA
1 TAGTGCTTATTATAATATTTA
*
42741 TAGTGC-TATTAGATATATTT
1 TAGTGCTTATTATA-ATATTT
42761 TTTTTTCCTA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
20 10 0.20
21 41 0.80
ACGTcount: A:0.28, C:0.05, G:0.11, T:0.56
Consensus pattern (21 bp):
TAGTGCTTATTATAATATTTA
Found at i:42744 original size:42 final size:41
Alignment explanation
Indices: 42665--42745 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
42655 TACCACTAAA
* *
42665 TATTTTTTTATTCTTAGTGCTATTATAATATTTATAGTGTT
1 TATTATTTTATTCTTAGTGCTATTATAATATCTATAGTGTT
**
42706 TATTATTTTATT-TATAGTGCTTATTATTTTATCTATAGTG
1 TATTATTTTATTCT-TAGTGC-TATTATAATATCTATAGTG
42746 CTATTAGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 1 0.03
41 17 0.50
42 16 0.47
ACGTcount: A:0.25, C:0.05, G:0.10, T:0.60
Consensus pattern (41 bp):
TATTATTTTATTCTTAGTGCTATTATAATATCTATAGTGTT
Found at i:49761 original size:29 final size:29
Alignment explanation
Indices: 49343--49746 Score: 455
Period size: 29 Copynumber: 14.0 Consensus size: 29
49333 ACTTTTTCGA
* * ** *
49343 AATAATTCCCAAACTATCACTTTTTTGA-
1 AATAATTACCAAAATATCACCGTTTTAAC
* ** *
49371 AATAATTTCCAAAATATCACATTTTTTGA-
1 AATAATTACCAAAATATCAC-CGTTTTAAC
* * *
49400 AATAATTCCCAAAATATCA-CTTTTTCGA-
1 AATAATTACCAAAATATCACCGTTTT-AAC
** *
49428 AATAATT-CTCAAAATATCATTGTTTTAAA
1 AATAATTAC-CAAAATATCACCGTTTTAAC
49457 AATAATTACCAAAATATCACCGTTTTAAC
1 AATAATTACCAAAATATCACCGTTTTAAC
*
49486 AAGAATTACCAAAATATCACCGTTTTAAC
1 AATAATTACCAAAATATCACCGTTTTAAC
49515 AATAATTACCAAAATATCACCGTTTTAAC
1 AATAATTACCAAAATATCACCGTTTTAAC
49544 AATAATTACCAAAATATCACCGTTTTAAC
1 AATAATTACCAAAATATCACCGTTTTAAC
49573 AATAATTACCAAAATATCACCGTTTTAAC
1 AATAATTACCAAAATATCACCGTTTTAAC
49602 AATAATTACCAAAATATCACCGTTTTAAC
1 AATAATTACCAAAATATCACCGTTTTAAC
*
49631 AATAATTACCAAAATATCACCATTTTAAC
1 AATAATTACCAAAATATCACCGTTTTAAC
* *
49660 AATAATTACAAAAAATAGCACTC-TTTTAA-
1 AATAATTAC-CAAAATATCAC-CGTTTTAAC
* * **
49689 AATTAATTACAAAAATAGCACATTTTTAA-
1 AA-TAATTACCAAAATATCACCGTTTTAAC
* * *
49718 AATTAATTACAAAAATAGCACCTTTTTAA
1 AA-TAATTACCAAAATATCACCGTTTTAA
49747 AACTATTTAT
Statistics
Matches: 349, Mismatches: 17, Indels: 19
0.91 0.04 0.05
Matches are distributed among these distances:
27 6 0.02
28 38 0.11
29 281 0.81
30 23 0.07
31 1 0.00
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.34
Consensus pattern (29 bp):
AATAATTACCAAAATATCACCGTTTTAAC
Found at i:50275 original size:21 final size:21
Alignment explanation
Indices: 50237--50324 Score: 81
Period size: 21 Copynumber: 4.2 Consensus size: 21
50227 ATATTTTTTT
*
50237 TATTTTTAGTGC-TATTATAA
1 TATTTATAGTGCTTATTATAA
* **
50257 TATTTATAGTGTTTATTATTT
1 TATTTATAGTGCTTATTATAA
**
50278 TATTTATAGTGCTTATTATTT
1 TATTTATAGTGCTTATTATAA
* *
50299 TATCTATAGTGC-TATTAGATA
1 TATTTATAGTGCTTATTATA-A
50320 TATTT
1 TATTT
50325 TTTTCCTAGT
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
20 15 0.27
21 41 0.73
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.58
Consensus pattern (21 bp):
TATTTATAGTGCTTATTATAA
Found at i:50315 original size:41 final size:41
Alignment explanation
Indices: 50234--50315 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
50224 TAAATATTTT
* * *
50234 TTTTATTTTTAGTGCTATTATAATATTTATAGTGTTTATTA
1 TTTTATTTATAGTGCTATTATAATATCTATAGTGTCTATTA
**
50275 TTTTATTTATAGTGCTTATTATTTTATCTATAGTG-CTATTA
1 TTTTATTTATAGTGC-TATTATAATATCTATAGTGTCTATTA
50316 GATATATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 19 0.54
42 16 0.46
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.60
Consensus pattern (41 bp):
TTTTATTTATAGTGCTATTATAATATCTATAGTGTCTATTA
Found at i:51751 original size:70 final size:70
Alignment explanation
Indices: 51638--51772 Score: 261
Period size: 70 Copynumber: 1.9 Consensus size: 70
51628 CAGCTAAATA
*
51638 TAGACATGGTAGTAAACACATAAATATAGTCAAAATTGTCATCAGATTCATTCATATGGGACCAG
1 TAGACATGGTAGTAAACACATAAATATAGTCAAAATTATCATCAGATTCATTCATATGGGACCAG
51703 TTCTC
66 TTCTC
51708 TAGACATGGTAGTAAACACATAAATATAGTCAAAATTATCATCAGATTCATTCATATGGGACCAG
1 TAGACATGGTAGTAAACACATAAATATAGTCAAAATTATCATCAGATTCATTCATATGGGACCAG
51773 ATTAAGAGTA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (70 bp):
TAGACATGGTAGTAAACACATAAATATAGTCAAAATTATCATCAGATTCATTCATATGGGACCAG
TTCTC
Found at i:61429 original size:13 final size:14
Alignment explanation
Indices: 61390--61423 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
61380 ATGACAAAAC
61390 ACCTTTAAAAATAT
1 ACCTTTAAAAATAT
61404 ACCTTTAAAAATAT
1 ACCTTTAAAAATAT
61418 ACCTTT
1 ACCTTT
61424 CTAATACTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (14 bp):
ACCTTTAAAAATAT
Found at i:62196 original size:11 final size:11
Alignment explanation
Indices: 62180--62241 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
62170 AAATTTTAAG
62180 AGCTCGATTCA
1 AGCTCGATTCA
* *
62191 AGCTCGAGACTCG
1 AGCTC--GATTCA
*
62204 AGCTCGGTTCA
1 AGCTCGATTCA
*
62215 AGCTTGATTCA
1 AGCTCGATTCA
* *
62226 AGTTTGATTCA
1 AGCTCGATTCA
62237 AGCTC
1 AGCTC
62242 AACAGATTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
11 30 0.77
13 9 0.23
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:63505 original size:7 final size:7
Alignment explanation
Indices: 63489--63550 Score: 72
Period size: 7 Copynumber: 9.0 Consensus size: 7
63479 TCACATAATT
*
63489 GGGTTAA
1 GGGTTTA
63496 GGGTTTA
1 GGGTTTA
63503 GGGTTTA
1 GGGTTTA
63510 GGGTTTA
1 GGGTTTA
*
63517 GGGCTTA
1 GGGTTTA
**
63524 TAGTTTA
1 GGGTTTA
63531 -GGTTTA
1 GGGTTTA
*
63537 GGATTTA
1 GGGTTTA
63544 GGGTTTA
1 GGGTTTA
63551 TAGTTTATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
6 5 0.11
7 41 0.89
ACGTcount: A:0.19, C:0.02, G:0.37, T:0.42
Consensus pattern (7 bp):
GGGTTTA
Found at i:63537 original size:27 final size:28
Alignment explanation
Indices: 63498--63557 Score: 95
Period size: 27 Copynumber: 2.2 Consensus size: 28
63488 TGGGTTAAGG
*
63498 GTTTAGGGTTTAGGGTTTAGGGCTTATA
1 GTTTAGGGTTTAGGATTTAGGGCTTATA
*
63526 GTTTA-GGTTTAGGATTTAGGGTTTATA
1 GTTTAGGGTTTAGGATTTAGGGCTTATA
63553 GTTTA
1 GTTTA
63558 TAATCTAGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.47
Consensus pattern (28 bp):
GTTTAGGGTTTAGGATTTAGGGCTTATA
Found at i:63557 original size:14 final size:14
Alignment explanation
Indices: 63498--63557 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
63488 TGGGTTAAGG
**
63498 GTTTAGGGTTTAGG
1 GTTTAGGGTTTATA
*
63512 GTTTAGGGCTTATA
1 GTTTAGGGTTTATA
*
63526 GTTTA-GGTTTA-G
1 GTTTAGGGTTTATA
63538 GATTTAGGGTTTATA
1 G-TTTAGGGTTTATA
63553 GTTTA
1 GTTTA
63558 TAATCTAGGG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.03
13 9 0.24
14 26 0.70
15 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTATA
Found at i:63664 original size:20 final size:20
Alignment explanation
Indices: 63639--63749 Score: 116
Period size: 20 Copynumber: 5.4 Consensus size: 20
63629 AATCAGATCA
* *
63639 AGGGTTCAGATTTATGGCTT
1 AGGGTTTAGATTTATGGTTT
*
63659 AGGGTTTGGATTTATGGTTT
1 AGGGTTTAGATTTATGGTTT
*
63679 AGGGTTTGGATTTATGGTTT
1 AGGGTTTAGATTTATGGTTT
* *
63699 AGGGTTTATGATTTATAGTGT
1 AGGGTTTA-GATTTATGGTTT
*
63720 AGGGTTTATAGTTTA-GAGTTTT
1 AGGGTTTAGA-TTTATG-G-TTT
63742 AGGGTTTA
1 AGGGTTTA
63750 TGGTGTAATC
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
20 45 0.58
21 23 0.29
22 10 0.13
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.47
Consensus pattern (20 bp):
AGGGTTTAGATTTATGGTTT
Found at i:63684 original size:7 final size:7
Alignment explanation
Indices: 63657--63749 Score: 55
Period size: 7 Copynumber: 13.4 Consensus size: 7
63647 GATTTATGGC
63657 TTAGGGT
1 TTAGGGT
*
63664 TT-GGAT
1 TTAGGGT
*
63670 TTATGGT
1 TTAGGGT
63677 TTAGGGT
1 TTAGGGT
*
63684 TT-GGAT
1 TTAGGGT
*
63690 TTATGGT
1 TTAGGGT
63697 TTAGGGT
1 TTAGGGT
* *
63704 TTATGAT
1 TTAGGGT
**
63711 TTATAGT
1 TTAGGGT
*
63718 GTAGGGT
1 TTAGGGT
**
63725 TTATAGT
1 TTAGGGT
*
63732 TTAGAGTT
1 TTAG-GGT
63740 TTAGGGT
1 TTAGGGT
63747 TTA
1 TTA
63750 TGGTGTAATC
Statistics
Matches: 61, Mismatches: 22, Indels: 6
0.69 0.25 0.07
Matches are distributed among these distances:
6 10 0.16
7 46 0.75
8 5 0.08
ACGTcount: A:0.19, C:0.00, G:0.31, T:0.49
Consensus pattern (7 bp):
TTAGGGT
Found at i:63708 original size:14 final size:14
Alignment explanation
Indices: 63649--63753 Score: 56
Period size: 14 Copynumber: 7.6 Consensus size: 14
63639 AGGGTTCAGA
*
63649 TTTATGGCTTAGGG
1 TTTATGGTTTAGGG
*
63663 -TT-TGGATTTATGG
1 TTTATGG-TTTAGGG
* *
63676 TTTAGGGTTT-GGA
1 TTTATGGTTTAGGG
63689 TTTATGGTTTAGGG
1 TTTATGGTTTAGGG
* **
63703 TTTATGATTTATAG
1 TTTATGGTTTAGGG
* * **
63717 TGTAGGGTTTATAG
1 TTTATGGTTTAGGG
63731 TTTA-GAGTTTTAGGG
1 TTTATG-G-TTTAGGG
63746 TTTATGGT
1 TTTATGGT
63754 GTAATCTAAC
Statistics
Matches: 68, Mismatches: 16, Indels: 14
0.69 0.16 0.14
Matches are distributed among these distances:
12 3 0.04
13 18 0.26
14 34 0.50
15 12 0.18
16 1 0.01
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.50
Consensus pattern (14 bp):
TTTATGGTTTAGGG
Found at i:65073 original size:18 final size:18
Alignment explanation
Indices: 65052--65086 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65042 TTTATTAGTC
65052 ATATTAGATTTAATAAAT
1 ATATTAGATTTAATAAAT
**
65070 ATATTTTATTTAATAAA
1 ATATTAGATTTAATAAA
65087 AAATATATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
ATATTAGATTTAATAAAT
Found at i:65616 original size:20 final size:22
Alignment explanation
Indices: 65593--65633 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
65583 TAGAATTATA
65593 AAAAATAAAT-TTTA-ATTTTT
1 AAAAATAAATATTTATATTTTT
*
65613 AAAAATATATATTTATATTTT
1 AAAAATAAATATTTATATTTT
65634 ATAGTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 4 0.22
22 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAAAATAAATATTTATATTTTT
Found at i:69358 original size:147 final size:146
Alignment explanation
Indices: 69092--69385 Score: 579
Period size: 147 Copynumber: 2.0 Consensus size: 146
69082 CAATTTGTGC
69092 TATAAATTATGTATAAGAAATTAGATCCAAATGGAGTATGTTTACAACATCTCTTAAGTCAACTT
1 TATAAATTATGTATAAGAAATTAGATCCAAATGGAGTATGTTTACAACATCTCTTAAGTCAACTT
69157 CCTTGTGTATTTTCGAATGATATGGCCCAAGAATTCGAACAGAGCCTTGATTACAGTATAAACTT
66 CCTTGTGTATTTTCGAATGATATGGCCCAAGAATTCGAACAGAGCCTTGATTACAGTATAAACTT
69222 CACCTTCCCTGGCCAG
131 CACCTTCCCTGGCCAG
69238 TATAAATTATGTATAAGAAATTAGATCCAAATGGAGTATGTTTACATACATCTCTTAAGTCAACT
1 TATAAATTATGTATAAGAAATTAGATCCAAATGGAGTATGTTTACA-ACATCTCTTAAGTCAACT
69303 TCCTTGTGTATTTTCGAATGATATGGCCCAAGAATTCGAACAGAGCCTTGATTACAGTATAAACT
65 TCCTTGTGTATTTTCGAATGATATGGCCCAAGAATTCGAACAGAGCCTTGATTACAGTATAAACT
69368 TCACCTTCCCTGGCCAG
130 TCACCTTCCCTGGCCAG
69385 T
1 T
69386 GAATTCGAAC
Statistics
Matches: 147, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
146 46 0.31
147 101 0.69
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (146 bp):
TATAAATTATGTATAAGAAATTAGATCCAAATGGAGTATGTTTACAACATCTCTTAAGTCAACTT
CCTTGTGTATTTTCGAATGATATGGCCCAAGAATTCGAACAGAGCCTTGATTACAGTATAAACTT
CACCTTCCCTGGCCAG
Found at i:69404 original size:52 final size:53
Alignment explanation
Indices: 69334--69439 Score: 196
Period size: 52 Copynumber: 2.0 Consensus size: 53
69324 TATGGCCCAA
69334 GAATTCGAACAGAGCCTTGATTACAGTAT-AAACTTCACCTTCCCTGGCCAGT
1 GAATTCGAACAGAGCCTTGATTACAGTATAAAACTTCACCTTCCCTGGCCAGT
69386 GAATTCGAACAGAGCCTTGATTACAGTATAGAAACTTCACCTTCCCTGGCCAGT
1 GAATTCGAACAGAGCCTTGATTACAGTATA-AAACTTCACCTTCCCTGGCCAGT
69440 TGTTATTGCA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
52 29 0.56
54 23 0.44
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (53 bp):
GAATTCGAACAGAGCCTTGATTACAGTATAAAACTTCACCTTCCCTGGCCAGT
Found at i:71018 original size:2 final size:2
Alignment explanation
Indices: 71011--71037 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
71001 GTACTGATTT
71011 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
71038 GAATGATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:79947 original size:129 final size:129
Alignment explanation
Indices: 79717--79974 Score: 516
Period size: 129 Copynumber: 2.0 Consensus size: 129
79707 GGAAACGTAC
79717 AATTTTCTCATTGGACTAATTAGTTCTGTCAGACCAAATGGCTCAGGATCATGATGGAAATAATC
1 AATTTTCTCATTGGACTAATTAGTTCTGTCAGACCAAATGGCTCAGGATCATGATGGAAATAATC
79782 CATCGAATGCATTGATAAATACTCGTCAAAGAAAGCATTGTAATTATGAGCCTATAACCATTTT
66 CATCGAATGCATTGATAAATACTCGTCAAAGAAAGCATTGTAATTATGAGCCTATAACCATTTT
79846 AATTTTCTCATTGGACTAATTAGTTCTGTCAGACCAAATGGCTCAGGATCATGATGGAAATAATC
1 AATTTTCTCATTGGACTAATTAGTTCTGTCAGACCAAATGGCTCAGGATCATGATGGAAATAATC
79911 CATCGAATGCATTGATAAATACTCGTCAAAGAAAGCATTGTAATTATGAGCCTATAACCATTTT
66 CATCGAATGCATTGATAAATACTCGTCAAAGAAAGCATTGTAATTATGAGCCTATAACCATTTT
79975 CAGTTCCCAA
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 129 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (129 bp):
AATTTTCTCATTGGACTAATTAGTTCTGTCAGACCAAATGGCTCAGGATCATGATGGAAATAATC
CATCGAATGCATTGATAAATACTCGTCAAAGAAAGCATTGTAATTATGAGCCTATAACCATTTT
Found at i:87354 original size:7 final size:7
Alignment explanation
Indices: 87344--87373 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
87334 CAACCTTTTT
*
87344 CACCGAA
1 CACCAAA
87351 CACCAAA
1 CACCAAA
87358 CACCAAA
1 CACCAAA
87365 CACCAAA
1 CACCAAA
87372 CA
1 CA
87374 AACAAAGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.53, C:0.43, G:0.03, T:0.00
Consensus pattern (7 bp):
CACCAAA
Found at i:92140 original size:727 final size:728
Alignment explanation
Indices: 90744--92692 Score: 3699
Period size: 727 Copynumber: 2.7 Consensus size: 728
90734 GAACCCAAAT
90744 GTATAATTCCCTGATGAGCAGAAACTCTCCAGCTTTGGTAGATAGTCAAGTTTCAAAATGTTGAG
1 GTATAATTCCCTGATGAGCAGAAACTCTCCAGCTTTGGTAGATAGTCAAGTTTCAAAATGTTGAG
*
90809 TTGGGGGAAACTGATTTCATCATCATCATCATCCCCACCTTGTATTACCCCTTCCATTTCACGAC
66 TTGGGGGAAACTGATTTCATCATCATCATCATCCCCACCTTGTATTACCTCTTCCATTTCACGAC
*
90874 ATCGAAAAATATCAAGTGTTTTGAGTTGGACAAAGTTTTTAACTGTAGATGAAGTAAACACACAC
131 ATCGAAAAATATCAAGTGTTTTGAGTTGGACAAAGCTTTTAACTGTAGATGAAGTAAACACACAC
* * * ** * * * * *
90939 TTCAGCTTATCACAACTCAGCACGCGT-AATTCCACCAAGACAGGACATGAAATCTGCCAATAAA
196 TTCAACTTATCACATCCCTCCAAG-TTCAACTCCTCCAAGACAGGACATGAAATCTGCTAATAAA
91003 AATTAAAATAAGATTAGATAGGGTAAAATAAATTAAACCAAGAGTCAAGAATGAGTCGTGTAGAA
260 AATTAAAATAAGATTAGATAGGGTAAAATAAATTAAACCAAGAGTCAAGAATGAGTCGTGTAGAA
91068 AATGATTTCATAACACCACTGTTTGCCTTCTTGGAATTGAGATTCTGATTCAAATCTTATTTCTG
325 AATGATTTCATAACACCACTGTTTGCCTTCTTGGAATTGAGATTCTGATTCAAATCTTATTTCTG
91133 AAATATTTGTATTCTTATTTTTATGTTGTATTATCACTGAAACCAATAATTAATTATAGCAACTT
390 AAATATTTGTATTCTTATTTTTATGTTGTATTATCACTGAAACCAATAATTAATTATAGCAACTT
91198 TTAGTTAATATTCTTGTTTGATTAAATATTCAAGTACTAATTGGTTGGTCTGGAAAAGGACTGCT
455 TTAGTTAATATTCTTGTTTGATTAAATATTCAAGTACTAATTGGTTGGTCTGGAAAAGGACTGCT
91263 GATTTAGCCATAGCATTTCAAAGTTGTACAAGAATCGAATATACAATTGCTCTAGCTGAGGAAGC
520 GATTTAGCCATAGCATTTCAAAGTTGTACAAGAATCGAATATACAATTGCTCTAGCTGAGGAAGC
91328 ATCACCTACATGCATAACACCAAAAATACCAGGTTCAGAGCATTGGAATTCTTTTGTTGTTTCTT
585 ATCACCTACATGCATAACACCAAAAATACCAGGTTCAGAGCATTGGAATTCTTTTGTTGTTTCTT
91393 CCTATACTAAGACCGAAGATTAGTAAATACCTTGTCATTAAAGAGATGTTGTAGCAGATCAAGTG
650 CCTATACTAAGACCGAAGATTAGTAAATACCTTGTCATTAAAGAGATGTTGTAGCAGATCAAGTG
91458 AGATGTTGTCACTG
715 AGATGTTGTCACTG
91472 GTATAATTCCCTGATGAGCAGAAACTCTCCAGCTTTGGTAGATAGTCAAGTTTCAAAATGTTGAG
1 GTATAATTCCCTGATGAGCAGAAACTCTCCAGCTTTGGTAGATAGTCAAGTTTCAAAATGTTGAG
91537 TTGGGGGAAACTGATTTCATCATCATCATCAT-CCCACCTTGTATTACCTCTTCCATTTCACGAC
66 TTGGGGGAAACTGATTTCATCATCATCATCATCCCCACCTTGTATTACCTCTTCCATTTCACGAC
91601 ATCGAAAAATATCAAGTGTTTTGAGTTGGACAAAGCTTTTAACTGTAGATGAAGTAAACACACAC
131 ATCGAAAAATATCAAGTGTTTTGAGTTGGACAAAGCTTTTAACTGTAGATGAAGTAAACACACAC
91666 TTCAACTTATCACATCCCTCCAAGTTCAACTCCTCCAAGACAGGACATGAAATCTGCTAATAAAA
196 TTCAACTTATCACATCCCTCCAAGTTCAACTCCTCCAAGACAGGACATGAAATCTGCTAATAAAA
91731 ATTAAAATAAGATTAGATAGGGTAAAATAAATTAAACCAAGAGTCAAGAATGAGTCGTGTAGAAA
261 ATTAAAATAAGATTAGATAGGGTAAAATAAATTAAACCAAGAGTCAAGAATGAGTCGTGTAGAAA
91796 ATGATTTCATAACACCACTGTTTGCCTTCTTGGAATTGAGATTCTGATTCAAATCTTATTTCTGA
326 ATGATTTCATAACACCACTGTTTGCCTTCTTGGAATTGAGATTCTGATTCAAATCTTATTTCTGA
91861 AATATTTGTATTCTTATTTTTATGTTGTATTATCACTGAAACCAATAATTAATTATAGCAACTTT
391 AATATTTGTATTCTTATTTTTATGTTGTATTATCACTGAAACCAATAATTAATTATAGCAACTTT
91926 TAGTTAATATTCTTGTTTGATTAAATATTCAAGTACTAATTGGTTGGTCTGGAAAAGGACTGCTG
456 TAGTTAATATTCTTGTTTGATTAAATATTCAAGTACTAATTGGTTGGTCTGGAAAAGGACTGCTG
91991 ATTTAGCCATAGCATTTCAAAGTTGTACAAGAATCGAATATACAATTGCTCTAGCTGAGGAAGCA
521 ATTTAGCCATAGCATTTCAAAGTTGTACAAGAATCGAATATACAATTGCTCTAGCTGAGGAAGCA
92056 TCACCTACATGCATAACACCAAAAATACCAGGTTCAGAGCATTGGAATTCTTTTGTTGTTTCTTC
586 TCACCTACATGCATAACACCAAAAATACCAGGTTCAGAGCATTGGAATTCTTTTGTTGTTTCTTC
92121 CTATACTAAGACCGAAGATTAGTAAATACCTTGTCATTAAAGAGATGTTGTAGCAGATCAAGTGA
651 CTATACTAAGACCGAAGATTAGTAAATACCTTGTCATTAAAGAGATGTTGTAGCAGATCAAGTGA
92186 GATGTTGTCACTG
716 GATGTTGTCACTG
92199 GTATAATTCCCTGATGAGCAGAAACTCTCCAGCTTTGGTAGATAGTCAAGTTTCAAAATGTTGAG
1 GTATAATTCCCTGATGAGCAGAAACTCTCCAGCTTTGGTAGATAGTCAAGTTTCAAAATGTTGAG
92264 TTGGGGGAAACTGATTTCATCATCATCATCATCCCCACCTTGTATTACCTCTTCCATTTCACGAC
66 TTGGGGGAAACTGATTTCATCATCATCATCATCCCCACCTTGTATTACCTCTTCCATTTCACGAC
92329 ATCGAAAAATATCAAGTGTTTTGAGTTGGACAAAGCTTTTAACTGTAGATGAAGTAAACACACAC
131 ATCGAAAAATATCAAGTGTTTTGAGTTGGACAAAGCTTTTAACTGTAGATGAAGTAAACACACAC
92394 TTCAACTTATCACATCCCTCCAAGTTCAACTCCTCCAAGACAGGACATGAAATCTGCTAATAAAA
196 TTCAACTTATCACATCCCTCCAAGTTCAACTCCTCCAAGACAGGACATGAAATCTGCTAATAAAA
92459 ATTAAAATAAGATTAGATAGGGTAAAATAAATTAAACCAAGAGTCAAGAATGAGTCGTGTAGAAA
261 ATTAAAATAAGATTAGATAGGGTAAAATAAATTAAACCAAGAGTCAAGAATGAGTCGTGTAGAAA
92524 ATGATTTCATAACACCACTGTTTGCCTTCTTGGAATTGAGATTCTGATTCAAATCTTATTTCTGA
326 ATGATTTCATAACACCACTGTTTGCCTTCTTGGAATTGAGATTCTGATTCAAATCTTATTTCTGA
* * *
92589 AATATTTTTATTCTTATTTTTATGTTGTATTATCACTGAAACCAATAATTATTTATAACAA-TTT
391 AATATTTGTATTCTTATTTTTATGTTGTATTATCACTGAAACCAATAATTAATTATAGCAACTTT
* * *
92653 TAATTAATATTCTT-ATTGATTAAATACTCAAGTACTAATT
456 TAGTTAATATTCTTGTTTGATTAAATATTCAAGTACTAATT
92693 TTGCTTTCAT
Statistics
Matches: 1201, Mismatches: 18, Indels: 6
0.98 0.01 0.00
Matches are distributed among these distances:
726 25 0.02
727 729 0.61
728 447 0.37
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (728 bp):
GTATAATTCCCTGATGAGCAGAAACTCTCCAGCTTTGGTAGATAGTCAAGTTTCAAAATGTTGAG
TTGGGGGAAACTGATTTCATCATCATCATCATCCCCACCTTGTATTACCTCTTCCATTTCACGAC
ATCGAAAAATATCAAGTGTTTTGAGTTGGACAAAGCTTTTAACTGTAGATGAAGTAAACACACAC
TTCAACTTATCACATCCCTCCAAGTTCAACTCCTCCAAGACAGGACATGAAATCTGCTAATAAAA
ATTAAAATAAGATTAGATAGGGTAAAATAAATTAAACCAAGAGTCAAGAATGAGTCGTGTAGAAA
ATGATTTCATAACACCACTGTTTGCCTTCTTGGAATTGAGATTCTGATTCAAATCTTATTTCTGA
AATATTTGTATTCTTATTTTTATGTTGTATTATCACTGAAACCAATAATTAATTATAGCAACTTT
TAGTTAATATTCTTGTTTGATTAAATATTCAAGTACTAATTGGTTGGTCTGGAAAAGGACTGCTG
ATTTAGCCATAGCATTTCAAAGTTGTACAAGAATCGAATATACAATTGCTCTAGCTGAGGAAGCA
TCACCTACATGCATAACACCAAAAATACCAGGTTCAGAGCATTGGAATTCTTTTGTTGTTTCTTC
CTATACTAAGACCGAAGATTAGTAAATACCTTGTCATTAAAGAGATGTTGTAGCAGATCAAGTGA
GATGTTGTCACTG
Found at i:107333 original size:13 final size:13
Alignment explanation
Indices: 107315--107339 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107305 GCAAATTGCA
107315 TGCTTAAGTTTTG
1 TGCTTAAGTTTTG
107328 TGCTTAAGTTTT
1 TGCTTAAGTTTT
107340 CTTTCCTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.20, T:0.56
Consensus pattern (13 bp):
TGCTTAAGTTTTG
Found at i:113218 original size:23 final size:21
Alignment explanation
Indices: 113173--113212 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
113163 AAAAAATTAT
*
113173 ATAAAATATTATTATTTTTAC
1 ATAAAATATTAATATTTTTAC
113194 ATAAAATATTAATATTTTT
1 ATAAAATATTAATATTTTT
113213 TAACATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAAAATATTAATATTTTTAC
Found at i:117455 original size:17 final size:18
Alignment explanation
Indices: 117433--117476 Score: 81
Period size: 17 Copynumber: 2.5 Consensus size: 18
117423 ACTATATGTA
117433 AGGGTATCGATACT-GGT
1 AGGGTATCGATACTGGGT
117450 AGGGTATCGATACTGGGT
1 AGGGTATCGATACTGGGT
117468 AGGGTATCG
1 AGGGTATCG
117477 GTACCCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.23, C:0.11, G:0.39, T:0.27
Consensus pattern (18 bp):
AGGGTATCGATACTGGGT
Found at i:118636 original size:12 final size:13
Alignment explanation
Indices: 118608--118637 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
118598 TTGTCATCTC
*
118608 AAAAGTGATTTTA
1 AAAAGTGATTATA
118621 AAAAGTGATTATA
1 AAAAGTGATTATA
118634 AAAA
1 AAAA
118638 TGTATACTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAGTGATTATA
Found at i:120045 original size:39 final size:40
Alignment explanation
Indices: 119984--120084 Score: 111
Period size: 39 Copynumber: 2.6 Consensus size: 40
119974 TAAAATAACA
*
119984 TAGAATGTTAGA-AAAAATAATTTTAA-AAATCAAGAAA-T
1 TAGAATGTTAGAGTAAAATAATTTTAAGAAATCAA-AAATT
* * *
120022 TAGAATGTTATAGTAAAATAA-TTTAAGATATTAAAAATT
1 TAGAATGTTAGAGTAAAATAATTTTAAGAAATCAAAAATT
* *
120061 TAGGATGTTAGAGTTAAATAATTT
1 TAGAATGTTAGAGTAAAATAATTT
120085 GAGAATTGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
38 19 0.37
39 31 0.60
40 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.13, T:0.36
Consensus pattern (40 bp):
TAGAATGTTAGAGTAAAATAATTTTAAGAAATCAAAAATT
Found at i:125448 original size:2 final size:2
Alignment explanation
Indices: 125441--125484 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
125431 TCGAGGGACC
125441 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125483 AT
1 AT
125485 GTGTGTGTGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126791 original size:80 final size:80
Alignment explanation
Indices: 126655--126815 Score: 313
Period size: 80 Copynumber: 2.0 Consensus size: 80
126645 TAGCACGCAT
*
126655 ATGTGACATACTTTCTGAACAGAGTCAAAATTGGGATTTCGTGAACTAAATGAAAATTGATGCTA
1 ATGTGACATACTTTCTGAACAGAGTCAAAATTGGGATTTCGTGAACTAAATAAAAATTGATGCTA
126720 CATTAAGTGACCTAA
66 CATTAAGTGACCTAA
126735 ATGTGACATACTTTCTGAACAGAGTCAAAATTGGGATTTCGTGAACTAAATAAAAATTGATGCTA
1 ATGTGACATACTTTCTGAACAGAGTCAAAATTGGGATTTCGTGAACTAAATAAAAATTGATGCTA
126800 CATTAAGTGACCTAA
66 CATTAAGTGACCTAA
126815 A
1 A
126816 ATGTAAATCT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (80 bp):
ATGTGACATACTTTCTGAACAGAGTCAAAATTGGGATTTCGTGAACTAAATAAAAATTGATGCTA
CATTAAGTGACCTAA
Found at i:132307 original size:2 final size:2
Alignment explanation
Indices: 132290--132336 Score: 76
Period size: 2 Copynumber: 23.0 Consensus size: 2
132280 TAATGAAATA
*
132290 AT AT GAT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
132333 AT AT
1 AT AT
132337 CATTTTAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 40 0.95
3 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:139744 original size:20 final size:20
Alignment explanation
Indices: 139721--139764 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
139711 AAGGTTGTAA
*
139721 GTTAGGGTTTATGTTTAAAT
1 GTTAGGGTTTATGTTTAAAG
139741 GTTAGGGTTTATGTTTAAAG
1 GTTAGGGTTTATGTTTAAAG
139761 GTTA
1 GTTA
139765 TGAAGTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (20 bp):
GTTAGGGTTTATGTTTAAAG
Found at i:139782 original size:21 final size:21
Alignment explanation
Indices: 139749--139807 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
139739 ATGTTAGGGT
139749 TTAT-GTTTAAAGG-TTATGAAG
1 TTATGGTTT-AAGGTTTA-GAAG
*
139770 TTATGGTTTAAGGTTTAGAAT
1 TTATGGTTTAAGGTTTAGAAG
*
139791 TTAGGGTTTTAAGGTTT
1 TTATGG-TTTAAGGTTT
139808 TGGTATAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.47
Consensus pattern (21 bp):
TTATGGTTTAAGGTTTAGAAG
Found at i:140796 original size:22 final size:22
Alignment explanation
Indices: 140750--140796 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
140740 GATTTTCAAC
*
140750 TAATTTATAATTATACGTTTAA
1 TAATTTATAATTATACATTTAA
*
140772 TAATTTATAATT-TAACATTTTA
1 TAATTTATAATTAT-ACATTTAA
140794 TAA
1 TAA
140797 ATTAATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
TAATTTATAATTATACATTTAA
Found at i:143224 original size:68 final size:64
Alignment explanation
Indices: 143130--143281 Score: 157
Period size: 63 Copynumber: 2.3 Consensus size: 64
143120 AACTAAATAT
*
143130 CTTTTAATATTCAAATTTAAACAAATAATAATATATTTTAATCTGAAATATTC-AAAAGATAAAG
1 CTTTTAATATTCAAACTTAAAC--A-AAT-AT-TATTTTAATCTGAAATATTCAAAAAGATAAAG
143194 TCAC
61 TCAC
* * * * * *
143198 CTTTTACTATTTAAACTTAAATAAATATTATTTTAATTTGAAATATTCAAAAAGATATAA-TTAT
1 CTTTTAATATTCAAACTTAAACAAATATTATTTTAATCTGAAATATTCAAAAAGATA-AAGTCAC
*
143262 C-TTTAATATTCAAAATTAAA
1 CTTTTAATATTCAAACTTAAA
143282 TAGGTAATAC
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
63 35 0.49
64 13 0.18
65 5 0.07
66 1 0.01
68 18 0.25
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (64 bp):
CTTTTAATATTCAAACTTAAACAAATATTATTTTAATCTGAAATATTCAAAAAGATAAAGTCAC
Found at i:144520 original size:24 final size:23
Alignment explanation
Indices: 144482--144526 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
144472 AAGATCCTAT
*
144482 CACAAGAGTAGAGAAAACATGTGC
1 CACAAGAGCAGAGAAAA-ATGTGC
*
144506 CACAAGAGCATAGAAAAATGT
1 CACAAGAGCAGAGAAAAATGT
144527 ATCATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.49, C:0.16, G:0.22, T:0.13
Consensus pattern (23 bp):
CACAAGAGCAGAGAAAAATGTGC
Found at i:144907 original size:15 final size:16
Alignment explanation
Indices: 144873--144910 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
144863 AAATTTAGAA
* *
144873 TTAAGAAACTACTTTT
1 TTAAGAAAATACTATT
144889 TTAAGAAAATA-TATT
1 TTAAGAAAATACTATT
144904 TTAAGAA
1 TTAAGAA
144911 GTAAATGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (16 bp):
TTAAGAAAATACTATT
Found at i:147169 original size:60 final size:59
Alignment explanation
Indices: 147062--147188 Score: 130
Period size: 60 Copynumber: 2.1 Consensus size: 59
147052 GTATATACAT
* ** * * * *
147062 ATAGTTTGGGATGAAATTGGAATGTTCAAAAGTCTGAGGACTCATTTAGAATCATAGTC
1 ATAGTTTGGGATGAAACTGGAACATTCAAAAGTCTGAAGAATCATTTAAAATCAGAGTC
* * *
147121 ATAGTTTAGGGATGAAACTGGAACATTTAAAAGT-TTAAGAATCAATTTAAAATGAGAGTC
1 ATAGTTT-GGGATGAAACTGGAACATTCAAAAGTCTGAAGAATC-ATTTAAAATCAGAGTC
*
147181 ATACTTTG
1 ATAGTTTG
147189 AGGACATGTG
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
59 14 0.25
60 41 0.75
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.32
Consensus pattern (59 bp):
ATAGTTTGGGATGAAACTGGAACATTCAAAAGTCTGAAGAATCATTTAAAATCAGAGTC
Found at i:154138 original size:2 final size:2
Alignment explanation
Indices: 154131--154163 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
154121 CTAATATTAA
*
154131 AT AT AT AT AT A- AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
154164 TTAGGGCTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:154627 original size:32 final size:32
Alignment explanation
Indices: 154563--154628 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
154553 TCGAGTCAAT
* * *
154563 ATCAGATCAATTAATTTTCAGATTAAATCAAC
1 ATCAAATCAATTAATTTTCAGATCAAAACAAC
154595 ATCAAATCAATTAATTTTC-GTATCAAAACAAC
1 ATCAAATCAATTAATTTTCAG-ATCAAAACAAC
154627 AT
1 AT
154629 TGAATTGCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 1 0.03
32 29 0.97
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (32 bp):
ATCAAATCAATTAATTTTCAGATCAAAACAAC
Found at i:156566 original size:2 final size:2
Alignment explanation
Indices: 156559--156599 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
156549 GATTGAGGTT
156559 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
156600 GACATTAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:157353 original size:31 final size:31
Alignment explanation
Indices: 157315--157391 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
157305 TAGAAATAAA
157315 AGTTTGAGTATTAAAACATACCAAAATTAAT
1 AGTTTGAGTATTAAAACATACCAAAATTAAT
* *
157346 AGTTTGAGTATTACACCATACCAAAATTAAT
1 AGTTTGAGTATTAAAACATACCAAAATTAAT
* *
157377 AGTTTAAATATTAAA
1 AGTTTGAGTATTAAA
157392 TACTAATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (31 bp):
AGTTTGAGTATTAAAACATACCAAAATTAAT
Found at i:161977 original size:15 final size:16
Alignment explanation
Indices: 161952--161984 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
161942 TATATTATCG
161952 ATGATTTTTTATTTAA
1 ATGATTTTTTATTTAA
161968 ATGA-TTTTTATTTAA
1 ATGATTTTTTATTTAA
161983 AT
1 AT
161985 AATTAGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
ATGATTTTTTATTTAA
Found at i:162612 original size:19 final size:20
Alignment explanation
Indices: 162571--162614 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
162561 TAGTAATAAG
162571 TTTAAATTAGTAACATTTCTT
1 TTTAAATTAG-AACATTTCTT
* *
162592 TTTAAATTA-AAGATTTGTT
1 TTTAAATTAGAACATTTCTT
162611 TTTA
1 TTTA
162615 TTTTCGATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTAAATTAGAACATTTCTT
Found at i:167950 original size:2 final size:2
Alignment explanation
Indices: 167943--167976 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
167933 TGGAATAATT
167943 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
167977 TTACTAACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Done.