Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007428.1 Hibiscus syriacus cultivar Beakdansim tig00020138_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: 917797
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:105 original size:65 final size:66
Alignment explanation
Indices: 1--135 Score: 209
Period size: 65 Copynumber: 2.1 Consensus size: 66
* * *
1 CCTTGAAACGAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAA-CTTTGAAAACGTTT
1 CCTTGAAACGAATTTTGTCTCCCTTGAAACAGTTTCTCTTGAAACACAAATCTTTGAAAACGTTT
65 C
66 C
* * *
66 CCTTGAAACGAATTTTGTCTCCCTTGAAATAGTTTCTCTTGAAACACAAATCTTTGAGATCGTTT
1 CCTTGAAACGAATTTTGTCTCCCTTGAAACAGTTTCTCTTGAAACACAAATCTTTGAAAACGTTT
131 C
66 C
132 CCTT
1 CCTT
136 ATAATAAAAC
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
65 46 0.73
66 17 0.27
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.38
Consensus pattern (66 bp):
CCTTGAAACGAATTTTGTCTCCCTTGAAACAGTTTCTCTTGAAACACAAATCTTTGAAAACGTTT
C
Found at i:200 original size:37 final size:37
Alignment explanation
Indices: 153--278 Score: 92
Period size: 36 Copynumber: 3.4 Consensus size: 37
143 AACCAACTTC
*
153 ATCTCGCTTGAGACAGTTTTCCCTTGAAACAAAATTT
1 ATCTCACTTGAGACAGTTTTCCCTTGAAACAAAATTT
** * * * * *
190 ATCTCACTTGAGATGGTTTT-TCTTAAAACCAACTTC
1 ATCTCACTTGAGACAGTTTTCCCTTGAAACAAAATTT
* * * * *
226 GTTTCGCTTGAGACAATTTTCCATTGAAACAAGAAATTTT
1 ATCTCACTTGAGACAGTTTTCCCTTGAAAC-A-AAA-TTT
*
266 ATCTCACTCGAGA
1 ATCTCACTTGAGA
279 GAGCTTCTCT
Statistics
Matches: 61, Mismatches: 24, Indels: 5
0.68 0.27 0.06
Matches are distributed among these distances:
36 25 0.41
37 23 0.38
39 2 0.03
40 11 0.18
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (37 bp):
ATCTCACTTGAGACAGTTTTCCCTTGAAACAAAATTT
Found at i:222 original size:73 final size:76
Alignment explanation
Indices: 140--278 Score: 212
Period size: 73 Copynumber: 1.9 Consensus size: 76
130 TCCCTTATAA
* * *
140 TAAAACCAACTTCATCTCGCTTGAGACAGTTTTCCCTTGAAAC-A-AAA-TTTATCTCACTTGAG
1 TAAAACCAACTTCATCTCGCTTGAGACAATTTTCCATTGAAACAAGAAATTTTATCTCACTCGAG
202 ATGGTTTTTCT
66 ATGGTTTTTCT
* *
213 TAAAACCAACTTCGTTTCGCTTGAGACAATTTTCCATTGAAACAAGAAATTTTATCTCACTCGAG
1 TAAAACCAACTTCATCTCGCTTGAGACAATTTTCCATTGAAACAAGAAATTTTATCTCACTCGAG
278 A
66 A
279 GAGCTTCTCT
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
73 39 0.67
74 1 0.02
75 3 0.05
76 15 0.26
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (76 bp):
TAAAACCAACTTCATCTCGCTTGAGACAATTTTCCATTGAAACAAGAAATTTTATCTCACTCGAG
ATGGTTTTTCT
Found at i:1005 original size:132 final size:132
Alignment explanation
Indices: 765--1140 Score: 533
Period size: 132 Copynumber: 2.9 Consensus size: 132
755 TCTTGCTTCA
* * *
765 TCCATCACAGAATGAGGTGGATC-ACCATTTTTATTTTGCTCAAATCCATCACATAAGGAGTTGG
1 TCCATCACAGAAGGAGTTGGATCGA-CATTTTTATTTCGCTCAAATCCATCACATAAGGAGTTGG
* * *
829 ATCAGCATCAATTTTTTGCTCGATTCTATCACAGAATGAGGTAGATCAAAACCGACATCTCGTTC
65 ATCAGCATCAATATTTTGCTCGATTCTATCACAGAATGAGGTAGATCAAAACCGACATATCATTC
894 AAT
130 AAT
* *
897 TCTATCACAGAAGGAGTTGGATCGACATTTTTATTTCGCTCAAATCCATCGCATAAGGAGTTGGA
1 TCCATCACAGAAGGAGTTGGATCGACATTTTTATTTCGCTCAAATCCATCACATAAGGAGTTGGA
* * * ** **
962 TCAGCATCAATATTTTGCTCAATTCTATCACAGAAGGATGTAGATCAGCACCGACATATCATTTG
66 TCAGCATCAATATTTTGCTCGATTCTATCACAGAATGAGGTAGATCAAAACCGACATATCATTCA
1027 AT
131 AT
* * *
1029 TCCATTA-AAAAGGA-TGTGGATCGACATTTTTATTTCACTCAAATCCATCACATAAGGAGTTGG
1 TCCATCACAGAAGGAGT-TGGATCGACATTTTTATTTCGCTCAAATCCATCACATAAGGAGTTGG
* *
1092 ATAAACATCAATATTTTGCTCGATTCTATCACAGAATGAGGTAGATCAA
65 ATCAGCATCAATATTTTGCTCGATTCTATCACAGAATGAGGTAGATCAA
1141 CACTGAAATT
Statistics
Matches: 216, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
130 1 0.00
131 94 0.44
132 120 0.56
133 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (132 bp):
TCCATCACAGAAGGAGTTGGATCGACATTTTTATTTCGCTCAAATCCATCACATAAGGAGTTGGA
TCAGCATCAATATTTTGCTCGATTCTATCACAGAATGAGGTAGATCAAAACCGACATATCATTCA
AT
Found at i:1011 original size:44 final size:44
Alignment explanation
Indices: 768--999 Score: 178
Period size: 44 Copynumber: 5.3 Consensus size: 44
758 TGCTTCATCC
* * * *** * *
768 ATCACAGAATGAGGTGGATCACCATTTTTATTTTGCTCAAATCC
1 ATCACAGAAGGAGTTGGATCAGCATCAATATTTTGCTCAATTCT
* * *
812 ATCACATAAGGAGTTGGATCAGCATCAATTTTTTGCTCGATTCT
1 ATCACAGAAGGAGTTGGATCAGCATCAATATTTTGCTCAATTCT
* * * ** * * * * * *
856 ATCACAGAATGAGGTAGATCAAAACCGACATCTCGTTCAATTCT
1 ATCACAGAAGGAGTTGGATCAGCATCAATATTTTGCTCAATTCT
*** * * *
900 ATCACAGAAGGAGTTGGATC-GACATTTTTATTTCGCTCAAATCC
1 ATCACAGAAGGAGTTGGATCAG-CATCAATATTTTGCTCAATTCT
* *
944 ATCGCATAAGGAGTTGGATCAGCATCAATATTTTGCTCAATTCT
1 ATCACAGAAGGAGTTGGATCAGCATCAATATTTTGCTCAATTCT
988 ATCACAGAAGGA
1 ATCACAGAAGGA
1000 TGTAGATCAG
Statistics
Matches: 137, Mismatches: 49, Indels: 4
0.72 0.26 0.02
Matches are distributed among these distances:
44 136 0.99
45 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (44 bp):
ATCACAGAAGGAGTTGGATCAGCATCAATATTTTGCTCAATTCT
Found at i:2386 original size:113 final size:117
Alignment explanation
Indices: 2257--2560 Score: 402
Period size: 121 Copynumber: 2.6 Consensus size: 117
2247 TTATTACTCG
* * * *
2257 ACCTTTGGTGACCCGATCCGGGGTAATACCCACATTATTATGGTTGGACTCTACTAACCATTAAC
1 ACCTGTGGTGA-CCGATCCGGGGTAAGACCCACATTATTATGGTTGGACTCTGCTAACCACTAAC
*
2322 TTTTTTAT-TT-TTTA-TT-TTTTTATATAT-TTGTTTACATTATTCTATTCA
65 TTTTTTATGTTATTTATTTATTTTTATATATATTGTTTACATTATTATATTCA
* * *
2370 ACCTGTGGTGATCCGATTCGGGGTAAGACCCACATTGTTATGGTTCGGACTGTGCTAACCACTAA
1 ACCTGTGGTGA-CCGATCCGGGGTAAGACCCACATTATTATGGTT-GGACTCTGCTAACCACTAA
* * *
2435 CTTTTTTATGTTATTTATTTTATTTTTATATATATTTTTTGCATTATTATATTCG
64 CTTTTTTATGTTATTTA-TTTATTTTTATATATATTGTTTACATTATTATATTCA
*
2490 ACCTTGTGGTGACTCGATCAGGGGTAAGACCCACATTATTATGGTTTGGACTCTGCTAACCACTA
1 ACC-TGTGGTGAC-CGATCCGGGGTAAGACCCACATTATTATGG-TTGGACTCTGCTAACCACTA
2555 ACTTTT
63 ACTTTT
2561 ATTTTATTGT
Statistics
Matches: 165, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
113 40 0.24
114 25 0.15
115 2 0.01
116 4 0.02
118 2 0.01
119 11 0.07
120 21 0.13
121 58 0.35
122 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (117 bp):
ACCTGTGGTGACCGATCCGGGGTAAGACCCACATTATTATGGTTGGACTCTGCTAACCACTAACT
TTTTTATGTTATTTATTTATTTTTATATATATTGTTTACATTATTATATTCA
Found at i:2583 original size:24 final size:24
Alignment explanation
Indices: 2551--2606 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
2541 TCTGCTAACC
2551 ACTAACTTTTA-TTTTATTGTTCAT
1 ACTAACTTTTATTTTTATT-TTCAT
*
2575 ACTAACTTTTATTTTTATTTTCTT
1 ACTAACTTTTATTTTTATTTTCAT
2599 ACTAACTT
1 ACTAACTT
2607 ACTAACATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 23 0.77
25 7 0.23
ACGTcount: A:0.25, C:0.14, G:0.02, T:0.59
Consensus pattern (24 bp):
ACTAACTTTTATTTTTATTTTCAT
Found at i:6825 original size:22 final size:22
Alignment explanation
Indices: 6781--6829 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 22
6771 TTTTTATGCA
6781 ATAATTAATTAATAATTTAAAT
1 ATAATTAATTAATAATTTAAAT
6803 ATAATTTAACTTAA-AATTTAATAT
1 ATAA-TTAA-TTAATAATTTAA-AT
6827 ATA
1 ATA
6830 TATAAAGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.17
23 11 0.46
24 9 0.38
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATTAATTAATAATTTAAAT
Found at i:7008 original size:14 final size:14
Alignment explanation
Indices: 6962--7018 Score: 50
Period size: 12 Copynumber: 4.4 Consensus size: 14
6952 CAACATACAT
6962 ATATACTTATA-A-
1 ATATACTTATATAC
* *
6974 ATATAGTTATGT--
1 ATATACTTATATAC
6986 ATATACTTATATAC
1 ATATACTTATATAC
* *
7000 ATATGCTTATATAT
1 ATATACTTATATAC
7014 ATATA
1 ATATA
7019 TACTTTATAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
12 19 0.54
14 16 0.46
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (14 bp):
ATATACTTATATAC
Found at i:7012 original size:2 final size:2
Alignment explanation
Indices: 7007--7112 Score: 82
Period size: 2 Copynumber: 55.0 Consensus size: 2
6997 TACATATGCT
*
7007 TA TA TA TA TA TA TA CTT TA TA T- 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
* * * *
7049 TA TA TA TA TA CA CA CT- TA TG TA TA T- TT TA TA TA T- TA TA GT-
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
7089 TA TA -A TC T- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7113 GTTTATAGTT
Statistics
Matches: 86, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
1 7 0.08
2 77 0.90
3 2 0.02
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7012 original size:24 final size:24
Alignment explanation
Indices: 6960--7059 Score: 74
Period size: 22 Copynumber: 4.3 Consensus size: 24
6950 TACAACATAC
6960 ATATATACTTATA-A-ATATAGTT
1 ATATATACTTATATACATATAGTT
6982 ATGTATATACTTATATACATAT-GCTT
1 A--TATATACTTATATACATATAG-TT
*
7008 ATATATA--TATATACTTTATA-TT
1 ATATATACTTATATAC-ATATAGTT
*
7030 ATATATA--TATATATATATA-TAT
1 ATATATACTTATATACATATAGT-T
7052 ATATATAC
1 ATATATAC
7060 ACACTTATGT
Statistics
Matches: 66, Mismatches: 3, Indels: 17
0.77 0.03 0.20
Matches are distributed among these distances:
21 5 0.08
22 31 0.47
23 3 0.05
24 18 0.27
25 2 0.03
26 7 0.11
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (24 bp):
ATATATACTTATATACATATAGTT
Found at i:7014 original size:16 final size:15
Alignment explanation
Indices: 6986--7060 Score: 57
Period size: 14 Copynumber: 5.1 Consensus size: 15
6976 ATAGTTATGT
6986 ATATAC-TTATATAC
1 ATATACTTTATATAC
* *
7000 ATATGCTTATATATAT
1 ATATACTT-TATATAC
*
7016 ATATACTTTATATTAT
1 ATATACTTTATA-TAC
* *
7032 ATATA-TATATATAT
1 ATATACTTTATATAC
*
7046 ATATA-TATATATAC
1 ATATACTTTATATAC
7060 A
1 A
7061 CACTTATGTA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
14 22 0.42
15 10 0.19
16 21 0.40
ACGTcount: A:0.44, C:0.07, G:0.01, T:0.48
Consensus pattern (15 bp):
ATATACTTTATATAC
Found at i:7018 original size:22 final size:21
Alignment explanation
Indices: 6985--7058 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 21
6975 TATAGTTATG
*
6985 TATATACT-TATATACATATGCT
1 TATATA-TATATATACATAT-AT
*
7007 TATATATATATATACTTTATAT
1 TATATATATATATAC-ATATAT
*
7029 TATATATATATATATATATA-
1 TATATATATATATACATATAT
7049 TATATATATA
1 TATATATATA
7059 CACACTTATG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
20 10 0.22
21 5 0.11
22 28 0.61
23 3 0.07
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.50
Consensus pattern (21 bp):
TATATATATATATACATATAT
Found at i:7625 original size:20 final size:19
Alignment explanation
Indices: 7602--7640 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
7592 TGTAAATATT
7602 AAATTTAAAAAGTATATTCA
1 AAATTTAAAAAG-ATATTCA
**
7622 AAATTTTCAAAGATATTCA
1 AAATTTAAAAAGATATTCA
7641 TTAATATTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.36
Consensus pattern (19 bp):
AAATTTAAAAAGATATTCA
Found at i:7972 original size:15 final size:14
Alignment explanation
Indices: 7952--7990 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
7942 TACTATATAG
7952 TTTATATACTTGTAC
1 TTTATATACTT-TAC
7967 TTTATATACTTTAC
1 TTTATATACTTTAC
*
7981 -ATATATACTT
1 TTTATATACTT
7991 ACACACCGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.39
14 3 0.13
15 11 0.48
ACGTcount: A:0.31, C:0.13, G:0.03, T:0.54
Consensus pattern (14 bp):
TTTATATACTTTAC
Found at i:7985 original size:13 final size:15
Alignment explanation
Indices: 7954--7990 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
7944 CTATATAGTT
*
7954 TATATACTTGTACTT
1 TATATACTTGTACTA
7969 TATATACTT-TAC-A
1 TATATACTTGTACTA
7982 TATATACTT
1 TATATACTT
7991 ACACACCGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 3 0.14
15 9 0.43
ACGTcount: A:0.32, C:0.14, G:0.03, T:0.51
Consensus pattern (15 bp):
TATATACTTGTACTA
Found at i:8051 original size:2 final size:2
Alignment explanation
Indices: 8044--8079 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8034 ATCAATGATA
8044 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
8080 TAAATTTAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8495 original size:2 final size:2
Alignment explanation
Indices: 8488--8524 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
8478 CACTTATGGG
8488 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 T
8525 TAGGGGTGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8621 original size:6 final size:6
Alignment explanation
Indices: 8610--8636 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
8600 CTTCACCCAC
8610 GGGATG GGGATG GGGATG GGGATG GGG
1 GGGATG GGGATG GGGATG GGGATG GGG
8637 GAAGTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.70, T:0.15
Consensus pattern (6 bp):
GGGATG
Found at i:9297 original size:14 final size:14
Alignment explanation
Indices: 9253--9291 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
9243 GAGAGAGAGA
*
9253 ATAAGTATATACAT
1 ATAAGTATATATAT
9267 ATAAGTATATATAT
1 ATAAGTATATATAT
9281 AT-A-TATATATA
1 ATAAGTATATATA
9292 AGTATACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 8 0.33
13 1 0.04
14 15 0.62
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (14 bp):
ATAAGTATATATAT
Found at i:12131 original size:19 final size:18
Alignment explanation
Indices: 12107--12144 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
12097 TTGGGAGGCT
*
12107 TTGTATTGATACCAACATA
1 TTGTATCGATACCAA-ATA
12126 TTGTATCGATACCAAATA
1 TTGTATCGATACCAAATA
12144 T
1 T
12145 GCGGGTGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (18 bp):
TTGTATCGATACCAAATA
Found at i:20456 original size:23 final size:24
Alignment explanation
Indices: 20413--20457 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
20403 TTAATCACTT
* *
20413 TTATATGATATTTCATTAAATAAA
1 TTATATGATATTACATAAAATAAA
20437 TTATAT-ATATTACATAAAATA
1 TTATATGATATTACATAAAATA
20458 TTTTCTTCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (24 bp):
TTATATGATATTACATAAAATAAA
Found at i:20813 original size:14 final size:14
Alignment explanation
Indices: 20767--20835 Score: 70
Period size: 14 Copynumber: 4.9 Consensus size: 14
20757 ATGTAAAGTC
20767 TTAAATATAAAATA
1 TTAAATATAAAATA
* *
20781 TTGAATATTCAAAAAA
1 TTAAATA-T-AAAATA
20797 TTAAATATAAAATA
1 TTAAATATAAAATA
20811 TTAAA-ACTAAAA-A
1 TTAAATA-TAAAATA
*
20824 TTAAATTTAAAA
1 TTAAATATAAAA
20836 AAATTAAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
13 12 0.26
14 21 0.46
15 2 0.04
16 11 0.24
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (14 bp):
TTAAATATAAAATA
Found at i:20834 original size:13 final size:13
Alignment explanation
Indices: 20767--20836 Score: 61
Period size: 13 Copynumber: 5.0 Consensus size: 13
20757 ATGTAAAGTC
20767 TTAAATATAAAATA
1 TTAAATATAAAA-A
*
20781 TTGAATATTCAAAAAA
1 TTAAATA-T--AAAAA
20797 TTAAATATAAAATA
1 TTAAATATAAAA-A
20811 TTAAA-ACTAAAAA
1 TTAAATA-TAAAAA
*
20824 TTAAATTTAAAAA
1 TTAAATATAAAAA
20837 AATTAAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
13 17 0.36
14 17 0.36
15 2 0.04
16 7 0.15
17 4 0.09
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (13 bp):
TTAAATATAAAAA
Found at i:20834 original size:27 final size:28
Alignment explanation
Indices: 20792--20844 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
20782 TGAATATTCA
*
20792 AAAAATTAAATAT-AAAATATTAAAACT
1 AAAAATTAAATATAAAAAAATTAAAACT
*
20819 AAAAATTAAATTTAAAAAAATTAAAA
1 AAAAATTAAATATAAAAAAATTAAAA
20845 TATATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (28 bp):
AAAAATTAAATATAAAAAAATTAAAACT
Found at i:20836 original size:14 final size:14
Alignment explanation
Indices: 20767--20848 Score: 69
Period size: 14 Copynumber: 5.6 Consensus size: 14
20757 ATGTAAAGTC
*
20767 TTAAATATAAAATA
1 TTAAATATAAAAAA
*
20781 TTGAATATTCAAAAAA
1 TTAAATA-T-AAAAAA
*
20797 TTAAATATAAAATA
1 TTAAATATAAAAAA
20811 TTAAA-ACT-AAAAA
1 TTAAATA-TAAAAAA
*
20824 TTAAATTTAAAAAAA
1 TTAAATAT-AAAAAA
20839 TTAAAATATA
1 TT-AAATATA
20849 TATTTTAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
13 11 0.20
14 17 0.31
15 10 0.19
16 16 0.30
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (14 bp):
TTAAATATAAAAAA
Found at i:20838 original size:22 final size:23
Alignment explanation
Indices: 20813--20868 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
20803 ATAAAATATT
20813 AAAACTAAAAAT-TAAATTTAAA
1 AAAACTAAAAATATAAATTTAAA
* * *
20835 AAAA-TTAAAATATATATTTTAA
1 AAAACTAAAAATATAAATTTAAA
*
20857 AATACTAAAAAT
1 AAAACTAAAAAT
20869 CTTATTAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 6 0.22
22 15 0.56
23 6 0.22
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAACTAAAAATATAAATTTAAA
Found at i:20971 original size:16 final size:16
Alignment explanation
Indices: 20950--20995 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
20940 ATATTTGAAT
* *
20950 ATATATATTATACATA
1 ATATATAGTACACATA
*
20966 ATATATAGTACATATA
1 ATATATAGTACACATA
20982 ATATATAGT-CACAT
1 ATATATAGTACACAT
20996 CATCAACATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (16 bp):
ATATATAGTACACATA
Found at i:21446 original size:21 final size:22
Alignment explanation
Indices: 21422--21475 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
21412 AATATATATT
*
21422 TAATTTATTTTA-ATTTTATAA
1 TAATTTATTTTAGATTTTAAAA
21443 TAA-TT-TTTTAGTATTTTAAAA
1 TAATTTATTTTAG-ATTTTAAAA
21464 TATATTTATTTT
1 TA-ATTTATTTT
21476 TTTTGTCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 5 0.19
20 2 0.07
21 13 0.48
22 1 0.04
23 2 0.07
24 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TAATTTATTTTAGATTTTAAAA
Found at i:30642 original size:21 final size:20
Alignment explanation
Indices: 30617--30684 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
30607 GAACAATATT
30617 GATACTGAT-TGAAGTAGTATC
1 GATACTGATGTGAAG--GTATC
*
30638 GATACTGATGTGGAGGTATC
1 GATACTGATGTGAAGGTATC
** *
30658 GATACCAATAGT-AAGGTACC
1 GATACTGAT-GTGAAGGTATC
30678 GATACTG
1 GATACTG
30685 TAATTGAAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 23 0.61
21 11 0.29
22 4 0.11
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
GATACTGATGTGAAGGTATC
Found at i:31541 original size:16 final size:17
Alignment explanation
Indices: 31509--31543 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
31499 CCATTTAAAC
31509 ATGTGAGAACTATAGAT
1 ATGTGAGAACTATAGAT
*
31526 ATGTGAGTAC-ATAGAT
1 ATGTGAGAACTATAGAT
31542 AT
1 AT
31544 TATGCACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (17 bp):
ATGTGAGAACTATAGAT
Found at i:35747 original size:16 final size:17
Alignment explanation
Indices: 35715--35749 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
35705 CCATTTAAAC
35715 ATGTGAGAACTATAGAT
1 ATGTGAGAACTATAGAT
*
35732 ATGTGAGTAC-ATAGAT
1 ATGTGAGAACTATAGAT
35748 AT
1 AT
35750 TATGCACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (17 bp):
ATGTGAGAACTATAGAT
Found at i:39936 original size:16 final size:17
Alignment explanation
Indices: 39904--39938 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
39894 CCATTTAAAC
39904 ATGTGAGAACTATAGAT
1 ATGTGAGAACTATAGAT
*
39921 ATGTGAGTAC-ATAGAT
1 ATGTGAGAACTATAGAT
39937 AT
1 AT
39939 TATGCACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (17 bp):
ATGTGAGAACTATAGAT
Found at i:40831 original size:20 final size:19
Alignment explanation
Indices: 40806--40870 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 19
40796 TTTAAAAGAT
40806 GGTATCGATATCGTCCTTAA
1 GGTATCGATATCGTCCTT-A
*
40826 GGTATC-ATA-C-CCCTT-
1 GGTATCGATATCGTCCTTA
* *
40841 GGTATCGATATTGTTCTTCA
1 GGTATCGATATCGTCCTT-A
40861 GGTATCGATA
1 GGTATCGATA
40871 CCTCATGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
15 6 0.17
16 3 0.08
17 4 0.11
18 4 0.11
19 3 0.08
20 16 0.44
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (19 bp):
GGTATCGATATCGTCCTTA
Found at i:40851 original size:35 final size:36
Alignment explanation
Indices: 40805--40872 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 36
40795 GTTTAAAAGA
40805 TGGTATCGATATCGTCCTTAAGGTATC-ATACCCCT
1 TGGTATCGATATCGTCCTTAAGGTATCGATACCCCT
* * *
40840 TGGTATCGATATTGTTCTTCAGGTATCGATACC
1 TGGTATCGATATCGTCCTTAAGGTATCGATACC
40873 TCATGATTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 24 0.83
36 5 0.17
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (36 bp):
TGGTATCGATATCGTCCTTAAGGTATCGATACCCCT
Found at i:41994 original size:15 final size:15
Alignment explanation
Indices: 41974--42044 Score: 88
Period size: 15 Copynumber: 4.7 Consensus size: 15
41964 TTATTAGTAC
41974 GTGAATATGTTATAT
1 GTGAATATGTTATAT
* * *
41989 GTGAATGTGTTCTAC
1 GTGAATATGTTATAT
*
42004 GTGAAAATGTTATAT
1 GTGAATATGTTATAT
*
42019 GTGAATATGTTTTAT
1 GTGAATATGTTATAT
*
42034 GTGAATGTGTT
1 GTGAATATGTT
42045 CTATCTGGAC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 46 1.00
ACGTcount: A:0.28, C:0.03, G:0.24, T:0.45
Consensus pattern (15 bp):
GTGAATATGTTATAT
Found at i:42007 original size:30 final size:30
Alignment explanation
Indices: 41971--42044 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
41961 ATTTTATTAG
*
41971 TACGTGAATATGTTATATGTGAATGTGTTC
1 TACGTGAATATGTTATATGTGAATATGTTC
* *
42001 TACGTGAAAATGTTATATGTGAATATGTTT
1 TACGTGAATATGTTATATGTGAATATGTTC
* *
42031 TATGTGAATGTGTT
1 TACGTGAATATGTT
42045 CTATCTGGAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.45
Consensus pattern (30 bp):
TACGTGAATATGTTATATGTGAATATGTTC
Found at i:46447 original size:52 final size:52
Alignment explanation
Indices: 46369--46474 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
46359 TCCCCTCATT
46369 TTTTTCATATCAACATTGTCTCTTCTTCATCTTCACTTTTTGTTCCTCTTTC
1 TTTTTCATATCAACATTGTCTCTTCTTCATCTTCACTTTTTGTTCCTCTTTC
*
46421 TTTTTCATATCAACCTTGTCTCTTCTTCATCTTCACTTTTTGTTCCTCTTTC
1 TTTTTCATATCAACATTGTCTCTTCTTCATCTTCACTTTTTGTTCCTCTTTC
46473 TT
1 TT
46475 CAAGAGCTAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.12, C:0.27, G:0.04, T:0.57
Consensus pattern (52 bp):
TTTTTCATATCAACATTGTCTCTTCTTCATCTTCACTTTTTGTTCCTCTTTC
Found at i:47207 original size:72 final size:71
Alignment explanation
Indices: 47074--47233 Score: 189
Period size: 72 Copynumber: 2.2 Consensus size: 71
47064 TCAGTACTTG
* * ** * *
47074 AAAAAGATCGATCCCTCGACCAAAAGGATTGATCCTAAACTTTATGTTGTGAAAAGGATCGATCC
1 AAAAAGATCGATCCCTCGACAAAAAAGATCAATCCCAAACTTTATATTGTGAAAAGGATCGATCC
47139 C-TTTC
66 CTTTTC
* * *
47144 TAAAAAGATCGATCCCTCGGGA-AAAAAAGATCAATCCCAAACTTTTTATTGTGCAAATGATCGA
1 -AAAAAGATCGATCCCTC--GACAAAAAAGATCAATCCCAAACTTTATATTGTGAAAAGGATCGA
47208 TCCCTTTTC
63 TCCCTTTTC
*
47217 AAAAGGATCGATCCCTC
1 AAAAAGATCGATCCCTC
47234 TAGGAAAATG
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
71 17 0.22
72 53 0.70
73 6 0.08
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.27
Consensus pattern (71 bp):
AAAAAGATCGATCCCTCGACAAAAAAGATCAATCCCAAACTTTATATTGTGAAAAGGATCGATCC
CTTTTC
Found at i:47246 original size:21 final size:21
Alignment explanation
Indices: 47198--47254 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
47188 TTTATTGTGC
**
47198 AAATGATCGATCCCT-TTTCA
1 AAATGATCGATCCCTCTAGCA
* *
47218 AAAGGATCGATCCCTCTAGGA
1 AAATGATCGATCCCTCTAGCA
47239 AAATGATCGATCCCTC
1 AAATGATCGATCCCTC
47255 AAAAGAAAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (21 bp):
AAATGATCGATCCCTCTAGCA
Found at i:47267 original size:21 final size:21
Alignment explanation
Indices: 47217--47271 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
47207 ATCCCTTTTC
* *
47217 AAAAGGATCGATCCCTCTAGG
1 AAAAGGATCGATCCCTCAAAG
*
47238 AAAATGATCGATCCCTCAAA-
1 AAAAGGATCGATCCCTCAAAG
47258 AGAAAGGATCGATC
1 A-AAAGGATCGATC
47272 GCTTCACTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (21 bp):
AAAAGGATCGATCCCTCAAAG
Found at i:47653 original size:16 final size:16
Alignment explanation
Indices: 47629--47666 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
47619 CCGATATGAG
47629 TTCTGATGCACGTAAA
1 TTCTGATGCACGTAAA
*
47645 TTCTTATGCACGTAAA
1 TTCTGATGCACGTAAA
47661 TTCTGA
1 TTCTGA
47667 AATTGTACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (16 bp):
TTCTGATGCACGTAAA
Found at i:51245 original size:65 final size:65
Alignment explanation
Indices: 51133--51290 Score: 160
Period size: 65 Copynumber: 2.4 Consensus size: 65
51123 ATACCCTAAT
** * * * *
51133 TCAAATGTTTTTTGTATACCAATGCACA-ACCATGCATCGATGCACTCCT-GATTTTATTGAAAC
1 TCAAATGCATTTTGTGTACCGATGCACAGACAATGCATCGATGCACTCCTGGATATT-TTGAAAC
51196 A
65 A
* * *
51197 TCGAAA-GCATTTTGTGTACCGATGCACAGATAATGCATTGATGCACTCCTGGCTATTTTGAAAC
1 TC-AAATGCATTTTGTGTACCGATGCACAGACAATGCATCGATGCACTCCTGGATATTTTGAAAC
51261 A
65 A
* * * *
51262 TCAAATGTAATTAGTGAACCGATGCACAG
1 TCAAATGCATTTTGTGTACCGATGCACAG
51291 CAAGTGTACC
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
64 23 0.30
65 50 0.65
66 4 0.05
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (65 bp):
TCAAATGCATTTTGTGTACCGATGCACAGACAATGCATCGATGCACTCCTGGATATTTTGAAACA
Found at i:57072 original size:44 final size:43
Alignment explanation
Indices: 56997--57097 Score: 141
Period size: 44 Copynumber: 2.3 Consensus size: 43
56987 TTGTGGATAA
*
56997 TGCATCGATACACTATGAAAGTGTACCGATGCATTCCTTGAAT
1 TGCATCGATACACTATGAAAGTGCACCGATGCATTCCTTGAAT
* **
57040 GTGCATCGATGCACTATG-AAGATGCATTGATGCATTCCTTGAAT
1 -TGCATCGATACACTATGAAAG-TGCACCGATGCATTCCTTGAAT
57084 TGCATCGATACACT
1 TGCATCGATACACT
57098 CTACAGTGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
43 16 0.31
44 35 0.69
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.31
Consensus pattern (43 bp):
TGCATCGATACACTATGAAAGTGCACCGATGCATTCCTTGAAT
Found at i:57551 original size:18 final size:20
Alignment explanation
Indices: 57525--57565 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
57515 AAAAAAATTG
57525 TTTTGATTTAA-T-TGTTGT
1 TTTTGATTTAATTATGTTGT
*
57543 TTTTTATTTAATTATGTTGT
1 TTTTGATTTAATTATGTTGT
57563 TTT
1 TTT
57566 CATGAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 1 0.05
20 9 0.45
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (20 bp):
TTTTGATTTAATTATGTTGT
Found at i:57608 original size:13 final size:13
Alignment explanation
Indices: 57590--57627 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
57580 GTATCATAGT
57590 TTTTCAAACATTG
1 TTTTCAAACATTG
*
57603 TTTTCAAA-ATTA
1 TTTTCAAACATTG
*
57615 TTTTTAAACATTG
1 TTTTCAAACATTG
57628 CCCATTAGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (13 bp):
TTTTCAAACATTG
Found at i:61971 original size:21 final size:21
Alignment explanation
Indices: 61889--61972 Score: 64
Period size: 21 Copynumber: 3.9 Consensus size: 21
61879 CAGAACCCCA
*
61889 GGGGGGTATCGATTCCC-C-T
1 GGGGGGGATCGATTCCCTCAT
* *
61908 GTGGGGGGAATCGGTTCCCCTTCAA
1 G-GGGGGG-ATCGATT-CCC-TCAT
* * *
61933 AGGGGGAATCGGTTCCCTCAT
1 GGGGGGGATCGATTCCCTCAT
61954 GGGGGGGATCGATTCCCTC
1 GGGGGGGATCGATTCCCTC
61973 TGCACAAAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
19 1 0.02
20 5 0.10
21 25 0.50
22 6 0.12
23 7 0.14
24 6 0.12
ACGTcount: A:0.14, C:0.25, G:0.37, T:0.24
Consensus pattern (21 bp):
GGGGGGGATCGATTCCCTCAT
Found at i:65822 original size:22 final size:21
Alignment explanation
Indices: 65780--65819 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
65770 CAGTTTGTTT
*
65780 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
65801 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
65820 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:68632 original size:29 final size:28
Alignment explanation
Indices: 68600--68684 Score: 90
Period size: 29 Copynumber: 3.1 Consensus size: 28
68590 GTGTTTAAAC
*
68600 ATTTTGAATATTTCACTTT-GTTTGTTTGG
1 ATTTTGAATATTT-ACTTTGGATTGTTT-G
*
68629 ATTTTGAATATTTAGTTTGGATTGTTTG
1 ATTTTGAATATTTACTTTGGATTGTTTG
*
68657 -TTTTGAATA--TATTTTGGA-TGTTTG
1 ATTTTGAATATTTACTTTGGATTGTTTG
68681 ATTT
1 ATTT
68685 GTTTGAATGA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
24 6 0.12
25 11 0.22
27 9 0.18
28 5 0.10
29 20 0.39
ACGTcount: A:0.20, C:0.02, G:0.19, T:0.59
Consensus pattern (28 bp):
ATTTTGAATATTTACTTTGGATTGTTTG
Found at i:68982 original size:13 final size:13
Alignment explanation
Indices: 68960--68993 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
68950 AAGGGGAGTA
*
68960 ATTTTCAAAATTG
1 ATTTTCAAAAATG
68973 A-TTTCAAAAATG
1 ATTTTCAAAAATG
68985 ATTTTCAAA
1 ATTTTCAAA
68994 GAAAATCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (13 bp):
ATTTTCAAAAATG
Found at i:69465 original size:65 final size:64
Alignment explanation
Indices: 69333--69489 Score: 181
Period size: 65 Copynumber: 2.4 Consensus size: 64
69323 ATACCCTAAT
* * *
69333 TCGAATGCTTTTTGTGTACCGATGCACAACCATACATCGATGCACTCCTGATTTTATTAAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAACAATACATCGATGCACTCCTGATATTATTAAAACA
* * * * * *
69397 TCGAAAGCATTTTGTGTACCGATGCACAGATAATACATCGATGCACTTCTAGGTATT-TTGAAAT
1 TCGAATGCATTTTGTGTACCGATGCACA-ACAATACATCGATGCACTCCT-GATATTATTAAAAC
69461 A
64 A
* * *
69462 TCGAATGTAATTAGTGTACCGATGCACA
1 TCGAATGCATTTTGTGTACCGATGCACA
69490 CCAAGTGTAC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
64 26 0.33
65 48 0.62
66 4 0.05
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (64 bp):
TCGAATGCATTTTGTGTACCGATGCACAACAATACATCGATGCACTCCTGATATTATTAAAACA
Found at i:70888 original size:54 final size:53
Alignment explanation
Indices: 70696--71143 Score: 536
Period size: 54 Copynumber: 8.3 Consensus size: 53
70686 ACTCTATAGT
* * * * * * *
70696 TTGCACACGTATTTCCAATACGATAATTCACAAACTTATTATGAATTACGTGGG
1 TTGCACACATAGTGCCAATACGA-AATTCATAAACTTATTATGAATTTCTTAGG
* *
70750 ATTGTACACACAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGG
1 -TTGCACACATAGTGCCAATACG-AAATTCATAAACTTATTATGAATTTCTTAGG
* * *
70805 TTTGCACACATAGTACCAATACGAAAATTCATAAACTCATTATAAATTTCTTAGG
1 -TTGCACACATAGTGCCAATACG-AAATTCATAAACTTATTATGAATTTCTTAGG
* * * * *
70860 TTGCACACACAGTACCAATACAGAAATTCATAAACTTTTTGTGAATTTATTAGG
1 TTGCACACATAGTGCCAATAC-GAAATTCATAAACTTATTATGAATTTCTTAGG
* * *
70914 TTACACACATAGTTCCAATACGAAAATTTATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATACG-AAATTCATAAACTTATTATGAATTTCTTAGG
* *
70968 TTGCACATATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTATTAGG
1 TTGCACACATAGTGCCAATAC-GAAATTCATAAACTTATTATGAATTTCTTAGG
* *
71022 TTTCATACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAGG
1 TTGCACACATAGTGCCAATAC-GAAATTCATAAACTTATTATGAATTTCTTAGG
* * * * * *
71076 TAGCACACATAATGCCAATAAGGAAATTCATAAACTCATTATAAATTTATTAGG
1 TTGCACACATAGTGCCAAT-ACGAAATTCATAAACTTATTATGAATTTCTTAGG
71130 TTGCACACATAGTG
1 TTGCACACATAGTG
71144 TCATTCGGTA
Statistics
Matches: 341, Mismatches: 47, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.00
54 244 0.72
55 95 0.28
56 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (53 bp):
TTGCACACATAGTGCCAATACGAAATTCATAAACTTATTATGAATTTCTTAGG
Found at i:71627 original size:94 final size:95
Alignment explanation
Indices: 71490--71667 Score: 268
Period size: 94 Copynumber: 1.9 Consensus size: 95
71480 ATCATGGTAT
* * * * *
71490 CGATACTTCTATATTATGGTACAGATACTCCCTTTCAGTATCGATACCATTTCCACATTCTGG-A
1 CGATACTTCTATACTATGGTACAGATACTCCATTACAATATCGATACAATTTCCACATTCTGGAA
*
71554 TCCATGGTATCGATACTTTTCTCCTATTAC
66 TCAATGGTATCGATACTTTTCTCCTATTAC
* **
71584 CGATACTTCTATACTATGTTACAGATACTCCATTACAATATCGATACAATTTCTGCATTCTGGAA
1 CGATACTTCTATACTATGGTACAGATACTCCATTACAATATCGATACAATTTCCACATTCTGGAA
71649 TCAATGGTATCGATACTTT
66 TCAATGGTATCGATACTTT
71668 CCTTATAGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
94 55 0.74
95 19 0.26
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (95 bp):
CGATACTTCTATACTATGGTACAGATACTCCATTACAATATCGATACAATTTCCACATTCTGGAA
TCAATGGTATCGATACTTTTCTCCTATTAC
Found at i:75558 original size:18 final size:19
Alignment explanation
Indices: 75523--75560 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
75513 TTATATGATT
*
75523 ATGAGTTATGTAAATAACA
1 ATGACTTATGTAAATAACA
75542 ATGACTTATGT-AATAACA
1 ATGACTTATGTAAATAACA
75560 A
1 A
75561 GAGAAAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (19 bp):
ATGACTTATGTAAATAACA
Found at i:79095 original size:71 final size:71
Alignment explanation
Indices: 78974--79111 Score: 222
Period size: 71 Copynumber: 1.9 Consensus size: 71
78964 CATTCCCAGA
* * *
78974 AAAAGGATCGATCCATCGACCAAAAGGATCAATCCCAAACTTTCTGTTGTGCAATGGATCGATCC
1 AAAAGGATCGATCCATCGACCAAAAGGATCAATCCCAAACATTCTATTGTGCAAAGGATCGATCC
79039 CTTTCT
66 CTTTCT
* * *
79045 AAAAGGATCGATCCCTCGACCAAAAGGATCGATCCTAAACATTCTATTGTGCAAAGGATCGATCC
1 AAAAGGATCGATCCATCGACCAAAAGGATCAATCCCAAACATTCTATTGTGCAAAGGATCGATCC
79110 CT
66 CT
79112 CTGGGAACAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (71 bp):
AAAAGGATCGATCCATCGACCAAAAGGATCAATCCCAAACATTCTATTGTGCAAAGGATCGATCC
CTTTCT
Found at i:79146 original size:21 final size:22
Alignment explanation
Indices: 79097--79155 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
79087 TCTATTGTGC
*
79097 AAAGGATCGATCCCTCTGGGAA
1 AAAGGATCGATCCCTCTGGAAA
*
79119 CAA-GATCGATCCCT-T-GAAA
1 AAAGGATCGATCCCTCTGGAAA
79138 TAAAGGATCGATCCCTCT
1 -AAAGGATCGATCCCTCT
79156 ATTGTTTTGC
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 3 0.10
20 3 0.10
21 22 0.71
22 3 0.10
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (22 bp):
AAAGGATCGATCCCTCTGGAAA
Found at i:79147 original size:72 final size:71
Alignment explanation
Indices: 78974--79152 Score: 209
Period size: 71 Copynumber: 2.5 Consensus size: 71
78964 CATTCCCAGA
* * * * * *
78974 AAAAGGATCGATCCATCGACCAAAAGGATCAATCCCAAACTTTCTGTTGTGCAATGGATCGATCC
1 AAAAGGATCGATCCCTCGACAAAAAGGATCGATCCCAAACATTCTATTGTGCAAAGGATCGATCC
* *
79039 CTTTCT
66 CTTGCG
* *
79045 AAAAGGATCGATCCCTCGACCAAAAGGATCGATCCTAAACATTCTATTGTGCAAAGGATCGATCC
1 AAAAGGATCGATCCCTCGACAAAAAGGATCGATCCCAAACATTCTATTGTGCAAAGGATCGATCC
*
79110 CTCTGGG
66 CT-TGCG
*
79117 AACAA-GATCGATCCCTTGA-AATAAAGGATCGATCCC
1 AA-AAGGATCGATCCCTCGACAA-AAAGGATCGATCCC
79153 TCTATTGTTT
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
71 62 0.67
72 29 0.31
73 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (71 bp):
AAAAGGATCGATCCCTCGACAAAAAGGATCGATCCCAAACATTCTATTGTGCAAAGGATCGATCC
CTTGCG
Found at i:93777 original size:35 final size:36
Alignment explanation
Indices: 93692--93778 Score: 106
Period size: 35 Copynumber: 2.4 Consensus size: 36
93682 TACCAAAATT
*
93692 TTACCAAACTTTG-AAAAACATTTTTCAAAGAAACAT
1 TTACCAAACTTTGAAAAAACATTTTTCAAAG-AACAG
* **
93728 TTACCAAACTTTGAAAAAATATTTTTCAAAG-TTAG
1 TTACCAAACTTTGAAAAAACATTTTTCAAAGAACAG
*
93763 TTGCCAAACTTTGAAA
1 TTACCAAACTTTGAAA
93779 CTTTTAACAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
35 16 0.36
36 13 0.29
37 16 0.36
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (36 bp):
TTACCAAACTTTGAAAAAACATTTTTCAAAGAACAG
Found at i:98130 original size:14 final size:14
Alignment explanation
Indices: 98111--98137 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
98101 TAACTTTTAA
98111 GAGCAGTACAACAT
1 GAGCAGTACAACAT
98125 GAGCAGTACAACA
1 GAGCAGTACAACA
98138 CCCATGTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (14 bp):
GAGCAGTACAACAT
Found at i:99287 original size:24 final size:24
Alignment explanation
Indices: 99260--99307 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
99250 TTGTGGTCAA
*
99260 ATCGGATC-GGACAAGGTCGGGTCG
1 ATCGGACCGGGAC-AGGTCGGGTCG
*
99284 ATCGGACCGGGTCAGGTCGGGTCG
1 ATCGGACCGGGACAGGTCGGGTCG
99308 GACGGCTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.17, C:0.23, G:0.44, T:0.17
Consensus pattern (24 bp):
ATCGGACCGGGACAGGTCGGGTCG
Found at i:99296 original size:19 final size:19
Alignment explanation
Indices: 99264--99302 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
99254 GGTCAAATCG
*
99264 GATCGGACAAGGTCGGGTC
1 GATCGGACAAGGTCAGGTC
**
99283 GATCGGACCGGGTCAGGTC
1 GATCGGACAAGGTCAGGTC
99302 G
1 G
99303 GGTCGGACGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.23, G:0.44, T:0.15
Consensus pattern (19 bp):
GATCGGACAAGGTCAGGTC
Found at i:100206 original size:12 final size:12
Alignment explanation
Indices: 100189--100219 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
100179 CCGGGCGACC
*
100189 TCCGACGTGGCT
1 TCCGACGTAGCT
100201 TCCGACGTAGCT
1 TCCGACGTAGCT
100213 TCCGACG
1 TCCGACG
100220 AGGGTCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.35, G:0.29, T:0.23
Consensus pattern (12 bp):
TCCGACGTAGCT
Found at i:100315 original size:29 final size:29
Alignment explanation
Indices: 100273--100384 Score: 143
Period size: 29 Copynumber: 3.9 Consensus size: 29
100263 AACCCAACCA
*
100273 TAGGTCGCCATGCATTCCCAGCGACCTCC
1 TAGGTCGCCATGCACTCCCAGCGACCTCC
**
100302 TAGGTCGCCATGCACTCCCAGCGACCTAG
1 TAGGTCGCCATGCACTCCCAGCGACCTCC
* * **
100331 GAGGTCGCCATGCACGCCGGGCGACCTCC
1 TAGGTCGCCATGCACTCCCAGCGACCTCC
* *
100360 TAGGTCGCCATGCACGCCCGGCGAC
1 TAGGTCGCCATGCACTCCCAGCGAC
100385 ATCCCCTGCT
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.17, C:0.40, G:0.28, T:0.15
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCCAGCGACCTCC
Found at i:100342 original size:58 final size:58
Alignment explanation
Indices: 100274--100384 Score: 168
Period size: 58 Copynumber: 1.9 Consensus size: 58
100264 ACCCAACCAT
** *
100274 AGGTCGCCATGCATTCCCAGCGACCTCCTAGGTCGCCATGCACTCCCAGCGACCTAGG
1 AGGTCGCCATGCACGCCCAGCGACCTCCTAGGTCGCCATGCACGCCCAGCGACCTAGG
** *
100332 AGGTCGCCATGCACGCCGGGCGACCTCCTAGGTCGCCATGCACGCCCGGCGAC
1 AGGTCGCCATGCACGCCCAGCGACCTCCTAGGTCGCCATGCACGCCCAGCGAC
100385 ATCCCCTGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 47 1.00
ACGTcount: A:0.17, C:0.41, G:0.28, T:0.14
Consensus pattern (58 bp):
AGGTCGCCATGCACGCCCAGCGACCTCCTAGGTCGCCATGCACGCCCAGCGACCTAGG
Found at i:100802 original size:17 final size:17
Alignment explanation
Indices: 100780--100815 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
100770 TTATTAGTTT
100780 GTTAGTTTAGGGTTAGG
1 GTTAGTTTAGGGTTAGG
100797 GTTAGTTTAGGGTTAGG
1 GTTAGTTTAGGGTTAGG
100814 GT
1 GT
100816 AAAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (17 bp):
GTTAGTTTAGGGTTAGG
Found at i:101022 original size:30 final size:30
Alignment explanation
Indices: 100953--101058 Score: 142
Period size: 30 Copynumber: 3.5 Consensus size: 30
100943 TTTAGTTAAT
* *
100953 TAGTTTTTTAGTAGTGAA-TTATAATTAAAAAA
1 TAGTTTATTAGT--TGAAGTTAT-ATTAAAGAA
* *
100985 TATTTTATTAGTTTAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAGTTATATTAAAGAA
101015 TAGTTTATTAGTTGAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAGTTATATTAAAGAA
101045 TAGTTTATTAGTTG
1 TAGTTTATTAGTTG
101059 TTTAAAGAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
30 53 0.79
31 4 0.06
32 10 0.15
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (30 bp):
TAGTTTATTAGTTGAAGTTATATTAAAGAA
Found at i:101053 original size:15 final size:16
Alignment explanation
Indices: 101000--101054 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
100990 TATTAGTTTA
101000 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
**
101016 AGTT-TATTAGTTG-A-
1 AGTTATATTA-AAGAAT
101030 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
101046 AGTT-TATTA
1 AGTTATATTA
101055 GTTGTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 5 0.16
15 17 0.55
16 9 0.29
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (16 bp):
AGTTATATTAAAGAAT
Found at i:101139 original size:15 final size:16
Alignment explanation
Indices: 101111--101144 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
101101 GTTTGTTACT
101111 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
101127 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
101142 TTA
1 TTA
101145 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:103301 original size:14 final size:14
Alignment explanation
Indices: 103282--103329 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
103272 TATTTATAAT
103282 AAATCATTACTATC
1 AAATCATTACTATC
103296 AAATCATTAC--T-
1 AAATCATTACTATC
103307 AAATCATTACTATC
1 AAATCATTACTATC
103321 AAATCATTA
1 AAATCATTA
103330 AAAATTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.32
12 1 0.03
13 1 0.03
14 19 0.61
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:103315 original size:25 final size:25
Alignment explanation
Indices: 103281--103329 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
103271 ATATTTATAA
103281 TAAATCATTACTATCAAATCATTAC
1 TAAATCATTACTATCAAATCATTAC
103306 TAAATCATTACTATCAAATCATTA
1 TAAATCATTACTATCAAATCATTA
103330 AAAATTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (25 bp):
TAAATCATTACTATCAAATCATTAC
Found at i:103365 original size:60 final size:60
Alignment explanation
Indices: 103297--103607 Score: 559
Period size: 60 Copynumber: 5.2 Consensus size: 60
103287 ATTACTATCA
* *
103297 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTAATTATTATT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
* *
103357 AATTATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
* *
103417 AATCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
103477 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
*
103537 AATCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
103597 AATCATTACTA
1 AATCATTACTA
103608 TCAAATCATT
Statistics
Matches: 239, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 239 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (60 bp):
AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
Found at i:103433 original size:120 final size:120
Alignment explanation
Indices: 103370--104229 Score: 1237
Period size: 120 Copynumber: 7.5 Consensus size: 120
103360 TATTACTAAA
* *
103370 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATT
1 TCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATT
* *
103435 ACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACTAATCATTACTAAA
66 ACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAA
*
103490 TCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTATTAAATCATT
1 TCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATT
*
103555 ACTATCAAATCATTAAAAATTAATAATAATTTC------A-T--T-ATTACT-AA
66 ACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAA
* * *
103599 TCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATTATTACTAAATCATT
1 TCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATT
*
103664 ACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTACTAAA
66 ACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAA
103719 TCATTACTATCAAATCATTAAAAATTAATAATAATTTC------A-T--T-ATTACTAAATCATT
1 TCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATT
*
103774 ACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTACTAAA
66 ACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAA
* * * *
103829 TTATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTATTAAATCATT
1 TCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATT
*
103894 ACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAA
66 ACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAA
*
103949 TCATTACTATAAAATCATTAAAAATTAATAATAATTTC------A-T--T-ATTACTAAATCATT
1 TCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATT
104004 ACTATCAAATCATTAAATATTAATAATAATTTC------A-T--T-ATTACT-AA
66 ACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAA
104048 TCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATT
1 TCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATT
*
104113 AATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAA
66 ACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAA
* * *
104168 TCATTACTATCAAATAATTAAATATTAATAATAATTTCATCATTACTAATCATTACTAAATC
1 TCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATC
104230 TTATAAATAC
Statistics
Matches: 671, Mismatches: 27, Indels: 84
0.86 0.03 0.11
Matches are distributed among these distances:
99 39 0.06
100 6 0.01
101 1 0.00
103 1 0.00
104 1 0.00
105 1 0.00
106 1 0.00
108 1 0.00
109 140 0.21
110 155 0.23
111 3 0.00
113 3 0.00
114 3 0.00
115 2 0.00
116 3 0.00
117 1 0.00
118 2 0.00
119 13 0.02
120 295 0.44
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (120 bp):
TCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATT
ACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAA
Found at i:103435 original size:21 final size:21
Alignment explanation
Indices: 103411--103558 Score: 73
Period size: 21 Copynumber: 7.3 Consensus size: 21
103401 TAATTTCATT
103411 ATTACTAATCATTATTAAATC
1 ATTACTAATCATTATTAAATC
* *
103432 ATTACT-ATCAAATCATTAAA-A
1 ATTACTAATC--ATTATTAAATC
* ** *
103453 ATTAATAA-CA--ATTTCATT
1 ATTACTAATCATTATTAAATC
*
103471 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTATTAAATC
* *
103492 ATTACT-ATCAAATCATTAAA-A
1 ATTACTAATC--ATTATTAAATC
* ** *
103513 ATTAATAAT-A--ATTTCATT
1 ATTACTAATCATTATTAAATC
103531 ATTACTAATCATTATTAAATC
1 ATTACTAATCATTATTAAATC
103552 ATTACTA
1 ATTACTA
103559 TCAAATCATT
Statistics
Matches: 91, Mismatches: 22, Indels: 28
0.65 0.16 0.20
Matches are distributed among these distances:
17 8 0.09
18 15 0.16
19 5 0.05
20 6 0.07
21 39 0.43
22 18 0.20
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTACTAATCATTATTAAATC
Found at i:103660 original size:46 final size:48
Alignment explanation
Indices: 103539--103664 Score: 179
Period size: 49 Copynumber: 2.7 Consensus size: 48
103529 TTATTACTAA
*
103539 TCATTATTA--AATCATTACTATCAAATCATTAAAAATTAATAATAATT
1 TCATTATTACTAATCATTAC-ATCAAATCATTAAAAATTAATAACAATT
*
103586 TCATTATTACTAATCATTACTATCAAATCATTAAATATTAATAACAATT
1 TCATTATTACTAATCATTAC-ATCAAATCATTAAAAATTAATAACAATT
*
103635 TCATTATTACTAATTATTAC-T-AAATCATTA
1 TCATTATTACTAATCATTACATCAAATCATTA
103665 CTATCAAATC
Statistics
Matches: 74, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
46 9 0.12
47 10 0.14
49 55 0.74
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (48 bp):
TCATTATTACTAATCATTACATCAAATCATTAAAAATTAATAACAATT
Found at i:103661 original size:60 final size:60
Alignment explanation
Indices: 103591--104229 Score: 370
Period size: 60 Copynumber: 10.2 Consensus size: 60
103581 TAATTTCATT
*
103591 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATT
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
103650 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
* *
103710 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT-AATC
* * * * * * *
103771 ATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC-ATTACTAAATTATTA
1 ATTAC--T-AAATCATT-ACTATCAA-ATC-A-TTAAATATTAATAA-CAATT--T-CATTATTA
103835 CT-ATC
55 CTAATC
* * * * * * * * ** * *
103840 AAATCATTAAAT-ATTAATAACAATTTCATT-ATTACTAATCATTATTAAATCATTACTATCAAA
1 --ATTACTAAATCATTACTATCAA-ATCATTAAATATTAATAACAATT---TCATTATTA-CTAA
103903 TC
59 TC
* * * * * *
103905 ATTA--AAA--ATTAATAAT-AATTTCATT-ATTACTAATCATTACTAA-ATCATTACTATA-AA
1 ATTACTAAATCATTACT-ATCAA-ATCATTAAATATTAAT-A--AC-AATTTCATTA-T-TACTA
103962 ATC
58 ATC
* * * * * * * * * * *
103965 ATTA-AAAATTAATAATAATTTCATTATTACTAAATCATTACTATCAAATCATTAAATATTAATA
1 ATTACTAAA-TCAT--TACTATCA-AATCATTAAAT-ATTAATAAC-AAT--TT---CATTATTA
*
104029 ATAATTTC
55 CTAA--TC
* * *
104037 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTA--AATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
* *
104099 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
* * *
104159 ATTACTAAATCATTACTATCAAATAATTAAATATTAATAATAATTTCATCATTACTAATC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
104219 ATTACTAAATC
1 ATTACTAAATC
104230 TTATAAATAC
Statistics
Matches: 465, Mismatches: 67, Indels: 95
0.74 0.11 0.15
Matches are distributed among these distances:
59 6 0.01
60 264 0.57
61 16 0.03
62 10 0.02
63 22 0.05
64 25 0.05
65 14 0.03
66 18 0.04
67 9 0.02
68 22 0.05
69 9 0.02
70 9 0.02
71 23 0.05
72 12 0.03
73 1 0.00
74 3 0.01
75 2 0.00
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (60 bp):
ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATC
Found at i:103891 original size:339 final size:338
Alignment explanation
Indices: 103301--104229 Score: 1331
Period size: 339 Copynumber: 2.7 Consensus size: 338
103291 CTATCAAATC
* * * *
103301 ATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTAATTATTATTAATTATTAC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
*
103366 TAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAAT
66 TAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTA-T--T-A-C-----TAAAT
*
103431 CATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACTAATCATTACTAAATCATTA
121 CATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTACTAAATCATTA
*
103496 CTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTATTAAATCATTACTATC
186 CTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATTACTATC
*
103561 AAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACT-ATCAA-A-TCATTAAAT-
251 AAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAATCAATACT-ATAAAATC
* *
103622 ATTAATAACAATT-TCATTATTACTAATT
315 ATT-A-AA-AATTATAATAATT--TAATT
*
103650 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTAC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
103715 TAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAAATCATTACTATC
66 TAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAAATCATTACTATC
*
103780 AAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTACTAAATTATTACTATCAAATC
131 AAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAATC
*
103845 ATTAAATATTAATAACAATTTCATTATTACTAATCATTATTAAATCATTACTATCAAATCATTAA
196 ATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATTACTATCAAATCATTAA
*
103910 AAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTATAAAATCATTAAAAATT
261 AAATTAATAATAATTTCATTATTACTAATCATTACT-AATCAATACTATAAAATCATTAAAAATT
*
103975 AATAATAATTTCATT
325 -ATAATAATTTAATT
103990 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
1 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
* * * * * * *
104055 TATCAAATCATTA--A--AAATTAATAATAATT--TCATTATTACTAATCATTACTAAATCATTA
66 --T-AAATCATTACTATCAAATCATTAAAAATTAATAATAATT--TCATTATTACTAAATCATTA
* *
104114 ATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTATC
126 CTATCAAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTACTAAATCATTACTATC
* * *
104179 AAATAATTAAATATTAATAATAATTTCATCATTACTAATCATTACTAAATC
191 AAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATC
104230 TTATAAATAC
Statistics
Matches: 538, Mismatches: 30, Indels: 34
0.89 0.05 0.06
Matches are distributed among these distances:
337 6 0.01
339 316 0.59
340 72 0.13
341 7 0.01
342 15 0.03
343 13 0.02
344 1 0.00
345 1 0.00
346 1 0.00
348 1 0.00
349 105 0.20
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (338 bp):
ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
TAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAAATCATTACTATC
AAATCATTAAATATTAATAACAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAATC
ATTAAATATTAATAATAATTTCATTATTACTAATCATTATTAAATCATTACTATCAAATCATTAA
AAATTAATAATAATTTCATTATTACTAATCATTACTAATCAATACTATAAAATCATTAAAAATTA
TAATAATTTAATT
Found at i:103944 original size:49 final size:49
Alignment explanation
Indices: 103878--104105 Score: 325
Period size: 49 Copynumber: 4.4 Consensus size: 49
103868 TTATTACTAA
103878 TCATTATTA--AATCATTACTATCAAATCATTAAAAATTAATAATAATT
1 TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
103925 TCATTATTACTAATCATTACTAAATCATTACTATAAAATCATTAAAAATTAATAATAATT
1 TCATTATTACTAATCATTAC----T-A-T-C----AAATCATTAAAAATTAATAATAATT
*
103985 TCATTATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATT
1 TCATTATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATT
104035 TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
1 TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
104084 TCATTATTACTAATCATTACTA
1 TCATTATTACTAATCATTACTA
104106 AATCATTAAT
Statistics
Matches: 165, Mismatches: 2, Indels: 26
0.85 0.01 0.13
Matches are distributed among these distances:
47 9 0.05
49 68 0.41
50 35 0.21
53 1 0.01
54 2 0.01
55 2 0.01
56 2 0.01
57 1 0.01
60 36 0.22
61 9 0.05
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (49 bp):
TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
Found at i:104113 original size:21 final size:21
Alignment explanation
Indices: 104089--104229 Score: 68
Period size: 21 Copynumber: 7.0 Consensus size: 21
104079 TAATTTCATT
104089 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* * *
104110 ATTAAT-ATCAAATCATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* * * *
104131 ATTAATAATAATT--T-CATT
1 ATTACTAATCATTACTAAATC
104149 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* *
104170 ATTACT-ATCAAATAATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* * *
104191 ATTAATAATAATT--T-CATC
1 ATTACTAATCATTACTAAATC
104209 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
104230 TTATAAATAC
Statistics
Matches: 87, Mismatches: 19, Indels: 28
0.65 0.14 0.21
Matches are distributed among these distances:
17 4 0.05
18 24 0.28
20 12 0.14
21 27 0.31
22 20 0.23
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTACTAATCATTACTAAATC
Found at i:104123 original size:159 final size:163
Alignment explanation
Indices: 103358--104225 Score: 867
Period size: 170 Copynumber: 5.1 Consensus size: 163
103348 ATTATTATTA
*
103358 ATTATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCAT
1 ATTATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCAT
* * * *
103423 TATTAAATCATTACTATCAAATCATTAAAAATTAATAACAATTTCATTATTACTAATCATTACTA
65 TACTAAATCATTAATATAAAATCATTAAAAATTAATAATAATTTC-----TACT-ATCATTACTA
* *
103488 AATCATTACTATCAAATCATTAAAAATTAATAATAATTTC
124 AATCATTACTATCAAATAATTAAATATTAATAATAATTTC
103528 ATTATTACTAATCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTAT
1 ATTA-T--T-A-C-----T-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTAT
* * * * * *
103593 TACTAATCATTACT--ATCA--AATCATTAAAT-ATTAATAA-CAAT-TTCATTAT-TACTAATT
55 TACTAATCATTACTAAATCATTAAT-ATAAAATCATTAAAAATTAATAATAATT-TCTACT-ATC
* *
103650 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTC
117 ATTACTAAATCATTACTATCAAATAATTAAATATTAATAATAATTTC
103697 ATTATTACTAATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTAT
1 ------A-T--T-ATTACT-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTAT
* * * * *
103762 TACTAAATCATTACT--ATCA--AATCATTAAAT-ATTAATAA-CAAT-TTCATTAT-TACTAAT
55 TACT-AATCATTACTAAATCATTAAT-ATAAAATCATTAAAAATTAATAATAATT-TCTACT-AT
* * *
103819 CATTACTAAATTATTACTATCAAATCATTAAATATTAATAACAATTTC
116 CATTACTAAATCATTACTATCAAATAATTAAATATTAATAATAATTTC
103867 ATTATTACTAATCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTAT
1 ATTA-T--T-A-C-----T-AATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTAT
*
103932 TACTAATCATTACTAAATCATTACTATAAAATCATTAAAAATTAATAATAATTTC-A-T-T-ATT
55 TACTAATCATTACTAAATCATTAATATAAAATCATTAAAAATTAATAATAATTTCTACTATCATT
*
103993 ACTAAATCATTACTATCAAATCATTAAATATTAATAATAATTTC
120 ACTAAATCATTACTATCAAATAATTAAATATTAATAATAATTTC
104037 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATT
1 ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATT
* *
104102 ACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAA
66 ACTAAATCATTAATATAAAATCATTAAAAATTAATAATAATTTC-----TACT-ATCATTACTAA
104167 ATCATTACTATCAAATAATTAAATATTAATAATAATTTC
125 ATCATTACTATCAAATAATTAAATATTAATAATAATTTC
*
104206 ATCATTACTAATCATTACTA
1 ATTATTACTAATCATTACTA
104226 AATCTTATAA
Statistics
Matches: 620, Mismatches: 27, Indels: 103
0.83 0.04 0.14
Matches are distributed among these distances:
159 97 0.16
160 2 0.00
161 2 0.00
163 2 0.00
164 2 0.00
165 3 0.00
166 2 0.00
167 1 0.00
168 1 0.00
169 179 0.29
170 202 0.33
171 6 0.01
172 6 0.01
173 11 0.02
174 10 0.02
175 11 0.02
176 11 0.02
177 6 0.01
178 6 0.01
179 1 0.00
180 59 0.10
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (163 bp):
ATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATT
ACTAAATCATTAATATAAAATCATTAAAAATTAATAATAATTTCTACTATCATTACTAAATCATT
ACTATCAAATAATTAAATATTAATAATAATTTC
Found at i:107140 original size:26 final size:24
Alignment explanation
Indices: 107080--107140 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
107070 TACTAATATT
*
107080 ATTAATAATGATTTAATAATTATT
1 ATTAATAATGATTTAATAATTATG
* *
107104 ATTAATCTAATGATTTGATATTTAATG
1 ATTAA--TAATGATTTAATAATT-ATG
107131 ATTTAATAAT
1 A-TTAATAAT
107141 AATATGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.17
26 18 0.60
27 3 0.10
28 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (24 bp):
ATTAATAATGATTTAATAATTATG
Found at i:107429 original size:17 final size:17
Alignment explanation
Indices: 107376--107435 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
107366 AATATAAATA
*
107376 AAACAAAATATTTTTTT
1 AAACACAATATTTTTTT
* *
107393 AAAACAACACTAAATATTTTT
1 -AAAC-ACA--ATATTTTTTT
107414 AAACACAATATTTTTTT
1 AAACACAATATTTTTTT
107431 AAACA
1 AAACA
107436 AAAATTATCT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 13 0.38
18 4 0.12
19 5 0.15
20 4 0.12
21 8 0.24
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (17 bp):
AAACACAATATTTTTTT
Found at i:107968 original size:21 final size:21
Alignment explanation
Indices: 107935--107983 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
107925 AATATAATAT
107935 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
107956 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
107977 ATTAACT
1 A-TAACT
107984 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:108792 original size:20 final size:20
Alignment explanation
Indices: 108767--108816 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
108757 GGGCAACAGC
108767 GGGCAAAGAACCAAAGCAGA
1 GGGCAAAGAACCAAAGCAGA
*
108787 GGGCAAATAACCAAAGCAGA
1 GGGCAAAGAACCAAAGCAGA
*
108807 GGGAAAAGAA
1 GGGCAAAGAA
108817 TGTTGGACGC
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:0.52, C:0.16, G:0.30, T:0.02
Consensus pattern (20 bp):
GGGCAAAGAACCAAAGCAGA
Found at i:108863 original size:29 final size:29
Alignment explanation
Indices: 108821--108934 Score: 194
Period size: 29 Copynumber: 3.9 Consensus size: 29
108811 AAAGAATGTT
*
108821 GGACGCCGGGCGTGCATGACGACCT-TATA
1 GGACGCCGGGCGTGCATGGCGACCTATA-A
108850 GGACGCCGGGCGTGCATGGCGACCTATAA
1 GGACGCCGGGCGTGCATGGCGACCTATAA
108879 GGACGCCGGGCGTGCATGGCGACCTATAA
1 GGACGCCGGGCGTGCATGGCGACCTATAA
*
108908 GGACGTCGGGCGTGCATGGCGACCTAT
1 GGACGCCGGGCGTGCATGGCGACCTAT
108935 GCTGTCACTG
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
29 80 0.98
30 2 0.02
ACGTcount: A:0.19, C:0.27, G:0.38, T:0.16
Consensus pattern (29 bp):
GGACGCCGGGCGTGCATGGCGACCTATAA
Found at i:113882 original size:21 final size:19
Alignment explanation
Indices: 113848--113894 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
113838 ATTAAAACAA
113848 ATTTTTAA--TTAAAAATAT
1 ATTTTTAATTTTAAAAAT-T
113866 ATTGTTTAATTTTAAAAATT
1 ATT-TTTAATTTTAAAAATT
113886 ATTTTTAAT
1 ATTTTTAAT
113895 GAAAATGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 3 0.12
19 11 0.42
20 4 0.15
21 8 0.31
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
ATTTTTAATTTTAAAAATT
Found at i:114779 original size:3 final size:3
Alignment explanation
Indices: 114766--114822 Score: 73
Period size: 3 Copynumber: 19.0 Consensus size: 3
114756 TTTTTTATCG
114766 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA
*
114811 TTA TTA ATA TTA
1 TTA TTA TTA TTA
114823 CATTTTACAT
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 4 0.08
3 38 0.78
4 7 0.14
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:114789 original size:26 final size:25
Alignment explanation
Indices: 114760--114814 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
114750 CCCGGGTTTT
*
114760 TTATCGTTATTT-TATTATTATTATTA
1 TTATCATTATTTAT-TTATTATTA-TA
*
114786 TTATTATTATTTATTTATTATTATA
1 TTATCATTATTTATTTATTATTATA
114811 TTAT
1 TTAT
114815 TAATATTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 6 0.23
26 19 0.73
27 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
TTATCATTATTTATTTATTATTATA
Found at i:122240 original size:4 final size:4
Alignment explanation
Indices: 122231--122282 Score: 76
Period size: 4 Copynumber: 14.0 Consensus size: 4
122221 AAAAGTATAC
122231 ACAT ACAT ACAT ACAT AC-- ACAT ACAT ACAT ACAT ACAT AC-- ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
122275 ACAT ACAT
1 ACAT ACAT
122283 GATACATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.09
4 40 0.91
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:122250 original size:18 final size:18
Alignment explanation
Indices: 122227--122282 Score: 94
Period size: 18 Copynumber: 3.1 Consensus size: 18
122217 CGAGAAAAGT
122227 ATACACATACATACATAC
1 ATACACATACATACATAC
122245 ATACACATACATACATAC
1 ATACACATACATACATAC
* *
122263 ATACATACACATACATAC
1 ATACACATACATACATAC
122281 AT
1 AT
122283 GATACATAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (18 bp):
ATACACATACATACATAC
Found at i:122257 original size:22 final size:22
Alignment explanation
Indices: 122231--122290 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
122221 AAAAGTATAC
122231 ACATACATACATACATACACAT
1 ACATACATACATACATACACAT
122253 ACATACATACATACATACACAT
1 ACATACATACATACATACACAT
*
122275 ACATACAT-GATACATA
1 ACATACATACATACATA
122291 AAATTTGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 7 0.19
22 30 0.81
ACGTcount: A:0.50, C:0.25, G:0.02, T:0.23
Consensus pattern (22 bp):
ACATACATACATACATACACAT
Found at i:122909 original size:105 final size:103
Alignment explanation
Indices: 122727--122969 Score: 303
Period size: 105 Copynumber: 2.3 Consensus size: 103
122717 ATTTTGAAAA
** * *
122727 TTTTAAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATT
1 TTTTAAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATT
*
122792 CACTTAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTC
66 CACTTAAAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC
* * *
122832 TTTTAAAACAAATTTTGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTT
1 TTTTAAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATT
* *
122897 CACATT-AAACAAAGTTGATCTCACTTGAGATCGTTTTC
66 CAC-TTAAAACAAAATTAATCTCACTTGAGATCGTTTTC
** * *
122935 -TCAAAAACAAACTTTGTCTCGCTTGAGACAATTTC
1 TTTTAAAACAAATTTTGTCTCGCTTGAGACATTTTC
122970 TCTAAAAACA
Statistics
Matches: 121, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
102 30 0.25
103 4 0.03
104 4 0.03
105 81 0.67
106 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.40
Consensus pattern (103 bp):
TTTTAAAACAAATTTTGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATT
CACTTAAAACAAAATTAATCTCACTTGAGATCGTTTTC
Found at i:122960 original size:36 final size:36
Alignment explanation
Indices: 122915--123034 Score: 122
Period size: 36 Copynumber: 3.4 Consensus size: 36
122905 ACAAAGTTGA
**
122915 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
*
122951 TCTCGCTTGAGACAATTTCTCTAAAAACAAACTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * *
122987 TCTCATTTGAGACTATATCT-T-AAAGCAAA-TTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTT-G
*
123021 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
123035 TCATTTTTTC
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
33 3 0.04
34 19 0.27
35 8 0.11
36 41 0.58
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:123393 original size:40 final size:40
Alignment explanation
Indices: 123330--123409 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
123320 TTGTCTCTCG
*
123330 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACATTGGAGATCGTTT
* * *
123370 AGACAATTTCTTTT-AAAACTACCCACCTTGGAGATTGTTT
1 AGACAACTTCTTTTGAAAA-TACCCACATTGGAGATCGTTT
123410 TTATTAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (40 bp):
AGACAACTTCTTTTGAAAATACCCACATTGGAGATCGTTT
Found at i:123705 original size:1 final size:1
Alignment explanation
Indices: 123699--123724 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
123689 ATGTCTTTTC
123699 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
123725 TCATTGAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:123862 original size:35 final size:36
Alignment explanation
Indices: 123809--123888 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 36
123799 TGTTTCTTTG
* * *
123809 GAAACAAAAATTACCATCTTTGA-ATCTGTTTCCCTT-
1 GAAAC-AAAATAAACATCTTTGAGAAC-GTTTCCCTTA
123845 GAAACAAAATAAACATCTTTGAGAACGTTTCCCTTA
1 GAAACAAAATAAACATCTTTGAGAACGTTTCCCTTA
*
123881 AAAACAAA
1 GAAACAAA
123889 TTTTGTCTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 24 0.63
36 14 0.37
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (36 bp):
GAAACAAAATAAACATCTTTGAGAACGTTTCCCTTA
Found at i:124256 original size:43 final size:44
Alignment explanation
Indices: 124167--124452 Score: 171
Period size: 43 Copynumber: 6.6 Consensus size: 44
124157 TGGCCAGTAG
* * ** *
124167 TCCTCATCACATAGGAACCGTGTCAT-CCCCAG---ACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGACC
* *
124207 TCCTCATCACGTAGGAGTCGTGTCA-ACCATGGATAACCAG-CC
1 TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGACC
* * * ** *
124249 GTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCAT-ACC-ATAGATAACCAGACC
* * * * ** *
124296 TCTTCATCACGTATGAGCCGTGCCATTCCCCAG---ACCAGATC
1 TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGACC
124337 TCCTCATCACGTAGGAGCCGTGTCA-ACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGACC
* * * ** *
124379 GTCCTCATCACGTAGGAACCGTGTTATCACCTAAAGATGGCCAAGAAC
1 -TCCTCATCACGTAGGAGCCGTGTCAT-ACC-ATAGATAACC-AGACC
* **
124427 TCTTCATCACGTAGGAGAAGTGTCAT
1 TCCTCATCACGTAGGAGCCGTGTCAT
124453 CCCTCGATCA
Statistics
Matches: 185, Mismatches: 43, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
40 29 0.16
41 28 0.15
42 2 0.01
43 55 0.30
44 2 0.01
45 8 0.04
46 36 0.19
47 24 0.13
48 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.23
Consensus pattern (44 bp):
TCCTCATCACGTAGGAGCCGTGTCATACCATAGATAACCAGACC
Found at i:124386 original size:130 final size:129
Alignment explanation
Indices: 124153--124442 Score: 463
Period size: 130 Copynumber: 2.2 Consensus size: 129
124143 CATTATTCCT
* * * * *
124153 AAGATGGCCAGTAGTCCTCATCACATAGGAACCGTGTCATCCCCAGACCAGATCTCCTCATCACG
1 AAGATGGCCAGAACTCTTCATCACGTAGGAACCGTGCCATCCCCAGACCAGATCTCCTCATCACG
* * *
124218 TAGGAGTCGTGTCAACCATGGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
66 TAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
* * *
124282 TAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGCCATTCCCCAGACCAGATCTCCTCATCAC
1 AAGATGGCCAGAACTCTTCATCACGTAGGAACCGTGCCA-TCCCCAGACCAGATCTCCTCATCAC
124347 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
65 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
124412 AAGATGGCCAAGAACTCTTCATCACGTAGGA
1 AAGATGGCC-AGAACTCTTCATCACGTAGGA
124443 GAAGTGTCAT
Statistics
Matches: 146, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
129 31 0.21
130 95 0.65
131 20 0.14
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (129 bp):
AAGATGGCCAGAACTCTTCATCACGTAGGAACCGTGCCATCCCCAGACCAGATCTCCTCATCACG
TAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
Found at i:124465 original size:130 final size:129
Alignment explanation
Indices: 124153--124491 Score: 457
Period size: 130 Copynumber: 2.6 Consensus size: 129
124143 CATTATTCCT
* * * * *
124153 AAGATGGCCAGTAGTCCTCATCACATAGGA-ACCGTGTCATCCCCAGACCAGATCTCCTCATCAC
1 AAGATGGCCAGAACTCTTCATCACGTAGGAGA-AGTGTCATCCCCAGACCAGATCTCCTCATCAC
* * *
124217 GTAGGAGTCGTGTCAACCATGGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT
65 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
* * ** *
124282 TAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGCCATTCCCCAGACCAGATCTCCTCATCAC
1 AAGATGGCCAGAACTCTTCATCACGTAGGAGAAGTGTCA-TCCCCAGACCAGATCTCCTCATCAC
124347 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
65 GTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
* * *
124412 AAGATGGCCAAGAACTCTTCATCACGTAGGAGAAGTGTCATCCCTC-GATCAGATTTCCTCATTA
1 AAGATGGCC-AGAACTCTTCATCACGTAGGAGAAGTGTCATCCC-CAGACCAGATCTCCTCATCA
* * *
124476 TGTAGGAACCTTGTCA
64 CGTAGGAGCCGTGTCA
124492 CTTTTAGACG
Statistics
Matches: 184, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
129 30 0.16
130 127 0.69
131 27 0.15
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.24
Consensus pattern (129 bp):
AAGATGGCCAGAACTCTTCATCACGTAGGAGAAGTGTCATCCCCAGACCAGATCTCCTCATCACG
TAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTA
Found at i:124703 original size:3 final size:3
Alignment explanation
Indices: 124690--124739 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
124680 TTTTTTATCG
124690 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
*
124734 ATA TTA
1 TTA TTA
124740 CATTTTACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.83
4 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:129009 original size:21 final size:21
Alignment explanation
Indices: 128983--129050 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
128973 ACATAGAATT
128983 TATCCCGAAGGACCACATATA
1 TATCCCGAAGGACCACATATA
* *
129004 TATCCCGAAAGACCACATAGA
1 TATCCCGAAGGACCACATATA
* **
129025 AATCTCTTTAAGGACCACATATA
1 TATC-C-CGAAGGACCACATATA
129048 TAT
1 TAT
129051 TCCAAATGAC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 22 0.59
22 1 0.03
23 14 0.38
ACGTcount: A:0.40, C:0.25, G:0.12, T:0.24
Consensus pattern (21 bp):
TATCCCGAAGGACCACATATA
Found at i:129128 original size:21 final size:21
Alignment explanation
Indices: 128985--129129 Score: 71
Period size: 21 Copynumber: 6.8 Consensus size: 21
128975 ATAGAATTTA
* *
128985 TCCCGAAGGACCACATATATA
1 TCCCAAAGGACCACATATATG
* *
129006 TCCCGAAA-GACCACATAGAAATC
1 TCCC-AAAGGACCACAT--ATATG
*** *
129029 TCTTTAAGGACCACATATATA
1 TCCCAAAGGACCACATATATG
* * * * *
129050 TTCCAAATGACCAAACATGTG
1 TCCCAAAGGACCACATATATG
*
129071 TCTCAAA-GACCCACATATATGG
1 TCCCAAAGGA-CCACATATAT-G
* **
129093 T-CCAAAAGATTACATATATG
1 TCCCAAAGGACCACATATATG
129113 TCCCAAAGGACCACATA
1 TCCCAAAGGACCACATA
129130 GAACCCTCGA
Statistics
Matches: 88, Mismatches: 28, Indels: 16
0.67 0.21 0.12
Matches are distributed among these distances:
20 4 0.05
21 63 0.72
22 8 0.09
23 13 0.15
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (21 bp):
TCCCAAAGGACCACATATATG
Found at i:133068 original size:3 final size:3
Alignment explanation
Indices: 133060--133088 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
133050 ATTTTGTTAA
133060 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
133089 ACATTTTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:135681 original size:15 final size:15
Alignment explanation
Indices: 135661--135699 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
135651 TTTACTGAAG
135661 TTTTTAATTTCTTCA
1 TTTTTAATTTCTTCA
135676 TTTTTAATTTCTTCA
1 TTTTTAATTTCTTCA
135691 TTTTTAATT
1 TTTTTAATT
135700 GCCATACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTAATTTCTTCA
Found at i:140668 original size:36 final size:36
Alignment explanation
Indices: 140570--140674 Score: 122
Period size: 36 Copynumber: 2.9 Consensus size: 36
140560 TTTGAGATTG
* * * *
140570 TTTCTCTTGAAACAAAGTGTCATCTCGCTAGAGACAA
1 TTTCTCTTAAAACAAA-TTTCATCTTGCTTGAGACAA
**
140607 TTT-TCTTAAAAACAAATTTTGTCTTGCTTGAGACAA
1 TTTCTCTT-AAAACAAATTTCATCTTGCTTGAGACAA
*
140643 TTTCTCTTAAAACAAATTTCATCTTGTTTGAG
1 TTTCTCTTAAAACAAATTTCATCTTGCTTGAG
140675 GCAGTTTTCC
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
36 43 0.75
37 14 0.25
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.39
Consensus pattern (36 bp):
TTTCTCTTAAAACAAATTTCATCTTGCTTGAGACAA
Found at i:140790 original size:36 final size:36
Alignment explanation
Indices: 140718--140799 Score: 83
Period size: 36 Copynumber: 2.2 Consensus size: 36
140708 GTTTCACTTG
* * ** * *
140718 AAACAAAGTTGATCTAACTTGAGATTATTTTTCTCA
1 AAACAAACTTCATCTAACTTGAGACAATCTTCCTCA
*
140754 AAACAAACTTCATCTCACTTGAGACAATCTTCCTCA
1 AAACAAACTTCATCTAACTTGAGACAATCTTCCTCA
140790 ACACACAAAC
1 A-A-ACAAAC
140800 ATTTGAGATT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
36 30 0.81
37 1 0.03
38 6 0.16
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.29
Consensus pattern (36 bp):
AAACAAACTTCATCTAACTTGAGACAATCTTCCTCA
Found at i:141084 original size:65 final size:65
Alignment explanation
Indices: 140918--141269 Score: 499
Period size: 65 Copynumber: 5.4 Consensus size: 65
140908 ATTGTTTCTT
* * * * ** * *
140918 TTGAAACAAGTTTTGTCTCTATTGAGACAATTTATCTTGAAACAAAAAATCTTTGAGTTTGTTTC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC--ATCATCTTTGAGATCGTTTC
140983 CC
64 CC
* * * *
140985 TTGAAACAAAATTTTGTCTATCTTGAGCCAGTTTCTCTTGAAACATCGTCTTTGAGATTGTTTCC
1 TTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCC
141050 C
65 C
*
141051 TTGAAACCAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCC
** *
141116 TTGAAATGAATTTTGTCTC-CTTGAGATAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCC
* * *
141180 TTGAAACGAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACATCATATTTGAGATCGTTTCCC
1 TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCC
141245 TTGAAACAAATTTTGTCTCTCTTGA
1 TTGAAACAAATTTTGTCTCTCTTGA
141270 AACCATTATC
Statistics
Matches: 260, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
64 62 0.24
65 136 0.52
66 25 0.10
67 7 0.03
68 30 0.12
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (65 bp):
TTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCC
Found at i:141181 original size:129 final size:129
Alignment explanation
Indices: 140918--141269 Score: 490
Period size: 129 Copynumber: 2.7 Consensus size: 129
140908 ATTGTTTCTT
* * ** * *
140918 TTGAAA-CAAGTTTTGTCTCTATTGAGACAATTTATCTTGAAACAAAAAATCTTTGAGTTTGTTT
1 TTGAAACCAA-TTTTGTCTCTCTTGAGACAATTTCTCTTGAAAC--ATCATCTTTGAGATCGTTT
* * * *
140982 CCCTTGAAACAAAATTTTGTCTATCTTGAGCCAGTTTCTCTTGAAACATCGTCTTTGAGATTGTT
63 CCCTTGAAA-AAAATTTTGTCT-CCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTT
141047 TCCC
126 TCCC
*
141051 TTGAAACCAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCC
1 TTGAAACCAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACATCATCTTTGAGATCGTTTCCC
** *
141116 TTGAAATGAATTTTGTCTCCTTGAGATAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCC
66 TTGAAAAAAATTTTGTCTCCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCC
* *
141180 TTGAAACGAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACATCATATTTGAGATCGTTTCCC
1 TTGAAACCAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACATCATCTTTGAGATCGTTTCCC
*
141245 TTGAAACAAATTTTGTCTCTCTTGA
66 TTGAAAAAAATTTTGTCTC-CTTGA
141270 AACCATTATC
Statistics
Matches: 198, Mismatches: 19, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
129 120 0.61
130 15 0.08
131 24 0.12
133 36 0.18
134 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (129 bp):
TTGAAACCAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACATCATCTTTGAGATCGTTTCCC
TTGAAAAAAATTTTGTCTCCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATCGTTTCCC
Found at i:141530 original size:134 final size:134
Alignment explanation
Indices: 141282--141531 Score: 292
Period size: 134 Copynumber: 1.9 Consensus size: 134
141272 CCATTATCCC
* * *
141282 TAAAGATGGCCAGCCATCCTCATCATGTAGGAACCGTGTCATTCCCTGACTAGATCTCCTAATCA
1 TAAAGATGGCCAGCCATCCTCATCACGTAGGAACCGTGTCATTCCATGACCAGATCTCCTAATCA
* ****
141347 CGTAGAATCCACGTGACCCCTAGATAACCATCTGTCCTCATGGTGTAGGAATCATGTTATCATTA
66 CGTAGAAGCCACGTGACCCCTAGATAACCATCTGTCCTCATCACATAGGAATCATGTTATCATTA
141412 TATG
131 TATG
* * * *
141416 TAAAGATGTCTAGCCGTCCTCATCACGTAGGAACCGTGTCA-TCCATCGACCAGATCTCCTCATC
1 TAAAGATGGCCAGCCATCCTCATCACGTAGGAACCGTGTCATTCCAT-GACCAGATCTCCTAATC
* ** *
141480 ATGTATG-AGCCGTGTAGA-CCTTAGATAACCAGT-TGTCCTCATCACATAGGAA
65 ACGTA-GAAGCCACGT-GACCCCTAGATAACCA-TCTGTCCTCATCACATAGGAA
141532 CCGTGTCATC
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
133 4 0.04
134 88 0.92
135 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (134 bp):
TAAAGATGGCCAGCCATCCTCATCACGTAGGAACCGTGTCATTCCATGACCAGATCTCCTAATCA
CGTAGAAGCCACGTGACCCCTAGATAACCATCTGTCCTCATCACATAGGAATCATGTTATCATTA
TATG
Found at i:141533 original size:83 final size:81
Alignment explanation
Indices: 141431--141702 Score: 309
Period size: 83 Copynumber: 3.3 Consensus size: 81
141421 ATGTCTAGCC
* * *
141431 GTCCTCATCACGTAGGAACCGTGTCATCCATCGACCAGATCTCCTCATCATGTATGAGCCGTGT-
1 GTCCTCATCACATAGGAACCGTGTCATCCA-CGACCAGATCTCCTCATCACGTAGGAGCCGTGTC
141495 AGACCTTAGATAACCAGTT
65 A-ACCTTAGATAA-CAGTT
* * *
141514 GTCCTCATCACATAGGAACCGTGTCATCCACTGAACAGATCTCCTCATCACATAGGAGCC-TCAT
1 GTCCTCATCACATAGGAACCGTGTCATCCAC-GACCAGATCTCCTCATCACGTAGGAGCCGT-GT
*
141578 CAACCTTAGATAATCAGTC
64 CAACCTTAGATAA-CAGTT
* * * * *
141597 GTCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGATCTACTTATCACGTAGGAGCCGCGTC
1 GTCCTCATCACATAGGAACCGTGTCATCCA-CGACCAGATCTCCTCATCACGTAGGAGCCGTGTC
141662 AACCTTAGATAGACA-TACT
65 AACCTTAGATA-ACAGT--T
*
141681 -TCCTCATCACATAAGAACCGTG
1 GTCCTCATCACATAGGAACCGTG
141703 CTATCTCCAA
Statistics
Matches: 161, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
82 3 0.02
83 155 0.96
84 3 0.02
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.24
Consensus pattern (81 bp):
GTCCTCATCACATAGGAACCGTGTCATCCACGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
ACCTTAGATAACAGTT
Found at i:141566 original size:40 final size:40
Alignment explanation
Indices: 141432--141702 Score: 127
Period size: 40 Copynumber: 6.5 Consensus size: 40
141422 TGTCTAGCCG
* * *
141432 TCCTCATCACGTAGGAACCGTGTCATCCATCGACCAGATC
1 TCCTCATCACATAGGAACCGTGTCATCCATAGAACAGATC
** * * * * * *
141472 TCCTCATCATGTATGAGCCGTGT-AGACCTTAGATAACCAGTTG
1 TCCTCATCACATAGGAACCGTGTCA-TCCATAG--AA-CAGATC
141515 TCCTCATCACATAGGAACCGTGTCATCCACT-GAACAGATC
1 TCCTCATCACATAGGAACCGTGTCATCCA-TAGAACAGATC
* * * *
141555 TCCTCATCACATAGGAGCC-TCATCAACCTTAGATAATCAG-TC
1 TCCTCATCACATAGGAACCGT-GTCATCCATAG--AA-CAGATC
* * ** *
141597 GTCCTCATCGCGTAGGAACCGTGTCATCCACCGACCAGATC
1 -TCCTCATCACATAGGAACCGTGTCATCCATAGAACAGATC
* * * * * * * * *
141638 TACTTATCACGTAGGAGCCGCGTCAACCTTAGATAGACATAC
1 TCCTCATCACATAGGAACCGTGTCATCCATAGA-ACAGAT-C
*
141680 TTCCTCATCACATAAGAACCGTG
1 -TCCTCATCACATAGGAACCGTG
141703 CTATCTCCAA
Statistics
Matches: 166, Mismatches: 48, Indels: 31
0.68 0.20 0.13
Matches are distributed among these distances:
39 3 0.02
40 79 0.48
41 8 0.05
42 6 0.04
43 67 0.40
44 3 0.02
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (40 bp):
TCCTCATCACATAGGAACCGTGTCATCCATAGAACAGATC
Found at i:143397 original size:131 final size:131
Alignment explanation
Indices: 143253--143510 Score: 453
Period size: 131 Copynumber: 2.0 Consensus size: 131
143243 TTTATGTTTC
* *
143253 TGATTTATTGTATTTTAGTCCTCAACATTATTTATGGGTTATTTTCATTTATAGTGTTTGTATTT
1 TGATTTATTGTATTTTAGTACTCAACATCATTTATGGGTTATTTTCATTTATAGTGTTTGTATTT
* * *
143318 GTTTAAAATGTAGATTGGGGCTTTGATTTGTTCATAATTATTGTTTAGCTCCTTCAAGTTCCTTT
66 GTTTAAAATGTAGATTGGGGCTGTAATTTGTTCATAATTATTGTTTACCTCCTTCAAGTTCCTTT
143383 A
131 A
* *
143384 TGATTTATTGTATTTTAGTATTCAACATCATTTATGGGTTATTTTCATTTCTAGTGTTTGTATTT
1 TGATTTATTGTATTTTAGTACTCAACATCATTTATGGGTTATTTTCATTTATAGTGTTTGTATTT
143449 GTTTAAAATGTAGATTGGGGCTGTAATTTGTTCATAATTATTGTTTACCTCCTTCAAGTTCC
66 GTTTAAAATGTAGATTGGGGCTGTAATTTGTTCATAATTATTGTTTACCTCCTTCAAGTTCC
143511 AGTTATTCTC
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
131 120 1.00
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.51
Consensus pattern (131 bp):
TGATTTATTGTATTTTAGTACTCAACATCATTTATGGGTTATTTTCATTTATAGTGTTTGTATTT
GTTTAAAATGTAGATTGGGGCTGTAATTTGTTCATAATTATTGTTTACCTCCTTCAAGTTCCTTT
A
Found at i:147213 original size:24 final size:23
Alignment explanation
Indices: 147186--147239 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
147176 AAGGAACGTA
* *
147186 CCACAAGAGCTGATAAAAAGCGTG
1 CCACAAGAACAGA-AAAAAGCGTG
*
147210 CCACAAGAACAGAGAAAAGCGTG
1 CCACAAGAACAGAAAAAAGCGTG
*
147233 TCACAAG
1 CCACAAG
147240 GATATATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.09
Consensus pattern (23 bp):
CCACAAGAACAGAAAAAAGCGTG
Found at i:147282 original size:13 final size:13
Alignment explanation
Indices: 147264--147297 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
147254 TTTAAAAGTG
*
147264 AAAAAAGTCAAAC
1 AAAAAAATCAAAC
147277 AAAAAAATCAAAC
1 AAAAAAATCAAAC
*
147290 AAACAAAT
1 AAAAAAAT
147298 AATACTATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.74, C:0.15, G:0.03, T:0.09
Consensus pattern (13 bp):
AAAAAAATCAAAC
Found at i:148542 original size:21 final size:21
Alignment explanation
Indices: 148513--148565 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
148503 ATTCTGACTA
148513 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
148534 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
148555 TCGCAATGCGA
1 TCGCATTGCGA
148566 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:148623 original size:61 final size:61
Alignment explanation
Indices: 148555--148726 Score: 199
Period size: 61 Copynumber: 2.8 Consensus size: 61
148545 TTTTCCTAAT
*
148555 TCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTACGAAAA
* * * *
148616 TCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCG-ATTACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCG-ATTACGTAAATCGCAATGCGAATTACGAAAA
* * * * *
148677 TCACATTGC-AATTTACGT-AATCGCATTGCGAATACGT-AATCGCATTGCGA
1 TCGCAATGCGAA--TACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGA
148727 TTTTCCTAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
59 11 0.12
60 5 0.05
61 55 0.59
62 23 0.24
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.24
Consensus pattern (61 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTACGAAAA
Found at i:148756 original size:41 final size:41
Alignment explanation
Indices: 148512--148852 Score: 289
Period size: 41 Copynumber: 8.4 Consensus size: 41
148502 GATTCTGACT
* * * * *
148512 ATCGCATTGCGATTTCCCAAATTCGCGTTGCGATTTTCCTA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
* * * * * *
148553 ATTCGCAATGCGA-ATACGTAAATCGCAATGCGA-TTACGTAA
1 A-TCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGT-A
* * **** * *
148594 ATCGCAATGCGAATTAGGAAAATCGCAATGCGA-TTACGTAA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGT-A
* * **** * *
148635 ATCGCAATGCGAATTAGGAAAATCGCAATGCGA-TTACGTAA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGT-A
* * * * *
148676 ATCACATTGCAATTTACGTAA-TCGCATTGCGA-ATACGTA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
* *
148715 ATCGCATTGCGATTTTCCTAATTCGCATTACAATTTACGTA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
148756 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
*
148797 ATCGCATTGCGATTTTCCTAATTTGCATTGCGATTTACGTA
1 ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
148838 ATCGCATTGCGATTT
1 ATCGCATTGCGATTT
148853 AGTAAATCGC
Statistics
Matches: 264, Mismatches: 31, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
39 18 0.07
40 39 0.15
41 197 0.75
42 10 0.04
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (41 bp):
ATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTA
Found at i:148762 original size:20 final size:20
Alignment explanation
Indices: 148512--148863 Score: 275
Period size: 20 Copynumber: 17.3 Consensus size: 20
148502 GATTCTGACT
* **
148512 ATCGCATTGCGATTTCCCAA
1 ATCGCATTGCGATTTACGTA
* * *
148532 ATTCGCGTTGCGATTTTCCTA
1 A-TCGCATTGCGATTTACGTA
* *
148553 ATTCGCAATGCGA-ATACGTAA
1 A-TCGCATTGCGATTTACGT-A
*
148574 ATCGCAATGCGA-TTACGTAA
1 ATCGCATTGCGATTTACGT-A
* * * *
148594 ATCGCAATGCGAATTAGGAAA
1 ATCGCATTGCGATTTACG-TA
*
148615 ATCGCAATGCGA-TTACGTAA
1 ATCGCATTGCGATTTACGT-A
* * * *
148635 ATCGCAATGCGAATTAGGAAA
1 ATCGCATTGCGATTTACG-TA
*
148656 ATCGCAATGCGA-TTACGTAA
1 ATCGCATTGCGATTTACGT-A
* *
148676 ATCACATTGCAATTTACGTA
1 ATCGCATTGCGATTTACGTA
*
148696 ATCGCATTGCGA-ATACGTA
1 ATCGCATTGCGATTTACGTA
* *
148715 ATCGCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTACGTA
* *
148735 ATTCGCATTACAATTTACGTA
1 A-TCGCATTGCGATTTACGTA
* *
148756 ATCGCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTACGTA
148776 ATTCGCATTGCGATTTACGTA
1 A-TCGCATTGCGATTTACGTA
* *
148797 ATCGCATTGCGATTTTCCTA
1 ATCGCATTGCGATTTACGTA
*
148817 ATTTGCATTGCGATTTACGTA
1 A-TCGCATTGCGATTTACGTA
148838 ATCGCATTGCGATTTA-GTAA
1 ATCGCATTGCGATTTACGT-A
148858 ATCGCA
1 ATCGCA
148864 ACGAGATTCT
Statistics
Matches: 276, Mismatches: 42, Indels: 28
0.80 0.12 0.08
Matches are distributed among these distances:
19 20 0.07
20 136 0.49
21 120 0.43
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (20 bp):
ATCGCATTGCGATTTACGTA
Found at i:149753 original size:24 final size:24
Alignment explanation
Indices: 149721--149767 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
149711 AGTCAGTATT
*
149721 CGAAATTTGATCTTGGTTAATACC
1 CGAAATTTGATCTTGGTCAATACC
*
149745 CGAACTTTGATCTTGGTCAATAC
1 CGAAATTTGATCTTGGTCAATAC
149768 TCGGATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (24 bp):
CGAAATTTGATCTTGGTCAATACC
Found at i:152332 original size:19 final size:19
Alignment explanation
Indices: 152290--152366 Score: 74
Period size: 20 Copynumber: 4.3 Consensus size: 19
152280 TAATCATCTT
*
152290 AATGTCTATCGCAATGCGGA
1 AATGACTATCGCAATGC-GA
152310 AATGACTATCGCAATGCGA
1 AATGACTATCGCAATGCGA
**
152329 AATGAAAATCGCAA--CGA
1 AATGACTATCGCAATGCGA
*
152346 GA-GA--ATCGCAATGCGA
1 AATGACTATCGCAATGCGA
152362 AATGA
1 AATGA
152367 AAATCGCAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.14
16 6 0.12
17 6 0.12
19 14 0.29
20 16 0.33
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAATGCGA
Found at i:152359 original size:33 final size:33
Alignment explanation
Indices: 152317--152410 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
152307 GGAAATGACT
152317 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
152350 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
152383 ATCGCAAAGCGAAATGAAAATCACAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
152411 CGATTTTATC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Done.