Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011040.1 Corchorus capsularis cultivar CVL-1 contig11061, 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: 181526
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:6524 original size:45 final size:45
Alignment explanation
Indices: 6458--6546 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
6448 GGGCGGCTGT
* *
6458 GTACGCAAGGACTCGAACTCAAAACCTGCTTAAGTTGGAACAAGG
1 GTACGCAAGGACTCGAACTCAAAACCTACTTAAGCTGGAACAAGG
*
6503 GTACGCAAGGACTCGAGCTCAAAACCTACTTAAGCTGGAACAAG
1 GTACGCAAGGACTCGAACTCAAAACCTACTTAAGCTGGAACAAG
6547 ACGCTTACCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.17
Consensus pattern (45 bp):
GTACGCAAGGACTCGAACTCAAAACCTACTTAAGCTGGAACAAGG
Found at i:9658 original size:21 final size:21
Alignment explanation
Indices: 9632--9680 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
9622 AGCAAAGTAG
* *
9632 CAACAATACCAACACCAACAA
1 CAACAATAACAACAACAACAA
*
9653 TAACAATAACAACAACAACAA
1 CAACAATAACAACAACAACAA
9674 CAACAAT
1 CAACAAT
9681 TCTTCTACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.61, C:0.31, G:0.00, T:0.08
Consensus pattern (21 bp):
CAACAATAACAACAACAACAA
Found at i:9665 original size:15 final size:15
Alignment explanation
Indices: 9632--9679 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
9622 AGCAAAGTAG
* *
9632 CAACAATACCAACAC
1 CAACAATAACAACAA
*
9647 CAACAATAACAATAA
1 CAACAATAACAACAA
*
9662 CAACAACAACAACAA
1 CAACAATAACAACAA
9677 CAA
1 CAA
9680 TTCTTCTACT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.06
Consensus pattern (15 bp):
CAACAATAACAACAA
Found at i:9668 original size:3 final size:3
Alignment explanation
Indices: 9641--9679 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
9631 GCAACAATAC
* * *
9641 CAA CAC CAA CAA TAA CAA TAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
9680 TTCTTCTACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.64, C:0.31, G:0.00, T:0.05
Consensus pattern (3 bp):
CAA
Found at i:9888 original size:21 final size:20
Alignment explanation
Indices: 9858--9900 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
9848 TTCCTTCTCT
9858 CCCTCCCATCCCCACCATCA
1 CCCTCCCATCCCCACCATCA
* *
9878 CCCTCTCCATCCTCATCATCA
1 CCCTC-CCATCCCCACCATCA
9899 CC
1 CC
9901 ATCATCTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.19, C:0.60, G:0.00, T:0.21
Consensus pattern (20 bp):
CCCTCCCATCCCCACCATCA
Found at i:13054 original size:2 final size:2
Alignment explanation
Indices: 13047--13074 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13037 ACTACCTTTT
13047 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13075 AATCTTTCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13302 original size:21 final size:21
Alignment explanation
Indices: 13276--13322 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
13266 TTAAATCAAC
13276 TTCTAAAGAAGTATTACAAGT
1 TTCTAAAGAAGTATTACAAGT
* *
13297 TTCTAAGGAAGTATTGCAAGT
1 TTCTAAAGAAGTATTACAAGT
13318 TTCTA
1 TTCTA
13323 CAAATTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (21 bp):
TTCTAAAGAAGTATTACAAGT
Found at i:24624 original size:14 final size:14
Alignment explanation
Indices: 24605--24634 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24595 CAACTCTTAT
24605 GAAATTTGAATTTA
1 GAAATTTGAATTTA
24619 GAAATTTGAATTTA
1 GAAATTTGAATTTA
24633 GA
1 GA
24635 TAAGATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (14 bp):
GAAATTTGAATTTA
Found at i:29182 original size:26 final size:26
Alignment explanation
Indices: 29153--29204 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
29143 AGTATGCTAG
*
29153 TTGATAATTATATATTTTAAGAAAAT
1 TTGATAATGATATATTTTAAGAAAAT
* *
29179 TTGATAATGATGTGTTTTAAGAAAAT
1 TTGATAATGATATATTTTAAGAAAAT
29205 ATTGCCTGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.44
Consensus pattern (26 bp):
TTGATAATGATATATTTTAAGAAAAT
Found at i:30617 original size:185 final size:185
Alignment explanation
Indices: 30305--30675 Score: 742
Period size: 185 Copynumber: 2.0 Consensus size: 185
30295 TCCAATTAAG
30305 TTTTCTCAGCTTAGGCTATGCTGTCCCATGAAGCATCGGTAGGTGTTTATAATAATAAATCATAT
1 TTTTCTCAGCTTAGGCTATGCTGTCCCATGAAGCATCGGTAGGTGTTTATAATAATAAATCATAT
30370 TGACAGTCTCTCTAAGCTTCCACTTATGCTCAATTTTGTTGTTAAGCACCTGAATGTGTTCTGTC
66 TGACAGTCTCTCTAAGCTTCCACTTATGCTCAATTTTGTTGTTAAGCACCTGAATGTGTTCTGTC
30435 TGAACCTCATCTTAAGTTTAGCTTTGTTTTGGATTGCACTTTTTATTAGTTTGAC
131 TGAACCTCATCTTAAGTTTAGCTTTGTTTTGGATTGCACTTTTTATTAGTTTGAC
30490 TTTTCTCAGCTTAGGCTATGCTGTCCCATGAAGCATCGGTAGGTGTTTATAATAATAAATCATAT
1 TTTTCTCAGCTTAGGCTATGCTGTCCCATGAAGCATCGGTAGGTGTTTATAATAATAAATCATAT
30555 TGACAGTCTCTCTAAGCTTCCACTTATGCTCAATTTTGTTGTTAAGCACCTGAATGTGTTCTGTC
66 TGACAGTCTCTCTAAGCTTCCACTTATGCTCAATTTTGTTGTTAAGCACCTGAATGTGTTCTGTC
30620 TGAACCTCATCTTAAGTTTAGCTTTGTTTTGGATTGCACTTTTTATTAGTTTGAC
131 TGAACCTCATCTTAAGTTTAGCTTTGTTTTGGATTGCACTTTTTATTAGTTTGAC
30675 T
1 T
30676 CACAGGAAGC
Statistics
Matches: 186, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
185 186 1.00
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (185 bp):
TTTTCTCAGCTTAGGCTATGCTGTCCCATGAAGCATCGGTAGGTGTTTATAATAATAAATCATAT
TGACAGTCTCTCTAAGCTTCCACTTATGCTCAATTTTGTTGTTAAGCACCTGAATGTGTTCTGTC
TGAACCTCATCTTAAGTTTAGCTTTGTTTTGGATTGCACTTTTTATTAGTTTGAC
Found at i:31006 original size:29 final size:29
Alignment explanation
Indices: 30929--31031 Score: 80
Period size: 29 Copynumber: 3.4 Consensus size: 29
30919 ACTAATCTAC
** * *
30929 CATTTTGCCCCCTGAACTTGTAGCGTTTAGA
1 CATTTTGCCCCCTGAACTTAAATC--TTGGA
* **
30960 CGTTTTGCCCCCCAAACTTAAATCTTGGA
1 CATTTTGCCCCCTGAACTTAAATCTTGGA
* *
30989 CATTTTGCCCCCTGAACTTCAATTTTGGGA
1 CATTTTGCCCCCTGAACTTAAATCTT-GGA
**
31019 TGTTTTGCCCCCT
1 CATTTTGCCCCCT
31032 CAACCTAACG
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
29 25 0.44
30 14 0.25
31 18 0.32
ACGTcount: A:0.18, C:0.29, G:0.17, T:0.36
Consensus pattern (29 bp):
CATTTTGCCCCCTGAACTTAAATCTTGGA
Found at i:31243 original size:30 final size:30
Alignment explanation
Indices: 31209--31288 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
31199 CGGAACCATT
*
31209 AAGTTGAAGGGGCAAAACGTCCCAAAATTA
1 AAGTTGAGGGGGCAAAACGTCCCAAAATTA
* * * *
31239 AAGTTCAGGGGGCAAAATGT-CCAAGATTG
1 AAGTTGAGGGGGCAAAACGTCCCAAAATTA
31268 AAGTTTG-GGGGGCAAAACGTC
1 AAG-TTGAGGGGGCAAAACGTC
31289 TAAACGCTAC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
29 22 0.54
30 19 0.46
ACGTcount: A:0.36, C:0.15, G:0.30, T:0.19
Consensus pattern (30 bp):
AAGTTGAGGGGGCAAAACGTCCCAAAATTA
Found at i:32557 original size:18 final size:18
Alignment explanation
Indices: 32534--32569 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32524 GCTTGAACAA
* *
32534 GGAAAAATGTTCGCGAAC
1 GGAAAAATATTCACGAAC
32552 GGAAAAATATTCACGAAC
1 GGAAAAATATTCACGAAC
32570 ATAACTGAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (18 bp):
GGAAAAATATTCACGAAC
Found at i:40564 original size:5 final size:5
Alignment explanation
Indices: 40554--40579 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
40544 TTTAACATAC
40554 ACTAT ACTAT ACTAT ACTAT ACTAT A
1 ACTAT ACTAT ACTAT ACTAT ACTAT A
40580 TATTTTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (5 bp):
ACTAT
Found at i:45860 original size:31 final size:31
Alignment explanation
Indices: 45817--45961 Score: 209
Period size: 31 Copynumber: 4.6 Consensus size: 31
45807 GACGTGACAT
*
45817 GCCACGTGTACCAAAAAGTGACATGTGTCAC
1 GCCACGTGTACCAAAAAGTGACATGTGGCAC
* *
45848 GCCATGTGTACCAAAAAGTCACATGTGGCAC
1 GCCACGTGTACCAAAAAGTGACATGTGGCAC
45879 GCCACGTGTACCAAAAAGTGACATGTGGCAAC
1 GCCACGTGTACCAAAAAGTGACATGTGGC-AC
* * ** *
45911 ACTACGTGTACCAAAAAGTGACACATGTCAC
1 GCCACGTGTACCAAAAAGTGACATGTGGCAC
45942 GCCACGTGTACCAAAAAGTG
1 GCCACGTGTACCAAAAAGTG
45962 GCACGTGACA
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
31 75 0.74
32 26 0.26
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (31 bp):
GCCACGTGTACCAAAAAGTGACATGTGGCAC
Found at i:45951 original size:63 final size:61
Alignment explanation
Indices: 45817--45961 Score: 211
Period size: 63 Copynumber: 2.3 Consensus size: 61
45807 GACGTGACAT
* * *
45817 GCCACGTGTACCAAAAAGTGACATGTGTCACGCCATGTGTACCAAAAAGTCACATGTGGCAC
1 GCCACGTGTACCAAAAAGTGACATGTGGCACACCACGTGTACCAAAAAGTCACATGT-GCAC
*
45879 GCCACGTGTACCAAAAAGTGACATGTGGCAACACTACGTGTACCAAAAAGTGACACATGT-CAC
1 GCCACGTGTACCAAAAAGTGACATGTGGC-ACACCACGTGTACCAAAAAGT--CACATGTGCAC
45942 GCCACGTGTACCAAAAAGTG
1 GCCACGTGTACCAAAAAGTG
45962 GCACGTGACA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
62 28 0.37
63 41 0.54
65 7 0.09
ACGTcount: A:0.34, C:0.26, G:0.22, T:0.18
Consensus pattern (61 bp):
GCCACGTGTACCAAAAAGTGACATGTGGCACACCACGTGTACCAAAAAGTCACATGTGCAC
Found at i:45977 original size:31 final size:31
Alignment explanation
Indices: 45808--46008 Score: 206
Period size: 31 Copynumber: 6.5 Consensus size: 31
45798 ACGGTGTCCG
* *
45808 ACGTGACATGCCACGTGTACCAAAAAGTGAC
1 ACGTGGCACGCCACGTGTACCAAAAAGTGAC
* * * *
45839 ATGTGTCACGCCATGTGTACCAAAAAGTCAC
1 ACGTGGCACGCCACGTGTACCAAAAAGTGAC
*
45870 ATGTGGCACGCCACGTGTACCAAAAAGTGAC
1 ACGTGGCACGCCACGTGTACCAAAAAGTGAC
* * *
45901 ATGTGGCAACACTACGTGTACCAAAAAGTGAC
1 ACGTGGC-ACGCCACGTGTACCAAAAAGTGAC
* * *
45933 ACATGTCACGCCACGTGTACCAAAAAGTGGC
1 ACGTGGCACGCCACGTGTACCAAAAAGTGAC
* * * **
45964 ACGTGACATGCCACATGTTTC-AAAAGATGAC
1 ACGTGGCACGCCACGTGTACCAAAAAG-TGAC
*
45995 ACGTGGCATGCCAC
1 ACGTGGCACGCCAC
46009 ATGCACAACA
Statistics
Matches: 144, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
30 5 0.03
31 113 0.78
32 26 0.18
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.18
Consensus pattern (31 bp):
ACGTGGCACGCCACGTGTACCAAAAAGTGAC
Found at i:45988 original size:94 final size:94
Alignment explanation
Indices: 45820--46002 Score: 242
Period size: 94 Copynumber: 1.9 Consensus size: 94
45810 GTGACATGCC
** * * * *
45820 ACGTGTACCAAAAAGTGACATGTGTCACGCCATGTGTACCAAAAAGTCACATGTGGCACGCCACG
1 ACGTGTACCAAAAAGTGACACATGTCACGCCACGTGTACCAAAAAGTCACACGTGACACGCCACA
*
45885 TGTACCAAAA-AGTGACATGTGGCAACACT
66 TGTACCAAAAGA-TGACACGTGGCAACACT
** *
45914 ACGTGTACCAAAAAGTGACACATGTCACGCCACGTGTACCAAAAAGTGGCACGTGACATGCCACA
1 ACGTGTACCAAAAAGTGACACATGTCACGCCACGTGTACCAAAAAGTCACACGTGACACGCCACA
**
45979 TGTTTCAAAAGATGACACGTGGCA
66 TGTACCAAAAGATGACACGTGGCA
46003 TGCCACATGC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
94 75 0.99
95 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (94 bp):
ACGTGTACCAAAAAGTGACACATGTCACGCCACGTGTACCAAAAAGTCACACGTGACACGCCACA
TGTACCAAAAGATGACACGTGGCAACACT
Found at i:63877 original size:16 final size:16
Alignment explanation
Indices: 63856--63886 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
63846 TGAAGTATGG
63856 AAAAAACAAGAGAATA
1 AAAAAACAAGAGAATA
*
63872 AAAAAACAATAGAAT
1 AAAAAACAAGAGAAT
63887 TATATGAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAAAACAAGAGAATA
Found at i:64133 original size:11 final size:11
Alignment explanation
Indices: 64103--64150 Score: 53
Period size: 11 Copynumber: 4.4 Consensus size: 11
64093 ATACATGTAT
**
64103 ATTTATAACAA
1 ATTTATAATTA
64114 ATTTATAATTA
1 ATTTATAATTA
64125 ATTTATAATT-
1 ATTTATAATTA
*
64135 ATTTGATAATTT
1 ATTT-ATAATTA
64147 ATTT
1 ATTT
64151 TATATAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
10 4 0.12
11 25 0.76
12 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (11 bp):
ATTTATAATTA
Found at i:71644 original size:26 final size:26
Alignment explanation
Indices: 71608--71660 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
71598 GTTGACTTGG
71608 AGACAAATTCAATTTTTTAAAAATTC
1 AGACAAATTCAATTTTTTAAAAATTC
71634 AGACAAATTCAATTTTTTAAAAATTC
1 AGACAAATTCAATTTTTTAAAAATTC
71660 A
1 A
71661 AAATAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.38
Consensus pattern (26 bp):
AGACAAATTCAATTTTTTAAAAATTC
Found at i:71710 original size:21 final size:21
Alignment explanation
Indices: 71663--71713 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
71653 AAAATTCAAA
*
71663 ATAAAATAAAAACTACCCATT
1 ATAAGATAAAAACTACCCATT
* *
71684 -TTAGATAAAAACTATCCATT
1 ATAAGATAAAAACTACCCATT
71704 ATAAGATAAA
1 ATAAGATAAA
71714 TATAAATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.55, C:0.14, G:0.04, T:0.27
Consensus pattern (21 bp):
ATAAGATAAAAACTACCCATT
Found at i:72223 original size:52 final size:52
Alignment explanation
Indices: 72145--72247 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
72135 CTGGTTTCTC
*
72145 ACGTCTGCAACAAATTTTTAATATAAAATCCAATTTGTAATATTTACATTAG
1 ACGTCTGCAACAAATTTTTAATATAAAATCCAATTTGTAATATTTAAATTAG
72197 ACGTCTGCAACTAAA-TTTTAATATAAAATCCAATTTGTAATATTTAAATTA
1 ACGTCTGCAAC-AAATTTTTAATATAAAATCCAATTTGTAATATTTAAATTA
72248 TATAAAGCGA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
52 46 0.94
53 3 0.06
ACGTcount: A:0.42, C:0.13, G:0.07, T:0.39
Consensus pattern (52 bp):
ACGTCTGCAACAAATTTTTAATATAAAATCCAATTTGTAATATTTAAATTAG
Found at i:75834 original size:2 final size:2
Alignment explanation
Indices: 75822--75872 Score: 70
Period size: 2 Copynumber: 25.5 Consensus size: 2
75812 TTATTACTAT
75822 TA TA T- TA TA TA TA TA TA TA TA TA T- TA TA TCA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
75863 TA GTA TA TA T
1 TA -TA TA TA T
75873 GTAGTAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
1 2 0.04
2 39 0.87
3 4 0.09
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:75855 original size:24 final size:25
Alignment explanation
Indices: 75819--75870 Score: 88
Period size: 24 Copynumber: 2.1 Consensus size: 25
75809 TTTTTATTAC
*
75819 TATTATATTATATATATATATA-TA
1 TATTATATCATATATATATATAGTA
75843 TATTATATCATATATATATATAGTA
1 TATTATATCATATATATATATAGTA
75868 TAT
1 TAT
75871 ATGTAGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (25 bp):
TATTATATCATATATATATATAGTA
Found at i:75877 original size:11 final size:11
Alignment explanation
Indices: 75827--75878 Score: 58
Period size: 11 Copynumber: 5.0 Consensus size: 11
75817 ACTATTATAT
75827 TATATATA-TA
1 TATATATAGTA
75837 TATATATA-T-
1 TATATATAGTA
75846 TATATCATA-TA
1 TATAT-ATAGTA
75857 TATATATAGTA
1 TATATATAGTA
*
75868 TATATGTAGTA
1 TATATATAGTA
75879 ATAAAAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
9 5 0.13
10 16 0.42
11 17 0.45
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (11 bp):
TATATATAGTA
Found at i:80374 original size:4 final size:4
Alignment explanation
Indices: 80365--80396 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
80355 CTCAAACACG
80365 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
80397 AGACATCATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:86477 original size:7 final size:7
Alignment explanation
Indices: 86465--86506 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
86455 TGTGTAAATA
86465 CTTTTTT
1 CTTTTTT
86472 CTTTTTT
1 CTTTTTT
86479 CTTTTTT
1 CTTTTTT
86486 C-TTTTT
1 CTTTTTT
86492 -TTTTTT
1 CTTTTTT
*
86498 CATTTTT
1 CTTTTTT
86505 CT
1 CT
86507 ATGTGATTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 10 0.32
7 21 0.68
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (7 bp):
CTTTTTT
Found at i:86484 original size:14 final size:13
Alignment explanation
Indices: 86465--86506 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
86455 TGTGTAAATA
86465 CTTTTTTCTTTTTT
1 CTTTTTTC-TTTTT
86479 CTTTTTTCTTTTT
1 CTTTTTTCTTTTT
86492 -TTTTTTCATTTTT
1 CTTTTTTC-TTTTT
86505 CT
1 CT
86507 ATGTGATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.27
13 10 0.38
14 9 0.35
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (13 bp):
CTTTTTTCTTTTT
Found at i:86495 original size:19 final size:20
Alignment explanation
Indices: 86467--86506 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
86457 TGTAAATACT
*
86467 TTTTTCTTTTTTCTTTTTTC
1 TTTTTCTTTTTTCATTTTTC
86487 TTTTT-TTTTTTCATTTTTC
1 TTTTTCTTTTTTCATTTTTC
86506 T
1 T
86507 ATGTGATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTCTTTTTTCATTTTTC
Found at i:94147 original size:2 final size:2
Alignment explanation
Indices: 94140--94167 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
94130 CTCATTACTT
94140 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
94168 ACACACACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:95316 original size:121 final size:121
Alignment explanation
Indices: 95097--95337 Score: 464
Period size: 121 Copynumber: 2.0 Consensus size: 121
95087 CCACTTTTTT
* *
95097 TTTTTAAAGCTCACAATTTAGGTCTATGGTGTTTGTTTCTATGACAAATTTACCATGTCGTGTAC
1 TTTTCAAAGCTCACAATTTAGGGCTATGGTGTTTGTTTCTATGACAAATTTACCATGTCGTGTAC
95162 TGATTTTGCAAAGTGCATGATCGTTTAAGTTTTTAAAGCTCACAATCTAGGAGGTA
66 TGATTTTGCAAAGTGCATGATCGTTTAAGTTTTTAAAGCTCACAATCTAGGAGGTA
95218 TTTTCAAAGCTCACAATTTAGGGCTATGGTGTTTGTTTCTATGACAAATTTACCATGTCGTGTAC
1 TTTTCAAAGCTCACAATTTAGGGCTATGGTGTTTGTTTCTATGACAAATTTACCATGTCGTGTAC
95283 TGATTTTGCAAAGTGCATGATCGTTTAAGTTTTTAAAGCTCACAATCTAGGAGGT
66 TGATTTTGCAAAGTGCATGATCGTTTAAGTTTTTAAAGCTCACAATCTAGGAGGT
95338 GTTTCTATGA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 118 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.39
Consensus pattern (121 bp):
TTTTCAAAGCTCACAATTTAGGGCTATGGTGTTTGTTTCTATGACAAATTTACCATGTCGTGTAC
TGATTTTGCAAAGTGCATGATCGTTTAAGTTTTTAAAGCTCACAATCTAGGAGGTA
Found at i:98363 original size:12 final size:12
Alignment explanation
Indices: 98346--98376 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
98336 GTGTGTGTGT
98346 GGGTGGGGGGGG
1 GGGTGGGGGGGG
98358 GGGTGGGGGGGG
1 GGGTGGGGGGGG
98370 GGG-GGGG
1 GGGTGGGG
98377 TTTGTTGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.00, C:0.00, G:0.94, T:0.06
Consensus pattern (12 bp):
GGGTGGGGGGGG
Found at i:98369 original size:16 final size:16
Alignment explanation
Indices: 98344--98377 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
98334 TCGTGTGTGT
*
98344 GTGGGTGGGGGGGGGG
1 GTGGGGGGGGGGGGGG
98360 GTGGGGGGGGGGGGGG
1 GTGGGGGGGGGGGGGG
98376 GT
1 GT
98378 TTGTTGAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.88, T:0.12
Consensus pattern (16 bp):
GTGGGGGGGGGGGGGG
Found at i:102930 original size:2 final size:2
Alignment explanation
Indices: 102918--102953 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
102908 CATGCTTCTT
102918 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
102954 TTGAGGGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:118312 original size:21 final size:21
Alignment explanation
Indices: 118269--118312 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
118259 AAAACGGGGG
* *
118269 TTGCTAGATACCGCCCTAGTT
1 TTGCTAAATACCGCCCTACTT
118290 TTGCTAAATACCGTCCC-ACTT
1 TTGCTAAATACCG-CCCTACTT
118311 TT
1 TT
118313 TACATTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (21 bp):
TTGCTAAATACCGCCCTACTT
Found at i:118400 original size:33 final size:33
Alignment explanation
Indices: 118358--118488 Score: 176
Period size: 33 Copynumber: 4.0 Consensus size: 33
118348 CTTTTACACT
*
118358 GAGCCTCCCCACTAGGACGGCTCAGCTACGGCG
1 GAGCCTCCCCACTAGGACGGCTCAGCCACGGCG
118391 GAGCCTCCCCACTAGGACGGCTCAGCCACGGCG
1 GAGCCTCCCCACTAGGACGGCTCAGCCACGGCG
* *
118424 GAGCCTCCCCACTAGGGA-GGCTCAACCACGGCA
1 GAGCCTCCCCACTA-GGACGGCTCAGCCACGGCG
* * *
118457 GAGCCTTCCCACTGGGGCGGCTTC-GCCACGGC
1 GAGCCTCCCCACTAGGACGGC-TCAGCCACGGC
118489 AAGCCGCCCA
Statistics
Matches: 88, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
32 2 0.02
33 81 0.92
34 5 0.06
ACGTcount: A:0.18, C:0.40, G:0.31, T:0.11
Consensus pattern (33 bp):
GAGCCTCCCCACTAGGACGGCTCAGCCACGGCG
Found at i:144524 original size:15 final size:15
Alignment explanation
Indices: 144506--144541 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
144496 AACGAGCATG
144506 CAGAAAACCACCAGC
1 CAGAAAACCACCAGC
*
144521 CAGAAAACCCCCAGC
1 CAGAAAACCACCAGC
144536 CA-AAAA
1 CAGAAAA
144542 AGCAGCTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.50, C:0.39, G:0.11, T:0.00
Consensus pattern (15 bp):
CAGAAAACCACCAGC
Found at i:147056 original size:9 final size:9
Alignment explanation
Indices: 147042--147067 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
147032 ATATGGTCTG
147042 CAGCAGCAA
1 CAGCAGCAA
147051 CAGCAGCAA
1 CAGCAGCAA
147060 CAGCAGCA
1 CAGCAGCA
147068 GAACATAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.35, G:0.23, T:0.00
Consensus pattern (9 bp):
CAGCAGCAA
Found at i:152537 original size:6 final size:6
Alignment explanation
Indices: 152526--152558 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
152516 ATGGAGTAGA
*
152526 TGACTC TGACTC TGACTC TGACTT TGACTC TGA
1 TGACTC TGACTC TGACTC TGACTC TGACTC TGA
152559 TGATGATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.36
Consensus pattern (6 bp):
TGACTC
Found at i:154519 original size:1 final size:1
Alignment explanation
Indices: 154513--154552 Score: 80
Period size: 1 Copynumber: 40.0 Consensus size: 1
154503 TTATAGATGG
154513 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
154553 AAACTTGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:158572 original size:6 final size:6
Alignment explanation
Indices: 158557--158588 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
158547 GCTTAACGCC
158557 AAAA-A AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
158589 TCGACGCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:160959 original size:1 final size:1
Alignment explanation
Indices: 160953--160988 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
160943 AGTATTCATC
160953 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
160989 CTGCTGTTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:161561 original size:2 final size:2
Alignment explanation
Indices: 161554--161581 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
161544 TGAAGGGATT
161554 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
161582 AATTTAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:174024 original size:2 final size:2
Alignment explanation
Indices: 174017--174051 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
174007 TCCTAGTAGA
174017 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
174052 TTTGGCTGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:178103 original size:327 final size:324
Alignment explanation
Indices: 176795--181514 Score: 3745
Period size: 322 Copynumber: 14.6 Consensus size: 324
176785 ACCCAATATT
* * * * *
176795 GCTGAGATTTGCTTAGATGAATATAGATATTTCAAAGAGTCTTT-ATGCCAAAAACCATGCAAAA
1 GCTGAGATTTGGTTCGATAAATATAGATATTTCAAAGAGTCTTTGCT-CCAAAAATCATGCAAAA
** * * *** * *
176859 CTGAATCGAGGCACCGAAACGCGTTTTTAGTTAAAAACCATGATGATGGTTAGTACCCGATTTCA
65 CTGAGCCGGGGCCCCGAAACGCGTTTTTAGCCCAAAACC--G-TGATGGATAGTACACGATTTCA
* * * *
176924 ACTAAAAACTGACCCGAAAA--ATTTTTCCTCAAATTTTTGCCACAATACTCAAAAAAATATATA
127 GCTAAAAACTGACCCGAAAATTATTTTTTCT-AATTTTTTGCCACAATACTCAGAAAAA-ATATA
* * ** *
176987 TAATTCAACACCAAAAAGATTGAA-GGGTGTTTCACGCTTCTAATATCGTTTTTCCATTTTTCCC
190 TAATTCAACGCTAAAAAGATTGAAGGGGT-TTTCACAATTCTAATATCGTTTTTCCATTTTTTCC
* * * *
177051 CCAATTAATTTCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAATAAAAAAAAAATCCTTAT
254 CAAATTAAATTCTAATTAAATCGAAACAAGATTCTGATGCTCG----TAAAAAACAAATCCTTAT
* *
177116 ATCTAATGTG
315 ATCCAAAGTG
* ** * * * * * *
177126 GTTGAGATTTTTTTCAATAAATATAGATATTTCAAGGATTTTTTGCGCCAAAAATCATTCAAAAC
1 GCTGAGATTTGGTTCGATAAATATAGATATTTCAAAGAGTCTTTGCTCCAAAAATCATGCAAAAC
* * * * * * *
177191 TGACCCGGGGTCTCGAAACGCGTTTTTTGCCCAAAAACCGTGATGGTTATTACACAATTTCGGCT
66 TGAGCCGGGGCCCCGAAACGCGTTTTTAGCCC-AAAACCGTGATGGATAGTACACGATTT---C-
* * * **
177256 AAGATTTTGCAAAAACTGACCCAAAAATGATTTCATC-AATTTTTTGCCACAATACTCAGAAAAA
126 -AG---CT--AAAAACTGACCCGAAAATTATTTTTTCTAATTTTTTGCCACAATACTCAGAAAAA
* * * * *
177320 ATATATAAGTCAATG-TAAAAAAATTGAAGGGTTTTTCACGATTCTAATATCGTTTTTCCATTTT
185 ATATATAATTCAACGCTAAAAAGATTGAAGGGGTTTTCACAATTCTAATATCGTTTTTCCATTTT
* * * * * **
177384 TTCCCGAATTGATTTCTAATTAAATCTAAATAAGATTC-GATTGCTTTTAAAAAACAAATCCTTA
250 TTCCCAAATTAAATTCTAATTAAATCGAAACAAGATTCTGA-TGCTCGTAAAAAACAAATCCTTA
*
177448 TATCCAATGTG
314 TATCCAAAGTG
* * *
177459 GCTGAGATTTGGTTCGATGAATATGGATATTTCAAAGAGTCTTTGCGCCAAAAATCATGCAAAAC
1 GCTGAGATTTGGTTCGATAAATATAGATATTTCAAAGAGTCTTTGCTCCAAAAATCATGCAAAAC
* * *
177524 TGGGTCGGGGCCCCGAAACGCGTTTTTAGCCCAAAACCGAGATGGATAGTACACGATTTCAGCTA
66 TGAGCCGGGGCCCCGAAACGCGTTTTTAGCCCAAAACCGTGATGGATAGTACACGATTTCAGCTA
* *
177589 AAAACTGACACG-AAATTTTTTTTTCTAATTTTTATGCCACAATACTCAGAAAAAATATATAATT
131 AAAACTGACCCGAAAATTATTTTTTCTAATTTTT-TGCCACAATACTCAGAAAAAATATATAATT
* * * * * * * *
177653 CAACGTTATAAATATTGAAGGAGTTCTCACACTTCGAATA--G------C-GTTTTT-CCAAATT
195 CAACGCTAAAAAGATTGAAGGGGTTTTCACAATTCTAATATCGTTTTTCCATTTTTTCCCAAATT
* *
177708 AAAATCTAATTAAATCGAAACAAGATTCTGATGCTCGT-AAAAACAAATTCTTATATCCAAAGTG
260 AAATTCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAAACAAATCCTTATATCCAAAGTG
* *
177772 GCTGAGATTTGGTTCGATAAATATAAATATTTGAAAGAGTCTTTGCTCCAAAAAATCATGCAAAA
1 GCTGAGATTTGGTTCGATAAATATAGATATTTCAAAGAGTCTTTGCTCC-AAAAATCATGCAAAA
*
177837 TTGAGCCGGGGCCCCGAAACGCGTTTCTT-GCCCAAAACCGTGATGGATAGTACACGATTTCAGC
65 CTGAGCCGGGGCCCCGAAACGCGTTT-TTAGCCCAAAACCGTGATGGATAGTACACGATTTCAGC
*
177901 TAAAAACTGACCCGAAATATTATTTTTTTCTAATTTTTATGACC-CAATACACAGAAAAAATATA
129 TAAAAACTGACCCGAAA-ATTA-TTTTTTCTAATTTTT-TG-CCACAATACTCAGAAAAAATATA
* *
177965 TAATTCAACGCTATAAAGATTGAAGGGGTTTTCACAATTCTAATATCGTTTTTCCATTTTTTTCC
190 TAATTCAACGCTAAAAAGATTGAAGGGGTTTTCACAATTCTAATATCGTTTTTCCATTTTTTCCC
*
178030 AAATTAAAATT-TAATTAAATCGAAACAAGATTCTGATGCTCGT-AAAAACAAATTCTTATATCC
255 AAATT-AAATTCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAAACAAATCCTTATATCC
178093 AAAGTG
319 AAAGTG
* * *
178099 GCTGAGATTTGGTTCGATAAATATAGATATTTGAAAGAGTCTTTGCTCCAAAAACCATTCAAAAC
1 GCTGAGATTTGGTTCGATAAATATAGATATTTCAAAGAGTCTTTGCTCCAAAAATCATGCAAAAC
* ** ** ** **
178164 TGA-CGCGAGGCCCCGAAACGCGCTCTACACGATTTCAGCTAAAAACTAACCCGAAAT-TTTTTT
66 TGAGC-CGGGGCCCCGAAACGCG-T-T------TTT-AGC--CCAA--AA-CCGTGATGGATAGT
* * * * * * * * * ** * * * *
178227 TCTAC-TTTTTATGC-CATAA-T-ACTCAGAAAA--A--ATATATAATTCATCGCTATAA-AGAT
116 AC-ACGATTTCA-GCTAAAAACTGAC-CCGAAAATTATTTTTTCTAATTTTTTGCCACAATA-CT
* *** *** * * * **
178283 -TG--AAGGGAT-T--TTC-ACGCT-TCTA-A-T-AA-CGTTTTTC-C-ATT-T--TTTCAG-AA
177 CAGAAAAAATATATAATTCAACGCTAAAAAGATTGAAGGGGTTTTCACAATTCTAATATC-GTTT
*** * * ** * * *
178330 TT--A--AAAT--CTAATTAAA-TCGAA--ACAA--GATTCTA-A-TG-----CTCG--AAATAC
241 TTCCATTTTTTCCCAAATTAAATTCTAATTA-AATCGAAACAAGATTCTGATGCTCGTAAAAAAC
178375 AAATTCC-TATATCCAAAGTG
305 AAA-TCCTTATATCCAAAGTG
* *
178395 GCTGAGATTTGGTTCGATGAATATAGATATTTAAAAGAGTCTTTGCTCCAAAAATCATTG-AAAA
1 GCTGAGATTTGGTTCGATAAATATAGATATTTCAAAGAGTCTTTGCTCCAAAAATCA-TGCAAAA
* * * *
178459 CTAAGCCGGGGCCCCGAAACGCGTTTTTTGCCCAAAAACCGTGATGGTTAGTACACGATTTCGGC
65 CTGAGCCGGGGCCCCGAAACGCGTTTTTAGCCC-AAAACCGTGATGGATAGTACACGATTTCAGC
* *
178524 TAAAAGCTGACCCGAAAATTGA--TTTTCAAATTTTTATGCCACAATACTCAGAAAAAATATATA
129 TAAAAACTGACCCGAAAATT-ATTTTTTCTAATTTTT-TGCCACAATACTCAGAAAAAATATATA
* * * * * *
178587 ATTCATCGCTATAAAGATTGAAGGGATTTTCACACTTCTAATACCGTTTTTCCA-TTTTT-CCGA
192 ATTCAACGCTAAAAAGATTGAAGGGGTTTTCACAATTCTAATATCGTTTTTCCATTTTTTCCCAA
* * * *
178650 ATTAAAATCTAATTAAATCGAAACAACATTCAGATGCTCGTAAAAAA-AAAT--TTATATCCAAT
257 ATTAAATTCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAAACAAATCCTTATATCCAAA
178712 GTG
322 GTG
* * * * * * *
178715 GTTGAGATTTGTTTCAATACATATAGATATTTCAAGGAGTCTTTGCACCAAAAATTATGCAAAAC
1 GCTGAGATTTGGTTCGATAAATATAGATATTTCAAAGAGTCTTTGCTCCAAAAATCATGCAAAAC
*** * * * * * *
178780 TGAGCCGGGAATCCGGAACGCGTTTTTCGACAAAAACCATGATGGTTAGTACACGATTTTGGCTA
66 TGAGCCGGGGCCCCGAAACGCGTTTTTAGCCCAAAACCGTGATGGATAGTACACGA-TTT--C--
** * * * ** * * *
178845 AAATTTTTCAAAAACCGATCCGAAAAGT-TTTCAT-TAAGTTTTCGCCACAATAATCAGAAAAAA
126 --A--GCT-AAAAACTGACCCGAAAATTATTTTTTCTAATTTTTTGCCACAATACTCAG-AAAAA
* * * *** * *
178908 ATATATAACTCAGA-G-TAAAAAAATTGAAGGGTTTTTCAGGCTACTAATATTGTTTTTCCA-TT
185 ATATATAATTCA-ACGCTAAAAAGATTGAAGGGGTTTTCACAATTCTAATATCGTTTTTCCATTT
** * * * * * *
178970 TTTCCCGTATTGATTTCTAATTAAATCTAAATAAGATTCAGATGCTTGT-AAAAACAAATCCTTA
249 TTTCCCAAATTAAATTCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAAACAAATCCTTA
*
179034 TATCCAATGTG
314 TATCCAAAGTG
* * * *
179045 GCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTACGT-CAAAAATCATGCGAAA
1 GCTGAGATTTGGTTCGATAAATATAGATATTTCAAAGAGTCTTTGC-TCCAAAAATCATGCAAAA
*
179109 CTGAGCCGGGGCCACAAAACCGAAACGCGTTTTTAGCTCAAAACCGTGATGGATAGTACACGATT
65 CTGAGCCGGGG-C-C----CCGAAACGCGTTTTTAGCCCAAAACCGTGATGGATAGTACACGATT
* *
179174 TCAGCTAAAAACTGACCCG-AATTTTTTTTTTCTAATTTTTATGCCACAATACTCAGAAAAAATA
124 TCAGCTAAAAACTGACCCGAAAATTATTTTTTCTAATTTTT-TGCCACAATACTCAGAAAAAATA
* * * ** * *
179238 TATATTTCAACGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTCCCATTTTTT-
188 TATAATTCAACGCTAAAAAGATTGAAGGGGTTTTCACAATTCTAATATCGTTTTTCCATTTTTTC
* * * * *
179302 -CAGAATTAAAATCAAATTAAATCGAAACAAGAATCTGATGCTCGT-AAAAACAAATTCTTATCT
253 CCA-AATTAAATTCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAAACAAATCCTTATAT
179365 CCAAAGTG
317 CCAAAGTG
* * * *
179373 GCTGAGATTTGGTTCGATAAATATAGATATTTGAAAGAGTATTTGATCCAAAAATCATGAAAAAC
1 GCTGAGATTTGGTTCGATAAATATAGATATTTCAAAGAGTCTTTGCTCCAAAAATCATGCAAAAC
* * * * *
179438 TGAGCCAGGGCCCCGAAACGCGTTTTTTGCCGAAAAACCGTGATGGTTAGTACACGATTTCGGCT
66 TGAGCCGGGGCCCCGAAACGCGTTTTTAGCC-CAAAACCGTGATGGATAGTACACGATTTCAGCT
* * * *
179503 AAAAACTTATCCG--AATTTTTTTTTCTAATTTTTATGCCACAATACTCAGAAAAAATATAGAAT
130 AAAAACTGACCCGAAAATTATTTTTTCTAATTTTT-TGCCACAATACTCAGAAAAAATATATAAT
* * * ** * *
179566 TCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCCA-TTTTT-CCGAAT
194 TCAACGCTAAAAAGATTGAAGGGGTTTTCACAATTCTAATATCGTTTTTCCATTTTTTCCCAAAT
* *
179629 TAAAATCTAATTAAATCGAAACAAGATTCAGATGCTCGT-AAAAA-AAAT--TTCATATCCAATG
259 TAAATTCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAAACAAATCCTT-ATATCCAA--
*
179690 TGGTTG
321 -AG-TG
* * * * * *
179696 AGATTGAGATTTGTTTCAATACATATAGATATTT-AAAGAAGTCTTTGCACCAAAAATTATGCAA
1 -G-CTGAGATTTGGTTCGATAAATATAGATATTTCAAAG-AGTCTTTGCTCCAAAAATCATGCAA
* ** * * *
179760 AATTGAGCCGGGAATCCGGAAAC-CGTTTTTCGCCAAAAACCGTGAT-G---GTACACGATTTTG
63 AACTGAGCCGGG-GCCCCGAAACGCGTTTTTAGCCCAAAACCGTGATGGATAGTACACGA-TTT-
** * * ** * * *
179820 GCTAAAATTTTTCAAAAACCGACCCGAAAAGT-TTTCATC-AAGTTTTCGCCACAATAATCAGAA
125 -C----A--GCT-AAAAACTGACCCGAAAATTATTTTTTCTAATTTTTTGCCACAATACTCAGAA
* * ** *
179883 AAAATATATAATTCAAAG-TAAAAA-ATTGAAGGGATTTTCACGCTTCTAATAACGTTTTTCCAT
182 AAAATATATAATTCAACGCTAAAAAGATTGAAGGGGTTTTCACAATTCTAATATCGTTTTTCCAT
* * * *
179946 TTTTT-CCGAATTAAAATCTAATTAAATCGAAACAAGATT-TAGATGCTTGT-AAAAA-AAAT-T
247 TTTTTCCCAAATTAAATTCTAATTAAATCGAAACAAGATTCT-GATGCTCGTAAAAAACAAATCC
*
180006 TTATATCCAATGTGGTTG
311 TTATATCCAA---AG-TG
* * * * * *
180024 AGATTGAGATTTGTTTCAATACATATAGATATTTC-AAGAAGTCTTTGCACCAAAAATTATGCAA
1 -G-CTGAGATTTGGTTCGATAAATATAGATATTTCAAAG-AGTCTTTGCTCCAAAAATCATGCAA
* * *** * * * * ** *
180088 AATTGAGCCGAGAATCCGGAATGCGTATTTCGCTAAAAACCGTGATGGTTAGTACACGATTTCAG
63 AACTGAGCCGGGGCCCCGAAACGCGTTTTTAGCCCAAAACCGTGATGGATAGTACACGATTTCAG
* * *
180153 CCAAAAACTGATCCGAAATATTATTTTTTTCTAATTTTTATGACACAATACTCAGAAAAAATATA
128 CTAAAAACTGACCCGAAA-ATTA-TTTTTTCTAATTTTT-TGCCACAATACTCAGAAAAAATATA
* * * ** * *
180218 TAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATATTGTTTTCCCATTTTTT--C
190 TAATTCAACGCTAAAAAGATTGAAGGGGTTTTCACAATTCTAATATCGTTTTTCCATTTTTTCCC
* * *
180281 AGAATTAAAATCTAATTACATCGAAAAAAGATTCTGATGCTCGTAAAAAA-AAATTCC-TATATC
255 A-AATTAAATTCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAAACAAA-TCCTTATATC
180344 CAAAGTG
318 CAAAGTG
* * * * *
180351 GCTGAGATTTGGTTTGATGAATATAGATACTTGAAAGAGTCTTTGCTCCAAAAATCATGCAACAC
1 GCTGAGATTTGGTTCGATAAATATAGATATTTCAAAGAGTCTTTGCTCCAAAAATCATGCAAAAC
* * *
180416 TGAGCCGGGGCCCCGAAACGCGTTTTTTGCCCAAAAACCGTGATGGTTAGTACACGATTTCGGCT
66 TGAGCCGGGGCCCCGAAACGCGTTTTTAGCCC-AAAACCGTGATGGATAGTACACGATTTCAGCT
* * *
180481 AAAAACTAATCCG-AAATT-TTTTTTCTAATTTTTATGCCACAATACTCAGAAAAAATATACAAT
130 AAAAACTGACCCGAAAATTATTTTTTCTAATTTTT-TGCCACAATACTCAGAAAAAATATATAAT
* * * * ** * *
180544 TCATCTCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCCATTTTTT-CCGAAT
194 TCAACGCTAAAAAGATTGAAGGGGTTTTCACAATTCTAATATCGTTTTTCCATTTTTTCCCAAAT
* * * * *
180608 TAAAATCTAATTAAATCGAAACAAGATTCAGATACTCGT--AAAA-AAAT-TTTATATCCAATGT
259 TAAATTCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAAACAAATCCTTATATCCAAAGT
180669 G
324 G
* * * * * * * * *
180670 GTTGAGATTTGTTTCAATACATATAGATATTTC-AAGAAGTTTTTGCACAAAAAATTAGGCAAAA
1 GCTGAGATTTGGTTCGATAAATATAGATATTTCAAAG-AGTCTTTGCTCCAAAAATCATGCAAAA
* **** * ** * * * *
180734 TTGAGCCGGGAAAACGGAATTCGTTTTTCGCCAAAAACCGTGATGGTTAGTACATGATTTCAGCT
65 CTGAGCCGGGGCCCCGAAACGCGTTTTTAGCCCAAAACCGTGATGGATAGTACACGATTTCAGCT
* * * * * * * *
180799 AAAAACTGACCTGAAATTTTTTTTTTTCCTAATTTTTATGCTACATTGCTCAGAAAAAATTTACA
130 AAAAACTGACCCGAAA-ATTATTTTTT-CTAATTTTT-TGCCACAATACTCAGAAAAAATATATA
* * ** *
180864 ATTCATCGCTATAAAGATTGAAGGGGTTTTCACGCTTCTGAA-ACCGTTTTTCCATTTTTT-CCA
192 ATTCAACGCTAAAAAGATTGAAGGGGTTTTCACAATTCT-AATATCGTTTTTCCATTTTTTCCCA
* *
180927 AATTAAAATCTAATTAAATCGAAACAAGATTCTGATGCTCGT-AAAAACAAATTCTTATATCCAA
256 AATTAAATTCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAAACAAATCCTTATATCCAA
180991 AGTG
321 AGTG
* * *
180995 GCTGAGATTTGGTTCGATGAATATAGATATTTGAAAGTGTCTTTGCTCCAAAAATCATGCAAAAC
1 GCTGAGATTTGGTTCGATAAATATAGATATTTCAAAGAGTCTTTGCTCCAAAAATCATGCAAAAC
* * * * * *
181060 TTAGCCAGGGCCCCGAAACGCGTTTTTTGCCCAAAAACCTTGATTGATAGTACACGATTTCGGCT
66 TGAGCCGGGGCCCCGAAACGCGTTTTTAGCCC-AAAACCGTGATGGATAGTACACGATTTCAGCT
* *
181125 AAAAACTTACCC-AAAAATATTTTTTCTAATTTTTATGCCACAATACTCAGAAAAAATATATAAT
130 AAAAACTGACCCGAAAATTATTTTTTCTAATTTTT-TGCCACAATACTCAGAAAAAATATATAAT
* * * * ** * * * *
181189 TCATCGCTATAAAGATTGAAAGGATTTTCACGCTTCTAATACCGGTTTCCCATTTTTT-CAAAAT
194 TCAACGCTAAAAAGATTGAAGGGGTTTTCACAATTCTAATATCGTTTTTCCATTTTTTCCCAAAT
* * **
181253 TAAAATCTAATTAAATCGAAACAAGATTCTAATGCTCGT-AAAAAC-AATTGTTATATCCAAAGT
259 TAAATTCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAAACAAATCCTTATATCCAAAGT
181316 G
324 G
* ** * * *
181317 GCTGAGATTTGGTTCGATGAATATAGATATTTTTAAGAGTCTTTGCTTCAAAAATCAGGCACAAC
1 GCTGAGATTTGGTTCGATAAATATAGATATTTCAAAGAGTCTTTGCTCCAAAAATCATGCAAAAC
* * * *
181382 TGAGCCGGGGCCCCGAAACGCGTTTTTTGCCAAAAAACCGTGATGGTTAGTACACGATTTCGGCT
66 TGAGCCGGGGCCCCGAAACGCGTTTTTAGCC-CAAAACCGTGATGGATAGTACACGATTTCAGCT
* * * * * *
181447 AAAAATTGATCCG-TAATTTTTTTTTCTAATTTTTATGTCACAAAACTCAAGAAAAAATATATAA
130 AAAAACTGACCCGAAAATTATTTTTTCTAATTTTT-TGCCACAATACTC-AGAAAAAATATATAA
181511 TTCA
193 TTCA
181515 TCCTATAAAG
Statistics
Matches: 3613, Mismatches: 567, Indels: 426
0.78 0.12 0.09
Matches are distributed among these distances:
283 9 0.00
284 11 0.00
285 7 0.00
286 4 0.00
287 2 0.00
288 11 0.00
289 6 0.00
290 2 0.00
292 4 0.00
293 1 0.00
294 1 0.00
295 4 0.00
296 102 0.03
297 10 0.00
298 1 0.00
299 1 0.00
300 2 0.00
301 6 0.00
302 2 0.00
303 3 0.00
304 5 0.00
305 2 0.00
306 7 0.00
307 5 0.00
308 6 0.00
309 1 0.00
310 9 0.00
311 4 0.00
312 3 0.00
313 69 0.02
314 128 0.04
315 13 0.00
316 6 0.00
317 79 0.02
318 48 0.01
319 123 0.03
320 115 0.03
321 73 0.02
322 595 0.16
323 246 0.07
324 63 0.02
325 238 0.07
326 153 0.04
327 278 0.08
328 422 0.12
329 154 0.04
330 107 0.03
331 94 0.03
332 49 0.01
333 110 0.03
334 2 0.00
335 6 0.00
336 39 0.01
337 84 0.02
338 21 0.01
339 53 0.01
340 9 0.00
341 5 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (324 bp):
GCTGAGATTTGGTTCGATAAATATAGATATTTCAAAGAGTCTTTGCTCCAAAAATCATGCAAAAC
TGAGCCGGGGCCCCGAAACGCGTTTTTAGCCCAAAACCGTGATGGATAGTACACGATTTCAGCTA
AAAACTGACCCGAAAATTATTTTTTCTAATTTTTTGCCACAATACTCAGAAAAAATATATAATTC
AACGCTAAAAAGATTGAAGGGGTTTTCACAATTCTAATATCGTTTTTCCATTTTTTCCCAAATTA
AATTCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAAACAAATCCTTATATCCAAAGTG
Found at i:179594 original size:322 final size:318
Alignment explanation
Indices: 178189--181526 Score: 3756
Period size: 322 Copynumber: 10.3 Consensus size: 318
178179 AAACGCGCTC
* * * * *
178189 TACACGATTTCAGCTAAAAACTAACCCGAAATTTTTTTTCTACTTTTTATGCCATAATACTCAGA
1 TACACGATTTCGGCTAAAAACTGATCCGAAATTTTTTTTCTAATTTTTATGCCACAATACTCAGA
*
178254 AAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATAACGTTTTTCCA
66 AAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCCA
* * *
178319 TTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTAATGCTCG-AAATACAAATTCCT
131 TTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATTCTT
* *
178383 ATATCCAAAGTGGCTGAGATTTGGTTCGATGAATATAGATATTTAAAAGAGTCTTTGCTCCAAAA
196 ATATCCAAAGTGGCTGAGATTTGGTTCGATAAATATAGATATTT-AAAGAGTCTTTG-ACCAAAA
*
178448 ATCATTG-AAAACTAAGCCGGGGCCCCGAAACGCGTTTTTTGCCCAAAAACCGTGATGGTTAG
259 ATCA-TGCAAAACTGAGCC-GGGCCCCGAAACGCGTTTTTTG-CCAAAAACCGTGATGGTTAG
* * ** *
178510 TACACGATTTCGGCTAAAAGCTGACCCGAAAATTGATTTTCAAATTTTTATGCCACAATACTCAG
1 TACACGATTTCGGCTAAAAACTGATCCG-AAATTTTTTTTCTAATTTTTATGCCACAATACTCAG
*
178575 AAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACACTTCTAATACCGTTTTTCC
65 AAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCC
* * * *
178640 A-TTTTTCCGAATTAAAATCTAATTAAATCGAAACAACATTCAGATGCTCGTAAAAA-AAAAT-T
130 ATTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATTCT
* * * * * *
178702 TATATCCAATGTGGTTGAGATTTGTTTCAATACATATAGATATTTCAAGGAGTCTTTGCACCAAA
195 TATATCCAAAGTGGCTGAGATTTGGTTCGATAAATATAGATATTT-AAAGAGTCTTTG-ACCAAA
* ** * * * *
178767 AATTATGCAAAACTGAGCCGGGAATCCGGAACGCGTTTTTCGACAAAAACCATGATGGTTAG
258 AATCATGCAAAACTGAGCCGGG-CCCCGAAACGCGTTTTTTGCCAAAAACCGTGATGGTTAG
* * * ** * *
178829 TACACGATTTTGGCTAAAATTTTTCAAAAACCGATCCGAAAAGTTTTCAT-TAAGTTTT-CGCCA
1 TACACGATTTCGGC---------T-AAAAACTGATCCG-AAATTTTTTTTCTAATTTTTATGCCA
* * ** * * * * *
178892 CAATAATCAGAAAAAAATATATAACTCAGAG-TAAAAAAATTGAAGGGTTTTTCAGGCTACTAAT
55 CAATACTCAG-AAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAAT
** * * * * ** * * * *
178956 ATTGTTTTTCCATTTTTCCCGTATTGATTTCTAATTAAATCTAAATAAGATTCAGATGCTTGTAA
119 ACCGTTTTTCCATTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTGATGCTCGTAA
* * * *
179021 AAACAAATCCTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTC
184 AAACAAATTCTTATATCCAAAGTGGCTGAGATTTGGTTCGATAAATATAGATATTT-AAAGAGTC
* *
179086 TTT-ACGTCAAAAATCATGCGAAACTGAGCCGGGGCCACAAAACCGAAACGCGTTTTTAGCTC-A
248 TTTGAC--CAAAAATCATGCAAAACTGAGCC-GGG-C-C----CCGAAACGCGTTTTTTGC-CAA
*
179149 AAACCGTGATGGATAG
303 AAACCGTGATGGTTAG
* * *
179165 TACACGATTTCAGCTAAAAACTGACCCGAATTTTTTTTTTCTAATTTTTATGCCACAATACTCAG
1 TACACGATTTCGGCTAAAAACTGATCCGAA-ATTTTTTTTCTAATTTTTATGCCACAATACTCAG
* * *
179230 AAAAAATATATATTTCAACGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTCCC
65 AAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCC
* *
179295 ATTTTTTCAGAATTAAAATCAAATTAAATCGAAACAAGAATCTGATGCTCGTAAAAACAAATTCT
130 ATTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATTCT
* *
179360 TATCTCCAAAGTGGCTGAGATTTGGTTCGATAAATATAGATATTTGAAAGAGTATTTGATCCAAA
195 TATATCCAAAGTGGCTGAGATTTGGTTCGATAAATATAGATATTT-AAAGAGTCTTTGA-CCAAA
*
179425 AATCATGAAAAACTGAGCCAGGGCCCCGAAACGCGTTTTTTGCCGAAAAACCGTGATGGTTAG
258 AATCATGCAAAACTGAGCC-GGGCCCCGAAACGCGTTTTTTGCC-AAAAACCGTGATGGTTAG
* *
179488 TACACGATTTCGGCTAAAAACTTATCCGAATTTTTTTTTCTAATTTTTATGCCACAATACTCAGA
1 TACACGATTTCGGCTAAAAACTGATCCGAAATTTTTTTTCTAATTTTTATGCCACAATACTCAGA
*
179553 AAAAATATAGAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCCA
66 AAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCCA
* * *
179618 -TTTTTCCGAATTAAAATCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAA-AAATT-TC
131 TTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATTCTT
* * * * *
179680 ATATCCAATGTGGTTGAGATTGAGATTTGTTTCAATACATATAGATATTTAAAGAAGTCTTTGCA
196 ATATCCAA---AG-TG-G-CTGAGATTTGGTTCGATAAATATAGATATTTAAAG-AGTCTTTG-A
* * * * *
179745 CCAAAAATTATGCAAAATTGAGCCGGGAATCCGGAAAC-CGTTTTTCGCCAAAAACCGTGAT-G-
253 CCAAAAATCATGCAAAACTGAGCCGGG--CCCCGAAACGCGTTTTTTGCCAAAAACCGTGATGGT
179807 --G
316 TAG
* * * * ** * *
179808 TACACGATTTTGGCTAAAATTTTTCAAAAACCGACCCGAAAAGTTTTCATC-AAGTTTT-CGCCA
1 TACACGATTTCGGC---------T-AAAAACTGATCCG-AAATTTTTTTTCTAATTTTTATGCCA
* ** *
179871 CAATAATCAGAAAAAATATATAATTCAAAG-TA-AAAAATTGAAGGGATTTTCACGCTTCTAATA
55 CAATACTCAGAAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATA
* * *
179934 ACGTTTTTCCATTTTTTCCGAATTAAAATCTAATTAAATCGAAACAAGATT-TAGATGCTTGTAA
120 CCGTTTTTCCATTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCT-GATGCTCGTAA
* * * * * *
179998 AAA-AAATT-TTATATCCAATGTGGTTGAGATTGAGATTTGTTTCAATACATATAGATATTTCAA
184 AAACAAATTCTTATATCCAA---AG-TG-G-CTGAGATTTGGTTCGATAAATATAGATATTTAAA
* * *** * * * * *
180061 GAAGTCTTTGCACCAAAAATTATGCAAAATTGAGCCGAGAATCCGGAATGCGTATTTCGCTAAAA
243 G-AGTCTTTG-ACCAAAAATCATGCAAAACTGAGCCG-GGCCCCGAAACGCGTTTTTTGCCAAAA
180126 ACCGTGATGGTTAG
305 ACCGTGATGGTTAG
* * *
180140 TACACGATTTCAGCCAAAAACTGATCCGAAATATTATTTTTTTCTAATTTTTATGACACAATACT
1 TACACGATTTCGGCTAAAAACTGATCCG-AA-A-T-TTTTTTTCTAATTTTTATGCCACAATACT
**
180205 CAGAAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATATTGTTTT
62 CAGAAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTT
* * * *
180270 CCCATTTTTTCAGAATTAAAATCTAATTACATCGAAAAAAGATTCTGATGCTCGTAAAAAAAAAT
127 TCCATTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAAT
* * * * *
180335 TCCTATATCCAAAGTGGCTGAGATTTGGTTTGATGAATATAGATACTTGAAAGAGTCTTTGCTCC
192 TCTTATATCCAAAGTGGCTGAGATTTGGTTCGATAAATATAGATA-TTTAAAGAGTCTTTG-ACC
*
180400 AAAAATCATGCAACACTGAGCCGGGGCCCCGAAACGCGTTTTTTGCCCAAAAACCGTGATGGTTA
255 AAAAATCATGCAAAACTGAGCC-GGGCCCCGAAACGCGTTTTTTG-CCAAAAACCGTGATGGTTA
180465 G
318 G
*
180466 TACACGATTTCGGCTAAAAACTAATCCGAAATTTTTTTTCTAATTTTTATGCCACAATACTCAGA
1 TACACGATTTCGGCTAAAAACTGATCCGAAATTTTTTTTCTAATTTTTATGCCACAATACTCAGA
* *
180531 AAAAATATACAATTCATCTCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCCA
66 AAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCCA
* * *
180596 TTTTTTCCGAATTAAAATCTAATTAAATCGAAACAAGATTCAGATACTCGT-AAAA-AAATT-TT
131 TTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATTCTT
* * * * * * * *
180658 ATATCCAATGTGGTTGAGATTTGTTTCAATACATATAGATATTTCAAGAAGTTTTTGCACAAAAA
196 ATATCCAAAGTGGCTGAGATTTGGTTCGATAAATATAGATATTTAAAG-AGTCTTTG-ACCAAAA
* * * *** * ** *
180723 ATTAGGCAAAATTGAGCCGGGAAAACGGAATTCGTTTTTCGCCAAAAACCGTGATGGTTAG
259 ATCATGCAAAACTGAGCCGGG-CCCCGAAACGCGTTTTTTGCCAAAAACCGTGATGGTTAG
* * * * *
180784 TACATGATTTCAGCTAAAAACTGA-CCTGAAATTTTTTTTTTTCCTAATTTTTATGCTACATTGC
1 TACACGATTTCGGCTAAAAACTGATCC-GAAA---TTTTTTTT-CTAATTTTTATGCCACAATAC
* * *
180848 TCAGAAAAAATTTACAATTCATCGCTATAAAGATTGAAGGGGTTTTCACGCTTCTGAA-ACCGTT
61 TCAGAAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCT-AATACCGTT
180912 TTTCCATTTTTTCCA-AATTAAAATCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAACA
125 TTTCCATTTTTT-CAGAATTAAAATCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAACA
* *
180976 AATTCTTATATCCAAAGTGGCTGAGATTTGGTTCGATGAATATAGATATTTGAAAGTGTCTTTGC
189 AATTCTTATATCCAAAGTGGCTGAGATTTGGTTCGATAAATATAGATATTT-AAAGAGTCTTTG-
* * * *
181041 TCCAAAAATCATGCAAAACTTAGCCAGGGCCCCGAAACGCGTTTTTTGCCCAAAAACCTTGATTG
252 ACCAAAAATCATGCAAAACTGAGCC-GGGCCCCGAAACGCGTTTTTTG-CCAAAAACCGTGATGG
*
181106 ATAG
315 TTAG
* * * *
181110 TACACGATTTCGGCTAAAAACTTACCCAAAAATATTTTTTCTAATTTTTATGCCACAATACTCAG
1 TACACGATTTCGGCTAAAAACTGATCC-GAAATTTTTTTTCTAATTTTTATGCCACAATACTCAG
* * *
181175 AAAAAATATATAATTCATCGCTATAAAGATTGAAAGGATTTTCACGCTTCTAATACCGGTTTCCC
65 AAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCC
* * *
181240 ATTTTTTCAAAATTAAAATCTAATTAAATCGAAACAAGATTCTAATGCTCGTAAAAAC-AATTGT
130 ATTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATTCT
* *
181304 TATATCCAAAGTGGCTGAGATTTGGTTCGATGAATATAGATATTTTTAAGAGTCTTTG-CTTCAA
195 TATATCCAAAGTGGCTGAGATTTGGTTCGATAAATATAGATA-TTTAAAGAGTCTTTGAC--CAA
* *
181368 AAATCAGGCACAACTGAGCCGGGGCCCCGAAACGCGTTTTTTGCCAAAAAACCGTGATGGTTAG
257 AAATCATGCAAAACTGAGCC-GGGCCCCGAAACGCGTTTTTTGCC-AAAAACCGTGATGGTTAG
* * * *
181432 TACACGATTTCGGCTAAAAATTGATCCGTAATTTTTTTTTCTAATTTTTATGTCACAAAACTCAA
1 TACACGATTTCGGCTAAAAACTGATCCG-AAATTTTTTTTCTAATTTTTATGCCACAATACTC-A
181497 GAAAAAATATATAATTCATC-CTATAAAGAT
64 GAAAAAATATATAATTCATCGCTATAAAGAT
Statistics
Matches: 2579, Mismatches: 337, Indels: 201
0.83 0.11 0.06
Matches are distributed among these distances:
317 2 0.00
318 53 0.02
319 118 0.05
320 110 0.04
321 140 0.05
322 675 0.26
323 211 0.08
324 33 0.01
325 219 0.08
326 126 0.05
327 156 0.06
328 421 0.16
329 142 0.06
330 97 0.04
331 20 0.01
332 13 0.01
336 42 0.02
337 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (318 bp):
TACACGATTTCGGCTAAAAACTGATCCGAAATTTTTTTTCTAATTTTTATGCCACAATACTCAGA
AAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCCA
TTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTGATGCTCGTAAAAACAAATTCTT
ATATCCAAAGTGGCTGAGATTTGGTTCGATAAATATAGATATTTAAAGAGTCTTTGACCAAAAAT
CATGCAAAACTGAGCCGGGCCCCGAAACGCGTTTTTTGCCAAAAACCGTGATGGTTAG
Found at i:180287 original size:978 final size:965
Alignment explanation
Indices: 178189--181526 Score: 4647
Period size: 978 Copynumber: 3.4 Consensus size: 965
178179 AAACGCGCTC
* * *
178189 TACACGATTTCAGCTAAAAACTAACCCGAAA-TTTTTTTTCTACTTTTTATGCCATAATACTCAG
1 TACACGATTTCAGCTAAAAACTGACCCGAAATTTTTTTTTCTAATTTTTATGCCACAATACTCAG
* *
178253 AAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATAACGTTTTTCC
66 AAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTCCC
*
178318 ATTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTAATGCTCG-AAATACAAATTCC
131 ATTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTAATGCTCGTAAAAACAAATTCC
*
178382 TATATCCAAAGTGGCTGAGATTTGGTTCGATGAATATAGATATTTAAAAGAGTCTTTGCTCCAAA
196 TATATCCAAAGTGGCTGAGATTTGGTTCGATGAATATAGATATTTGAAAGAGTCTTTGCTCCAAA
*
178447 AATCATTG-AAAACTAAGCCGGGGCCCCGAAACGCGTTTTTTGCCCAAAAACCGTGATGGTTAGT
261 AATCA-TGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTTGCCCAAAAACCGTGATGGTTAGT
* * * ** *
178511 ACACGATTTCGGCTAAAAGCTGACCCGAAAATTGATTTTCAAATTTTTATGCCACAATACTCAGA
325 ACACGATTTCGGCTAAAAACTTATCCGAAAATTTTTTTTCTAATTTTTATGCCACAATACTCAGA
*
178576 AAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACACTTCTAATACCGTTTTTCCA
390 AAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCCA
*
178641 TTTTTCCGAATTAAAATCTAATTAAATCGAAACAACATTCAGATGCTCGTAAAAAAAAATTTATA
455 TTTTTCCGAATTAAAATCTAATTAAATCGAAACAAGATTCAGATGCTCGT-AAAAAAAATTTATA
*
178706 TCCAATGTGGTTGAGATTTGTTTCAATACATATAGATATTTCAAGGAGTCTTTGCACCAAAAATT
519 TCCAATGTGGTTGAGATTTGTTTCAATACATATAGATATTTCAAGAAGTCTTTGCACCAAAAATT
* * *
178771 ATGCAAAACTGAGCCGGGAATCCGG-AACGCGTTTTTCGACAAAAACCATGATGGTTAGTACACG
584 ATGCAAAATTGAGCCGGGAATCCGGAAAC-CGTTTTTCGCCAAAAACCGTGAT-G---GTACACG
* *
178835 ATTTTGGCTAAAATTTTTCAAAAACCGATCCGAAAAGTTTTCATTAAGTTTTCGCCACAATAATC
644 ATTTTGGCTAAAATTTTTCAAAAACCGACCCGAAAAGTTTTCATCAAGTTTTCGCCACAATAATC
* * * * * **
178900 AGAAAAAAATATATAACTCAGAGTAAAAAAATTGAAGGGTTTTTCAGGCTACTAATATTGTTTTT
709 AG-AAAAAATATATAATTCAAAGT-AAAAAATTGAAGGGATTTTCACGCTTCTAATAACGTTTTT
* * * ** * * *
178965 CCATTTTTCCCGTATTGATTTCTAATTAAATCTAAATAAGATTCAGATGCTTGTAAAAACAAATC
772 CCATTTTTTCCGAATTAAAATCTAATTAAATCGAAACAAGATTTAGATGCTTGTAAAAACAAAT-
* * * **
179030 CTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGGAGTCTTTACGTCA
836 TTTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGAAGTCTTTGCACCA
* * * *
179095 AAAATCATGCGAAACTGAGCCGGGGCCACAAAACCGAAACGCGTTTTTAGCTCAAAACCGTGATG
901 AAAATCATGCAAAATTGAGCC---G--ACGAAACCGAAACGCGTTTTTAGCTAAAAACCGTGATG
179160 GATAG
961 GATAG
*
179165 TACACGATTTCAGCTAAAAACTGACCCGAATTTTTTTTTTCTAATTTTTATGCCACAATACTCAG
1 TACACGATTTCAGCTAAAAACTGACCCGAAATTTTTTTTTCTAATTTTTATGCCACAATACTCAG
* *
179230 AAAAAATATATATTTCAACGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTCCC
66 AAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTCCC
* * * *
179295 ATTTTTTCAGAATTAAAATCAAATTAAATCGAAACAAGAATCTGATGCTCGTAAAAACAAATTCT
131 ATTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTAATGCTCGTAAAAACAAATTCC
* * * *
179360 TATCTCCAAAGTGGCTGAGATTTGGTTCGATAAATATAGATATTTGAAAGAGTATTTGATCCAAA
196 TATATCCAAAGTGGCTGAGATTTGGTTCGATGAATATAGATATTTGAAAGAGTCTTTGCTCCAAA
* * *
179425 AATCATGAAAAACTGAGCCAGGGCCCCGAAACGCGTTTTTTGCCGAAAAACCGTGATGGTTAGTA
261 AATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTTGCCCAAAAACCGTGATGGTTAGTA
*
179490 CACGATTTCGGCTAAAAACTTATCCG-AATTTTTTTTTCTAATTTTTATGCCACAATACTCAGAA
326 CACGATTTCGGCTAAAAACTTATCCGAAAATTTTTTTTCTAATTTTTATGCCACAATACTCAGAA
*
179554 AAAATATAGAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCCAT
391 AAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCCAT
179619 TTTTCCGAATTAAAATCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAATTTCATAT
456 TTTTCCGAATTAAAATCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAATTT-ATAT
*
179684 CCAATGTGGTTGAGATTGAGATTTGTTTCAATACATATAGATATTTAAAGAAGTCTTTGCACCAA
520 CCAA--T-G-TG-G-TTGAGATTTGTTTCAATACATATAGATATTTCAAGAAGTCTTTGCACCAA
179749 AAATTATGCAAAATTGAGCCGGGAATCCGGAAACCGTTTTTCGCCAAAAACCGTGATGGTACACG
579 AAATTATGCAAAATTGAGCCGGGAATCCGGAAACCGTTTTTCGCCAAAAACCGTGATGGTACACG
179814 ATTTTGGCTAAAATTTTTCAAAAACCGACCCGAAAAGTTTTCATCAAGTTTTCGCCACAATAATC
644 ATTTTGGCTAAAATTTTTCAAAAACCGACCCGAAAAGTTTTCATCAAGTTTTCGCCACAATAATC
179879 AGAAAAAATATATAATTCAAAGTAAAAAATTGAAGGGATTTTCACGCTTCTAATAACGTTTTTCC
709 AGAAAAAATATATAATTCAAAGTAAAAAATTGAAGGGATTTTCACGCTTCTAATAACGTTTTTCC
179944 ATTTTTTCCGAATTAAAATCTAATTAAATCGAAACAAGATTTAGATGCTTGTAAAAA-AAATTTT
774 ATTTTTTCCGAATTAAAATCTAATTAAATCGAAACAAGATTTAGATGCTTGTAAAAACAAATTTT
* * *
180008 ATATCCAATGTGGTTGAGATTGAGATTTGTTTCAAT-ACATATAGATATTTCAAGAAGTCTTTGC
839 ATATCCAA--T-G-TG-G-CTGAGATTTGGTTCGATGA-ATATAGATATTTCAAGAAGTCTTTGC
* * * * * *
180072 ACCAAAAATTATGCAAAATTGAGCCGA-GAATCCGGAATGCGTATTTCGCTAAAAACCGTGATGG
897 ACCAAAAATCATGCAAAATTGAGCCGACGAAACCGAAACGCGTTTTTAGCTAAAAACCGTGATGG
*
180136 TTAG
962 ATAG
* * *
180140 TACACGATTTCAGCCAAAAACTGATCCGAAATATTATTTTTTTCTAATTTTTATGACACAATACT
1 TACACGATTTCAGCTAAAAACTGACCCG-AA-ATT-TTTTTTTCTAATTTTTATGCCACAATACT
**
180205 CAGAAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATATTGTTTT
63 CAGAAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTT
* * * *
180270 CCCATTTTTTCAGAATTAAAATCTAATTACATCGAAAAAAGATTCTGATGCTCGTAAAAAAAAAT
128 CCCATTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTAATGCTCGTAAAAACAAAT
* *
180335 TCCTATATCCAAAGTGGCTGAGATTTGGTTTGATGAATATAGATACTTGAAAGAGTCTTTGCTCC
193 TCCTATATCCAAAGTGGCTGAGATTTGGTTCGATGAATATAGATATTTGAAAGAGTCTTTGCTCC
*
180400 AAAAATCATGCAACACTGAGCCGGGGCCCCGAAACGCGTTTTTTGCCCAAAAACCGTGATGGTTA
258 AAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTTGCCCAAAAACCGTGATGGTTA
*
180465 GTACACGATTTCGGCTAAAAACTAATCCG-AAATTTTTTTTCTAATTTTTATGCCACAATACTCA
323 GTACACGATTTCGGCTAAAAACTTATCCGAAAATTTTTTTTCTAATTTTTATGCCACAATACTCA
* *
180529 GAAAAAATATACAATTCATCTCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTC
388 GAAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTC
* *
180594 CATTTTTTCCGAATTAAAATCTAATTAAATCGAAACAAGATTCAGATACTCGTAAAAAAATTTTA
453 CA-TTTTTCCGAATTAAAATCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAATTTA
* *
180659 TATCCAATGTGGTTGAGATTTGTTTCAATACATATAGATATTTCAAGAAGTTTTTGCACAAAAAA
517 TATCCAATGTGGTTGAGATTTGTTTCAATACATATAGATATTTCAAGAAGTCTTTGCACCAAAAA
* ** ** *
180724 TTAGGCAAAATTGAGCCGGGAAAACGGAATTCGTTTTTCGCCAAAAACCGTGATGGT-TA-G---
582 TTATGCAAAATTGAGCCGGGAATCCGGAAACCGTTTTTCGCCAAAAACCGTGATGGTACACGATT
* ** ** * * ** ** * * * *
180784 -T-AC-ATGATTTCAGCTAAAAACTGACCTGAAATTTTTTTTTTTCCTAATTTTTATGCTACATT
647 TTGGCTAAAATTT-TTC-AAAAACCGACCCGAAA--AGTTTTCAT-C-AAGTTTT-CGCCACAAT
** * * ** * * *
180846 GCTCAGAAAAAATTTACAATTCATCGCTATAAAGATTGAAGGGGTTTTCACGCTTCTGAA-ACCG
705 AATCAGAAAAAATATATAATTCAAAG-TA-AAAAATTGAAGGGATTTTCACGCTTCT-AATAACG
* *
180910 TTTTTCCATTTTTTCCAAATTAAAATCTAATTAAATCGAAACAAGATTCT-GATGCTCGTAAAAA
767 TTTTTCCATTTTTTCCGAATTAAAATCTAATTAAATCGAAACAAGATT-TAGATGCTTGTAAAAA
* * *
180974 CAAATTCTTATATCCAAAGTGGCTGAGATTTGGTTCGATGAATATAGATATTTGAA-AGTGTCTT
831 CAAATT-TTATATCCAATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGA-AGTCTT
* * *** * * *
181038 TGCTCCAAAAATCATGCAAAACTT-AGCC-AGGGCCCCGAAACGCGTTTTTTGCCCAAAAACCTT
894 TGCACCAAAAATCATGCAAAA-TTGAGCCGACGAAACCGAAACGCGTTTTTAG-CTAAAAACCGT
*
181101 GATTGATAG
957 GATGGATAG
* * * * *
181110 TACACGATTTCGGCTAAAAACTTACCCAAAAATATTTTTTCTAATTTTTATGCCACAATACTCAG
1 TACACGATTTCAGCTAAAAACTGACCCGAAATTTTTTTTTCTAATTTTTATGCCACAATACTCAG
* *
181175 AAAAAATATATAATTCATCGCTATAAAGATTGAAAGGATTTTCACGCTTCTAATACCGGTTTCCC
66 AAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTCCC
* **
181240 ATTTTTTCAAAATTAAAATCTAATTAAATCGAAACAAGATTCTAATGCTCGTAAAAAC-AATTGT
131 ATTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTAATGCTCGTAAAAACAAATTCC
** *
181304 TATATCCAAAGTGGCTGAGATTTGGTTCGATGAATATAGATATTTTTAAGAGTCTTTGCTTCAAA
196 TATATCCAAAGTGGCTGAGATTTGGTTCGATGAATATAGATATTTGAAAGAGTCTTTGCTCCAAA
* * *
181369 AATCAGGCACAACTGAGCCGGGGCCCCGAAACGCGTTTTTTGCCAAAAAACCGTGATGGTTAGTA
261 AATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTTGCCCAAAAACCGTGATGGTTAGTA
* * * *
181434 CACGATTTCGGCTAAAAA-TTGATCCGTAATTTTTTTTTCTAATTTTTATGTCACAAAACTCAAG
326 CACGATTTCGGCTAAAAACTT-ATCCGAAAATTTTTTTTCTAATTTTTATGCCACAATACTC-AG
181498 AAAAAATATATAATTCATC-CTATAAAGAT
389 AAAAAATATATAATTCATCGCTATAAAGAT
Statistics
Matches: 2130, Mismatches: 189, Indels: 95
0.88 0.08 0.04
Matches are distributed among these distances:
964 5 0.00
965 3 0.00
966 163 0.08
967 185 0.09
968 29 0.01
969 73 0.03
970 50 0.02
971 29 0.01
972 105 0.05
973 89 0.04
974 10 0.00
975 80 0.04
976 48 0.02
977 384 0.18
978 577 0.27
979 134 0.06
980 3 0.00
981 60 0.03
982 2 0.00
983 98 0.05
984 3 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (965 bp):
TACACGATTTCAGCTAAAAACTGACCCGAAATTTTTTTTTCTAATTTTTATGCCACAATACTCAG
AAAAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTCCC
ATTTTTTCAGAATTAAAATCTAATTAAATCGAAACAAGATTCTAATGCTCGTAAAAACAAATTCC
TATATCCAAAGTGGCTGAGATTTGGTTCGATGAATATAGATATTTGAAAGAGTCTTTGCTCCAAA
AATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTTGCCCAAAAACCGTGATGGTTAGTA
CACGATTTCGGCTAAAAACTTATCCGAAAATTTTTTTTCTAATTTTTATGCCACAATACTCAGAA
AAAATATATAATTCATCGCTATAAAGATTGAAGGGATTTTCACGCTTCTAATACCGTTTTTCCAT
TTTTCCGAATTAAAATCTAATTAAATCGAAACAAGATTCAGATGCTCGTAAAAAAAATTTATATC
CAATGTGGTTGAGATTTGTTTCAATACATATAGATATTTCAAGAAGTCTTTGCACCAAAAATTAT
GCAAAATTGAGCCGGGAATCCGGAAACCGTTTTTCGCCAAAAACCGTGATGGTACACGATTTTGG
CTAAAATTTTTCAAAAACCGACCCGAAAAGTTTTCATCAAGTTTTCGCCACAATAATCAGAAAAA
ATATATAATTCAAAGTAAAAAATTGAAGGGATTTTCACGCTTCTAATAACGTTTTTCCATTTTTT
CCGAATTAAAATCTAATTAAATCGAAACAAGATTTAGATGCTTGTAAAAACAAATTTTATATCCA
ATGTGGCTGAGATTTGGTTCGATGAATATAGATATTTCAAGAAGTCTTTGCACCAAAAATCATGC
AAAATTGAGCCGACGAAACCGAAACGCGTTTTTAGCTAAAAACCGTGATGGATAG
Done.