Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017966.1 Corchorus olitorius cultivar O-4 contig17999, 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: 115026
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:7928 original size:75 final size:75
Alignment explanation
Indices: 7835--8059 Score: 297
Period size: 75 Copynumber: 3.1 Consensus size: 75
7825 ATGACCTCTA
* * * *
7835 CTTTCACTGGCTCCACTGGTTCTGTTTTAATAGGCTCTGCTGATTCTTGTTGCACTGCAACTGGT
1 CTTTCACTGTCTCGACTGGTTCTGTTTTAATAGGCTCTGCTGATTCTTGTTGCACTGCCACTGGC
*
7900 TCTACTGATT
66 TCCACTGATT
7910 CTTTCACTGTCTCGACTGGTTCTGTTTTAATAGGCTCTGCTGATTCTTGTTGCACTGCCACTGGC
1 CTTTCACTGTCTCGACTGGTTCTGTTTTAATAGGCTCTGCTGATTCTTGTTGCACTGCCACTGGC
*
7975 TCCGCTGA--
66 TCCACTGATT
* * * *
7983 --TT--CT-T-TCG-CTGGTTCTGTTTTAACAGGCTCTGCTGATTCTTTTTGCATTTCCACTGGC
1 CTTTCACTGTCTCGACTGGTTCTGTTTTAATAGGCTCTGCTGATTCTTGTTGCACTGCCACTGGC
8041 TCCACTGATT
66 TCCACTGATT
8051 CTTTCACTG
1 CTTTCACTG
8060 GCTCTGATGG
Statistics
Matches: 132, Mismatches: 11, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
66 53 0.40
67 3 0.02
68 1 0.01
69 2 0.02
70 2 0.02
71 2 0.02
72 2 0.02
75 67 0.51
ACGTcount: A:0.13, C:0.26, G:0.20, T:0.42
Consensus pattern (75 bp):
CTTTCACTGTCTCGACTGGTTCTGTTTTAATAGGCTCTGCTGATTCTTGTTGCACTGCCACTGGC
TCCACTGATT
Found at i:8037 original size:66 final size:66
Alignment explanation
Indices: 7924--8065 Score: 221
Period size: 66 Copynumber: 2.2 Consensus size: 66
7914 CACTGTCTCG
* *
7924 ACTGGTTCTGTTTTAATAGGCTCTGCTGATTCTTGTTGCACTGCCACTGGCTCCGCTGATTCTTT
1 ACTGGTTCTGTTTTAACAGGCTCTGCTGATTCTTGTTGCACTGCCACTGGCTCCACTGATTCTTT
7989 C
66 C
* * * *
7990 GCTGGTTCTGTTTTAACAGGCTCTGCTGATTCTTTTTGCATTTCCACTGGCTCCACTGATTCTTT
1 ACTGGTTCTGTTTTAACAGGCTCTGCTGATTCTTGTTGCACTGCCACTGGCTCCACTGATTCTTT
8055 C
66 C
*
8056 ACTGGCTCTG
1 ACTGGTTCTG
8066 ATGGTATGCT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.12, C:0.26, G:0.20, T:0.42
Consensus pattern (66 bp):
ACTGGTTCTGTTTTAACAGGCTCTGCTGATTCTTGTTGCACTGCCACTGGCTCCACTGATTCTTT
C
Found at i:12528 original size:12 final size:13
Alignment explanation
Indices: 12511--12545 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
12501 TAGGAACGAG
12511 ATACAT-TACATT
1 ATACATATACATT
12523 ATACATTATACATT
1 ATACA-TATACATT
12537 ATACATATA
1 ATACATATA
12546 TATGCATGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.24
13 5 0.24
14 11 0.52
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.40
Consensus pattern (13 bp):
ATACATATACATT
Found at i:12529 original size:7 final size:7
Alignment explanation
Indices: 12517--12547 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
12507 CGAGATACAT
12517 TACATTA
1 TACATTA
12524 TACATTA
1 TACATTA
12531 TACATTA
1 TACATTA
12538 TACATATA
1 TACAT-TA
12546 TA
1 TA
12548 TGCATGTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (7 bp):
TACATTA
Found at i:15541 original size:15 final size:15
Alignment explanation
Indices: 15521--15553 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15511 TCTGCGTTTA
15521 TCCTTGTCAACCTCT
1 TCCTTGTCAACCTCT
*
15536 TCCTTGTCAAGCTCT
1 TCCTTGTCAACCTCT
15551 TCC
1 TCC
15554 ATGGCTTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.39, G:0.09, T:0.39
Consensus pattern (15 bp):
TCCTTGTCAACCTCT
Found at i:19372 original size:31 final size:31
Alignment explanation
Indices: 19334--19407 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
19324 TTATGATGAT
*
19334 GTGGCATGCCACGTGGAAATTCCTGTCTAAC
1 GTGGCATGCCACGTGGAAATTCCCGTCTAAC
* *
19365 GTGGCATGCCACGTGGCAATTCCCGTCTGAC
1 GTGGCATGCCACGTGGAAATTCCCGTCTAAC
19396 GTGGCATGCCAC
1 GTGGCATGCCAC
19408 ATCAGCATCG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.19, C:0.30, G:0.28, T:0.23
Consensus pattern (31 bp):
GTGGCATGCCACGTGGAAATTCCCGTCTAAC
Found at i:24521 original size:18 final size:17
Alignment explanation
Indices: 24489--24522 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
24479 GACAGATCGT
24489 GTGAAATGGAAGTGAAA
1 GTGAAATGGAAGTGAAA
*
24506 GTGAAAGTGTAAGTGAA
1 GTGAAA-TGGAAGTGAA
24523 TGAACAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (17 bp):
GTGAAATGGAAGTGAAA
Found at i:26589 original size:21 final size:19
Alignment explanation
Indices: 26563--26619 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
26553 CGCTGCTCTA
*
26563 ATAATCTCATATGTACAAT
1 ATAATCTCATCTGTACAAT
* *
26582 ACCTAATCTAATCTGTACAGT
1 A--TAATCTCATCTGTACAAT
26603 ATAATCTCATCTGTACA
1 ATAATCTCATCTGTACA
26620 GTTGCTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 16 0.50
21 16 0.50
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (19 bp):
ATAATCTCATCTGTACAAT
Found at i:33595 original size:11 final size:11
Alignment explanation
Indices: 33579--33609 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
33569 AAGATCTTAC
33579 CTCATTTTCCT
1 CTCATTTTCCT
33590 CTCATTTTCCT
1 CTCATTTTCCT
33601 CTCATTTTC
1 CTCATTTTC
33610 ATCATAGCGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.10, C:0.35, G:0.00, T:0.55
Consensus pattern (11 bp):
CTCATTTTCCT
Found at i:41442 original size:20 final size:20
Alignment explanation
Indices: 41417--41465 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
41407 ATTGGGCCGT
*
41417 GGTGGCCCATGATAGCCCGC
1 GGTGGCCCACGATAGCCCGC
* *
41437 GGTGGCCCACGATGGCCCGT
1 GGTGGCCCACGATAGCCCGC
41457 GCGTGGCCC
1 G-GTGGCCC
41466 GTGACCCGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.10, C:0.37, G:0.39, T:0.14
Consensus pattern (20 bp):
GGTGGCCCACGATAGCCCGC
Found at i:50513 original size:34 final size:34
Alignment explanation
Indices: 50444--50519 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
50434 GACAAATATA
* ** ** *
50444 TAAACTTATACAAATAGATTGCATGGATTGGCAG
1 TAAACTTATACAAATAGATCGCATACACAGCCAG
50478 TAAACTTATACAAATAGATCGCATACACAGCCAG
1 TAAACTTATACAAATAGATCGCATACACAGCCAG
*
50512 TAAGCTTA
1 TAAACTTA
50520 GCAGAGGCAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (34 bp):
TAAACTTATACAAATAGATCGCATACACAGCCAG
Found at i:57097 original size:132 final size:132
Alignment explanation
Indices: 56860--57113 Score: 427
Period size: 132 Copynumber: 1.9 Consensus size: 132
56850 GAGGTGAGCC
* * *
56860 ACCACACTGGCTCTGGCAGCCAGTTCCGCAGTAATCGGGTGTGGTGCCACAGTACCCATGTTGGC
1 ACCACACTGGCTCTGGCAGCCAGTGCCGCAGTAATCGGGAGTGGTGCCACAATACCCATGTTGGC
56925 TGCAGCACAGCCCATTTGCACACAAAGCACCTCCTCCTTGGCTTCCACACCGTTGTGTGCCGCCG
66 TGCAGCACAGCCCATTTGCACACAAAGCACCTCCTCCTTGGCTTCCACACCGTTGTGTGCCGCCG
56990 CT
131 CT
*
56992 ACCACACTGGCTCTGGCAGCCAGTGCCGCAGTAATCGGGAGTGTTGCCACAATACCCATGTTGGC
1 ACCACACTGGCTCTGGCAGCCAGTGCCGCAGTAATCGGGAGTGGTGCCACAATACCCATGTTGGC
* * * * *
57057 TGCAGCACAGCCCATTTGCACATAAAGCACCTCCTGCTTGGTTTCCGCACTGTTGTG
66 TGCAGCACAGCCCATTTGCACACAAAGCACCTCCTCCTTGGCTTCCACACCGTTGTG
57114 CAGAGACTCC
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 113 1.00
ACGTcount: A:0.19, C:0.33, G:0.24, T:0.23
Consensus pattern (132 bp):
ACCACACTGGCTCTGGCAGCCAGTGCCGCAGTAATCGGGAGTGGTGCCACAATACCCATGTTGGC
TGCAGCACAGCCCATTTGCACACAAAGCACCTCCTCCTTGGCTTCCACACCGTTGTGTGCCGCCG
CT
Found at i:60095 original size:5 final size:6
Alignment explanation
Indices: 60080--60104 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
60070 GCCGCCGGTA
60080 GGGGGT GGGGGT GGGGGT GGGGGT G
1 GGGGGT GGGGGT GGGGGT GGGGGT G
60105 AGCCGCCGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.84, T:0.16
Consensus pattern (6 bp):
GGGGGT
Found at i:82274 original size:2 final size:2
Alignment explanation
Indices: 82267--82298 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
82257 ATCTTATCCA
82267 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
82299 GAAGTTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82493 original size:2 final size:2
Alignment explanation
Indices: 82488--82519 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
82478 GGAGTTACCA
82488 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
82520 TTACATGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84233 original size:17 final size:17
Alignment explanation
Indices: 84211--84243 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
84201 CTGAAGGTTC
84211 AGTCTTCTCTC-TCATTT
1 AGTCTT-TCTCGTCATTT
84228 AGTCTTTCTCGTCATT
1 AGTCTTTCTCGTCATT
84244 CTGTTCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.12, C:0.27, G:0.09, T:0.52
Consensus pattern (17 bp):
AGTCTTTCTCGTCATTT
Found at i:100564 original size:49 final size:49
Alignment explanation
Indices: 100491--100747 Score: 334
Period size: 49 Copynumber: 5.1 Consensus size: 49
100481 AATCCGTGTC
* * *
100491 GATCTCGAACCTGAGACCTAATTAAGCTGGAACAAGCCGCTTACCATTT
1 GATCTCGAACCTGAGACCTGATTAAACTGGAACAAGCCGCTTACCACTT
*
100540 GATCTCGAACCTGAGACCTGATTAAACTGGAACAAGCCGCTTAACACTT
1 GATCTCGAACCTGAGACCTGATTAAACTGGAACAAGCCGCTTACCACTT
* **
100589 GATCTCGAACCTGAGACCTAATTAAGTTGGAACAAGCCGCTTACCACTT
1 GATCTCGAACCTGAGACCTGATTAAACTGGAACAAGCCGCTTACCACTT
* * * *
100638 GATTTCGAATCTGAGACCTGATTACACTGGAAACAAGCCACTTACCACTTACCATTT
1 GATCTCGAACCTGAGACCTGATTAAACTGG-AACAAGCCGCTTA-C-C--A-C--TT
*
100695 GATCTCGAACCTGAGACCTGATTAAACTGGAACAAACCGCTTACCACTT
1 GATCTCGAACCTGAGACCTGATTAAACTGGAACAAGCCGCTTACCACTT
100744 GATC
1 GATC
100748 AGATGTGGTA
Statistics
Matches: 180, Mismatches: 20, Indels: 16
0.83 0.09 0.07
Matches are distributed among these distances:
49 120 0.67
50 12 0.07
51 2 0.01
52 2 0.01
54 2 0.01
55 2 0.01
56 11 0.06
57 29 0.16
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (49 bp):
GATCTCGAACCTGAGACCTGATTAAACTGGAACAAGCCGCTTACCACTT
Found at i:100660 original size:98 final size:103
Alignment explanation
Indices: 100491--100747 Score: 371
Period size: 98 Copynumber: 2.5 Consensus size: 103
100481 AATCCGTGTC
*
100491 GATCTCGAACCTGAGACCTAATTAAGCTGGAACAAGCCGCTTACCATTTGATCTCGAACCTGAGA
1 GATCTCGAACCTGAGACCTAATTAAGCTGGAACAAGCCGCTTACCACTTGATCTCGAACCTGAGA
*
100556 CCTGATTAAACTGG-AACAAGCCGCTTA-AC-A-C-TT
66 CCTGATTAAACTGGAAACAAGCCACTTACACTACCATT
* * *
100589 GATCTCGAACCTGAGACCTAATTAAGTTGGAACAAGCCGCTTACCACTTGATTTCGAATCTGAGA
1 GATCTCGAACCTGAGACCTAATTAAGCTGGAACAAGCCGCTTACCACTTGATCTCGAACCTGAGA
*
100654 CCTGATTACACTGGAAACAAGCCACTTACCACTTACCATTT
66 CCTGATTAAACTGGAAACAAGCCACTTA-CAC-TACCA-TT
* * *
100695 GATCTCGAACCTGAGACCTGATTAAACTGGAACAAACCGCTTACCACTTGATC
1 GATCTCGAACCTGAGACCTAATTAAGCTGGAACAAGCCGCTTACCACTTGATC
100748 AGATGTGGTA
Statistics
Matches: 140, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
98 74 0.53
99 12 0.09
101 2 0.01
103 1 0.01
104 1 0.01
106 50 0.36
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (103 bp):
GATCTCGAACCTGAGACCTAATTAAGCTGGAACAAGCCGCTTACCACTTGATCTCGAACCTGAGA
CCTGATTAAACTGGAAACAAGCCACTTACACTACCATT
Found at i:100697 original size:57 final size:56
Alignment explanation
Indices: 100628--100743 Score: 169
Period size: 57 Copynumber: 2.1 Consensus size: 56
100618 GAACAAGCCG
* * * *
100628 CTTACCACTTGATTTCGAATCTGAGACCTGATTACACTGGAAACAAGCCACTTACCA
1 CTTACCACTTGATCTCGAACCTGAGACCTGATTAAACTGG-AACAAACCACTTACCA
* *
100685 CTTACCATTTGATCTCGAACCTGAGACCTGATTAAACTGGAACAAACCGCTTACCA
1 CTTACCACTTGATCTCGAACCTGAGACCTGATTAAACTGGAACAAACCACTTACCA
100741 CTT
1 CTT
100744 GATCAGATGT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
56 17 0.32
57 36 0.68
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (56 bp):
CTTACCACTTGATCTCGAACCTGAGACCTGATTAAACTGGAACAAACCACTTACCA
Found at i:106960 original size:38 final size:38
Alignment explanation
Indices: 106918--106993 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
106908 TGGCTGAGAT
106918 TTCGTTAGATAAATATAGATATTTCAATGAGTCTTGGC
1 TTCGTTAGATAAATATAGATATTTCAATGAGTCTTGGC
106956 TTCGTTAGATAAATATAGATATTTCAATGAGTCTTGGC
1 TTCGTTAGATAAATATAGATATTTCAATGAGTCTTGGC
106994 ACAAAAAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (38 bp):
TTCGTTAGATAAATATAGATATTTCAATGAGTCTTGGC
Found at i:108018 original size:332 final size:327
Alignment explanation
Indices: 107005--109675 Score: 3171
Period size: 332 Copynumber: 8.1 Consensus size: 327
106995 CAAAAAATCA
*
107005 TGCAAAAACTGTCCCGAAAATTTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
1 TGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
* * * * * * *
107070 CTCAATGCCAATAAAATTTAAAGGATTTTCAGGATTCTAATATAATTTTCCCTATTTTTCAGAAT
66 CTCAA--CCAATAAAATTTAAGGGCTTTTCATGCTTCTAATATCATTTT-TCTATTTTTCCGAAT
* * *
107135 TAATTTCTAATTAAATCGAAGCATAAATCAGATGCTCGTAAAAAAATTATCCTTAAATCCATTGT
128 TAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACA-TATCCTTAAATCCATTGT
*
107200 GACTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAAA
192 GGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAAA
** * * * *
107265 CTAAGTTGGGGCCCCAGAGCGCGTGTTTTTAGCTAAAAACAGTGATGGTTAGTACACGATTTCGG
257 CTGTGTCGGGG-CCCAGAACGC--GTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCGG
107330 CCAAAATTT
319 CCAAAATTT
* * *
107339 TGCAAAAACTATCCCGAAAAATTTTTCCTCACTTTTTGGCCACAATACGCATAAAAAATATATAA
1 TGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
* * * *
107404 CTCATCGCTAA-AAAATTTAAGGGCTTTTCATGCTTATAATATCGGTTTTCCTA-TTTTCCGAAT
66 CTCAAC-C-AATAAAATTTAAGGGCTTTTCATGCTTCTAATATC-ATTTTTCTATTTTTCCGAAT
* *
107467 TAATTTCTAACTAAAAT-GAAACATAATTAAGATGCTCGTAAAAA-ATTATCCTTAAATCC-TCT
128 TAATTTCTAA-TTAAATCGAAACATAATTCAGATGCTCGTAAAAACA-TATCCTTAAATCCAT-T
* * * * * * * * * *
107529 GTGTCTGAGATTTGATTAGATGAAAATAGATAATTTAAGGAATCTTACTGCCAGATATCATCCAA
190 GTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAA
* *
107594 AACTGTGTCGGAGCCTAGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCGG
255 AACTGTGTCGGGGCCCA-GAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCGG
107659 CCAAAATTT
319 CCAAAATTT
* *
107668 TGCAAAAACTGCCCCGAAAAATTTTTCCTCAATTTTTGGCCACAACACTCAT-AAAAATATATAA
1 TGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
* * * ** * * * *
107732 TTCAAACACAA-AAAGACTGAAGGGCTTTAGACGCTTC-AATTTTCGTTTTTCTAAGTTTTTCCA
66 CTC-AAC-CAATAAA-ATTTAAGGGCTTTTCATGCTTCTAA-TATCATTTTTCT-A-TTTTTCCG
*
107795 AATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACAAATCCTTAAATCCATT
125 AATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACATATCCTTAAATCCATT
* * * * **
107860 GTGGCTGAGAATTGGTTAGATGAATATAGATATTTCAATGACACTTAGC-GCCAAAAAATCATGC
190 GTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTT-GCTGCC-AAAAATCATGC
* * * * * *
107924 AAAACTGTTTCGGGGCCCATGAATGCATTTTTAGCCAAAAACTGTGATGTTTAGTGCACGATTTA
253 AAAACTGTGTCGGGGCCCA-GAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTC
*
107989 AGCCAAAATTT
317 GGCCAAAATTT
*
108000 TGCAAAAACTGTCCCGAAAACTTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
1 TGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
* *
108065 CTCAACGCCAATAAAATTTAAGGGCTATTCA-GTCTTCTAATATTATTTTTCCTATTTTTCCGAA
66 CTCAA--CCAATAAAATTTAAGGGCTTTTCATG-CTTCTAATATCATTTTT-CTATTTTTCCGAA
*
108129 TTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAGAAC-TATTCTTAAATCCATTG
127 TTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAA-AACATATCCTTAAATCCATTG
*
108193 TGGCTGAGATTTGGTTAAATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAA
191 TGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAA
** * * * * * *
108258 ACTAAGTCGGAGCCCCAGAACGCGCGTTTTTAGCAAAAAACAGTGATTGTTAGTAAACGATTTTG
256 ACTGTGTCGG-GGCCCAGAA--CGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCG
108323 GCCAAAATTT
318 GCCAAAATTT
* * * **
108333 TGCAAAAACTATCCCGAAAATTTTTTCCTCACTTTTTAACCA-AAGTACTCATAAAAAATATATA
1 TGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAA-TACTCATAAAAAATATATA
* * * * * * *
108397 ACTCATTGCTAAAAAAATTTAAGGGCTTTTCATGCTTATAATATCGTTTTTTTAATTTTCCGAAT
65 ACTCA--ACCAATAAAATTTAAGGGCTTTTCATGCTTCTAATATCATTTTTCTATTTTTCCGAAT
* *
108462 TAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAACCTTATCCTTAAATCCATTGTG
128 TAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACATATCCTTAAATCCATTGTG
* * *
108527 TG-TGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCTTGCTGCCAACAATCATCCAAAA
193 -GCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAAA
* ** *
108591 CTGTGACGGGGCTTAGGAACGCGTTTTTAGCCAAAAACTATGATGGTTAGTACACGATTTCGGCC
257 CTGTGTCGGGGCCCA-GAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCGGCC
108656 AAAATTT
321 AAAATTT
* * *
108663 TGCAAAAACTGTCCC-AAAAATTTTTTCCTCTATTTTTGGCCACAACACTGATAAAAAATATATA
1 TGCAAAAACTGTCCCGAAAAA-TTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATA
* * * * ** * * * *
108727 ATTCAAATCCAA-AAAGACTGAAAGGCTTTAGACGCTTC-AATTTTCGTTTTTGTAATTTTTTCC
65 ACTC-AA-CCAATAAA-ATTTAAGGGCTTTTCATGCTTCTAA-TATCATTTTTCT-A-TTTTTCC
* * *
108790 GAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACAAATCCTTAAATCAAA
124 GAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACATATCCTTAAATCCAT
* * * * * ** *
108855 TGTGGCTGAGAATTGGCTAGATGAATATATATATTTCAATGACACTTGGC-ACCAAAAATCATGC
189 TGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTT-GCTGCCAAAAATCATGC
* * * *
108919 AAAACTGTGTCGGGGCCCAAGAACACATTTTTAGCC-AAAA---TCAT--TCAAGTACACGATTT
253 AAAACTGTGTCGGGGCCC-AGAACGCGTTTTTAGCCAAAAACTGTGATGGT-TAGTACACGATTT
*
108978 CGGTCAAAATTT
316 CGGCCAAAATTT
* *
108990 TGCAAAAACTGTCCCGAACAATTTTTCCTCAATTTTTTGCCACAATACTCATAAAAAATATATAA
1 TGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
* * *
109055 CTCAACGCCAACAAAATTTAGGGGCTTTTCAGGCTTCTAATATCATTTTTCCTATTTTTCCGAAT
66 CTCAA--CCAATAAAATTTAAGGGCTTTTCATGCTTCTAATATCATTTTT-CTATTTTTCCGAAT
* * *
109120 TGATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAA-TTATTCTTAAATCCATTGTG
128 TAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACATATCCTTAAATCCATTGTG
* *
109184 GCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCATGCTGCCAAAAAACATGCAAAAC
193 GCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAAAC
*** * * * *
109249 TAAATCGGGGTCCCAGAACGCGCGTTTTTAG-CACAACACAGTGATGGATAGTACACAATTTCGG
258 TGTGTCGGGG-CCCAGAA--CGCGTTTTTAGCCA-AAAACTGTGATGGTTAGTACACGATTTCGG
109313 CCAAAATTT
319 CCAAAATTT
* * * * *
109322 TGCAAAAACTGTCTCGAAAAATATATCCTCAATTTTTTGCCACAATACTCATAACAAATATATAA
1 TGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
* * * * *
109387 TTCAACGCTAATCAATTTTAAGGGCTTTTCATGCTTCTAATATAATTTTTCCTATTTTTCTGAAT
66 CTCAAC-C-AATAAAATTTAAGGGCTTTTCATGCTTCTAATATCATTTTT-CTATTTTTCCGAAT
* *
109452 TAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAACCTTATCCTTAAATCCATTGTG
128 TAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACATATCCTTAAATCCATTGTG
* * * *
109517 TCTGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCATGCTGCCAAAAATCATCCAAAAC
193 GCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAAAC
* * *
109582 TGTG-CTGGGGCCTAGGAACGCGTTTTTAGCCAAAAACTGTGATTGTTAGTACACGATCTCGGCC
258 TGTGTC-GGGGCCCA-GAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCGGCC
109646 AAAATTT
321 AAAATTT
109653 TGCAAAAACTGTCCCGAAAAATT
1 TGCAAAAACTGTCCCGAAAAATT
109676 AATTTCTAAT
Statistics
Matches: 2000, Mismatches: 267, Indels: 143
0.83 0.11 0.06
Matches are distributed among these distances:
324 2 0.00
325 78 0.04
326 61 0.03
327 117 0.06
328 44 0.02
329 127 0.06
330 136 0.07
331 292 0.15
332 753 0.38
333 310 0.16
334 80 0.04
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.33
Consensus pattern (327 bp):
TGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
CTCAACCAATAAAATTTAAGGGCTTTTCATGCTTCTAATATCATTTTTCTATTTTTCCGAATTAA
TTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACATATCCTTAAATCCATTGTGGCT
GAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAAACTGT
GTCGGGGCCCAGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCGGCCAAAAT
TT
Found at i:108271 original size:663 final size:660
Alignment explanation
Indices: 107005--109675 Score: 3216
Period size: 663 Copynumber: 4.0 Consensus size: 660
106995 CAAAAAATCA
*
107005 TGCAAAAACTGTCCCGAAAATTTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
1 TGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
* * * * * * * *
107070 CTC-AATGCCAATAAAATTTAAAGGATTTTCAGGATTCTAATATAATTTTCCCTATTTTT-CAGA
66 CTCAAACGACAACAAAATTTAAGGGCTTTTCAGGCTTCTAATATCATTTT-TCTATTTTTCCA-A
* *
107133 ATTAATTTCTAATTAAATCGAAGCATAAATCAGATGCTCGTAAAAAAATTATCCTTAAATCCATT
129 ATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAAA--ATCCTTAAATCCATT
*
107198 GTGACTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAA
192 GTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAA
* *
107263 AACTAAG-TT-GGGGCCCCAGAGCGCGTGTTTTTAGCTAAAAACAGTGATGGTTAGTACACGATT
257 AACT--GTTTCGGGGCCCCAGAACGC--GTTTTTAGCCAAAAACAGTGATGGTTAGTACACGATT
* * *
107326 TCGGCCAAAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCACTTTTTGGCCACAATACGCAT
318 TCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCAT
* * * ***
107391 AAAAAATATATAACTCATCGCTAAAAAATTTAAGGGCTTTTCATGCTTATAATATCGGTTTTCCT
383 AAAAAATATATAACTCAACGCCAAAAAATTTAAGGGCTTTTCATGCTTCTAATATTATTTTTCCT
* *
107456 A-TTTTCCGAATTAATTTCTAACTAAAAT-GAAACATAATTAAGATGCTCGTAAAAA-ATTATCC
448 ATTTTTCCGAATTAATTTCTAA-TTAAATCGAAACATAATTCAGATGCTCGTAAAAACA-TATCC
* * * * * *
107518 TTAAATCC-TCTGTGTCTGAGATTTGATTAGATGAAAATAGATAATTTAAGGAATCTTACTGCCA
511 TTAAATCCAT-TGTGGCTGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCTTGCTGCCA
* * * *
107582 GATATCATCCAAAACTGTGTCGGAGCCTAGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGT
575 AAAATCATCCAAAACTGTGTCGGAGCCCAGGAACGCGTTTTTAGCCAAAAACTGTGATTGTTAGT
107647 ACACGATTTCGGCCAAAATTT
640 ACACGATTTCGGCCAAAATTT
* *
107668 TGCAAAAACTGCCCCGAAAAATTTTTCCTCAATTTTTGGCCACAACACTCAT-AAAAATATATAA
1 TGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
* * * ** * * *
107732 TTCAAAC-ACAA-AAAGACTGAAGGGCTTTAGACGCTTC-AATTTTCGTTTTTCTAAGTTTTTCC
66 CTCAAACGACAACAAA-ATTTAAGGGCTTTTCAGGCTTCTAA-TATCATTTTTCT-A-TTTTTCC
107794 AAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAT
127 AAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAA-AAATCCTTAAATCCAT
* * * * **
107859 TGTGGCTGAGAATTGGTTAGATGAATATAGATATTTCAATGACACTTAGC-GCCAAAAAATCATG
191 TGTGGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTT-GCTGCC-AAAAATCATG
* * * * *
107923 CAAAACTGTTTCGGGG-CCCATGAATGCATTTTTAGCCAAAAACTGTGATGTTTAGTGCACGATT
254 CAAAACTGTTTCGGGGCCCCA-GAACGCGTTTTTAGCCAAAAACAGTGATGGTTAGTACACGATT
** *
107987 TAAGCCAAAATTTTGCAAAAACTGTCCCGAAAACTTTTTCCTCAATTTTTGGCCACAATACTCAT
318 TCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCAT
*
108052 AAAAAATATATAACTCAACGCCAATAAAATTTAAGGGCTATTCA-GTCTTCTAATATTATTTTTC
383 AAAAAATATATAACTCAACGCCAA-AAAATTTAAGGGCTTTTCATG-CTTCTAATATTATTTTTC
*
108116 CTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAGAAC-TATT
446 CTATTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAA-AACATATC
* *
108180 CTTAAATCCATTGTGGCTGAGATTTGGTTAAATGAATATAAATATTTTAAGGAGTCTTGCTGCCA
510 CTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCTTGCTGCCA
* ** * *
108245 AAAATCATGCAAAACTAAGTCGGAGCCCCA-GAACGCGCGTTTTTAGCAAAAAACAGTGATTGTT
575 AAAATCATCCAAAACTGTGTCGGAG-CCCAGGAA--CGCGTTTTTAGCCAAAAACTGTGATTGTT
* *
108309 AGTAAACGATTTTGGCCAAAATTT
637 AGTACACGATTTCGGCCAAAATTT
* * * **
108333 TGCAAAAACTATCCCGAAAATTTTTTCCTCACTTTTTAACCA-AAGTACTCATAAAAAATATATA
1 TGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAA-TACTCATAAAAAATATATA
** * * * * * * *
108397 ACTC-ATTG-CTAAAAAAATTTAAGGGCTTTTCATGCTTATAATATCGTTTTTTTAATTTTCCGA
65 ACTCAAACGAC-AACAAAATTTAAGGGCTTTTCAGGCTTCTAATATCATTTTTCTATTTTTCCAA
***
108460 ATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAACCTTATCCTTAAATCCATTG
129 ATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAA-AAAATCCTTAAATCCATTG
* * *
108525 TGTG-TGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCTTGCTGCCAACAATCATCCAA
193 TG-GCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAA
** **
108589 AACTGTGACGGGG-CTTAGGAACGCGTTTTTAGCCAAAAACTA-TGATGGTTAGTACACGATTTC
257 AACTGTTTCGGGGCCCCA-GAACGCGTTTTTAGCCAAAAAC-AGTGATGGTTAGTACACGATTTC
* * *
108652 GGCCAAAATTTTGCAAAAACTGTCCC-AAAAATTTTTTCCTCTATTTTTGGCCACAACACTGATA
320 GGCCAAAATTTTGCAAAAACTGTCCCGAAAAA-TTTTTCCTCAATTTTTGGCCACAATACTCATA
* ** * * * ** * * * *
108716 AAAAATATATAATTCAAATCCAAAAAGACTGAAAGGCTTTAGACGCTTC-AATTTTCGTTTTT-G
384 AAAAATATATAACTCAACGCCAAAAA-ATTTAAGGGCTTTTCATGCTTCTAATATT-ATTTTTCC
*
108779 TAATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACAAATC
447 T-A-TTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACATATC
* * * * * * * * ** *
108844 CTTAAATCAAATGTGGCTGAGAATTGGCTAGATGAATATATATATTTCAATGACACTTGGC-ACC
510 CTTAAATCCATTGTGGCTGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCTT-GCTGCC
* * * * * * **
108908 AAAAATCATGCAAAACTGTGTCGGGGCCCAAGAACACATTTTTAGCC-AAAA---TCATT-CAAG
574 AAAAATCATCCAAAACTGTGTCGGAGCCCAGGAACGCGTTTTTAGCCAAAAACTGTGATTGTTAG
*
108968 TACACGATTTCGGTCAAAATTT
639 TACACGATTTCGGCCAAAATTT
* *
108990 TGCAAAAACTGTCCCGAACAATTTTTCCTCAATTTTTTGCCACAATACTCATAAAAAATATATAA
1 TGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
* * *
109055 CTC-AACGCCAACAAAATTTAGGGGCTTTTCAGGCTTCTAATATCATTTTTCCTATTTTTCCGAA
66 CTCAAACGACAACAAAATTTAAGGGCTTTTCAGGCTTCTAATATCATTTTT-CTATTTTTCCAAA
* ** *
109119 TTGATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAATTATTCTTAAATCCATTGTG
130 TTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAAAATCCTTAAATCCATTGTG
* *
109184 GCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCATGCTGCCAAAAAACATGCAAAAC
195 GCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAAAC
*** * * * *
109249 TAAATCGGGGTCCCAGAACGCGCGTTTTTAG-CACAACACAGTGATGGATAGTACACAATTTCGG
260 TGTTTCGGGGCCCCAGAA--CGCGTTTTTAGCCA-AAAACAGTGATGGTTAGTACACGATTTCGG
* * * * *
109313 CCAAAATTTTGCAAAAACTGTCTCGAAAAATATATCCTCAATTTTTTGCCACAATACTCATAACA
322 CCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAAA
* * * * *
109378 AATATATAATTCAACGCTAATCAATTTTAAGGGCTTTTCATGCTTCTAATATAATTTTTCCTATT
387 AATATATAACTCAACGCCAA-AAAATTTAAGGGCTTTTCATGCTTCTAATATTATTTTTCCTATT
* * *
109443 TTTCTGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAACCTTATCCTTAAA
451 TTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACATATCCTTAAA
* *
109508 TCCATTGTGTCTGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCATGCTGCCAAAAATC
516 TCCATTGTGGCTGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCTTGCTGCCAAAAATC
* *
109573 ATCCAAAACTGTG-CTGGGGCCTAGGAACGCGTTTTTAGCCAAAAACTGTGATTGTTAGTACACG
581 ATCCAAAACTGTGTC-GGAGCCCAGGAACGCGTTTTTAGCCAAAAACTGTGATTGTTAGTACACG
*
109637 ATCTCGGCCAAAATTT
645 ATTTCGGCCAAAATTT
109653 TGCAAAAACTGTCCCGAAAAATT
1 TGCAAAAACTGTCCCGAAAAATT
109676 AATTTCTAAT
Statistics
Matches: 1710, Mismatches: 237, Indels: 122
0.83 0.11 0.06
Matches are distributed among these distances:
656 1 0.00
657 207 0.12
658 211 0.12
659 129 0.08
660 12 0.01
661 126 0.07
662 168 0.10
663 462 0.27
664 251 0.15
665 96 0.06
666 42 0.02
667 5 0.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.33
Consensus pattern (660 bp):
TGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
CTCAAACGACAACAAAATTTAAGGGCTTTTCAGGCTTCTAATATCATTTTTCTATTTTTCCAAAT
TAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAAAAATCCTTAAATCCATTGTGG
CTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAAACT
GTTTCGGGGCCCCAGAACGCGTTTTTAGCCAAAAACAGTGATGGTTAGTACACGATTTCGGCCAA
AATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATA
TATAACTCAACGCCAAAAAATTTAAGGGCTTTTCATGCTTCTAATATTATTTTTCCTATTTTTCC
GAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACATATCCTTAAATCCAT
TGTGGCTGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATCCA
AAACTGTGTCGGAGCCCAGGAACGCGTTTTTAGCCAAAAACTGTGATTGTTAGTACACGATTTCG
GCCAAAATTT
Found at i:108469 original size:995 final size:986
Alignment explanation
Indices: 107005--109675 Score: 4152
Period size: 995 Copynumber: 2.7 Consensus size: 986
106995 CAAAAAATCA
107005 TGCAAAAACTGTCCCGAAAATTTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
1 TGCAAAAACTGTCCCGAAAA-TTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
* * * * * *
107070 CTCAATGCCAATAAAATTTAAAGGATTTTCAGGATTCTAATATAATTTTCCCTATTTTTCAGAAT
65 CTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATAATTTTTCCTATTTTTCCGAAT
* * *
107135 TAATTTCTAATTAAATCGAAGCATAAATCAGATGCTCGTAAAAAAATTATCCTTAAATCCATTGT
130 TAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGT--AAAAATTATTCTTAAATCCATTGT
*
107200 GACTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAAA
193 GGCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAAA
* * * *
107265 CTAAGTTGGGGCCCCAGAGCGCGTGTTTTTAGCTAAAAACAGTGATGGTTAGTACACGATTTCGG
258 CTAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCAAAAAACAGTGATGGTTAGTACACGATTTCGG
* *
107330 CCAAAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCACTTTTTGGCCACAATACGCATAAAA
323 CCAAAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCACTTTTTAGCCACAATACTCATAAAA
*
107395 AATATATAACTCATCGCT-AAAAAATTTAAGGGCTTTTCATGCTTATAATATCGGTTTTCCT-AT
388 AATATATAACTCATCGCTAAAAAAATTTAAGGGCTTTTCATGCTTATAATATC-GTTTTTCTAAT
* * **
107458 TTTCCGAATTAATTTCTAACTAAAAT-GAAACATAATTAAGATGCTCGTAAAAAATTATCCTTAA
452 TTTCCGAATTAATTTCTAA-TTAAATCGAAACATAATTCAGATGCTCGTAAAACCTTATCCTTAA
* * * * * *
107522 ATCC-TCTGTGTCTGAGATTTGATTAGATGAAAATAGATAATTTAAGGAATCTTACTGCCAGATA
516 ATCCAT-TGTGTCTGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCTTGCTGCCA-AAA
*
107586 TCATCCAAAACTGTGTCGGAGCCTAGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACAC
579 TCATCCAAAACTGTG-CGGGGCCTAGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACAC
*
107651 GATTTCGGCCAAAATTTTGCAAAAACTGCCCCGAAAAATTTTTCCTCAATTTTTGGCCACAACAC
643 GATTTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAACAC
*
107716 TCAT-AAAAATATATAATTCAAA-CACAAAAAGACTGAAGGGCTTTAGACGCTTCAATTTTCGTT
708 TCATAAAAAATATATAATTCAAATC-CAAAAAGACTGAAAGGCTTTAGACGCTTCAATTTTCGTT
107779 TTTCTAAGTTTTTCCAAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACA
772 TTTCTAAGTTTTTCCAAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACA
* * *
107844 AATCCTTAAATCCATTGTGGCTGAGAATTGGTTAGATGAATATAGATATTTCAATGACACTTAGC
837 AATCCTTAAATCAAATGTGGCTGAGAATTGGCTAGATGAATATAGATATTTCAATGACACTTAGC
* * * ** *
107909 GCCAAAAAATCATGCAAAACTGTTTCGGGGCCCATGAATGCATTTTTAGCCAAAAACTGTGATGT
902 ACC-AAAAATCATGCAAAACTGTGTCGGGGCCCAAGAACACATTTTTAGCC-AAAA---TCAT-T
** *
107974 TTAGTGCACGATTTAAGCCAAAATTT
961 CAAGTACACGATTTAAGCCAAAATTT
108000 TGCAAAAACTGTCCCGAAAACTTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
1 TGCAAAAACTGTCCCGAAAA-TTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
* * *
108065 CTCAACGCCAATAAAATTTAAGGGCTATTCAGTCTTCTAATATTATTTTTCCTATTTTTCCGAAT
65 CTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATAATTTTTCCTATTTTTCCGAAT
*
108130 TAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAGAACTATTCTTAAATCCATTGTG
130 TAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAA-AATTATTCTTAAATCCATTGTG
*
108195 GCTGAGATTTGGTTAAATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAAAC
194 GCTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAAAC
* * * *
108260 TAAGTCGGAGCCCCAGAACGCGCGTTTTTAGCAAAAAACAGTGATTGTTAGTAAACGATTTTGGC
259 TAAGTCGGGGCCCCAGAACGCGCGTTTTTAGCAAAAAACAGTGATGGTTAGTACACGATTTCGGC
* *
108325 CAAAATTTTGCAAAAACTATCCCGAAAATTTTTTCCTCACTTTTTAACCA-AAGTACTCATAAAA
324 CAAAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCACTTTTTAGCCACAA-TACTCATAAAA
* *
108389 AATATATAACTCATTGCTAAAAAAATTTAAGGGCTTTTCATGCTTATAATATCGTTTTTTTAATT
388 AATATATAACTCATCGCTAAAAAAATTTAAGGGCTTTTCATGCTTATAATATCGTTTTTCTAATT
108454 TTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAACCTTATCCTTAAAT
453 TTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAACCTTATCCTTAAAT
*
108519 CCATTGTGTGTGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCTTGCTGCCAACAATCA
518 CCATTGTGTCTGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCTTGCTGCCAA-AATCA
* *
108584 TCCAAAACTGTGACGGGGCTTAGGAACGCGTTTTTAGCCAAAAACTATGATGGTTAGTACACGAT
582 TCCAAAACTGTG-CGGGGCCTAGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGAT
* *
108649 TTCGGCCAAAATTTTGCAAAAACTGTCCC-AAAAATTTTTTCCTCTATTTTTGGCCACAACACTG
646 TTCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAA-TTTTTCCTCAATTTTTGGCCACAACACTC
108713 ATAAAAAATATATAATTCAAATCCAAAAAGACTGAAAGGCTTTAGACGCTTCAATTTTCGTTTTT
710 ATAAAAAATATATAATTCAAATCCAAAAAGACTGAAAGGCTTTAGACGCTTCAATTTTCGTTTTT
* * *
108778 GTAATTTTTTCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACAAAT
775 CTAAGTTTTTCCAAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACAAAT
* *
108843 CCTTAAATCAAATGTGGCTGAGAATTGGCTAGATGAATATATATATTTCAATGACACTTGGCACC
840 CCTTAAATCAAATGTGGCTGAGAATTGGCTAGATGAATATAGATATTTCAATGACACTTAGCACC
108908 AAAAATCATGCAAAACTGTGTCGGGGCCCAAGAACACATTTTTAGCCAAAATCATTCAAGTACAC
905 AAAAATCATGCAAAACTGTGTCGGGGCCCAAGAACACATTTTTAGCCAAAATCATTCAAGTACAC
** *
108973 GATTTCGGTCAAAATTT
970 GATTTAAGCCAAAATTT
*
108990 TGCAAAAACTGTCCCGAACAATTTTTCCTCAATTTTTTGCCACAATACTCATAAAAAATATATAA
1 TGCAAAAACTGTCCCGAA-AATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAA
* * *
109055 CTCAACGCCAACAAAATTTAGGGGCTTTTCAGGCTTCTAATATCATTTTTCCTATTTTTCCGAAT
65 CTCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATAATTTTTCCTATTTTTCCGAAT
*
109120 TGATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAATTATTCTTAAATCCATTGTGG
130 TAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAATTATTCTTAAATCCATTGTGG
* *
109185 CTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCATGCTGCCAAAAAACATGCAAAACT
195 CTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAAACT
* * * * * *
109250 AAATCGGGGTCCCAGAACGCGCGTTTTTAGCACAACACAGTGATGGATAGTACACAATTTCGGCC
260 AAGTCGGGGCCCCAGAACGCGCGTTTTTAGCAAAAAACAGTGATGGTTAGTACACGATTTCGGCC
* * * * * * *
109315 AAAATTTTGCAAAAACTGTCTCGAAAAATATATCCTCAATTTTTTGCCACAATACTCATAACAAA
325 AAAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCACTTTTTAGCCACAATACTCATAAAAAA
* * ** * * ** *
109380 TATATAATTCAACGCTAATCAATTTTAAGGGCTTTTCATGCTTCTAATATAATTTTTCCTATTTT
390 TATATAACTCATCGCTAAAAAAATTTAAGGGCTTTTCATGCTTATAATATCGTTTTT-CTAATTT
*
109445 TCTGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAACCTTATCCTTAAATC
454 TCCGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAACCTTATCCTTAAATC
*
109510 CATTGTGTCTGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCATGCTGCCAAAAATCAT
519 CATTGTGTCTGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCTTGCTGCC-AAAATCAT
* *
109575 CCAAAACTGTGCTGGGGCCTAGGAACGCGTTTTTAGCCAAAAACTGTGATTGTTAGTACACGATC
583 CCAAAACTGTGC-GGGGCCTAGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATT
109640 TCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATT
647 TCGGCCAAAATTTTGCAAAAACTGTCCCGAAAAATT
109676 AATTTCTAAT
Statistics
Matches: 1542, Mismatches: 118, Indels: 37
0.91 0.07 0.02
Matches are distributed among these distances:
989 241 0.16
990 403 0.26
991 12 0.01
993 5 0.00
994 235 0.15
995 464 0.30
996 181 0.12
997 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.33
Consensus pattern (986 bp):
TGCAAAAACTGTCCCGAAAATTTTTCCTCAATTTTTGGCCACAATACTCATAAAAAATATATAAC
TCAACGCCAATAAAATTTAAGGGCTTTTCAGGCTTCTAATATAATTTTTCCTATTTTTCCGAATT
AATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAATTATTCTTAAATCCATTGTGGC
TGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCTGCCAAAAATCATGCAAAACTA
AGTCGGGGCCCCAGAACGCGCGTTTTTAGCAAAAAACAGTGATGGTTAGTACACGATTTCGGCCA
AAATTTTGCAAAAACTATCCCGAAAAATTTTTCCTCACTTTTTAGCCACAATACTCATAAAAAAT
ATATAACTCATCGCTAAAAAAATTTAAGGGCTTTTCATGCTTATAATATCGTTTTTCTAATTTTC
CGAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAACCTTATCCTTAAATCCA
TTGTGTCTGAGATTTGGTTAGATGAAAATAAATATTTTAAGGAGTCTTGCTGCCAAAATCATCCA
AAACTGTGCGGGGCCTAGGAACGCGTTTTTAGCCAAAAACTGTGATGGTTAGTACACGATTTCGG
CCAAAATTTTGCAAAAACTGTCCCGAAAAATTTTTCCTCAATTTTTGGCCACAACACTCATAAAA
AATATATAATTCAAATCCAAAAAGACTGAAAGGCTTTAGACGCTTCAATTTTCGTTTTTCTAAGT
TTTTCCAAATTAATTTCTAATTAAATCGAAACATAATTCAGATGCTCGTAAAAACAAATCCTTAA
ATCAAATGTGGCTGAGAATTGGCTAGATGAATATAGATATTTCAATGACACTTAGCACCAAAAAT
CATGCAAAACTGTGTCGGGGCCCAAGAACACATTTTTAGCCAAAATCATTCAAGTACACGATTTA
AGCCAAAATTT
Found at i:111267 original size:336 final size:334
Alignment explanation
Indices: 109741--114968 Score: 5155
Period size: 336 Copynumber: 15.8 Consensus size: 334
109731 CCATTGTGGT
* ** * *
109741 TGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTT-GCTGACAAAAATCATGCAAAACT
1 TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGC-GCCAAAAATAATGCAAAACT
* * * * * * *
109805 -ATGTCAGGGCCTCAGAACGCGCGTTTTTAGC-ACATAA-TAGTGATGGTTAGTA-AGCGATTTC
65 GA-GCCGGGGCC-CTGGA-GCGCGTTTTTTGCTAAAAAACT-GTGATGG-TAGTACA-CGATTTC
** * * * * * * * * *
109866 GGCCAAAAGTTTGCAAAAACT-ATCCCGAAAAATTTTT-CCTCACTTTTTGGCCAAAATAGTCAT
124 GGCTTAAATTTTCCAAAAATTGA-ACCG-AAAGTTTTTCCCTCAATTTTTGGTCACAATACTCAT
* * * * ** *
109929 AAAAAATATATAACTCATCGCTAAA-ATA-ATTTAAGGGCTTTTCATTCTTATAATATCGTTTTT
187 AAAAAGTATATAATTCATCGCCAAAGA-AGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTT
* * * * **** * * **
109992 CC----TATTTTCCGAAGTAATTTTTAATTAAATCGAAACATAATTCAGATGCTCGTAAAACCTT
251 CCTGTTTTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAA
*
110053 TTCCTTAAATC---CATTGTTTC
316 ATCCTTAAATCTGACA-TG---C
* ** * * * *
110073 TGAGATTTTGTTAGATGGAA-ATAGATATTTTAAGGAGACTT-GCTGCCAACAATCATCCAAAAC
1 TGAGATTTGGTTAGAT-GAATATAGATATTACAAGGAGTCTTGGC-GCCAAAAATAATGCAAAAC
* * * * * * *
110136 TGTGCCAGGG-CCTAGGAACACGTTTTTGGC-CAAAAATTGTGATGGTTAGTACACGATTTCGGC
64 TGAGCCGGGGCCCT-GGAGCGCGTTTTTTGCTAAAAAACTGTGATGG-TAGTACACGATTTCGGC
** * * ** * * * *
110199 CAAAATTTTGCAAAAACTGTCCCAAAAATTTTTTCCTCAATTTTT-GTCCACAACACTCATAAAA
127 TTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGT-CACAATACTCAT-AAA
* * ** *
110263 AAATATATAATTCAAATCG--AAA-AAGACTGAAGGGCTTTAGACGCTTC-AATTTTCGTTTTT-
190 AAGTATATAATTC--ATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAA-TATCGTTTTTC
** * * **** *
110323 CT-AATTTTTTCAGAATTAATTTCTAATTAAATGGAAACATAATTCAGATGCTCGTAAAAACAAA
252 CTGTTTTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAA
** **
110387 TCCTTAAATCCAATGTGGC
317 TCCTTAAATCTGACAT-GC
* * * * ** *
110406 TGAGAATTGGTTATATGAATATAGATATTTCAATGACACTTGGCGCCAAAAATCATGCAAAACTG
1 TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACTG
* * * ** * * * * * * * **
110471 TGTCGGGGCACAAGAACACATTTTTAGCCAAAATCAC--TCA----AGTACACGATTTCGGCCAA
66 AGCCGGGGCCCTGGAGCGCGTTTTTTGCTAAAA-AACTGTGATGGTAGTACACGATTTCGGCTTA
* * ** * * * *
110530 AATTTTGCAAAAACTGTCCCGAAAAATTATT-CCTCAATTTTTGGCCACAATACTCATAAAAAAT
130 AATTTTCCAAAAATTGAACCG-AAAGTTTTTCCCTCAATTTTTGGTCACAATACTCATAAAAAGT
** * * * * * **
110594 ATATAGCTCAACGCCAATA-AA-ATTTAAGGGCTTTTCAGGCATCTAATATCATTTTTCC--AAT
194 ATATAATTCATCGCCAA-AGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTGTTT
* * **** ** * *
110655 TTTTT-CGAATTGATTTCTAATTAAATCGAAACATAATTCAAATGCTCGTAAAAA-ATTATTCTT
258 TTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACA-AATCCTT
110718 AAATC---CATTGTC
322 AAATCTGACA-TG-C
* ** *
110730 GATGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTT-GCTGCCAAAAATCATGCAAAA
1 --TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGC-GCCAAAAATAATGCAAAA
* * * * * * * * * *
110794 CTAAGTCGGGGCCTCCGAACGTGCATTTTTAGC-ACAAAACAGTGATGGTTAGTACATGATTTCG
63 CTGAGCCGGGGCC-CTGGA-GCGCGTTTTTTGCTAAAAAACTGTGATGG-TAGTACACGATTTCG
*
110858 GCTTAAATTTTTCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCACAATACTCATAAA
125 GCTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCACAATACTCATAAA
** * * *
110923 GCGTATATAATTCATCGTCTAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGGTTTTCCTG
190 AAGTATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTG
* *
110988 TTTTTTTTCTGAATTAATTTCTAATTAAAATGAAACCGGTTTCTGATGCTCGTAAAAACAAATCC
255 TTTTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCC
111053 TTAAATCTGACATGC
320 TTAAATCTGACATGC
* * *
111068 ATGAGATTTGGTTAGATTAATATAGATATTACAAGGAGTCTTGGCGCAAAAAATAATACAAAACT
1 -TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACT
* * *
111133 GAGCCGGGGCCCTAGAGCGCGTTTTTTGCTAAAACACTGTGATGGTCAGTACAAGATTTCGGCTT
65 GAGCCGGGGCCCTGGAGCGCGTTTTTTGCTAAAAAACTGTGATGGT-AGTACACGATTTCGGCTT
* *
111198 AAATTTTCCAAAAATTGAACCTAAAGTTTTTCCCTCAATTTTTGGTCACAATACTCATAAAACGT
129 AAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCACAATACTCATAAAAAGT
*
111263 ATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCGGTTTT
194 ATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTGTTTT
* * *
111328 TTGTCCGAATTAATTTCTAATTAAATTGAAACCAGTTTCTAATGCTCGTAAAAACAAATCCTTAA
259 TTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTAA
111393 ATCTGACATGCC
324 ATCTGACATG-C
* *
111405 TGAGATTTGGTTAGATGAATATAGATATTACAAGGTGTCTTGGTGCCAAAAATAATGCAAAACTG
1 TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACTG
* *
111470 AGCCGGGACCCCGGAGCGCGTTTTTTGCTAAAAAACTGTGATGGTTAGTACACGATTTCGGCTTA
66 AGCCGGGGCCCTGGAGCGCGTTTTTTGCTAAAAAACTGTGATGG-TAGTACACGATTTCGGCTTA
*
111535 AATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCACAATACTCATAAAACGTA
130 AATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCACAATACTCATAAAAAGTA
* * * *
111600 CATAATTCATTGCCAAAGAAGATTGAAGGGCTTTTCAGGCTTCTAATATCGTTTTTCCCG-TTTT
195 TATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTGTTTTT
** * *
111664 TTTCATAAATAATTTATAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTAAA
260 TTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTAAA
*
111729 TCTGTCATGCC
325 TCTGACATG-C
111740 TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACTG
1 TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACTG
* * *
111805 AGCCGGGGCCCCGGAGCGCGTTTTTTGCTAAAAAAACTGTGAT--AACGGACACGATTTCGGCTT
66 AGCCGGGGCCCTGGAGCGCGTTTTTTGCT-AAAAAACTGTGATGGTA-GTACACGATTTCGGCTT
111868 AAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCCTCAATTTTTGGTCACAATACTCATAAAAAG
129 AAATTTTCCAAAAATTGAACCGAAAGTTTTT-CCCTCAATTTTTGGTCACAATACTCATAAAAAG
* *
111933 TTATACAATTCATCGCGAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTG--
193 -TATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTGTT
*
111996 TTTTTTCGGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAGAAACAAATCCT
257 TTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAA-AAACAAATCCT
112061 TAAATCTGACATGCC
321 TAAATCTGACATG-C
* * * **
112076 TGAGATTTGGTTAGATGAATATACATATTAGAAGGAGTCTTGGTGCCAAAAATAATGCACTACTG
1 TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACTG
* * * * *
112141 AGTCAGGGCCCCGTAACGCGTTTTTTGCTAAAAAACTGTGATGGTGAGTACACGATTTCGGCTTA
66 AGCCGGGGCCCTGGAGCGCGTTTTTTGCTAAAAAACTGTGATGGT-AGTACACGATTTCGGCTTA
* *
112206 TATTTTCCAAAAATTGAACCGAAAGTTTTTCCTTCAATTTTTGGTCACAATACTCATAAAAAGTA
130 AATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCACAATACTCATAAAAAGTA
* *
112271 TATAAGTCAATCGCCGAAA-AAGATTGAAGGGCTTTTCACGCTTCTAATATCATTTTTCCTG-TT
195 TATAATTC-ATCGCC-AAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTGTTT
*
112334 TTTTTCCGAATTAATTTATAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTA
258 TTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTA
*
112399 AATCTTACATGC
323 AATCTGACATGC
* *
112411 TTGTGATTTGGTTAGATGAATATAGATATTACAAGGATTCTTGGCGCCAAAAATAATGCAAAACT
1 -TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACT
* * *
112476 GAGCCGGGGCTCCCGGAGCGCGTTTTTTGCTAAAAAACTGTAAT--TAGTACACAATTTCGGCTT
65 GAGCCGGGGC-CCTGGAGCGCGTTTTTTGCTAAAAAACTGTGATGGTAGTACACGATTTCGGCTT
* *
112539 AAATTTTCCAAAAATTGAACCGAAATTTTTTCCCCCAATTTTTGGTCACAATACTCATAAAAAGT
129 AAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCACAATACTCATAAAAAGT
* *
112604 ATATAATTCATCGCCAAAGAATATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTATTTT
194 ATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTGTTTT
112669 TTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTAA
259 TTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTAA
112734 ATCTGACATGCC
324 ATCTGACATG-C
* *
112746 TGAGATTTGGTTAGATGAATATAGATATTACAAGAAGTGTTGGCGCCAAAAATAATGCAAAACTG
1 TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACTG
*
112811 AGCCGGGGGCTCC-GGAGCGCCTTTTTTTGCTAAAAAAACT-T--T-G-A-TACACGATTTCGGC
66 AGCC-GGGGC-CCTGGAGCG-CGTTTTTTGCT-AAAAAACTGTGATGGTAGTACACGATTTCGGC
*
112869 TTAAATTTTCCAAAAATTGAACCGAAAG-TTTTCCCTCAATTTTTGGTCACAATACTCATAAAAT
127 TTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCACAATACTCATAAAAA
* * * * * *
112933 GTATATAATT-ATTGCCAAAGAAGATTGAAAGGCTTTTCACACTTGTATTAACGTTTTTCCTG-T
192 GTATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTGTT
* ** *
112996 TTTTTTCCGAATTAATTTCTAATTAAATTGAAACTGGTTTCTGATGCAAGTGAAAACAAATCCTT
257 TTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTT
113061 AAATCTGACATGTC
322 AAATCTGACATG-C
* *
113075 TGAGATTTGGTCAGATGAATATAGATATTACAAGGAGTCTTGGCACC-AAAATAATGCAAAACTG
1 TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACTG
113139 AGCCGGGGCTCC-GGAGCGCGTTTTTTGCTAAAAAACTGTGATGGTTAGTACACGATTTCGGCTT
66 AGCCGGGGC-CCTGGAGCGCGTTTTTTGCTAAAAAACTGTGATGG-TAGTACACGATTTCGGCTT
* * *
113203 AAATTTTCCAAAAATTGAACCGAATGTTTTTCCCTCAA-TTTTGGTTACAATACTCATAAAATGT
129 AAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCACAATACTCATAAAAAGT
* *
113267 ATATAATTCATCGCCAGAGAAGATTGAAGGGCTTTTCACACTTCTAATATCGTTTTTCCTG-TTT
194 ATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTGTTTT
*
113331 TTTTCCGAATTAATTTCTAATTAAATTGAAACTGGTTTCTGATGCTCGTAAAAACAAATCCTTAA
259 TTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTAA
113396 ATCTGACATGCC
324 ATCTGACATG-C
113408 TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACTG
1 TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACTG
113473 AGCCGGGGCTCC-GGAGCGCGTTTTTTGCTAAAAAAC--TG-T-G-A-TACACGATTTCGGCTTA
66 AGCCGGGGC-CCTGGAGCGCGTTTTTTGCTAAAAAACTGTGATGGTAGTACACGATTTCGGCTTA
* *
113531 AATTTTCCAAAAATTGAACCGAAAGGTTTTCCCTCAATTTTTGGTCACAATACTCATAAAATGTA
130 AATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCACAATACTCATAAAAAGTA
* * * *
113596 TATAATTCATCACC-AACAAGATTGAAGGGCTTTTAACG-TTGCTAATATCGTTTTTCCT-ATTT
195 TATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTT-CTAATATCGTTTTTCCTGTTTT
* * * **** * * ** *
113658 TTTCCCGAATTAATTTCAAATTAAATCGAAACATAATTCAGATGCTTGTAAAAACAAATGTTTAT
259 TTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTAA
** *
113723 ATCCAATATGGC
324 ATCTGACAT-GC
* * * * * * *
113735 TGAGATTTGGTTAAATGAATATAGATATCT-CAATGAATCTTGGTGCCAAAAATCATGTAAAACA
1 TGAGATTTGGTTAGATGAATATAGATAT-TACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACT
* * *** * * * * * *
113799 GAGCCGGGTCTC-GGAATTCATTTTTAGC-CAAAAAGTGTGCTGGTTCGTACACGATTTCGG-TT
65 GAGCCGGGGCCCTGGAGCGCGTTTTTTGCTAAAAAACTGTGATGG-TAGTACACGATTTCGGCTT
* * * * * *
113861 AAAATTTTACAAAAGTTGACCCGTTTAA-TTTTT-CCTCTATTTTTGGCCACAATACTCATAAAA
129 -AAATTTTCCAAAAATTGAACCG--AAAGTTTTTCCCTCAATTTTTGGTCACAATACTCAT-AAA
* * * * * * *
113924 AAATATATAATTCATCGCCAAA-AAAATGGAACGCCTTTTCATGATTCTAATATCGTTTTTCC--
190 AAGTATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTG
* * * * * *
113986 TATTTTTTCTGAATTAATTTTTAATTAAATTGAAACCGCTTTCTGACGCTCATAAAAACAAATCC
255 TTTTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCC
*
114051 TTAAATC-CA-ATGTTC
320 TTAAATCTGACATG--C
* ** * * ** * * *** *
114066 TTGAGATTCGACTAGATGAATATGGATATTTCAATTACTGTAAACGCCAAAAATCATGCAAAACT
1 -TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACT
* * * ** * ** * * *
114131 GAGCCGGGGCCCCGAAACGCGTTTTTAAC-CAAAAACCATGATGGTAAATACACGAGTTCGGGTT
65 GAGCCGGGGCCCTGGAGCGCGTTTTTTGCTAAAAAACTGTGATGGT-AGTACACGATTTCGGCTT
* * * * * *
114195 AAATTTTGCAAAAATTGAACCAAAAGTTTCTACCTCAATTTTTGGTCACAATACTCATAATATGT
129 AAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCACAATACTCATAAAAAGT
*
114260 ATATAATTCATC-CACAAA-AAGATTGAAGGGTTTTTCACGCTTCTAATATCGTTTTTCC--TTT
194 ATATAATTCATCGC-CAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTGTTT
* ***** * * *
114321 TTTTTCCGAATTAATTTCTAATTAAATCGAAATATAATTCAGATACTCGTAAAAACAAATCCTCA
258 TTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTA
* **
114386 AATCTAATGTTGC
323 AATCTGA-CATGC
* ** ** * *
114399 TGAGATTTGGTTAGAAGAATATAGATATTTGAATAAGTCTTGGTGCCAAAAATCATGCAAAACTG
1 TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACTG
** * * ** * * *
114464 AGCC-GGG-CCTCGGAATGCATTTTTAGCT-AAAAACAATGAT--T--T---CGGTTTC--CCTC
66 AGCCGGGGCCCT-GGAGCGCGTTTTTTGCTAAAAAACTGTGATGGTAGTACACGATTTCGGCTTA
* * * * * *
114517 AATTTTCCAAAAAGTGACCCGAATGATTTTT-CCT-AATTTTTGGCCACAATTCTCATAAAAAAT
130 AATTTTCCAAAAATTGAACCGAAAG-TTTTTCCCTCAATTTTTGGTCACAATACTCATAAAAAGT
* * * * * * * * * *
114580 ATATAATTCATCGCCAAAAAAAATAGGAAGGACTTTTTACGCATGTGATATCGTTTTTCCTATAT
194 ATATAATTCATCGCCAAAGAAGAT-TGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTGTTT
* * * * *
114645 TTTAT--GAATTAATTTCTAATAAAACTGAAACTGGTTTCTGATGTTCGTAAAAACAAATCCTTA
258 TTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTA
* ** **
114708 AACCCAATGTGTC
323 AATCTGACATG-C
* * * ** * * * * * * *
114721 TGAGATTCGATTAGATGAATATAGATATTTCAATTACTGTAGGAGCAAAAAATCATGCAAAACTA
1 TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACTG
* * * * * * ** * * *
114786 AGTCGCGACTCTAGAACGCGTTTTGAGC-CAAAAACTGTGATGGTTAGTACATGATTTCAG-TTA
66 AGCCGGGGCCCTGGAGCGCGTTTTTTGCTAAAAAACTGTGATGG-TAGTACACGATTTCGGCTT-
* * * * * * *
114849 AAATTTTGCAGAAATTGATCCGAATGATTTTCCTTCAATTTTTGG-CAACAATATTCATAAAAA-
129 AAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTC-ACAATACTCATAAAAAG
* * * * * *
114912 -A-AGGAATTCATTGCCAAA-AAAATGGAACGGCTTTTCACGCTTCTAATATCATTTTTC
193 TATA-TAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTC
114969 TGAATTAATA
Statistics
Matches: 4209, Mismatches: 537, Indels: 302
0.83 0.11 0.06
Matches are distributed among these distances:
320 40 0.01
321 31 0.01
322 141 0.03
323 29 0.01
324 10 0.00
325 19 0.00
326 146 0.03
327 285 0.07
328 145 0.03
329 141 0.03
330 156 0.04
331 139 0.03
332 549 0.13
333 598 0.14
334 402 0.10
335 302 0.07
336 822 0.20
337 245 0.06
338 5 0.00
339 2 0.00
340 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (334 bp):
TGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAAAACTG
AGCCGGGGCCCTGGAGCGCGTTTTTTGCTAAAAAACTGTGATGGTAGTACACGATTTCGGCTTAA
ATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCACAATACTCATAAAAAGTAT
ATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTGTTTTTT
TTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTAAAT
CTGACATGC
Found at i:111906 original size:671 final size:667
Alignment explanation
Indices: 109672--114968 Score: 5283
Period size: 671 Copynumber: 8.0 Consensus size: 667
109662 TGTCCCGAAA
** * * * * *
109672 AATTAATTTCTAATTAAATCAAAACA-TTATTCAGATGCTCG-AAAAA-ATTATTCTTAAATCCA
1 AATTAATTTCTAATTAAATTGAAACAGGT-TTCTGATGCTCGTAAAAACA-AATCCTTAAATCTA
** ** * ** * *
109734 TTGTGGTTGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTT-GCTGACAAAAATCATG
64 TCATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGC-GCCAAAAATAATG
* * * * * * * * *
109798 CAAAACT-ATGTCAGGGCCTCAGAACGCGCGTTTTTAGC-ACATAATAGTGATGGTTA-GTA-AG
128 CAAAACTGA-GCCGGGGCC-CCGGA-GCGCGTTTTTTGCTA-AAAAAACTG-TGATTACGTACA-
** * * * * * * *
109859 CGATTTCGGCCAAAAGTTTGCAAAAACT-ATCCCGAAAAATTTTT-CCTCACTTTTTGGCCAAAA
187 CGATTTCGGCTTAAATTTTCCAAAAATTGA-ACCG-AAAGTTTTTCCCTCAATTTTTGGCCACAA
* * * * ** *
109922 TAGTCATAAAAAATATATAACTCATCGCTAAA-ATA-ATTTAAGGGCTTTTCATTCTTATAATAT
250 TACTCATAAAAAATATATAATTCATCGCCAAAGA-AGATTGAAGGGCTTTTCACGCTTCTAATAT
* * * **** *
109985 CGTTTTTCCTA---TTTTCCGAAGTAATTTTTAATTAAATCGAAACATAATTCAGATGCTCGTAA
314 CGTTTTTCCTATTTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAA
* *** * * **
110047 AACCTTTTCCTTAAATC---CATTGTTTCTGAGATTTTGTTAGATGGAA-ATAGATATTTTAAGG
379 AAACAAATCCTTAAATCTGACA-TG--CCTGAGATTTGGTTAGAT-GAATATAGATATTACAAGG
* * * * * * * ** * * * *
110108 AGACTTGCTGCCAACAATCATCCAAAACTGTGCCAGGGCCTAGGAACACGTTTTTGGCCAAAAAT
440 AGTCTTGGTGCCAAAAATAATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTTGCAAAAAAC
** * * ** * * *
110173 TGTGATGGTTAGTACACGATTTCGGCCAAAATTTTGCAAAAACTGTCCCAAAAATTTTTTCCTCA
505 TGTGATGGTTAGTACACGATTTCGGCTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCA
* ** * * *
110238 ATTTTT-GTCCACAACACTCATAAAAAAATATATAATTCAAAT-CGAAAAAGACTGAAGGGCTTT
570 ATTTTTGGT-CACAATACTCAT-AAAATGTATATAATTC-ATTGCCAAAAAGATTGAAGGGCTTT
** * ** *
110301 AGACGCTTC-AATTTTCGTTTTT-CTAATTTTTTCAG
632 TCACGCTTCTAA-TATCGTTTTTCCTGTTTTTTTCCG
* *** * *
110336 AATTAATTTCTAATTAAATGGAAACATAATTCAGATGCTCGTAAAAACAAATCCTTAAATCCAAT
1 AATTAATTTCTAATTAAATTGAAACAGGTTTCTGATGCTCGTAAAAACAAATCCTTAAAT-CTAT
* * * * * * ** *
110401 -GTGGCTGAGAATTGGTTATATGAATATAGATATTTCAATGACACTTGGCGCCAAAAATCATGCA
65 CATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCA
* * * ** * * * * * ** *
110465 AAACTGTGTCGGGGCACAAGAACACATTTTTAGCCAAAATCAC--TCA--A-GTACACGATTTCG
130 AAACTGAGCCGGGGCCCCGGAGCGCGTTTTTTGCTAAAAAAACTGTGATTACGTACACGATTTCG
** * * ** * *
110525 GCCAAAATTTTGCAAAAACTGTCCCGAAAAATTATT-CCTCAATTTTTGGCCACAATACTCATAA
195 GCTTAAATTTTCCAAAAATTGAACCG-AAAGTTTTTCCCTCAATTTTTGGCCACAATACTCATAA
** * * * * *
110589 AAAATATATAGCTCAACGCCAATA-AA-ATTTAAGGGCTTTTCAGGCATCTAATATCATTTTTCC
259 AAAATATATAATTCATCGCCAA-AGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCC
* * * **** ** *
110652 -AATTTTTT-CGAATTGATTTCTAATTAAATCGAAACATAATTCAAATGCTCGTAAAAA-ATTAT
323 TATTTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACA-AAT
* * * ** *
110714 TCTTAAATC---CATTGTCGATGAGATTTGGTTAGATGAATATAAATATTTTAAGGAGTCTTGCT
387 CCTTAAATCTGACA-TG-C-CTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGT
* * * * * * *
110776 GCCAAAAATCATGCAAAACTAAGTCGGGGCCTCC-GAACGTGCATTTTTAGCACAAAACAGTGAT
449 GCCAAAAATAATGCAAAACTGAGCCGGGGCC-CCGGAAC--GCGTTTTTTGCAAAAAACTGTGAT
* *
110840 GGTTAGTACATGATTTCGGCTTAAATTTTTCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTT
511 GGTTAGTACACGATTTCGGCTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTT
** * * *
110905 GGTCACAATACTCATAAAGCGTATATAATTCATCGTCTAAGAAGATTGAAGGGCTTTTCACGCTT
576 GGTCACAATACTCATAAAATGTATATAATTCATTG-CCAAAAAGATTGAAGGGCTTTTCACGCTT
* *
110970 CTAATATCGGTTTTCCTGTTTTTTTTCTG
640 CTAATATCGTTTTTCCTG-TTTTTTTCCG
* *
110999 AATTAATTTCTAATTAAAATGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCTGA-
1 AATTAATTTCTAATTAAATTGAAACAGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCT-AT
* * * *
111063 CATGCATGAGATTTGGTTAGATTAATATAGATATTACAAGGAGTCTTGGCGCAAAAAATAATACA
65 CATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCA
** * *
111128 AAACTGAGCCGGGGCCCTAGAGCGCGTTTTTTGCT-AAAACACTGTGATGGT-CAGTACAAGATT
130 AAACTGAGCCGGGGCCCCGGAGCGCGTTTTTTGCTAAAAAAACTGTGAT--TAC-GTACACGATT
* *
111191 TCGGCTTAAATTTTCCAAAAATTGAACCTAAAGTTTTTCCCTCAATTTTTGGTCACAATACTCAT
192 TCGGCTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGCCACAATACTCAT
**
111256 AAAACGTATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTC
257 AAAAAATATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTC
** * *
111321 CGGTTTTTTGTCCGAATTAATTTCTAATTAAATTGAAACCAGTTTCTAATGCTCGTAAAAACAAA
322 CTATTTTTT-TCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAA
*
111386 TCCTTAAATCTGACATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGTGTCTTGGTGC
386 TCCTTAAATCTGACATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGTGC
* *
111451 CAAAAATAATGCAAAACTGAGCCGGGACCCCGGAGCGCGTTTTTTGCTAAAAAACTGTGATGGTT
451 CAAAAATAATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTTGC-AAAAAACTGTGATGGTT
111516 AGTACACGATTTCGGCTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTC
515 AGTACACGATTTCGGCTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTC
* * *
111581 ACAATACTCATAAAACGTACATAATTCATTGCCAAAGAAGATTGAAGGGCTTTTCAGGCTTCTAA
580 ACAATACTCATAAAATGTATATAATTCATTGCCAAA-AAGATTGAAGGGCTTTTCACGCTTCTAA
* **
111646 TATCGTTTTTCCCGTTTTTTTCAT
644 TATCGTTTTTCCTGTTTTTTTCCG
* * * *
111670 AAATAATTTATAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCTGTC
1 AATTAATTTCTAATTAAATTGAAACAGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCTATC
111735 ATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAA
66 ATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAA
* *
111800 AACTGAGCCGGGGCCCCGGAGCGCGTTTTTTGCTAAAAAAACTGTGATAACGGACACGATTTCGG
131 AACTGAGCCGGGGCCCCGGAGCGCGTTTTTTGCTAAAAAAACTGTGATTACGTACACGATTTCGG
*
111865 CTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCCTCAATTTTTGGTCACAATACTCATAAA
196 CTTAAATTTTCCAAAAATTGAACCGAAAGTTTTT-CCCTCAATTTTTGGCCACAATACTCATAAA
* * *
111930 AAGTTATACAATTCATCGCGAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCT
260 AA-ATATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCT
* *
111995 -GTTTTTTCGGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAGAAACAAATC
324 ATTTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAA-AAACAAATC
* *
112059 CTTAAATCTGACATGCCTGAGATTTGGTTAGATGAATATACATATTAGAAGGAGTCTTGGTGCCA
388 CTTAAATCTGACATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGTGCCA
** * * * *
112124 AAAATAATGCACTACTGAGTCAGGGCCCCGTAACGCGTTTTTTGCTAAAAAACTGTGATGGTGAG
453 AAAATAATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTTGC-AAAAAACTGTGATGGTTAG
* *
112189 TACACGATTTCGGCTTATATTTTCCAAAAATTGAACCGAAAGTTTTTCCTTCAATTTTTGGTCAC
517 TACACGATTTCGGCTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCAC
* * *
112254 AATACTCATAAAAAGTATATAAGTCAATCGCCGAAAAAGATTGAAGGGCTTTTCACGCTTCTAAT
582 AATACTCATAAAATGTATATAATTC-ATTGCC-AAAAAGATTGAAGGGCTTTTCACGCTTCTAAT
*
112319 ATCATTTTTCCTGTTTTTTTCCG
645 ATCGTTTTTCCTGTTTTTTTCCG
* *
112342 AATTAATTTATAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCT-TA
1 AATTAATTTCTAATTAAATTGAAACAGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCTAT-
* * *
112406 CATGCTTGTGATTTGGTTAGATGAATATAGATATTACAAGGATTCTTGGCGCCAAAAATAATGCA
65 CATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCA
* *
112471 AAACTGAGCCGGGGCTCCCGGAGCGCGTTTTTTGCT-AAAAAACTGTAATTA-GTACACAATTTC
130 AAACTGAGCCGGGGC-CCCGGAGCGCGTTTTTTGCTAAAAAAACTGTGATTACGTACACGATTTC
* * *
112534 GGCTTAAATTTTCCAAAAATTGAACCGAAATTTTTTCCCCCAATTTTTGGTCACAATACTCATAA
194 GGCTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGCCACAATACTCATAA
* *
112599 AAAGTATATAATTCATCGCCAAAGAATATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCT
259 AAAATATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCT
112664 ATTTTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATC
324 A-TTTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATC
* * *
112729 CTTAAATCTGACATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGAAGTGTTGGCGCCA
388 CTTAAATCTGACATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGTGCCA
* * *
112794 AAAATAATGCAAAACTGAGCCGGGGGCTCCGGAGCGCCTTTTTTTGCTAAAAAAACT-T--T-G-
453 AAAATAATGCAAAACTGAGCC-GGGGCCCCGGAACG-CGTTTTTTGC--AAAAAACTGTGATGGT
112854 -A-TACACGATTTCGGCTTAAATTTTCCAAAAATTGAACCGAAAG-TTTTCCCTCAATTTTTGGT
514 TAGTACACGATTTCGGCTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGT
* * *
112916 CACAATACTCATAAAATGTATATAATT-ATTGCCAAAGAAGATTGAAAGGCTTTTCACACTTGTA
579 CACAATACTCATAAAATGTATATAATTCATTGCCAAA-AAGATTGAAGGGCTTTTCACGCTTCTA
* *
112980 TTAACGTTTTTCCTGTTTTTTTCCG
643 ATATCGTTTTTCCTGTTTTTTTCCG
* ** *
113005 AATTAATTTCTAATTAAATTGAAACTGGTTTCTGATGCAAGTGAAAACAAATCCTTAAATCTGA-
1 AATTAATTTCTAATTAAATTGAAACAGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCT-AT
* * *
113069 CATGTCTGAGATTTGGTCAGATGAATATAGATATTACAAGGAGTCTTGGCACC-AAAATAATGCA
65 CATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCA
*
113133 AAACTGAGCCGGGGCTCCGGAGCGCGTTTTTTGCT-AAAAAACTGTGATGGTTA-GTACACGATT
130 AAACTGAGCCGGGGCCCCGGAGCGCGTTTTTTGCTAAAAAAACTGTGA---TTACGTACACGATT
* **
113196 TCGGCTTAAATTTTCCAAAAATTGAACCGAATGTTTTTCCCTCAA-TTTTGGTTACAATACTCAT
192 TCGGCTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGCCACAATACTCAT
** * *
113260 AAAATGTATATAATTCATCGCCAGAGAAGATTGAAGGGCTTTTCACACTTCTAATATCGTTTTTC
257 AAAAAATATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTC
* *
113325 CTGTTTTTTTCCGAATTAATTTCTAATTAAATTGAAACTGGTTTCTGATGCTCGTAAAAACAAAT
322 CTATTTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAAT
*
113390 CCTTAAATCTGACATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCC
387 CCTTAAATCTGACATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGTGCC
* *
113455 AAAAATAATGCAAAACTGAGCCGGGGCTCCGGAGCGCGTTTTTTGCTAAAAAAC--TG-T-G--A
452 AAAAATAATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTTGC-AAAAAACTGTGATGGTTA
*
113514 -TACACGATTTCGGCTTAAATTTTCCAAAAATTGAACCGAAAGGTTTTCCCTCAATTTTTGGTCA
516 GTACACGATTTCGGCTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCA
** * *
113578 CAATACTCATAAAATGTATATAATTCATCACCAACAAGATTGAAGGGCTTTTAACG-TTGCTAAT
581 CAATACTCATAAAATGTATATAATTCATTGCCAAAAAGATTGAAGGGCTTTTCACGCTT-CTAAT
* *
113642 ATCGTTTTTCCTATTTTTTCCCG
645 ATCGTTTTTCCTGTTTTTTTCCG
* * *** * * ** * *
113665 AATTAATTTCAAATTAAATCGAAACATAATTCAGATGCTTGTAAAAACAAATGTTTATATCCAAT
1 AATTAATTTCTAATTAAATTGAAACAGGTTTCTGATGCTCGTAAAAACAAATCCTTAAAT-CTAT
* * * * * * *
113730 -ATGGCTGAGATTTGGTTAAATGAATATAGATATCT-CAATGAATCTTGGTGCCAAAAATCATGT
65 CATGCCTGAGATTTGGTTAGATGAATATAGATAT-TACAAGGAGTCTTGGCGCCAAAAATAATGC
* * * *** * * * *** *
113793 AAAACAGAGCC-GGGTCTCGGAATTCATTTTTAGCCAAAAAGTGTGCTGGTT-CGTACACGATTT
129 AAAACTGAGCCGGGGCCCCGGAGCGCGTTTTTTGCTAAAAAAACTG-TGATTACGTACACGATTT
* * * * *
113856 CGG-TTAAAATTTTACAAAAGTTGACCCGTTTAA-TTTTT-CCTCTATTTTTGGCCACAATACTC
193 CGGCTT-AAATTTTCCAAAAATTGAACCG--AAAGTTTTTCCCTCAATTTTTGGCCACAATACTC
* * * * * *
113918 ATAAAAAAATATATAATTCATCGCCAAA-AAAATGGAACGCCTTTTCATGATTCTAATATCGTTT
255 AT-AAAAAATATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTT
* * * * *
113982 TTCCTA-TTTTTTCTGAATTAATTTTTAATTAAATTGAAACCGCTTTCTGACGCTCATAAAAACA
319 TTCCTATTTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACA
* * * ** * * ** * * **
114046 AATCCTTAAATC-CA-ATGTTCTTGAGATTCGACTAGATGAATATGGATATTTCAATTACTGTAA
384 AATCCTTAAATCTGACATG--CCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTG
** * * ** * **
114109 ACGCCAAAAATCATGCAAAACTGAGCCGGGGCCCCGAAACGCGTTTTTAACCAAAAACCATGATG
447 GTGCCAAAAATAATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTTGCAAAAAACTGTGATG
* * * * * * * *
114174 GTAAATACACGAGTTCGGGTTAAATTTTGCAAAAATTGAACCAAAAGTTTCTACCTCAATTTTTG
512 GTTAGTACACGATTTCGGCTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTG
* * *
114239 GTCACAATACTCATAATATGTATATAATTCA-TCCACAAAAAGATTGAAGGGTTTTTCACGCTTC
577 GTCACAATACTCATAAAATGTATATAATTCATTGC-CAAAAAGATTGAAGGGCTTTTCACGCTTC
114303 TAATATCGTTTTTCCT-TTTTTTTCCG
641 TAATATCGTTTTTCCTGTTTTTTTCCG
* * *** * * *
114329 AATTAATTTCTAATTAAATCGAAATATAATTCAGATACTCGTAAAAACAAATCCTCAAATCTAAT
1 AATTAATTTCTAATTAAATTGAAACAGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCT-AT
** * ** ** * *
114394 GTTG-CTGAGATTTGGTTAGAAGAATATAGATATTTGAATAAGTCTTGGTGCCAAAAATCATGCA
65 CATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCA
* ** * * *
114458 AAACTGAGCC-GGGCCTCGGAATGCATTTTTAGCTAAAAACAA---TGATT---T---CGGTTTC
130 AAACTGAGCCGGGGCCCCGGAGCGCGTTTTTTGCTAAAAA-AACTGTGATTACGTACACGATTTC
* * * * * *
114513 --CCTCAATTTTCCAAAAAGTGACCCGAATGATTTTT-CCT-AATTTTTGGCCACAATTCTCATA
194 GGCTTAAATTTTCCAAAAATTGAACCGAAAG-TTTTTCCCTCAATTTTTGGCCACAATACTCATA
* * * * * * * *
114574 AAAAATATATAATTCATCGCCAAAAAAAATAGGAAGGACTTTTTACGCATGTGATATCGTTTTTC
258 AAAAATATATAATTCATCGCCAAAGAAGAT-TGAAGGGCTTTTCACGCTTCTAATATCGTTTTTC
* * * * *
114639 CTATATTTTAT--GAATTAATTTCTAATAAAACTGAAACTGGTTTCTGATGTTCGTAAAAACAAA
322 CTAT-TTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAA
* ** ** * * * * ** * * * *
114702 TCCTTAAACCCAATGTGTCTGAGATTCGATTAGATGAATATAGATATTTCAATTACTGTAGGAGC
386 TCCTTAAATCTGACATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGTGC
* * * * * * * ** ** *
114767 AAAAAATCATGCAAAACTAAGTCGCGACTCTAGAACGCGTTTTGAGCCAAAAACTGTGATGGTTA
451 CAAAAATAATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTTGCAAAAAACTGTGATGGTTA
* * * * * * * *
114832 GTACATGATTTCAG-TTAAAATTTTGCAGAAATTGATCCGAATGATTTTCCTTCAATTTTTGG-C
516 GTACACGATTTCGGCTT-AAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTC
* * * * * *
114895 AACAATATTCATAAAA---AAAGGAATTCATTGCCAAAAAAATGGAACGGCTTTTCACGCTTCTA
580 -ACAATACTCATAAAATGTATA-TAATTCATTGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTA
*
114957 ATATCATTTTTC
643 ATATCGTTTTTC
114969 TGAATTAATA
Statistics
Matches: 4013, Mismatches: 507, Indels: 238
0.84 0.11 0.05
Matches are distributed among these distances:
651 2 0.00
652 70 0.02
653 30 0.01
654 260 0.06
655 2 0.00
656 13 0.00
657 4 0.00
658 135 0.03
659 364 0.09
660 278 0.07
661 220 0.05
662 191 0.05
663 390 0.10
664 248 0.06
665 245 0.06
666 49 0.01
667 1 0.00
668 8 0.00
669 136 0.03
670 242 0.06
671 536 0.13
672 431 0.11
673 152 0.04
674 2 0.00
675 2 0.00
676 2 0.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (667 bp):
AATTAATTTCTAATTAAATTGAAACAGGTTTCTGATGCTCGTAAAAACAAATCCTTAAATCTATC
ATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGCGCCAAAAATAATGCAA
AACTGAGCCGGGGCCCCGGAGCGCGTTTTTTGCTAAAAAAACTGTGATTACGTACACGATTTCGG
CTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGCCACAATACTCATAAAA
AATATATAATTCATCGCCAAAGAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTTTTTCCTAT
TTTTTTCCGAATTAATTTCTAATTAAATTGAAACCGGTTTCTGATGCTCGTAAAAACAAATCCTT
AAATCTGACATGCCTGAGATTTGGTTAGATGAATATAGATATTACAAGGAGTCTTGGTGCCAAAA
ATAATGCAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTTGCAAAAAACTGTGATGGTTAGTACA
CGATTTCGGCTTAAATTTTCCAAAAATTGAACCGAAAGTTTTTCCCTCAATTTTTGGTCACAATA
CTCATAAAATGTATATAATTCATTGCCAAAAAGATTGAAGGGCTTTTCACGCTTCTAATATCGTT
TTTCCTGTTTTTTTCCG
Done.