Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011741.1 Corchorus capsularis cultivar CVL-1 contig11762, 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: 78490
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Found at i:10530 original size:268 final size:269
Alignment explanation
Indices: 10023--10558 Score: 737
Period size: 268 Copynumber: 2.0 Consensus size: 269
10013 TTTACCTTAG
* *
10023 ACCTTAGTAGTATCAAATTCAATGGATCAAATTTAATGTCTCCATAGGTCCAACCCAAGTAGACA
1 ACCTCAGTACTATCAAATTCAATGGATCAAATTTAATGTCTCCATAGGTCCAACCCAAGTAGACA
*
10088 CTTTAACAAACAACAACTAATTTGATTAAATTAAAACCATAGAGTCATCATATTTTATTATTACT
66 CTTTAACAAACAACAAC-AATTTGATTAAATTAAAACCATAGAGTCATCATACTTTATTATTACT
*
10153 CACATACTGCGAAAAGGTACTAATGTGCTGATTTCTTGGCTAATATGGGTCAAGATTCTGACTAT
130 CACATACTGCGAAAAGGTACCAATGTGCTGATTTCTTGGCTAATATGGGTCAAGATTCTGACTAT
* **
10218 GATAACCAAATATTTGATAGAATATCCGTTGGGATTGCTTCCGCTTTTGG-A-ATGATGCAAATG
195 GATAACCAAATATTTGATAGAACATCCGTTCAGATTGCTTCCGCTTTTGGAACATGATGCAAATG
*
10281 GTTTTGCTAT
260 GTGTTGCTAT
10291 ACCTCAGTACTATCAAATTCAATGGATCAAATTTAATGTCTCCATAGGTCCAACCCAAGTAGACA
1 ACCTCAGTACTATCAAATTCAATGGATCAAATTTAATGTCTCCATAGGTCCAACCCAAGTAGACA
* * *
10356 CTTTAACAAACAACTA-AATTTGATTAACTTAAAACCATA-A-TTATCATACTTTATTATTACTC
66 CTTTAACAAACAACAACAATTTGATTAAATTAAAACCATAGAGTCATCATACTTTATTATTACTC
* * * * * *
10418 ACATTCTGCGAGAAGGTAACCAGTGTGTTGATTTCTTGGCTAATTAATATGGGTTAGGATTCTGA
131 ACATACTGCGAAAAGGT-ACCAATGTGCTGATTTCTTGGC----TAATATGGGTCAAGATTCTGA
* * * * * *
10483 CTATAGCT-GCCAGATA-TTGATGGAACCTCCGTTACAG-TTGTTTCCGCTTTTGGAACATGATG
191 CTAT-GATAACCAAATATTTGATAGAACATCCGTT-CAGATTGCTTCCGCTTTTGGAACATGATG
10545 CAAATGGTGTTGCT
254 CAAATGGTGTTGCT
10559 GTCCGAAGAA
Statistics
Matches: 236, Mismatches: 23, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
264 35 0.15
265 20 0.08
266 22 0.09
268 107 0.45
269 31 0.13
270 21 0.09
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.34
Consensus pattern (269 bp):
ACCTCAGTACTATCAAATTCAATGGATCAAATTTAATGTCTCCATAGGTCCAACCCAAGTAGACA
CTTTAACAAACAACAACAATTTGATTAAATTAAAACCATAGAGTCATCATACTTTATTATTACTC
ACATACTGCGAAAAGGTACCAATGTGCTGATTTCTTGGCTAATATGGGTCAAGATTCTGACTATG
ATAACCAAATATTTGATAGAACATCCGTTCAGATTGCTTCCGCTTTTGGAACATGATGCAAATGG
TGTTGCTAT
Found at i:11443 original size:18 final size:18
Alignment explanation
Indices: 11422--11456 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11412 TATATTATTG
* *
11422 TTTATATTTAATTATCAT
1 TTTATACTTAATGATCAT
11440 TTTATACTTAATGATCA
1 TTTATACTTAATGATCA
11457 AATAATTGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTATACTTAATGATCAT
Found at i:12125 original size:12 final size:12
Alignment explanation
Indices: 12105--12135 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
12095 GCACGTGGAG
*
12105 ATCATATTATAA
1 ATCAAATTATAA
12117 ATCAAATTATAA
1 ATCAAATTATAA
12129 ATCAAAT
1 ATCAAAT
12136 AAATCATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (12 bp):
ATCAAATTATAA
Found at i:13463 original size:31 final size:31
Alignment explanation
Indices: 13397--13493 Score: 149
Period size: 31 Copynumber: 3.1 Consensus size: 31
13387 CATAAATCTC
13397 GATGATTTCTTAATCAAGTGGCTGCAGTATGTA
1 GATGATTTCTTAATCAAGTGGCTGCA--ATGTA
*
13430 GATGATTTCTTAGTCAAGTGGCTGCAATGTA
1 GATGATTTCTTAATCAAGTGGCTGCAATGTA
* *
13461 GATGATTTCTTAATCAAATTGCTGCAATGTA
1 GATGATTTCTTAATCAAGTGGCTGCAATGTA
13492 GA
1 GA
13494 AATTGAAAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 35 0.58
33 25 0.42
ACGTcount: A:0.29, C:0.12, G:0.23, T:0.36
Consensus pattern (31 bp):
GATGATTTCTTAATCAAGTGGCTGCAATGTA
Found at i:16450 original size:158 final size:157
Alignment explanation
Indices: 16178--16510 Score: 463
Period size: 158 Copynumber: 2.1 Consensus size: 157
16168 GCCCTGTTAT
* * ** * * *
16178 CGCCTTTGTCGCTATGTTAGTTCTTCAAAATTATTGGAGTTCCGCAGGTGCCGGATGTATAACTT
1 CGCCTTTGTCGTTATGTTAGTTCTTCAAAATAATTAAAGTTCCGCAGATGCCGGATGCATAACGT
* *
16243 GCTGAATGCACTACTCTAATACTATCAAAATCCAACAAGAGTTTGCTTTTTATGCTTCCAAAATC
66 GCTGAATGCACTACTCTAATACTATCAAAATCCAACAAGAATTTAC-TTTTATGCTTCCAAAATC
16308 CTAACAGTTCTTG-TTTCTCCCTGCCAC
130 CTAACAGTTCTTGATTTCTCCCTGCCAC
* ** *
16335 CGCCTTTGTCGTTATGTTAGTTTTTTCAGGATAATTAAAGTTCCGCAGATGCCGGATGCATCACG
1 CGCCTTTGTCGTTATGTTAG-TTCTTCAAAATAATTAAAGTTCCGCAGATGCCGGATGCATAACG
* * * *
16400 TGTTTAATGCACTACTCTAATA-TGATCAAAATCCAATAGGAATTTACTTTTATGCTTCCAAAAT
65 TGCTGAATGCACTACTCTAATACT-ATCAAAATCCAACAAGAATTTACTTTTATGCTTCCAAAAT
*
16464 CCTAACCGTTCTTGATTTCTCCCTGCCAC
129 CCTAACAGTTCTTGATTTCTCCCTGCCAC
16493 CGCCTTTGTCGTTATGTT
1 CGCCTTTGTCGTTATGTT
16511 TTTATGATTC
Statistics
Matches: 155, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
157 50 0.32
158 105 0.68
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.36
Consensus pattern (157 bp):
CGCCTTTGTCGTTATGTTAGTTCTTCAAAATAATTAAAGTTCCGCAGATGCCGGATGCATAACGT
GCTGAATGCACTACTCTAATACTATCAAAATCCAACAAGAATTTACTTTTATGCTTCCAAAATCC
TAACAGTTCTTGATTTCTCCCTGCCAC
Found at i:23700 original size:36 final size:36
Alignment explanation
Indices: 23652--23724 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
23642 TGATCCAAAC
23652 CTTATTGATATATAATATGAAACATTCAAAATATAA
1 CTTATTGATATATAATATGAAACATTCAAAATATAA
* *
23688 CTTATTGGTATATAATATGGAACATTCAAAATATAA
1 CTTATTGATATATAATATGAAACATTCAAAATATAA
23724 C
1 C
23725 AACACATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.36
Consensus pattern (36 bp):
CTTATTGATATATAATATGAAACATTCAAAATATAA
Found at i:23966 original size:14 final size:14
Alignment explanation
Indices: 23947--23973 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23937 TGTACAATAT
23947 TATTCTTTTATTAC
1 TATTCTTTTATTAC
23961 TATTCTTTTATTA
1 TATTCTTTTATTA
23974 TGATTAGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTCTTTTATTAC
Found at i:28840 original size:2 final size:2
Alignment explanation
Indices: 28833--28880 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
28823 ACAGTTACAT
*
28833 TA TA TA TA TA TA -A TA TA TC TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28874 TA TA TA T
1 TA TA TA T
28881 CTCAATTCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30945 original size:2 final size:2
Alignment explanation
Indices: 30940--30977 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
30930 TACACTTGTG
*
30940 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30978 ATAGTAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:41389 original size:124 final size:125
Alignment explanation
Indices: 41246--41575 Score: 518
Period size: 134 Copynumber: 2.6 Consensus size: 125
41236 CTAGCTGGTC
*
41246 GTGGTAGAGTTGATAGCTTACTGGTGGATATATGGGCTTTTAAAAGGTCTTACGGCTTGCTCATG
1 GTGGTAGAGTTGATAGCTTATTGGTGGATATATGGGCTTTTAAAAGGTCTTACGGCTTGCTCATG
*
41311 AGAGAAGTGA-GGGGGGTGCTTAATTTGAGATTGTTGGGTCAAGGGTTTTCTAGCCGATA
66 AGAGAAGGGAGGGGGGGTGCTTAATTTGAGATTGTTGGGTCAAGGGTTTTCTAGCCGATA
*
41370 GTGGTAAAGTTGATAGCTTATTGGTGGATATATGGGCTTTTAAAAGGTCTTACGGCTTGCTCATG
1 GTGGTAGAGTTGATAGCTTATTGGTGGATATATGGGCTTTTAAAAGGTCTTACGGCTTGCTCATG
*
41435 AGAGAAGCGAGGGGAGGGGGGGGGGGTGCTTAATTTGAGATTGTTGGGTCTAGGGTTTTCTAGCC
66 AGAG-A---A-GGGA----GGGGGGGTGCTTAATTTGAGATTGTTGGGTCAAGGGTTTTCTAGCC
*
41500 GGTA
122 GATA
*
41504 GTGGTAGAGTTGATAGCTTATTGGTGGATATATGGGCTTTTAAGAGGTCTTACGGCTTGCTCATG
1 GTGGTAGAGTTGATAGCTTATTGGTGGATATATGGGCTTTTAAAAGGTCTTACGGCTTGCTCATG
41569 AGAGAAG
66 AGAGAAG
41576 CGAGTAATCC
Statistics
Matches: 189, Mismatches: 7, Indels: 15
0.90 0.03 0.07
Matches are distributed among these distances:
124 67 0.35
125 1 0.01
128 1 0.01
129 4 0.02
130 1 0.01
133 1 0.01
134 114 0.60
ACGTcount: A:0.22, C:0.10, G:0.35, T:0.32
Consensus pattern (125 bp):
GTGGTAGAGTTGATAGCTTATTGGTGGATATATGGGCTTTTAAAAGGTCTTACGGCTTGCTCATG
AGAGAAGGGAGGGGGGGTGCTTAATTTGAGATTGTTGGGTCAAGGGTTTTCTAGCCGATA
Found at i:51009 original size:24 final size:25
Alignment explanation
Indices: 50960--51007 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
50950 GTGTATTTCA
**
50960 TAATTATCTTTTTTTTTATCCAAAG
1 TAATTATCTTTTTTTACATCCAAAG
*
50985 TAATTATCTTTTTTTACACCCAA
1 TAATTATCTTTTTTTACATCCAA
51008 GTTGTTAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATTATCTTTTTTTACATCCAAAG
Found at i:54523 original size:2 final size:2
Alignment explanation
Indices: 54518--54545 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
54508 GATTACTTAC
54518 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
54546 GGTTGAAACT
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):
AT
Found at i:55514 original size:2 final size:2
Alignment explanation
Indices: 55507--55531 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55497 TGAAATGCTA
55507 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
55532 CTATGATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65779 original size:53 final size:53
Alignment explanation
Indices: 65699--65806 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
65689 CGATCCATTC
*
65699 CCAACTCTCCACCGCGCAACCATCTTAATCATTTCTCTGCCTGCCAATAAACT
1 CCAACTCTCCACCGCGCAACCATCTTAATCACTTCTCTGCCTGCCAATAAACT
*
65752 CCAACTCTCCACCGCGCACCCATCTTAATCACTTCTCTGCCTGCCAATAAACT
1 CCAACTCTCCACCGCGCAACCATCTTAATCACTTCTCTGCCTGCCAATAAACT
65805 CC
1 CC
65807 TCCACAAGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.25, C:0.43, G:0.07, T:0.25
Consensus pattern (53 bp):
CCAACTCTCCACCGCGCAACCATCTTAATCACTTCTCTGCCTGCCAATAAACT
Found at i:70810 original size:15 final size:16
Alignment explanation
Indices: 70790--70828 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
70780 TTATTTTTCG
70790 ATTATAATATATT-TA
1 ATTATAATATATTATA
70805 ATTATAA-ATATTATA
1 ATTATAATATATTATA
70820 ATTTATAAT
1 A-TTATAAT
70829 CATGAAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.24
15 10 0.48
16 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTATAATATATTATA
Found at i:71999 original size:323 final size:321
Alignment explanation
Indices: 71146--74467 Score: 4195
Period size: 323 Copynumber: 10.4 Consensus size: 321
71136 ACCGTTAATT
* *
71146 TGAAAAAGACGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCGTTGAATTATATAT-TT
1 TGAAAAA-ATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTT
* * *
71210 TTCTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCGTGT
65 TTCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTGT
* * * * * * ** *
71275 ATTAACCATCTCAGTTTATGGCCAAAAACGTGTTCCAAAGCCCCGACTCAATTTTGCATGATTTT
130 ACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTT
* * * *
71340 TGGCACAAAGACTCCTTAAAATATCTATATTCATCGAACCAAATCTCAGCAATATTGGATATAAG
195 TGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCAACATTGGATATAAG
* * *
71405 GATTTG-TTATTTCGAGCATCTCAATCTTGATTCGATTTAATTAGAAATTAATTCGGGAAAAAA
260 GATTTGCTT-TTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTC-GCAAAAAA
* * * * * *
71468 TGGAAAAATGATATTAGAAGCGTGAAAGGCCCGTCAATCTTTTTGGCATTGGATTGTATATCTTT
1 TGAAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
*
71533 TCTGTGTATTGTGGCAAAAAATTGAGAAAAAAA-TTTCGGGTCAGCTTTTGGCCGAAATCGTGTA
66 TCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTGTA
* * * *
71597 CAAACCATCACGGTTTTTGGCTAAAAACGTGTTCCGGAGCCTCGACTCAATTTTGCATGATTTTT
131 CTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTTT
* *
71662 GGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGCCACATTGGATATAAGG
196 GGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCAACATTGGATATAAGG
* *
71727 ATTTGCTTTTACCAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAAGA
261 ATTTGCTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAA-A
* *
71789 TGAAAAAAATGATATTAGAAGCGTAAAAACCCCGTTAATATTTTTGGCATTGAATTATATATCTT
1 TG-AAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTT
* * * *
71854 TTATGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGG-CTAGTTGTTAGCCGAAATCGTG
65 TTCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTC-AGTTTTTGGCCGAAATCGTG
* *
71918 TACTAACCATCACGGTTTTTGGCTAAAAAGGTGTTCCGGAGCCCCGGCTCAATTTTGCATGATTT
129 TACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTT
* *
71983 TTGGCGCAAGGACTCCTTGAAATATC--TA-TC-TCAAACCAAATCTCAGCAATATTGGATATAA
194 TTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCAACATTGGATATAA
* * * *
72044 GGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATCAGAAATTAATTCGGAAAAAAAA
259 GGATTTGCTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTC-G-CAAAAAA
* * * *
72109 TGGAAAAATGATATTAGAAGCGT-AAAAGACCCGTCAAT-TTTTTGGAATTGAATTATAAATCTT
1 TGAAAAAATGATATTAGAAGCGTGAAAAG-CCCGTTAATATTTTTGGCATTGAATTATATATCTT
* * * *
72172 TTCTGTGTATTGTAGCAAAAAATTGAGAAAAAAAAATTAT-GGGTCAGGTTTTGGCCGAAATCTT
65 TTCTGTGTATTGTGGCAAAAAATTGAG--AAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGT
* * * *
72236 GTACT-----TTA--GTTTTGGGCTAAAAACGCGTTCCTGAGCCCCGGCTCAATTTTGAATGATT
128 GTACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATT
* * * *
72294 TTTGGCGCAAAGATTCCTTGAAATATCTATATTCATCAATCCAAATGTCAGCCACATTGGATATA
193 TTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCAACATTGGATATA
* *
72359 AGGATTTGCTTTTACCAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAAAA
258 AGGATTTGCTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCGC-AAAAAA
* *
72424 TGAAAAAATGATATTAGAAGCGTGAAAACCCCGTTAATA-TTTTGGCATTGAATTTTATATCTTT
1 TGAAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
* * * * * *
72488 TATGAGTATTGTGGCAAAAAATTAAGAAAAATATTTTCGGGTCAGTTTTTAGACGAAATCGTGTA
66 TCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTGTA
* * *
72553 ATAACCATCACGGTTTTTTTGGCTAAAAAGGCATTCCGGAGCCCCGGCTCAATTTTGCATGATTT
131 CTAACCATCACGG--TTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTT
* * * *
72618 TTGCCGCAAAGACTCCTTGAAATATCTATATTCATCAAACGAAATCTCAGCAATATTGGAAATAA
194 TTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCAACATTGGATATAA
* * ** * * * *
72683 GTATTTGTTTTTTTGAGTATCTCAATCTTGATTCGATTTAATCAGAAATTAATTCAGAAAAAAA
259 GGATTTGCTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTC-GCAAAAAA
* * ** * * *
72747 TGGAAAAATGATTTTAGAAGCGTGAACGGCCCGTCAATCTTTTTGGCGTTGAATTATATATCTTT
1 TGAAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
*
72812 TCTGTGTATTGTGGCAAAAAAATTGAG-AAAAAA-------GTCAGTTTTTGGCCGAAATAGTGT
66 TCTGTGTATTGTGGC-AAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTGT
* * *
72869 ACTAACCATCACGGTTTTTGGGTAAAAACGCGTTCCGGAGCCGCAGCTCAATTTTGCATGATTTT
130 ACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTT
* * * * *
72934 TGGTGC--AGAGTCCTTGAAATATCTATATTTATCAAACCAAATGTCAGCTACATTGGATATAAG
195 TGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCAACATTGGATATAAG
* * *
72997 CATTTGCTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAAGTAATTCGC-----A
260 GATTTGCTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAAA
73054 --AAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
1 TGAAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
* * * * *
73117 TATGAGTATTATGGCAAATAATTGAGAAAAAAAATTTTCGGGTTAGTTTTTGGCCGAAATCGTGT
66 TCTGTGTATTGTGGCAAAAAATTGAG-AAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTGT
* **
73182 ACTAACCATCACGATTTTTGGCTAAAAACGCGTTCCGGAGCCCCGTTTCAATTTTGCATGATTTT
130 ACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTT
* * * * * *
73247 TTGCGCAAAGACTCCTTGGAATATCTATATTCATCGAATCAAATGTCAGCCACATTGGATATAAG
195 TGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCAACATTGGATATAAG
* *
73312 GATTTGCTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTATAAATTAATTACGC-AAAAA
260 GATTTGCTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATT-CGCAAAAAA
* * **
73374 TGAAAAAAAATGATATTAGAAGCGTGTAAAGCCCGTTAACA-TTTTGGCGGTGAATTATATATCT
1 TG--AAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCT
* * * *
73438 TTTCTGTGTATTGT-GCCAAAAATTGAGAAAAAATTTTTCGTGTCAGTTTTT-GCCGAAATTGTG
64 TTTCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTG
* * * * * * * **
73501 TACTAAGCATTACAGTTTTTGGTTAAAAAGGCATTCAGGAGCCCCAACTCAATTTTGCATGATTT
129 TACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTT
* * *
73566 TTGGCGGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCAATATTGGATATAA
194 TTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCAACATTGGATATAA
* *** * *
73631 GGATTTGTTTTTTTAAGCATCTCAATCTTGTTTCGATTTAATCAGAAATTAATTCGAAAAAAAA
259 GGATTTGCTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCG-CAAAAAA
* * * * * *
73695 TGGAAAAATGATTTTAGAAGCGTGAAAGGCCCGTCAATCTTTTTGGCGTTGAATTATATATCTTT
1 TGAAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
* **** ** *
73760 TCTGTGTATTATGGCAAAAAATTGAGGAAATTTTTTTTTCAAGTCAGTTTTTGGCTGAAATCGTG
66 TCTGTGTATTGTGGCAAAAAATTGA-GAAA-AAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTG
* * * *
73825 TACTAACCATCACGGTTTTTGGGTAAAAACGCGTTTCGGAGCCGCAGCTCAATTTTGCATGATTT
129 TACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTT
* * * * *
73890 TTGGTGC--AGAGTCCTTGAAATATCTATATTTATCAAACCAAATGTCAGCTACATTGGATATAA
194 TTGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCAACATTGGATATAA
* * *
73953 GCATTTGCTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAAGTAATTCGC-----A
259 GGATTTGCTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAAA
* *
74011 --AAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCACTAAATTATATATCTTT
1 TGAAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
* * * * *
74074 TATGAGTATTATGGCAAATAATTGAGAAAAAAAATTTTCGGGTTAGTTTTTGGCCGAAATCGTGT
66 TCTGTGTATTGTGGCAAAAAATTGAG-AAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTGT
* * * * * *
74139 ACTAACCATCACAGTTTTTGGTTAAAAAGGCATTCAGGAGCCCCGACTCAATTTTGCATGATTTT
130 ACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTT
* * * *
74204 TGGCGCAAAGACTCCTTGAAATATCTATATTAATCGAACCAAATCTCAGTAATATTGGATATAAG
195 TGGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCAACATTGGATATAAG
* * * *
74269 GATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATCCGGAAAAAA
260 GATTTGCTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAAA
* ** * * * *
74331 TGGAAAAATGATATTAGAAGCGTGAAGGGCCCGTCAATTTTTTTGGCGTTGAATTATATATTTTT
1 TGAAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
* ** *
74396 TCTGTGTATTGTGGAAAAAAATTGAGAAAAAAATTTTCAAGTCAGTTTTTGGCCGAAATTGTGTA
66 TCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTGTA
74461 CTAACCA
131 CTAACCA
74468 AATGTCAGCT
Statistics
Matches: 2585, Mismatches: 346, Indels: 139
0.84 0.11 0.05
Matches are distributed among these distances:
304 10 0.00
305 68 0.03
306 6 0.00
307 1 0.00
312 71 0.03
313 278 0.11
314 108 0.04
315 333 0.13
316 85 0.03
317 34 0.01
318 51 0.02
319 163 0.06
320 230 0.09
321 329 0.13
322 317 0.12
323 344 0.13
324 147 0.06
325 10 0.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (321 bp):
TGAAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
TCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTGTA
CTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTTT
GGCGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCAACATTGGATATAAGG
ATTTGCTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAAA
Found at i:72395 original size:635 final size:634
Alignment explanation
Indices: 71146--74467 Score: 4066
Period size: 635 Copynumber: 5.2 Consensus size: 634
71136 ACCGTTAATT
* *
71146 TGAAAAAGACGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCGTTGAATTATATAT-TT
1 TGAAAAA-ATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTT
* *
71210 TTCTGAGTATTGTGGCAAAAAATTGAGAAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCGTGT
65 TTATGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGT
* * * * * * ** *
71275 ATTAACCATCTCAGTTTATGGCCAAAAACGTGTTCCAAAGCCCCGACTCAATTTTGCATGATTTT
130 ACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTT
* * *
71340 TGGCACAAAGACTCCTTAAAATATCTATATTCATCGAACCAAATCTCAGCAATATTGGATATAAG
195 TGGCGCAAAGACTCCTTGAAATATC-ATATTCATCAAACCAAATCTCAGCAATATTGGATATAAG
* * *
71405 GATTTGTTATTTCGAGCATCTCAATCTTGATTCGATTTAATTAGAAATTAATTCGGGAAAAAATG
259 GATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATG
* * *
71470 GAAAAATGATATTAGAAGCGTGAAAGGCCCGTCAATCTTTTTGGCATTGGATTGTATATCTTTTC
324 GAAAAATGATATTAGAAGCGT-AAAAGCCCGTCAATCTTTTTGGCATTGAATTATATATCTTTTC
*
71535 TGTGTATTGTGGCAAAAAATTGAGAAAAAAATT-TCGGGTCAGCTTTTGGCCGAAATCGTGTACA
388 TGTGTATTGTGGCAAAAAATTGAGAAAAAAATTATCGGGTCAGGTTTTGGCCGAAATCGTGT---
* * *
71599 AACCATCACGGTTTTTGGCTAAAAACGTGTTCCGGAGCCTCGACTCAATTTTGCATGATTTTTGG
450 -ACTATCA--GTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGG
*
71664 CGCAAAGACTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGCCACATTGGATATAAGGAT
512 CGCAAAGACTCCTTGAAATATCTATATTCATC-AACCAAATGTCAGCAACATTGGATATAAGGAT
71729 TTGCTTTTACCAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAAGA
576 TTGCTTTTACCAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAA-A
* *
71789 TGAAAAAAATGATATTAGAAGCGTAAAAACCCCGTTAATATTTTTGGCATTGAATTATATATCTT
1 TG-AAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTT
*
71854 TTATGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGG-CTAGTTGTTAGCCGAAATCGTG
65 TTATGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTC-AGTTTTTAGCCGAAATCGTG
* *
71918 TACTAACCATCACGGTTTTTGGCTAAAAAGGTGTTCCGGAGCCCCGGCTCAATTTTGCATGATTT
129 TACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTT
*
71983 TTGGCGCAAGGACTCCTTGAAATATC-TA-TC-TCAAACCAAATCTCAGCAATATTGGATATAAG
194 TTGGCGCAAAGACTCCTTGAAATATCATATTCATCAAACCAAATCTCAGCAATATTGGATATAAG
*
72045 GATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATCAGAAATTAATTCGGAAAAAAAAT
259 GATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCGG-AAAAAAAT
* *
72110 GGAAAAATGATATTAGAAGCGTAAAAGACCCGTCAAT-TTTTTGGAATTGAATTATAAATCTTTT
323 GGAAAAATGATATTAGAAGCGTAAAAG-CCCGTCAATCTTTTTGGCATTGAATTATATATCTTTT
* *
72174 CTGTGTATTGTAGCAAAAAATTGAGAAAAAAAAATTAT-GGGTCAGGTTTTGGCCGAAATCTTGT
387 CTGTGTATTGTGGCAAAAAATTGAG--AAAAAAATTATCGGGTCAGGTTTTGGCCGAAATCGTGT
* * * * *
72238 ACT-TTAGTTTTGGGCTAAAAACGCGTTCCTGAGCCCCGGCTCAATTTTGAATGATTTTTGGCGC
450 ACTATCAGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGC
* *
72302 AAAGATTCCTTGAAATATCTATATTCATCAATCCAAATGTCAGCCACATTGGATATAAGGATTTG
515 AAAGACTCCTTGAAATATCTATATTCATCAA-CCAAATGTCAGCAACATTGGATATAAGGATTTG
72367 CTTTTACCAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAAAA
579 CTTTTACCAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGC-AAAAAA
* *
72424 TGAAAAAATGATATTAGAAGCGTGAAAACCCCGTTAATA-TTTTGGCATTGAATTTTATATCTTT
1 TGAAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
* * *
72488 TATGAGTATTGTGGCAAAAAATTAAGAAAAATATTTTCGGGTCAGTTTTTAGACGAAATCGTGTA
66 TATGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGTA
* * *
72553 ATAACCATCACGGTTTTTTTGGCTAAAAAGGCATTCCGGAGCCCCGGCTCAATTTTGCATGATTT
131 CTAACCATCACGG--TTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTT
* * *
72618 TTGCCGCAAAGACTCCTTGAAATATCTATATTCATCAAACGAAATCTCAGCAATATTGGAAATAA
194 TTGGCGCAAAGACTCCTTGAAATATC-ATATTCATCAAACCAAATCTCAGCAATATTGGATATAA
* * * * * *
72683 GTATTTGTTTTTTTGAGTATCTCAATCTTGATTCGATTTAATCAGAAATTAATTCAGAAAAAAAT
258 GGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAAT
* ** *
72748 GGAAAAATGATTTTAGAAGCGTGAACGGCCCGTCAATCTTTTTGGCGTTGAATTATATATCTTTT
323 GGAAAAATGATATTAGAAGCGT-AAAAGCCCGTCAATCTTTTTGGCATTGAATTATATATCTTTT
* *
72813 CTGTGTATTGTGGCAAAAAAATTGAG--AAAAA--A----GTCAGTTTTTGGCCGAAATAGTGTA
387 CTGTGTATTGTGGC-AAAAAATTGAGAAAAAAATTATCGGGTCAGGTTTTGGCCGAAATCGTGTA
* *
72870 CTAACCATCACGGTTTTTGGGTAAAAACGCGTTCCGGAGCCGC-AGCTCAATTTTGCATGATTTT
451 CT----ATCA--GTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGA-CTCAATTTTGCATGATTTT
* * * *
72934 TGGTGC--AGAGTCCTTGAAATATCTATATTTATCAAACCAAATGTCAGCTACATTGGATATAAG
509 TGGCGCAAAGACTCCTTGAAATATCTATATTCATC-AACCAAATGTCAGCAACATTGGATATAAG
* * *
72997 CATTTGCTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAAGTAATTCGC-----A
573 GATTTGCTTTTACCAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAAA
73054 --AAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
1 TGAAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
* * * *
73117 TATGAGTATTATGGCAAATAATTGAGAAAAAAAATTTTCGGGTTAGTTTTTGGCCGAAATCGTGT
66 TATGAGTATTGTGGCAAAAAATTGAG-AAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGT
* **
73182 ACTAACCATCACGATTTTTGGCTAAAAACGCGTTCCGGAGCCCCGTTTCAATTTTGCATGATTTT
130 ACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTT
* * * * * * *
73247 TTGCGCAAAGACTCCTTGGAATATCTATATTCATCGAATCAAATGTCAGCCACATTGGATATAAG
195 TGGCGCAAAGACTCCTTGAAATATC-ATATTCATCAAACCAAATCTCAGCAATATTGGATATAAG
* * * * *
73312 GATTTGCTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTATAAATTAATTAC-G-CAAAAAT
259 GATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATT-CGGAAAAAAAT
* * * * **
73375 GAAAAAAAATGATATTAGAAGCGTGTAAAGCCCGTTAA-CATTTTGGCGGTGAATTATATATCTT
323 G--GAAAAATGATATTAGAAGCGT-AAAAGCCCGTCAATCTTTTTGGCATTGAATTATATATCTT
* * * * * *
73439 TTCTGTGTATTGT-GCCAAAAATTGAGAAAAAATTTTTCGTGTCA-GTTTTTGCCGAAATTGTGT
385 TTCTGTGTATTGTGGCAAAAAATTGAGAAAAAAATTATCGGGTCAGGTTTTGGCCGAAATCGTGT
* * * * *
73502 ACTAAGCATTACAGTTTTTGGTTAAAAAGGCATTCAGGAGCCCCAACTCAATTTTGCATGATTTT
450 ACT----A-T-CAGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTT
* * *
73567 TGGCGGAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCAATATTGGATATAAG
509 TGGCGCAAAGACTCCTTGAAATATCTATATTCATC-AACCAAATGTCAGCAACATTGGATATAAG
* *** * * *
73632 GATTTGTTTTTTTAAGCATCTCAATCTTGTTTCGATTTAATCAGAAATTAATTCGAAAAAAAA
573 GATTTGCTTTTACCAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG-CAAAAAA
* * * * * *
73695 TGGAAAAATGATTTTAGAAGCGTGAAAGGCCCGTCAATCTTTTTGGCGTTGAATTATATATCTTT
1 TGAAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
* * * **** ** * *
73760 TCTGTGTATTATGGCAAAAAATTGAGGAAATTTTTTTTTCAAGTCAGTTTTTGGCTGAAATCGTG
66 TATGAGTATTGTGGCAAAAAATTGA-GAAA-AAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTG
* * * *
73825 TACTAACCATCACGGTTTTTGGGTAAAAACGCGTTTCGGAGCCGCAGCTCAATTTTGCATGATTT
129 TACTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTT
* * * * * *
73890 TTGGTGC--AGAGTCCTTGAAATATCTATATTTATCAAACCAAATGTCAGCTACATTGGATATAA
194 TTGGCGCAAAGACTCCTTGAAATATC-ATATTCATCAAACCAAATCTCAGCAATATTGGATATAA
* * * * * *
73953 GCATTTGCTTTTACGAGCATCTGAATCTTGTTTCGATTTAATTAGAAAGTAATTC-G----CAA-
258 GGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAAT
* * * *
74012 --AAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCACTAAATTATATATCTTTT
323 GGAAAAATGATATTAGAAGCGT-AAAAGCCCGTCAATCTTTTTGGCATTGAATTATATATCTTTT
* * * * * * *
74075 ATGAGTATTATGGCAAATAATTGAGAAAAAAAATTTTCGGGTTAGTTTTTGGCCGAAATCGTGTA
387 CTGTGTATTGTGGCAAAAAATTGAG-AAAAAAATTATCGGGTCAGGTTTTGGCCGAAATCGTGTA
* * * *
74140 CTAACCATCACAGTTTTTGGTTAAAAAGGCATTCAGGAGCCCCGACTCAATTTTGCATGATTTTT
451 CT----AT--CAGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTT
* * * *
74205 GGCGCAAAGACTCCTTGAAATATCTATATTAATCGAACCAAATCTCAGTAATATTGGATATAAGG
510 GGCGCAAAGACTCCTTGAAATATCTATATTCATC-AACCAAATGTCAGCAACATTGGATATAAGG
* * * * * *
74270 ATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATCCGGAAAAAA
574 ATTTGCTTTTACCAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAAA
* ** * * * *
74331 TGGAAAAATGATATTAGAAGCGTGAAGGGCCCGTCAATTTTTTTGGCGTTGAATTATATATTTTT
1 TGAAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
* * * ** * *
74396 TCTGTGTATTGTGGAAAAAAATTGAGAAAAAAATTTTCAAGTCAGTTTTTGGCCGAAATTGTGTA
66 TATGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGTA
74461 CTAACCA
131 CTAACCA
74468 AATGTCAGCT
Statistics
Matches: 2387, Mismatches: 230, Indels: 133
0.87 0.08 0.05
Matches are distributed among these distances:
626 10 0.00
627 9 0.00
628 224 0.09
629 77 0.03
630 47 0.02
631 24 0.01
633 200 0.08
634 114 0.05
635 353 0.15
636 222 0.09
637 196 0.08
638 94 0.04
639 121 0.05
640 146 0.06
641 43 0.02
642 136 0.06
643 136 0.06
644 235 0.10
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (634 bp):
TGAAAAAATGATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTT
TATGAGTATTGTGGCAAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTAGCCGAAATCGTGTA
CTAACCATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTTT
GGCGCAAAGACTCCTTGAAATATCATATTCATCAAACCAAATCTCAGCAATATTGGATATAAGGA
TTTGTTTTTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATGGA
AAAATGATATTAGAAGCGTAAAAGCCCGTCAATCTTTTTGGCATTGAATTATATATCTTTTCTGT
GTATTGTGGCAAAAAATTGAGAAAAAAATTATCGGGTCAGGTTTTGGCCGAAATCGTGTACTATC
AGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGAC
TCCTTGAAATATCTATATTCATCAACCAAATGTCAGCAACATTGGATATAAGGATTTGCTTTTAC
CAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAAA
Found at i:74041 original size:957 final size:951
Alignment explanation
Indices: 71156--74467 Score: 4519
Period size: 957 Copynumber: 3.5 Consensus size: 951
71146 TGAAAAAGAC
* *
71156 GATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCGTTGAATTATATAT-TTTTCTGAGTAT
1 GATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTAT
* * * *
71220 TGTGGCAAAAAATTGAG-AAAAAACTTTTCGGGTCAGTTTTTAGCCGAAATCGTGTATTAACCAT
66 TATGGCAAAAAATTGAGAAAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTGTACTAACCAT
* * * * ** *
71284 CTCAGTTTATGGCCAAAAACGTGTTCCAAAGCCCCGACTCAATTTTGCATGATTTTTGGCACAAA
131 CACAGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAA
* *
71349 GACTCCTTAAAATATCTATATTCATCGAACCAAATCTCAGCAATATTGGATATAAGGATTTG-TT
196 GACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCAACATTGGATATAAGGATTTGCTT
* * *
71413 ATTTCGAGCATCTCAATCTTGATTCGATTTAATTAGAAATTAATTCGGGAAAAAATGGAAAAATG
261 -TTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTC-GGAAAAAATGAAAAAATG
* * *
71478 ATATTAGAAGCGTGAAAGGCCCGTCAATCTTTTTGGCATTGGATTGTATATCTTTTCTGTGTATT
324 ATATTAGAAGCGTGAAA-GCCCGTCAATCATTTTGGCATTGAATTATATATCTTTTCTGTGTATT
* * * *
71543 GTGGCAAAAAATTGAGAAAAAA-ATTTCGGGTCAGCTTTTGGCCGAAATCGTGTACAAACCATCA
388 GTGGCAAAAAATTGAGAAAAAATTTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCA
* ** *
71607 CGGTTTTTGGCTAAAAACGTGTTCCGGAGCCTCGACTCAATTTTGCATGATTTTTGGCGCAAAGA
453 CGGTTTTTGGCTAAAAAGGCATTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGA
* * * *
71672 CTCCTTGAAATATCTATATTCATCAAACCAAATGTCAGCCACATTGGATATAAGGATTTGCTTTT
518 CTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCAATATTGGATATAAGGATTTGTTTTT
*** * * * * *
71737 ACCAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAAGATGAAAAAAATGAT
583 TTAAGCATCTCAATCTTGTTTCGATTTAATCAGAAATTAATTCGAAAAAAAATG-GAAAAATGAT
* * ** * * * * *
71802 ATTAGAAGCGTAAAAACCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTATTGT
647 TTTAGAAGCGTGAAAGGCCCGTCAATCTTTTTGGCGTTGAATTATATATCTTTTCTGTGTATTGT
* * * *
71867 GGCAAAAAATTGAGAAAAAAATTTTC-GGGCTAGTTGTTAGCCGAAATCGTGTACTAACCATCAC
712 GGCAAAAAATTGAG----AAATTTTCAAGTC-AGTTTTTGGCCGAAATCGTGTACTAACCATCAC
* * * * * * *
71931 GGTTTTTGGCTAAAAAGGTGTTCCGGAGCCCCGGCTCAATTTTGCATGATTTTTGGCGCAAGGAC
772 GGTTTTTGGGTAAAAACGCGTTCCGGAGCCGCAGCTCAATTTTGCATGATTTTTGGTGC-A-GAG
* * * * * * *
71996 TCCTTGAAATATC--TA--TCTCAAACCAAATCTCAGCAATATTGGATATAAGGATTTGTTTTTT
835 TCCTTGAAATATCTATATTTATCAAACCAAATGTCAGCTACATTGGATATAAGCATTTGCTTTTA
* * * *
72057 CGAGCATCTCAATCTTGTTTCGATTTAATCAGAAATTAATTCGGAAAAAAAATGGAAAAAT
900 CGAGCATCTGAATCTTGTTTCGATTTAATTAGAAAGTAATTC-G-----CAA---AAAAAT
* * * * *
72118 GATATTAGAAGCGT-AAAAGACCCGTCAAT-TTTTTGGAATTGAATTATAAATCTTTTCTGTGTA
1 GATATTAGAAGCGTGAAAAG-CCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTA
* * * * *
72181 TTGTAGCAAAAAATTGAGAAAAAAAAATTAT-GGGTCAGGTTTTGGCCGAAATCTTGTACT----
65 TTATGGCAAAAAATTGAG-AAAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTGTACTAACC
* * * * *
72241 -T--TAGTTTTGGGCTAAAAACGCGTTCCTGAGCCCCGGCTCAATTTTGAATGATTTTTGGCGCA
129 ATCACAGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCA
* * *
72303 AAGATTCCTTGAAATATCTATATTCATC-AATCCAAATGTCAGCCACATTGGATATAAGGATTTG
194 AAGACTCCTTGAAATATCTATATTCATCGAA-CCAAATCTCAGCAACATTGGATATAAGGATTTG
* * *
72367 CTTTTACCAGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAAAATGAAAAAA
258 CTTTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCG-GAAAAAATGAAAAAA
* * * * *
72432 TGATATTAGAAGCGTGAAAACCCCGTTAAT-ATTTTGGCATTGAATTTTATATCTTTTATGAGTA
322 TGATATTAGAAGCGTG-AAAGCCCGTCAATCATTTTGGCATTGAATTATATATCTTTTCTGTGTA
* * *
72496 TTGTGGCAAAAAATTAAG-AAAAATATTTTCGGGTCAGTTTTTAGACGAAATCGTGTAATAACCA
386 TTGTGGCAAAAAATTGAGAAAAAAT-TTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCA
* *
72560 TCACGGTTTTTTTGGCTAAAAAGGCATTCCGGAGCCCCGGCTCAATTTTGCATGATTTTTGCCGC
450 TCACGG--TTTTTGGCTAAAAAGGCATTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGC
* * *
72625 AAAGACTCCTTGAAATATCTATATTCATCAAACGAAATCTCAGCAATATTGGAAATAAGTATTTG
513 AAAGACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCAATATTGGATATAAGGATTTG
* * *
72690 TTTTTTTGAGTATCTCAATCTTGATTCGATTTAATCAGAAATTAATTC-AGAAAAAAATGGAAAA
578 TTTTTTTAAGCATCTCAATCTTGTTTCGATTTAATCAGAAATTAATTCGA-AAAAAAATGGAAAA
*
72754 ATGATTTTAGAAGCGTGAACGGCCCGTCAATCTTTTTGGCGTTGAATTATATATCTTTTCTGTGT
642 ATGATTTTAGAAGCGTGAAAGGCCCGTCAATCTTTTTGGCGTTGAATTATATATCTTTTCTGTGT
* *
72819 ATTGTGGCAAAAAAATTGAGAAA----AAAGTCAGTTTTTGGCCGAAATAGTGTACTAACCATCA
707 ATTGTGGC-AAAAAATTGAGAAATTTTCAAGTCAGTTTTTGGCCGAAATCGTGTACTAACCATCA
72880 CGGTTTTTGGGTAAAAACGCGTTCCGGAGCCGCAGCTCAATTTTGCATGATTTTTGGTGCAGAGT
771 CGGTTTTTGGGTAAAAACGCGTTCCGGAGCCGCAGCTCAATTTTGCATGATTTTTGGTGCAGAGT
72945 CCTTGAAATATCTATATTTATCAAACCAAATGTCAGCTACATTGGATATAAGCATTTGCTTTTAC
836 CCTTGAAATATCTATATTTATCAAACCAAATGTCAGCTACATTGGATATAAGCATTTGCTTTTAC
73010 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAAGTAATTCGCAAAAAAAT
901 GAGCATCTGAATCTTGTTTCGATTTAATTAGAAAGTAATTCGCAAAAAAAT
73061 GATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTAT
1 GATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTAT
* *
73126 TATGGCAAATAATTGAGAAAAAAAATTTTCGGGTTAGTTTTTGGCCGAAATCGTGTACTAACCAT
66 TATGGCAAAAAATTGAGAAAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTGTACTAACCAT
** *
73191 CAC-GATTTTTGGCTAAAAACGCGTTCCGGAGCCCCGTTTCAATTTTGCATGATTTTTTGCGCAA
131 CACAG-TTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAA
* * * *
73255 AGACTCCTTGGAATATCTATATTCATCGAATCAAATGTCAGCCACATTGGATATAAGGATTTGCT
195 AGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCAACATTGGATATAAGGATTTGCT
* * *
73320 TTTACGAGCATCTGAATCTTGTTTCGATTTAATTATAAATTAATTAC-GCAAAAATGAAAAAAAA
260 TTTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATT-CGGAAAAAATG--AAAAAA
* **
73384 TGATATTAGAAGCGTGTAAAGCCCGTTAA-CATTTTGGCGGTGAATTATATATCTTTTCTGTGTA
322 TGATATTAGAAGCGTG-AAAGCCCGTCAATCATTTTGGCATTGAATTATATATCTTTTCTGTGTA
* * * *
73448 TTGT-GCCAAAAATTGAGAAAAAATTTTTCGTGTCAGTTTTT-GCCGAAATTGTGTACTAAGCAT
386 TTGTGGCAAAAAATTGAGAAAAAATTTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCAT
* * * * * *
73511 TACAGTTTTTGGTTAAAAAGGCATTCAGGAGCCCCAACTCAATTTTGCATGATTTTTGGCGGAAA
451 CACGGTTTTTGGCTAAAAAGGCATTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAA
*
73576 GACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCAATATTGGATATAAGGATTTGTTT
516 GACTCCTTGAAATATCTATATTCATCAAACCAAATCTCAGCAATATTGGATATAAGGATTTGTTT
73641 TTTTAAGCATCTCAATCTTGTTTCGATTTAATCAGAAATTAATTCGAAAAAAAATGGAAAAATGA
581 TTTTAAGCATCTCAATCTTGTTTCGATTTAATCAGAAATTAATTCGAAAAAAAATGGAAAAATGA
*
73706 TTTTAGAAGCGTGAAAGGCCCGTCAATCTTTTTGGCGTTGAATTATATATCTTTTCTGTGTATTA
646 TTTTAGAAGCGTGAAAGGCCCGTCAATCTTTTTGGCGTTGAATTATATATCTTTTCTGTGTATTG
*
73771 TGGCAAAAAATTGAGGAAATTTTTTTTTCAAGTCAGTTTTTGGCTGAAATCGTGTACTAACCATC
711 TGGCAAAAAATTGA-GAAA-----TTTTCAAGTCAGTTTTTGGCCGAAATCGTGTACTAACCATC
*
73836 ACGGTTTTTGGGTAAAAACGCGTTTCGGAGCCGCAGCTCAATTTTGCATGATTTTTGGTGCAGAG
770 ACGGTTTTTGGGTAAAAACGCGTTCCGGAGCCGCAGCTCAATTTTGCATGATTTTTGGTGCAGAG
73901 TCCTTGAAATATCTATATTTATCAAACCAAATGTCAGCTACATTGGATATAAGCATTTGCTTTTA
835 TCCTTGAAATATCTATATTTATCAAACCAAATGTCAGCTACATTGGATATAAGCATTTGCTTTTA
73966 CGAGCATCTGAATCTTGTTTCGATTTAATTAGAAAGTAATTCGCAAAAAAAT
900 CGAGCATCTGAATCTTGTTTCGATTTAATTAGAAAGTAATTCGCAAAAAAAT
* *
74018 GATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCACTAAATTATATATCTTTTATGAGTAT
1 GATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTAT
* *
74083 TATGGCAAATAATTGAGAAAAAAAATTTTCGGGTTAGTTTTTGGCCGAAATCGTGTACTAACCAT
66 TATGGCAAAAAATTGAGAAAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTGTACTAACCAT
* * * *
74148 CACAGTTTTTGGTTAAAAAGGCATTCAGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAA
131 CACAGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAA
* * * *
74213 GACTCCTTGAAATATCTATATTAATCGAACCAAATCTCAGTAATATTGGATATAAGGATTTGTTT
196 GACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCAACATTGGATATAAGGATTTGCTT
* * *
74278 TTTCGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATCCGGAAAAAATGGAAAAATGAT
261 TTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAATGAAAAAATGAT
* ** * *
74343 ATTAGAAGCGTGAAGGGCCCGTCAATTTTTTTGGCGTTGAATTATATATTTTTTCTGTGTATTGT
326 ATTAGAAGCGTGAA-AGCCCGTCAATCATTTTGGCATTGAATTATATATCTTTTCTGTGTATTGT
* * ** * *
74408 GGAAAAAAATTGAGAAAAAAATTTTCAAGTCAGTTTTTGGCCGAAATTGTGTACTAACCA
390 GGCAAAAAATTGAGAAAAAATTTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCA
74468 AATGTCAGCT
Statistics
Matches: 2097, Mismatches: 200, Indels: 110
0.87 0.08 0.05
Matches are distributed among these distances:
943 39 0.02
944 76 0.04
946 2 0.00
947 10 0.00
948 261 0.12
949 3 0.00
950 114 0.05
951 185 0.09
952 153 0.07
954 10 0.00
955 78 0.04
956 260 0.12
957 608 0.29
958 191 0.09
961 24 0.01
962 49 0.02
963 25 0.01
964 9 0.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (951 bp):
GATATTAGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTAT
TATGGCAAAAAATTGAGAAAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTGTACTAACCAT
CACAGTTTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAA
GACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCAACATTGGATATAAGGATTTGCTT
TTACGAGCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAATGAAAAAATGAT
ATTAGAAGCGTGAAAGCCCGTCAATCATTTTGGCATTGAATTATATATCTTTTCTGTGTATTGTG
GCAAAAAATTGAGAAAAAATTTTTCGGGTCAGTTTTTAGCCGAAATCGTGTACTAACCATCACGG
TTTTTGGCTAAAAAGGCATTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTC
CTTGAAATATCTATATTCATCAAACCAAATCTCAGCAATATTGGATATAAGGATTTGTTTTTTTA
AGCATCTCAATCTTGTTTCGATTTAATCAGAAATTAATTCGAAAAAAAATGGAAAAATGATTTTA
GAAGCGTGAAAGGCCCGTCAATCTTTTTGGCGTTGAATTATATATCTTTTCTGTGTATTGTGGCA
AAAAATTGAGAAATTTTCAAGTCAGTTTTTGGCCGAAATCGTGTACTAACCATCACGGTTTTTGG
GTAAAAACGCGTTCCGGAGCCGCAGCTCAATTTTGCATGATTTTTGGTGCAGAGTCCTTGAAATA
TCTATATTTATCAAACCAAATGTCAGCTACATTGGATATAAGCATTTGCTTTTACGAGCATCTGA
ATCTTGTTTCGATTTAATTAGAAAGTAATTCGCAAAAAAAT
Found at i:74529 original size:223 final size:216
Alignment explanation
Indices: 74240--74683 Score: 602
Period size: 216 Copynumber: 2.0 Consensus size: 216
74230 ATATTAATCG
* * * *
74240 AACCAAATCTCAGTAATATTGGATATAAGGATTTGTTTTTTCGAGCATCTCAATCTTGTTTCGAT
1 AACCAAATCTCAGTAACATTGGATATAAGCATTTGCTTTTACGAGCATCTCAATCTTGTTTCGAT
** *
74305 TTAATTAGAAATTAATCCGGAAAAAATGGAAAAATGATATTAGAAGCGTGAAGGGCCCGTCAATT
66 TTAATTAGAAATTAATCCGG----AA---AAAAATGATATTAGAAGCGTGAAAAGCCCGTCAATA
* * * ** *
74370 TTTTTGGCGTTGAATTATATATTTTTTCTGTGTATTGTGGAAAAAAATTGAGAAAAAAATTTTCA
124 TTTTTGGCATTGAATTATATATCTTTTATAAGTATTGTGGAAAAAAATTGAGAAAAAAAATTTCA
*
74435 AGTCAGTTTTTGGCCGAAATTGTGTACT
189 AGTCAGTTTTTGGCCGAAATCGTGTACT
* *
74463 AACCAAATGTCAGCT-ACATTGGATATAAGCATTTGCTTTTACGAGCATCTGAATCTTGTTTCGA
1 AACCAAATCTCAG-TAACATTGGATATAAGCATTTGCTTTTACGAGCATCTCAATCTTGTTTCGA
* * *
74527 TTTAATTAGAAATTAATTCGGAAAAAAATGATATTAGAAGCGTTAAAAGCCCGTTAATATTTTTG
65 TTTAATTAGAAATTAATCCGGAAAAAAATGATATTAGAAGCGTGAAAAGCCCGTCAATATTTTTG
* ** *
74592 GCATTGAATTATATATCTTTTATAAGTATTGTGGCAAAAAATTGAGAAAAAAAATTTCGGGTTAG
130 GCATTGAATTATATATCTTTTATAAGTATTGTGGAAAAAAATTGAGAAAAAAAATTTCAAGTCAG
74657 TTTTTGGCCGAAATCGTGTACT
195 TTTTTGGCCGAAATCGTGTACT
74679 AACCA
1 AACCA
74684 TCACGGTTTA
Statistics
Matches: 197, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
216 118 0.60
219 2 0.01
223 76 0.39
224 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (216 bp):
AACCAAATCTCAGTAACATTGGATATAAGCATTTGCTTTTACGAGCATCTCAATCTTGTTTCGAT
TTAATTAGAAATTAATCCGGAAAAAAATGATATTAGAAGCGTGAAAAGCCCGTCAATATTTTTGG
CATTGAATTATATATCTTTTATAAGTATTGTGGAAAAAAATTGAGAAAAAAAATTTCAAGTCAGT
TTTTGGCCGAAATCGTGTACT
Found at i:75550 original size:10 final size:10
Alignment explanation
Indices: 75535--75559 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
75525 GTTGCTGCAC
75535 AATTCCAGAA
1 AATTCCAGAA
75545 AATTCCAGAA
1 AATTCCAGAA
75555 AATTC
1 AATTC
75560 TAGAGTCCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.20, G:0.08, T:0.24
Consensus pattern (10 bp):
AATTCCAGAA
Found at i:76531 original size:6 final size:6
Alignment explanation
Indices: 76513--76545 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
76503 ATTAATCTAC
76513 TTTAGA TTTTAGA TTTAGA TTTAGA TTT-GA TTT
1 TTTAGA -TTTAGA TTTAGA TTTAGA TTTAGA TTT
76546 GCTTTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (6 bp):
TTTAGA
Found at i:77792 original size:322 final size:322
Alignment explanation
Indices: 76751--78490 Score: 2377
Period size: 322 Copynumber: 5.4 Consensus size: 322
76741 CGGCACGATC
76751 AGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTATTGTGGC
1 AGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTATTGTGGC
* **
76816 AAAAAATTGAGAAAAAAATTTTCGTGTTAGTTTTTAGCCGAAATCCTGTACTAACCATCACAATT
66 AAAAAATTGAGAAAAAAATTTTCGTGTTAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTT
* * * * *
76881 TTTGGTTAAAAAGGCGTTCAGGAGCCCCGACTCAATTTTGCATGATTTTTGACGCAAAGACTACT
131 TTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCT
* * * * *
76946 TGAAATATCTATATTCATCGAACCAAATCTCAG-TAATATTGGATATAAGGATTTGTTTTTTCGA
196 TGAAATATCTATATTCATCGAACCAAATGTCAGCCACT-TTGGATATAAGGATTTGCTTTTACGA
* * *
77010 GCATCTCAATCTTGTTTCGATTTAATTAGAAATTAATTTGGAAAAAAATG-GAAAAATGATATT
260 GCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA-TTCGAAAAAAATGAAAAAAATGATATT
* * * * ** * *
77073 AGAAGCGTGAAAGGCCCGTCAATCTTTTTAGCGGTGAATTATATATCTTTTCTGTGTATTGTGGC
1 AGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTATTGTGGC
* * * *
77138 AAAAAATTGAGAAAAAAATTTTCGGGTCAGTTTTTGGCCGAAATCGTGTAGTAACCATCACGGTT
66 AAAAAATTGAGAAAAAAATTTTCGTGTTAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTT
* * * * *
77203 TTGGGCTAAAAACGCGTTCCGGAGCCGCAACTCAATTTTGCATGCTTTTTGGCACAAAGACTCCT
131 TTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCT
* * * * *
77268 TG-AATATCTATATTAATCAAACCAAATGTCAGCCACATTGGATATAAGCATTTGCTTTTATGAG
196 TGAAATATCTATATTCATCGAACCAAATGTCAGCCACTTTGGATATAAGGATTTGCTTTTACGAG
*
77332 CATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG--------CAAAAAAATGATATT
261 CATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAATGAAAAAAATGATATT
* *
77386 AGAAGCATGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTTTGAGTATTGTGGC
1 AGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTATTGTGGC
* * * * **
77451 AAAAAATTGAGACAAAAA-TTTCGGGTTAGTTTTTGGCCGAAATTGCATACTAACCATCACGGTT
66 AAAAAATTGAGAAAAAAATTTTCGTGTTAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTT
*
77515 TTTGGCTAAAAACGCGTTCCGGAGCCCCGATTCAATTTTGCATGATTTTTGGCGCAAAGACTCCT
131 TTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCT
* *
77580 TGGAATATCTATATTCATCGAATCAAATGTCAGCCACTTTGGATATAAGGATTTGCTTTTACGAG
196 TGAAATATCTATATTCATCGAACCAAATGTCAGCCACTTTGGATATAAGGATTTGCTTTTACGAG
* * *
77645 CATCTGAATCTTGTTTCGATTTAATTAGAAAATGATACAGAAAAAAATGAAAAAAATGATATT
261 CATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-GAAAAAAATGAAAAAAATGATATT
77708 AGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTATTGTGGC
1 AGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTATTGTGGC
* * * *
77773 AAAAAATTGAGATAAAAATTTTCATGTTAGTTTTTAGCCGAAATCGTGGACTAA-CATCACAGTT
66 AAAAAATTGAGAAAAAAATTTTCGTGTTAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTT
* * * * * * * *
77837 TTTGGTTAAAAAGGCGTTCAGGAGCACCGTCTCAAATTTGCATAATTTTTGGCGCAAAGACTACT
131 TTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCT
* * * *
77902 TGAAATATCTATATTCATCGAACCAAATCTCAG-TAATATTGGATATAAGGATTTG-TTATTTCG
196 TGAAATATCTATATTCATCGAACCAAATGTCAGCCACT-TTGGATATAAGGATTTGCTT-TTACG
* * *
77965 AGCATCTCAATCTTGTTTCGATTTAATCA-AAATTAATTCAGAAAAAAAATG-GAAAAATGATAT
259 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-G-AAAAAAATGAAAAAAATGATAT
78028 T
322 T
* * * * * *
78029 AGAAGCGTGAAAGGCCCGTCAATCTTTTTGGCGTTGAATTATATATCTTTTCTGTGTATTGTGGC
1 AGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTATTGTGGC
* * * *
78094 AAAAAATTGAGAAAAAAATTTTC-TAGTCAGTTTTTGGCCGAAATCATGTACTAACAATCACGGT
66 AAAAAATTGAGAAAAAAATTTTCGT-GTTAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGT
* * * * * *
78158 TTTTCGAT-AAAACGCTTTCCGGAGCCCCGGCTCAATTTTGCATGATTTTTGACGCAAAGTCTCC
130 TTTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCC
* * *
78222 TTGAAATATCTATATTCATCAAACCAAATGTCAACCACGTTGGATATAAGGATTTGCTTTTACGA
195 TTGAAATATCTATATTCATCGAACCAAATGTCAGCCACTTTGGATATAAGGATTTGCTTTTACGA
*
78287 GCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGCAAAAAAT-AAAAAAATGATATT
260 GCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAATGAAAAAAATGATATT
*
78349 AGAAGCGTGAAAACCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTATTGTGGC
1 AGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTATTGTGGC
* * * *
78414 TAAAAATTGAGATAAAAATTTTCATGTTAGTTTTTAGCCGAAATCGTGGACTAACCATCACGGTT
66 AAAAAATTGAGAAAAAAATTTTCGTGTTAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTT
*
78479 TTTTGCGTAAAA
131 TTTGGC-TAAAA
Statistics
Matches: 1239, Mismatches: 154, Indels: 50
0.86 0.11 0.03
Matches are distributed among these distances:
312 102 0.08
313 176 0.14
314 1 0.00
320 141 0.11
321 343 0.28
322 448 0.36
323 28 0.02
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (322 bp):
AGAAGCGTGAAAAGCCCGTTAATATTTTTGGCATTGAATTATATATCTTTTATGAGTATTGTGGC
AAAAAATTGAGAAAAAAATTTTCGTGTTAGTTTTTAGCCGAAATCGTGTACTAACCATCACGGTT
TTTGGCTAAAAACGCGTTCCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCGCAAAGACTCCT
TGAAATATCTATATTCATCGAACCAAATGTCAGCCACTTTGGATATAAGGATTTGCTTTTACGAG
CATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAATGAAAAAAATGATATT
Done.