Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01017972.1 Corchorus olitorius cultivar O-4 contig18005, 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: 22439
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Found at i:326 original size:3 final size:3
Alignment explanation
Indices: 318--346 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
308 TCCAGTTCCA
318 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
347 AAAAAGATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:514 original size:29 final size:29
Alignment explanation
Indices: 482--563 Score: 107
Period size: 28 Copynumber: 2.9 Consensus size: 29
472 ATTTGAACGT
*
482 TTTTGTCTCCTTAACTTAAATTTTGGATA
1 TTTTGTCTCCTTAACTTCAATTTTGGATA
511 TTTTG--TCCTTAAACTTCAATTTTGGATA
1 TTTTGTCTCCTT-AACTTCAATTTTGGATA
*
539 TTTTGTC-CCATGAACTTCAATTTTG
1 TTTTGTCTCC-TTAACTTCAATTTTG
564 TGACTTTTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
27 5 0.11
28 21 0.45
29 20 0.43
30 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.11, T:0.50
Consensus pattern (29 bp):
TTTTGTCTCCTTAACTTCAATTTTGGATA
Found at i:809 original size:29 final size:30
Alignment explanation
Indices: 748--810 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
738 TTTGAGGGGG
* * **
748 CAAAATGTCCAAAAATTGAAGTTCATGGGA
1 CAAAATGACCAAAAATTAAAGTTCATGACA
778 CAAAATGACC-AAAATTAAAGTTCATGACA
1 CAAAATGACCAAAAATTAAAGTTCATGACA
807 CAAA
1 CAAA
811 GCATCCAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 20 0.69
30 9 0.31
ACGTcount: A:0.49, C:0.16, G:0.14, T:0.21
Consensus pattern (30 bp):
CAAAATGACCAAAAATTAAAGTTCATGACA
Found at i:10337 original size:21 final size:21
Alignment explanation
Indices: 10313--10379 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
10303 AATTCTCTGT
10313 AAATTAAGAAATACTCAACTC
1 AAATTAAGAAATACTCAACTC
* ** *
10334 AAATTATAGAAA-ATTC-TTTGT
1 AAATTA-AGAAATACTCAACT-C
10355 AAATTAAGAAATACTCAACTC
1 AAATTAAGAAATACTCAACTC
10376 AAAT
1 AAAT
10380 CATGATCCTT
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
20 6 0.18
21 22 0.65
22 6 0.18
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (21 bp):
AAATTAAGAAATACTCAACTC
Found at i:10359 original size:42 final size:42
Alignment explanation
Indices: 10300--10379 Score: 151
Period size: 42 Copynumber: 1.9 Consensus size: 42
10290 GCTAAGTCTT
10300 GAAAATTCTCTGTAAATTAAGAAATACTCAACTCAAATTATA
1 GAAAATTCTCTGTAAATTAAGAAATACTCAACTCAAATTATA
*
10342 GAAAATTCTTTGTAAATTAAGAAATACTCAACTCAAAT
1 GAAAATTCTCTGTAAATTAAGAAATACTCAACTCAAAT
10380 CATGATCCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.31
Consensus pattern (42 bp):
GAAAATTCTCTGTAAATTAAGAAATACTCAACTCAAATTATA
Found at i:12902 original size:22 final size:22
Alignment explanation
Indices: 12862--12904 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12852 GAGAGATGCT
* *
12862 AATCCATTGTTAGTTGAGAACA
1 AATCCATTGTTAATCGAGAACA
*
12884 AATCCATTTTTAATCGAGAAC
1 AATCCATTGTTAATCGAGAAC
12905 TATACAACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (22 bp):
AATCCATTGTTAATCGAGAACA
Found at i:14001 original size:2 final size:2
Alignment explanation
Indices: 13994--14025 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13984 AGAAACTAAA
13994 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
14026 TATCGTATGG
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:15511 original size:153 final size:152
Alignment explanation
Indices: 15234--15539 Score: 540
Period size: 153 Copynumber: 2.0 Consensus size: 152
15224 TCTATTGAAA
* *
15234 CAATTTCAGCCTTTGATCTTATTTTTTTTGGTATCCCCGACGGTATCCAGCCCTGACTAATCTGG
1 CAATTTCAGCCTTTGATCTTATTTTTTTTGGTATCCCCAACGGTATCCAGCCCTGACTAATCCGG
*
15299 ATCTGACCCGCGTCGTGTACCTGGTTATAGTGGATGAGTCTCCCAACAGGAGCAGCTGCGTACGC
66 ATCTGACCCGCGTCGCGTACCTGGTTATAGTGGATGAGTCTCCCAACAGGAGCAGCTGCGTACGC
15364 AAGGTCTCGAACCTGAGACCTG
131 AAGGTCTCGAACCTGAGACCTG
*
15386 CAATTTCAGCTTTTGATCTTATTTTTTTTTGGTATCCCCAACGGTATCCAGCCCTGACTAATCCG
1 CAATTTCAGCCTTTGATCTTA-TTTTTTTTGGTATCCCCAACGGTATCCAGCCCTGACTAATCCG
* * *
15451 GATCTGACCCGCGTCGCGTACCTGGTTATGGTGGTTGAGTCTCCCAACAGGGGCAGCTGCGTACG
65 GATCTGACCCGCGTCGCGTACCTGGTTATAGTGGATGAGTCTCCCAACAGGAGCAGCTGCGTACG
15516 CAAGGTCTCGAACCTGAGACCTG
130 CAAGGTCTCGAACCTGAGACCTG
15539 C
1 C
15540 TTAAGCTGGA
Statistics
Matches: 146, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
152 20 0.14
153 126 0.86
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (152 bp):
CAATTTCAGCCTTTGATCTTATTTTTTTTGGTATCCCCAACGGTATCCAGCCCTGACTAATCCGG
ATCTGACCCGCGTCGCGTACCTGGTTATAGTGGATGAGTCTCCCAACAGGAGCAGCTGCGTACGC
AAGGTCTCGAACCTGAGACCTG
Found at i:17686 original size:20 final size:20
Alignment explanation
Indices: 17620--17686 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 20
17610 TATAGTGTGA
17620 TACTGTGAGGTTTATAGTAG
1 TACTGTGAGGTTTATAGTAG
*
17640 TACTATGTGTAGGTGTT-TTGT-G
1 TAC--TGTG-AGGT-TTATAGTAG
17662 ATACTGTGAGGTTTATAGTAG
1 -TACTGTGAGGTTTATAGTAG
17683 TACT
1 TACT
17687 ATAAGGTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
19 2 0.05
20 14 0.37
21 5 0.13
22 5 0.13
23 10 0.26
24 2 0.05
ACGTcount: A:0.22, C:0.06, G:0.28, T:0.43
Consensus pattern (20 bp):
TACTGTGAGGTTTATAGTAG
Found at i:18402 original size:40 final size:40
Alignment explanation
Indices: 18356--18435 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
18346 TTATTTCCTG
18356 GAAATTGTAAAAGCAGAGAACAATTAACAATAGTTACAAC
1 GAAATTGTAAAAGCAGAGAACAATTAACAATAGTTACAAC
18396 GAAATTGTAAAAGCAGAGAACAATTAACAATAGTTACAAC
1 GAAATTGTAAAAGCAGAGAACAATTAACAATAGTTACAAC
18436 TCTGTATTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.53, C:0.12, G:0.15, T:0.20
Consensus pattern (40 bp):
GAAATTGTAAAAGCAGAGAACAATTAACAATAGTTACAAC
Found at i:19994 original size:329 final size:327
Alignment explanation
Indices: 19213--22439 Score: 3224
Period size: 329 Copynumber: 9.8 Consensus size: 327
19203 TTCGTGTCAG
** * * * * * * * *
19213 TTTGGCTAAAAACGCAATCCGGGG-CTCGACTCAATTTTGCATGATTTTTTGCGCCAAGACTAAA
1 TTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCAT
** * * * ** *
19277 TGAAATATCTATATTCAT-CTAACCAAATCTAATCGACATTGGATTTAAGGGTTTGTTTTTACGA
66 TGAAATATCTATATTCATAC-AAATAAATCTCAGCCACAACGGATTTAAGGATTTGTTTTTACGA
* * * * * *
19341 GCATCTGAATCAT-TTTTCGATTTAATCAGAAATTAATTCAGAAAAAATATGAAAAAACGGTATT
130 CCATCAGAATC-TGGTTTCGATTTAATTAGAAATTAATT-AG-AAAAATAAG-AAAAACGATATT
* * * * *
19405 AGAAGCGCGAAAAGCCCTTCAATCC-TTTTGGCGATGAATTATAAATTATTTTATGAGTATTGTG
191 AGAAGCGTGAACAGCCCTTCAA-CCTTTTTGGCGTTGAATTATATA-T-TTTTATGAGTATTTTG
* * * * * *
19469 CCCAAAACTTGAAGAAAACCTTTCTGGTCAATTTTTGCAAAATATTAGACGAAATCGTGTACTAT
253 CCCAAAACTTGAGGAAAAACTTTCTGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAA
*
19534 CCATCACTGTT
318 CTATCAC-GTT
* * * * * * * *
19545 TTTGGCAAAAAATGTGTTCCGGGG-CCTTGGCTCAGTTTTGCATGATGTTTTA-CGCCGAGACTC
1 TTTGGCTAAAAACGCGTTCCGGGGTCC-CGTCTCAGTTTTGCATAAT-TTTTAGCGCCAAGTCTC
* * ** * * * * *
19608 CTTAAAATATCTATATTCAT-CTGATCAAATCTTAGCAACATCGAATTTAACGATTTGTTTTTAC
64 ATTGAAATATCTATATTCATACAAAT-AAATCTCAGCCACAACGGATTTAAGGATTTGTTTTTAC
* * * *
19672 GATCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTTAGAAAAATAAGAAAAACGATATTA
128 GACCATCAGAATCTGGTTTCGATTTAATTAGAAATTAA-TTAGAAAAATAAGAAAAACGATATTA
* * *
19737 GAAGCGTGAACACCCCTTCAACCTTTTTGACGTTGAATTATATATTTTTATTAGTATTTTGACCC
192 GAAGCGTGAACAGCCCTTCAACCTTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTG-CCC
* *
19802 AAAA-TTGAGGAAAAACTTACGGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTA
256 AAAACTTGAGGAAAAACTTTCTGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTA
19866 TCACAGTT
321 TCAC-GTT
*
19874 TTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCGT
1 TTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCAT
* * * *
19939 TGAAATATCAATATACATAAAAATAATTCTCAGCCACAACGGATTTAAGGATTTGTTTTTACGAC
66 TGAAATATCTATATTCATACAAATAAATCTCAGCCACAACGGATTTAAGGATTTGTTTTTACGAC
* * * * *
20004 CATCAGAAACTGGTTTCAATTTAATTAGAAATTAATTAAAAAAAT-AGGAAAACGATATTAGAAA
131 CATCAGAATCTGGTTTCGATTTAATTAGAAATTAATTAGAAAAATAAGAAAAACGATATTAGAAG
* * * * * *
20068 CGCGAAAAGCCCTTCAATCTTATTGGCGTTGAATTATATATTATTTTGTGAGTATTGTGCCCAAA
196 CGTGAACAGCCCTTCAACCTTTTTGGCGTTGAATTATATA-T-TTTTATGAGTATTTTGCCCAAA
* * * * * *
20133 ACTTGAGGAAAATCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCATGTACTATCCATCA
259 ACTTGAGGAAAAACTTTCTGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTATCA
20198 CGGTT
324 C-GTT
* * * * * * *
20203 TTTGGCTAAAAATGTGTTCCGGGG-CCTTGGCTCAGTTTTGCATGATGTTTTA-CGCCGAGACTC
1 TTTGGCTAAAAACGCGTTCCGGGGTCC-CGTCTCAGTTTTGCATAAT-TTTTAGCGCCAAGTCTC
* ** * * ** * *
20266 CTTGAAATATCTATATTCAT-CTGATCAAATCTTAGCAACATTGAATTTAACGATTTGTTTTTAC
64 ATTGAAATATCTATATTCATACAAAT-AAATCTCAGCCACAACGGATTTAAGGATTTGTTTTTAC
* * * * * *
20330 GATCATCTGAATCTTGTTTCGATTTCATTAAAAATTAATTTAGAAAAAATAAGAAAAATGATATT
128 GACCATCAGAATCTGGTTTCGATTTAATTAGAAATTAA-TTAG-AAAAATAAGAAAAACGATATT
* * ***
20395 AGAAGCGTGAAC-GCCCCTTCAACCCTTTTGGCGTTGAATAATATATTTTTATGAGTATTTTAAG
191 AGAAGCGTGAACAG-CCCTTCAACCTTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTGCC
* * * *
20459 CAAAAATTAAGTAAAAAACTTGT-AGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAA
255 CAAAACTTGAG-GAAAAACTT-TCTGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAA
20523 CTATCACGTTT
318 CTATCACG-TT
* * * *
20534 TTTAGCTAAAAACGCATTCCGGAGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTTTCAT
1 TTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCAT
* * *
20599 TGAAATATCTATATTCATATAATTAAATCTCAACCAC-ACTGGATTTAAGGATTT-TTTTTACGA
66 TGAAATATCTATATTCATACAAATAAATCTCAGCCACAAC-GGATTTAAGGATTTGTTTTTACGA
* * *
20662 CCTTCAGAAAT-TGGTTTCAATTTAATTAGAAATTAATTA-AAAAA-AA-TAAAACGATATTAGA
130 CCATCAG-AATCTGGTTTCGATTTAATTAGAAATTAATTAGAAAAATAAGAAAAACGATATTAG-
* * * *
20723 AACGCG-GAA-AGCCCTTCAATCTTATTGGCGTTGAATTATATATTATTTTGTGAGTATTGTGCC
193 AA-GCGTGAACAGCCCTTCAACCTTTTTGGCGTTGAATTATATA-T-TTTTATGAGTATTTTGCC
* * * * * *
20786 CAAAACTTGAGGAAAATCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCATGTACTATCC
255 CAAAACTTGAGGAAAAACTTTCTGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACT
20851 ATCACGGTT
320 ATCAC-GTT
* * * * * * * * * *
20860 TTTGGCAAAAAATGTGTTTCGGGG-CCTTGGCTCAGTTTTGCATGATGTTTTA-CGCCGAGAC-A
1 TTTGGCTAAAAACGCGTTCCGGGGTCC-CGTCTCAGTTTTGCATAAT-TTTTAGCGCCAAGTCTC
* ** * * * * * *
20922 ACTTGAAATATCTATATTTAT-CTGATCAAATCTTAGCAACATCGAATTTAACGATTTATTTTTA
64 A-TTGAAATATCTATATTCATACAAAT-AAATCTCAGCCACAACGGATTTAAGGATTTGTTTTTA
* * * *
20986 CGATCATCTGAATTCT-GTTTCGATTTAATTAAAAATTAATTTAGAAAAATAAGAAAAATGATAT
127 CGACCATCAGAA-TCTGGTTTCGATTTAATTAGAAATTAA-TTAGAAAAATAAGAAAAACGATAT
* * *
21050 TAGAAGCGTGAACA-CCCATTCAACCTTTTTGGCGCTGAATAATATATTTTTATGAGTATTTTGA
190 TAGAAGCGTGAACAGCCC-TTCAACCTTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTGC
* * * * *
21114 GCAAAAATTAAGGAAAAAACTTGT-AGGTCAATTTTTACGAAATTTTAGCCGAAATCGTGTACTA
254 CCAAAACTTGAGG-AAAAACTT-TCTGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTA
21178 ACTATCACGATT
317 ACTATCACG-TT
* *
21190 TTTGGCTAAAAACGCGTTCCGGAGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTTTCAT
1 TTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCAT
* * *
21255 TGAAATATATATATTCATATAATTAAATCTCAGCCAC-ACTGGATTTAAGGATTT-TTTTTACGA
66 TGAAATATCTATATTCATACAAATAAATCTCAGCCACAAC-GGATTTAAGGATTTGTTTTTACGA
* * *
21318 CCTTCAGAAAT-TGGTTTCAATTTAATTAGAAATTAATTA-AAAAA-AAG-AAAATGATATTAGA
130 CCATCAG-AATCTGGTTTCGATTTAATTAGAAATTAATTAGAAAAATAAGAAAAACGATATTAGA
* * * *
21379 AGCGTGAACACCCCTTCAATCTTTTTGACGTTGAATTATATATTTTTATGAGTATTTTGACCAAA
194 AGCGTGAACAGCCCTTCAACCTTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTGCCCAAA
* *
21444 AATTGAGGAAAAAACTTAT-GGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTAT
259 ACTTGAGG-AAAAACTT-TCTGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTAT
21508 CACAGTT
322 CAC-GTT
21515 TTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCAT
1 TTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCAT
* * *
21580 TGAAATATCTATATACATAAAAATAATTCTCAGCCAC-ACTGGATTTAAGGATTTGTTTTTACGA
66 TGAAATATCTATATTCATACAAATAAATCTCAGCCACAAC-GGATTTAAGGATTTGTTTTTACGA
* * * * * *
21644 CAATCAGAAACTGGTTTCAATTTAATTAGACATTAATTAAAAAAAT-AGGAAAACGATATTAGAA
130 CCATCAGAATCTGGTTTCGATTTAATTAGAAATTAATTAGAAAAATAAGAAAAACGATATTAGAA
* * * * *
21708 GCGCGAAAAGCCCTTCAATCTTTTTTGGCGTTGAATTTTATATTATTTTATGAGTATTATGCCCA
195 GCGTGAACAGCCCTTCAA-CCTTTTTGGCGTTGAATTATATA-T-TTTTATGAGTATTTTGCCCA
* * * * *
21773 AAACTTGAGGAAAATCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACTATCCAT
257 AAACTTGAGGAAAAACTTTCTGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTAT
*
21838 AACGATT
322 CACG-TT
* * * * * **
21845 TTTGGATAAAAACGTGTTCCGGGG-CCCTGGCTAAGTTTTGCATAATTTTTTA-CGCCGACACTC
1 TTTGGCTAAAAACGCGTTCCGGGGTCCC-GTCTCAGTTTTGCATAA-TTTTTAGCGCCAAGTCTC
* * ** * * ** * *
21908 CTTGAAATTTCTATATTCAT-CTGATCAAATCTTAGCAACATTGAATTTAACGATTTGTTTTTAC
64 ATTGAAATATCTATATTCATACAAAT-AAATCTCAGCCACAACGGATTTAAGGATTTGTTTTTAC
* * * * * * *
21972 GATCATCTGAATCTTGTTTCGATTTCATTAAAAATTAATTTAGAAAAAATAAGAAAAATGATATA
128 GACCATCAGAATCTGGTTTCGATTTAATTAGAAATTAA-TTAG-AAAAATAAGAAAAACGATATT
** * * * **
22037 AGAAGCGTGAACAATCCTTCAACCTTTTCGGCTTTGAATAATATATTTTTATGAGTATTTTGAGC
191 AGAAGCGTGAACAGCCCTTCAACCTTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTGCCC
* * ** *
22102 AAAAATT-AGGGAAAAAACTTGT-AGGAAAATTTTTGTGAAATTTTAGCCGAAATCGTGTACTAA
256 AAAACTTGA-GG-AAAAACTT-TCTGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAA
22165 CTATCACGGTT
318 CTATCAC-GTT
* * * *
22176 TTTGGCTAAAAACGCGTTCCGGAGTCCCGTCTCAGTTTTGCATAATTTTTAGCACCAAGTTTCAA
1 TTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCAT
* *
22241 TGAAATATCTATATTCATATAATTAAATCTCAGCCAC-ACTGGATTTAAGGATTT-TTTTTACGA
66 TGAAATATCTATATTCATACAAATAAATCTCAGCCACAAC-GGATTTAAGGATTTGTTTTTACGA
* * *
22304 CCTTCAGAAAT-TGGTTTC-AGTTTAATGAGAAATTAATTA-AAAAA-ATG-AAAACGATATTAG
130 CCATCAG-AATCTGGTTTCGA-TTTAATTAGAAATTAATTAGAAAAATAAGAAAAACGATATTAG
* * * * * * *
22364 AAACGCGAAAAGCCCTTCAATCTTATTGGCGTTGAATTATATATTATTTTGTGAGTATTGTGCCC
193 AAGCGTGAACAGCCCTTCAACCTTTTTGGCGTTGAATTATATA-T-TTTTATGAGTATTTTGCCC
22429 AAAACTTGAGG
256 AAAACTTGAGG
Statistics
Matches: 2382, Mismatches: 421, Indels: 189
0.80 0.14 0.06
Matches are distributed among these distances:
325 337 0.14
326 192 0.08
327 163 0.07
328 64 0.03
329 504 0.21
330 463 0.19
331 405 0.17
332 111 0.05
333 137 0.06
334 6 0.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (327 bp):
TTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCAT
TGAAATATCTATATTCATACAAATAAATCTCAGCCACAACGGATTTAAGGATTTGTTTTTACGAC
CATCAGAATCTGGTTTCGATTTAATTAGAAATTAATTAGAAAAATAAGAAAAACGATATTAGAAG
CGTGAACAGCCCTTCAACCTTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTGCCCAAAAC
TTGAGGAAAAACTTTCTGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTATCACG
TT
Found at i:21315 original size:986 final size:979
Alignment explanation
Indices: 19213--22432 Score: 3701
Period size: 986 Copynumber: 3.3 Consensus size: 979
19203 TTCGTGTCAG
** * * * * * *
19213 TTTGGCTAAAAACGCAATCCGGGGCTCGACTCAATTTTGCATGATTTTTTGCGCCAAGACTAAAT
1 TTTGGCTAAAAACGCGTTCCGGGGCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGACTCAAT
* * * * * * * *
19278 GAAATATCTATATTCATCTAACCAAATCTAATCGACATTGGATTTAAGGGTTTGTTTTTACGAGC
66 GAAATATCTATATTCATATAATCAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACGACC
* * * * *
19343 ATCTGAATCATT-TTTCGATTTAATCAGAAATTAATTCAGAAAAAATATGAAAAAACGGTATTAG
131 ATCTGAATC-TTGTTTCGATTTAATTAGAAATTAATTTAGAAAAAATAAG-AAAAATGATATTAG
* * * * * *
19407 AAGCGCGAAAAG-CCCTTCAATCCTTTTGGCGATGAATTATAAATTATTTTATGAGTATTGTGCC
194 AAGCGTG-AACGCCCCTTCAATCCTTTTGGCGTTGAATTATATA-T-TTTTATGAGTATTTTGAC
* * * * * * *
19471 CAAAACTTGAAG-AAAACCTTTCTGGTCAATTTTTGCAAAATATTAGACGAAATCGTGTACTATC
256 CAAAAATT-AAGAAAAAACTTT-AGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAAC
* * * * * * * *
19535 CATCAC-TGTTTTTGGCAAAAAATGTGTTCCGGGGCCTTGGCTCAGTTTTGCATGATGTTTTA-C
319 TATCACGT-TTTTTGGCTAAAAACGCGTTCCGGGTCC-CGTCTCAGTTTTGCATAAT-TTTTAGC
* * * * * * * * * * *
19598 GCCGAGACTCCTTAAAATATCTATATTCATCTGATCAAATCTTAGCAACA-TCGAATTTAACGAT
381 GCCAAGTCTCATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACT-GGATTTAAGGAT
* * * * *
19662 TTGTTTTTACGATCATCTG-AATCTTGTTTCGATTTAATTAAAAATTAATTTAGAAAAATAAGAA
445 TTGTTTTTACGACCATCAGAAAT-TGGTTTCAATTTAATTAGAAATTAA-TTA-AAAAA-AAGAA
* * *
19726 AAACGATATTAG-AA-GCGTGAACACCCCTTCAACCTTTTTGACGTTGAATTATATATT-TTTAT
506 AAACGATATTAGAAACGCG-GAA-AGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTT-T
* * * * * *
19788 T-AGTATTTTGACCCAAAA-TTGAGGAAAAACTTACGGGTCAATTTTTGCGAAATTTTAGCCGAA
568 TGAGTATTATG-CCCAAAACTTGAGGAAAATCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAA
* * * * * * *
19851 ATCGTGTACTAACTATCACAGTTTTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCA
632 ATCGTGTACTATCCATCACGGTTTTTGGCAAAAAACGTGTTCCGGGG-CCTGGCTCAGTTTTGCA
* * * * * *** * * * *
19916 TAATTTTTAGCGCCAAGTCTCGTTGAAATATCAATATACATAAAAAT-AATTCTCAGCCACAACG
696 TAATTTTTA-CGCCGAGACAC-TTGAAATATCTATATTCAT-CTGATCAAATCTTAGCAACATCG
* * * * * * * *
19980 GATTTAAGGATTTGTTTTTACGACCATCAGAAACTGGTTTCAATTTAATTAGAAATTAA-TTAAA
758 AATTTAACGATTTGTTTTTACGATCATCTGAATCT-GTTTCGATTTAATTAAAAATTAATTTAGA
* * * * * * * *
20044 AAAAT-AGGAAAACGATATTAGAAACGCGAAAAGCCCTTCAATCTTATTGGCGTTGAATTATATA
822 AAAATAAGAAAAATGATATTAGAAGCGTGAACA-CCCTTCAACCTTTTTGGCGTTGAATAATATA
* * ** * * * * *
20108 TTATTTTGTGAGTATTGTGCCCAAAACTTGAGG-AAAATCTT-TCTGGTCAATTTTTGCAAAATT
886 -T-TTTTATGAGTATTTTGAGCAAAAATTAAGGAAAAAACTTGT-AGGTCAATTTTTGCGAAATT
* * * *
20171 TTAGACGAAATCATGTACTATCCATCACGGTT
948 TTAGCCGAAATCGTGTACTAACTATCACGGTT
* * * * * * *
20203 TTTGGCTAAAAATGTGTTCCGGGGCCTTGGCTCAGTTTTGCATGATGTTTTA-CGCCGAGACTCC
1 TTTGGCTAAAAACGCGTTCCGGGGCC-CGTCTCAGTTTTGCATAAT-TTTTAGCGCCAAGACTCA
* * * * * * * *
20267 TTGAAATATCTATATTCATCTGATCAAATCTTAGCAACATTGAATTTAACGATTTGTTTTTACGA
64 ATGAAATATCTATATTCATATAATCAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACGA
* * *
20332 TCATCTGAATCTTGTTTCGATTTCATTAAAAATTAATTTAGAAAAAATAAGAAAAATGATATTAG
129 CCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTAGAAAAAATAAGAAAAATGATATTAG
* * * *
20397 AAGCGTGAACGCCCCTTCAACCCTTTTGGCGTTGAATAATATATTTTTATGAGTATTTTAAGCAA
194 AAGCGTGAACGCCCCTTCAATCCTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTGACCAA
20462 AAATTAAGTAAAAAACTTGTAGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTAT
259 AAATTAAG-AAAAAACTT-TAGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTAT
* *
20527 CACGTTTTTTAGCTAAAAACGCATTCCGGAGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAA
322 CACGTTTTTTGGCTAAAAACGCGTTCCGG-GTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAA
* *
20592 GTTTCATTGAAATATCTATATTCATATAATTAAATCTCAACCACACTGGATTTAAGGATTT-TTT
386 GTCTCATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTTGTTT
* *
20656 TTACGACCTTCAGAAATTGGTTTCAATTTAATTAGAAATTAATTAAAAAAAA-TAAAACGATATT
451 TTACGACCATCAGAAATTGGTTTCAATTTAATTAGAAATTAATTAAAAAAAAGAAAAACGATATT
* *
20720 AGAAACGCGGAAAGCCCTTCAATCTTATTGGCGTTGAATTATATATTATTTTGTGAGTATTGTGC
516 AGAAACGCGGAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTTT-TGAGTATTATGC
*
20785 CCAAAACTTGAGGAAAATCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCATGTACTATC
580 CCAAAACTTGAGGAAAATCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACTATC
* * *
20850 CATCACGGTTTTTGGCAAAAAATGTGTTTCGGGGCCTTGGCTCAGTTTTGCATGATGTTTTACGC
645 CATCACGGTTTTTGGCAAAAAACGTGTTCCGGGGCC-TGGCTCAGTTTTGCATAAT-TTTTACGC
* *
20915 CGAGACAACTTGAAATATCTATATTTATCTGATCAAATCTTAGCAACATCGAATTTAACGATTTA
708 CGAGAC-ACTTGAAATATCTATATTCATCTGATCAAATCTTAGCAACATCGAATTTAACGATTTG
20980 TTTTTACGATCATCTGAATTCTGTTTCGATTTAATTAAAAATTAATTTAGAAAAATAAGAAAAAT
772 TTTTTACGATCATCTGAA-TCTGTTTCGATTTAATTAAAAATTAATTTAGAAAAATAAGAAAAAT
*
21045 GATATTAGAAGCGTGAACACCCATTCAACCTTTTTGGCGCTGAATAATATATTTTTATGAGTATT
836 GATATTAGAAGCGTGAACACCC-TTCAACCTTTTTGGCGTTGAATAATATATTTTTATGAGTATT
*
21110 TTGAGCAAAAATTAAGGAAAAAACTTGTAGGTCAATTTTTACGAAATTTTAGCCGAAATCGTGTA
900 TTGAGCAAAAATTAAGGAAAAAACTTGTAGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTA
*
21175 CTAACTATCACGATT
965 CTAACTATCACGGTT
* ** *
21190 TTTGGCTAAAAACGCGTTCCGGAGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTTTCAT
1 TTTGGCTAAAAACGCGTTCCGG-GGCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGACTCAA
* *
21255 TGAAATATATATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTT-TTTTTACGAC
65 TGAAATATCTATATTCATATAATCAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACGAC
* * * *
21319 CTTCAGAAAT-TGGTTTCAATTTAATTAGAAATTAA-TT--AAAAAA-AAG-AAAATGATATTAG
130 CATCTG-AATCTTGTTTCGATTTAATTAGAAATTAATTTAGAAAAAATAAGAAAAATGATATTAG
* * *
21378 AAGCGTGAACACCCCTTCAATCTTTTTGACGTTGAATTATATATTTTTATGAGTATTTTGACCAA
194 AAGCGTGAACGCCCCTTCAATCCTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTGACCAA
* *
21443 AAATTGAGGAAAAAACTTATGGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTAT
259 AAATT-AAGAAAAAACTT-TAGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTAT
21508 CACAG-TTTTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCA
322 CAC-GTTTTTTGGCTAAAAACGCGTTCC-GGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCA
* * * *
21572 AGTCTCATTGAAATATCTATATACATAAAAATAATTCTCAGCCACACTGGATTTAAGGATTTGTT
385 AGTCTCATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTTGTT
* * * *
21637 TTTACGACAATCAGAAACTGGTTTCAATTTAATTAGACATTAATTAAAAAAATAGGAAAACGATA
450 TTTACGACCATCAGAAATTGGTTTCAATTTAATTAGAAATTAATTAAAAAAA-AGAAAAACGATA
* * *
21702 TTAGAAGCGCGAAAAGCCCTTCAATCTTTTTTGGCGTTGAATTTTATATTATTTTATGAGTATTA
514 TTAGAAACGCGGAAAGCCCTTCAATC-TTTTTGGCGTTGAATTATATATTATTTT-TGAGTATTA
21767 TGCCCAAAACTTGAGGAAAATCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACT
577 TGCCCAAAACTTGAGGAAAATCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACT
* * *
21832 ATCCATAACGATTTTTGG-ATAAAAACGTGTTCCGGGGCCCTGGCTAAGTTTTGCATAATTTTTT
642 ATCCATCACGGTTTTTGGCA-AAAAACGTGTTCCGGGG-CCTGGCTCAGTTTTGCATAA-TTTTT
* * * *
21896 ACGCCGACACTCCTTGAAATTTCTATATTCATCTGATCAAATCTTAGCAACATTGAATTTAACGA
704 ACGCCGAGAC-ACTTGAAATATCTATATTCATCTGATCAAATCTTAGCAACATCGAATTTAACGA
*
21961 TTTGTTTTTACGATCATCTGAATCTTGTTTCGATTTCATTAAAAATTAATTTAGAAAAAATAAGA
768 TTTGTTTTTACGATCATCTGAATC-TGTTTCGATTTAATTAAAAATTAATTTAG-AAAAATAAGA
* * * *
22026 AAAATGATATAAGAAGCGTGAACAATCCTTCAACCTTTTCGGCTTTGAATAATATATTTTTATGA
831 AAAATGATATTAGAAGCGTGAAC-ACCCTTCAACCTTTTTGGCGTTGAATAATATATTTTTATGA
* ** *
22091 GTATTTTGAGCAAAAATTAGGGAAAAAACTTGTAGGAAAATTTTTGTGAAATTTTAGCCGAAATC
895 GTATTTTGAGCAAAAATTAAGGAAAAAACTTGTAGGTCAATTTTTGCGAAATTTTAGCCGAAATC
22156 GTGTACTAACTATCACGGTT
960 GTGTACTAACTATCACGGTT
* * **
22176 TTTGGCTAAAAACGCGTTCCGGAGTCCCGTCTCAGTTTTGCATAATTTTTAGCACCAAGTTTCAA
1 TTTGGCTAAAAACGCGTTCCGG-GGCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGACTCAA
*
22241 TGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTT-TTTTTACGAC
65 TGAAATATCTATATTCATATAATCAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACGAC
* * * * *
22305 CTTCAGAAAT-TGGTTTC-AGTTTAATGAGAAATTAA-TTA-AAAAAAT--G-AAAACGATATTA
130 CATCTG-AATCTTGTTTCGA-TTTAATTAGAAATTAATTTAGAAAAAATAAGAAAAATGATATTA
* * * * *
22363 GAAACGCGAAAAG-CCCTTCAAT-CTTATTGGCGTTGAATTATATATTATTTTGTGAGTATTGTG
193 GAAGCGTG-AACGCCCCTTCAATCCTT-TTGGCGTTGAATTATATA-T-TTTTATGAGTATTTTG
*
22426 CCCAAAA
254 ACCAAAA
22433 CTTGAGG
Statistics
Matches: 1941, Mismatches: 238, Indels: 104
0.85 0.10 0.05
Matches are distributed among these distances:
981 243 0.13
982 58 0.03
983 7 0.00
984 81 0.04
985 284 0.15
986 610 0.31
987 183 0.09
988 131 0.07
989 143 0.07
990 74 0.04
991 123 0.06
992 4 0.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (979 bp):
TTTGGCTAAAAACGCGTTCCGGGGCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGACTCAAT
GAAATATCTATATTCATATAATCAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACGACC
ATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTTAGAAAAAATAAGAAAAATGATATTAGAA
GCGTGAACGCCCCTTCAATCCTTTTGGCGTTGAATTATATATTTTTATGAGTATTTTGACCAAAA
ATTAAGAAAAAACTTTAGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTATCACG
TTTTTTGGCTAAAAACGCGTTCCGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTC
ATTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACG
ACCATCAGAAATTGGTTTCAATTTAATTAGAAATTAATTAAAAAAAAGAAAAACGATATTAGAAA
CGCGGAAAGCCCTTCAATCTTTTTGGCGTTGAATTATATATTATTTTTGAGTATTATGCCCAAAA
CTTGAGGAAAATCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACTATCCATCAC
GGTTTTTGGCAAAAAACGTGTTCCGGGGCCTGGCTCAGTTTTGCATAATTTTTACGCCGAGACAC
TTGAAATATCTATATTCATCTGATCAAATCTTAGCAACATCGAATTTAACGATTTGTTTTTACGA
TCATCTGAATCTGTTTCGATTTAATTAAAAATTAATTTAGAAAAATAAGAAAAATGATATTAGAA
GCGTGAACACCCTTCAACCTTTTTGGCGTTGAATAATATATTTTTATGAGTATTTTGAGCAAAAA
TTAAGGAAAAAACTTGTAGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTATCAC
GGTT
Found at i:21396 original size:656 final size:654
Alignment explanation
Indices: 19213--22432 Score: 3729
Period size: 656 Copynumber: 4.9 Consensus size: 654
19203 TTCGTGTCAG
** * * * * * * * * *
19213 TTTGGCTAAAAACGCAATCCGGGGCTCGACTCAATTTTGCATGATTTTTTGCGCCAAGACTAAAT
1 TTTGGCTAAAAACGCGTTCCGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCATT
* ** * * * * * *
19278 GAAATATCTATATTCATCTAACCAAATCTAATCGACATTGGATTTAAGGGTTTGTTTTTACGAGC
66 GAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACGACC
* * * *
19343 ATCTGAATCATT--TTTCGATTTAATCAGAAATTAATTCAGAAAAAATATGAAAAAACGGTATTA
131 ATCAGAA--ATTGGTTTCAATTTAATTAGAAATTAATT-A-AAAAAA-A-G--AAAACGATATTA
* *
19406 GAAGCGCGAAAAGCCCTTCAATCCTTTTGGCGATGAATTATAAATTATTTTATGAGTATTGTGCC
188 GAAGCGCGAAAAGCCCTTCAAT-CTTTTGGCGTTGAATTATATATTATTTTATGAGTATTGTGCC
* * *
19471 CAAAACTTGAAGAAAACCTTTCTGGTCAATTTTTGCAAAATATTAGACGAAATCGTGTACTATCC
252 CAAAACTTGAGGAAAAACTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACTATCC
* *
19536 ATCACTGTTTTTGGCAAAAAATGTGTTCCGGGGCCTTGGCTCAGTTTTGCATGATGTTTTACGCC
317 ATCACGGTTTTTGGCTAAAAATGTGTTCCGGGGCCTTGGCTCAGTTTTGCATGATGTTTTACGCC
*
19601 GAGACTCCTTAAAATATCTATATTCATCTGATCAAATCTTAGCAACATCGAATTTAACGATTTGT
382 GAGACTCCTTGAAATATCTATATTCATCTGATCAAATCTTAGCAACATCGAATTTAACGATTTGT
19666 TTTTACGATCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTTAGAAAAATAAGAAAAACG
447 TTTTACGATCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTTAGAAAAATAAGAAAAACG
* * *
19731 ATATTAGAAGCGTGAACACCCCTTCAACCTTTTTGACGTTGAATTATATATTTTTATTAGTATTT
512 ATATTAGAAGCGTGAACACCCCTTCAACCTTTTTGGCGTTGAATAATATATTTTTATGAGTATTT
* * ***
19796 TGACCCAAAATTGAGGAAAAACTTACGGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACT
577 TGACCAAAAATTAAGGAAAAACTTGTAGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACT
19861 AACTATCAC-AGTT
642 AACTATCACGA-TT
*
19874 TTTGGCTAAAAACGCGTTCCGGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCGT
1 TTTGGCTAAAAACGCGTTCC-GGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCAT
* * * * *
19939 TGAAATATCAATATACATAAAAATAATTCTCAGCCACAAC-GGATTTAAGGATTTGTTTTTACGA
65 TGAAATATCTATATTCATATAATTAAATCTCAGCCAC-ACTGGATTTAAGGATTTGTTTTTACGA
* *
20003 CCATCAGAAACTGGTTTCAATTTAATTAGAAATTAATTAAAAAAATAGGAAAACGATATTAGAAA
129 CCATCAGAAATTGGTTTCAATTTAATTAGAAATTAATTAAAAAAA-A-GAAAACGATATTAGAAG
*
20068 CGCGAAAAGCCCTTCAATCTTATTGGCGTTGAATTATATATTATTTTGTGAGTATTGTGCCCAAA
192 CGCGAAAAGCCCTTCAATCTT-TTGGCGTTGAATTATATATTATTTTATGAGTATTGTGCCCAAA
* *
20133 ACTTGAGGAAAATCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCATGTACTATCCATCA
256 ACTTGAGGAAAAACTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACTATCCATCA
20198 CGGTTTTTGGCTAAAAATGTGTTCCGGGGCCTTGGCTCAGTTTTGCATGATGTTTTACGCCGAGA
321 CGGTTTTTGGCTAAAAATGTGTTCCGGGGCCTTGGCTCAGTTTTGCATGATGTTTTACGCCGAGA
*
20263 CTCCTTGAAATATCTATATTCATCTGATCAAATCTTAGCAACATTGAATTTAACGATTTGTTTTT
386 CTCCTTGAAATATCTATATTCATCTGATCAAATCTTAGCAACATCGAATTTAACGATTTGTTTTT
* *
20328 ACGATCATCTGAATCTTGTTTCGATTTCATTAAAAATTAATTTAGAAAAAATAAGAAAAATGATA
451 ACGATCATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTTAG-AAAAATAAGAAAAACGATA
* * *
20393 TTAGAAGCGTGAACGCCCCTTCAACCCTTTTGGCGTTGAATAATATATTTTTATGAGTATTTTAA
515 TTAGAAGCGTGAACACCCCTTCAACCTTTTTGGCGTTGAATAATATATTTTTATGAGTATTTTGA
* *
20458 GCAAAAATTAAGTAAAAAACTTGTAGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAA
580 CCAAAAATTAAG-GAAAAACTTGTAGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAA
*
20523 CTATCACGTTT
644 CTATCACGATT
* * *
20534 TTTAGCTAAAAACGCATTCCGGAGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTTTCAT
1 TTTGGCTAAAAACGCGTTCCGG-GTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCAT
*
20599 TGAAATATCTATATTCATATAATTAAATCTCAACCACACTGGATTTAAGGATTT-TTTTTACGAC
65 TGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACGAC
* * *
20663 CTTCAGAAATTGGTTTCAATTTAATTAGAAATTAATTAAAAAAAATAAAACGATATTAGAAACGC
130 CATCAGAAATTGGTTTCAATTTAATTAGAAATTAATTAAAAAAAAGAAAACGATATTAGAAGCGC
* *
20728 GGAAAGCCCTTCAATCTTATTGGCGTTGAATTATATATTATTTTGTGAGTATTGTGCCCAAAACT
195 GAAAAGCCCTTCAATCTT-TTGGCGTTGAATTATATATTATTTTATGAGTATTGTGCCCAAAACT
* *
20793 TGAGGAAAATCTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCATGTACTATCCATCACGG
259 TGAGGAAAAACTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACTATCCATCACGG
* * **
20858 TTTTTGGCAAAAAATGTGTTTCGGGGCCTTGGCTCAGTTTTGCATGATGTTTTACGCCGAGACAA
324 TTTTTGGCTAAAAATGTGTTCCGGGGCCTTGGCTCAGTTTTGCATGATGTTTTACGCCGAGACTC
* *
20923 CTTGAAATATCTATATTTATCTGATCAAATCTTAGCAACATCGAATTTAACGATTTATTTTTACG
389 CTTGAAATATCTATATTCATCTGATCAAATCTTAGCAACATCGAATTTAACGATTTGTTTTTACG
*
20988 ATCATCTGAAT-TCTGTTTCGATTTAATTAAAAATTAATTTAGAAAAATAAGAAAAATGATATTA
454 ATCATCTGAATCT-TGTTTCGATTTAATTAAAAATTAATTTAGAAAAATAAGAAAAACGATATTA
* * *
21052 GAAGCGTGAACACCCATTCAACCTTTTTGGCGCTGAATAATATATTTTTATGAGTATTTTGAGCA
518 GAAGCGTGAACACCCCTTCAACCTTTTTGGCGTTGAATAATATATTTTTATGAGTATTTTGACCA
*
21117 AAAATTAAGGAAAAAACTTGTAGGTCAATTTTTACGAAATTTTAGCCGAAATCGTGTACTAACTA
583 AAAATTAAGG-AAAAACTTGTAGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTA
21182 TCACGATT
647 TCACGATT
*
21190 TTTGGCTAAAAACGCGTTCCGGAGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTTTCAT
1 TTTGGCTAAAAACGCGTTCCGG-GTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCAT
*
21255 TGAAATATATATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTT-TTTTTACGAC
65 TGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACGAC
* * *
21319 CTTCAGAAATTGGTTTCAATTTAATTAGAAATTAATTAAAAAAAAGAAAATGATATTAGAAGCGT
130 CATCAGAAATTGGTTTCAATTTAATTAGAAATTAATTAAAAAAAAGAAAACGATATTAGAAGCGC
* * * * * *
21384 GAACACCCCTTCAATCTTTTTGACGTTGAATTATATA-T-TTTTATGAGTATTTTGACCAAAAAT
195 GAAAAGCCCTTCAATC-TTTTGGCGTTGAATTATATATTATTTTATGAGTATTGTGCCCAAAACT
* * * * *
21447 TGAGGAAAAAACTTAT-GGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTATCAC
259 TGAGG-AAAAACTT-TCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACTATCCATCAC
* * * * * * *
21511 AGTTTTTGGCTAAAAACGCGTTCCGGGGTCC-CGTCTCAGTTTTGCATAAT-TTTTAGCGCCAAG
322 GGTTTTTGGCTAAAAATGTGTTCCGGGG-CCTTGGCTCAGTTTTGCATGATGTTTTA-CGCCGAG
* * * *** * * * * *
21574 TCTCATTGAAATATCTATATACATAAAAAT-AATTCTCAGCCACA-CTGGATTTAAGGATTTGTT
385 ACTCCTTGAAATATCTATATTCAT-CTGATCAAATCTTAGCAACATC-GAATTTAACGATTTGTT
* * * * * * * *
21637 TTTACGA-CAATCAGAAACTGGTTTCAATTTAATTAGACATTAA-TTAAAAAAAT-AGGAAAACG
448 TTTACGATC-ATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTTAGAAAAATAAGAAAAACG
* * * * **
21699 ATATTAGAAGCGCGAAAAGCCCTTCAATCTTTTTTGGCGTTGAATTTTATATTATTTTATGAGTA
512 ATATTAGAAGCGTGAACACCCCTTCAA-CCTTTTTGGCGTTGAATAATATA-T-TTTTATGAGTA
* * * * * * * *
21764 TTATGCCCAAAACTTGAGGAAAATCTT-TCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTG
574 TTTTGACCAAAAATTAAGGAAAAACTTGT-AGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTG
* * *
21828 TACTATCCATAACGATT
638 TACTAACTATCACGATT
* * * * * * ** *
21845 TTTGGATAAAAACGTGTTCCGGGGCCCTGGCTAAGTTTTGCATAATTTTTTA-CGCCGACACTCC
1 TTTGGCTAAAAACGCGTTCCGGGTCCC-GTCTCAGTTTTGCATAA-TTTTTAGCGCCAAGTCTCA
* * * * * * * * *
21909 TTGAAATTTCTATATTCATCTGATCAAATCTTAGCAACATTGAATTTAACGATTTGTTTTTACGA
64 TTGAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACGA
* * * * * * * *
21974 TCATCTG-AATCTTGTTTCGATTTCATTAAAAATTAATTTAGAAAAAATAAGAAAAATGATATAA
129 CCATCAGAAAT-TGGTTTCAATTTAATTAGAAATTAA-TT--AAAAAA-AAG-AAAACGATATTA
* * * * * * *
22038 GAAGCGTGAACAA-TCCTTCAACCTTTTCGGCTTTGAATAATATA-T-TTTTATGAGTATTTTGA
188 GAAGCGCGAA-AAGCCCTTCAATCTTTT-GGCGTTGAATTATATATTATTTTATGAGTATTGTGC
* * * ** ** *
22100 GCAAAAATT-AGGGAAAAAACTTGT-AGGAAAATTTTTGTGAAATTTTAGCCGAAATCGTGTACT
251 CCAAAACTTGA-GG-AAAAACTT-TCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACT
* * * * * * * *
22163 AACTATCACGGTTTTTGGCTAAAAACGCGTTCCGGAGTCC-CGTCTCAGTTTTGCATAAT-TTTT
313 ATCCATCACGGTTTTTGGCTAAAAATGTGTTCCGG-GGCCTTGGCTCAGTTTTGCATGATGTTTT
* * ** ** * * * * * * *
22226 AGCACCAAGTTTCAATGAAATATCTATATTCATATAATTAAATCTCAGCCACA-CTGGATTTAAG
377 A-CGCCGAGACTCCTTGAAATATCTATATTCATCTGATCAAATCTTAGCAACATC-GAATTTAAC
* * * * * *
22290 GATTT-TTTTTACGACCTTCAGAAAT-TGGTTTC-AGTTTAATGAGAAATTAA-TTA-AAAAA-A
440 GATTTGTTTTTACGATCATCTG-AATCTTGTTTCGA-TTTAATTAAAAATTAATTTAGAAAAATA
* * * * * * * *
22349 TG-AAAACGATATTAGAAACGCGAAAAGCCCTTCAATCTTATTGGCGTTGAATTATATATTATTT
503 AGAAAAACGATATTAGAAGCGTGAACACCCCTTCAACCTTTTTGGCGTTGAATAATATA-T-TTT
* * *
22413 TGTGAGTATTGTGCCCAAAA
566 TATGAGTATTTTGACCAAAA
22433 CTTGAGG
Statistics
Matches: 2290, Mismatches: 226, Indels: 90
0.88 0.09 0.03
Matches are distributed among these distances:
653 30 0.01
654 66 0.03
655 314 0.14
656 439 0.19
657 360 0.16
658 336 0.15
659 155 0.07
660 220 0.10
661 254 0.11
662 115 0.05
663 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (654 bp):
TTTGGCTAAAAACGCGTTCCGGGTCCCGTCTCAGTTTTGCATAATTTTTAGCGCCAAGTCTCATT
GAAATATCTATATTCATATAATTAAATCTCAGCCACACTGGATTTAAGGATTTGTTTTTACGACC
ATCAGAAATTGGTTTCAATTTAATTAGAAATTAATTAAAAAAAAGAAAACGATATTAGAAGCGCG
AAAAGCCCTTCAATCTTTTGGCGTTGAATTATATATTATTTTATGAGTATTGTGCCCAAAACTTG
AGGAAAAACTTTCTGGTCAATTTTTGCAAAATTTTAGACGAAATCGTGTACTATCCATCACGGTT
TTTGGCTAAAAATGTGTTCCGGGGCCTTGGCTCAGTTTTGCATGATGTTTTACGCCGAGACTCCT
TGAAATATCTATATTCATCTGATCAAATCTTAGCAACATCGAATTTAACGATTTGTTTTTACGAT
CATCTGAATCTTGTTTCGATTTAATTAAAAATTAATTTAGAAAAATAAGAAAAACGATATTAGAA
GCGTGAACACCCCTTCAACCTTTTTGGCGTTGAATAATATATTTTTATGAGTATTTTGACCAAAA
ATTAAGGAAAAACTTGTAGGTCAATTTTTGCGAAATTTTAGCCGAAATCGTGTACTAACTATCAC
GATT
Done.