Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01012150.1 Corchorus olitorius cultivar O-4 contig12183, 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: 37285
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Found at i:2477 original size:123 final size:127
Alignment explanation
Indices: 2238--2493 Score: 369
Period size: 131 Copynumber: 2.0 Consensus size: 127
2228 ATTTAAGAAA
2238 TATATTTAAAAAAATACTAATATATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAATAAA
1 TATATTTAAAAAAATACTAATATATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAAT---
* *
2303 ATAGGTATAAGGATGATAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTGTAAA
63 ATA-GTATAAGCAT-ATAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATAAA
2368 AG
126 AG
* *
2370 TATATTT-AAAAAATTCTAATATATATAAGTTTTTTAATTAAAATAGTAAAATGTTAAAAAT-TA
1 TATATTTAAAAAAATACTAATATATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAATATA
* *
2433 -TA-AAGACAT-TAGATTTAATTAAATAAAATTAGAGTTTTTAGTTGAGTAAAATTATAAAAG
66 GTATAAG-CATATAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATAAAAG
2493 T
1 T
2494 TTAAACAATG
Statistics
Matches: 117, Mismatches: 6, Indels: 11
0.87 0.04 0.08
Matches are distributed among these distances:
123 49 0.42
124 3 0.03
125 4 0.03
127 2 0.02
131 52 0.44
132 7 0.06
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (127 bp):
TATATTTAAAAAAATACTAATATATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAATATA
GTATAAGCATATAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATAAAAG
Found at i:2519 original size:123 final size:126
Alignment explanation
Indices: 2246--2501 Score: 304
Period size: 123 Copynumber: 2.0 Consensus size: 126
2236 AATATATTTA
* * *
2246 AAAAAATACTAATATATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAATAAAATAGGTAT
1 AAAAAATTCTAAGAAATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAAT---ATA-GTAT
* * **
2311 AAGGATGATAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTGTAAAAGTATATT
62 AAGCAT-ATAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATAAAAGTATAAA
*
2376 T
126 C
* * *
2377 AAAAAATTCTAATATATATAAGTTTTTTAATTAAAATAGTAAAATGTTAAAAAT-TA-TA-AAGA
1 AAAAAATTCTAAGAAATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAATATAGTATAAG-
* * *
2439 CAT-TAGATTTAATTAAATAAAATTAGAGTTTTTAGTTGAGTAAAATTATAAAAGTTTAAAC
65 CATATAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATAAAAGTATAAAC
2500 AA
1 AA
2502 TGGTATTTAA
Statistics
Matches: 114, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
123 53 0.46
124 3 0.03
125 4 0.04
127 2 0.02
131 52 0.46
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (126 bp):
AAAAAATTCTAAGAAATATAAGTTTTTTAATTAAAATAGTAAAATGGTAAAAATATAGTATAAGC
ATATAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATAAAAGTATAAAC
Found at i:9086 original size:22 final size:22
Alignment explanation
Indices: 9037--9088 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
9027 AAATATTACC
* **
9037 ATAATTATTTTTGGCAGCCATA
1 ATAATTATTTTTGCCAGAAATA
9059 ATAATTATTTTTGCCAAGAAATA
1 ATAATTATTTTTGCC-AGAAATA
9082 A-AATTAT
1 ATAATTAT
9089 GGAATAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (22 bp):
ATAATTATTTTTGCCAGAAATA
Found at i:11885 original size:10 final size:10
Alignment explanation
Indices: 11870--11898 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11860 CCATATTAAC
11870 AATTTTATTT
1 AATTTTATTT
11880 AATTTTATTT
1 AATTTTATTT
11890 -ATTTTATTT
1 AATTTTATTT
11899 CCTTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
AATTTTATTT
Found at i:26273 original size:26 final size:26
Alignment explanation
Indices: 26240--26292 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
26230 TATTTGATGC
26240 AAAAAGAAATGCAAATGTAGAGTGCA
1 AAAAAGAAATGCAAATGTAGAGTGCA
26266 AAAAAGAAATGCAAATGTAGAGTGCA
1 AAAAAGAAATGCAAATGTAGAGTGCA
26292 A
1 A
26293 CCACCATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.08, G:0.23, T:0.15
Consensus pattern (26 bp):
AAAAAGAAATGCAAATGTAGAGTGCA
Found at i:26860 original size:28 final size:28
Alignment explanation
Indices: 26821--26995 Score: 233
Period size: 28 Copynumber: 6.2 Consensus size: 28
26811 TTGAAGTGAC
**
26821 CCAAAATGCCCCTGGATGTGCAAAATGA
1 CCAAAATGCCCCTGGACATGCAAAATGA
* *
26849 CCAAAATCCCCCTGGACACGCAAAATGA
1 CCAAAATGCCCCTGGACATGCAAAATGA
26877 CCAAAATGCCCCTGGACATGCAAAATGA
1 CCAAAATGCCCCTGGACATGCAAAATGA
* ***
26905 TCAAAATTTTCCTGGACATGCAAAATGA
1 CCAAAATGCCCCTGGACATGCAAAATGA
* *
26933 CCAAAATACCCCTGGACATGCAAAAAGA
1 CCAAAATGCCCCTGGACATGCAAAATGA
* *
26961 TCAAAATGCCCCTGGACATGCAAAACGA
1 CCAAAATGCCCCTGGACATGCAAAATGA
*
26989 CCGAAAT
1 CCAAAAT
26996 AAGAGGTATA
Statistics
Matches: 127, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 127 1.00
ACGTcount: A:0.40, C:0.27, G:0.17, T:0.16
Consensus pattern (28 bp):
CCAAAATGCCCCTGGACATGCAAAATGA
Found at i:30761 original size:13 final size:13
Alignment explanation
Indices: 30743--30768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30733 CAAAACAAGC
30743 AACATAGAATTAA
1 AACATAGAATTAA
30756 AACATAGAATTAA
1 AACATAGAATTAA
30769 GAAATACCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.23
Consensus pattern (13 bp):
AACATAGAATTAA
Found at i:31624 original size:22 final size:21
Alignment explanation
Indices: 31572--31625 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 21
31562 TGCTTCTTGA
31572 AATAATTCTTC-AATGATCTTC
1 AATAA-TCTTCAAATGATCTTC
*
31593 -A-AATCTTCAAATTATCTTC
1 AATAATCTTCAAATGATCTTC
31612 AATAAGTCTTCAAA
1 AATAA-TCTTCAAA
31626 CACGAACTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 5 0.18
19 11 0.39
20 2 0.07
21 2 0.07
22 8 0.29
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39
Consensus pattern (21 bp):
AATAATCTTCAAATGATCTTC
Found at i:32211 original size:2 final size:2
Alignment explanation
Indices: 32204--32238 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
32194 ATGGTAAGGG
32204 AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32239 ATGGTAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:32226 original size:13 final size:13
Alignment explanation
Indices: 32204--32238 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
32194 ATGGTAAGGG
32204 ATAT-ATATATAT
1 ATATAATATATAT
32216 ATATAATATATAT
1 ATATAATATATAT
32229 ATATAATATA
1 ATATAATATA
32239 ATGGTAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATAATATATAT
Found at i:33435 original size:112 final size:112
Alignment explanation
Indices: 33229--33435 Score: 306
Period size: 112 Copynumber: 1.8 Consensus size: 112
33219 ATATTAACAA
* * *
33229 TTCGGCAAGATCTCGAAAGTTGGGAGAACGTCCAGCATAGAGCAATCAACTTAGTTTCGATGTTC
1 TTCGACAAGATCTCAAAAGTTGGGAGAACGTCCAACATAGAGCAATCAACTTAGTTTCGATGTTC
*
33294 TCACAAAAAGTCCAGATCGAAATCTAAGGTTAAGAAAAACATGTTAG
66 TCACAAAAAGTCCAGATCAAAATCTAAGGTTAAGAAAAACATGTTAG
* * *
33341 TTCGACAATATCTCAAAAGTTGGGAGAACGTCCAACGTAGAGCAATCAACTTAGTTTTGATGTTC
1 TTCGACAAGATCTCAAAAGTTGGGAGAACGTCCAACATAGAGCAATCAACTTAGTTTCGATGTTC
** ** *
33406 TCATGACGAGTCCGGATCAAAATCTAAGGT
66 TCACAAAAAGTCCAGATCAAAATCTAAGGT
33436 CAAATACGAA
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
112 83 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (112 bp):
TTCGACAAGATCTCAAAAGTTGGGAGAACGTCCAACATAGAGCAATCAACTTAGTTTCGATGTTC
TCACAAAAAGTCCAGATCAAAATCTAAGGTTAAGAAAAACATGTTAG
Found at i:33662 original size:100 final size:101
Alignment explanation
Indices: 33387--34039 Score: 1006
Period size: 101 Copynumber: 6.5 Consensus size: 101
33377 GTAGAGCAAT
* * *
33387 CAACTTAGTTTTGATGTTCTCATGACGAGTCCGGATCAAAATCTAAGGTCAAATACGAACTTAGT
1 CAACTTAGTTTCGATGTTCTCATGACGAGTCCGGATCGAAATCTAAGGTCAAATACGAACTTAGC
*
33452 CGTTCTCACAAAGAGTCCAGGGCTTACGTTCGGCCA
66 CGTTCTCACAAAGAGTCCAGGGCATACGTTCGGCCA
** *
33488 CAACTTAGTTTTTATGTTCTCATGACGAGTCCGGATCGAAATCTAAGGTCAATTACGAACTTAGC
1 CAACTTAGTTTCGATGTTCTCATGACGAGTCCGGATCGAAATCTAAGGTCAAATACGAACTTAGC
* *
33553 CGTTCTCACAAAGAGTCCAAGGCATACGTTCGACCA
66 CGTTCTCACAAAGAGTCCAGGGCATACGTTCGGCCA
* *
33589 CAACTTAGTTTCGATGTTCCCAT-ACGAGTCCGGATCGAAATCTAAGGTCAAATATGAACTTAGC
1 CAACTTAGTTTCGATGTTCTCATGACGAGTCCGGATCGAAATCTAAGGTCAAATACGAACTTAGC
*
33653 CGTTCTCACAAAGAGTCCAGGGCTTACGTTCGGCCA
66 CGTTCTCACAAAGAGTCCAGGGCATACGTTCGGCCA
** *
33689 CAACTTAGTTTTTATGTTCTCATGACGAGTCCGGATCGAAATCTAAGGTCAATTACGAACTTAGC
1 CAACTTAGTTTCGATGTTCTCATGACGAGTCCGGATCGAAATCTAAGGTCAAATACGAACTTAGC
* *
33754 CGTTCTCACAAAGAGTCCAAGGCATACGTTCGACCA
66 CGTTCTCACAAAGAGTCCAGGGCATACGTTCGGCCA
* *
33790 CAACTTAGTTTCGATGTTCCCAT-ACGAGTCCGGATCGAAATCTAAGGTCAAATATGAACTTAGC
1 CAACTTAGTTTCGATGTTCTCATGACGAGTCCGGATCGAAATCTAAGGTCAAATACGAACTTAGC
*
33854 CGTTCTCACAAAGAGTCCAGGGCTTACGTTCGGCCA
66 CGTTCTCACAAAGAGTCCAGGGCATACGTTCGGCCA
* * *
33890 CAACTTAGTTTCCATGTTCTCATGACGAGTCCGGATCGAAATCTAAGGTTAATTACGAACTTAGC
1 CAACTTAGTTTCGATGTTCTCATGACGAGTCCGGATCGAAATCTAAGGTCAAATACGAACTTAGC
* *
33955 CGTTCTCACAAAGAGTTCAGGGCATACATTC-GCCA
66 CGTTCTCACAAAGAGTCCAGGGCATACGTTCGGCCA
* * ** * *
33990 CAACTTAGTTTCGGTGTTCTCACGGGGAGTCCGGATCGGAAGCTAAGGTC
1 CAACTTAGTTTCGATGTTCTCATGACGAGTCCGGATCGAAATCTAAGGTC
34040 TCTCCGAATT
Statistics
Matches: 503, Mismatches: 47, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
100 231 0.46
101 272 0.54
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (101 bp):
CAACTTAGTTTCGATGTTCTCATGACGAGTCCGGATCGAAATCTAAGGTCAAATACGAACTTAGC
CGTTCTCACAAAGAGTCCAGGGCATACGTTCGGCCA
Found at i:33756 original size:201 final size:201
Alignment explanation
Indices: 33387--34008 Score: 1120
Period size: 201 Copynumber: 3.1 Consensus size: 201
33377 GTAGAGCAAT
* * * * *
33387 CAACTTAGTTTTGATGTTCTCATGACGAGTCCGGATCAAAATCTAAGGTCAAATACGAACTTAGT
1 CAACTTAGTTTCGATGTTCCCAT-ACGAGTCCGGATCGAAATCTAAGGTCAAATATGAACTTAGC
33452 CGTTCTCACAAAGAGTCCAGGGCTTACGTTCGGCCACAACTTAGTTTTTATGTTCTCATGACGAG
65 CGTTCTCACAAAGAGTCCAGGGCTTACGTTCGGCCACAACTTAGTTTTTATGTTCTCATGACGAG
33517 TCCGGATCGAAATCTAAGGTCAATTACGAACTTAGCCGTTCTCACAAAGAGTCCAAGGCATACGT
130 TCCGGATCGAAATCTAAGGTCAATTACGAACTTAGCCGTTCTCACAAAGAGTCCAAGGCATACGT
33582 TCGACCA
195 TCGACCA
33589 CAACTTAGTTTCGATGTTCCCATACGAGTCCGGATCGAAATCTAAGGTCAAATATGAACTTAGCC
1 CAACTTAGTTTCGATGTTCCCATACGAGTCCGGATCGAAATCTAAGGTCAAATATGAACTTAGCC
33654 GTTCTCACAAAGAGTCCAGGGCTTACGTTCGGCCACAACTTAGTTTTTATGTTCTCATGACGAGT
66 GTTCTCACAAAGAGTCCAGGGCTTACGTTCGGCCACAACTTAGTTTTTATGTTCTCATGACGAGT
33719 CCGGATCGAAATCTAAGGTCAATTACGAACTTAGCCGTTCTCACAAAGAGTCCAAGGCATACGTT
131 CCGGATCGAAATCTAAGGTCAATTACGAACTTAGCCGTTCTCACAAAGAGTCCAAGGCATACGTT
33784 CGACCA
196 CGACCA
33790 CAACTTAGTTTCGATGTTCCCATACGAGTCCGGATCGAAATCTAAGGTCAAATATGAACTTAGCC
1 CAACTTAGTTTCGATGTTCCCATACGAGTCCGGATCGAAATCTAAGGTCAAATATGAACTTAGCC
**
33855 GTTCTCACAAAGAGTCCAGGGCTTACGTTCGGCCACAACTTAGTTTCCATGTTCTCATGACGAGT
66 GTTCTCACAAAGAGTCCAGGGCTTACGTTCGGCCACAACTTAGTTTTTATGTTCTCATGACGAGT
* * * *
33920 CCGGATCGAAATCTAAGGTTAATTACGAACTTAGCCGTTCTCACAAAGAGTTCAGGGCATACATT
131 CCGGATCGAAATCTAAGGTCAATTACGAACTTAGCCGTTCTCACAAAGAGTCCAAGGCATACGTT
33985 CG-CCA
196 CGACCA
*
33990 CAACTTAGTTTCGGTGTTC
1 CAACTTAGTTTCGATGTTC
34009 TCACGGGGAG
Statistics
Matches: 408, Mismatches: 12, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
200 21 0.05
201 366 0.90
202 21 0.05
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (201 bp):
CAACTTAGTTTCGATGTTCCCATACGAGTCCGGATCGAAATCTAAGGTCAAATATGAACTTAGCC
GTTCTCACAAAGAGTCCAGGGCTTACGTTCGGCCACAACTTAGTTTTTATGTTCTCATGACGAGT
CCGGATCGAAATCTAAGGTCAATTACGAACTTAGCCGTTCTCACAAAGAGTCCAAGGCATACGTT
CGACCA
Found at i:34834 original size:233 final size:232
Alignment explanation
Indices: 34437--35067 Score: 964
Period size: 233 Copynumber: 2.7 Consensus size: 232
34427 ATATAGTCGG
* * * *
34437 CTTCATTTGGGTCTACACACTTCAACAAAGGAAAGTTGAAGGATTTCTTATATAGTTCATCATCA
1 CTTCATCTGGGTCTACATACTTCAACAAAGGAAAGGTGAAGGATTTCTTATAGAGTTCATCATCA
** * * * *
34502 ATAACACATACCTTGATGTTC-TCATTTGTTTAGCTGTTGTCACTTTTGGATCAA-AGGGAGGAT
66 ATAACACATACCTTGCCGCTCTTCA-TTGTCTAGCTGTCGTCACTTTTGGAT-AAGAGGGAGAAT
*
34565 TGATCCCTTTCAAGTACTCCACTATCTCGATCATCCACCTTCGTGGATC-GAGCTTACGTTCGGG
129 TGATCCCTTTCAAGTACTCCACTATCTCGATCATCCACCTTCATGGATCAG-GCTTACGTTCGGG
34629 GGTCTTCCA-CTTTCGTGGATCTCCCTTAAAACATAGGCAA
193 GGTCTTCCACCTTT-GTGGATCTCCCTTAAAACATAGGCAA
*
34669 CTTCATCTGGGTCTACATACTTCAACAAAGGAAGGGTGAAGGATTTCTTATAGAGTTCATCATCA
1 CTTCATCTGGGTCTACATACTTCAACAAAGGAAAGGTGAAGGATTTCTTATAGAGTTCATCATCA
*
34734 ATCAACACATACCTTGCCGCTCTTCATTGTCTAGCTGTCGCCACTTTTGGATAAGAGGGAGAATT
66 AT-AACACATACCTTGCCGCTCTTCATTGTCTAGCTGTCGTCACTTTTGGATAAGAGGGAGAATT
* *
34799 GATCCCTTTCAAGTACTCCTCTATCTCGGTCATCCACCTTCATGGATCAGGCTTACGTTCGGGGG
130 GATCCCTTTCAAGTACTCCACTATCTCGATCATCCACCTTCATGGATCAGGCTTACGTTCGGGGG
* * *
34864 TCTTCCACCTTTGTGGATCTCCCTTAACACATAGTCAG
195 TCTTCCACCTTTGTGGATCTCCCTTAAAACATAGGCAA
* *
34902 CTTCATCTGGGTATACATACTTCAACAATGGAAAGGTGAAGGATTTCTTATAGAGTTCATCATCA
1 CTTCATCTGGGTCTACATACTTCAACAAAGGAAAGGTGAAGGATTTCTTATAGAGTTCATCATCA
* *
34967 ATTAACACATACCTTGCCGCTCTTCATTGTCTAGCTGTCGTGACTTTTGGATCAGAGGGAGAATT
66 A-TAACACATACCTTGCCGCTCTTCATTGTCTAGCTGTCGTCACTTTTGGATAAGAGGGAGAATT
* *
35032 GATTCCATTCAAGTACTCCACTATCTCGATCATCCA
130 GATCCCTTTCAAGTACTCCACTATCTCGATCATCCA
35068 GTTAGAGTCA
Statistics
Matches: 365, Mismatches: 28, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
232 64 0.18
233 292 0.80
234 9 0.02
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (232 bp):
CTTCATCTGGGTCTACATACTTCAACAAAGGAAAGGTGAAGGATTTCTTATAGAGTTCATCATCA
ATAACACATACCTTGCCGCTCTTCATTGTCTAGCTGTCGTCACTTTTGGATAAGAGGGAGAATTG
ATCCCTTTCAAGTACTCCACTATCTCGATCATCCACCTTCATGGATCAGGCTTACGTTCGGGGGT
CTTCCACCTTTGTGGATCTCCCTTAAAACATAGGCAA
Found at i:36954 original size:100 final size:100
Alignment explanation
Indices: 36696--37148 Score: 325
Period size: 100 Copynumber: 4.5 Consensus size: 100
36686 GATTTACAAG
* * * * *
36696 GTTGCCATTCTCCCATGTTCGGGTCCTACGGCGATTAAATCTTTCAAGTTTGTGA-TCAACGTAA
1 GTTGTCATTCTCCCATGTTCGGGTTCTACGGCGATTAAATCTTTCAAGTCTGTAACTCAACGCAA
* * * ** * *
36760 GGATCTACATATCTGACACTGTGCCAATCTACGAT
66 GGATCTACATATCTAACATTCTTACGATCTTCGAT
* * * * * *
36795 GTTTTCATTCTCCCATGTTCGGTTTC-ACGACCATTATATCTTTCAAATCTGTAAC-CAACGCAA
1 GTTGTCATTCTCCCATGTTCGGGTTCTACGGCGATTAAATCTTTCAAGTCTGTAACTCAACGCAA
* * *
36858 GGATTTGCATATCTAACATTTCTTTCGATCTTCGAT
66 GGATCTACATATCTAACA-TTCTTACGATCTTCGAT
* * * *
36894 GTTGTCGTTCTACCATGTTCGGGTTCTACGGCGTTTAAATTTTTCAAGTCTGT-ACTCAACGCAA
1 GTTGTCATTCTCCCATGTTCGGGTTCTACGGCGATTAAATCTTTCAAGTCTGTAACTCAACGCAA
*
36958 GGATCTCCATATCTAACACTTC-TACTGATCTTCGAT
66 GGATCTACATATCTAACA-TTCTTAC-GATCTTCGAT
* * * * * * * *
36994 GTT-T-ATGTTCTCCTATGTTTGGGTTCCATGACGATTGAATCTTTCAATTCCGTAA-TCAACAG
1 GTTGTCA--TTCTCCCATGTTCGGGTTCTACGGCGATTAAATCTTTCAAGTCTGTAACTCAAC-G
* * * ** * *
37056 -AAGGTTCTCCATATCTGACACTTCTGGCGATCTACAAT
63 CAAGGATCTACATATCTAACA-TTCTTACGATCTTCGAT
* * * ** *
37094 GTTGTCGTTCTCCCTTGTCCGGG-TCTTACAACAATTAAATCTTTCCAA-TCTGTAA
1 GTTGTCATTCTCCCATGTTCGGGTTC-TACGGCGATTAAATCTTT-CAAGTCTGTAA
37149 TCATCATAAG
Statistics
Matches: 277, Mismatches: 63, Indels: 27
0.75 0.17 0.07
Matches are distributed among these distances:
98 44 0.16
99 62 0.22
100 164 0.59
101 7 0.03
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (100 bp):
GTTGTCATTCTCCCATGTTCGGGTTCTACGGCGATTAAATCTTTCAAGTCTGTAACTCAACGCAA
GGATCTACATATCTAACATTCTTACGATCTTCGAT
Done.