Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01007239.1 Corchorus capsularis cultivar CVL-1 contig07260, 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: 66634
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:76 original size:32 final size:33
Alignment explanation
Indices: 5--65 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
1 AAGC
5 TGGGCGG-CTTGTCCATAGCTAGCCGCCCAAGA
1 TGGGCGGCCTTGTCCATAGCTAGCCGCCCAAGA
*
37 TGGGCGGCCTTG-CCATGGCTAGCCGCCCA
1 TGGGCGGCCTTGTCCATAGCTAGCCGCCCA
66 GTTTGGGCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.15, C:0.34, G:0.33, T:0.18
Consensus pattern (33 bp):
TGGGCGGCCTTGTCCATAGCTAGCCGCCCAAGA
Found at i:198 original size:26 final size:26
Alignment explanation
Indices: 116--232 Score: 103
Period size: 26 Copynumber: 4.4 Consensus size: 26
106 AATTAAATTT
* * * *
116 TTTAATATTAATTAGTTTATGATTAG
1 TTTATTATTAATTAGTATCTAATTAG
** *
142 TTTTAATTAGTTAATTAAAAT-TACTTAG
1 -TTT-ATTA-TTAATTAGTATCTAATTAG
170 TTTA-TATTTAATTAGTATCTAATTAG
1 TTTATTA-TTAATTAGTATCTAATTAG
*
196 TTTATTATTAATTAGTATTTAATTAG
1 TTTATTATTAATTAGTATCTAATTAG
*
222 TTTATGATTAA
1 TTTATTATTAA
233 AATGAAGGAA
Statistics
Matches: 74, Mismatches: 12, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
25 11 0.15
26 39 0.53
27 8 0.11
28 8 0.11
29 8 0.11
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.54
Consensus pattern (26 bp):
TTTATTATTAATTAGTATCTAATTAG
Found at i:209 original size:15 final size:15
Alignment explanation
Indices: 189--232 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
179 AATTAGTATC
189 TAATTAGTTTATTAT
1 TAATTAGTTTATTAT
204 TAATTAG--TA-T-T
1 TAATTAGTTTATTAT
*
215 TAATTAGTTTATGAT
1 TAATTAGTTTATTAT
230 TAA
1 TAA
233 AATGAAGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 8
0.73 0.03 0.24
Matches are distributed among these distances:
11 8 0.33
12 1 0.04
13 4 0.17
15 11 0.46
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (15 bp):
TAATTAGTTTATTAT
Found at i:217 original size:11 final size:11
Alignment explanation
Indices: 174--222 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 11
164 ACTTAGTTTA
174 TATTTAATTAG
1 TATTTAATTAG
*
185 TATCTAATTAG
1 TATTTAATTAG
196 TTTATTATTAATTAG
1 --TA-T-TTAATTAG
211 TATTTAATTAG
1 TATTTAATTAG
222 T
1 T
223 TTATGATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 19 0.59
12 1 0.03
13 4 0.12
14 1 0.03
15 7 0.22
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (11 bp):
TATTTAATTAG
Found at i:276 original size:24 final size:25
Alignment explanation
Indices: 242--300 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
232 AAATGAAGGA
*
242 AAATGAA-TTTGAAG-ATTTGTTAG
1 AAATGAAGTTTGAAGAAGTTGTTAG
*
265 AAATGAGGTTTGAAGAAGTTGTTAG
1 AAATGAAGTTTGAAGAAGTTGTTAG
290 AAATGAAGTTT
1 AAATGAAGTTT
301 AGGGTTTGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 6 0.19
24 7 0.23
25 18 0.58
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (25 bp):
AAATGAAGTTTGAAGAAGTTGTTAG
Found at i:4032 original size:27 final size:27
Alignment explanation
Indices: 4002--4055 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
3992 TTATTAGAAC
4002 TTAATTGTATGGTAACTATTGAATTTG
1 TTAATTGTATGGTAACTATTGAATTTG
4029 TTAATTGTATGGTAACTATTGAATTTG
1 TTAATTGTATGGTAACTATTGAATTTG
4056 ATGTGTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.48
Consensus pattern (27 bp):
TTAATTGTATGGTAACTATTGAATTTG
Found at i:5469 original size:19 final size:18
Alignment explanation
Indices: 5445--5484 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5435 TTGAAGATTT
*
5445 ATTGAAGATAATTTGAAGA
1 ATTGAAGACAA-TTGAAGA
*
5464 ATTGAAGACCATTGAAGA
1 ATTGAAGACAATTGAAGA
5482 ATT
1 ATT
5485 ATCTCAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (18 bp):
ATTGAAGACAATTGAAGA
Found at i:8680 original size:93 final size:95
Alignment explanation
Indices: 8428--8690 Score: 248
Period size: 96 Copynumber: 2.8 Consensus size: 95
8418 TCATAACCAT
* * * * * * * * *
8428 CATAAATACTATTATCTCCATTGACTAAATCTTGTCTATCTAAAGTCAAATTGCCATCCACCAAA
1 CATAAATACCAATATCTCCATTGACTAACTCTTCTCTATTTGAATTCAAAATGCCATCCTCCAAA
* * *
8493 TC-GTTTCCCGAAATTCTAGCATCCAGACCG
66 TCAGTTT-CCGAAACTCTAGCATACAGAACG
* * * * * * * * *
8523 TCATTAGTGCCCATATCTCCAATGAGTAGAACT-TTC-CTATTAGAATTCAACATGCCATCATCC
1 -CATAAATACCAATATCTCCATTGACT--AACTCTTCTCTATTTGAATTCAAAATGCCATCCTCC
8586 AAATCAGTTTCCGAAACTCTAGCA-ACAGAAC-
63 AAATCAGTTTCCGAAACTCTAGCATACAGAACG
* *
8617 CATAAATACCAATATCTCCATTGACTAACTCTTCTATATTTGAATTCAAAATACCATCCTCCAAA
1 CATAAATACCAATATCTCCATTGACTAACTCTTCTCTATTTGAATTCAAAATGCCATCCTCCAAA
8682 TCAGTTTCC
66 TCAGTTTCC
8691 TTGATTAACT
Statistics
Matches: 130, Mismatches: 32, Indels: 13
0.74 0.18 0.07
Matches are distributed among these distances:
91 4 0.03
92 3 0.02
93 54 0.42
95 5 0.04
96 55 0.42
97 6 0.05
98 3 0.02
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (95 bp):
CATAAATACCAATATCTCCATTGACTAACTCTTCTCTATTTGAATTCAAAATGCCATCCTCCAAA
TCAGTTTCCGAAACTCTAGCATACAGAACG
Found at i:9655 original size:2 final size:2
Alignment explanation
Indices: 9648--9684 Score: 65
Period size: 2 Copynumber: 18.0 Consensus size: 2
9638 TTAATATTCG
9648 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
9685 TCCTAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 32 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9771 original size:20 final size:21
Alignment explanation
Indices: 9739--9777 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
9729 CTCTTTCTCC
9739 TTTCTCTCGCTTCCCTCTCGA
1 TTTCTCTCGCTTCCCTCTCGA
*
9760 TTTCTCTC-CTTCTCTCTC
1 TTTCTCTCGCTTCCCTCTC
9778 CAGTTCACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.03, C:0.44, G:0.05, T:0.49
Consensus pattern (21 bp):
TTTCTCTCGCTTCCCTCTCGA
Found at i:10659 original size:20 final size:20
Alignment explanation
Indices: 10634--10672 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
10624 TCTAATCCTC
10634 CTCTGCCTC-TGTGCTCTCTG
1 CTCTGCCTCATGTG-TCTCTG
10654 CTCTGCCTCATGTGTCTCT
1 CTCTGCCTCATGTGTCTCT
10673 TTTTTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.03, C:0.38, G:0.18, T:0.41
Consensus pattern (20 bp):
CTCTGCCTCATGTGTCTCTG
Found at i:10818 original size:13 final size:13
Alignment explanation
Indices: 10800--10824 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10790 TTCAACCGAC
10800 ACAAAACCGAAAA
1 ACAAAACCGAAAA
10813 ACAAAACCGAAA
1 ACAAAACCGAAA
10825 CCGACCGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.08, T:0.00
Consensus pattern (13 bp):
ACAAAACCGAAAA
Found at i:13260 original size:95 final size:95
Alignment explanation
Indices: 13086--13274 Score: 290
Period size: 95 Copynumber: 2.0 Consensus size: 95
13076 CTACCTACTA
* * *
13086 CGTTTCAGACATAAAATACATTGGTTGCAAATTTCACACTTTGCAACCAATTTTGCATCCACAAA
1 CGTTGCAGACATAAAATACATTGGTTGCAAATTTCACACTTTCCAACCAATTTTGAATCCACAAA
**
13151 ATGTGGATGTAAATTTTGCAACGAAGTACC
66 ATGTGGATACAAATTTTGCAACGAAGTACC
*
13181 CGTTGCAGACATTAAATACATTGGTTGCAAATTTCACACTTTCCAACCAATTTTGAATCCACAAA
1 CGTTGCAGACATAAAATACATTGGTTGCAAATTTCACACTTTCCAACCAATTTTGAATCCACAAA
**
13246 ATGTGG-TCACAAATTTTGCAGTGAAGTAC
66 ATGTGGAT-ACAAATTTTGCAACGAAGTAC
13275 ACGTCGCAAA
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
94 1 0.01
95 84 0.99
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (95 bp):
CGTTGCAGACATAAAATACATTGGTTGCAAATTTCACACTTTCCAACCAATTTTGAATCCACAAA
ATGTGGATACAAATTTTGCAACGAAGTACC
Found at i:13779 original size:2 final size:2
Alignment explanation
Indices: 13772--13807 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
13762 GGTTGTATCT
*
13772 TA TA TA TA -A TA TA TA TG TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13808 GTGTGTGTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21404 original size:46 final size:44
Alignment explanation
Indices: 21344--21466 Score: 138
Period size: 46 Copynumber: 2.7 Consensus size: 44
21334 ATAAAAACAT
*
21344 ATATAATATATATAATATATTTTAAATATATTTATAGAAAATATA
1 ATATAATCTATATAATATATTTTAAATATATTTAT-GAAAATATA
* * ** *
21389 TTTATAATCTATATAATATATTTTAAAATTTATTTATTTATATATA
1 -ATATAATCTATATAATATATTTT-AAATATATTTATGAAAATATA
* *
21435 ATAAAAACATATATAATATATTTTAAATATAT
1 ATATAATC-TATATAATATATTTTAAATATAT
21467 ATATTATATA
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
45 12 0.18
46 42 0.65
47 11 0.17
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (44 bp):
ATATAATCTATATAATATATTTTAAATATATTTATGAAAATATA
Found at i:24138 original size:37 final size:36
Alignment explanation
Indices: 24051--24236 Score: 255
Period size: 37 Copynumber: 5.1 Consensus size: 36
24041 AGATTAAACT
* * * *
24051 CTTTATTGACTCCACTTAATTATCCTAAATTAAGCC
1 CTTTATTGACGCTACTTAATTACCCTGAATTAAGCC
*
24087 TTTTATTGACGCTACTTAATTACCCTGAATTAAGCC
1 CTTTATTGACGCTACTTAATTACCCTGAATTAAGCC
* *
24123 TTTTTATTGATGCTACTTAATTACCCTGAATTAAGCCC
1 -CTTTATTGACGCTACTTAATTACCCTGAATTAAG-CC
*
24161 CTTTATTGATGCTACTTAATTACCCTGAATTAAGTCC
1 CTTTATTGACGCTACTTAATTACCCTGAATTAAG-CC
*
24198 CTTTATTGACGCTACTTAATTACCCTAAATTAAGTCC
1 CTTTATTGACGCTACTTAATTACCCTGAATTAAG-CC
24235 CT
1 CT
24237 AACTTGACTT
Statistics
Matches: 138, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
36 31 0.22
37 105 0.76
38 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (36 bp):
CTTTATTGACGCTACTTAATTACCCTGAATTAAGCC
Found at i:24265 original size:37 final size:37
Alignment explanation
Indices: 24243--24615 Score: 495
Period size: 37 Copynumber: 10.2 Consensus size: 37
24233 CCCTAACTTG
* * * *
24243 ACTTAATTTCCTTCCTTGAAATTAAGTCCTTAACTCT
1 ACTTAATTCCCTTCCTTGGAATCAAGTCCTTTACTCT
*
24280 ACTTAATTCTCTTCCTTGGAATCAAGT-C----CTCT
1 ACTTAATTCCCTTCCTTGGAATCAAGTCCTTTACTCT
* * * * *
24312 ACTTAATTTCCTTCCTTGAAATTAAGTCCTTAATTCT
1 ACTTAATTCCCTTCCTTGGAATCAAGTCCTTTACTCT
*
24349 ACTTAATTCCCCTTCCTTGGAATCAAGTCCCTTACTCT
1 ACTTAATT-CCCTTCCTTGGAATCAAGTCCTTTACTCT
* *
24387 ACTTAATTCCCTTCCTTGGAATCAAATCCCTTACTCT
1 ACTTAATTCCCTTCCTTGGAATCAAGTCCTTTACTCT
*
24424 ACTTAATTCCCTTCCTTGGAATTAAGTCCTTTACTCT
1 ACTTAATTCCCTTCCTTGGAATCAAGTCCTTTACTCT
24461 ACTTAATTCCCTTCCTTGGAATCAAGTCCTTTACTCT
1 ACTTAATTCCCTTCCTTGGAATCAAGTCCTTTACTCT
* * *
24498 ACTTAATTCCCTTCCTTGGAACCAAGTCCTTTTCTTT
1 ACTTAATTCCCTTCCTTGGAATCAAGTCCTTTACTCT
*
24535 ACTTAATTCCCTTCCTTGGAATCAAGTCCTTTGCTCT
1 ACTTAATTCCCTTCCTTGGAATCAAGTCCTTTACTCT
* * * * *
24572 ACTCAATTCCCTTCTTTGGAACCAAGTCCTTTTCTTT
1 ACTTAATTCCCTTCCTTGGAATCAAGTCCTTTACTCT
24609 ACTTAAT
1 ACTTAAT
24616 CCCCGGAGGT
Statistics
Matches: 298, Mismatches: 32, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
32 27 0.09
33 1 0.00
36 1 0.00
37 238 0.80
38 31 0.10
ACGTcount: A:0.23, C:0.28, G:0.08, T:0.42
Consensus pattern (37 bp):
ACTTAATTCCCTTCCTTGGAATCAAGTCCTTTACTCT
Found at i:24399 original size:18 final size:18
Alignment explanation
Indices: 24376--24510 Score: 78
Period size: 18 Copynumber: 7.3 Consensus size: 18
24366 TGGAATCAAG
24376 TCCCTTACTCTACTTAAT
1 TCCCTTACTCTACTTAAT
* * * *
24394 TCCCTTCCT-TGGAATCAAA
1 TCCCTTACTCT--ACTTAAT
24413 TCCCTTACTCTACTTAAT
1 TCCCTTACTCTACTTAAT
* * *
24431 TCCCTTCCT-TGGAATTAAG
1 TCCCTTACTCT--ACTTAAT
*
24450 TCCTTTACTCTACTTAAT
1 TCCCTTACTCTACTTAAT
* * * *
24468 TCCCTTCCT-TGGAATCAAG
1 TCCCTTACTCT--ACTTAAT
*
24487 TCCTTTACTCTACTTAAT
1 TCCCTTACTCTACTTAAT
24505 TCCCTT
1 TCCCTT
24511 CCTTGGAACC
Statistics
Matches: 82, Mismatches: 26, Indels: 18
0.65 0.21 0.14
Matches are distributed among these distances:
17 3 0.04
18 41 0.50
19 35 0.43
20 3 0.04
ACGTcount: A:0.21, C:0.31, G:0.06, T:0.41
Consensus pattern (18 bp):
TCCCTTACTCTACTTAAT
Found at i:24418 original size:19 final size:19
Alignment explanation
Indices: 24358--24418 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
24348 TACTTAATTC
*
24358 CCCTTCCTTGGAATCAAGT
1 CCCTTCCTTGGAATCAAAT
* * * *
24377 CCCTTACTCT--ACTTAATT
1 CCCTTCCT-TGGAATCAAAT
24395 CCCTTCCTTGGAATCAAAT
1 CCCTTCCTTGGAATCAAAT
24414 CCCTT
1 CCCTT
24419 ACTCTACTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
17 1 0.03
18 12 0.39
19 17 0.55
20 1 0.03
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.36
Consensus pattern (19 bp):
CCCTTCCTTGGAATCAAAT
Found at i:24724 original size:35 final size:35
Alignment explanation
Indices: 24625--24737 Score: 104
Period size: 36 Copynumber: 3.2 Consensus size: 35
24615 TCCCCGGAGG
* * * *
24625 TTAAGTTTTTGTCTGATCTTACTTAATCATCTTTGAA
1 TTAAGTCTTTG-CTAAT-TTACTTAATTATCTATGAA
* *
24662 TTAAGTCTTTGATGATTTTACTTAATTAT-TATGAAA
1 TTAAGTCTTTGCT-AATTTACTTAATTATCTATG-AA
**
24698 TTAAGTCTTTGCTAATTTACTTAATTA-CCCTGAA
1 TTAAGTCTTTGCTAATTTACTTAATTATCTATGAA
24732 TTAAGT
1 TTAAGT
24738 ATGTGCTTGC
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
34 8 0.13
35 18 0.29
36 26 0.41
37 11 0.17
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.49
Consensus pattern (35 bp):
TTAAGTCTTTGCTAATTTACTTAATTATCTATGAA
Found at i:24786 original size:41 final size:40
Alignment explanation
Indices: 24726--25047 Score: 291
Period size: 41 Copynumber: 8.3 Consensus size: 40
24716 ACTTAATTAC
* * *
24726 CCTG-AATTAAGTATGTGCTTGCCTTTACCTAATTTCCTT
1 CCTGAAATTAAGTCTATGCTTGTCTTTACCTAATTTCCTT
* *
24765 CCTTGAAATTAAGCCTATGCTTGTGTTTACCTAATTTCCTT
1 CC-TGAAATTAAGTCTATGCTTGTCTTTACCTAATTTCCTT
* * * *
24806 CACTGAAATTAAGTCTGTGCTT-ACTTTACTTAA-TT--AT
1 C-CTGAAATTAAGTCTATGCTTGTCTTTACCTAATTTCCTT
* *
24843 CCTG-AATTAAATTTATGCTTGTCTTTACCTAACTTT-CTT
1 CCTGAAATTAAGTCTATGCTTGTCTTTACCTAA-TTTCCTT
* * * * *
24882 CCTTGAAATTAAGTTTGTGCTT-ACTTTACTTAA-TTAC--
1 CC-TGAAATTAAGTCTATGCTTGTCTTTACCTAATTTCCTT
24919 CCTG-AATTAAGTCTATGCTTGTCTTTACCTAATTTCCTT
1 CCTGAAATTAAGTCTATGCTTGTCTTTACCTAATTTCCTT
* * * *
24958 CCTTGAAATTAAGTCTGTGCTT-ACTTTACTTAA-TTAC--
1 CC-TGAAATTAAGTCTATGCTTGTCTTTACCTAATTTCCTT
24995 CCTG-AATTAAGTCTATGCTTGTCTTTACCTAATTTCCTT
1 CCTGAAATTAAGTCTATGCTTGTCTTTACCTAATTTCCTT
25034 CCTTGAAATTAAGT
1 CC-TGAAATTAAGT
25048 ATGTGTCTAT
Statistics
Matches: 227, Mismatches: 34, Indels: 42
0.75 0.11 0.14
Matches are distributed among these distances:
35 42 0.19
36 34 0.15
37 12 0.05
38 4 0.02
39 15 0.07
40 34 0.15
41 85 0.37
42 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (40 bp):
CCTGAAATTAAGTCTATGCTTGTCTTTACCTAATTTCCTT
Found at i:24862 original size:35 final size:36
Alignment explanation
Indices: 24658--25032 Score: 206
Period size: 41 Copynumber: 10.0 Consensus size: 36
24648 TAATCATCTT
* * * * **
24658 TGAATTAAGTCTTTG-ATGATTTTACTTAATTATTA
1 TGAATTAAGTCTATGCTTGACTTTACCTAATTATCC
* * * *
24693 TGAAATTAAGTCTTTGC-T-AATTTACTTAATTACCC
1 TG-AATTAAGTCTATGCTTGACTTTACCTAATTATCC
* * * *
24728 TGAATTAAGTATGTGCTTGCCTTTACCTAATTTCCTTCC
1 TGAATTAAGTCTATGCTTGACTTTACCTAA-TT--ATCC
* ** *
24767 TTGAAATTAAGCCTATGCTTGTGTTTACCTAATTTCCTTCAC
1 -TG-AATTAAGTCTATGCTTGACTTTACCTAA-TT--ATC-C
* *
24809 TGAAATTAAGTCTGTGCTT-ACTTTACTTAATTATCC
1 TG-AATTAAGTCTATGCTTGACTTTACCTAATTATCC
* * * *
24845 TGAATTAAATTTATGCTTGTCTTTACCTAACTTTCTTCC
1 TGAATTAAGTCTATGCTTGACTTTACCTAA--TT-ATCC
* * * *
24884 TTGAAATTAAGTTTGTGCTT-ACTTTACTTAATTACCC
1 -TG-AATTAAGTCTATGCTTGACTTTACCTAATTATCC
* *
24921 TGAATTAAGTCTATGCTTGTCTTTACCTAATTTCCTTCC
1 TGAATTAAGTCTATGCTTGACTTTACCTAA-TT--ATCC
* * *
24960 TTGAAATTAAGTCTGTGCTT-ACTTTACTTAATTACCC
1 -TG-AATTAAGTCTATGCTTGACTTTACCTAATTATCC
*
24997 TGAATTAAGTCTATGCTTGTCTTTACCTAATT-TCC
1 TGAATTAAGTCTATGCTTGACTTTACCTAATTATCC
25032 T
1 T
25033 TCCTTGAAAT
Statistics
Matches: 268, Mismatches: 49, Indels: 46
0.74 0.13 0.13
Matches are distributed among these distances:
34 12 0.04
35 63 0.24
36 58 0.22
37 10 0.04
38 4 0.01
39 11 0.04
40 32 0.12
41 77 0.29
42 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.46
Consensus pattern (36 bp):
TGAATTAAGTCTATGCTTGACTTTACCTAATTATCC
Found at i:24871 original size:76 final size:76
Alignment explanation
Indices: 24771--25052 Score: 469
Period size: 76 Copynumber: 3.7 Consensus size: 76
24761 CCTTCCTTGA
* *
24771 AATTAAGCCTATGCTTGTGTTTACCTAATTTCCTTCAC-TGAAATTAAGTCTGTGCTTACTTTAC
1 AATTAAGTCTATGCTTGTCTTTACCTAATTTCCTTC-CTTGAAATTAAGTCTGTGCTTACTTTAC
*
24835 TTAATTATCCTG
65 TTAATTACCCTG
* * *
24847 AATTAAATTTATGCTTGTCTTTACCTAACTTT-CTTCCTTGAAATTAAGTTTGTGCTTACTTTAC
1 AATTAAGTCTATGCTTGTCTTTACCTAA-TTTCCTTCCTTGAAATTAAGTCTGTGCTTACTTTAC
24911 TTAATTACCCTG
65 TTAATTACCCTG
24923 AATTAAGTCTATGCTTGTCTTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTGCTTACTTTACT
1 AATTAAGTCTATGCTTGTCTTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTGCTTACTTTACT
24988 TAATTACCCTG
66 TAATTACCCTG
*
24999 AATTAAGTCTATGCTTGTCTTTACCTAATTTCCTTCCTTGAAATTAAGTATGTG
1 AATTAAGTCTATGCTTGTCTTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTG
25053 TCTATCATTA
Statistics
Matches: 193, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
75 4 0.02
76 186 0.96
77 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (76 bp):
AATTAAGTCTATGCTTGTCTTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTGCTTACTTTACT
TAATTACCCTG
Found at i:24936 original size:152 final size:152
Alignment explanation
Indices: 24730--25052 Score: 479
Period size: 152 Copynumber: 2.1 Consensus size: 152
24720 AATTACCCTG
* * * *
24730 AATTAAGTATGTGCTTGCCTTTACCTAATTTCCTTCCTTGAAATTAAGCCTATGCTTGTGTTTAC
1 AATTAAGTATGTGCTT-ACTTTACTTAA-TTAC--CC-TG-AATTAAGCCTATGCTTGTCTTTAC
* *
24795 CTAATTTCCTTCAC-TGAAATTAAGTCTGTGCTTACTTTACTTAATTATCCTGAATTAAATTTAT
60 CTAATTTCCTTC-CTTGAAATTAAGTCTGTGCTTACTTTACTTAATTACCCTGAATTAAATCTAT
24859 GCTTGTCTTTACCTAACTTT-CTTCCTTGA
124 GCTTGTCTTTACCTAA-TTTCCTTCCTTGA
* *
24888 AATTAAGTTTGTGCTTACTTTACTTAATTACCCTGAATTAAGTCTATGCTTGTCTTTACCTAATT
1 AATTAAGTATGTGCTTACTTTACTTAATTACCCTGAATTAAGCCTATGCTTGTCTTTACCTAATT
*
24953 TCCTTCCTTGAAATTAAGTCTGTGCTTACTTTACTTAATTACCCTGAATTAAGTCTATGCTTGTC
66 TCCTTCCTTGAAATTAAGTCTGTGCTTACTTTACTTAATTACCCTGAATTAAATCTATGCTTGTC
25018 TTTACCTAATTTCCTTCCTTGA
131 TTTACCTAATTTCCTTCCTTGA
25040 AATTAAGTATGTG
1 AATTAAGTATGTG
25053 TCTATCATTA
Statistics
Matches: 153, Mismatches: 10, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
151 4 0.03
152 118 0.77
153 2 0.01
154 2 0.01
156 3 0.02
157 9 0.06
158 15 0.10
ACGTcount: A:0.24, C:0.20, G:0.11, T:0.45
Consensus pattern (152 bp):
AATTAAGTATGTGCTTACTTTACTTAATTACCCTGAATTAAGCCTATGCTTGTCTTTACCTAATT
TCCTTCCTTGAAATTAAGTCTGTGCTTACTTTACTTAATTACCCTGAATTAAATCTATGCTTGTC
TTTACCTAATTTCCTTCCTTGA
Found at i:25119 original size:37 final size:36
Alignment explanation
Indices: 25065--25481 Score: 320
Period size: 37 Copynumber: 11.0 Consensus size: 36
25055 TATCATTACC
*
25065 TTTTAACTGTTTTTACTTAATTACCCTGAATTAAGT
1 TTTTAACTGCTTTTACTTAATTACCCTGAATTAAGT
*
25101 CTTTCAACTGCTTTTACTTAATTACCCTGAATTAAGT
1 -TTTTAACTGCTTTTACTTAATTACCCTGAATTAAGT
* ** *
25138 TCTTAACTGCTTTTACTTAATTGTCCTGAACTAAGT
1 TTTTAACTGCTTTTACTTAATTACCCTGAATTAAGT
*
25174 TCTTAACTGCTTTTTACTTAATTATCCC-GAATTAAGT
1 TTTTAACTGC-TTTTACTTAATTA-CCCTGAATTAAGT
* * **
25211 TCTTTGACCG-TATTTACTTAATTTTCCTGAATTAAGCT
1 T-TTTAACTGCT-TTTACTTAATTACCCTGAATTAAG-T
* * * * *
25249 CCTTTGACTGTTTTTACCTT-ATTTCCTTGAATTAAGAT
1 -TTTTAACTGCTTTTA-CTTAATTACCCTGAATTAAG-T
* *
25287 TTTGACTAACTATGTTTACTTTT-CTTAATTGCCCTGAATTAAGA
1 TTT---TAAC--TG----CTTTTACTTAATTACCCTGAATTAAGT
* ** *
25331 TTTTGACTATTTTTACTTAATTGCCCTGAATTAAGTTTT
1 TTTTAACTGCTTTTACTTAATTACCCTGAATTAAG---T
* * *
25370 TTTTACCTGTTTTTACTTAATTGCCCTGAATTAAGT
1 TTTTAACTGCTTTTACTTAATTACCCTGAATTAAGT
* * *
25406 TCTTAACTGCTCCTTCACTTAACTACCCTGAATTAAGT
1 TTTTAACTGCT--TTTACTTAATTACCCTGAATTAAGT
* *
25444 TCTTTACCTGCTTTTACTTAATTACCCAGAATTAAGT
1 T-TTTAACTGCTTTTACTTAATTACCCTGAATTAAGT
25481 T
1 T
25482 CTCTTACTCT
Statistics
Matches: 310, Mismatches: 44, Indels: 52
0.76 0.11 0.13
Matches are distributed among these distances:
35 4 0.01
36 73 0.24
37 99 0.32
38 57 0.18
39 45 0.15
40 3 0.01
41 3 0.01
42 2 0.01
44 6 0.02
45 14 0.05
46 4 0.01
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.47
Consensus pattern (36 bp):
TTTTAACTGCTTTTACTTAATTACCCTGAATTAAGT
Found at i:25394 original size:39 final size:37
Alignment explanation
Indices: 25306--25481 Score: 178
Period size: 39 Copynumber: 4.7 Consensus size: 37
25296 CTATGTTTAC
* * *
25306 TTTT-CTTAATTGCCCTGAATTAAGATTTTGA-CTAT
1 TTTTACTTAATTGCCCTGAATTAAGTTTTTTACCTGT
25341 TTTTACTTAATTGCCCTGAATTAAGTTTTTTTTACCTGT
1 TTTTACTTAATTGCCCTGAATTAAG--TTTTTTACCTGT
* *
25380 TTTTACTTAATTGCCCTGAATTAAG-TTCTTAACTGCT
1 TTTTACTTAATTGCCCTGAATTAAGTTTTTTACCTG-T
* * * * * *
25417 CCTTCACTTAACTACCCTGAATTAAGTTCTTTACCTGC
1 -TTTTACTTAATTGCCCTGAATTAAGTTTTTTACCTGT
* *
25455 TTTTACTTAATTACCCAGAATTAAGTT
1 TTTTACTTAATTGCCCTGAATTAAGTT
25482 CTCTTACTCT
Statistics
Matches: 117, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
35 4 0.03
36 28 0.24
37 24 0.21
38 26 0.22
39 35 0.30
ACGTcount: A:0.25, C:0.19, G:0.10, T:0.46
Consensus pattern (37 bp):
TTTTACTTAATTGCCCTGAATTAAGTTTTTTACCTGT
Found at i:25450 original size:75 final size:74
Alignment explanation
Indices: 25305--25483 Score: 211
Period size: 75 Copynumber: 2.4 Consensus size: 74
25295 ACTATGTTTA
* * * * *
25305 CTTTT-CTTAATTGCCCTGAATTAAGATT-TTGACTATTTTTACTTAATTGCCCTGAATTAAGTT
1 CTTTTACTTAATTGCCCTGAATTAAG-TTCTTAACTATCTTCACTTAACTACCCTGAATTAAG-T
*
25368 TTTTTTACCTG
64 TTCTTTACCTG
* *
25379 TTTTTACTTAATTGCCCTGAATTAAGTTCTTAACTGCTCCTTCACTTAACTACCCTGAATTAAG-
1 CTTTTACTTAATTGCCCTGAATTAAGTTCTTAACT-AT-CTTCACTTAACTACCCTGAATTAAGT
25443 TTCTTTACCTG
64 TTCTTTACCTG
* *
25454 CTTTTACTTAATTACCCAGAATTAAGTTCT
1 CTTTTACTTAATTGCCCTGAATTAAGTTCT
25484 CTTACTCTTT
Statistics
Matches: 90, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
74 6 0.07
75 62 0.69
76 1 0.01
77 21 0.23
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.46
Consensus pattern (74 bp):
CTTTTACTTAATTGCCCTGAATTAAGTTCTTAACTATCTTCACTTAACTACCCTGAATTAAGTTT
CTTTACCTG
Found at i:25670 original size:71 final size:71
Alignment explanation
Indices: 25454--25843 Score: 609
Period size: 71 Copynumber: 5.4 Consensus size: 71
25444 TCTTTACCTG
* * * *
25454 CTTTTACTTAATTACCCAGAATTAAGTTCTCTTACTCTTTTTAATTGTCCAACTTAGGACCTTGA
1 CTTTT-CTTAATTACCCTGAATTAAG-ACT-TTACTCTTCTTAATTGCCCAACTTAGGACCTTGA
*
25519 CTATACTTT
63 CTGTACTTT
**
25528 CTTTTCTTAATTACCCTGAATTAAGACTCTTACTCTTCTTAATTTTCCAACTTAGGACCTTGACT
1 CTTTTCTTAATTACCCTGAATTAAGACT-TTACTCTTCTTAATTGCCCAACTTAGGACCTTGACT
25593 GTACTTT
65 GTACTTT
* * * * * *
25600 CTTTTCTTAATTTCCCTGAATTAAGATTTTACCCTTCTTAATTGCCCTACTTAGAACCTTAACTG
1 CTTTTCTTAATTACCCTGAATTAAGACTTTACTCTTCTTAATTGCCCAACTTAGGACCTTGACTG
25665 TACTTT
66 TACTTT
*
25671 CTTTTCTTAATTACCCTGAATTAAGACTTTACCCTTCTTAATTGCCCAACTTAGGACCTTGACTG
1 CTTTTCTTAATTACCCTGAATTAAGACTTTACTCTTCTTAATTGCCCAACTTAGGACCTTGACTG
*
25736 TACGTT
66 TACTTT
25742 CTTTTCTTAATTACCCTGAATTAAGACTTTACTCTTCTTAATTGCCCAACTTAGGACCTTGACTG
1 CTTTTCTTAATTACCCTGAATTAAGACTTTACTCTTCTTAATTGCCCAACTTAGGACCTTGACTG
25807 TACTTT
66 TACTTT
25813 CTTTTCTTAATTACCCTGAATTAAGACTTTA
1 CTTTTCTTAATTACCCTGAATTAAGACTTTA
25844 ACTGCTTTTT
Statistics
Matches: 295, Mismatches: 21, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
71 202 0.68
72 69 0.23
73 19 0.06
74 5 0.02
ACGTcount: A:0.25, C:0.23, G:0.09, T:0.43
Consensus pattern (71 bp):
CTTTTCTTAATTACCCTGAATTAAGACTTTACTCTTCTTAATTGCCCAACTTAGGACCTTGACTG
TACTTT
Found at i:25867 original size:37 final size:37
Alignment explanation
Indices: 25813--26004 Score: 289
Period size: 37 Copynumber: 5.2 Consensus size: 37
25803 ACTGTACTTT
* *
25813 CTTTT-CTTAATTACCCTGAATTAAG-ACTTTAACTG
1 CTTTTACTTAATTGCCCTGAATTAAGTTCTTTAACTG
*
25848 CTTTTTACTTAATTGCCCTGAATTAAGTTCTTTAACCG
1 C-TTTTACTTAATTGCCCTGAATTAAGTTCTTTAACTG
*
25886 CTTTTACTTAATTGTCCTGAATTAAGTTCTTTAACTG
1 CTTTTACTTAATTGCCCTGAATTAAGTTCTTTAACTG
* * *
25923 CTTTTACTTAATTGTCCTAAATTAAGTTCTTTAACTA
1 CTTTTACTTAATTGCCCTGAATTAAGTTCTTTAACTG
*
25960 CTTTTACTTAATTTCCCTGAATTAAGTTCTTTAACTG
1 CTTTTACTTAATTGCCCTGAATTAAGTTCTTTAACTG
25997 CTTTTACT
1 CTTTTACT
26005 GATGCACATG
Statistics
Matches: 143, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
35 1 0.01
36 4 0.03
37 129 0.90
38 9 0.06
ACGTcount: A:0.26, C:0.19, G:0.08, T:0.47
Consensus pattern (37 bp):
CTTTTACTTAATTGCCCTGAATTAAGTTCTTTAACTG
Found at i:40464 original size:3 final size:3
Alignment explanation
Indices: 40456--40498 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
40446 AGCTTTTCAG
*
40456 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATC ATA A-A ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
40499 AAAGAAGAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
2 6 0.17
3 30 0.83
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:41453 original size:22 final size:23
Alignment explanation
Indices: 41418--41464 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
41408 GTAGTTCATC
*
41418 ATAAATTAACTAATTAAA-ACTA
1 ATAAACTAACTAATTAAATACTA
*
41440 ATAAACTAAGTAATTAAATACTA
1 ATAAACTAACTAATTAAATACTA
41463 AT
1 AT
41465 TAATTAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAAACTAACTAATTAAATACTA
Found at i:41468 original size:15 final size:15
Alignment explanation
Indices: 41444--41473 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41434 AAACTAATAA
41444 ACTAAGTAATTAAAT
1 ACTAAGTAATTAAAT
*
41459 ACTAATTAATTAAAT
1 ACTAAGTAATTAAAT
41474 TTTTTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (15 bp):
ACTAAGTAATTAAAT
Found at i:42785 original size:39 final size:35
Alignment explanation
Indices: 42737--42842 Score: 95
Period size: 35 Copynumber: 2.9 Consensus size: 35
42727 AAAATCATCT
* *
42737 TAAATCCAGAAAAATATAAACAGCCAACCAAGAACACAA
1 TAAACCCAGAAAAATAT-AA-A--CAACCAAAAACACAA
* * * *
42776 TATACCCAGAAAAATGTGAACAACCAAAAACACAT
1 TAAACCCAGAAAAATATAAACAACCAAAAACACAA
* * *
42811 TAAACCCAGAAAAATATGAACTACCAAGAACA
1 TAAACCCAGAAAAATATAAACAACCAAAAACA
42843 AATTGCTTTG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
35 41 0.72
37 1 0.02
38 1 0.02
39 14 0.25
ACGTcount: A:0.57, C:0.23, G:0.08, T:0.12
Consensus pattern (35 bp):
TAAACCCAGAAAAATATAAACAACCAAAAACACAA
Found at i:42808 original size:35 final size:35
Alignment explanation
Indices: 42761--42842 Score: 119
Period size: 35 Copynumber: 2.3 Consensus size: 35
42751 TATAAACAGC
* *
42761 CAACCAAGAACACAATATACCCAGAAAAATGTGAA
1 CAACCAAGAACACAATAAACCCAGAAAAATATGAA
* *
42796 CAACCAAAAACACATTAAACCCAGAAAAATATGAA
1 CAACCAAGAACACAATAAACCCAGAAAAATATGAA
*
42831 CTACCAAGAACA
1 CAACCAAGAACA
42843 AATTGCTTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.56, C:0.24, G:0.09, T:0.11
Consensus pattern (35 bp):
CAACCAAGAACACAATAAACCCAGAAAAATATGAA
Found at i:46165 original size:21 final size:21
Alignment explanation
Indices: 46139--46193 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
46129 TAATCCTATG
* *
46139 TTGGAGGTTTCTTATTTATAT
1 TTGGAGGTTTCTTATTCATAA
*
46160 TTGGAGATTTCTTATTCATAA
1 TTGGAGGTTTCTTATTCATAA
*
46181 TTAGAGGTTTCTT
1 TTGGAGGTTTCTT
46194 TCATATATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.07, G:0.18, T:0.53
Consensus pattern (21 bp):
TTGGAGGTTTCTTATTCATAA
Found at i:46198 original size:19 final size:18
Alignment explanation
Indices: 46174--46220 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
46164 AGATTTCTTA
46174 TTCATAATTAGAGGTTTCT
1 TTCATAATTAG-GGTTTCT
*
46193 TTCATATATTTAGGTTTTCT
1 TTCATA-A-TTAGGGTTTCT
46213 TT-ATAATT
1 TTCATAATT
46221 TGCTTTAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.08
18 1 0.04
19 9 0.36
20 9 0.36
21 4 0.16
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.55
Consensus pattern (18 bp):
TTCATAATTAGGGTTTCT
Found at i:63482 original size:2 final size:2
Alignment explanation
Indices: 63475--63513 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
63465 ACATACACAA
63475 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
63514 CGCACACGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:64368 original size:86 final size:87
Alignment explanation
Indices: 64268--64495 Score: 413
Period size: 86 Copynumber: 2.6 Consensus size: 87
64258 ATTGTTAAAA
64268 TAATAATGAGAATATTTTCTAAATCTTGCCAAATTGTGGGAGATTTAGGAGATATTTTAAGAAAT
1 TAATAATGAGAATATTTTCTAAATCTTGCCAAATTGTGGGAGATTTAGGAGATATTTTAAGAAAT
64333 AAATAAATTAT-AAGATTGAGC
66 AAATAAATTATAAAGATTGAGC
64354 TAATAATGAGAATATTTTCTAAATCTTGCCAAATTGTGGGAGATTTAGGAGATATTTTAAGAAAT
1 TAATAATGAGAATATTTTCTAAATCTTGCCAAATTGTGGGAGATTTAGGAGATATTTTAAGAAAT
*
64419 AAATAAATTATAAAGATTGAGT
66 AAATAAATTATAAAGATTGAGC
* * *
64441 TAGTAAAGAGAATATTTTCTAAATCTTGCCAAATTGTGGGAGATTTAGAAGATAT
1 TAATAATGAGAATATTTTCTAAATCTTGCCAAATTGTGGGAGATTTAGGAGATAT
64496 AGAAAAGGAA
Statistics
Matches: 137, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
86 76 0.55
87 61 0.45
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (87 bp):
TAATAATGAGAATATTTTCTAAATCTTGCCAAATTGTGGGAGATTTAGGAGATATTTTAAGAAAT
AAATAAATTATAAAGATTGAGC
Done.