Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168240.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_472, 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: 25713
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.35
Found at i:1363 original size:18 final size:17
Alignment explanation
Indices: 1339--1384 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
1329 TTTAAAAACC
*
1339 TTTAAATATATTATTTA
1 TTTAAATATATTAATTA
*
1356 TGTTAAATTTCATTAATTA
1 T-TTAAATAT-ATTAATTA
1375 TTTAAATATA
1 TTTAAATATA
1385 CCATTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 2 0.08
18 14 0.58
19 8 0.33
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTAAATATATTAATTA
Found at i:3564 original size:32 final size:32
Alignment explanation
Indices: 3528--3588 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
3518 TCTATGTTCT
*
3528 TTTTTCTTCATTTTATTTTATTT-TATTTTTTA
1 TTTTTATTCATTTTATTTT-TTTGTATTTTTTA
**
3560 TTTTTATTTTTTTTATTTTTTTGTATTTT
1 TTTTTATTCATTTTATTTTTTTGTATTTT
3589 ACATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 3 0.12
32 22 0.88
ACGTcount: A:0.13, C:0.03, G:0.02, T:0.82
Consensus pattern (32 bp):
TTTTTATTCATTTTATTTTTTTGTATTTTTTA
Found at i:3570 original size:19 final size:18
Alignment explanation
Indices: 3538--3650 Score: 97
Period size: 19 Copynumber: 5.9 Consensus size: 18
3528 TTTTTCTTCA
*
3538 TTTTATTTTA-TTTTATT
1 TTTTTTTTTATTTTTATT
3555 TTTTATTTTTATTTTT-TT
1 TTTT-TTTTTATTTTTATT
*
3573 TATTTTTTTGTATTTTACATT
1 T-TTTTTTT-TATTTT-TATT
*
3594 TTTTTTTGTATTTTTATT
1 TTTTTTTTTATTTTTATT
3612 TTTTTATTATTATTTTATATAT
1 TTTTT-TT-TTATTTT-TAT-T
3634 TTTTTCTTTT-TTTTTAT
1 TTTTT-TTTTATTTTTAT
3651 CTTAGGTATT
Statistics
Matches: 80, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
17 4 0.05
18 20 0.25
19 24 0.30
20 16 0.20
21 8 0.10
22 8 0.10
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTTTTTTATTTTTATT
Found at i:3644 original size:44 final size:40
Alignment explanation
Indices: 3554--3645 Score: 85
Period size: 44 Copynumber: 2.1 Consensus size: 40
3544 TTTATTTTAT
* * *
3554 TTTTTATTTTTATTTTTTTTATTTTTTTGTATTTTACATTTTT
1 TTTTTATTTTTATTTTTTTTATTATTTTATATTTT---TTTAT
*
3597 TTTTGTATTTTTATTTTTTTATTATTATTTTATATATTTTTTCT
1 TTTT-TATTTTTA-TTTTTT-TTATTATTTTATAT-TTTTTTAT
3641 TTTTT
1 TTTTT
3646 TTTATCTTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
43 5 0.12
44 16 0.38
45 6 0.14
46 12 0.29
47 3 0.07
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (40 bp):
TTTTTATTTTTATTTTTTTTATTATTTTATATTTTTTTAT
Found at i:4736 original size:5 final size:5
Alignment explanation
Indices: 4719--4795 Score: 61
Period size: 5 Copynumber: 14.8 Consensus size: 5
4709 TTTAATGTTC
*
4719 TTTTA TCTTTA TTTTA TTTTTA TTTTTG TTTTA CTTTT- TTTTA TTTTCA
1 TTTTA T-TTTA TTTTA -TTTTA -TTTTA TTTTA -TTTTA TTTTA TTTT-A
*
4768 CTTTTA TTTTG TTTTA --TTA TTTTA TTTT
1 -TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
4796 CTTTAAATAA
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
3 3 0.05
4 4 0.07
5 28 0.47
6 21 0.35
7 4 0.07
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:4762 original size:32 final size:30
Alignment explanation
Indices: 4721--4796 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 30
4711 TAATGTTCTT
*
4721 TTATCTTTATTTT-ATTTTTATTTTTGTTTTA
1 TTAT-TTTATTTTCACTTTTA-TTTTGTTTTA
*
4752 CTTTTTTTTATTTTCACTTTTATTTTGTTTTA
1 --TTATTTTATTTTCACTTTTATTTTGTTTTA
4784 TTATTTTATTTTC
1 TTATTTTATTTTC
4797 TTTAAATAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
30 12 0.31
32 18 0.46
33 9 0.23
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (30 bp):
TTATTTTATTTTCACTTTTATTTTGTTTTA
Found at i:4772 original size:27 final size:28
Alignment explanation
Indices: 4719--4796 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
4709 TTTAATGTTC
* * *
4719 TTTTATCTTTATTTTATTTTTATTTTTG
1 TTTTATCTTTATTTTATTTTCACTTTTA
*
4747 TTTTA-CTTTTTTTTATTTTCACTTTTA
1 TTTTATCTTTATTTTATTTTCACTTTTA
* *
4774 TTTTGTTTTATTATTTTATTTTC
1 TTTT-ATCT-TTATTTTATTTTC
4797 TTTAAATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.55
28 5 0.12
29 1 0.03
30 12 0.30
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.77
Consensus pattern (28 bp):
TTTTATCTTTATTTTATTTTCACTTTTA
Found at i:4877 original size:59 final size:59
Alignment explanation
Indices: 4814--5330 Score: 543
Period size: 59 Copynumber: 8.7 Consensus size: 59
4804 AAAATCCAAA
* * *
4814 AAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTTC
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTTC
* * ** *
4873 AAAAAATATTTTTGG-GAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTTA
1 AAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTTC
** * *
4932 AAAAAAGGTTTTAT-GAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAAGTTTCC
1 AAAAAATATTTT-TGGA-GAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTTC
* * * *
4992 AAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAG-TTTC
1 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTTC
* *
5050 CAAAAATATTTTTGG-GAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTTC
1 AAAAAATATTTTTGGAG-AAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTTC
* * * * *
5107 AAAAAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCC
1 AAAAAATA---TTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTTC
* * *
5170 AAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAA-TTTTC
1 --AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTTC
* * *
5229 AAAAAAATAAATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTC-GAAATTAAAGTTTT-
1 -AAAAAAT--ATTTTTGGA-GAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTTC
* *
5289 AAAAGAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCC
1 AAAA-AATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCC
5331 CTGCATAAAA
Statistics
Matches: 388, Mismatches: 47, Indels: 47
0.80 0.10 0.10
Matches are distributed among these distances:
57 14 0.04
58 82 0.21
59 113 0.29
60 93 0.24
61 65 0.17
62 10 0.03
63 4 0.01
65 7 0.02
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (59 bp):
AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTTC
Found at i:4935 original size:119 final size:117
Alignment explanation
Indices: 4812--5330 Score: 573
Period size: 119 Copynumber: 4.4 Consensus size: 117
4802 ATAAAATCCA
* *
4812 AAAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTTC-AAA
1 AAAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT-AAA-TTTTCAAAA
* **
4876 AAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTT
64 AAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAATTTTT
* ** * * * *
4930 TAAAAAAAGGTTTTAT-GAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAAGTTTCCAA
1 AAAAAAAATATTTT-TGGA-AAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT-AAATTTTCAAA
* * * **
4994 AAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTT
63 AAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAATTTTT
** * *
5049 -CCAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
1 AAAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTC-AAAAA
* **
5113 AAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCC
65 AA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAAT-AAA-TTTTT
* *
5170 AAAAAAAATATTTTT-GAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCAAAAA
1 AAAAAAAATATTTTTGGAA-AAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTCAAAAA
* * *
5234 AATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTT
65 AAT--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAATTTTT
* ** *
5289 -AAAAGAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCC
1 AAAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCC
5331 CTGCATAAAA
Statistics
Matches: 340, Mismatches: 46, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
116 7 0.02
117 36 0.11
118 62 0.18
119 127 0.37
120 8 0.02
121 49 0.14
122 51 0.15
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (117 bp):
AAAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAATTTTCAAAAAA
ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAATTTTT
Found at i:5129 original size:178 final size:177
Alignment explanation
Indices: 4813--5330 Score: 699
Period size: 178 Copynumber: 2.9 Consensus size: 177
4803 TAAAATCCAA
*
4813 AAAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTTCAAAAA
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAG-TTTCAAAAA
4878 ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTTAAAAAAAGG-TT
65 ATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA--TTTTAAAAAAAGGTTT
*
4942 TTATGAGGAAAAGTTGAAAGTATCAATTTTCCTC-AAAATTAAAAGTTTCC
128 TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAA-TAAAAGTTTCC
* * *
4992 -AAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCCAAAAA
1 AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCAAAAAA
*
5056 TATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAAGGTTTT
66 TATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTT--AAAAAAAGGTTTT
*
5121 TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCC
129 TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTCC
* * ** * *
5170 AAAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTCAAAAA
1 -AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTC-AAAA
** * *
5234 AATAAATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTAAAAGAA--
64 AAT--ATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTAAAAAAAGG
* * *
5296 TATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCC
125 TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
5331 CTGCATAAAA
Statistics
Matches: 304, Mismatches: 24, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
175 4 0.01
177 63 0.21
178 96 0.32
179 43 0.14
180 48 0.16
181 6 0.02
182 38 0.12
183 6 0.02
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (177 bp):
AAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTCAAAAAA
TATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTAAAAAAAGGTTTTTT
TGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATAAAAGTTTCC
Found at i:5227 original size:17 final size:17
Alignment explanation
Indices: 5205--5244 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
5195 TGAAAGTATC
**
5205 AATTTTTCTTAAAAATA
1 AATTTTTCAAAAAAATA
5222 AA-TTTTCAAAAAAATA
1 AATTTTTCAAAAAAATA
5238 AATTTTT
1 AATTTTT
5245 GAGGAAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTTTTCAAAAAAATA
Found at i:5363 original size:240 final size:238
Alignment explanation
Indices: 4814--5347 Score: 600
Period size: 240 Copynumber: 2.2 Consensus size: 238
4804 AAAATCCAAA
* * * * ***
4814 AAAAAATATTTTTGGAAAAAAGTTGAAAGTATCAATTTTCCTCG-AAATTAAA-AGTTTTCAAAA
1 AAAAAATATTTTTGGGAAAAAGTTAAAAGTATCAATTTTCCT-GAAAAATAAACA-ATCAAAAAA
* * * * ** *
4877 AA--TATTTTTGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTTAAAAAAAGG
64 AACGTTTTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCCAAAAAAAGA
* * * *
4940 TTTTATGAGGAAAAGTTGAAAGTATCAATTTTCCTCAAAATTAAAAGTTTCCAAAAAGTATTTTT
129 TTTTATGAAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTCAAAAAAATATTTTT
*
5005 GGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTC
194 GAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTC
* * * ***
5050 CAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAA
1 AAAAAATATTTTTGGGAAAAAGTTAAAAGTATCAATTTTCCTGAAAAATAAACAATCAAAAAAAA
* *
5115 GGTTTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGTTTCCAAAAAAA-A
66 CGTTTTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAAT-AAAGTTTCCAAAAAAAGA
* * * *
5178 TATTTTTGAAGAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTCAAAAAAATAAATT
129 T-TTTATGAAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTCAAAAAAAT--ATT
* *
5242 TTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATT-AAAGTTTT
191 TTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTC
* * *
5289 AAAAGAATATTTTTGGGGAAAAGTTAAAAGTATCAATTTTCCCTGCATAA-AAACAATCA
1 AAAA-AATATTTTTGGGAAAAAGTTAAAAGTATCAATTTT-CCTGAAAAATAAACAATCA
5348 TTCTTTTCTT
Statistics
Matches: 251, Mismatches: 36, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
236 55 0.22
238 50 0.20
239 61 0.24
240 79 0.31
241 6 0.02
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (238 bp):
AAAAAATATTTTTGGGAAAAAGTTAAAAGTATCAATTTTCCTGAAAAATAAACAATCAAAAAAAA
CGTTTTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAGTTTCCAAAAAAAGATT
TTATGAAGAAAAGTTGAAAGTATCAATTTTCCTCAAAAATAAAAGTTTCAAAAAAATATTTTTGA
GGAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAAGTTTC
Found at i:14050 original size:10 final size:10
Alignment explanation
Indices: 14035--14071 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
14025 ATACTATGCT
14035 TGAAAAAAAA
1 TGAAAAAAAA
14045 TG--AAAAAA
1 TGAAAAAAAA
14053 TGAAAAAAAA
1 TGAAAAAAAA
14063 T-AAAAAAAA
1 TGAAAAAAAA
14072 AAAGAAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.32
9 8 0.32
10 9 0.36
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (10 bp):
TGAAAAAAAA
Found at i:14070 original size:18 final size:18
Alignment explanation
Indices: 14035--14070 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14025 ATACTATGCT
*
14035 TGAAAAAAAATGAAAAAA
1 TGAAAAAAAATAAAAAAA
14053 TGAAAAAAAATAAAAAAA
1 TGAAAAAAAATAAAAAAA
14071 AAAAGAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (18 bp):
TGAAAAAAAATAAAAAAA
Found at i:15110 original size:41 final size:41
Alignment explanation
Indices: 15065--15254 Score: 362
Period size: 41 Copynumber: 4.6 Consensus size: 41
15055 ATGATTGTCA
15065 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
15106 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
15147 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
*
15188 AGGAGCAATTTACTTTCTTAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAG
15230 AGGAGCAATTTACTTTTCAAAGTCG
1 AGGAGCAATTTACTTTTCAAAGTCG
15255 CAATTTACTT
Statistics
Matches: 146, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
41 106 0.73
42 40 0.27
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.36
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:15259 original size:20 final size:20
Alignment explanation
Indices: 15234--15274 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
15224 GTTTAGAGGA
15234 GCAATTTACTTTTCAAAGTC
1 GCAATTTACTTTTCAAAGTC
15254 GCAATTTACTTTTCAAAGTC
1 GCAATTTACTTTTCAAAGTC
15274 G
1 G
15275 TGGTGCCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (20 bp):
GCAATTTACTTTTCAAAGTC
Found at i:15288 original size:61 final size:62
Alignment explanation
Indices: 15192--15315 Score: 223
Period size: 61 Copynumber: 2.0 Consensus size: 62
15182 GTTTAGAGGA
*
15192 GCAATTTACTTTCTTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
1 GCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
*
15254 GCAATTTACTTT-TCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTC
1 GCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
15315 G
1 G
15316 TTGAGCCTCT
Statistics
Matches: 60, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 48 0.80
62 12 0.20
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (62 bp):
GCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTC
Found at i:15367 original size:43 final size:41
Alignment explanation
Indices: 15254--15380 Score: 182
Period size: 41 Copynumber: 3.0 Consensus size: 41
15244 TTTCAAAGTC
* * * *
15254 GCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGA
1 GCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGA
15295 GCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGA
1 GCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGA
* *
15336 GCCATTTATGTTTCTCAAAGTCGTTGAGCCTCTGCTTAGAGGA
1 GCAATTTAT-TTT-TCAAAGTCGTTGAGCCTCTGATTAGAGGA
15379 GC
1 GC
15381 TTTGGTCAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
41 45 0.58
42 3 0.04
43 30 0.38
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (41 bp):
GCAATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGA
Found at i:15407 original size:14 final size:15
Alignment explanation
Indices: 15387--15421 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
15377 GAGCTTTGGT
15387 CAAAAACAAAAAAAA
1 CAAAAACAAAAAAAA
15402 -AAAAACAAAAAAAA
1 CAAAAACAAAAAAAA
15416 CAAAAA
1 CAAAAA
15422 AATAAAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (15 bp):
CAAAAACAAAAAAAA
Found at i:15581 original size:1 final size:1
Alignment explanation
Indices: 15570--15624 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
15560 GGTAAGTTTA
* * * * * *
15570 TTTTCTTTTTTTTTTTTTTATTTTTTTTTTTTATTTTTTTGTATTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
15625 ATTATTATTA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.07, C:0.02, G:0.02, T:0.89
Consensus pattern (1 bp):
T
Found at i:15593 original size:13 final size:13
Alignment explanation
Indices: 15577--15624 Score: 69
Period size: 13 Copynumber: 3.5 Consensus size: 13
15567 TTATTTTCTT
15577 TTTTTTTTTTTTA
1 TTTTTTTTTTTTA
15590 TTTTTTTTTTTTA
1 TTTTTTTTTTTTA
15603 TTTTTTTGTATTTTTA
1 -TTTTTT-T-TTTTTA
15619 TTTTTT
1 TTTTTT
15625 ATTATTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.41
14 6 0.19
15 7 0.22
16 6 0.19
ACGTcount: A:0.08, C:0.00, G:0.02, T:0.90
Consensus pattern (13 bp):
TTTTTTTTTTTTA
Found at i:15622 original size:23 final size:22
Alignment explanation
Indices: 15566--15666 Score: 89
Period size: 23 Copynumber: 4.5 Consensus size: 22
15556 AATAGGTAAG
*
15566 TTTA-TTTTCTTTTTT-TTTTT
1 TTTATTTTTATTTTTTATTTTT
*
15586 TTTATTTTTTTTTTTTATTTTT
1 TTTATTTTTATTTTTTATTTTT
*
15608 TTGTATTTTTATTTTTTATTATT
1 TT-TATTTTTATTTTTTATTTTT
* * * *
15631 ATTATTGTTTTATATATATATTTCT
1 TTTA-T-TTTTAT-TTTTTATTTTT
15656 TTTATTTTTAT
1 TTTATTTTTAT
15667 CTTAGGTATT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
20 4 0.06
21 10 0.15
22 9 0.14
23 26 0.39
24 7 0.11
25 10 0.15
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (22 bp):
TTTATTTTTATTTTTTATTTTT
Found at i:15627 original size:13 final size:13
Alignment explanation
Indices: 15566--15633 Score: 64
Period size: 13 Copynumber: 4.9 Consensus size: 13
15556 AATAGGTAAG
*
15566 TTTATTTTCTTTTT
1 TTTATTTT-TATTT
*
15580 TTTTTTTTTATTT
1 TTTATTTTTATTT
*
15593 TTTTTTTTTATTTTT
1 TTTATTTTTA--TTT
15608 TTGTATTTTTATTT
1 TT-TATTTTTATTT
*
15622 TTTATTATTATT
1 TTTATTTTTATT
15634 ATTGTTTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
13 23 0.49
14 12 0.26
15 5 0.11
16 7 0.15
ACGTcount: A:0.12, C:0.01, G:0.01, T:0.85
Consensus pattern (13 bp):
TTTATTTTTATTT
Found at i:15630 original size:16 final size:15
Alignment explanation
Indices: 15566--15666 Score: 93
Period size: 16 Copynumber: 6.7 Consensus size: 15
15556 AATAGGTAAG
15566 TTTATTTTCT-TTTTT
1 TTTATTTT-TATTTTT
15581 TTT-TTTTTA-TTTT
1 TTTATTTTTATTTTT
15594 TTT-TTTTTATTTTT
1 TTTATTTTTATTTTT
15608 TTGTATTTTTATTTTT
1 TT-TATTTTTATTTTT
*
15624 TATTATTATTATTGTTT
1 T-TTATTTTTATT-TTT
* * * *
15641 TATATATATATTTCT
1 TTTATTTTTATTTTT
15656 TTTATTTTTAT
1 TTTATTTTTAT
15667 CTTAGGTATT
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
13 14 0.20
14 10 0.14
15 14 0.20
16 28 0.39
17 5 0.07
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTATTTTTATTTTT
Found at i:15741 original size:17 final size:16
Alignment explanation
Indices: 15719--15865 Score: 63
Period size: 17 Copynumber: 8.9 Consensus size: 16
15709 AATATATATC
15719 TTTATTATTATTATTAT
1 TTTATT-TTATTATTAT
* *
15736 TTTA-TTTATTTGTTTT
1 TTTATTTTA-TTATTAT
* *
15752 TTTATTATTA-GATTAGG
1 TTTATT-TTATTATTA-T
* *
15769 TTTA-TTTAATATTCT
1 TTTATTTTATTATTAT
15784 TTTATCTTTATT-TTATT
1 TTTAT-TTTATTATTA-T
*
15801 TTTATTTT-TGTTTTACT
1 TTTATTTTAT-TATTA-T
* *
15818 TTTATTTTTTTTATTTT
1 TTTA-TTTTATTATTAT
15835 TTTATTTTCACTT-TTAT
1 TTTATTTT-A-TTATTAT
*
15852 TTTGTTTTATTATT
1 TTTATTTTATTATT
15866 TTATAAAATC
Statistics
Matches: 98, Mismatches: 17, Indels: 31
0.67 0.12 0.21
Matches are distributed among these distances:
15 13 0.13
16 29 0.30
17 43 0.44
18 12 0.12
19 1 0.01
ACGTcount: A:0.19, C:0.03, G:0.04, T:0.73
Consensus pattern (16 bp):
TTTATTTTATTATTAT
Found at i:15803 original size:6 final size:6
Alignment explanation
Indices: 15783--15867 Score: 63
Period size: 6 Copynumber: 14.5 Consensus size: 6
15773 TTTAATATTC
* * *
15783 TTTTAT CTTTA- TTTTAT TTTTAT TTTT-G TTTTAC TTTTAT TTTT-T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* *
15828 TTATT-T TTTTAT TTTCAC TTTTAT TTTGT-T TTATTAT TTT
1 TT-TTAT TTTTAT TTTTAT TTTTAT TTT-TAT TT-TTAT TTT
15868 ATAAAATCCA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
5 13 0.21
6 45 0.71
7 5 0.08
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:15847 original size:29 final size:29
Alignment explanation
Indices: 15790--15869 Score: 101
Period size: 28 Copynumber: 2.8 Consensus size: 29
15780 TTCTTTTATC
* *
15790 TTTATTTTATTTT-TATTTTTGTTTTACT
1 TTTATTTTATTTTATTTTTTTATTTTACT
15818 TTTATTTT-TTTTATTTTTTTATTTTCACT
1 TTTATTTTATTTTATTTTTTTATTTT-ACT
* *
15847 TTTATTTTGTTTTATTATTTTAT
1 TTTATTTTATTTTATTTTTTTAT
15870 AAAATCCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
27 4 0.09
28 18 0.39
29 11 0.24
30 13 0.28
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.79
Consensus pattern (29 bp):
TTTATTTTATTTTATTTTTTTATTTTACT
Found at i:16003 original size:59 final size:58
Alignment explanation
Indices: 15928--16110 Score: 242
Period size: 59 Copynumber: 3.1 Consensus size: 58
15918 CCTTAAAAAT
* *
15928 AAAAAGGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCA
1 AAAAAGG-TTTTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTGAAATTAAATTTTCA
*
15988 AAAAAGGTTTTTTTGAGGAAAAGTTAAAAGTATCAATTTTCTTCGAAATTAAAATTTTCA
1 AAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTT-GAAATT-AAATTTTCA
* * * *
16048 AAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTCA
1 AAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTGAAATTAAA-TTTTCA
16107 AAAA
1 AAAA
16111 CAAAAAATAT
Statistics
Matches: 111, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
58 6 0.05
59 78 0.70
60 27 0.24
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.37
Consensus pattern (58 bp):
AAAAAGGTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTTGAAATTAAATTTTCA
Found at i:16146 original size:65 final size:60
Alignment explanation
Indices: 15947--16150 Score: 177
Period size: 59 Copynumber: 3.4 Consensus size: 60
15937 TTTTTTGAGG
* * * * * * *
15947 AAAAGTTGAAAGTATCAATTTTCCTT-AAAAAT-AAATTTTCAAAAAAGGTTTTTTTGAGG-
1 AAAAATTGAAAGTATCAATTTTTCTTCGAAATTAAAATTTTCAAAAAA-ATATTTTAG-GGA
* * * *
16006 AAAAGTTAAAAGTATCAA-TTTTCTTCGAAATTAAAATTTTCAAAAAAATATTTTTGGGG
1 AAAAATTGAAAGTATCAATTTTTCTTCGAAATTAAAATTTTCAAAAAAATATTTTAGGGA
* *
16065 AAAAGTTGAAAGTATCAATTTTTC-TCGAAATTAAAGTTTTCAAAAACAAAAAATATTTTCAGGG
1 AAAAATTGAAAGTATCAATTTTTCTTCGAAATTAAAATTTTC----A-AAAAAATATTTT-AGGG
16129 A
60 A
16130 AAAAATTGAAAGTATC-ATTTT
1 AAAAATTGAAAGTATCAATTTT
16151 CCCCCTGCAC
Statistics
Matches: 124, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
58 8 0.06
59 61 0.49
60 19 0.15
63 1 0.01
64 17 0.14
65 18 0.15
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (60 bp):
AAAAATTGAAAGTATCAATTTTTCTTCGAAATTAAAATTTTCAAAAAAATATTTTAGGGA
Found at i:20175 original size:181 final size:181
Alignment explanation
Indices: 19925--20438 Score: 476
Period size: 181 Copynumber: 2.8 Consensus size: 181
19915 AGATAGGCCG
* ** ** *
19925 AATTTAAAAAAATGAATATGTTTACTGAACAG-TCAAATAGTTAAAAC--TTTGAAACAATTGTC
1 AATTT-AAAAAATAAATCCGTTTACTGAACAGTTCAAATAGTTATGACTATTTG-AAC-ATTATC
*
19987 TATTTCAAAAATCATTATGACCTTTTGTTTTG-CATAAAACAATTGTTTCTATTCAATACAAGCT
63 TATTTCAAAAATTATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTC-ATACAAGCT
* *
20051 TATTTCAAATAAAATAATATAAATTTATCAATATTCCCAAAGATTAACAAGTAA-A
127 TATTTCAAATAAAATAATATAAATTTATCAAAATTCCCAAA-ATTAACAAATAACA
* *
20106 AATTT-AAACATAAATCCGTTTTCTGAACATGTTCAAATAGTTATGACTATTTGAACATTATCTA
1 AATTTAAAAAATAAATCCGTTTACTGAACA-GTTCAAATAGTTATGACTATTTGAACATTATCTA
* * * *
20170 TTTC--AAATTGTTATGACCTTTTTGTTTTGCCATAAACCAATTGTTTTCTATTCATAAAAGCTT
65 TTTCAAAAATTATTATGACC-TTTTGTTTTGTCATAAAACAATTG-TTTCTATTCATACAAGCTT
* * * *
20233 ATTT-AGAATAAAATAACTCTAATTTTATTAAAATTCCCAAAATTAATAAATAAGCA
128 ATTTCA-AATAAAATAA-TATAAATTTATCAAAATTCCCAAAATTAACAAATAA-CA
* ** * * * *
20289 GATTTAAAAAATAAATTTGTTTAACTTAGCAAGTTCAACA-A-TTATGACTATTTAAATAGTTTA
1 AATTTAAAAAATAAATCCGTTT-ACTGAAC-AGTTCAA-ATAGTTATGACTATTTGAACA--TTA
* * * * *
20352 TTTATTTCAAAAATTAGTATGATCTTTTTGTTTTGTTCATAAAACAAGTGTTTCTATTCACACAA
61 TCTATTTCAAAAATTATTATGA-CCTTTTGTTTTG-TCATAAAACAATTGTTTCTATTCATACAA
**
20417 AATTA-TTCAAAATAAAATAATA
124 GCTTATTTC-AAATAAAATAATA
20439 CTAATTTCTT
Statistics
Matches: 271, Mismatches: 39, Indels: 40
0.77 0.11 0.11
Matches are distributed among these distances:
179 31 0.11
180 12 0.04
181 74 0.27
182 32 0.12
183 9 0.03
184 28 0.10
185 11 0.04
186 12 0.04
187 3 0.01
188 46 0.17
189 13 0.05
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (181 bp):
AATTTAAAAAATAAATCCGTTTACTGAACAGTTCAAATAGTTATGACTATTTGAACATTATCTAT
TTCAAAAATTATTATGACCTTTTGTTTTGTCATAAAACAATTGTTTCTATTCATACAAGCTTATT
TCAAATAAAATAATATAAATTTATCAAAATTCCCAAAATTAACAAATAACA
Found at i:21518 original size:18 final size:18
Alignment explanation
Indices: 21495--21531 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21485 TAATATTAAT
* *
21495 TTATTAATATTTTAAAAA
1 TTATTAAAATATTAAAAA
21513 TTATTAAAATATTAAAAA
1 TTATTAAAATATTAAAAA
21531 T
1 T
21532 ATAAATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTATTAAAATATTAAAAA
Found at i:21799 original size:182 final size:181
Alignment explanation
Indices: 21560--22002 Score: 435
Period size: 182 Copynumber: 2.4 Consensus size: 181
21550 TTAGTTCAAT
* * ** * * *
21560 TAGTTATAAC-ATTTAAACAAATTATTTATTTCATATCTTTATGACCATTTGTTTTGTCATAAAA
1 TAGTTATGACTATTTGAAC-AATTACCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAA
* * * ** **
21624 CAACTATTTCTATT-A-ATGTAGTCTTATTTGGAATAA-AGTAATGCTAATATATTAATATTTTA
65 TAATTATTTCTATTCATATG-A-ACTTATTTAAAATAAGA-TAATGCTAATATATTAATATTCCA
* * * * **
21686 AAAATTAATAAGTAATGGATTTAAAAAAATAAATTTGTTGGCCTGACCAATATAAA
127 AAAATTAATAAATAAGGGA-TTAAAAAAATAAATTTGTTGGACTAAAAAATATAAA
** * * *
21742 TAGTTATGACTATTTGAACAATTGTCTATTTTAAATCATTATGACCTTTTATTTTGTCACAAAAA
1 TAGTTATGACTATTTGAACAATTACCTATTTCAAATCATTATGACCTTTTGTTTTGTCA-TAAAA
* * * *
21807 TAATTGTTTCTGTTCATATGAACTTATTTAAAATAAGATAATTCTAATTTATTAATATTCCAAAA
65 TAATTATTTCTATTCATATGAACTTATTTAAAATAAGATAATGCTAATATATTAATATTCCAAAA
* * ** * *
21872 ATTAATAAATAAGGGATTCAAAAACTAAATTTGTTTTATTAAAAAATTTAAA
130 ATTAATAAATAAGGGATTAAAAAAATAAATTTGTTGGACTAAAAAATATAAA
** ** *
21924 TAGTTATGACTATTTGAACCGTTACCTATTTCAAATCACCATAACCTTTTGTTTTGTCATAAAAT
1 TAGTTATGACTATTTGAACAATTACCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAAT
*
21989 AATTTTTTCTATTC
66 AATTATTTCTATTC
22003 CTGCAAGCTT
Statistics
Matches: 211, Mismatches: 45, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
181 17 0.08
182 118 0.56
183 70 0.33
184 3 0.01
185 3 0.01
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.42
Consensus pattern (181 bp):
TAGTTATGACTATTTGAACAATTACCTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAAAT
AATTATTTCTATTCATATGAACTTATTTAAAATAAGATAATGCTAATATATTAATATTCCAAAAA
TTAATAAATAAGGGATTAAAAAAATAAATTTGTTGGACTAAAAAATATAAA
Found at i:22193 original size:181 final size:180
Alignment explanation
Indices: 21427--22263 Score: 504
Period size: 181 Copynumber: 4.6 Consensus size: 180
21417 AGTGTTATGT
* * * * * *
21427 CTTTTGTTTTGTCCGTAAAACA-AA-TGTTTTTGTTCATATAAGTTTGTTT-AGAATAAAATAAT
1 CTTTTGTTTTGT-CATAAAA-ATAATTGTTTTTATTCATACAAGCTTATTTCA-ATTAAAATAAT
* * * * *
21489 ATTAATTTATTAATATTTTA-AAAATT-AT---TAAAATATTAAAAATATAAAT-TTATTTACCA
63 ACTAATTTATTAATA-TTTAGAAAATTAATAAGTAAAAGATTTAAAA-ATAAATCTGATTTATCA
* * * * * * * *
21548 AATTAGTTCAATTAGTTATAAC-ATTTAAAC-AAATTATTTATTTCATATCTTTATGAC
126 AA-AAATTCAAATAGTTATGACTATTTGAACTATATT-TTT-TTT-AAATCATTATGAC
* * * * * * ** * * *
21605 CATTTGTTTTGTCAT-AAAACAACTATTTCTATTAAT-GTAGTCTTATTTGGAA-TAAAGTAATG
1 CTTTTGTTTTGTCATAAAAATAATTGTTTTTATTCATACAAG-CTTATTT-CAATTAAAATAATA
* ** * ***
21667 CTAATATATTAATATTTTA-AAAATTAATAAGTAATGGATTTAAAAAAATAAATTTG-TTGGCCT
64 CTAATTTATTAATA-TTTAGAAAATTAATAAGTAAAAGATTT--AAAAATAAATCTGATTTATC-
* **
21730 GACCAATAT-AAATAGTTATGACTATTTGAAC-A-ATTGTCTATTTTAAATCATTATGAC
125 AAAAAAT-TCAAATAGTTATGACTATTTGAACTATATT-T-T-TTTTAAATCATTATGAC
* * * * * * * * *
21787 CTTTTATTTTGTCACAAAAATAATTGTTTCTGTTCATATGAA-CTTATTTAAAATAAGATAATTC
1 CTTTTGTTTTGTCATAAAAATAATTGTTTTTATTCATA-CAAGCTTATTTCAATTAAAATAATAC
* * ** * * * *
21851 TAATTTATTAATATTCCA-AAAATTAATAAATAAGGGATTCAAAAACTAAATTTGTTTTATTAAA
65 TAATTTATTAATATT-TAGAAAATTAATAAGTAAAAGATTTAAAAA-TAAATCTGATTTATCAAA
* ** * * ** *
21915 AAATTTAAATAGTTATGACTATTTGAACCGT-TACCTATTTCAAATCACCATAAC
128 AAATTCAAATAGTTATGACTATTTGAA-C-TATATTTTTTTTAAATCATTATGAC
* *
21969 CTTTTGTTTTGTCAT-AAAATAATT-TTTTCTATTCCTGCAAGCTTATTTCAATTAAAATAATAC
1 CTTTTGTTTTGTCATAAAAATAATTGTTTT-TATTCATACAAGCTTATTTCAATTAAAATAATAC
*
22032 AAATTTATT-ATCATTTAGAAAATTAATAAGTAAAAGATTTAAAAATAAATCT-ATTTATCAAAT
65 TAATTTATTAAT-ATTTAGAAAATTAATAAGTAAAAGATTTAAAAATAAATCTGATTTATCAAA-
* **
22095 AAGTTCAAATAGTTATGACTATTTGAACTTATATTTTTTTTAAATTGTTATGAC
128 AAATTCAAATAGTTATGACTATTTGAAC-TATATTTTTTTTAAATCATTATGAC
* * * *
22149 ATTTTGTTTTGTTATAAAAACAATTGTTTTTATTCATACAAGCTTA-TTCAGATTAAAATAATAT
1 CTTTTGTTTTGTCATAAAAATAATTGTTTTTATTCATACAAGCTTATTTCA-ATTAAAATAATAC
* * * *
22213 TAGTTTATTAATATTTTGACAATTAATAAGTAGAAGATTTTAAAAATAAAT
65 TAATTTATTAATATTTAGAAAATTAATAAGTAAAAGA-TTTAAAAATAAAT
22264 ATGTTTACTG
Statistics
Matches: 513, Mismatches: 106, Indels: 76
0.74 0.15 0.11
Matches are distributed among these distances:
175 1 0.00
176 7 0.01
177 47 0.09
178 14 0.03
179 11 0.02
180 70 0.14
181 141 0.27
182 132 0.26
183 85 0.17
184 2 0.00
185 3 0.01
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (180 bp):
CTTTTGTTTTGTCATAAAAATAATTGTTTTTATTCATACAAGCTTATTTCAATTAAAATAATACT
AATTTATTAATATTTAGAAAATTAATAAGTAAAAGATTTAAAAATAAATCTGATTTATCAAAAAA
TTCAAATAGTTATGACTATTTGAACTATATTTTTTTTAAATCATTATGAC
Found at i:22352 original size:181 final size:180
Alignment explanation
Indices: 21980--22355 Score: 404
Period size: 181 Copynumber: 2.1 Consensus size: 180
21970 TTTTGTTTTG
* * *
21980 TCATAAAATAATTTTTTCTATTCCTGCAAGCTTATTTCAATTAAAATAATACAAATTTATTATCA
1 TCATAAAACAATTTTTTCTATTCATACAAGCTTATTTCAATTAAAATAATACAAATTTATTATCA
* * *
22045 TTTAGAAAATTAATAAGTAAAAGATTTAAAAATAAATCTATTTATCAAATAAGTTCAAATAGTTA
66 TTTAGAAAATTAATAAGTAAAAGATTTAAAAATAAATATATTTATCAAACAAGTTCAAATAGTCA
* * * * * * * **
22110 TGACTATTTGAACTTATATTTTTTTTAAATTGTTATGACATTTTGTTTTG
131 TAACTATTTGAAATAATATCTATTTCAAATTGTTATGACATTTTATTTCA
* ** *
22160 TTATAAAAACAATTGTTTT-TATTCATACAAGCTTA-TTCAGATTAAAATAATATTAGTTTATTA
1 TCAT-AAAACAATT-TTTTCTATTCATACAAGCTTATTTCA-ATTAAAATAATACAAATTTATT-
* * * * * *
22223 AT-ATTTTGACAATTAATAAGTAGAAGATTTTAAAAATAAATATGTTTA-CTGAACAAGTTTAAA
62 ATCATTTAGAAAATTAATAAGTAAAAGA-TTTAAAAATAAATATATTTATC-AAACAAGTTCAAA
*
22286 TAGTCATAATTATTT-AAATAATTATCTATTTCAAATTGTTATGATC-TTTTATTTCA
125 TAGTCATAACTATTTGAAATAA-TATCTATTTCAAATTGTTATGA-CATTTTATTTCA
22342 TCATAAAACAATTT
1 TCATAAAACAATTT
22356 ATTAATATTA
Statistics
Matches: 161, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
180 8 0.05
181 77 0.48
182 75 0.47
183 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.44
Consensus pattern (180 bp):
TCATAAAACAATTTTTTCTATTCATACAAGCTTATTTCAATTAAAATAATACAAATTTATTATCA
TTTAGAAAATTAATAAGTAAAAGATTTAAAAATAAATATATTTATCAAACAAGTTCAAATAGTCA
TAACTATTTGAAATAATATCTATTTCAAATTGTTATGACATTTTATTTCA
Found at i:22411 original size:151 final size:151
Alignment explanation
Indices: 22233--22505 Score: 370
Period size: 151 Copynumber: 1.8 Consensus size: 151
22223 ATATTTTGAC
* * *
22233 AATTAATAAGTAGAAGATTTTAAAAATAAATATGTTTACTGAACAAGTTTAAATAGTCATAATTA
1 AATTAATAAGTAGAAGATTTAAAAAATAAATATGTTTACTGAACAAGTTCAAATAGTCATAAGTA
* *
22298 TTTAAAT-AATTATCTATTTCAAATTGTTATGATCTTTTATTTCATCATAAAACAATTTATTAAT
66 TTT-AATCAATTATCTATGTCAAATGGTTATGATCTTTTATTTCATCATAAAACAATTTATTAAT
22362 ATTATTTTATCAACATTCCAAA
130 ATTATTTTATCAACATTCCAAA
* ** *
22384 AATTAATAAGTA-AATGATTTAAAAAATAAATCTGTTTACTGAGTAAGTTCAAATAGTTATAAGT
1 AATTAATAAGTAGAA-GATTTAAAAAATAAATATGTTTACTGAACAAGTTCAAATAGTCATAAGT
* * * * ** *
22448 GTTTGATCAATTATTTATGTCAAATGGTTATGATCTTTTGTTTTGTCATAAAGCAATT
65 ATTTAATCAATTATCTATGTCAAATGGTTATGATCTTTTATTTCATCATAAAACAATT
22506 GTTTCTATTC
Statistics
Matches: 104, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
150 4 0.04
151 100 0.96
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.42
Consensus pattern (151 bp):
AATTAATAAGTAGAAGATTTAAAAAATAAATATGTTTACTGAACAAGTTCAAATAGTCATAAGTA
TTTAATCAATTATCTATGTCAAATGGTTATGATCTTTTATTTCATCATAAAACAATTTATTAATA
TTATTTTATCAACATTCCAAA
Found at i:22736 original size:180 final size:174
Alignment explanation
Indices: 22358--23000 Score: 540
Period size: 180 Copynumber: 3.6 Consensus size: 174
22348 AACAATTTAT
* * * * * *
22358 TAATATTATTTTATCAACATTCCAAAAATTAATAAGTAAATGATTTAAAAAATAAATCTGTTTAC
1 TAATATTAATTTATTAATATT-TAAAAATTAAT-AGTAGA-GATTTAAAAAATAAATCTATTTAC
** * * * *
22423 TGAGTAAGTTCAAATAGTTATAAGTGT-TTGATCAATTATTTATGTCAAATGGTTATGATCTTTT
63 -GAACAAGTTCAAATAGTTAT--GTCTATTGAACAATTA-TTATTTCAAATCGTTATGATC-TTT
* ** * *
22487 GTTTTGTCATAAAGCAATTGTTTCTATTCACACAAGTTTATTCAGAATAAAA
123 ATTTTGTCATAAAGCAATTGTTTCTATTCATGCAAGATTATTCAAAATAAAA
* * *
22539 AAATATTAATTTATTAATATTCTAAAAATTAATAGGTAGGAAATTTAAAAAATAAATCTACTTAT
1 TAATATTAATTTATTAATATT-TAAAAATTAATA-GTA-GAGATTTAAAAAATAAATCTATTTA-
* * * *
22604 CGAACAAGTTCAAATAGTCATGTCTATTGAACAATTGTCTATTTCAAATTGTTATGACCTTCTAT
62 CGAACAAGTTCAAATAGTTATGTCTATTGAACAATTAT-TATTTCAAATCGTTATGATCTT-TAT
* * *
22669 TTTGTCATAAAACAATTGTTTCTGTTCATGCAAAATTATTCAAAATAAAA
125 TTTGTCATAAAGCAATTGTTTCTATTCATGCAAGATTATTCAAAATAAAA
* ** * * * * * *
22719 TAATATTGACCTATTAATAATTGAAAATTAATA--AGAGATTTGAAAACTAAATTTATTTACTAA
1 TAATATTAATTTATTAATATTTAAAAATTAATAGTAGAGATTTAAAAAATAAATCTATTTACGAA
* ** * * *
22782 CACAGTTGAAATAGTTATAACAATTTGAATAATTATTATCTT-AAATCATTATGATCTTTA-TTT
66 CA-AGTTCAAATAGTTATGTCTA-TTGAACAATTATTAT-TTCAAATCGTTATGATCTTTATTTT
* * * *
22845 GTCATAAAGCAATTGTTTCTTTTCATGCAAGCTTAATCAAATTAAAA
128 GTCATAAAGCAATTGTTTCTATTCATGCAAGATTATTCAAAATAAAA
** * * * *
22892 TAATACAAATTTAATAATATTTCAAAAATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGT
1 TAATATTAATTTATTAATATTT-AAAAATTAAT-AGT-AGAGATTTAAAAAATAAATCTATTT-A
* * * *
22957 CGAACCAGTTCAAATAGTTAAGACTATTTAAACAATTAATTATT
62 CGAACAAGTTCAAATAGTTATGTCTA-TTGAACAATT-ATTATT
23001 CGTTTTGTCA
Statistics
Matches: 371, Mismatches: 75, Indels: 35
0.77 0.16 0.07
Matches are distributed among these distances:
173 59 0.16
174 16 0.04
175 52 0.14
176 13 0.04
178 47 0.13
179 26 0.07
180 88 0.24
181 68 0.18
182 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.09, T:0.39
Consensus pattern (174 bp):
TAATATTAATTTATTAATATTTAAAAATTAATAGTAGAGATTTAAAAAATAAATCTATTTACGAA
CAAGTTCAAATAGTTATGTCTATTGAACAATTATTATTTCAAATCGTTATGATCTTTATTTTGTC
ATAAAGCAATTGTTTCTATTCATGCAAGATTATTCAAAATAAAA
Found at i:23022 original size:162 final size:158
Alignment explanation
Indices: 22842--23142 Score: 383
Period size: 158 Copynumber: 1.9 Consensus size: 158
22832 ATGATCTTTA
* ** * *
22842 TTTGTCATAAAGCAATTGTTTCTTTTCATGCAAGCTTAATCAAATTAAAATAAT-ACAAATTTAA
1 TTTGTCATAAACCAATTGTTTCTGGTCATACAAGCATAATCAAA--AAAATAATGAC-AATTTAA
22906 TAA-TATTTCAAA-AATTAATAAGTAAGAGATTTAAAAAATAAATGTGTTTGTCGAACCAGTTCA
63 TAAGTA---CAAATAATT-ATAAGTAAGAGATTTAAAAAATAAATGTGTTTGTCGAACCAGTTCA
22969 AATAGTTAAGACTATTTAAACAATTAATTATTCGT
124 AATAGTTAAGACTATTTAAACAATTAATTATTCGT
* * * * * * ** *
23004 TTTGTCATAGACCAATTGTTTCTGGTCATACATGCATATTCAAAATAGTTATGACCTTTTGATAA
1 TTTGTCATAAACCAATTGTTTCTGGTCATACAAGCATAATCAAAAAAATAATGACAATTTAATAA
*
23069 GTACAAATAATTATAAGTAAGAGATTTAAAAAATAAATGTGTTTGTCGAACCATTTCAAATAGTT
66 GTACAAATAATTATAAGTAAGAGATTTAAAAAATAAATGTGTTTGTCGAACCAGTTCAAATAGTT
23134 AAGACTATT
131 AAGACTATT
23143 AGAATAATTA
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
158 65 0.54
159 4 0.03
160 12 0.10
161 4 0.03
162 36 0.30
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (158 bp):
TTTGTCATAAACCAATTGTTTCTGGTCATACAAGCATAATCAAAAAAATAATGACAATTTAATAA
GTACAAATAATTATAAGTAAGAGATTTAAAAAATAAATGTGTTTGTCGAACCAGTTCAAATAGTT
AAGACTATTTAAACAATTAATTATTCGT
Found at i:23496 original size:186 final size:179
Alignment explanation
Indices: 23072--23501 Score: 433
Period size: 186 Copynumber: 2.3 Consensus size: 179
23062 TTGATAAGTA
* * * *
23072 CAAATAATT-ATAAGTAAGAGATTTAAAAAATAAATGTGTTTGTCGAACCATTTCAAATAGTTAA
1 CAAA-AATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTATTGAA-CAATTCAAATAGTTAA
* *
23136 GACTATTAGAATAATTATCTGTTTCAAATTGTTATAATCTTTGTTTAGTCATAAAAAATTTATTT
64 GACTATTAGAAGAATGATCTGTTTCAAATTGTTATAATCTTTGTTTAGTCATAAAAAATTTATTT
* * * *
23201 CAATTCATACGAGCTTAATTTAAAATAAAATAATACTAATTTATTAACATT
129 CAATTCATAAGAACTTAATTCAAAATAAAATAATACTAATTTACTAACATT
* * * *
23252 CAAAAATTAATAAGCATGAGATTTAAGAAAATAAATCTATTTACTGAACAAGTTCAAATAGATT-
1 CAAAAATTAATAAGTAAGAGATTTAA-AAAATAAATCTGTTTATTGAACAA-TTCAAATAG-TTA
* * * *
23316 GGACTATTTGAAGAATAGATCTGACTATTTAAAGTTGTTATGA-CATTTGTTTTA-TCATAAAAC
63 AGACTATTAGAAGAAT-GATCTG--T-TTCAAA-TTGTTATAATC-TTTG-TTTAGTCATAAAA-
* * *
23379 AA-TTGTTTCAATTCATAAGAAACTT-ATTCAAAATAAAATAATACTACTTTACTAATAGTT
120 AATTTATTTCAATTCATAAG-AACTTAATTCAAAATAAAATAATACTAATTTACTAACA-TT
** * *
23439 TGAAAATTAATAAGTAAGAGATTTAAAAACTAAAAT-TGTTTTTTGAACTAATTCAAATAGTTA
1 CAAAAATTAATAAGTAAGAGATTTAAAAAAT-AAATCTGTTTATTGAAC-AATTCAAATAGTTA
23502 TAACTATATG
Statistics
Matches: 204, Mismatches: 29, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
179 4 0.02
180 21 0.10
181 38 0.19
182 7 0.03
184 1 0.00
185 8 0.04
186 85 0.42
187 40 0.20
ACGTcount: A:0.44, C:0.09, G:0.10, T:0.37
Consensus pattern (179 bp):
CAAAAATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTATTGAACAATTCAAATAGTTAAGA
CTATTAGAAGAATGATCTGTTTCAAATTGTTATAATCTTTGTTTAGTCATAAAAAATTTATTTCA
ATTCATAAGAACTTAATTCAAAATAAAATAATACTAATTTACTAACATT
Found at i:24343 original size:180 final size:180
Alignment explanation
Indices: 23077--24344 Score: 859
Period size: 180 Copynumber: 7.0 Consensus size: 180
23067 AAGTACAAAT
* * *
23077 AATT-ATAAGTAAGAGATTTAAAAAATAAATGTGTTT-GTCGAACCATTTCAAATAGTTAAGACT
1 AATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACT-GAACCAGTTCAAATAGTTAAGACT
* * ** * *
23140 ATTAGAATAATTATCTGTTTCAAATTGTTATAATC-TTTGTTTAGTCATAAAA-AATT-TATTTC
65 ATTAGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTCATAAAACAATTGT-TTT-
* * * * * *
23202 AATTCATACGAGCTTAATTTAAAATAAAATAATACTAATTTATTAACATTCAAA
128 AGTTCATACAAGCTT-ATTCAGAATAAAATAATACTAATTTATTAATATTTAAA
* * * * *
23256 AATTAATAAGCATGAGATTTAAGAAAATAAATCTATTTACTGAACAAGTTCAAATAGATT-GGAC
1 AATTAATAAGTAAGAGATTTAA-AAAATAAATCTGTTTACTGAACCAGTTCAAATAG-TTAAGAC
* * * * ** *
23320 TATTTGAAGAATAGATCTGACTATTTAAAGTTGTTATGA-CATTTGTTTTA-TCATAAAACAATT
64 TATTAGAACAAT-TATCT-A-T-TTCAAA-TCATTATGACCTTTTG-TTTAGTCATAAAACAATT
* * * * * * * *
23383 GTTTCAATTCATAAGAAACTTATTCAAAATAAAATAATACTACTTTACTAATAGTTTGAA
123 GTTTTAGTTCAT-ACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATA-TTTAAA
* ** * *
23443 AATTAATAAGTAAGAGATTTAAAAACTAAAAT-TGTTTTTTGAACTAATTCAAATAGTTATA-AC
1 AATTAATAAGTAAGAGATTTAAAAAAT-AAATCTGTTTACTGAACCAGTTCAAATAGTTA-AGAC
* * * * * ** * * * *
23506 TA-TATGAACAAATGTCAACCTT-AAATCATTATGATC-TTTGTTTTCTCGTATAATATTTGTTT
64 TATTA-GAACAATTATCTA-TTTCAAATCATTATGACCTTTTGTTTAGTCATAAAACAATTGTTT
* * *
23568 CAGTTCATATAAG-TATATTC-GAAATAAAATAA-AATAAATTTATTAATATTTCAAA
127 TAGTTCATACAAGCT-TATTCAG-AATAAAATAATACT-AATTTATTAATATTT-AAA
* * * * * * *
23623 AATT-ATAA-TTAGAGATTTTAGAAAATAATTTTATTTACT-AGACCAGTGCAAATAATTATA-A
1 AATTAATAAGTAAGAGA-TTTAAAAAATAAATCTGTTTACTGA-ACCAGTTCAAATAGTTA-AGA
* * * ** *
23684 CTATT-TAACAATT-CCTATTTCAAATCATTATTATTTTTTGTTT-TTCATAAAACAATTGTTTT
63 CTATTAGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTCATAAAACAATTGTTTT
* * * * * * *
23746 TGTTAATATAAGTTTGTTCAAAATAGAATAATACTAATTTATTAATATTTAGAA
128 AGTTCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTTA-AA
* * * * * **
23800 AATTAATCAA-TAAGAGATTTAAAAAGTGAATCTGTTTTACTAAACCAATTTTTAAATAGTTTTG
1 AATTAAT-AAGTAAGAGATTTAAAAAATAAATCTG-TTTACTGAACC-A-GTTCAAATAGTTAAG
* * * * * *
23864 ACTATTTA-AATAATTATCTATTTCAAAATCATTATAACCTTTTATTTTGTCATCAAACAATTGG
62 ACTA-TTAGAACAATTATCTATTTC-AAATCATTATGACCTTTTGTTTAGTCATAAAACAATTGT
* ** * * * *
23928 TTT-GTTCATACTATTTTATT-TGAATAAAATAATAATAATTTAATAATATTCAAA
125 TTTAGTTCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTTAAA
** * * ** * *
23982 AATTTAATAACCAAGAAAATTAAAAAATAAATCTAATTACTGAATCAGTTCAAATAATTAAGAC-
1 AA-TTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACTGAACCAGTTCAAATAGTTAAGACT
** * * * * * *
24046 AACATGAACGATTTTCTATTTCAAATCATTATGACCTTTTCTTTTGTCATAAAAGAATT-TTTTT
65 ATTA-GAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTCATAAAACAATTGTTTTA
** * * * *
24110 GTTTGTACAAGCTTATTCTGATTAAAATAATACCAATTTAATAATATTTTAAA
129 GTTCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATA-TTTAAA
* *
24163 AATTAATAAGTAAGAGATTTAAAAAATAAATTTGTTTACCT-AATCAGTTCAAATAGTTAAGACT
1 AATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTA-CTGAACCAGTTCAAATAGTTAAGACT
* * * *
24227 ATTAGAATAATTATCTATATGAAATCATTTTGACCTTTTGTTTAGTCATAAAACAATTGTTTTAG
65 ATTAGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTCATAAAACAATTGTTTTAG
* * * * *
24292 TTCGTACAAGCTTATTCAGAATAAATTATTTCTAATTTATTAACATTTAAA
130 TTCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTTAAA
24343 AA
1 AA
24345 AATAAATGTA
Statistics
Matches: 852, Mismatches: 180, Indels: 113
0.74 0.16 0.10
Matches are distributed among these distances:
176 3 0.00
177 71 0.08
178 43 0.05
179 109 0.13
180 208 0.24
181 136 0.16
182 33 0.04
183 58 0.07
184 33 0.04
185 27 0.03
186 87 0.10
187 43 0.05
188 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.40
Consensus pattern (180 bp):
AATTAATAAGTAAGAGATTTAAAAAATAAATCTGTTTACTGAACCAGTTCAAATAGTTAAGACTA
TTAGAACAATTATCTATTTCAAATCATTATGACCTTTTGTTTAGTCATAAAACAATTGTTTTAGT
TCATACAAGCTTATTCAGAATAAAATAATACTAATTTATTAATATTTAAA
Found at i:24402 original size:158 final size:157
Alignment explanation
Indices: 24179--24504 Score: 379
Period size: 158 Copynumber: 2.1 Consensus size: 157
24169 TAAGTAAGAG
* * * * *
24179 ATTTAAAAAATAAATTTGTTTACCTAATCAGTTCAAATAGTTAAGACTATTAGAATAATTATCTA
1 ATTTAAAAAATAAATGTATTTACCTAATAAGTTCAAATAATTAAGACTATTAGAACAATTATCTA
* * * * ** *
24244 TATGAAATCATTTTGACCTTTTG-TTTAGTCATAAAACAATTGTTTTAGTTCGTACAAGCTTA-T
66 TATAAAATCATTGTAACATTTTGATTT-GTCATAAAACAATTGTTTTAGTTAATACAAGCTTAGA
* * *
24307 TCAGAATAAATTATTTCTAATTTATTAAC
130 T-AGAATAAAATAATACTAATTTATTAAC
** * * *
24336 ATTTAAAAAAATAAATGTATTTA-CTGAATAAGTTCAAATAATTATTATTATTTGAACAATTCTC
1 ATTT-AAAAAATAAATGTATTTACCT-AATAAGTTCAAATAATTAAGACTATTAGAACAATTATC
*
24400 TATTTAAAATCATTGTAACATTTTGATTTGTCATAAAACAATTGTTTTAGTTAATACAAGCTTAG
64 TATATAAAATCATTGTAACATTTTGATTTGTCATAAAACAATTGTTTTAGTTAATACAAGCTTAG
* *
24465 ATGGAATAAAATAATACTAATTTATTAAT
129 ATAGAATAAAATAATACTAATTTATTAAC
*
24494 ATTTCAAAAAT
1 ATTTAAAAAAT
24505 TAATAAGAGA
Statistics
Matches: 141, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
157 12 0.09
158 125 0.89
159 4 0.03
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (157 bp):
ATTTAAAAAATAAATGTATTTACCTAATAAGTTCAAATAATTAAGACTATTAGAACAATTATCTA
TATAAAATCATTGTAACATTTTGATTTGTCATAAAACAATTGTTTTAGTTAATACAAGCTTAGAT
AGAATAAAATAATACTAATTTATTAAC
Found at i:24745 original size:515 final size:517
Alignment explanation
Indices: 23866--24862 Score: 1144
Period size: 515 Copynumber: 1.9 Consensus size: 517
23856 TAGTTTTGAC
* * *
23866 TATTTAAATAATTATCTATTTCAAAATCATTATAACCTTTTATTTTGTCATCAAACAATTGGTTT
1 TATTTAAACAATTATCTATTTCAAAATCATTATAACATTTTATTTTGTCATAAAACAATTGGTTT
* * ** * *
23931 GTTCATACTATTTTATTTGAATAAAATAATAATAATTTAATAATATTCAAAAATTTAATAACCAA
66 GTTAATACAAGCTTAATGGAATAAAATAATAATAATTTAATAATATTCAAAAATTTAAT-A--AA
** * *
23996 GAAAATTAAAAAATAAATCTAATTACTGAATCAGTTCAAATAATTAAGACAACATGAACGATTTT
128 GAAAATTAAAAAATAAATCTAATTACCAAATCAGTTCAAATAATTAAGACAACATGAACAATTAT
* * * * **
24061 CTATTTCAAATCATTATGACCTTTTCTTTTGTCATAAAAGAATTTTTTTGTTTGTACAAGCTTAT
193 CAATCTCAAATCATTATGACCTTTTCTTTTGTCATAAAAGAATTTTTATGATCATACAAGCTTAT
* * **
24126 TCTGATTAAAATAATACCAATTTAATAATATTTTAAAAATTAATAAGTAAGAGATTTAAAAAATA
258 TCAGATTAAAATAATACAAATTTAATAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAATA
** * * * *
24191 AATTTGTTTACCTAATCAGTTCAAATAGTTAAGACTATTAGAAT-AATTATCTATATGAAATCAT
323 AATGCGTTTACCTAACCAATTCAAATAGTTAAAACTATTAGAATAAATTATCTATATCAAATCAT
*
24255 TTTGACCTTTTGTT-TAGTCATAAAACAATTGTTTT-AGT-TCGTACAAGCTTATTCAGAATAAA
388 TCTGACCTTTT-TTGTAGTCATAAAACAATTGTTTTCA-TATCGTACAAGCTTATTCAGAATAAA
* * * *
24317 TTATTTCTAA-TTTATTAACATTTAAAAAAATAAATGTATTTACTGAATAAGTTCAAATAATTAT
451 ATA-ATCCAATTTTATTAACATTCAAAAAAATAAATGTATTTACTGAATAAGTTCAAATAATTAT
24381 TAT
515 TAT
* * * *
24384 TATTTGAACAATTCTCTATTT-AAAATCATTGTAACATTTTGA-TTTGTCATAAAACAATTGTTT
1 TATTTAAACAATTATCTATTTCAAAATCATTATAACATTTT-ATTTTGTCATAAAACAATTGGTT
* *
24447 TAGTTAATACAAGCTTAGATGGAATAAAATAATACTAATTTATTAATATTTCAAAAA-TTAAT-A
65 T-GTTAATACAAGCTTA-ATGGAATAAAATAATAATAATTTAATAATA-TTCAAAAATTTAATAA
* * ** * * * * **
24510 AGAGATTTAAAAAATAAATCTGTTTACCAAA-CTAGTTTAAATAGTTATGACTATTTGAACAATT
127 AGAAAATTAAAAAATAAATCTAATTACCAAATC-AGTTCAAATAATTAAGACAACATGAACAATT
* * * *
24574 ATCAATCTCAAATCATTAAT-ATC-TTTGTTTTGTCATAAAATAATTATTTATGATCATAGAATG
191 ATCAATCTCAAATCATT-ATGACCTTTTCTTTTGTCATAAAAGAATT-TTTATGATCATACAA-G
24637 -TTATTCAG-TTGAAAATAATACAAATTTAATAATATTCCAAAAATTAATAAGTAA-AGATTTAA
253 CTTATTCAGATT-AAAATAATACAAATTTAATAATATTCCAAAAATTAATAAGTAAGAGATTTAA
* ** * *
24699 AATATAAATGCGTTT-GTTAAACCAATTCAAATAGTTAAAAACTATTAGAGTAAATTATCTATTT
317 AAAATAAATGCGTTTACCT-AACCAATTCAAATAGTT-AAAACTATTAGAATAAATTATCTATAT
** * * * *
24763 CAAATTGTTCTGACCTTTTTTGTAGTCATAAAATATTTGTTTTCATATCTTATAAGCTTATTCAG
380 CAAATCATTCTGACCTTTTTTGTAGTCATAAAACAATTGTTTTCATATCGTACAAGCTTATTCAG
24828 AATAAAATAATCCAATTTTATTAACATTCAAAAAA
445 AATAAAATAATCCAATTTTATTAACATTCAAAAAA
24863 TTAACAAGCA
Statistics
Matches: 398, Mismatches: 65, Indels: 33
0.80 0.13 0.07
Matches are distributed among these distances:
513 1 0.00
514 58 0.15
515 137 0.34
516 53 0.13
517 80 0.20
518 30 0.08
519 31 0.08
520 8 0.02
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (517 bp):
TATTTAAACAATTATCTATTTCAAAATCATTATAACATTTTATTTTGTCATAAAACAATTGGTTT
GTTAATACAAGCTTAATGGAATAAAATAATAATAATTTAATAATATTCAAAAATTTAATAAAGAA
AATTAAAAAATAAATCTAATTACCAAATCAGTTCAAATAATTAAGACAACATGAACAATTATCAA
TCTCAAATCATTATGACCTTTTCTTTTGTCATAAAAGAATTTTTATGATCATACAAGCTTATTCA
GATTAAAATAATACAAATTTAATAATATTCCAAAAATTAATAAGTAAGAGATTTAAAAAATAAAT
GCGTTTACCTAACCAATTCAAATAGTTAAAACTATTAGAATAAATTATCTATATCAAATCATTCT
GACCTTTTTTGTAGTCATAAAACAATTGTTTTCATATCGTACAAGCTTATTCAGAATAAAATAAT
CCAATTTTATTAACATTCAAAAAAATAAATGTATTTACTGAATAAGTTCAAATAATTATTAT
Found at i:25143 original size:176 final size:176
Alignment explanation
Indices: 24908--25227 Score: 403
Period size: 176 Copynumber: 1.8 Consensus size: 176
24898 ACTAAGCAAG
** * * * * *
24908 TTCAAATAGTTATGACTATTTGAACAATTATTTATTTAAATCATTATGACCTTTTGTTTTGACAT
1 TTCAAATAGTTACAACTATTTGAACAAATATCTATTAAAATCATTATGACCTGTTGTTTTGACAC
* * * *
24973 AAAACAATTGTTTCAGTTTATAAAAGG-TTATCCAAAAT-AAAATAATACTAATTTCTTAACATT
66 AAAACAATTGTTTAAGTTCAT-AAAGGCTTATCCAAAATAAAAATAATACCAATTTATTAACA-T
25036 TCAAAAAATTAATAAGGGTAAAAAAAGATAAAATTTTTACCGAACAAA
129 TCAAAAAATTAATAAGGGTAAAAAAAGATAAAATTTTTACCGAACAAA
* * * **
25084 TTCAAATAGTTACAATTATTTGAACAAATGTCTATTGAAAATCGTT-TGACCTGTTGTTTTGTTA
1 TTCAAATAGTTACAACTATTTGAACAAATATCTATT-AAAATCATTATGACCTGTTGTTTTGACA
* * * * *
25148 CAAAACAATTGTTTAAGTTCATATAGGCTTATTCAAAGTAAAAATGATACCAATTTATTAATATT
65 CAAAACAATTGTTTAAGTTCATAAAGGCTTATCCAAAATAAAAATAATACCAATTTATTAACATT
25213 CAAAAAATTAATAAG
130 CAAAAAATTAATAAG
25228 TGATTTAAAA
Statistics
Matches: 120, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
175 4 0.03
176 90 0.75
177 26 0.22
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (176 bp):
TTCAAATAGTTACAACTATTTGAACAAATATCTATTAAAATCATTATGACCTGTTGTTTTGACAC
AAAACAATTGTTTAAGTTCATAAAGGCTTATCCAAAATAAAAATAATACCAATTTATTAACATTC
AAAAAATTAATAAGGGTAAAAAAAGATAAAATTTTTACCGAACAAA
Done.