Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2106
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: 43588
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Found at i:4184 original size:1 final size:1
Alignment explanation
Indices: 4178--4206 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
4168 CTCCAGACTC
4178 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4207 ACGGATCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4268 original size:13 final size:13
Alignment explanation
Indices: 4250--4302 Score: 63
Period size: 12 Copynumber: 4.0 Consensus size: 13
4240 AACCGTATGC
4250 AATTTTTTTTTTT
1 AATTTTTTTTTTT
*
4263 AA-TTTTTTTTTC
1 AATTTTTTTTTTT
*
4275 AATTTTTTTTTTCG
1 AATTTTTTTTTT-T
4289 AACTTTTTTTTTTT
1 AA-TTTTTTTTTTT
4303 TTACGCACCT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
12 11 0.32
13 11 0.32
14 2 0.06
15 10 0.29
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (13 bp):
AATTTTTTTTTTT
Found at i:4277 original size:25 final size:27
Alignment explanation
Indices: 4249--4300 Score: 81
Period size: 25 Copynumber: 2.0 Consensus size: 27
4239 AAACCGTATG
*
4249 CAATTTTTTTTTT-TAA-TTTTTTTTT
1 CAATTTTTTTTTTCGAACTTTTTTTTT
4274 CAATTTTTTTTTTCGAACTTTTTTTTT
1 CAATTTTTTTTTTCGAACTTTTTTTTT
4301 TTTTACGCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 13 0.54
26 2 0.08
27 9 0.38
ACGTcount: A:0.15, C:0.08, G:0.02, T:0.75
Consensus pattern (27 bp):
CAATTTTTTTTTTCGAACTTTTTTTTT
Found at i:4621 original size:24 final size:23
Alignment explanation
Indices: 4567--4644 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 23
4557 GGATAATTAA
**
4567 GAAATGGTATTTGGTTTTGGTAC
1 GAAATGGTATTTGGAATTGGTAC
***
4590 GTTTTGGTATTTGGGAATTGGTAC
1 GAAATGGTATTT-GGAATTGGTAC
*
4614 GAAATGGTA--TGGAATTGGTAT
1 GAAATGGTATTTGGAATTGGTAC
*
4635 GAAATAGTAT
1 GAAATGGTAT
4645 GGTATTTGGT
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 18 0.42
22 1 0.02
23 9 0.21
24 15 0.35
ACGTcount: A:0.27, C:0.03, G:0.31, T:0.40
Consensus pattern (23 bp):
GAAATGGTATTTGGAATTGGTAC
Found at i:4629 original size:21 final size:21
Alignment explanation
Indices: 4603--4669 Score: 80
Period size: 21 Copynumber: 3.1 Consensus size: 21
4593 TTGGTATTTG
4603 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
4624 GGAATTGGTATGAAATAGTAT
1 GGAATTGGTACGAAATGGTAT
* *
4645 GGTATTTGGTACGAATTGGTTAT
1 GG-AATTGGTACGAAATGG-TAT
4668 GG
1 GG
4670 TTCAAAGAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 21 0.55
22 12 0.32
23 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.34
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:13438 original size:11 final size:11
Alignment explanation
Indices: 13422--13469 Score: 69
Period size: 12 Copynumber: 4.2 Consensus size: 11
13412 AAAGCAAACC
13422 AATTTTTTTTG
1 AATTTTTTTTG
13433 AATTTTTTTTTG
1 AA-TTTTTTTTG
*
13445 AATTTTTTTTCA
1 AATTTTTTTT-G
13457 AATTTTTTTTG
1 AATTTTTTTTG
13468 AA
1 AA
13470 GAAACTACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
11 12 0.36
12 21 0.64
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (11 bp):
AATTTTTTTTG
Found at i:13452 original size:23 final size:23
Alignment explanation
Indices: 13422--13469 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
13412 AAAGCAAACC
* *
13422 AATTTTTTTTGAATTTTTTTTTG
1 AATTTTTTTTCAAATTTTTTTTG
13445 AATTTTTTTTCAAATTTTTTTTG
1 AATTTTTTTTCAAATTTTTTTTG
13468 AA
1 AA
13470 GAAACTACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (23 bp):
AATTTTTTTTCAAATTTTTTTTG
Found at i:14505 original size:21 final size:23
Alignment explanation
Indices: 14460--14506 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
14450 TCACCTGCAA
* *
14460 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
14483 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
14504 TAA
1 TAA
14507 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:15584 original size:18 final size:18
Alignment explanation
Indices: 15563--15618 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 18
15553 TTTCTCTCAC
15563 TTTTTCGATTTCTTTTTT
1 TTTTTCGATTTCTTTTTT
*
15581 TTTTTCGTTTTCTTTTTGTT
1 TTTTTCGATTTC-TTTT-TT
*
15601 TTCTTTCAATTTCTTTTT
1 TT-TTTCGATTTCTTTTT
15619 CAATCTCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 11 0.34
19 5 0.16
20 8 0.25
21 8 0.25
ACGTcount: A:0.05, C:0.12, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTTTCGATTTCTTTTTT
Found at i:16757 original size:9 final size:10
Alignment explanation
Indices: 16729--16756 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
16719 TTTCAATCAA
16729 ATTTTTTTTG
1 ATTTTTTTTG
16739 ATTTTTTTTG
1 ATTTTTTTTG
16749 ATTTTTTT
1 ATTTTTTT
16757 GTTACTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.07, T:0.82
Consensus pattern (10 bp):
ATTTTTTTTG
Found at i:18354 original size:20 final size:19
Alignment explanation
Indices: 18331--18395 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
18321 AAGCTCAAAC
18331 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
18351 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
18371 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
18391 GAGCT
1 GAGCT
18396 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:20209 original size:33 final size:33
Alignment explanation
Indices: 20171--20233 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
20161 GATTACTCAC
20171 TTCACTCG-TTTCTTTT-ACAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
20204 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
20234 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.27, G:0.06, T:0.54
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:20260 original size:21 final size:21
Alignment explanation
Indices: 20231--20286 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
20221 CAAGCTCTCT
*
20231 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
20252 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
20273 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
20287 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:20279 original size:14 final size:14
Alignment explanation
Indices: 20230--20286 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
20220 TCAAGCTCTC
20230 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
20243 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
20257 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
20271 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
20285 TT
1 TT
20287 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:20346 original size:18 final size:18
Alignment explanation
Indices: 20248--20351 Score: 84
Period size: 18 Copynumber: 5.6 Consensus size: 18
20238 TCTTTTTTCG
20248 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
* *
20267 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCATTTT
* **
20287 CTCTCACTTTTTCGA-TTT
1 CTTTTTCTTTTTC-ATTTT
* *
20305 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
20323 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
20341 CTTTTTGTTTT
1 CTTTTTCTTTT
20352 CTTTCAATTT
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
17 1 0.02
18 46 0.70
19 3 0.05
20 8 0.12
21 8 0.12
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:20368 original size:6 final size:6
Alignment explanation
Indices: 20248--20355 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
20238 TCTTTTTTCG
* * * **
20248 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
20299 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
20347 -GTTTT CTTT
1 CTTTTT CTTT
20356 CAATTTCTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
5 4 0.05
6 58 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:21395 original size:28 final size:26
Alignment explanation
Indices: 21364--21444 Score: 81
Period size: 29 Copynumber: 2.9 Consensus size: 26
21354 GCAAGACTTT
*
21364 TCACTTTTTTTTAACTTGATTTTTTTGC
1 TCACTTTTTTTTCACTT--TTTTTTTGC
**
21392 TCACCTTTTTTTTCTTTTCTTTTTTTTGC
1 TCA-CTTTTTTTTC-ACT-TTTTTTTTGC
*
21421 TCAATTTTTTTTCACTTTTTTTTT
1 TCACTTTTTTTTCACTTTTTTTTT
21445 AATTTTTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
26 8 0.18
27 1 0.02
28 12 0.27
29 21 0.48
30 1 0.02
31 1 0.02
ACGTcount: A:0.10, C:0.16, G:0.04, T:0.70
Consensus pattern (26 bp):
TCACTTTTTTTTCACTTTTTTTTTGC
Found at i:21439 original size:11 final size:11
Alignment explanation
Indices: 21421--21466 Score: 56
Period size: 12 Copynumber: 4.0 Consensus size: 11
21411 TTTTTTTTGC
21421 TCAATTTTTTT
1 TCAATTTTTTT
*
21432 TCACTTTTTTT
1 TCAATTTTTTT
*
21443 TTAATTTTTTTT
1 TCAA-TTTTTTT
21455 TCTAATTTTTTT
1 TC-AATTTTTTT
21467 GATTTTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 12 0.41
12 15 0.52
13 2 0.07
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (11 bp):
TCAATTTTTTT
Found at i:21476 original size:13 final size:13
Alignment explanation
Indices: 21397--21466 Score: 58
Period size: 14 Copynumber: 5.5 Consensus size: 13
21387 TTTGCTCACC
**
21397 TTTTTTTTCTTTT
1 TTTTTTTTCTAAT
21410 CTTTTTTTTGCTCAA-
1 -TTTTTTTT-CT-AAT
*
21425 TTTTTTTTC--AC
1 TTTTTTTTCTAAT
21436 TTTTTTTT-TAAT
1 TTTTTTTTCTAAT
21448 TTTTTTTTCTAAT
1 TTTTTTTTCTAAT
21461 TTTTTT
1 TTTTTT
21467 GATTTTTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
10 1 0.02
11 8 0.17
12 9 0.19
13 11 0.23
14 16 0.34
15 2 0.04
ACGTcount: A:0.10, C:0.10, G:0.01, T:0.79
Consensus pattern (13 bp):
TTTTTTTTCTAAT
Found at i:23085 original size:20 final size:19
Alignment explanation
Indices: 23062--23126 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
23052 AAGCTCAAAC
23062 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
23082 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
23102 AAGCTCATGTGAGCTAAATC
1 GAGCTAAAGT-AGCTAAATT
23122 GAGCT
1 GAGCT
23127 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:26214 original size:14 final size:14
Alignment explanation
Indices: 26175--26222 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
26165 GTACGAATGG
*
26175 AATGGTAGGAACGA
1 AATGGTAGGAACAA
26189 AA-GCGTAGGAACAA
1 AATG-GTAGGAACAA
*
26203 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
26217 ATTGGT
1 AATGGT
26223 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 1 0.03
14 27 0.93
15 1 0.03
ACGTcount: A:0.44, C:0.08, G:0.29, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:34779 original size:15 final size:15
Alignment explanation
Indices: 34757--34821 Score: 96
Period size: 15 Copynumber: 4.4 Consensus size: 15
34747 GTATCTTAGG
34757 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
34772 TATCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
34787 TTTCTTTATTCCGGA
1 TTTCTTTATTCTGGA
*
34802 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
34816 TTTCTT
1 TTTCTT
34822 GTTATCTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
14 8 0.17
15 38 0.83
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:37263 original size:46 final size:46
Alignment explanation
Indices: 37196--37367 Score: 221
Period size: 46 Copynumber: 3.8 Consensus size: 46
37186 TATTTGGGCA
*
37196 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
37242 TCCGAACTCGTTGAGTTGAGTCCGAGTT--CGTA--GATG-TAACGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-G
*
37284 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
37331 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37368 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 6, Indels: 18
0.82 0.04 0.13
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
44 30 0.27
45 32 0.29
46 34 0.31
47 5 0.05
48 3 0.03
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:37272 original size:20 final size:20
Alignment explanation
Indices: 37249--37314 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 20
37239 ATGTCCGAAC
37249 TCGTTGAGTTGAGTCCGAGT
1 TCGTTGAGTTGAGTCCGAGT
* * *
37269 TCGTAGA-TGTAACGGCATCCGAGC
1 TCGTTGAGT-TGA--G--TCCGAGT
37293 TCGTTGAGTTGAGTCCGAGT
1 TCGTTGAGTTGAGTCCGAGT
37313 TC
1 TC
37315 ACTATGGATG
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
19 1 0.03
20 16 0.47
22 2 0.06
24 14 0.41
25 1 0.03
ACGTcount: A:0.18, C:0.20, G:0.32, T:0.30
Consensus pattern (20 bp):
TCGTTGAGTTGAGTCCGAGT
Found at i:37305 original size:44 final size:45
Alignment explanation
Indices: 37196--37362 Score: 209
Period size: 45 Copynumber: 3.7 Consensus size: 45
37186 TATTTGGGCA
* *
37196 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCAC-TA-GGATGCGAACGC
* * *
37242 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTA-GATG-TAACGGC
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAAC-GC
37285 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTATGGATGCGAACGC
1 -TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTA-GGATGCGAACGC
37332 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT
37363 TATGGGCGGG
Statistics
Matches: 108, Mismatches: 6, Indels: 15
0.84 0.05 0.12
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
44 30 0.28
45 33 0.31
46 29 0.27
47 6 0.06
48 3 0.03
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTAGGATGCGAACGC
Found at i:37359 original size:89 final size:90
Alignment explanation
Indices: 37192--37359 Score: 293
Period size: 89 Copynumber: 1.9 Consensus size: 90
37182 CGGATATTTG
* *
37192 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
37257 TTGAGTCCGAGTTCGTAGATGTAAC
66 TTGAGTCCGAGTTCGTAGATGTAAC
* *
37282 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCAC-TATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
37346 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
37360 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 40 0.54
90 34 0.46
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (90 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTAGATGTAAC
Done.