Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010161.1 Kokia drynarioides strain JFW-HI SEQ_124966, 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: 174512
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Warning! 216 characters in sequence are not A, C, G, or T
Found at i:1141 original size:17 final size:18
Alignment explanation
Indices: 1105--1196 Score: 102
Period size: 17 Copynumber: 5.3 Consensus size: 18
1095 TTATAGTAAT
*
1105 TTTAAATTTGAAAATAAA
1 TTTAAATTTCAAAATAAA
* *
1123 TTTAAACTT-AAATTAAA
1 TTTAAATTTCAAAATAAA
*
1140 TTTAAA-TTCAAAAAAAA
1 TTTAAATTTCAAAATAAA
1157 TTTAAATTT-AAAATAAA
1 TTTAAATTTCAAAATAAA
* *
1174 TTTAAATTT-TAAACAAA
1 TTTAAATTTCAAAATAAA
1191 TTTAAA
1 TTTAAA
1197 GGGAGTTTGG
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
16 2 0.03
17 53 0.82
18 10 0.15
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (18 bp):
TTTAAATTTCAAAATAAA
Found at i:1186 original size:7 final size:6
Alignment explanation
Indices: 1105--1182 Score: 65
Period size: 6 Copynumber: 13.5 Consensus size: 6
1095 TTATAGTAAT
* * *
1105 TTTAAA TTTGAAA -ATAAA TTTAAA CTTAAA -TTAAA TTTAAA TTCAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** *
1152 -AAAAA TTTAAA TTTAAA -ATAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
1183 TAAACAAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
5 15 0.26
6 39 0.68
7 3 0.05
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:2869 original size:17 final size:18
Alignment explanation
Indices: 2833--2924 Score: 102
Period size: 17 Copynumber: 5.3 Consensus size: 18
2823 TTATAGTAAT
*
2833 TTTAAATTTGAAAATAAA
1 TTTAAATTTCAAAATAAA
* *
2851 TTTAAACTT-AAATTAAA
1 TTTAAATTTCAAAATAAA
*
2868 TTTAAA-TTCAAAAAAAA
1 TTTAAATTTCAAAATAAA
2885 TTTAAATTT-AAAATAAA
1 TTTAAATTTCAAAATAAA
* *
2902 TTTAAATTT-TAAACAAA
1 TTTAAATTTCAAAATAAA
2919 TTTAAA
1 TTTAAA
2925 GGGAGTTTGG
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
16 2 0.03
17 53 0.82
18 10 0.15
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (18 bp):
TTTAAATTTCAAAATAAA
Found at i:2914 original size:7 final size:6
Alignment explanation
Indices: 2833--2910 Score: 65
Period size: 6 Copynumber: 13.5 Consensus size: 6
2823 TTATAGTAAT
* * *
2833 TTTAAA TTTGAAA -ATAAA TTTAAA CTTAAA -TTAAA TTTAAA TTCAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** *
2880 -AAAAA TTTAAA TTTAAA -ATAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
2911 TAAACAAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
5 15 0.26
6 39 0.68
7 3 0.05
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (6 bp):
TTTAAA
Found at i:3992 original size:199 final size:198
Alignment explanation
Indices: 3652--4223 Score: 921
Period size: 199 Copynumber: 2.9 Consensus size: 198
3642 NNNNNNNNNN
3652 TGTATCTCATCAGGAAGACGAATTCGGTTCACTTCTCAGTACCTCATCTGGAAGCTATCCATTTA
1 TGTATCTCATCAGGAAGACGAATTCGGTTCACTTCTCAGTACCTCATCTGGAAGCTATCCATTTA
* *
3717 TTTCTTCCACCTACTTCTCAGTGTCTCATCAGGAAGTTGGGTTTTGAAGATTTGCTCGTTTGGAG
66 TTTCTTCCACCTACTTCTCAGTGTCTCATCAAGAAGCTGGGTTTTGAAGATTTGCTCGTTT-GAG
3782 CCTCGTTTGGGTCTTCTTCTCAGTGTCTTATCAGGAAGATGATCCCACCACTGTTTCAATCCGCT
130 CCTCGTTTGGGTCTTCTTCTCAGTGTCTTATCAGGAAGATGATCCCACCACTGTTTCAATCCGCT
3847 TCTC
195 TCTC
* * * * *
3851 TGTATCTTATCAGGAAGACGAATTTGGTTCACTTCTCAATACCTCCTCTGGAAGCTAACCATTTA
1 TGTATCTCATCAGGAAGACGAATTCGGTTCACTTCTCAGTACCTCATCTGGAAGCTATCCATTTA
* * *
3916 TTTCTTCCACCTGCTTCTCAGTGTCTCATCATGAAGCTAGGTTTTGAAGATTTGCTCGTTTCGAG
66 TTTCTTCCACCTACTTCTCAGTGTCTCATCAAGAAGCTGGGTTTTGAAGATTTGCTCGTTT-GAG
* * * *
3981 CCTCGTTTGGGTCTTCTTCTCAGTGCCTCATCAGGAAGATGATCCCATCACTGTTTCAATCTGCT
130 CCTCGTTTGGGTCTTCTTCTCAGTGTCTTATCAGGAAGATGATCCCACCACTGTTTCAATCCGCT
*
4046 TCTT
195 TCTC
*
4050 TGTATCTCATCAGGAAGACGAATTCGGTTCACTTCTCAGTACCTCATCTGGAAGCTATTCATTTA
1 TGTATCTCATCAGGAAGACGAATTCGGTTCACTTCTCAGTACCTCATCTGGAAGCTATCCATTTA
* *
4115 TTTCTTCTACCTACTTCTCAGTGTCTCATCAAGGAGCTGGGTTTTGAAGATTTGCTCGTCTTGAG
66 TTTCTTCCACCTACTTCTCAGTGTCTCATCAAGAAGCTGGGTTTTGAAGATTTGCTCGT-TTGAG
**
4180 CCTCGTTTGGGTCTTCTTCTCAGCATCTTA-CTAGGAAGATGATC
130 CCTCGTTTGGGTCTTCTTCTCAGTGTCTTATC-AGGAAGATGATC
4224 GCGTCATTTA
Statistics
Matches: 341, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
198 1 0.00
199 338 0.99
200 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (198 bp):
TGTATCTCATCAGGAAGACGAATTCGGTTCACTTCTCAGTACCTCATCTGGAAGCTATCCATTTA
TTTCTTCCACCTACTTCTCAGTGTCTCATCAAGAAGCTGGGTTTTGAAGATTTGCTCGTTTGAGC
CTCGTTTGGGTCTTCTTCTCAGTGTCTTATCAGGAAGATGATCCCACCACTGTTTCAATCCGCTT
CTC
Found at i:16065 original size:29 final size:29
Alignment explanation
Indices: 16033--16475 Score: 216
Period size: 29 Copynumber: 15.2 Consensus size: 29
16023 GGTTCGAAAT
*
16033 TAAAAATGAGATTTTTGGAAGTTCGGGGG
1 TAAAAATGGGATTTTTGGAAGTTCGGGGG
* * *
16062 T-AAAATGGTAATTTTAGAAGGTTC-GGGG
1 TAAAAATGGGATTTTTGGAA-GTTCGGGGG
* *
16090 TCAAAATGGGATTTTTGGACA-TTCGGGGT
1 TAAAAATGGGATTTTTGGA-AGTTCGGGGG
*
16119 TAAAATTGGGATTTTTGGGAA-TTCGGGGG
1 TAAAAATGGGATTTTT-GGAAGTTCGGGGG
* * **
16148 T-AAAATGGTAATTTTTAGAAGGTTC-AAGG
1 TAAAAATGG-GATTTTTGGAA-GTTCGGGGG
*
16177 TCAAAAATGGGATTTTTGGGAA-TTTGGGGG
1 T-AAAAATGGGATTTTT-GGAAGTTCGGGGG
* * * **
16207 -CAAAATGGTCA-TTTTAGAAGGTTC-AAGG
1 TAAAAATGG-GATTTTTGGAA-GTTCGGGGG
* * *
16235 TCAAAAATGGGATTTTTGAAAGTTTTGGGGT
1 T-AAAAATGGGATTTTTGGAAG-TTCGGGGG
* * * *
16266 TAAAATTGGGATTTTTAGAGGGTT-TGGGG
1 TAAAAATGGGATTTTTGGA-AGTTCGGGGG
* * *
16295 TTAAAATGGGATTTTTGGAAGTTTCGAGGT
1 TAAAAATGGGATTTTTGGAAG-TTCGGGGG
* * * *
16325 TAAAATTGGG-TTTTTAGAGGGTT-TGGGG
1 TAAAAATGGGATTTTTGGA-AGTTCGGGGG
* * * *
16353 TCAAAATGAGATTTTTGTAAATT-GGGGG
1 TAAAAATGGGATTTTTGGAAGTTCGGGGG
* *
16381 T-AAAATGGTGATTTTTGGAAGTTTTGGGGT
1 TAAAAATGG-GATTTTTGGAAG-TTCGGGGG
* * *
16411 TAAAAATGTGATTTTTGGAAGTTTGAGGG
1 TAAAAATGGGATTTTTGGAAGTTCGGGGG
** * *
16440 T-AAAATAGTAATTTTTTGAAGTTTCGGGGT
1 TAAAAAT-GGGATTTTTGGAAG-TTCGGGGG
16470 TAAAAA
1 TAAAAA
16476 AAAGATTTTT
Statistics
Matches: 307, Mismatches: 75, Indels: 62
0.69 0.17 0.14
Matches are distributed among these distances:
27 9 0.03
28 76 0.25
29 118 0.38
30 81 0.26
31 23 0.07
ACGTcount: A:0.29, C:0.03, G:0.31, T:0.36
Consensus pattern (29 bp):
TAAAAATGGGATTTTTGGAAGTTCGGGGG
Found at i:16197 original size:59 final size:59
Alignment explanation
Indices: 16114--16475 Score: 303
Period size: 59 Copynumber: 6.2 Consensus size: 59
16104 TTGGACATTC
* * * *
16114 GGGGTTAAAATTGGGATTTTTGGGAA-TTCGGGGGTAAAATGGTAATTTTTAGAAGGTTC
1 GGGGTCAAAAATGGGATTTTT-GGAAGTTTGGGGGTAAAATGGTAATTTTTAGAAGGTTT
** * * *
16173 AAGGTCAAAAATGGGATTTTTGGGAA-TTTGGGGGCAAAATGGTCA-TTTTAGAAGGTTC
1 GGGGTCAAAAATGGGATTTTT-GGAAGTTTGGGGGTAAAATGGTAATTTTTAGAAGGTTT
** * * * *
16231 AAGGTCAAAAATGGGATTTTTGAAAGTTTTGGGGTTAAAATTGG-GATTTTTAGAGGGTTT
1 GGGGTCAAAAATGGGATTTTTGGAAG-TTTGGGGGTAAAA-TGGTAATTTTTAGAAGGTTT
* * * * *
16291 GGGGT-TAAAATGGGATTTTTGGAAGTTTCGAGGTTAAAATTGG--GTTTTTAGAGGGTTT
1 GGGGTCAAAAATGGGATTTTTGGAAGTTT-GGGGGTAAAA-TGGTAATTTTTAGAAGGTTT
* * * * * *
16349 GGGGTC-AAAATGAGATTTTTGTAA-ATTGGGGGTAAAATGGTGATTTTTGGAAGTTTT
1 GGGGTCAAAAATGGGATTTTTGGAAGTTTGGGGGTAAAATGGTAATTTTTAGAAGGTTT
* * * * *
16406 GGGGTTAAAAATGTGATTTTTGGAAGTTTGAGGGTAAAATAGTAATTTTTTGAA-GTTT
1 GGGGTCAAAAATGGGATTTTTGGAAGTTTGGGGGTAAAATGGTAATTTTTAGAAGGTTT
*
16464 CGGGGTTAAAAA
1 -GGGGTCAAAAA
16476 AAAGATTTTT
Statistics
Matches: 255, Mismatches: 37, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
55 3 0.01
56 8 0.03
57 21 0.08
58 91 0.36
59 115 0.45
60 17 0.07
ACGTcount: A:0.29, C:0.03, G:0.31, T:0.37
Consensus pattern (59 bp):
GGGGTCAAAAATGGGATTTTTGGAAGTTTGGGGGTAAAATGGTAATTTTTAGAAGGTTT
Found at i:16244 original size:30 final size:30
Alignment explanation
Indices: 16149--16244 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 30
16139 ATTCGGGGGT
16149 AAAATGGTAATTTTTAGAAGGTTCAAGGTCA
1 AAAATGGTAA-TTTTAGAAGGTTCAAGGTCA
* * * *** *
16180 AAAATGGGATTTTTGGGAA--TTTGGGGGC-
1 AAAATGGTAATTTT-AGAAGGTTCAAGGTCA
*
16208 AAAATGGTCATTTTAGAAGGTTCAAGGTCA
1 AAAATGGTAATTTTAGAAGGTTCAAGGTCA
16238 AAAATGG
1 AAAATGG
16245 GATTTTTGAA
Statistics
Matches: 46, Mismatches: 15, Indels: 9
0.66 0.21 0.13
Matches are distributed among these distances:
27 3 0.07
28 11 0.24
29 10 0.22
30 11 0.24
31 11 0.24
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.30
Consensus pattern (30 bp):
AAAATGGTAATTTTAGAAGGTTCAAGGTCA
Found at i:16278 original size:30 final size:29
Alignment explanation
Indices: 16238--16474 Score: 177
Period size: 30 Copynumber: 8.1 Consensus size: 29
16228 TTCAAGGTCA
16238 AAAATGGGATTTTTGAAAGTTTTGGGGTT
1 AAAATGGGATTTTTGAAAGTTTTGGGGTT
* *
16267 AAAATTGGGATTTTT-AGAGGGTTTGGGGTT
1 AAAA-TGGGATTTTTGA-AAGTTTTGGGGTT
* * *
16297 AAAATGGGATTTTTGGAAGTTTCGAGGTT
1 AAAATGGGATTTTTGAAAGTTTTGGGGTT
* * *
16326 AAAATTGGG-TTTTT-AGAGGGTTTGGGGTC
1 AAAA-TGGGATTTTTGA-AAGTTTTGGGGTT
* *
16355 AAAATGAGATTTTTGTAAA---TTGGGGGT
1 AAAATGGGATTTTTG-AAAGTTTTGGGGTT
*
16382 AAAATGGTGATTTTTGGAAGTTTTGGGGTT
1 AAAATGG-GATTTTTGAAAGTTTTGGGGTT
* *
16412 AAAAATGTGATTTTTGGAAG-TTTGAGGG-T
1 -AAAATGGGATTTTTGAAAGTTTTG-GGGTT
** *
16441 AAAATAGTAATTTTTTG-AAGTTTCGGGGTT
1 AAAAT-GGGA-TTTTTGAAAGTTTTGGGGTT
16471 AAAA
1 AAAA
16475 AAAAGATTTT
Statistics
Matches: 167, Mismatches: 23, Indels: 35
0.74 0.10 0.16
Matches are distributed among these distances:
27 14 0.08
28 16 0.10
29 64 0.38
30 66 0.40
31 7 0.04
ACGTcount: A:0.28, C:0.01, G:0.31, T:0.39
Consensus pattern (29 bp):
AAAATGGGATTTTTGAAAGTTTTGGGGTT
Found at i:16367 original size:58 final size:58
Alignment explanation
Indices: 16114--16445 Score: 250
Period size: 58 Copynumber: 5.7 Consensus size: 58
16104 TTGGACATTC
* * * * * *
16114 GGGGTTAAAATTGGGATTTTTGGGAA-TTCGGGGGTAAAA-TGGTAATTTTTAGAAGGTTC
1 GGGGTCAAAA-TGGGATTTTT-GGAAGTTTGAGGGTAAAATTGG-GATTTTTAGAGGGTTT
** * * * * *
16173 AAGGTCAAAAATGGGATTTTTGGGAA-TTTGGGGGCAAAA-TGGTCA-TTTTAGAAGGTTC
1 GGGGTC-AAAATGGGATTTTT-GGAAGTTTGAGGGTAAAATTGG-GATTTTTAGAGGGTTT
** *
16231 AAGGTCAAAAATGGGATTTTTGAAAGTTTTG-GGGTTAAAATTGGGATTTTTAGAGGGTTT
1 GGGGTC-AAAATGGGATTTTTGGAAG-TTTGAGGG-TAAAATTGGGATTTTTAGAGGGTTT
* *
16291 GGGGTTAAAATGGGATTTTTGGAAGTTTCGAGGTTAAAATTGGG-TTTTTAGAGGGTTT
1 GGGGTCAAAATGGGATTTTTGGAAGTTT-GAGGGTAAAATTGGGATTTTTAGAGGGTTT
* * * * * * *
16349 GGGGTCAAAATGAGATTTTTGTAA-ATTGGGGGTAAAA-TGGTGATTTTTGGAAGTTTT
1 GGGGTCAAAATGGGATTTTTGGAAGTTTGAGGGTAAAATTGG-GATTTTTAGAGGGTTT
* *
16406 GGGGTTAAAAATGTGATTTTTGGAAGTTTGAGGGTAAAAT
1 GGGG-TCAAAATGGGATTTTTGGAAGTTTGAGGGTAAAAT
16446 AGTAATTTTT
Statistics
Matches: 230, Mismatches: 30, Indels: 25
0.81 0.11 0.09
Matches are distributed among these distances:
55 3 0.01
56 9 0.04
57 20 0.09
58 92 0.40
59 83 0.36
60 23 0.10
ACGTcount: A:0.29, C:0.03, G:0.32, T:0.36
Consensus pattern (58 bp):
GGGGTCAAAATGGGATTTTTGGAAGTTTGAGGGTAAAATTGGGATTTTTAGAGGGTTT
Found at i:16483 original size:59 final size:58
Alignment explanation
Indices: 16361--16488 Score: 157
Period size: 59 Copynumber: 2.2 Consensus size: 58
16351 GGTCAAAATG
* * * * * **
16361 AGATTTTTGTAAATTGGGGGTAAAATGGTGATTTTTGGAAGTTTTGGGGTTAAAAATG
1 AGATTTTTGGAAATTGAGGGTAAAATAGTAATTTTTGGAAGTTTCGGGGTTAAAAAAA
* * *
16419 TGATTTTTGGAAGTTTGAGGGTAAAATAGTAATTTTTTGAAGTTTCGGGGTTAAAAAAA
1 AGATTTTTGGAA-ATTGAGGGTAAAATAGTAATTTTTGGAAGTTTCGGGGTTAAAAAAA
16478 AGATTTTTGGA
1 AGATTTTTGGA
16489 CAATCCAGGG
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
58 10 0.17
59 48 0.83
ACGTcount: A:0.31, C:0.01, G:0.28, T:0.40
Consensus pattern (58 bp):
AGATTTTTGGAAATTGAGGGTAAAATAGTAATTTTTGGAAGTTTCGGGGTTAAAAAAA
Found at i:16484 original size:30 final size:29
Alignment explanation
Indices: 16390--16488 Score: 94
Period size: 30 Copynumber: 3.3 Consensus size: 29
16380 GTAAAATGGT
***
16390 GATTTTTGGAAGTTTTGGGGTTAAAAATGT
1 GATTTTTGGAAG-TTTGGGGTTAAAAAAAA
**
16420 GATTTTTGGAAGTTTGAGGG-TAAAATAGTA
1 GATTTTTGGAAGTTTG-GGGTTAAAA-AAAA
*
16450 -ATTTTTTGAAGTTTCGGGGTTAAAAAAAA
1 GATTTTTGGAAGTTT-GGGGTTAAAAAAAA
16479 GATTTTTGGA
1 GATTTTTGGA
16489 CAATCCAGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
29 27 0.47
30 30 0.53
ACGTcount: A:0.31, C:0.01, G:0.27, T:0.40
Consensus pattern (29 bp):
GATTTTTGGAAGTTTGGGGTTAAAAAAAA
Found at i:18470 original size:6 final size:6
Alignment explanation
Indices: 18442--18502 Score: 65
Period size: 6 Copynumber: 10.5 Consensus size: 6
18432 TTATAGTAAT
* *
18442 TTTAAA TTTGAAA -ATAAA TTTAAA CTTAAA -TTAAA TTTAAA TTTAAA
1 TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
18489 -ATAAA TTTAAA TTT
1 TTTAAA TTTAAA TTT
18503 TTAAACAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
5 12 0.26
6 31 0.67
7 3 0.07
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (6 bp):
TTTAAA
Found at i:18478 original size:17 final size:17
Alignment explanation
Indices: 18442--18517 Score: 98
Period size: 17 Copynumber: 4.4 Consensus size: 17
18432 TTATAGTAAT
18442 TTTAAATTTGAAAATAAA
1 TTTAAATTT-AAAATAAA
* *
18460 TTTAAACTTAAATTAAA
1 TTTAAATTTAAAATAAA
18477 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATAAA
* *
18494 TTTAAATTTTTAAACAAA
1 TTTAAA-TTTAAAATAAA
18512 TTTAAA
1 TTTAAA
18518 GGGAGTTTGG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
17 28 0.55
18 23 0.45
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:18481 original size:11 final size:11
Alignment explanation
Indices: 18443--18501 Score: 66
Period size: 11 Copynumber: 5.2 Consensus size: 11
18433 TATAGTAATT
18443 TTAAATTTGAAA
1 TTAAATTT-AAA
*
18455 ATAAATTTAAA
1 TTAAATTTAAA
18466 CTTAAA-TTAAA
1 -TTAAATTTAAA
18477 TTTAAATTTAAA
1 -TTAAATTTAAA
*
18489 ATAAATTTAAA
1 TTAAATTTAAA
18500 TT
1 TT
18502 TTTAAACAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
11 24 0.60
12 16 0.40
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:28588 original size:97 final size:97
Alignment explanation
Indices: 28412--28605 Score: 257
Period size: 97 Copynumber: 2.0 Consensus size: 97
28402 AACTTTGGAA
* * * * *
28412 AAGGGTATTTGATTATCCCGATTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGGCACGAATTTTCA
1 AAGGGTATTTGATTATCCCGATTTAAAGAAAAATCACGCCTAATAAGTTAAGGCACAAATTTTCA
*
28477 AAACCAAAGATAAAGAAACATTGCCTCGATTT
66 AAACCAAAGATAAAGAAACATTACCTCGATTT
*
28509 AAGGGTATTCT-ATTATCCCGGTTTAAAGAAAAATCACGCCTAATAAGTTAAGGCACAAATTTTC
1 AAGGGTATT-TGATTATCCCGATTTAAAGAAAAATCACGCCTAATAAGTTAAGGCACAAATTTTC
* * * *
28573 AAAACCCGAA-TTAAAGGAATATTACCTCGATTT
65 AAAA-CCAAAGATAAAGAAACATTACCTCGATTT
28606 TAAATATTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
97 79 0.94
98 5 0.06
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (97 bp):
AAGGGTATTTGATTATCCCGATTTAAAGAAAAATCACGCCTAATAAGTTAAGGCACAAATTTTCA
AAACCAAAGATAAAGAAACATTACCTCGATTT
Found at i:28974 original size:29 final size:29
Alignment explanation
Indices: 28913--29252 Score: 233
Period size: 29 Copynumber: 11.9 Consensus size: 29
28903 GAAAGTTTTA
* * * *
28913 GGGGG-AAAAATGTCATTTTAGGAAATTT
1 GGGGGCAAAAATGTGATTTTTGGAAGTTC
* * * **
28941 TGGGGTAAAAACGTGATTTTTAAAAGTTC
1 GGGGGCAAAAATGTGATTTTTGGAAGTTC
* * *
28970 GGGGGCAAAAATGTAATTTTTGGATGTTT
1 GGGGGCAAAAATGTGATTTTTGGAAGTTC
** * *
28999 GGGGATAAAAATATAATTTTTGGAAGTTC
1 GGGGGCAAAAATGTGATTTTTGGAAGTTC
*
29028 -GGGGCAAAAATGTGATTTTTGGAAGCTC
1 GGGGGCAAAAATGTGATTTTTGGAAGTTC
** * *
29056 AAGGGTAAAATTGTGATTTTTGGAAGTTC
1 GGGGGCAAAAATGTGATTTTTGGAAGTTC
* * * * *
29085 AGGGGCAAAAATATGATTTTTAGAAATTT
1 GGGGGCAAAAATGTGATTTTTGGAAGTTC
* *
29114 GGAGGCAAAAATGTGATTTTTGAAAGTT-
1 GGGGGCAAAAATGTGATTTTTGGAAGTTC
* * * *
29142 -TGGG-AGAAATATGATTTTTGGAAGTTT
1 GGGGGCAAAAATGTGATTTTTGGAAGTTC
* * *
29169 AGGGGTAAAAATATGATTTTTGGAAGGTTC
1 GGGGGCAAAAATGTGATTTTTGGAA-GTTC
* * * * * *
29199 GAGGTCAAAAATGTAATTTTAGAAAGTTTA
1 GGGGGCAAAAATGTGATTTTTGGAAG-TTC
* *
29229 GGGGTC-AAAATGTAATTTTTGGAA
1 GGGGGCAAAAATGTGATTTTTGGAA
29253 AGTTTGAGGG
Statistics
Matches: 242, Mismatches: 63, Indels: 13
0.76 0.20 0.04
Matches are distributed among these distances:
26 19 0.08
27 2 0.01
28 30 0.12
29 164 0.68
30 27 0.11
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.34
Consensus pattern (29 bp):
GGGGGCAAAAATGTGATTTTTGGAAGTTC
Found at i:28980 original size:58 final size:58
Alignment explanation
Indices: 28913--29256 Score: 274
Period size: 58 Copynumber: 6.0 Consensus size: 58
28903 GAAAGTTTTA
* * * *
28913 GGGGG-AAAAATGTCATTTTAGGAAATTTTGGGGTAAAAACGTGATTTTTAAAAGTTC
1 GGGGGCAAAAATGTAATTTTAGGAAATTTAGGGGTAAAAATGTGATTTTTGAAAGTTC
* ** * * *
28970 GGGGGCAAAAATGTAATTTTTGGATGTTT-GGGGATAAAAATATAATTTTTGGAAGTTC
1 GGGGGCAAAAATGTAATTTTAGGAAATTTAGGGG-TAAAAATGTGATTTTTGAAAGTTC
* * ** * * * *
29028 -GGGGCAAAAATGTGATTTTTGGAAGCTCAAGGGTAAAATTGTGATTTTTGGAAGTTC
1 GGGGGCAAAAATGTAATTTTAGGAAATTTAGGGGTAAAAATGTGATTTTTGAAAGTTC
* * * * *
29085 AGGGGCAAAAATATGATTTTTA-GAAATTT-GGAGGCAAAAATGTGATTTTTGAAAGTTT
1 GGGGGCAAAAATGT-AATTTTAGGAAATTTAGG-GGTAAAAATGTGATTTTTGAAAGTTC
* * * * * *
29143 GGGAG-AAATATG--ATTTTTGGAAGTTTAGGGGTAAAAATATGATTTTTGGAAGGTTC
1 GGGGGCAAAAATGTAATTTTAGGAAATTTAGGGGTAAAAATGTGATTTTT-GAAAGTTC
* * * *
29199 GAGGTCAAAAATGTAATTTTA-GAAAGTTTAGGGGTCAAAATGTAATTTTTGGAAAGTT
1 GGGGGCAAAAATGTAATTTTAGGAAA-TTTAGGGGTAAAAATGTGATTTTT-GAAAGTT
29257 TGAGGGTCAA
Statistics
Matches: 224, Mismatches: 50, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
54 4 0.02
55 22 0.10
56 10 0.04
57 66 0.29
58 85 0.38
59 37 0.17
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (58 bp):
GGGGGCAAAAATGTAATTTTAGGAAATTTAGGGGTAAAAATGTGATTTTTGAAAGTTC
Found at i:29072 original size:115 final size:112
Alignment explanation
Indices: 28943--29252 Score: 323
Period size: 115 Copynumber: 2.7 Consensus size: 112
28933 GGAAATTTTG
* * *
28943 GGGTAAAAACGTGATTTTTAAAAGTTCGGGGGCAAAAATGTAATTTTTGGATGTTTGGGGATAAA
1 GGGTAAAAATGTGATTTTTGAAAGTTCGGGGGCAAAAATGTAATTTTTGGAAGTTTGGGG-TAAA
* *
29008 AATATAATTTTTGGAAGTTCGGGGCAAAAATGTGATTTTTGGAAGCTCAA
65 AATGTAATTTTTGGAAGTT-GGGG-AAAAATATGATTTTTGGAAGCTCAA
* * * * * * * *
29058 GGGTAAAATTGTGATTTTTGGAAGTTCAGGGGCAAAAATATGATTTTTAGAAATTTGGAGGCAAA
1 GGGTAAAAATGTGATTTTTGAAAGTTCGGGGGCAAAAATGTAATTTTTGGAAGTTTGG-GGTAAA
* * * * * * *
29123 AATGTGATTTTTGAAAGTTTGGGAGAAATATGATTTTTGGAAGTTTAG
65 AATGTAATTTTTGGAAGTTGGGGAAAAATATGATTTTTGGAAGCTCAA
* * * * * * *
29171 GGGTAAAAATATGATTTTTGGAAGGTTCGAGGTCAAAAATGTAATTTTAGAAAGTTTAGGGGTCA
1 GGGTAAAAATGTGATTTTT-GAAAGTTCGGGGGCAAAAATGTAATTTTTGGAAGTTT-GGGGTAA
29236 AAATGTAATTTTTGGAA
64 AAATGTAATTTTTGGAA
29253 AGTTTGAGGG
Statistics
Matches: 155, Mismatches: 37, Indels: 7
0.78 0.19 0.04
Matches are distributed among these distances:
113 37 0.24
114 47 0.30
115 69 0.45
116 2 0.01
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.35
Consensus pattern (112 bp):
GGGTAAAAATGTGATTTTTGAAAGTTCGGGGGCAAAAATGTAATTTTTGGAAGTTTGGGGTAAAA
ATGTAATTTTTGGAAGTTGGGGAAAAATATGATTTTTGGAAGCTCAA
Found at i:29272 original size:30 final size:30
Alignment explanation
Indices: 28889--29278 Score: 159
Period size: 29 Copynumber: 13.5 Consensus size: 30
28879 GTTTGGAGTT
* * **
28889 AAAATGCAA-TTTTGGAAAGTTTTAGGGGGA
1 AAAATGTAATTTTTGGAAAGTTTGA-GGGTC
* * * *
28919 AAAATGTCATTTTAGGAAATTTTG-GGGTA
1 AAAATGTAATTTTTGGAAAGTTTGAGGGTC
* * * * *
28948 AAAACGTGATTTTT-AAAAGTTCG-GGGGC
1 AAAATGTAATTTTTGGAAAGTTTGAGGGTC
* *
28976 AAAAATGTAATTTTTGG-ATGTTTG-GGGATA
1 -AAAATGTAATTTTTGGAAAGTTTGAGGG-TC
* *
29006 AAAATATAATTTTTGG-AAGTTCG-GGG-C
1 AAAATGTAATTTTTGGAAAGTTTGAGGGTC
* * **
29033 AAAAATGTGATTTTTGG-AAGCTCAAGGGT-
1 -AAAATGTAATTTTTGGAAAGTTTGAGGGTC
* * *
29062 AAAATTGTGATTTTTGG-AAG-TTCAGGGGC
1 AAAA-TGTAATTTTTGGAAAGTTTGAGGGTC
* * *
29091 AAAAATATGATTTTTAGAAA-TTTG-GAGG-C
1 -AAAATGTAATTTTTGGAAAGTTTGAG-GGTC
*
29120 AAAAATGTGATTTTT-GAAAGTTTG-GGAG--
1 -AAAATGTAATTTTTGGAAAGTTTGAGG-GTC
*
29148 AAATATG--ATTTTTGG-AAGTTT-AGGGGTA
1 AAA-ATGTAATTTTTGGAAAGTTTGA-GGGTC
* * * *
29176 AAAATATGATTTTTGGAAGGTTCGA-GGTC
1 AAAATGTAATTTTTGGAAAGTTTGAGGGTC
*
29205 AAAAATGTAA-TTTTAGAAAGTTT-AGGGGTC
1 -AAAATGTAATTTTTGGAAAGTTTGA-GGGTC
29235 AAAATGTAATTTTTGGAAAGTTTGAGGGTC
1 AAAATGTAATTTTTGGAAAGTTTGAGGGTC
*
29265 AAGATGTAATTTTT
1 AAAATGTAATTTTT
29279 AGATAGCTCA
Statistics
Matches: 283, Mismatches: 47, Indels: 60
0.73 0.12 0.15
Matches are distributed among these distances:
26 13 0.05
27 8 0.03
28 49 0.17
29 138 0.49
30 62 0.22
31 13 0.05
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.35
Consensus pattern (30 bp):
AAAATGTAATTTTTGGAAAGTTTGAGGGTC
Found at i:31151 original size:18 final size:17
Alignment explanation
Indices: 31117--31245 Score: 150
Period size: 17 Copynumber: 7.5 Consensus size: 17
31107 GGACATTATT
*
31117 AATTTAAATTTAGAATA
1 AATTTAAATTTAAAATA
*
31134 ATTTTAAATTTAAGAATA
1 AATTTAAATTTAA-AATA
* *
31152 AATTTAAACTTAAATTA
1 AATTTAAATTTAAAATA
*
31169 AATTTAAATTTTAAAACA
1 AATTTAAA-TTTAAAATA
*
31187 AATTTAAACTTAAAATA
1 AATTTAAATTTAAAATA
* *
31204 AATTTAAAATCAAAATA
1 AATTTAAATTTAAAATA
**
31221 AATTTAACCTTAAAATA
1 AATTTAAATTTAAAATA
31238 AATTTAAA
1 AATTTAAA
31246 AAAATGGGTT
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
17 65 0.69
18 29 0.31
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:31158 original size:35 final size:34
Alignment explanation
Indices: 31117--31245 Score: 168
Period size: 35 Copynumber: 3.7 Consensus size: 34
31107 GGACATTATT
* * *
31117 AATTTAAATTTAGAATAATTTTAAATTTAAGAATA
1 AATTTAAACTTAAAATAAATTTAAATTTAA-AATA
* *
31152 AATTTAAACTTAAATTAAATTTAAATTTTAAAACA
1 AATTTAAACTTAAAATAAATTTAAA-TTTAAAATA
* *
31187 AATTTAAACTTAAAATAAATTTAAAATCAAAATA
1 AATTTAAACTTAAAATAAATTTAAATTTAAAATA
*
31221 AATTTAACCTTAAAATAAATTTAAA
1 AATTTAAACTTAAAATAAATTTAAA
31246 AAAATGGGTT
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
34 30 0.36
35 48 0.58
36 5 0.06
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (34 bp):
AATTTAAACTTAAAATAAATTTAAATTTAAAATA
Found at i:31183 original size:7 final size:6
Alignment explanation
Indices: 31117--31211 Score: 58
Period size: 6 Copynumber: 16.3 Consensus size: 6
31107 GGACATTATT
* * *
31117 AATTTA AATTTA GAA--TA ATTTTA AATTTA AGA-ATA AATTTA AACTTA
1 AATTTA AATTTA -AATTTA AATTTA AATTTA A-ATTTA AATTTA AATTTA
** * *
31164 AA-TTA AATTTA AATTTTA AA-ACA AATTTA AACTTA AA-ATA AATTTA
1 AATTTA AATTTA AA-TTTA AATTTA AATTTA AATTTA AATTTA AATTTA
31210 AA
1 AA
31212 ATCAAAATAA
Statistics
Matches: 68, Mismatches: 12, Indels: 18
0.69 0.12 0.18
Matches are distributed among these distances:
4 1 0.01
5 15 0.22
6 43 0.63
7 9 0.13
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (6 bp):
AATTTA
Found at i:31793 original size:50 final size:49
Alignment explanation
Indices: 31739--32417 Score: 302
Period size: 50 Copynumber: 13.7 Consensus size: 49
31729 GCCGTTGCAA
* *
31739 CCTCAATCCTTTCCATCACATCTCTTAAGGTACCGAGTTCTCCATTGCAG
1 CCTCAA-CCTTTCCATCACATCTCTTAAGGTACCGAGTTCGCCATTGCGG
*** * * ** * *** *
31789 CCTCAACCTTT-C-TCTTTTGTCTTCATGGTATTG-GATTTGTTGTTGCGA
1 CCTCAACCTTTCCATCACATCTCTT-AAGGTACCGAG-TTCGCCATTGCGG
* * * *
31837 CCTCAATCATTCTCATCACATCT-TCTAAGGTACCGAGTTCACCGTTGCGG
1 CCTCAACCTTTC-CATCACATCTCT-TAAGGTACCGAGTTCGCCATTGCGG
* * * * * * *
31887 CCTCAACCTTTTCCTTCATATCTTCGT--GGTACCGGGTTTGCCATTACGA
1 CCTCAACC-TTTCCATCACATC-TCTTAAGGTACCGAGTTCGCCATTGCGG
* * * * *
31936 CCTCAACCTTTCCCATCGCATCT-TCTAAGGTACCGGGCTCGCCGTTGCAG
1 CCTCAACCTTT-CCATCACATCTCT-TAAGGTACCGAGTTCGCCATTGCGG
** * * * * *
31986 CCTCAACCTTTCCCATCGTAT-TTTCTAAGGTATCGGAG-TCACCGTCGCGG
1 CCTCAACCTTT-CCATCACATCTCT-TAAGGTA-CCGAGTTCGCCATTGCGG
* * * * * * *
32036 CCTTAATCTTTCCCT-TCGTCTCTTTATGGTA-CTAGGTTCGCCATTGCGG
1 CCTCAACCTTTCCATCACATCTC-TTAAGGTACCGA-GTTCGCCATTGCGG
** * * * * *
32085 GTTTAACCTTTCCCATCACCTCTTCTT-AGGTATCGAGTTCGCCATTACGA
1 CCTCAACCTTT-CCATCACATC-TCTTAAGGTACCGAGTTCGCCATTGCGG
* * *
32135 CCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG-GATTCGCCGTTGCGG
1 CCTCAACCTTT-CCATCACATCTCTTAAGGTACCGAG-TTCGCCATTGCGG
* * **
32185 CCTCAATCCTTTCC-T-TCGTCTCTTCATA-GTA-TTAGGTTCGCCATTGCGG
1 CCTCAA-CCTTTCCATCACATCTCTT-A-AGGTACCGA-GTTCGCCATTGCGG
* * *
32234 CCTCAACCTTTCCTATCACCTCTTCTT-AGGTATCGGGTTCGCCATTGCGG
1 CCTCAACCTTTCC-ATCACATC-TCTTAAGGTACCGAGTTCGCCATTGCGG
* * * * * *
32284 CCTCAACCTTTCCTTTCACATCTTTTAAGGTACCGAATTCACCGTTGCAG
1 CCTCAACCTTTCC-ATCACATCTCTTAAGGTACCGAGTTCGCCATTGCGG
* * *
32334 CCTCAATCC-TTCCAT-TCGTCTCTTTATGGTACC-AGGTTCGCCATTGCGG
1 CCTCAA-CCTTTCCATCACATCTC-TTAAGGTACCGA-GTTCGCCATTGCGG
* *
32383 CCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG
1 CCTCAACCTTT-CCATCACATCTCTTAAGGTACCG
32418 GATTCACTGT
Statistics
Matches: 462, Mismatches: 122, Indels: 89
0.69 0.18 0.13
Matches are distributed among these distances:
47 9 0.02
48 49 0.11
49 123 0.27
50 240 0.52
51 35 0.08
52 6 0.01
ACGTcount: A:0.17, C:0.32, G:0.16, T:0.35
Consensus pattern (49 bp):
CCTCAACCTTTCCATCACATCTCTTAAGGTACCGAGTTCGCCATTGCGG
Found at i:31797 original size:98 final size:98
Alignment explanation
Indices: 31681--31999 Score: 356
Period size: 98 Copynumber: 3.2 Consensus size: 98
31671 TTCTAGTTTT
* * * * *
31681 ACCGTTGCGGCATAAACCTTTCCCTTTTGTCTTCATGGTATCGGATTCGCCGTTGCAACCTCAAT
1 ACCGTTGCAGCCTCAACCTTTCCCTTTTGTCTTCATGGTATCGGATTTGCCGTTGCGACCTCAAT
31746 CCTTTCCATCACATC-TCTTAAGGTACCGAGTTC
66 CCTTTCCATCACATCTTC-TAAGGTACCGAGTTC
* * * * **
31779 TCCATTGCAGCCTCAACCTTTCTCTTTTGTCTTCATGGTATTGGATTTGTTGTTGCGACCTCAAT
1 ACCGTTGCAGCCTCAACCTTTCCCTTTTGTCTTCATGGTATCGGATTTGCCGTTGCGACCTCAAT
*
31844 -CATTCTCATCACATCTTCTAAGGTACCGAGTTC
66 CCTTTC-CATCACATCTTCTAAGGTACCGAGTTC
* * * * * * * * *
31877 ACCGTTGCGGCCTCAACCTTTTCCTTCATATCTTCGTGGTACCGGGTTTGCCATTACGACCTCAA
1 ACCGTTGCAGCCTCAACCTTTCCCTT-TTGTCTTCATGGTATCGGATTTGCCGTTGCGACCTCAA
* * *
31942 -CCTTTCCCATCGCATCTTCTAAGGTACCGGGCTC
65 TCCTTT-CCATCACATCTTCTAAGGTACCGAGTTC
*
31976 GCCGTTGCAGCCTCAACCTTTCCC
1 ACCGTTGCAGCCTCAACCTTTCCC
32000 ATCGTATTTT
Statistics
Matches: 182, Mismatches: 34, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
97 4 0.02
98 99 0.54
99 78 0.43
100 1 0.01
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.34
Consensus pattern (98 bp):
ACCGTTGCAGCCTCAACCTTTCCCTTTTGTCTTCATGGTATCGGATTTGCCGTTGCGACCTCAAT
CCTTTCCATCACATCTTCTAAGGTACCGAGTTC
Found at i:31961 original size:99 final size:98
Alignment explanation
Indices: 31710--32406 Score: 432
Period size: 99 Copynumber: 7.0 Consensus size: 98
31700 TTCCCTTTTG
* * *
31710 TCTTCATGGTATCGGATTCGCCGTTGCAACCTCAATCCTTT-CCATCACATC-TCTTAAGGTACC
1 TCTTCATGGTATCGGGTTCGCCATTGCGACCTCAA-CCTTTCCCATCACATCTTC-TAAGGTACC
* * * *
31773 GAGTTCTCCATTGCAGCCTCAACCTTTCTCTT-TTG
64 GAGTTCGCCATTGCGGCCTCAACCTTTC-CTTCATA
* * * *** * * *
31808 TCTTCATGGTATTGGATTTGTTGTTGCGACCTCAATCATTCTCATCACATCTTCTAAGGTACCGA
1 TCTTCATGGTATCGGGTTCGCCATTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGA
* *
31873 GTTCACCGTTGCGGCCTCAACCTTTTCCTTCATA
66 GTTCGCCATTGCGGCCTCAACC-TTTCCTTCATA
* * * * * *
31907 TCTTCGTGGTACCGGGTTTGCCATTACGACCTCAACCTTTCCCATCGCATCTTCTAAGGTACCGG
1 TCTTCATGGTATCGGGTTCGCCATTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGA
* * * * *
31972 GCTCGCCGTTGCAGCCTCAACCTTTCCCATCGTA
66 GTTCGCCATTGCGGCCTCAACCTTT-CCTTCATA
* * * * * * * * * * *
32006 TTTTCTAAGGTATCGGAG-TCACCGTCGCGGCCTTAATCTTTCCCTTCGTC-TCTT-TATGGTA-
1 TCTTC-ATGGTATCGG-GTTCGCCATTGCGACCTCAACCTTTCCCATC-ACATCTTCTAAGGTAC
* ** * * **
32067 CTAGGTTCGCCATTGCGGGTTTAACCTTTCCCATCACC
63 CGA-GTTCGCCATTGCGGCCTCAACCTTT-CCTTCATA
* * * * *
32105 TCTTCTTAGGTATCGAGTTCGCCATTACGACCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG
1 TCTTCAT-GGTATCGGGTTCGCCATTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCG
* * *
32170 -GATTCGCCGTTGCGGCCTCAATCCTTTCCTTCGTC
65 AG-TTCGCCATTGCGGCCTCAA-CCTTTCCTTCATA
* ** * * * * * *
32205 TCTTCATAGTATTAGGTTCGCCATTGCGGCCTCAACCTTTCCTATCACCTCTTCTTAGGTATCGG
1 TCTTCATGGTATCGGGTTCGCCATTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGA
*
32270 GTTCGCCATTGCGGCCTCAACCTTTCCTTTCACA
66 GTTCGCCATTGCGGCCTCAACCTTTCC-TTCATA
* * * ** * * * *
32304 TCTTTTAAGGTACCGAATTCACCGTTGC-AGCCTCAATCC-TT-CCATTCGTC-TCTT-TATGGT
1 TC-TTCATGGTATCGGGTTCGCCATTGCGA-CCTCAA-CCTTTCCCA-TC-ACATCTTCTAAGGT
*
32364 ACC-AGGTTCGCCATTGCGGCCTCAACCTTTCCCTTCACA
61 ACCGA-GTTCGCCATTGCGGCCTCAACCTTT-CCTTCATA
32403 TCTT
1 TCTT
32407 TTAAGGTACC
Statistics
Matches: 462, Mismatches: 112, Indels: 50
0.74 0.18 0.08
Matches are distributed among these distances:
97 3 0.01
98 87 0.19
99 266 0.58
100 95 0.21
101 11 0.02
ACGTcount: A:0.17, C:0.32, G:0.16, T:0.35
Consensus pattern (98 bp):
TCTTCATGGTATCGGGTTCGCCATTGCGACCTCAACCTTTCCCATCACATCTTCTAAGGTACCGA
GTTCGCCATTGCGGCCTCAACCTTTCCTTCATA
Found at i:32200 original size:298 final size:298
Alignment explanation
Indices: 31834--32414 Score: 720
Period size: 298 Copynumber: 1.9 Consensus size: 298
31824 TTTGTTGTTG
* *
31834 CGACCTCAATCATTCTCATCACATCTTCTAAGGTACCGAGTTCACCGTTGCGGCCTCAACCTTTT
1 CGACCTCAACCATTCCCATCACATCTTCTAAGGTACCGAGTTCACCGTTGCGGCCTCAACCTTTT
* * * * *
31899 CCTTCATATCTTCGTGGTACCGGGTTTGCCATTACGACCTCAACCTTTCCCATCGCATCTTCTAA
66 CCTTCATATCTTCATAGTACCAGGTTCGCCATTACGACCTCAACCTTTCCCATCACATCTTCTAA
* ** * *
31964 GGTACCGGGCTCGCCGTTGCAGCCTCAACCTTTCCCATCGTAT-TTTCTAAGGTATCGGAGTCAC
131 GGTACCGGGCTCGCCATTGCAGCCTCAACCTTTCCCATCACATCTTT-TAAGGTACCGAAGTCAC
* * * * * ** *
32028 CGTCGCGGCCTTAATCTTTCCCTTCGTCTCTTTATGGTACTAGGTTCGCCATTGCGGGTTTAACC
195 CGTCGCAGCCTCAATCCTTCCATTCGTCTCTTTATGGTACCAGGTTCGCCATTGCGGCCTCAACC
*
32093 TTTCCCATCACCTCTTCTT-AGGTATCGAGTTCGCCATTA
260 TTTCCCATCACATCTT-TTAAGGTATCGAGTTCGCCATTA
* * * *
32132 CGACCTCAACCTTTCCCTTCACATCTTTTAAGGTACCG-GATTCGCCGTTGCGGCCTCAATCC-T
1 CGACCTCAACCATTCCCATCACATCTTCTAAGGTACCGAG-TTCACCGTTGCGGCCTCAA-CCTT
* * ** * * * *
32195 TTCCTTCGTCTCTTCATAGTATTAGGTTCGCCATTGCGGCCTCAACCTTTCCTATCACCTCTTCT
64 TTCCTTCATATCTTCATAGTACCAGGTTCGCCATTACGACCTCAACCTTTCCCATCACATCTTCT
* * * * ** *
32260 TAGGTATCGGGTTCGCCATTGCGGCCTCAACCTTTCCTTTCACATCTTTTAAGGTACCGAATTCA
129 AAGGTACCGGGCTCGCCATTGCAGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGAAGTCA
*
32325 CCGTTGCAGCCTCAATCCTTCCATTCGTCTCTTTATGGTACCAGGTTCGCCATTGCGGCCTCAAC
194 CCGTCGCAGCCTCAATCCTTCCATTCGTCTCTTTATGGTACCAGGTTCGCCATTGCGGCCTCAAC
*
32390 CTTTCCCTTCACATCTTTTAAGGTA
259 CTTTCCCATCACATCTTTTAAGGTA
32415 CCGGATTCAC
Statistics
Matches: 237, Mismatches: 42, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
297 3 0.01
298 229 0.97
299 5 0.02
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (298 bp):
CGACCTCAACCATTCCCATCACATCTTCTAAGGTACCGAGTTCACCGTTGCGGCCTCAACCTTTT
CCTTCATATCTTCATAGTACCAGGTTCGCCATTACGACCTCAACCTTTCCCATCACATCTTCTAA
GGTACCGGGCTCGCCATTGCAGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGAAGTCACC
GTCGCAGCCTCAATCCTTCCATTCGTCTCTTTATGGTACCAGGTTCGCCATTGCGGCCTCAACCT
TTCCCATCACATCTTTTAAGGTATCGAGTTCGCCATTA
Found at i:32438 original size:50 final size:50
Alignment explanation
Indices: 31852--32422 Score: 372
Period size: 50 Copynumber: 11.5 Consensus size: 50
31842 ATCATTCTCA
* * * *
31852 TCACATCTTCTAAGGTACC-GAGTTCACCGTTGCGGCCTCAACCTTTTCCT
1 TCACATCTTTTAAGGTACCGGA-TTCGCCATTGCGGCCTCAACCTTTCCCT
* * * * * * *
31902 TCATATCTTCGT--GGTACCGGGTTTGCCATTACGACCTCAACCTTTCCCA
1 TCACATCTT-TTAAGGTACCGGATTCGCCATTGCGGCCTCAACCTTTCCCT
* * ** * * *
31951 TCGCATCTTCTAAGGTACCGGGCTCGCCGTTGCAGCCTCAACCTTTCCCA
1 TCACATCTTTTAAGGTACCGGATTCGCCATTGCGGCCTCAACCTTTCCCT
** * * * * * * *
32001 TCGTAT-TTTCTAAGGTATCGGAGTCACCGTCGCGGCCTTAATCTTTCCCT
1 TCACATCTTT-TAAGGTACCGGATTCGCCATTGCGGCCTCAACCTTTCCCT
* * * ** * *
32051 T--CGTCTCTTTATGGTACTAGG-TTCGCCATTGCGGGTTTAACCTTTCCCA
1 TCACATCT-TTTAAGGTAC-CGGATTCGCCATTGCGGCCTCAACCTTTCCCT
* * * *
32100 TCACCTCTTCTT-AGGTATC-GAGTTCGCCATTACGACCTCAACCTTTCCCT
1 TCACATCTT-TTAAGGTACCGGA-TTCGCCATTGCGGCCTCAACCTTTCCCT
*
32150 TCACATCTTTTAAGGTACCGGATTCGCCGTTGCGGCCTCAATCCTTT-CCT
1 TCACATCTTTTAAGGTACCGGATTCGCCATTGCGGCCTCAA-CCTTTCCCT
* * **
32200 T--CGTCTCTTCATA-GTATTAGG-TTCGCCATTGCGGCCTCAACCTTT-CCT
1 TCACATCT-TTTA-AGGTA-CCGGATTCGCCATTGCGGCCTCAACCTTTCCCT
* * * *
32248 ATCACCTCTTCTT-AGGTATCGGGTTCGCCATTGCGGCCTCAACCTTTCCTT
1 -TCACATCTT-TTAAGGTACCGGATTCGCCATTGCGGCCTCAACCTTTCCCT
* * * * *
32299 TCACATCTTTTAAGGTACCGAATTCACCGTTGCAGCCTCAATCC-TTCCAT
1 TCACATCTTTTAAGGTACCGGATTCGCCATTGCGGCCTCAA-CCTTTCCCT
* *
32349 T--CGTCTCTTTATGGTACCAGG-TTCGCCATTGCGGCCTCAACCTTTCCCT
1 TCACATCT-TTTAAGGTACC-GGATTCGCCATTGCGGCCTCAACCTTTCCCT
32398 TCACATCTTTTAAGGTACCGGATTC
1 TCACATCTTTTAAGGTACCGGATTC
32423 ACTGTTGTGG
Statistics
Matches: 403, Mismatches: 84, Indels: 68
0.73 0.15 0.12
Matches are distributed among these distances:
48 21 0.05
49 131 0.33
50 224 0.56
51 27 0.07
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (50 bp):
TCACATCTTTTAAGGTACCGGATTCGCCATTGCGGCCTCAACCTTTCCCT
Found at i:32438 original size:149 final size:149
Alignment explanation
Indices: 31852--32422 Score: 641
Period size: 149 Copynumber: 3.8 Consensus size: 149
31842 ATCATTCTCA
* * * * *
31852 TCACATCTTCTAAGGTACCGAGTTCACCGTTGCGGCCTCAA-CCTTTTCCTTCATATCTTCGTGG
1 TCACATCTTTTAAGGTACCGAATTCACCGTTGCGGCCTCAATCC-TTTCCTTCGTCTCTTCATGG
* * * * * * ** *
31916 TACCGGGTTTGCCATTACGACCTCAACCTTTCCCATCGCATCTTCTAAGGTACCGGGCTCGCCGT
65 TACCAGGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGATTCGCCAT
* *
31981 TGCAGCCTCAACCTTTCCCA
130 TGCGGCCTCAACCTTTCCCT
** * * * * * *
32001 TCGTAT-TTTCTAAGGTATCGGAGTCACCGTCGCGGCCTTAAT-CTTTCCCTTCGTCTCTTTATG
1 TCACATCTTT-TAAGGTACCGAATTCACCGTTGCGGCCTCAATCCTTT-CCTTCGTCTCTTCATG
* ** * * *
32064 GTACTAGGTTCGCCATTGCGGGTTTAACCTTTCCCATCACCTCTTCTTAGGTATC-GAGTTCGCC
64 GTACCAGGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGA-TTCGCC
* *
32128 ATTACGACCTCAACCTTTCCCT
128 ATTGCGGCCTCAACCTTTCCCT
* * *
32150 TCACATCTTTTAAGGTACCGGATTCGCCGTTGCGGCCTCAATCCTTTCCTTCGTCTCTTCATAGT
1 TCACATCTTTTAAGGTACCGAATTCACCGTTGCGGCCTCAATCCTTTCCTTCGTCTCTTCATGGT
** * * * *
32215 ATTAGGTTCGCCATTGCGGCCTCAACCTTTCCTATCACCTCTTCTTAGGTATCGGGTTCGCCATT
66 ACCAGGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGATTCGCCATT
*
32280 GCGGCCTCAACCTTTCCTT
131 GCGGCCTCAACCTTTCCCT
* *
32299 TCACATCTTTTAAGGTACCGAATTCACCGTTGCAGCCTCAATCC-TTCCATTCGTCTCTTTATGG
1 TCACATCTTTTAAGGTACCGAATTCACCGTTGCGGCCTCAATCCTTTCC-TTCGTCTCTTCATGG
*
32363 TACCAGGTTCGCCATTGCGGCCTCAACCTTTCCCTTCACATCTT-TTAAGGTACCGGATTC
65 TACCAGGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATCTTCTT-AGGTACCGGATTC
32423 ACTGTTGTGG
Statistics
Matches: 351, Mismatches: 62, Indels: 18
0.81 0.14 0.04
Matches are distributed among these distances:
148 12 0.03
149 331 0.94
150 8 0.02
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (149 bp):
TCACATCTTTTAAGGTACCGAATTCACCGTTGCGGCCTCAATCCTTTCCTTCGTCTCTTCATGGT
ACCAGGTTCGCCATTGCGGCCTCAACCTTTCCCATCACATCTTCTTAGGTACCGGATTCGCCATT
GCGGCCTCAACCTTTCCCT
Found at i:36747 original size:30 final size:28
Alignment explanation
Indices: 36704--36784 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
36694 TTTTGGAGAG
*
36704 TTTGGGGTTAAAATGTAATTTT-GAAAA
1 TTTGGGGTAAAAATGTAATTTTAGAAAA
*
36731 GTTTTAGGGGTAAAAATGTCATTTTAGGAAAA
1 --TTT-GGGGTAAAAATGTAATTTTA-GAAAA
* *
36763 TTTGGGATAAAAATGTGATTTT
1 TTTGGGGTAAAAATGTAATTTT
36785 TGGAAGTTCG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 20 0.44
30 20 0.44
32 5 0.11
ACGTcount: A:0.36, C:0.01, G:0.23, T:0.40
Consensus pattern (28 bp):
TTTGGGGTAAAAATGTAATTTTAGAAAA
Found at i:36832 original size:28 final size:29
Alignment explanation
Indices: 36771--36979 Score: 237
Period size: 29 Copynumber: 7.3 Consensus size: 29
36761 AATTTGGGAT
*
36771 AAAAATGTGATTTTTGGAAGTTCGGGGGC
1 AAAAATGTGATTTTTGGAAGTTCGAGGGC
*
36800 AAAAATGTGATTTTTGGAAGTTCGAGAG-
1 AAAAATGTGATTTTTGGAAGTTCGAGGGC
** * *
36828 AAAAAAATGATTTTTGAAAGTTCG-GGAC
1 AAAAATGTGATTTTTGGAAGTTCGAGGGC
*
36856 AAAAATGTGATTTTTGGAAGTT-TAGGGGC
1 AAAAATGTGATTTTTGGAAGTTCGA-GGGC
* *
36885 AAAAATGTAATTTTTGGAAGTTCG-GGGG
1 AAAAATGTGATTTTTGGAAGTTCGAGGGC
* * *
36913 TAAAATATGATTTTTGGATGTTCGAGGGC
1 AAAAATGTGATTTTTGGAAGTTCGAGGGC
* * *
36942 AAAAATATGATTTTTGGAAGGTTCAAGGTC
1 AAAAATGTGATTTTTGGAA-GTTCGAGGGC
36972 AAAAATGT
1 AAAAATGT
36980 ACTTTTAGAA
Statistics
Matches: 149, Mismatches: 25, Indels: 11
0.81 0.14 0.06
Matches are distributed among these distances:
27 1 0.01
28 63 0.42
29 70 0.47
30 15 0.10
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (29 bp):
AAAAATGTGATTTTTGGAAGTTCGAGGGC
Found at i:36849 original size:57 final size:57
Alignment explanation
Indices: 36778--36979 Score: 230
Period size: 57 Copynumber: 3.5 Consensus size: 57
36768 GATAAAAATG
*
36778 TGATTTTTGGAAGTTCGGGGGCAAAAATGTGATTTTTGGAAGTTCGAGAGAAAAAAA
1 TGATTTTTGGAAGTTCGGGGGCAAAAATGTGATTTTTGGAAGTTCGAGGGAAAAAAA
* * * **
36835 TGATTTTTGAAAGTTC-GGGACAAAAATGTGATTTTTGGAAGTT-TAGGGGCAAAAA
1 TGATTTTTGGAAGTTCGGGGGCAAAAATGTGATTTTTGGAAGTTCGAGGGAAAAAAA
* * * *
36890 TGTAATTTTTGGAAGTTCGGGGG-TAAAATATGATTTTTGGATGTTCGAGGGCAAAAATA
1 TG--ATTTTTGGAAGTTCGGGGGCAAAAATGTGATTTTTGGAAGTTCGAGGG-AAAAAAA
** *
36949 TGATTTTTGGAAGGTTCAAGGTCAAAAATGT
1 TGATTTTTGGAA-GTTCGGGGGCAAAAATGT
36980 ACTTTTAGAA
Statistics
Matches: 118, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
55 10 0.08
56 26 0.22
57 57 0.48
58 13 0.11
59 12 0.10
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (57 bp):
TGATTTTTGGAAGTTCGGGGGCAAAAATGTGATTTTTGGAAGTTCGAGGGAAAAAAA
Found at i:36985 original size:29 final size:29
Alignment explanation
Indices: 36953--37055 Score: 109
Period size: 30 Copynumber: 3.5 Consensus size: 29
36943 AAAATATGAT
* * *
36953 TTTTGGAAGGTTCAA-GGTCAAAAATGTAC
1 TTTTAGAAAGTTCAAGGGTC-AAAATGTAA
*
36982 TTTTAGAAAGTTTAAGGGTCAAAATGTAA
1 TTTTAGAAAGTTCAAGGGTCAAAATGTAA
* *
37011 TTTTTAGAAAGTTTAAGGGTCAAGATGTAA
1 -TTTTAGAAAGTTCAAGGGTCAAAATGTAA
*
37041 TTTTTAGATAGTTCA
1 -TTTTAGAAAGTTCA
37056 GGGACTTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
29 20 0.31
30 45 0.69
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.37
Consensus pattern (29 bp):
TTTTAGAAAGTTCAAGGGTCAAAATGTAA
Found at i:37002 original size:30 final size:31
Alignment explanation
Indices: 36968--37053 Score: 115
Period size: 30 Copynumber: 2.9 Consensus size: 31
36958 GAAGGTTCAA
36968 GGTCAAAAATGT-ACTTTTAGAAAGTTTAAG
1 GGTCAAAAATGTAACTTTTAGAAAGTTTAAG
*
36998 GGTC-AAAATGTAATTTTTAGAAAGTTTAAG
1 GGTCAAAAATGTAACTTTTAGAAAGTTTAAG
* * *
37028 GGTC-AAGATGTAATTTTTAGATAGTT
1 GGTCAAAAATGTAACTTTTAGAAAGTT
37054 CAGGGACTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
29 7 0.13
30 45 0.87
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (31 bp):
GGTCAAAAATGTAACTTTTAGAAAGTTTAAG
Found at i:38921 original size:17 final size:17
Alignment explanation
Indices: 38899--39010 Score: 109
Period size: 17 Copynumber: 6.5 Consensus size: 17
38889 GGACATTATT
38899 AATTTAAATTTAGAATA
1 AATTTAAATTTAGAATA
*
38916 ATTTTAAATTTAAGAATA
1 AATTTAAATTT-AGAATA
*
38934 AATTTAAACTTA-AATTA
1 AATTTAAATTTAGAA-TA
* *
38951 AATTTAAATTTTAAAACA
1 AATTTAAA-TTTAGAATA
* *
38969 AATTTAAACTTAAAATA
1 AATTTAAATTTAGAATA
** *
38986 AATTTAACCTTAAAATA
1 AATTTAAATTTAGAATA
39003 AATTTAAA
1 AATTTAAA
39011 AAAATGGGTT
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
16 2 0.02
17 51 0.62
18 27 0.33
19 2 0.02
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (17 bp):
AATTTAAATTTAGAATA
Found at i:38940 original size:35 final size:33
Alignment explanation
Indices: 38899--39010 Score: 134
Period size: 35 Copynumber: 3.2 Consensus size: 33
38889 GGACATTATT
* *
38899 AATTTAAATTTAGAATAATTTTAAATTTAAGAATA
1 AATTTAAACTTA-AATAAATTTAAATTTAA-AATA
*
38934 AATTTAAACTTAAATTAAATTTAAATTTTAAAACA
1 AATTTAAACTTAAA-TAAATTTAAA-TTTAAAATA
**
38969 AATTTAAACTTAAAATAAATTTAACCTTAAAATA
1 AATTTAAACTT-AAATAAATTTAAATTTAAAATA
39003 AATTTAAA
1 AATTTAAA
39011 AAAATGGGTT
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
34 17 0.25
35 43 0.63
36 8 0.12
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (33 bp):
AATTTAAACTTAAATAAATTTAAATTTAAAATA
Found at i:38955 original size:52 final size:52
Alignment explanation
Indices: 38899--39010 Score: 154
Period size: 52 Copynumber: 2.2 Consensus size: 52
38889 GGACATTATT
* * * * *
38899 AATTTAAA-TTTAGAATAATTTTAAATTTAAGAATAAATTTAAACTTAAATTA
1 AATTTAAATTTTAAAACAAATTTAAACTTAA-AATAAATTTAAACTTAAAATA
*
38951 AATTTAAATTTTAAAACAAATTTAAACTTAAAATAAATTTAACCTTAAAATA
1 AATTTAAATTTTAAAACAAATTTAAACTTAAAATAAATTTAAACTTAAAATA
39003 AATTTAAA
1 AATTTAAA
39011 AAAATGGGTT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 35 0.66
53 18 0.34
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (52 bp):
AATTTAAATTTTAAAACAAATTTAAACTTAAAATAAATTTAAACTTAAAATA
Found at i:38965 original size:7 final size:6
Alignment explanation
Indices: 38899--39010 Score: 58
Period size: 6 Copynumber: 19.3 Consensus size: 6
38889 GGACATTATT
* * *
38899 AATTTA AATTTA GAA--TA ATTTTA AATTTA AGA-ATA AATTTA AACTTA
1 AATTTA AATTTA -AATTTA AATTTA AATTTA A-ATTTA AATTTA AATTTA
** * *
38946 AA-TTA AATTTA AATTTTA AA-ACA AATTTA AACTTA AA-ATA AATTTA
1 AATTTA AATTTA AA-TTTA AATTTA AATTTA AATTTA AATTTA AATTTA
** *
38992 ACCTTA AA-ATA AATTTA AA
1 AATTTA AATTTA AATTTA AA
39011 AAAATGGGTT
Statistics
Matches: 79, Mismatches: 17, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
4 1 0.01
5 19 0.24
6 50 0.63
7 9 0.11
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.39
Consensus pattern (6 bp):
AATTTA
Found at i:47017 original size:2 final size:2
Alignment explanation
Indices: 47010--47039 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
47000 CACAACAAAG
47010 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47040 ATTATAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48726 original size:6 final size:7
Alignment explanation
Indices: 48707--48734 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
48697 GCCTTAATTC
48707 TTAAAAA
1 TTAAAAA
48714 TTAAAAA
1 TTAAAAA
48721 TTAAAAA
1 TTAAAAA
48728 TTAAAAA
1 TTAAAAA
48735 AACAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TTAAAAA
Found at i:49388 original size:19 final size:20
Alignment explanation
Indices: 49361--49399 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
49351 TTTTTGGTAT
49361 TTTAAAAAAT-ATTATTTTA
1 TTTAAAAAATAATTATTTTA
*
49380 TTTATAAAATAATTATTTTA
1 TTTAAAAAATAATTATTTTA
49400 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTAAAAAATAATTATTTTA
Found at i:49545 original size:16 final size:16
Alignment explanation
Indices: 49513--49542 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49503 TAATTTTTTA
49513 TTTTAAAGTTTTAAAT
1 TTTTAAAGTTTTAAAT
49529 TTTTAAA-TTTTAAA
1 TTTTAAAGTTTTAAA
49543 ATTAAGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTAAAGTTTTAAAT
Found at i:57805 original size:24 final size:24
Alignment explanation
Indices: 57748--57806 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
57738 TTAATAAGAT
*
57748 TTTAACTCAAACAAATAAACAGAG
1 TTTAACTGAAACAAATAAACAGAG
* *
57772 TTTAATTGAAACAATTAAACAGAG
1 TTTAACTGAAACAAATAAACAGAG
57796 TTTAACTGAAA
1 TTTAACTGAAA
57807 GATTGTTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (24 bp):
TTTAACTGAAACAAATAAACAGAG
Found at i:58541 original size:22 final size:22
Alignment explanation
Indices: 58509--58555 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
58499 AACTATAATA
*
58509 TTTTACATTTTTACCCCAAACCT
1 TTTTACATTTTCACCCCAAA-CT
*
58532 TTTTAC-TTTTCCCCCCAAACT
1 TTTTACATTTTCACCCCAAACT
58553 TTT
1 TTT
58556 ACTCATTCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 11 0.50
23 6 0.27
ACGTcount: A:0.21, C:0.32, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTTACATTTTCACCCCAAACT
Found at i:58564 original size:21 final size:22
Alignment explanation
Indices: 58522--58564 Score: 54
Period size: 20 Copynumber: 2.0 Consensus size: 22
58512 TACATTTTTA
*
58522 CCCCAAACCTTTTTACTTTTCC
1 CCCCAAACCTTTTTACTATTCC
58544 CCCCAAA-C-TTTTACTCATTCC
1 CCCCAAACCTTTTTACT-ATTCC
58565 TGCTTTTCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 5 0.26
22 7 0.37
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (22 bp):
CCCCAAACCTTTTTACTATTCC
Found at i:61957 original size:20 final size:19
Alignment explanation
Indices: 61932--62004 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 19
61922 TTAAATATAA
61932 ATTTTGAAATTTTTATAAAT
1 ATTTTGAAATTTTTA-AAAT
*
61952 ATTTTGAAA-TTTAAAAAT
1 ATTTTGAAATTTTTAAAAT
61970 CATTTTG-AATTTTTGAAAATT
1 -ATTTTGAAATTTTT-AAAA-T
*
61991 ATTTTGTAATTTTT
1 ATTTTGAAATTTTT
62005 GTTGAGAGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
18 6 0.13
19 13 0.28
20 19 0.41
21 8 0.17
ACGTcount: A:0.37, C:0.01, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTTTGAAATTTTTAAAAT
Found at i:75733 original size:18 final size:18
Alignment explanation
Indices: 75710--75744 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
75700 GAGTTAAATG
*
75710 AATCGAGTTATTAGAGTT
1 AATCGAATTATTAGAGTT
*
75728 AATCGAATTATTCGAGT
1 AATCGAATTATTAGAGT
75745 CAACTCAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (18 bp):
AATCGAATTATTAGAGTT
Found at i:77092 original size:64 final size:64
Alignment explanation
Indices: 77009--77155 Score: 199
Period size: 64 Copynumber: 2.3 Consensus size: 64
76999 ATAAACATAC
* * *
77009 AAAAA-ACAA-ACAAATAATTTGTTAATTTTTTGATAAAATGTAAATAAGTAGATTATTAATGT
1 AAAAATACAATACAAACAATTTATTAATTTTTTGATAAAATATAAATAAGTAGATTATTAATGT
* * * *
77071 AAAAATACAATACAAACAATTTATTCATTTTTTGGTAAATTATAAATAAGTAGATTATTGATGT
1 AAAAATACAATACAAACAATTTATTAATTTTTTGATAAAATATAAATAAGTAGATTATTAATGT
*
77135 AACAATACAATACAATACAAT
1 AAAAATACAATACAA-ACAAT
77156 ACAATACAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
62 5 0.07
63 4 0.05
64 60 0.81
65 5 0.07
ACGTcount: A:0.50, C:0.07, G:0.08, T:0.35
Consensus pattern (64 bp):
AAAAATACAATACAAACAATTTATTAATTTTTTGATAAAATATAAATAAGTAGATTATTAATGT
Found at i:77146 original size:5 final size:5
Alignment explanation
Indices: 77136--77165 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
77126 TATTGATGTA
77136 ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT
1 ACAAT ACAAT ACAAT ACAAT ACAAT ACAAT
77166 TTTTTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
ACAAT
Found at i:77420 original size:6 final size:6
Alignment explanation
Indices: 77393--77481 Score: 81
Period size: 6 Copynumber: 14.8 Consensus size: 6
77383 TCTAGCTCAT
* * * * * * * * *
77393 CATCTT CATCTT CATCTT CACCTC CACCTC CACCTC CACCTC CATTTG
1 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC
77441 CATCTC CATCTC CATCTC CATCTC CATCTC CA-CTC CTATCT
1 CATCTC CATCTC CATCTC CATCTC CATCTC CATCTC C-ATCT
77482 TGATCTTGAT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
5 4 0.05
6 68 0.92
7 2 0.03
ACGTcount: A:0.17, C:0.48, G:0.01, T:0.34
Consensus pattern (6 bp):
CATCTC
Found at i:81774 original size:98 final size:99
Alignment explanation
Indices: 81649--81832 Score: 325
Period size: 98 Copynumber: 1.9 Consensus size: 99
81639 CCTTTACAGG
* *
81649 GCACATTAAAGAAAATGATAACTTATCTTCTTGCTTTTATATTTGATAACATATAAATTT-AAGG
1 GCACATTAAAGAAAATGATAACTTATCTTCTCGCTTTTATAATTGATAACATATAAATTTAAAGG
*
81713 GGTTAAAAGAAAATGGCATTTTCTTTAAAGGTGA
66 GGTAAAAAGAAAATGGCATTTTCTTTAAAGGTGA
*
81747 GCACTTTAAAGAAAATGATAACTTATCTTCTCGCTTTTATAATTGATAACATATAAATTTAAAGG
1 GCACATTAAAGAAAATGATAACTTATCTTCTCGCTTTTATAATTGATAACATATAAATTTAAAGG
81812 GGTAAAAAGAAAATGGCATTT
66 GGTAAAAAGAAAATGGCATTT
81833 GCATACTAGT
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
98 57 0.70
99 24 0.30
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (99 bp):
GCACATTAAAGAAAATGATAACTTATCTTCTCGCTTTTATAATTGATAACATATAAATTTAAAGG
GGTAAAAAGAAAATGGCATTTTCTTTAAAGGTGA
Found at i:90849 original size:18 final size:17
Alignment explanation
Indices: 90826--90866 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
90816 ATTAATCGAC
*
90826 TGATTAATCGAATTCAAT
1 TGATTAACCGAATT-AAT
90844 TGATTAACCGAATTAAT
1 TGATTAACCGAATTAAT
90861 TCGATT
1 T-GATT
90867 TTACTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (17 bp):
TGATTAACCGAATTAAT
Found at i:113327 original size:19 final size:20
Alignment explanation
Indices: 113304--113353 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
113294 AAAAATATAG
113304 AAAAAGTTAT-TTAAAATATT
1 AAAAA-TTATATTAAAATATT
**
113324 AAAAATTATATTACCATATT
1 AAAAATTATATTAAAATATT
*
113344 AAAACTTATA
1 AAAAATTATA
113354 AATATTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAATTATATTAAAATATT
Found at i:115627 original size:77 final size:77
Alignment explanation
Indices: 115500--115653 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
115490 ATCCCTCCAA
115500 ATGTATTACTTCTTAGTTCTCACAAGTCTAAATCTACAGTATATTCCAATGTTATATAATTGAGT
1 ATGTATTACTTCTTAGTTCTCACAAGTCTAAATCTACAGTATATTCCAATGTTATATAATTGAGT
115565 CAAACTGTAGTG
66 CAAACTGTAGTG
115577 ATGTATTACTTCTTAGTTCTCACAAGTCTAAATCTACAGTATATTCCAATGTTATATAATTGAGT
1 ATGTATTACTTCTTAGTTCTCACAAGTCTAAATCTACAGTATATTCCAATGTTATATAATTGAGT
115642 CAAACTGTAGTG
66 CAAACTGTAGTG
115654 TCATCTGCGA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (77 bp):
ATGTATTACTTCTTAGTTCTCACAAGTCTAAATCTACAGTATATTCCAATGTTATATAATTGAGT
CAAACTGTAGTG
Found at i:122944 original size:25 final size:26
Alignment explanation
Indices: 122895--122944 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
122885 TTTATTGGAA
*
122895 TTTATTTCAATTGTTAATTAGTTTTT
1 TTTATTTCAATTGTTAATTAATTTTT
122921 TTTATGTT-AATT-TTAATTAATTTT
1 TTTAT-TTCAATTGTTAATTAATTTT
122945 AATTAGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 9 0.41
27 2 0.09
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (26 bp):
TTTATTTCAATTGTTAATTAATTTTT
Found at i:124244 original size:26 final size:25
Alignment explanation
Indices: 124215--124268 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
124205 AAAAACTATT
124215 AAAAA-TAGAAATTATTAAAATTTAAA
1 AAAAATTA-AAATTATTAAAA-TTAAA
* *
124241 AAAAATTATAATTTTTAAAATTAAA
1 AAAAATTAAAATTATTAAAATTAAA
124266 AAA
1 AAA
124269 TGAAATTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.32
26 15 0.60
27 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
AAAAATTAAAATTATTAAAATTAAA
Found at i:124583 original size:26 final size:25
Alignment explanation
Indices: 124554--124606 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 25
124544 ATGCAAACTC
124554 TTTTACATAATTTTTATTTTTTAATAT
1 TTTTA-ATAATTTTTATTTTTT-ATAT
*
124581 TTTTAATATTTTTTATTTTTTATAT
1 TTTTAATAATTTTTATTTTTTATAT
124606 T
1 T
124607 ATTTTTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 5 0.20
26 15 0.60
27 5 0.20
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTTAATAATTTTTATTTTTTATAT
Found at i:124585 original size:9 final size:9
Alignment explanation
Indices: 124563--124632 Score: 65
Period size: 9 Copynumber: 7.8 Consensus size: 9
124553 CTTTTACATA
124563 ATTTTT-AT
1 ATTTTTAAT
124571 -TTTTTAAT
1 ATTTTTAAT
124579 ATTTTTAAT
1 ATTTTTAAT
*
124588 ATTTTTTAT
1 ATTTTTAAT
124597 -TTTTTATATT
1 ATTTTTA-A-T
124607 ATTTTTAAT
1 ATTTTTAAT
**
124616 AAGGTTTAAT
1 -ATTTTTAAT
124626 ATTTTTA
1 ATTTTTA
124633 TAAATTCTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
7 5 0.10
8 7 0.14
9 23 0.46
10 9 0.18
11 6 0.12
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:124592 original size:19 final size:19
Alignment explanation
Indices: 124568--124631 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
124558 ACATAATTTT
124568 TATTTTTTAATATTTTTAA
1 TATTTTTTAATATTTTTAA
124587 TATTTTTT-AT-TTTTT-A
1 TATTTTTTAATATTTTTAA
**
124603 TATTATTTTTAATAAGGTTTAA
1 TA-T-TTTTTAAT-ATTTTTAA
124625 TATTTTT
1 TATTTTT
124632 ATAAATTCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
16 3 0.08
17 6 0.16
18 7 0.19
19 10 0.27
20 4 0.11
21 4 0.11
22 3 0.08
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (19 bp):
TATTTTTTAATATTTTTAA
Found at i:124605 original size:16 final size:16
Alignment explanation
Indices: 124564--124611 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
124554 TTTTACATAA
124564 TTTTTAT-TTTTTAATAT
1 TTTTTATATTTTT--TAT
*
124581 TTTTAATATTTTTTAT
1 TTTTTATATTTTTTAT
124597 TTTTTATATTATTTT
1 TTTTTATATT-TTTT
124612 TAATAAGGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 12 0.44
17 10 0.37
18 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTATATTTTTTAT
Found at i:124632 original size:19 final size:18
Alignment explanation
Indices: 124606--124706 Score: 57
Period size: 19 Copynumber: 5.6 Consensus size: 18
124596 TTTTTTATAT
124606 TATTTTTAATAAGGTTTAA
1 TATTTTTAATAA-GTTTAA
*
124625 TATTTTT-ATAAATTCTAA
1 TATTTTTAATAAGTT-TAA
* ** **
124643 AAAATTTAATAA-TTTTC
1 TATTTTTAATAAGTTTAA
*
124660 TATTATTTTAATAA-TTTTA
1 TA-T-TTTTAATAAGTTTAA
124679 TATTTTT-ATAAGGTTTAA
1 TATTTTTAATAA-GTTTAA
*
124697 AATTTTTAAT
1 TATTTTTAAT
124707 TTTTTTTAAA
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
16 4 0.06
17 8 0.13
18 24 0.38
19 27 0.43
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (18 bp):
TATTTTTAATAAGTTTAA
Found at i:124678 original size:28 final size:26
Alignment explanation
Indices: 124554--124687 Score: 92
Period size: 28 Copynumber: 4.9 Consensus size: 26
124544 ATGCAAACTC
* *
124554 TTTTACATAATTTTTAT-TTTTTAATA
1 TTTTA-ATAATTTTAATATTTTTATTA
* * *
124580 TTTTTAATATTTTTTATTTTTTATATTA
1 -TTTTAATAATTTTAATATTTT-TATTA
* *
124608 TTTTTAATAAGGTTTAATATTTTTATAAA
1 -TTTTAATAA-TTTTAATATTTTTAT-TA
* * *
124637 TTCTAAAAAATTTAATAATTTTCTATTA
1 TTTTAATAATTTTAAT-ATTTT-TATTA
124665 TTTTAATAATTTT-ATATTTTTAT
1 TTTTAATAATTTTAATATTTTTAT
124688 AAGGTTTAAA
Statistics
Matches: 87, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
25 3 0.03
26 15 0.17
27 17 0.20
28 39 0.45
29 13 0.15
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (26 bp):
TTTTAATAATTTTAATATTTTTATTA
Found at i:137542 original size:7 final size:7
Alignment explanation
Indices: 137530--137563 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
137520 GAGAACAATA
137530 AGTTGAG
1 AGTTGAG
137537 AGTTGAG
1 AGTTGAG
137544 AGTTGAG
1 AGTTGAG
137551 AGTTGAG
1 AGTTGAG
137558 AGTTGA
1 AGTTGA
137564 ATTGAATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.41, T:0.29
Consensus pattern (7 bp):
AGTTGAG
Found at i:142178 original size:2 final size:2
Alignment explanation
Indices: 142159--142204 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
142149 GAGTAAGGGT
142159 GA GA G- GA GA G- GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
142198 GA GA GA G
1 GA GA GA G
142205 TTGCAGAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:149619 original size:30 final size:30
Alignment explanation
Indices: 149500--149813 Score: 195
Period size: 30 Copynumber: 10.6 Consensus size: 30
149490 AAAATAGAAC
*
149500 TTTTGAAAAATTTGA-GGTTGAAAATGTAAT
1 TTTTGAAAAGTTTGAGGGTT-AAAATGTAAT
*
149530 TTTT-AGAAA-TTT-AGGGGTAAAATTGTAAT
1 TTTTGA-AAAGTTTGAGGGTTAAAA-TGTAAT
* * * *
149559 GTTTG-GATGTTCGAGGG-TAAAATGGTAAT
1 TTTTGAAAAGTTTGAGGGTTAAAAT-GTAAT
* *
149588 TTTAGAAAAGTTTGGGGGTTAAAATGTAAT
1 TTTTGAAAAGTTTGAGGGTTAAAATGTAAT
* * * *
149618 TTTAGAGAAA-TTTAAGGGTTAAAATATGAT
1 TTTTGA-AAAGTTTGAGGGTTAAAATGTAAT
* *
149648 TTTTGAGAAA-TTCGAGGG-TCAAATGTAAT
1 TTTTGA-AAAGTTTGAGGGTTAAAATGTAAT
** * * * *
149677 TTTTGCTAAGTTCGAGGGTCAAAATATGAT
1 TTTTGAAAAGTTTGAGGGTTAAAATGTAAT
* * *
149707 TTTTGAGAAG-TTAATGGGTCAAAATGTAAT
1 TTTTGAAAAGTTTGA-GGGTTAAAATGTAAT
**
149737 TTTTGTGAAGTTTGAGGGTTAAAATGTAAT
1 TTTTGAAAAGTTTGAGGGTTAAAATGTAAT
** * *
149767 TTTTGTGAAGTTT-AGGGATTAAAATATGAT
1 TTTTGAAAAGTTTGAGGG-TTAAAATGTAAT
149797 TTTT-AAGAAGTTT-AGGG
1 TTTTGAA-AAGTTTGAGGG
149814 ACCTTCGAAG
Statistics
Matches: 228, Mismatches: 40, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
28 9 0.04
29 58 0.25
30 149 0.65
31 12 0.05
ACGTcount: A:0.35, C:0.02, G:0.25, T:0.39
Consensus pattern (30 bp):
TTTTGAAAAGTTTGAGGGTTAAAATGTAAT
Found at i:149672 original size:59 final size:60
Alignment explanation
Indices: 149603--149771 Score: 198
Period size: 59 Copynumber: 2.8 Consensus size: 60
149593 AAAAGTTTGG
* * * * *
149603 GGGTTAAAATGTAATTTTAGAGAAATTTAAGGGTTAAAATATGATTTTTGAGAAATTCGA-
1 GGGTCAAAATGTAATTTTTGAGAAGTTTGAGGGTTAAAATATGATTTTTGAGAAATT-AAT
** * * *
149663 GGGTC-AAATGTAATTTTTGCTAAGTTCGAGGGTCAAAATATGATTTTTGAGAAGTTAAT
1 GGGTCAAAATGTAATTTTTGAGAAGTTTGAGGGTTAAAATATGATTTTTGAGAAATTAAT
* * *
149722 GGGTCAAAATGTAATTTTTGTGAAGTTTGAGGGTTAAAATGTAATTTTTG
1 GGGTCAAAATGTAATTTTTGAGAAGTTTGAGGGTTAAAATATGATTTTTG
149772 TGAAGTTTAG
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
58 1 0.01
59 48 0.53
60 42 0.46
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (60 bp):
GGGTCAAAATGTAATTTTTGAGAAGTTTGAGGGTTAAAATATGATTTTTGAGAAATTAAT
Found at i:149688 original size:89 final size:85
Alignment explanation
Indices: 149515--149791 Score: 234
Period size: 89 Copynumber: 3.1 Consensus size: 85
149505 AAAAATTTGA
* * * *
149515 GGTTGAAAATGTAATTTTTAGAAATTT-AGGGGTAAAATTGTAATGTTTGGATGTTCGAGGGTAA
1 GGTT-AAAATGTAATTTTGAGAAATTTAAGGGTTAAAATTG--ATTTTTGGAAGTTCGAGGGTAA
* *
149579 AATGGTAATTTTAGAAAAGTTTGGG
63 AAT-GTAATTTTTG-TAAGTTTGGG
* *
149604 GGTTAAAATGTAATTTTAGAGAAATTTAAGGGTTAAAATATGATTTTTGAGAAATTCGAGGGTCA
1 GGTTAAAATGTAATTTT-GAGAAATTTAAGGGTTAAAAT-TGATTTTTG-GAAGTTCGAGGGTAA
* *
149669 AATGTAATTTTTGCTAAGTTCGAG
63 AATGTAATTTTTG-TAAGTTTGGG
* * * * * * *
149693 GGTCAAAATATGATTTTTGAG-AAGTTAATGGGTCAAAATGTAATTTTTGTGAAGTTTGAGGGTT
1 GGTTAAAATGT-AATTTTGAGAAATTTAA-GGGTTAAAAT-TGATTTTTG-GAAGTTCGAGGG-T
*
149757 AAAATGTAATTTTTGTGAAGTTTAGG
61 AAAATGTAATTTTTGT-AAGTTTGGG
*
149783 GATTAAAAT
1 GGTTAAAAT
149792 ATGATTTTTA
Statistics
Matches: 153, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
88 19 0.12
89 74 0.48
90 58 0.38
91 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (85 bp):
GGTTAAAATGTAATTTTGAGAAATTTAAGGGTTAAAATTGATTTTTGGAAGTTCGAGGGTAAAAT
GTAATTTTTGTAAGTTTGGG
Found at i:149795 original size:90 final size:84
Alignment explanation
Indices: 149544--149813 Score: 243
Period size: 89 Copynumber: 3.0 Consensus size: 84
149534 AGAAATTTAG
* * * * *
149544 GGGTAAAATTGTAATGTTTGGATGTTCGAGGGTAAAATGGTAATTTTAGAAAAGTTTGGGGGTTA
1 GGGTAAAA-TGTAATTTTTGGAAGTTCGAGGGTAAAAT-GTAATTTTTG-TAAGTTT-AGGGTTA
* * * *
149609 AAATGTAATTTTAGAGAAATTTAA
62 AAATATGATTTTTGAG-AAGTTAA
* * * * * *
149633 GGGTTAAAATATGATTTTTGAGAAATTCGAGGGTCAAATGTAATTTTTGCTAAGTTCGAGGGTCA
1 GGG-TAAAATGTAATTTTTG-GAAGTTCGAGGGTAAAATGTAATTTTTG-TAAGTT-TAGGGTTA
149698 AAATATGATTTTTGAGAAGTTAA
62 AAATATGATTTTTGAGAAGTTAA
*
149721 TGGGTCAAAATGTAATTTTTGTGAAGTTTGAGGGTTAAAATGTAATTTTTGTGAAGTTTAGGGAT
1 -GGGT-AAAATGTAATTTTTG-GAAGTTCGAGGG-TAAAATGTAATTTTTGT-AAGTTTAGGG-T
* *
149786 TAAAATATGATTTTTAAGAAGTTTA
60 TAAAATATGATTTTTGAGAAGTTAA
149811 GGG
1 GGG
149814 ACCTTCGAAG
Statistics
Matches: 147, Mismatches: 26, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
88 7 0.05
89 77 0.52
90 63 0.43
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.38
Consensus pattern (84 bp):
GGGTAAAATGTAATTTTTGGAAGTTCGAGGGTAAAATGTAATTTTTGTAAGTTTAGGGTTAAAAT
ATGATTTTTGAGAAGTTAA
Found at i:149814 original size:30 final size:29
Alignment explanation
Indices: 149430--149813 Score: 188
Period size: 30 Copynumber: 12.9 Consensus size: 29
149420 ATTCAGGATG
* * *
149430 AAAACATAATTTTCGAGGAA-TTTATGGGTC
1 AAAATATAATTTTTGA-GAAGTTTA-GGGTT
* * * *
149460 AAAATTAAAATTTTTG-GAAAATTTTGGATT
1 AAAA-TATAATTTTTGAG-AAGTTTAGGGTT
* * * *
149490 AAAATAGAACTTTTGAAAAATTT-GAGGTT
1 AAAATATAATTTTTGAGAAGTTTAG-GGTT
* * *
149519 GAAAATGTAATTTTT-AGAAATTTAGGGGT
1 -AAAATATAATTTTTGAGAAGTTTAGGGTT
* * * *
149548 AAAATTGTAATGTTTG-GATGTTCGAGGG-T
1 AAAA-TATAATTTTTGAGAAGTT-TAGGGTT
* * * *
149577 AAAATGGTAATTTTAGAAAAGTTTGGGGGTT
1 AAAAT-ATAATTTTTGAGAAGTTT-AGGGTT
* * *
149608 AAAATGTAATTTTAGAGAAATTTAAGGGTT
1 AAAATATAATTTTTGAGAAGTTT-AGGGTT
* * *
149638 AAAATATGATTTTTGAGAAATTCGAGGG-T
1 AAAATATAATTTTTGAGAAGTT-TAGGGTT
* * ** * *
149667 CAAATGTAATTTTTGCTAAGTTCGAGGGTC
1 AAAATATAATTTTTGAGAAGTT-TAGGGTT
* * *
149697 AAAATATGATTTTTGAGAAGTTAATGGGTC
1 AAAATATAATTTTTGAGAAGTTTA-GGGTT
* *
149727 AAAATGTAATTTTTGTGAAGTTTGAGGGTT
1 AAAATATAATTTTTGAGAAGTTT-AGGGTT
* *
149757 AAAATGTAATTTTTGTGAAGTTTAGGGATT
1 AAAATATAATTTTTGAGAAGTTTAGGG-TT
* *
149787 AAAATATGATTTTTAAGAAGTTTAGGG
1 AAAATATAATTTTTGAGAAGTTTAGGG
149814 ACCTTCGAAG
Statistics
Matches: 280, Mismatches: 55, Indels: 38
0.75 0.15 0.10
Matches are distributed among these distances:
28 6 0.02
29 83 0.30
30 173 0.62
31 18 0.06
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (29 bp):
AAAATATAATTTTTGAGAAGTTTAGGGTT
Found at i:151003 original size:17 final size:17
Alignment explanation
Indices: 150975--151009 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
150965 ATGGATATTA
150975 AATAAAATATA-TTAAT
1 AATAAAATATATTTAAT
150991 AATAAATATATATTTAAT
1 AATAAA-ATATATTTAAT
151009 A
1 A
151010 TGTACCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 5 0.29
18 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AATAAAATATATTTAAT
Found at i:151992 original size:48 final size:48
Alignment explanation
Indices: 151921--152044 Score: 212
Period size: 48 Copynumber: 2.6 Consensus size: 48
151911 ATCTCTCGGT
* *
151921 CTACTTCTTTGTATCTCATCATGAAGATGATCGCTTTATTGCTTCGAC
1 CTACTTCTCTGTATCTCATCATGAAGATGACCGCTTTATTGCTTCGAC
151969 CTACTTCTCTGTATCTCATCATGAAGATGACCGCTTTATTGCTTCGAC
1 CTACTTCTCTGTATCTCATCATGAAGATGACCGCTTTATTGCTTCGAC
* *
152017 CTATTTCTCTGTATCTCATCAGGAAGAT
1 CTACTTCTCTGTATCTCATCATGAAGAT
152045 AAGGGTTTAA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.40
Consensus pattern (48 bp):
CTACTTCTCTGTATCTCATCATGAAGATGACCGCTTTATTGCTTCGAC
Found at i:160525 original size:70 final size:62
Alignment explanation
Indices: 160440--160598 Score: 221
Period size: 62 Copynumber: 2.5 Consensus size: 62
160430 AATCCAAGTA
160440 AACAA-AACACAACAAGATTATAATACAAAAAAAGCAAAAGTTCAAGTAAACAACATAAGCTCAA
1 AACAATAACACAACAAGATTATAA-A-AAAAAAA--AAAA----AAGTAAACAACATAAGCTCAA
160504 GTAAC
58 GTAAC
*
160509 AACAATAACACAACAAGATTATAAAAAATAAAAAAAAAGTAAACAACATAAGCTCAAGTAAC
1 AACAATAACACAACAAGATTATAAAAAAAAAAAAAAAAGTAAACAACATAAGCTCAAGTAAC
*
160571 AACAATAACACAGCAAGATTATAAAAAA
1 AACAATAACACAACAAGATTATAAAAAA
160599 TATATATAAG
Statistics
Matches: 87, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
62 53 0.61
66 4 0.05
68 6 0.07
69 6 0.07
70 18 0.21
ACGTcount: A:0.62, C:0.16, G:0.08, T:0.14
Consensus pattern (62 bp):
AACAATAACACAACAAGATTATAAAAAAAAAAAAAAAAGTAAACAACATAAGCTCAAGTAAC
Found at i:160554 original size:62 final size:62
Alignment explanation
Indices: 160483--160600 Score: 227
Period size: 62 Copynumber: 1.9 Consensus size: 62
160473 GCAAAAGTTC
160483 AAGTAAACAACATAAGCTCAAGTAACAACAATAACACAACAAGATTATAAAAAATAAAAAAA
1 AAGTAAACAACATAAGCTCAAGTAACAACAATAACACAACAAGATTATAAAAAATAAAAAAA
*
160545 AAGTAAACAACATAAGCTCAAGTAACAACAATAACACAGCAAGATTATAAAAAATA
1 AAGTAAACAACATAAGCTCAAGTAACAACAATAACACAACAAGATTATAAAAAATA
160601 TATATAAGTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.62, C:0.15, G:0.08, T:0.15
Consensus pattern (62 bp):
AAGTAAACAACATAAGCTCAAGTAACAACAATAACACAACAAGATTATAAAAAATAAAAAAA
Found at i:160925 original size:3 final size:3
Alignment explanation
Indices: 160917--160948 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
160907 AGCCACAGCA
*
160917 AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
160949 TGGAGTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:161171 original size:58 final size:58
Alignment explanation
Indices: 161107--161221 Score: 180
Period size: 58 Copynumber: 2.0 Consensus size: 58
161097 AAAATGAATT
*
161107 GTTTATGAGTG-TTATTTAGGAATAAAATTATATTT-GAGTTTAAAAATATTTGGGTTTA
1 GTTTATGAGTGCTT-TTTAAGAATAAAATTATATTTAGA-TTTAAAAATATTTGGGTTTA
*
161165 GTTTATGAGTGCTTTTTAAGAATGAAATTATATTTAGATTTAAAAATATTTGGGTTT
1 GTTTATGAGTGCTTTTTAAGAATAAAATTATATTTAGATTTAAAAATATTTGGGTTT
161222 TGGGGGAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
58 49 0.92
59 4 0.08
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (58 bp):
GTTTATGAGTGCTTTTTAAGAATAAAATTATATTTAGATTTAAAAATATTTGGGTTTA
Found at i:161741 original size:21 final size:22
Alignment explanation
Indices: 161701--161741 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
161691 TGTTACACGT
*
161701 GATCAGTAGCTTCTCTCATTTG
1 GATCAGTAGCTTCTCCCATTTG
*
161723 GATCAGT-GCTTTTCCCATT
1 GATCAGTAGCTTCTCCCATT
161742 ACATAATCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (22 bp):
GATCAGTAGCTTCTCCCATTTG
Found at i:162203 original size:20 final size:20
Alignment explanation
Indices: 162175--162213 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
162165 GAACGAAGCT
162175 TCTTATAAACCTTCTTCAAG
1 TCTTATAAACCTTCTTCAAG
* *
162195 TCTTCTAAATCTTCTTCAA
1 TCTTATAAACCTTCTTCAA
162214 CTTAGTTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.26, G:0.03, T:0.44
Consensus pattern (20 bp):
TCTTATAAACCTTCTTCAAG
Found at i:163679 original size:18 final size:18
Alignment explanation
Indices: 163656--163691 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
163646 TCTACTCTAT
163656 CAAGAAATCCGTCTTCCA
1 CAAGAAATCCGTCTTCCA
* *
163674 CAAGAAATTCGTTTTCCA
1 CAAGAAATCCGTCTTCCA
163692 TGATGAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (18 bp):
CAAGAAATCCGTCTTCCA
Found at i:165590 original size:29 final size:30
Alignment explanation
Indices: 165558--165810 Score: 95
Period size: 30 Copynumber: 8.5 Consensus size: 30
165548 TGATCTTTTA
*
165558 AAAATAGTAATTTTTGGAT-GTTCG-GGGGT
1 AAAAT-GTAATTTTTAGATAGTTCGAGGGGT
*
165587 AAAATGGTAA-TTTTAGATAAGTTCGAGGGTT
1 AAAAT-GTAATTTTTAGAT-AGTTCGAGGGGT
* *
165618 AAAATGTAATTTTAAAGA-AGTT-TAGGGGTT
1 AAAATGTAATTTT-TAGATAGTTCGAGGGG-T
* * ** *
165648 AAAATGTGATTTTTGAGA-AATTTAAGGGTT
1 AAAATGTAATTTTT-AGATAGTTCGAGGGGT
* * * *
165678 AAAATATAATTTTT-GTAAAGTTTGAGGGTT
1 AAAATGTAATTTTTAG-ATAGTTCGAGGGGT
* * * *
165708 AAAATATGATTTTGAGA-AGTTCGA--AGT
1 AAAATGTAATTTTTAGATAGTTCGAGGGGT
*
165735 CAAAATGTAATTTTTACGAT-GTTTTGA--GGT
1 -AAAATGTAATTTTTA-GATAG-TTCGAGGGGT
* *
165765 CAAAATGTAATTTTT-GCAAAGTT-TAGGGGT
1 -AAAATGTAATTTTTAG-ATAGTTCGAGGGGT
*
165795 CAAAATGTGATTTTTA
1 -AAAATGTAATTTTTA
165811 AGAAGTTTGG
Statistics
Matches: 176, Mismatches: 28, Indels: 38
0.73 0.12 0.16
Matches are distributed among these distances:
27 1 0.01
28 22 0.12
29 26 0.15
30 107 0.61
31 17 0.10
32 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.23, T:0.39
Consensus pattern (30 bp):
AAAATGTAATTTTTAGATAGTTCGAGGGGT
Found at i:165639 original size:30 final size:30
Alignment explanation
Indices: 165558--165748 Score: 142
Period size: 30 Copynumber: 6.4 Consensus size: 30
165548 TGATCTTTTA
* * *
165558 AAAATAGTAATTTTTG-GATGTTCG-GGGGT
1 AAAAT-GTAATTTTAGAGAAGTTCGAGGGTT
*
165587 AAAATGGTAATTTTAGATAAGTTCGAGGGTT
1 AAAAT-GTAATTTTAGAGAAGTTCGAGGGTT
* *
165618 AAAATGTAATTTTAAAGAAGTT-TAGGGGTT
1 AAAATGTAATTTTAGAGAAGTTCGA-GGGTT
* * * **
165648 AAAATGTGATTTTTGAGAAATTTAAGGGTT
1 AAAATGTAATTTTAGAGAAGTTCGAGGGTT
* * *
165678 AAAATATAATTTTTGTA-AAGTTTGAGGGTT
1 AAAATGTAATTTTAG-AGAAGTTCGAGGGTT
* * * *
165708 AAAATATGATTTT-GAGAAGTTCGA-AGTC
1 AAAATGTAATTTTAGAGAAGTTCGAGGGTT
165736 AAAATGTAATTTT
1 AAAATGTAATTTT
165749 TACGATGTTT
Statistics
Matches: 133, Mismatches: 23, Indels: 13
0.79 0.14 0.08
Matches are distributed among these distances:
28 14 0.11
29 23 0.17
30 85 0.64
31 11 0.08
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTAGAGAAGTTCGAGGGTT
Found at i:165646 original size:60 final size:59
Alignment explanation
Indices: 165582--165822 Score: 188
Period size: 60 Copynumber: 4.1 Consensus size: 59
165572 TGGATGTTCG
* * * *
165582 GGGGTAAAATGGTAATTTTAGATAAGTTCGAGGGTTAAAATGTAATTTTAAAGAAGTTTA
1 GGGGTAAAAT-GTAATTTTTGAGAAGTTCGAGGGTCAAAATGTAATTTTTAAGAAGTTTA
* * ** * * *
165642 GGGGTTAAAATGTGATTTTTGAGAAATTTAAGGGTTAAAATATAATTTTTGTA-AAGTTTGA
1 GGGG-TAAAATGTAATTTTTGAGAAGTTCGAGGGTCAAAATGTAATTTTT-AAGAAGTTT-A
* * * * * * *
165703 GGGTTAAAATATGA-TTTTGAGAAGTTCGA-AGTCAAAATGTAATTTTTACGATGTTTT
1 GGGGTAAAATGTAATTTTTGAGAAGTTCGAGGGTCAAAATGTAATTTTTAAGAAGTTTA
* * *
165760 GAGGTCAAAATGTAATTTTTGCA-AAGTT-TAGGGGTCAAAATGTGATTTTTAAGAAGTTT-
1 GGGGT-AAAATGTAATTTTTG-AGAAGTTCGA-GGGTCAAAATGTAATTTTTAAGAAGTTTA
165819 GGGG
1 GGGG
165823 ACATTCGAAG
Statistics
Matches: 141, Mismatches: 31, Indels: 19
0.74 0.16 0.10
Matches are distributed among these distances:
57 3 0.02
58 28 0.20
59 25 0.18
60 74 0.52
61 11 0.08
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (59 bp):
GGGGTAAAATGTAATTTTTGAGAAGTTCGAGGGTCAAAATGTAATTTTTAAGAAGTTTA
Found at i:165768 original size:30 final size:30
Alignment explanation
Indices: 165618--165818 Score: 110
Period size: 30 Copynumber: 6.8 Consensus size: 30
165608 TTCGAGGGTT
* * *
165618 AAAATGTAA-TTTTAAAGAAGTTTAGGGGTT
1 AAAATGTAATTTTTACA-AAGTTTAGAGGTC
* * *
165648 AAAATGTGATTTTTGAGAAA-TTTA-AGGGTT
1 AAAATGTAATTTTT-ACAAAGTTTAGA-GGTC
* ** *
165678 AAAATATAATTTTTGTAAAGTTT-GAGGGTT
1 AAAATGTAATTTTTACAAAGTTTAGA-GGTC
* * * * * *
165708 AAAATATGATTTTGA-GAAG-TTCGAAGTC
1 AAAATGTAATTTTTACAAAGTTTAGAGGTC
* * *
165736 AAAATGTAATTTTTACGATGTTTTGAGGTC
1 AAAATGTAATTTTTACAAAGTTTAGAGGTC
* *
165766 AAAATGTAATTTTTGCAAAGTTTAGGGGTC
1 AAAATGTAATTTTTACAAAGTTTAGAGGTC
*
165796 AAAATGTGATTTTTA-AGAAGTTT
1 AAAATGTAATTTTTACA-AAGTTT
165819 GGGGACATTC
Statistics
Matches: 136, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
28 16 0.12
29 12 0.09
30 100 0.74
31 6 0.04
32 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.39
Consensus pattern (30 bp):
AAAATGTAATTTTTACAAAGTTTAGAGGTC
Found at i:166989 original size:17 final size:17
Alignment explanation
Indices: 166961--166995 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
166951 ATGGATATTA
166961 AATAAAATGTA-TTAAT
1 AATAAAATGTATTTAAT
166977 AATAAATATGTATTTAAT
1 AATAAA-ATGTATTTAAT
166995 A
1 A
166996 TGTACCTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 5 0.29
18 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (17 bp):
AATAAAATGTATTTAAT
Found at i:170272 original size:58 final size:58
Alignment explanation
Indices: 170182--170299 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
170172 AAAGTAGTTT
170182 TTCACTACAACAGGAGAAGCATATTGACATATATATTAAACCTAAGTCTACCAAATGA
1 TTCACTACAACAGGAGAAGCATATTGACATATATATTAAACCTAAGTCTACCAAATGA
170240 TTCACTACAACAGGAGAAGCATATTGACATATATATTAAACCTAAGTCTACCAAATGA
1 TTCACTACAACAGGAGAAGCATATTGACATATATATTAAACCTAAGTCTACCAAATGA
170298 TT
1 TT
170300 ATGGAAGTAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (58 bp):
TTCACTACAACAGGAGAAGCATATTGACATATATATTAAACCTAAGTCTACCAAATGA
Found at i:170397 original size:2 final size:2
Alignment explanation
Indices: 170390--170431 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
170380 TTGGTACCTG
170390 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
170432 GGTGCATGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:172522 original size:19 final size:19
Alignment explanation
Indices: 172491--172552 Score: 67
Period size: 18 Copynumber: 3.3 Consensus size: 19
172481 TAAAATATAA
172491 ATTTTGAAATTTTTATAAAT
1 ATTTTG-AATTTTTATAAAT
*
172511 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTATAAA-T
172530 ATTTTGAATTATTT-TAAA-
1 ATTTTGAATT-TTTATAAAT
172548 ATTTT
1 ATTTT
172553 TGTTAAGAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
18 13 0.35
19 11 0.30
20 10 0.27
21 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
ATTTTGAATTTTTATAAAT
Found at i:172553 original size:19 final size:18
Alignment explanation
Indices: 172491--172554 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 18
172481 TAAAATATAA
172491 ATTTTGAAATTTTTATAAAT
1 ATTTTG-AATTTTTA-AAAT
*
172511 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTTAAAA-T
172530 ATTTTGAATTATTTTAAAAT
1 ATTTTGAA-T-TTTTAAAAT
172550 -TTTTG
1 ATTTTG
172555 TTAAGAATGA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 3 0.08
19 21 0.54
20 8 0.21
21 7 0.18
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
ATTTTGAATTTTTAAAAT
Done.