Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3601_ERROPOS3364835
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: 91491
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Found at i:3185 original size:45 final size:45
Alignment explanation
Indices: 3134--3224 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
3124 ATATATAAGA
3134 AAGGTTTTTATTGCTTTTTTAATAGCTAATAATTCTTTTTCATAT
1 AAGGTTTTTATTGCTTTTTTAATAGCTAATAATTCTTTTTCATAT
3179 AAGGTTTTTATTGCTTTTTTAATAGCTAATAATTCTTTTTCATAT
1 AAGGTTTTTATTGCTTTTTTAATAGCTAATAATTCTTTTTCATAT
3224 A
1 A
3225 TAGCATAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (45 bp):
AAGGTTTTTATTGCTTTTTTAATAGCTAATAATTCTTTTTCATAT
Found at i:5857 original size:4 final size:4
Alignment explanation
Indices: 5848--5872 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
5838 GTGTAACGTG
5848 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
5873 TAGAAAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:7182 original size:21 final size:21
Alignment explanation
Indices: 7156--7198 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7146 GGTTCGCCGT
* *
7156 ATTGGATTATAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
7177 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
7198 A
1 A
7199 ATAGAGGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:7198 original size:16 final size:16
Alignment explanation
Indices: 7179--7211 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7169 TGTATTGGAT
*
7179 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
7195 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
7211 T
1 T
7212 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:7256 original size:45 final size:44
Alignment explanation
Indices: 7190--7284 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
7180 GGATTAGAGG
* *
7190 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
7235 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
7279 TGTAAT
1 TGTAAT
7285 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:7473 original size:18 final size:17
Alignment explanation
Indices: 7452--7486 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7442 TTATTATTTA
*
7452 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7470 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7487 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7480 original size:28 final size:27
Alignment explanation
Indices: 7410--7482 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
7400 TTTATTATCA
*
7410 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
7438 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
7465 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
7483 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:7573 original size:144 final size:147
Alignment explanation
Indices: 7371--7642 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
7361 ATTGTTATTG
7371 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
7436 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
7501 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
7520 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
7582 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
7643 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:7617 original size:18 final size:17
Alignment explanation
Indices: 7596--7630 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7586 TTATTATTAA
*
7596 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7614 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7631 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7674 original size:54 final size:54
Alignment explanation
Indices: 7616--7794 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
7606 ATTAAAATAT
*
7616 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
7670 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
7733 TAT
53 -AC
*
7736 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
7790 ATAAT
1 ATAAT
7795 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:7676 original size:61 final size:61
Alignment explanation
Indices: 7611--7798 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
7601 TTTTAATTAA
*
7611 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
7672 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
7731 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
7792 AATATAT
1 AATATAT
7799 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:7709 original size:120 final size:120
Alignment explanation
Indices: 7579--7801 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
7569 ATCATATTTA
* *
7579 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
7644 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
7699 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
7764 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
7802 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:7737 original size:18 final size:17
Alignment explanation
Indices: 7716--7750 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7706 TTATTATTAA
7716 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
7734 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
7751 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:7813 original size:17 final size:16
Alignment explanation
Indices: 7791--7837 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
7781 ACTCAAATCA
7791 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
7808 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
7822 TAAATATATGATTTAA
1 T-AATATATGATTTAA
7838 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:7838 original size:17 final size:17
Alignment explanation
Indices: 7810--7843 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7800 ATTATAACTA
*
7810 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
7827 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
7844 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:7986 original size:93 final size:92
Alignment explanation
Indices: 7876--8070 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
7866 GATTATAGTT
* * *
7876 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
7939 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
7969 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
8034 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
8061 TATGAATTTA
1 TATGAATTTA
8071 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:14062 original size:20 final size:22
Alignment explanation
Indices: 14037--14076 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
14027 CTGTAAACAA
*
14037 TGTAAAGTT-ATTCT-TTTCTT
1 TGTAAAATTAATTCTATTTCTT
14057 TGTAAAATTAATTCTATTTC
1 TGTAAAATTAATTCTATTTC
14077 CTATAGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 5 0.29
22 4 0.24
ACGTcount: A:0.28, C:0.10, G:0.07, T:0.55
Consensus pattern (22 bp):
TGTAAAATTAATTCTATTTCTT
Found at i:16229 original size:7 final size:7
Alignment explanation
Indices: 16217--16241 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
16207 AATGAGGTAA
16217 AAAATTT
1 AAAATTT
16224 AAAATTT
1 AAAATTT
16231 AAAATTT
1 AAAATTT
16238 AAAA
1 AAAA
16242 CTTGTTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:18132 original size:29 final size:29
Alignment explanation
Indices: 18096--18151 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
18086 TAAACACCCC
18096 ACTAAACCGA-CCACTAACTCCATCACCTT
1 ACTAAACC-ATCCACTAACTCCATCACCTT
*
18125 ACTAAACCATCCACTACCTCCATCACC
1 ACTAAACCATCCACTAACTCCATCACC
18152 CTCACACCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.34, C:0.45, G:0.02, T:0.20
Consensus pattern (29 bp):
ACTAAACCATCCACTAACTCCATCACCTT
Found at i:18171 original size:37 final size:37
Alignment explanation
Indices: 18119--18190 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
18109 CTAACTCCAT
*
18119 CACCTTACTAAACCATCCACTACCTCCATCACCCTCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCTCA
*
18156 CACCCTACTAAACCATCCACTACCTCCATTACCCT
1 CACCCTACTAAACCATCCACTACCTCCATCACCCT
18191 ACTTGTTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.29, C:0.49, G:0.00, T:0.22
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCTCA
Found at i:18593 original size:63 final size:62
Alignment explanation
Indices: 18487--18605 Score: 143
Period size: 63 Copynumber: 1.9 Consensus size: 62
18477 TATTTTATTG
* * *
18487 TTAAATTAATTAATTTGAGCTTTATTCACATTATATTTATATTTGTTTTTTATTATTTTCTA
1 TTAAATTAATTAATTTGAGCTTTATTCACATTATATATATATTTATTTATTATTATTTTCTA
* * *
18549 TTAATTTAATTAATTTGAG-TTATGTTTCATATTAT-TATATTATTTATTTATTATTAT
1 TTAAATTAATTAATTTGAGCTT-T-ATTCACATTATATATA-TATTTATTTATTATTAT
18606 ATATTTATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
61 2 0.04
62 22 0.46
63 24 0.50
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (62 bp):
TTAAATTAATTAATTTGAGCTTTATTCACATTATATATATATTTATTTATTATTATTTTCTA
Found at i:18602 original size:19 final size:18
Alignment explanation
Indices: 18578--18614 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
18568 TTATGTTTCA
18578 TATTATTATATTATTTATT
1 TATTATTATA-TATTTATT
18597 TATTATTATATATTTATT
1 TATTATTATATATTTATT
18615 ATGTAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTATTATATATTTATT
Found at i:18626 original size:17 final size:14
Alignment explanation
Indices: 18586--18616 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
18576 CATATTATTA
*
18586 TATTATTTATTTAT
1 TATTATATATTTAT
18600 TATTATATATTTAT
1 TATTATATATTTAT
18614 TAT
1 TAT
18617 GTAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTATATATTTAT
Found at i:19300 original size:126 final size:126
Alignment explanation
Indices: 19075--19314 Score: 426
Period size: 126 Copynumber: 1.9 Consensus size: 126
19065 CATTGATCTT
* *
19075 CTCTCAAAATTTTTCAAAATAAAGGTAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCCTA
*
19140 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTTGAATATCCTCTTACCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
*
19201 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCCTA
* *
19266 ACGTACTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATGTCCT
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCT
19315 TTTAAGGCTA
Statistics
Matches: 108, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 108 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
CTCTCAAAAATTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCA
Found at i:22846 original size:21 final size:21
Alignment explanation
Indices: 22822--22866 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
22812 GAGGGATCAA
*
22822 ATGCTAGAGTCCCAGAAA-AAC
1 ATGCTAGAGTCACA-AAACAAC
*
22843 ATGCTGGAGTCACAAAACAAC
1 ATGCTAGAGTCACAAAACAAC
22864 ATG
1 ATG
22867 ATAAGCCAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (21 bp):
ATGCTAGAGTCACAAAACAAC
Found at i:24413 original size:46 final size:45
Alignment explanation
Indices: 24361--24536 Score: 151
Period size: 46 Copynumber: 3.8 Consensus size: 45
24351 TGGTTGAGCA
24361 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * * *
24407 TTCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* * * *
24452 CATCCGAGCTCGTTGAATTAAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
24500 CCCGAGCTTGTTGAGTTGAGTCCGAGTTTACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24537 GTGGGTTACA
Statistics
Matches: 102, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.58
47 24 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:24517 original size:93 final size:93
Alignment explanation
Indices: 24358--24527 Score: 250
Period size: 93 Copynumber: 1.8 Consensus size: 93
24348 GGATGGTTGA
* * * **
24358 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAATTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
24423 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* * * *
24451 GCATCCGAGCTCGTTGAATTAAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAATTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
24516 TGAGTCCGAGTT
66 TGAGTCCAAGTT
24528 TACTTATGGG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 67 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAATTAAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:27336 original size:19 final size:17
Alignment explanation
Indices: 27299--27341 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
27289 GTGGTATTAT
* *
27299 CATAATTCAATTCATAA
1 CATAAATCAATTCAAAA
27316 CATCAAATCAAGTTCAAAA
1 CAT-AAATCAA-TTCAAAA
27335 CATAAAT
1 CATAAAT
27342 GCACAAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (17 bp):
CATAAATCAATTCAAAA
Found at i:30127 original size:46 final size:45
Alignment explanation
Indices: 29979--30145 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 45
29969 TGAGATTCGT
* **
29979 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACTGTTAC-A
* * * * *
30027 GGGCTAGTGTAAGACATGTCTGGGACATGCATCAGC-CATATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAC-TGTTA-CA
* *
30073 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACGGTTACA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACTGTTACA
* *
30118 TGTGTCAGTGTAAGACCTGTCTGGGACA
1 -GTGCCAGTGTAAGACATGTCTGGGACA
30146 CGGCATCGAC
Statistics
Matches: 98, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 70 0.71
47 15 0.15
48 12 0.12
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCACTGTTACA
Found at i:33576 original size:46 final size:46
Alignment explanation
Indices: 33524--33699 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
33514 TGGTTGAGCA
33524 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
33570 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
33615 CATCCGAGCTCGTTGAGTTAAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
33663 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33700 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.56
47 25 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:33680 original size:93 final size:93
Alignment explanation
Indices: 33521--33690 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
33511 GGATGGTTGA
* * *
33521 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGT
33586 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
33614 GCATCCGAGCTCGTTGAGTTAAGTCTGAGTTCACTTATGGATGCGAACGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCTC-GAACTCGTTGAG
33678 TTGAGTCCGAGTT
65 TTGAGTCCGAGTT
33691 TACTTATGGG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37412 original size:13 final size:13
Alignment explanation
Indices: 37391--37444 Score: 69
Period size: 13 Copynumber: 4.3 Consensus size: 13
37381 TTTCAAAAAC
37391 AAAAA-AAAGAGA
1 AAAAAGAAAGAGA
37403 AAAAAGAAAGAGA
1 AAAAAGAAAGAGA
*
37416 AAAAAGGAAAAAG-
1 AAAAA-GAAAGAGA
37429 AAAAAG-AAGAGA
1 AAAAAGAAAGAGA
37441 AAAA
1 AAAA
37445 CAAAAAAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
11 4 0.11
12 10 0.27
13 17 0.46
14 6 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAGAGA
Found at i:37426 original size:6 final size:6
Alignment explanation
Indices: 37385--37467 Score: 55
Period size: 6 Copynumber: 13.7 Consensus size: 6
37375 CTTCACTTTC
* * *
37385 AAAAAC AAAAA- AAAGAG AAAAAAG AAAGAG AAAAAAGG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG -AAAAAG AAAAAG -AAAAA-G AAAAAG AAAAAG
* * *
37435 -AAGAG AAAAACA AAAAAG AGAAAG -AAAAG AAAA
1 AAAAAG AAAAA-G AAAAAG AAAAAG AAAAAG AAAA
37468 GCAAATGAGA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
5 12 0.20
6 28 0.47
7 19 0.32
8 1 0.02
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:37426 original size:20 final size:22
Alignment explanation
Indices: 37393--37462 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 22
37383 TCAAAAACAA
*
37393 AAAAAAGAGAAAAAAGAAAGAG
1 AAAAAAGAGAAAAAAGAAAAAG
37415 AAAAAAG-G-AAAAAGAAAAAG
1 AAAAAAGAGAAAAAAGAAAAAG
* * *
37435 AAGAGAAAAACAAAAAAGAGAAAG
1 AA-A-AAAGAGAAAAAAGAAAAAG
37459 AAAA
1 AAAA
37463 GAAAAGCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 13 0.32
21 2 0.05
22 11 0.28
23 1 0.03
24 13 0.32
ACGTcount: A:0.79, C:0.01, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAAAAGAGAAAAAAGAAAAAG
Found at i:37427 original size:38 final size:41
Alignment explanation
Indices: 37385--37472 Score: 110
Period size: 38 Copynumber: 2.2 Consensus size: 41
37375 CTTCACTTTC
* *
37385 AAAAACAAAAAAAAGAG-AAAA-AAGAAAGAGAAA-AAAGG
1 AAAAACAAAAAAAAGAGAAAAACAAAAAAGAGAAAGAAAAG
* *
37423 AAAAAGAAAAAGAAGAGAAAAACAAAAAAGAGAAAGAAAAG
1 AAAAACAAAAAAAAGAGAAAAACAAAAAAGAGAAAGAAAAG
*
37464 AAAAGCAAA
1 AAAAACAAA
37473 TGAGAGGCCA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 15 0.37
39 4 0.10
40 11 0.27
41 11 0.27
ACGTcount: A:0.78, C:0.03, G:0.18, T:0.00
Consensus pattern (41 bp):
AAAAACAAAAAAAAGAGAAAAACAAAAAAGAGAAAGAAAAG
Found at i:37432 original size:25 final size:24
Alignment explanation
Indices: 37404--37472 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 24
37394 AAAAAGAGAA
37404 AAAAGAAAGAGAAAAA-AGGAAAAAG
1 AAAAGAAAGAGAAAAACA--AAAAAG
37429 AAAA-AGAAGAGAAAAACAAAAAAG
1 AAAAGA-AAGAGAAAAACAAAAAAG
*
37453 AGAAAGAAA-AGAAAAGCAAA
1 A-AAAGAAAGAGAAAAACAAA
37473 TGAGAGGCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
24 18 0.46
25 19 0.49
26 2 0.05
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (24 bp):
AAAAGAAAGAGAAAAACAAAAAAG
Found at i:37432 original size:26 final size:25
Alignment explanation
Indices: 37394--37472 Score: 83
Period size: 24 Copynumber: 3.1 Consensus size: 25
37384 CAAAAACAAA
37394 AAAAAGAGAAAAAAGAAAGAGAAAAA-
1 AAAAA-AG-AAAAAGAAAGAGAAAAAC
37420 AGGAAAAAGAAAAAG-AAGAGAAAAAC
1 A--AAAAAGAAAAAGAAAGAGAAAAAC
* *
37446 AAAAAAGAGAAAGAAA-AGAAAAGC
1 AAAAAAGAAAAAGAAAGAGAAAAAC
37470 AAA
1 AAA
37473 TGAGAGGCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
24 21 0.45
25 12 0.26
26 8 0.17
27 2 0.04
28 4 0.09
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (25 bp):
AAAAAAGAAAAAGAAAGAGAAAAAC
Found at i:37455 original size:15 final size:15
Alignment explanation
Indices: 37392--37468 Score: 57
Period size: 15 Copynumber: 4.9 Consensus size: 15
37382 TTCAAAAACA
*
37392 AAAAAAAGAGAAAAAAG
1 AAAAAAA-A-AAAAGAG
* *
37409 AAAGAGAAAAAAG-G
1 AAAAAAAAAAAAGAG
37423 AAAAAGAAAAAGAAGAG
1 AAAAA-AAAAA-AAGAG
*
37440 AAAAACAAAAAAGAG
1 AAAAAAAAAAAAGAG
*
37455 AAAGAAAAGAAAAG
1 AAA-AAAAAAAAAG
37469 CAAATGAGAG
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
14 5 0.10
15 16 0.33
16 16 0.33
17 11 0.23
ACGTcount: A:0.78, C:0.01, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAGAG
Found at i:39045 original size:179 final size:178
Alignment explanation
Indices: 38724--39166 Score: 708
Period size: 179 Copynumber: 2.5 Consensus size: 178
38714 CAGATTTCAG
** *
38724 CAAGCCTTAAACCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCTACTGGCAG
1 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
* * **
38789 GAGTGGAATAGATCAAATTTCGACAGATCTTATCTTCGCTGATTAGGAGCGGAGCAGATCAAATT
66 GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTAAGCAGGAGCGGAGCAGATCAAATT
*
38854 TTGGCGAATCTTACCTCCATGTATCAGCAATGGAGCAGATTTCAGCCA
131 TTGGCAAATCTTACCTCCATGTATCAGCAATGGAGCAGATTTCAGCCA
* * * *
38902 CCAGCCTTATCTTCACTGAACAGGAGT-GAAGCAGGCTAAATAGAGCAGATCTCATCCCACTGGC
1 CAAGCCTTATC-CCACTGAGCAGGAGTGGAA-CAGGCTAAATATAGCAGATCTCATCCCACTGGC
*
38966 TGGAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTAAGCAGGAGCGGAGCAGATCAAA
64 AGGAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTAAGCAGGAGCGGAGCAGATCAAA
* * *
39031 TTTTGGCAAATCTTATCTCCATGTATCGGTAATGGAGCAGATTTCAGCCA
129 TTTTGGCAAATCTTACCTCCATGTATCAGCAATGGAGCAGATTTCAGCCA
*
39081 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATATCAGATCTCATCCCACTGGCAG
1 CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
39146 GAGTGGAACAGATCAAATTTC
66 GAGTGGAACAGATCAAATTTC
39167 AGCGGATTTT
Statistics
Matches: 240, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
178 77 0.32
179 163 0.68
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (178 bp):
CAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCCCACTGGCAG
GAGTGGAACAGATCAAATTTCGACAGATCTTATCTTCGCTAAGCAGGAGCGGAGCAGATCAAATT
TTGGCAAATCTTACCTCCATGTATCAGCAATGGAGCAGATTTCAGCCA
Found at i:39182 original size:132 final size:132
Alignment explanation
Indices: 39010--39516 Score: 603
Period size: 132 Copynumber: 3.8 Consensus size: 132
39000 TCTTCGCTAA
* * * * *
39010 GCAGGAGCGGAGCAGATCAAATTTTGGCAAATCTTATCTCCATGTATCGGTAATGGAGCAGATTT
1 GCAGGAGTGGAACAGATCAAATTTTAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
*
39075 CAGCCACAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATATCAGATCTCATCCCAC
66 CAGCCACCAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATATCAGATCTCATCCCAC
39140 TG
131 TG
* * * * * * *
39142 GCAGGAGTGGAACAGATCAAATTTCAGCGGATTTTGTCTCCATGTATCGGCAATAGAGTAAATTT
1 GCAGGAGTGGAACAGATCAAATTTTAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
* * * * * *
39207 CAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA-CTCT-AGATCTTATCTTC
66 CAGCCACCAGCCTTATC-CCACTGAGCAGGAGTGGAACAGGCTAAATATATCAGATCTCATC-CC
39270 ACTG
129 ACTG
* *
39274 AGCAGGAGTGGAGCAGATCAAATGTT-GACGAATCTTATCTCCATGTATCGGCAATGGAGCAGA-
1 -GCAGGAGTGGAACAGATCAAATTTTAG-CGAATCTTATCTCCATGTATCGGCAATGGAGCAGAT
* * *
39337 TTCAAACCACCAGCGTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATAGCAGATCTCATCC
64 TTC-AGCCACCAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATATCAGATCTCATCC
39402 CACTG
128 CACTG
* * * *
39407 GCAAGAGTGGAACATATCAAATTTTAGCGGATCTTATCTCAATGTATCGGCAATGGAGCAGA-TT
1 GCAGGAGTGGAACAGATCAAATTTTAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
* * * * * *
39471 CAAACCACCAGTCTTAACCCCCTAAGCAGTAG-GGTAACAGGCTAAA
66 C-AGCCACCAGCCTTATCCCACTGAGCAGGAGTGG-AACAGGCTAAA
39517 AACTACAGAT
Statistics
Matches: 317, Mismatches: 49, Indels: 18
0.83 0.13 0.05
Matches are distributed among these distances:
131 11 0.03
132 199 0.63
133 98 0.31
134 9 0.03
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (132 bp):
GCAGGAGTGGAACAGATCAAATTTTAGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTT
CAGCCACCAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATATATCAGATCTCATCCCAC
TG
Found at i:39481 original size:265 final size:265
Alignment explanation
Indices: 38992--39486 Score: 760
Period size: 265 Copynumber: 1.9 Consensus size: 265
38982 AAATTTCGAC
* * *
38992 AGATCTTATCTTCGCTAAGCAGGAGCGGAGCAGATCAAATTTTGGCAAATCTTATCTCCATGTAT
1 AGATCTTATCTTCACTAAGCAGGAGCGGAGCAGATCAAATGTTGACAAATCTTATCTCCATGTAT
* *
39057 CGGTAATGGAGCAGATTTCAGCCACAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATA
66 CGGCAATGGAGCAGATTTCAACCACAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATA
* * * * *
39122 TATCAGATCTCATCCCACTGGCAGGAGTGGAACAGATCAAATTTCAGCGGATTTTGTCTCCATGT
131 TAGCAGATCTCATCCCACTGGCAAGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCAATGT
* *
39187 ATCGGCAATAGAGTAAATTTCAGCCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
196 ATCGGCAATAGAGCAAATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
39252 ACTCT
261 ACTCT
* * *
39257 AGATCTTATCTTCACTGAGCAGGAGTGGAGCAGATCAAATGTTGACGAATCTTATCTCCATGTAT
1 AGATCTTATCTTCACTAAGCAGGAGCGGAGCAGATCAAATGTTGACAAATCTTATCTCCATGTAT
* *
39322 CGGCAATGGAGCAGA-TTCAAACCACCAGCGTTATCCCACTGAGCAGGAGTGGAACAGGCTAAAT
66 CGGCAATGGAGCAGATTTC-AACCACAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAAT
* *
39386 ATAGCAGATCTCATCCCACTGGCAAGAGTGGAACATATCAAATTTTAGCGGATCTTATCTCAATG
130 ATAGCAGATCTCATCCCACTGGCAAGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCAATG
* * *
39451 TATCGGCAATGGAGCAGA-TTCAAACCACCAGTCTTA
195 TATCGGCAATAGAGCAAATTTC-AACCACCAGCCTTA
39487 ACCCCCTAAG
Statistics
Matches: 206, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
264 6 0.03
265 200 0.97
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (265 bp):
AGATCTTATCTTCACTAAGCAGGAGCGGAGCAGATCAAATGTTGACAAATCTTATCTCCATGTAT
CGGCAATGGAGCAGATTTCAACCACAAGCCTTATCCCACTGAGCAGGAGTGGAACAGGCTAAATA
TAGCAGATCTCATCCCACTGGCAAGAGTGGAACAGATCAAATTTCAGCGGATCTTATCTCAATGT
ATCGGCAATAGAGCAAATTTCAACCACCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
ACTCT
Found at i:39649 original size:44 final size:43
Alignment explanation
Indices: 39520--39649 Score: 113
Period size: 44 Copynumber: 3.0 Consensus size: 43
39510 GGCTAAAAAC
* * **
39520 TACAGATCTTGTCTCCTTAAGCGGTAGGGAGCAGATCAAAGA-
1 TACAGATCTTATCTCCCTAAGCAATAGGGAGCAGATCAAAGAT
* * * * *
39562 TACACGCT-TTAACTCCCTAAGCAATAGGGTAACA-AGCTGAAGAT
1 TACA-GATCTTATCTCCCTAAGCAATAGGG-AGCAGATC-AAAGAT
*
39606 TATAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGAT
1 TACAGATCTTATCTCCCTAAGCAATAG-GGAGCAGATCAAAGAT
39650 ACACACCTTA
Statistics
Matches: 66, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
42 22 0.33
43 11 0.17
44 29 0.44
45 4 0.06
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (43 bp):
TACAGATCTTATCTCCCTAAGCAATAGGGAGCAGATCAAAGAT
Found at i:40144 original size:85 final size:86
Alignment explanation
Indices: 39483--40131 Score: 703
Period size: 87 Copynumber: 7.6 Consensus size: 86
39473 AACCACCAGT
** * ** * *
39483 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAACTACAGATCTT-GTCTC-CTTAAGCGGTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTAGGCTCGC-CGAGCAGTG
*
39546 G-GGAGCAGATCAAAGATACACGC
65 GTGGAGCAGATCAAAG--ACTCGC
* * * * * * * * *
39569 TTTAACTCCCTAAGCAATAGGGTAACAAGCTGAAGA-TTATAGATCTTA-TCTC-CCTAAGCAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAATTTACAGATCTTAGGCTCGCC-GAGCAGT
* * *
39631 AGTGGAGCAGATCAAAGATACACAC
64 GGTGGAGCAGATCAAAG--ACTCGC
* * *
39656 CTTAACCCTCTAAGCAGTAGGGTAACAGGTTAAAATTTACAGATC-TGGGCTCGCCGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTAGGCTCGCCGAGCAGTGG
*
39720 TCGAGCAGATCAAAGA-TAGACGC
66 TGGAGCAGATCAAAGACT---CGC
* * * *
39743 CTTAACCCTCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGAT-TTGGGTTCGCCAAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTAGGCTCGCCGAGCAGTGG
* *
39807 CGGAGCAGATCAAAGATACACGC
66 TGGAGCAGATCAAAG--ACTCGC
*
39830 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATC-TAGGCTCCCCGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTAGGCTCGCCGAGCAGTGG
* * *
39894 CGGAGCAGGTCGAAGACTCGC
66 TGGAGCAGATCAAAGACTCGC
* *
39915 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAGTTTACAGA-CTTGGGCTCGCCGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTAGGCTCGCCGAGCAGTGG
*
39979 TGGAGCAGGTCAAAGACTCGC
66 TGGAGCAGATCAAAGACTCGC
* * * * *
40000 CTTAGCCCCCTAAGCAATGGGGTAACAGGCTAAAATTTACAGATCCT-GGCTCTCCGAGCAGTGG
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTAGGCTCGCCGAGCAGTGG
* *
40064 TGGAACAGGTCAAAGACTCGC
66 TGGAGCAGATCAAAGACTCGC
40085 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAA-TTACAGATCTTA
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTA
40132 TTTTCGTTGA
Statistics
Matches: 488, Mismatches: 57, Indels: 37
0.84 0.10 0.06
Matches are distributed among these distances:
84 11 0.02
85 191 0.39
86 54 0.11
87 229 0.47
88 2 0.00
89 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (86 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTTACAGATCTTAGGCTCGCCGAGCAGTGG
TGGAGCAGATCAAAGACTCGC
Found at i:40399 original size:29 final size:29
Alignment explanation
Indices: 40367--40430 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
40357 CCAAATTAAA
40367 CACCCCACTAAACCGA-CCACTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* *
40396 CACCCTACTAAACCATCCACTATCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
40425 CACCCC
1 CACCCC
40431 CATACCTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.31, C:0.50, G:0.02, T:0.17
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:40448 original size:37 final size:38
Alignment explanation
Indices: 40392--40469 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 38
40382 ACCACTAACT
*
40392 CCATCACCCTACTAAACCATCCACTATCTCCATCACCC
1 CCATCACCCTACTAAACCATCCACTACCTCCATCACCC
*
40430 CCAT-ACCTTACTAAACCATCCACTACCTCCATCACCC
1 CCATCACCCTACTAAACCATCCACTACCTCCATCACCC
40467 CCA
1 CCA
40470 CTAACTCCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 34 0.89
38 4 0.11
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (38 bp):
CCATCACCCTACTAAACCATCCACTACCTCCATCACCC
Found at i:40472 original size:18 final size:18
Alignment explanation
Indices: 40449--40484 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
40439 ACTAAACCAT
*
40449 CCACTACCTCCATCACCC
1 CCACTAACTCCATCACCC
40467 CCACTAACTCCATCACCC
1 CCACTAACTCCATCACCC
40485 TACTTGTTAT
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:0.25, C:0.58, G:0.00, T:0.17
Consensus pattern (18 bp):
CCACTAACTCCATCACCC
Found at i:41587 original size:126 final size:126
Alignment explanation
Indices: 41362--41602 Score: 428
Period size: 126 Copynumber: 1.9 Consensus size: 126
41352 TGATCTTCTT
41362 TCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCCTAAAG
1 TCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCCTAAAG
* *
41427 TACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCTTCTTACCAGTTCACTC
66 TACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTC
* * *
41488 TCAAAATTTTTTAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACG
1 TCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCCTAAAG
*
41553 TACTGGGTTTCACTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 TACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
41603 AGGCTAAAAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (126 bp):
TCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCATGCCCTAAAG
TACTGGGTTTCACTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTC
Found at i:43590 original size:39 final size:39
Alignment explanation
Indices: 43544--43644 Score: 150
Period size: 39 Copynumber: 2.6 Consensus size: 39
43534 GCTCTGATGA
*
43544 GCTTCAGTTAGCATTCGGGCTTCCATTTAGCACTTGTGT
1 GCTTCAGTTAGCATTCGGGCTTCCATTTAACACTTGTGT
* * *
43583 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAACACTTGTTT
1 GCTTCAGTTAGCATTCGGGCTTCCATTTAACACTTGTGT
43622 GCTTCAGTTAG-ACTTCGGGCTTC
1 GCTTCAGTTAGCA-TTCGGGCTTC
43645 AGATCACGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCATTCGGGCTTCCATTTAACACTTGTGT
Found at i:43645 original size:18 final size:18
Alignment explanation
Indices: 43544--43646 Score: 59
Period size: 19 Copynumber: 5.4 Consensus size: 18
43534 GCTCTGATGA
43544 GCTTCAGTTAG-CATTCGG
1 GCTTCAGTTAGAC-TTCGG
*
43562 GCTTCCATTTAGCACTT-GTG
1 GCTT-CAGTTAG-ACTTCG-G
*
43582 TGCTTCAGTTAGCCTTCGG
1 -GCTTCAGTTAGACTTCGG
* * *
43601 GCTTCCGTTTAACACTT-GTTT
1 GCTTCAG-TT-AGACTTCG--G
43622 GCTTCAGTTAGACTTCGG
1 GCTTCAGTTAGACTTCGG
43640 GCTTCAG
1 GCTTCAG
43647 ATCACGATGT
Statistics
Matches: 64, Mismatches: 10, Indels: 22
0.67 0.10 0.23
Matches are distributed among these distances:
18 17 0.27
19 19 0.30
20 17 0.27
21 11 0.17
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (18 bp):
GCTTCAGTTAGACTTCGG
Found at i:58933 original size:328 final size:328
Alignment explanation
Indices: 58335--58990 Score: 1249
Period size: 328 Copynumber: 2.0 Consensus size: 328
58325 TTAGTCGAAA
*
58335 GGGTCAAAACATCTGTGGGTAACATGGTTGAGTATTCTATTGCAAATTTTTATTCTCTTAATACT
1 GGGTCAAAACATCTGTGGGTAACATGGTTGAGTATTCTATTGCAAATTTTTATTCTCTGAATACT
58400 AATGTGACAAAATTGTCATAGTTCAAGGCCAAAATCTGTTTTTAAACTCTTAAATTAAATGAGAA
66 AATGTGACAAAATTGTCATAGTTCAAGGCCAAAATCTGTTTTTAAACTCTTAAATTAAATGAGAA
*
58465 CCATGCAGCAAACAATCATATTGTGTTATGTACGGACCCTATTGTGGTGTTTTGACTGTTATTGA
131 CCATGCAGCAAACAATCATATTGTGTTATGTACGGACCATATTGTGGTGTTTTGACTGTTATTGA
58530 AAATTTGTTGCTAATAAACAATCATATAAGATGTAAAACGAATAGTAGATTTCATTGTTGTTTGA
196 AAATTTGTTGCTAATAAACAATCATATAAGATGTAAAACGAATAGTAGATTTCATTGTTGTTTGA
*
58595 AAGTAATGTGACCATAAAGTCTTCTGATTAAACAGGACCCGGAACAAAAAAGTGCATGCTAGTAC
261 AAGGAATGTGACCATAAAGTCTTCTGATTAAACAGGACCCGGAACAAAAAAGTGCATGCTAGTAC
58660 TAG
326 TAG
58663 GGGTCAAAACATCTGTGGGTAACATGGTTGAGTATTCTATTGCAAATTTTTATTCTCTGAATACT
1 GGGTCAAAACATCTGTGGGTAACATGGTTGAGTATTCTATTGCAAATTTTTATTCTCTGAATACT
58728 AATGTGACAAAATTGTCATAGTTCAAGGCCAAAATCTGTTTTTAAACTCTTAAATTAAATGAGAA
66 AATGTGACAAAATTGTCATAGTTCAAGGCCAAAATCTGTTTTTAAACTCTTAAATTAAATGAGAA
58793 CCATGCAGCAAACAATCATATTGTGTTATGTACGGACCATATTGTGGTGTTTTGACTGTTATTGA
131 CCATGCAGCAAACAATCATATTGTGTTATGTACGGACCATATTGTGGTGTTTTGACTGTTATTGA
* *
58858 AAATTTGTTGCTAATAAACAATCGTATAAGATGTAAAATGAATAGTAGATTTCATTGTTGTTTGA
196 AAATTTGTTGCTAATAAACAATCATATAAGATGTAAAACGAATAGTAGATTTCATTGTTGTTTGA
* *
58923 AAGGAATGTGACCATACAGTCTTCTGATTAAACAGGACCCGGAGCAAAAAAGTGCATGCTAGTAC
261 AAGGAATGTGACCATAAAGTCTTCTGATTAAACAGGACCCGGAACAAAAAAGTGCATGCTAGTAC
58988 TAG
326 TAG
58991 TCTCGCTCCA
Statistics
Matches: 321, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
328 321 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (328 bp):
GGGTCAAAACATCTGTGGGTAACATGGTTGAGTATTCTATTGCAAATTTTTATTCTCTGAATACT
AATGTGACAAAATTGTCATAGTTCAAGGCCAAAATCTGTTTTTAAACTCTTAAATTAAATGAGAA
CCATGCAGCAAACAATCATATTGTGTTATGTACGGACCATATTGTGGTGTTTTGACTGTTATTGA
AAATTTGTTGCTAATAAACAATCATATAAGATGTAAAACGAATAGTAGATTTCATTGTTGTTTGA
AAGGAATGTGACCATAAAGTCTTCTGATTAAACAGGACCCGGAACAAAAAAGTGCATGCTAGTAC
TAG
Found at i:59074 original size:2 final size:2
Alignment explanation
Indices: 59067--59092 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59057 TCATTGTGCC
59067 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
59093 GTTTTCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:69912 original size:29 final size:29
Alignment explanation
Indices: 69870--69927 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
69860 CATAAAAGAG
*
69870 GCCTAAGCAACAACTAGTGTTTTATAGTC
1 GCCTAAGCAACAACTAGTATTTTATAGTC
69899 GCCTAAGCAACAACTAGTATTTTATAGTC
1 GCCTAAGCAACAACTAGTATTTTATAGTC
69928 AATCACTCGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (29 bp):
GCCTAAGCAACAACTAGTATTTTATAGTC
Found at i:70380 original size:16 final size:16
Alignment explanation
Indices: 70356--70387 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
70346 CTTTTTATCT
*
70356 CATCTTTTTTCTTTAC
1 CATCATTTTTCTTTAC
70372 CATCATTTTTCTTTAC
1 CATCATTTTTCTTTAC
70388 AATCTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.25, G:0.00, T:0.59
Consensus pattern (16 bp):
CATCATTTTTCTTTAC
Found at i:70402 original size:18 final size:17
Alignment explanation
Indices: 70357--70403 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
70347 TTTTTATCTC
*
70357 ATCTT-TTTTCTTTACC
1 ATCTTATTTTCTTTACA
*
70373 ATCAT-TTTTCTTTACA
1 ATCTTATTTTCTTTACA
70389 ATCTTATTTCTCTTT
1 ATCTTATTT-TCTTT
70404 TTTTTCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 18 0.69
17 3 0.12
18 5 0.19
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (17 bp):
ATCTTATTTTCTTTACA
Found at i:71548 original size:23 final size:23
Alignment explanation
Indices: 71520--71613 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
71510 ATGTGTGTAT
* *
71520 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
71543 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
71566 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
71589 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
71612 CT
1 CT
71614 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:76053 original size:23 final size:23
Alignment explanation
Indices: 76025--76114 Score: 108
Period size: 23 Copynumber: 3.9 Consensus size: 23
76015 ATGTGTGTAT
*
76025 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTAA
* * *
76048 CTTTTCATCTTCAAGTTTCTTCA
1 CTTTTCATATTCAAGTCTCTTAA
* * * *
76071 CTATTCATATTCAAGTTTTTTTA
1 CTTTTCATATTCAAGTCTCTTAA
76094 CTTTTCATATTCAAGTCTCTT
1 CTTTTCATATTCAAGTCTCTT
76115 CACTCTTTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.22, C:0.22, G:0.04, T:0.51
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTAA
Found at i:76081 original size:46 final size:46
Alignment explanation
Indices: 76028--76118 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
76018 TGTGTATCTT
* *
76028 TTCATATTCAAGCCTCTTAACTTTTCATCTTCAAGTTTCTTCACTA
1 TTCATATTCAAGCCTCTTAACTTTTCATATTCAAGTCTCTTCACTA
** * *
76074 TTCATATTCAAGTTTTTTTACTTTTCATATTCAAGTCTCTTCACT
1 TTCATATTCAAGCCTCTTAACTTTTCATATTCAAGTCTCTTCACT
76119 CTTTTTAACT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.23, C:0.23, G:0.04, T:0.49
Consensus pattern (46 bp):
TTCATATTCAAGCCTCTTAACTTTTCATATTCAAGTCTCTTCACTA
Found at i:84435 original size:6 final size:6
Alignment explanation
Indices: 84413--84451 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
84403 GTGGTGGTGG
* * *
84413 AGGAGG AGGAAA AGGAGA AGGAGA AGCAGA AGGAGA AGG
1 AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGG
84452 CTGTTGTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.49, C:0.03, G:0.49, T:0.00
Consensus pattern (6 bp):
AGGAGA
Found at i:91198 original size:23 final size:24
Alignment explanation
Indices: 91153--91208 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
91143 AAACAAAACT
* *
91153 GAAATATTAGTTTTTTTAGGGTAA
1 GAAATTTTAGTTTTATTAGGGTAA
91177 GAAATTTTAGTTTTATTA-GGTAA
1 GAAATTTTAGTTTTATTAGGGTAA
91200 -AAATGTTTA
1 GAAAT-TTTA
91209 AACAAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 4 0.14
23 9 0.31
24 16 0.55
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (24 bp):
GAAATTTTAGTTTTATTAGGGTAA
Done.