Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 143 of 160
Found at i:27111381 original size:45 final size:44
Alignment explanation
Indices: 27111307--27111400 Score: 102
Period size: 44 Copynumber: 2.1 Consensus size: 44
27111297 TATTATTTTT
* * **
27111307 AATAAAAATATATTTTAATTATATATAAATGTTAATTTTTATTAA
1 AATAAAAATATATTTAAATTAAATATAAATAATAA-TTTTATTAA
27111352 AATAAAAA-AT-TTTAAATTAAATTATTAAATAATAATTTTATTAA
1 AATAAAAATATATTTAAATTAAA-TA-TAAATAATAATTTTATTAA
*
27111396 TATAA
1 AATAA
27111401 TATAAATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
43 9 0.21
44 17 0.40
45 16 0.38
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (44 bp):
AATAAAAATATATTTAAATTAAATATAAATAATAATTTTATTAA
Found at i:27112517 original size:16 final size:16
Alignment explanation
Indices: 27112484--27112530 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
27112474 TAAGAATACT
27112484 TACAC-CACACACAC-
1 TACACACACACACACG
* *
27112498 -ACACACGCACACGCG
1 TACACACACACACACG
27112513 TACACACACACACACG
1 TACACACACACACACG
27112529 TA
1 TA
27112531 TGGTGCACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.15
14 7 0.27
16 15 0.58
ACGTcount: A:0.40, C:0.45, G:0.09, T:0.06
Consensus pattern (16 bp):
TACACACACACACACG
Found at i:27131575 original size:39 final size:39
Alignment explanation
Indices: 27131504--27131618 Score: 149
Period size: 39 Copynumber: 2.9 Consensus size: 39
27131494 ATCTTTAGAT
* * * *
27131504 TCTGTCTTAGCATTGGTAATCAATGAAGTTGAAGCAGAG
1 TCTGGCTTAGCATTGTTAACCAGTGAAGTTGAAGCAGAG
* * *
27131543 TTTGGCTTAGCATTGTTAACCAGTGAATTTGAAGTAGAG
1 TCTGGCTTAGCATTGTTAACCAGTGAAGTTGAAGCAGAG
**
27131582 TCTGGCTTAGCATTGTTAAGTAGTGAAGTTGAAGCAG
1 TCTGGCTTAGCATTGTTAACCAGTGAAGTTGAAGCAG
27131619 GTGATTCAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 64 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.33
Consensus pattern (39 bp):
TCTGGCTTAGCATTGTTAACCAGTGAAGTTGAAGCAGAG
Found at i:27137252 original size:27 final size:28
Alignment explanation
Indices: 27137213--27137269 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
27137203 ATTGGTAAAT
27137213 AGAGAAAAAGCTAATTATATGATTCAGC
1 AGAGAAAAAGCTAATTATATGATTCAGC
**
27137241 AGAG-AAAAGCTAATTATATTCTTCAGC
1 AGAGAAAAAGCTAATTATATGATTCAGC
27137268 AG
1 AG
27137270 TTAAATAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (28 bp):
AGAGAAAAAGCTAATTATATGATTCAGC
Found at i:27150396 original size:15 final size:16
Alignment explanation
Indices: 27150376--27150405 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27150366 TATTCCATTT
27150376 TTATTAAAA-AATAAA
1 TTATTAAAAGAATAAA
27150391 TTATTAAAAGAATAA
1 TTATTAAAAGAATAA
27150406 TATATTCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (16 bp):
TTATTAAAAGAATAAA
Found at i:27150989 original size:16 final size:16
Alignment explanation
Indices: 27150968--27151002 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
27150958 TTTTTATAAA
**
27150968 TTTTTTCTCGTTTATT
1 TTTTTTCTCAATTATT
27150984 TTTTTTCTCAATTATT
1 TTTTTTCTCAATTATT
27151000 TTT
1 TTT
27151003 ATCAACAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTTTCTCAATTATT
Found at i:27155005 original size:3 final size:3
Alignment explanation
Indices: 27154991--27155039 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
27154981 ATTGGGTCTA
* * * * *
27154991 CAT CAG CAT CAT CAT CAT CGT CGT CAT CAT CAT CGT CGT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
27155039 C
1 C
27155040 TGCGTCATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.24, C:0.35, G:0.10, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:27155017 original size:15 final size:15
Alignment explanation
Indices: 27154999--27155049 Score: 86
Period size: 15 Copynumber: 3.4 Consensus size: 15
27154989 TACATCAGCA
27154999 TCATCATCATCGTCG
1 TCATCATCATCGTCG
27155014 TCATCATCATCGTCG
1 TCATCATCATCGTCG
27155029 TCATCATCATC-TGCG
1 TCATCATCATCGT-CG
27155044 TCATCA
1 TCATCA
27155050 GGATCGGAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
14 1 0.03
15 34 0.97
ACGTcount: A:0.22, C:0.33, G:0.12, T:0.33
Consensus pattern (15 bp):
TCATCATCATCGTCG
Found at i:27155020 original size:18 final size:18
Alignment explanation
Indices: 27154997--27155039 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
27154987 TCTACATCAG
*
27154997 CATCATCATCATCGTCGT
1 CATCATCATCATCGTCAT
*
27155015 CATCATCATCGTCGTCAT
1 CATCATCATCATCGTCAT
27155033 CATCATC
1 CATCATC
27155040 TGCGTCATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.23, C:0.35, G:0.09, T:0.33
Consensus pattern (18 bp):
CATCATCATCATCGTCAT
Found at i:27163685 original size:15 final size:15
Alignment explanation
Indices: 27163647--27163694 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
27163637 TTGCCATCAA
27163647 TTCCTCGTCTTCTTTC
1 TTCCTCGTCTTC-TTC
27163663 TT-C-C--CTTCTTC
1 TTCCTCGTCTTCTTC
27163674 TTCCTCGTCTTCTTC
1 TTCCTCGTCTTCTTC
27163689 TTCCTC
1 TTCCTC
27163695 TTCCTGTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
11 5 0.18
12 5 0.18
13 1 0.04
14 1 0.04
15 14 0.50
16 2 0.07
ACGTcount: A:0.00, C:0.42, G:0.04, T:0.54
Consensus pattern (15 bp):
TTCCTCGTCTTCTTC
Found at i:27165768 original size:24 final size:23
Alignment explanation
Indices: 27165727--27165772 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
27165717 AAACAAATTT
27165727 AAAATTAAATTAAATAATATAAA
1 AAAATTAAATTAAATAATATAAA
*
27165750 AAAATATAATTTAAATAATATAA
1 AAAAT-TAAATTAAATAATATAA
27165773 TTTTGTAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAATTAAATTAAATAATATAAA
Found at i:27165771 original size:14 final size:14
Alignment explanation
Indices: 27165736--27165775 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
27165726 TAAAATTAAA
27165736 TTAAATAATATAA-
1 TTAAATAATATAAT
27165749 --AAA-AATATAAT
1 TTAAATAATATAAT
27165760 TTAAATAATATAAT
1 TTAAATAATATAAT
27165774 TT
1 TT
27165776 TGTAGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
10 7 0.30
11 3 0.13
13 3 0.13
14 10 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAAATAATATAAT
Found at i:27168106 original size:19 final size:19
Alignment explanation
Indices: 27168082--27168122 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
27168072 TAGTCGAAGC
27168082 ATACACGGATATGTAATAT
1 ATACACGGATATGTAATAT
27168101 ATACACGGATATGTAATAT
1 ATACACGGATATGTAATAT
27168120 ATA
1 ATA
27168123 AAAATTCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (19 bp):
ATACACGGATATGTAATAT
Found at i:27200920 original size:16 final size:16
Alignment explanation
Indices: 27200889--27200949 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
27200879 ATTAAATAAT
*
27200889 TAATTATATATATTTATA
1 TAATTATAT-T-TTTAAA
27200907 TAATTATATTTTTAAA
1 TAATTATATTTTTAAA
*
27200923 TATTTATA-TTTTAAA
1 TAATTATATTTTTAAA
* *
27200938 AAATAATATTTT
1 TAATTATATTTT
27200950 ATATTTAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 12 0.32
16 15 0.41
17 1 0.03
18 9 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TAATTATATTTTTAAA
Found at i:27200925 original size:18 final size:18
Alignment explanation
Indices: 27200904--27200985 Score: 53
Period size: 20 Copynumber: 4.4 Consensus size: 18
27200894 ATATATATTT
*
27200904 ATATAATTATATTTTTAA
1 ATATAATTATATTTTAAA
27200922 ATAT--TTATATTTTAAAAA
1 ATATAATTATATTTT--AAA
* *
27200940 ATAATATTTTATATTTAAAA
1 AT-ATA-ATTATATTTTAAA
*
27200960 ATAATATTTTATATTTTAAA
1 AT-ATA-ATTATATTTTAAA
27200980 A-ATAAT
1 ATATAAT
27200986 ATTTTATTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
16 9 0.17
17 1 0.02
18 11 0.20
19 2 0.04
20 23 0.43
22 8 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATAATTATATTTTAAA
Found at i:27200961 original size:20 final size:21
Alignment explanation
Indices: 27200921--27200998 Score: 124
Period size: 21 Copynumber: 3.7 Consensus size: 21
27200911 TATATTTTTA
27200921 AATA-TTTATATTTTAAAAAAT
1 AATATTTTATATTTT-AAAAAT
27200942 AATATTTTATA-TTTAAAAAT
1 AATATTTTATATTTTAAAAAT
27200962 AATATTTTATATTTTAAAAAT
1 AATATTTTATATTTTAAAAAT
27200983 AATATTTTATTATTTT
1 AATATTTTA-TATTTT
27200999 CGAATCGGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
20 17 0.31
21 25 0.46
22 12 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
AATATTTTATATTTTAAAAAT
Found at i:27201984 original size:26 final size:26
Alignment explanation
Indices: 27201936--27201988 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
27201926 TTTATACTTA
**
27201936 AATATATTAAATTTTATATTAAAAAT
1 AATATATTAAATTAAATATTAAAAAT
*
27201962 AATATATATAAATTAAATATAAAAAAT
1 AATATAT-TAAATTAAATATTAAAAAT
27201989 TGAGTACTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
AATATATTAAATTAAATATTAAAAAT
Found at i:27203373 original size:18 final size:17
Alignment explanation
Indices: 27203350--27203398 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
27203340 TCAGAGAAAA
27203350 AAAAAGAAAAAAATAAAT
1 AAAAAGAAAAAAAT-AAT
* *
27203368 AAAAAGAGTAAAGATAAT
1 AAAAAGA-AAAAAATAAT
27203386 AAAAA-AAAAAAAT
1 AAAAAGAAAAAAAT
27203399 GAATTAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 5 0.19
17 1 0.04
18 15 0.58
19 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (17 bp):
AAAAAGAAAAAAATAAT
Found at i:27203919 original size:6 final size:6
Alignment explanation
Indices: 27203908--27203933 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
27203898 GAGTGGGGAG
27203908 GAGGAA GAGGAA GAGGAA GAGGAA GA
1 GAGGAA GAGGAA GAGGAA GAGGAA GA
27203934 TCAGATCTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (6 bp):
GAGGAA
Found at i:27204826 original size:45 final size:44
Alignment explanation
Indices: 27204760--27204851 Score: 139
Period size: 45 Copynumber: 2.1 Consensus size: 44
27204750 ATCACAAGGA
* * *
27204760 TGTGTAAGTAACTCAGTTCAATATCTTACACAAGTTTCATGTTGT
1 TGTGTAAGTAACTCAGCTCAATATCTTACA-AAGTTACATATTGT
*
27204805 TGTGTAAGTCACTCAGCTCAATATCTTACAAAGTTACATATTGT
1 TGTGTAAGTAACTCAGCTCAATATCTTACAAAGTTACATATTGT
27204849 TGT
1 TGT
27204852 TAAAGGTCTA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
44 15 0.35
45 28 0.65
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (44 bp):
TGTGTAAGTAACTCAGCTCAATATCTTACAAAGTTACATATTGT
Found at i:27209224 original size:19 final size:18
Alignment explanation
Indices: 27209183--27209226 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
27209173 CAAATATAAA
27209183 TTTAAATATTTATTATAT
1 TTTAAATATTTATTATAT
27209201 TTTAAATATATTATT-TAT
1 TTTAAATAT-TTATTATAT
27209219 TATTAAAT
1 T-TTAAAT
27209227 TTGTATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAAATATTTATTATAT
Found at i:27209547 original size:6 final size:6
Alignment explanation
Indices: 27209536--27209580 Score: 63
Period size: 6 Copynumber: 7.3 Consensus size: 6
27209526 TCTAATACTT
* *
27209536 AAATAG AAATAG AAATAG AAACAG AATTAG AAATTAG AAATAG AA
1 AAATAG AAATAG AAATAG AAATAG AAATAG AAA-TAG AAATAG AA
27209581 GTAGTCTCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
6 28 0.82
7 6 0.18
ACGTcount: A:0.64, C:0.02, G:0.16, T:0.18
Consensus pattern (6 bp):
AAATAG
Found at i:27215478 original size:23 final size:22
Alignment explanation
Indices: 27215452--27215499 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
27215442 CTTACTTAAA
*
27215452 ATTTTAAATTATATTATTTTTAT
1 ATTTTAAATTATA-TAATTTTAT
* *
27215475 ATTTTTATTTATATAATTTTAT
1 ATTTTAAATTATATAATTTTAT
27215497 ATT
1 ATT
27215500 ATATTTTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTTAAATTATATAATTTTAT
Found at i:27215501 original size:15 final size:14
Alignment explanation
Indices: 27215465--27215503 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
27215455 TTAAATTATA
* *
27215465 TTATTTTTATATTT
1 TTATTTATATAATT
27215479 TTATTTATATAATT
1 TTATTTATATAATT
27215493 TTATATTATAT
1 TTAT-TTATAT
27215504 TTTCGTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 16 0.73
15 6 0.27
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTTATATAATT
Found at i:27218326 original size:38 final size:38
Alignment explanation
Indices: 27218275--27218349 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
27218265 TTTACGGAAG
* *
27218275 CCAGAGATTCATTCTCGGTCAGTGGAGTCAGCTGATTC
1 CCAGAAATTCATTCTCGGCCAGTGGAGTCAGCTGATTC
*
27218313 CCAGAAATTCATTCTGGGCCAGTGGAGTCAGCTGATT
1 CCAGAAATTCATTCTCGGCCAGTGGAGTCAGCTGATT
27218350 GCTGTATCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (38 bp):
CCAGAAATTCATTCTCGGCCAGTGGAGTCAGCTGATTC
Found at i:27219219 original size:14 final size:14
Alignment explanation
Indices: 27219169--27219233 Score: 67
Period size: 14 Copynumber: 4.4 Consensus size: 14
27219159 CATTATTAAT
27219169 TAATTTATCTAAAA
1 TAATTTATCTAAAA
* *
27219183 TATTTGTATTTTAAAA
1 TAATT-TA-TCTAAAA
* *
27219199 TATTTTATCTAAAG
1 TAATTTATCTAAAA
27219213 TAATTTATCTAAAA
1 TAATTTATCTAAAA
27219227 TATATTT
1 TA-ATTT
27219234 TCTCACATAC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
14 23 0.55
15 8 0.19
16 11 0.26
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (14 bp):
TAATTTATCTAAAA
Found at i:27219232 original size:30 final size:30
Alignment explanation
Indices: 27219172--27219234 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
27219162 TATTAATTAA
* * *
27219172 TTTATCTAAAATATTTGTATTTTAAAATAT
1 TTTATCTAAAATAATTGTATCTAAAAATAT
*
27219202 TTTATCTAAAGTAATT-TATCTAAAATATAT
1 TTTATCTAAAATAATTGTATCTAAAA-ATAT
27219232 TTT
1 TTT
27219235 CTCACATACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (30 bp):
TTTATCTAAAATAATTGTATCTAAAAATAT
Found at i:27222502 original size:18 final size:19
Alignment explanation
Indices: 27222479--27222528 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 19
27222469 TATTTATTTT
*
27222479 TAATATTTTAATT-TTAAA
1 TAATATTTTAATTCATAAA
27222497 TAATATTATGTAATTCATAAA
1 TAATATT-T-TAATTCATAAA
*
27222518 TAATTTTTTAA
1 TAATATTTTAA
27222529 ATAGATATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 7 0.26
19 4 0.15
20 6 0.22
21 10 0.37
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATATTTTAATTCATAAA
Found at i:27223039 original size:7 final size:7
Alignment explanation
Indices: 27223027--27223063 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
27223017 CACTTTGCAT
27223027 CAAACGG
1 CAAACGG
27223034 CAAACGG
1 CAAACGG
27223041 CAAACGG
1 CAAACGG
27223048 CAAACGG
1 CAAACGG
27223055 CAAACGG
1 CAAACGG
27223062 CA
1 CA
27223064 GTTATGCTAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.43, C:0.30, G:0.27, T:0.00
Consensus pattern (7 bp):
CAAACGG
Found at i:27225978 original size:13 final size:13
Alignment explanation
Indices: 27225960--27225984 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27225950 CTCTCAAACC
27225960 ACTCACATCCCAG
1 ACTCACATCCCAG
27225973 ACTCACATCCCA
1 ACTCACATCCCA
27225985 TCAATTCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.48, G:0.04, T:0.16
Consensus pattern (13 bp):
ACTCACATCCCAG
Found at i:27226705 original size:22 final size:21
Alignment explanation
Indices: 27226663--27226721 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 21
27226653 TATTTTTTTT
* *
27226663 ATTTTAATATATTTAATATTAA
1 ATTTTAAT-TTTTTAAAATTAA
27226685 ATTTTAATTTTTTAAAAATTAA
1 ATTTTAATTTTTT-AAAATTAA
27226707 AGTTTCATAATTTTT
1 A-TTT--TAATTTTT
27226722 AATATAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 4 0.13
22 16 0.52
23 3 0.10
25 8 0.26
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTAATTTTTTAAAATTAA
Found at i:27226763 original size:24 final size:23
Alignment explanation
Indices: 27226728--27226777 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
27226718 TTTTAATATA
27226728 AAAAAATTATAA-AAAATAATTTT
1 AAAAAATTATAAGAAAAT-ATTTT
* *
27226751 AAAATATTAATAAGTAAATATTTT
1 AAAAAATT-ATAAGAAAATATTTT
27226775 AAA
1 AAA
27226778 TGTTAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 7 0.30
24 12 0.52
25 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AAAAAATTATAAGAAAATATTTT
Found at i:27232208 original size:2 final size:2
Alignment explanation
Indices: 27232201--27232236 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
27232191 GATGATATAC
27232201 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
27232237 ATATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:27235018 original size:3 final size:3
Alignment explanation
Indices: 27235010--27235042 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
27235000 CCAAAAACAC
27235010 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
27235043 GACCGCATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:27258279 original size:16 final size:17
Alignment explanation
Indices: 27258241--27258279 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
27258231 GTAACGGCTT
27258241 AAAAAA-ATCAAGGTGA
1 AAAAAATATCAAGGTGA
*
27258257 AAAAAATATCGAGGT-A
1 AAAAAATATCAAGGTGA
27258273 AAAAAAT
1 AAAAAAT
27258280 TTAACAACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.64, C:0.05, G:0.15, T:0.15
Consensus pattern (17 bp):
AAAAAATATCAAGGTGA
Found at i:27261952 original size:20 final size:20
Alignment explanation
Indices: 27261929--27261970 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
27261919 AAAATGGTAC
*
27261929 GCAAAGCACGAACATGATGT
1 GCAAAACACGAACATGATGT
*
27261949 GCAAAACACGAACGTGATGT
1 GCAAAACACGAACATGATGT
27261969 GC
1 GC
27261971 TGAGCACATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.26, T:0.14
Consensus pattern (20 bp):
GCAAAACACGAACATGATGT
Found at i:27264218 original size:5 final size:5
Alignment explanation
Indices: 27264200--27264230 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
27264190 AATTTTAAAC
27264200 TATAT TAT-T TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TA
27264231 CTATATCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:27266456 original size:20 final size:19
Alignment explanation
Indices: 27266408--27266456 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
27266398 GAATATATAT
*
27266408 ATTTTTACAAATTAAAATTA
1 ATTTTTA-AAATTAAAAATA
*
27266428 A-TTTAAAAATCTAAAAATA
1 ATTTTTAAAAT-TAAAAATA
27266447 ATTTTTAAAA
1 ATTTTTAAAA
27266457 ATCACATATC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.17
19 12 0.50
20 8 0.33
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTTTTAAAATTAAAAATA
Found at i:27266534 original size:31 final size:32
Alignment explanation
Indices: 27266453--27266571 Score: 113
Period size: 31 Copynumber: 3.8 Consensus size: 32
27266443 AATAATTTTT
*
27266453 AAAA-ATCACATATCATTTTAAAAAA--AAGTA
1 AAAATATC-CATATCATTTTAAAAAATTAAATA
* * *
27266483 AAAATTTCTAAATCGA-TTTAAAAAATTAAATA
1 AAAATATCCATATC-ATTTTAAAAAATTAAATA
* *
27266515 AAAA-ATCCATATCATTTTAAAATATTATATA
1 AAAATATCCATATCATTTTAAAAAATTAAATA
* *
27266546 AAAATTTCCATATCATTTTTAAAAAT
1 AAAATATCCATATCATTTTAAAAAAT
27266572 ATTTATTAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
30 18 0.25
31 27 0.38
32 26 0.37
ACGTcount: A:0.54, C:0.09, G:0.02, T:0.35
Consensus pattern (32 bp):
AAAATATCCATATCATTTTAAAAAATTAAATA
Found at i:27267807 original size:12 final size:12
Alignment explanation
Indices: 27267790--27267821 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
27267780 TTTTTAAAAA
27267790 ATTTTATTAATG
1 ATTTTATTAATG
27267802 ATTTTATTAATG
1 ATTTTATTAATG
27267814 ATTTTATT
1 ATTTTATT
27267822 TTTTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (12 bp):
ATTTTATTAATG
Found at i:27268019 original size:18 final size:16
Alignment explanation
Indices: 27267996--27268046 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 16
27267986 TGTCTCATTT
27267996 TTTATTACTTATTCTTAA
1 TTTATTA-TTATT-TTAA
*
27268014 TTTATTAATTAGTTTTTA
1 TTTATT-ATTA-TTTTAA
27268032 TTTATTATTATTTTA
1 TTTATTATTATTTTA
27268047 TAACTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 4 0.14
17 4 0.14
18 18 0.62
19 3 0.10
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTATTATTATTTTAA
Found at i:27268250 original size:21 final size:22
Alignment explanation
Indices: 27268224--27268264 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
27268214 ATTAGTTTAG
27268224 TATTATTATTAAA-TTTATTTT
1 TATTATTATTAAAGTTTATTTT
*
27268245 TATTATTTTTAAAGTTTATT
1 TATTATTATTAAAGTTTATT
27268265 AAAAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TATTATTATTAAAGTTTATTTT
Found at i:27268376 original size:21 final size:24
Alignment explanation
Indices: 27268338--27268382 Score: 60
Period size: 21 Copynumber: 2.0 Consensus size: 24
27268328 ATAAATATTT
*
27268338 TAATATACATAAATATTAATAAAA
1 TAATATACATAAATATTAAAAAAA
27268362 TAATATA-A-AAA-ATTAAAAAAA
1 TAATATACATAAATATTAAAAAAA
27268383 ATTTTTTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 3 0.15
23 1 0.05
24 7 0.35
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
TAATATACATAAATATTAAAAAAA
Found at i:27270154 original size:39 final size:39
Alignment explanation
Indices: 27270100--27270181 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
27270090 TGGAGACAAA
*
27270100 AAGAACACTTCAAATCAAAGATGATCTGTTTAGATATTT
1 AAGAACACTTCAAATCAAAGATGACCTGTTTAGATATTT
27270139 AAGAACACTTCAAATCAAAGATGACCTGTTTAGATATTT
1 AAGAACACTTCAAATCAAAGATGACCTGTTTAGATATTT
27270178 AAGA
1 AAGA
27270182 TATTATATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.30
Consensus pattern (39 bp):
AAGAACACTTCAAATCAAAGATGACCTGTTTAGATATTT
Found at i:27271965 original size:2 final size:2
Alignment explanation
Indices: 27271958--27271982 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27271948 AATGTGTTAT
27271958 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
27271983 TATTTTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27272919 original size:6 final size:6
Alignment explanation
Indices: 27272908--27272933 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
27272898 TATTGGACAT
27272908 CTATTC CTATTC CTATTC CTATTC CT
1 CTATTC CTATTC CTATTC CTATTC CT
27272934 TTACTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.00, T:0.50
Consensus pattern (6 bp):
CTATTC
Found at i:27273058 original size:2 final size:2
Alignment explanation
Indices: 27273046--27273095 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
27273036 ATATTAGCAT
* * * * *
27273046 TA TA CA TA TA TA TA TA TA CA CA TA TA TA CA TA CA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
27273088 TA TA TA TA
1 TA TA TA TA
27273096 AACTAGCTAC
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (2 bp):
TA
Found at i:27273065 original size:14 final size:14
Alignment explanation
Indices: 27273046--27273091 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
27273036 ATATTAGCAT
27273046 TATACATATATATA
1 TATACATATATATA
*
27273060 TATACACATATATA
1 TATACATATATATA
*
27273074 CATACATATATATA
1 TATACATATATATA
27273088 TATA
1 TATA
27273092 TATAAACTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (14 bp):
TATACATATATATA
Found at i:27273505 original size:2 final size:2
Alignment explanation
Indices: 27273498--27273528 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27273488 GATTAAGGTA
27273498 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
27273529 TGGAGTGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27274217 original size:30 final size:31
Alignment explanation
Indices: 27274178--27274248 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 31
27274168 TGTTTGGTAT
* *
27274178 TATTGTAAAAAAATGT-TATGAAAA-ATTGAAA
1 TATT-TAAAAAAATATATAT-AAAATATTAAAA
*
27274209 TATTTAAAAAGATATATATAAAATATTAAAA
1 TATTTAAAAAAATATATATAAAATATTAAAA
27274240 TA-TTAAAAA
1 TATTTAAAAA
27274249 TATGGTTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
30 20 0.57
31 15 0.43
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (31 bp):
TATTTAAAAAAATATATATAAAATATTAAAA
Found at i:27276192 original size:18 final size:18
Alignment explanation
Indices: 27276169--27276210 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
27276159 TAAATGACAT
27276169 ATTATAATCATACCAAAA
1 ATTATAATCATACCAAAA
**
27276187 ATTAT-ATCATGTCAAAA
1 ATTATAATCATACCAAAA
*
27276204 AATATAA
1 ATTATAA
27276211 AAATTTGAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (18 bp):
ATTATAATCATACCAAAA
Found at i:27276495 original size:22 final size:21
Alignment explanation
Indices: 27276452--27276495 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
27276442 GATTAAACTA
* * *
27276452 TTTTTTTTCTTTTTGATTTAT
1 TTTTTTTTCATTTGGATCTAT
27276473 TTTTTTTATCATTTGGATCTAT
1 TTTTTTT-TCATTTGGATCTAT
27276495 T
1 T
27276496 AAAATCAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.73
Consensus pattern (21 bp):
TTTTTTTTCATTTGGATCTAT
Found at i:27276643 original size:25 final size:25
Alignment explanation
Indices: 27276615--27276665 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
27276605 ATTAGATCAA
27276615 AAGATCTACAAGATAGAGATGGTGG
1 AAGATCTACAAGATAGAGATGGTGG
**
27276640 AAGATCTATGAGATAGAGATGGTGG
1 AAGATCTACAAGATAGAGATGGTGG
27276665 A
1 A
27276666 CGTTAGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (25 bp):
AAGATCTACAAGATAGAGATGGTGG
Found at i:27276912 original size:33 final size:34
Alignment explanation
Indices: 27276869--27276941 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 34
27276859 TTTTAAACTA
* * *
27276869 GATTTACAAATCTAAAAGCTTTTAAAAGT-TTTG
1 GATTTGCAAATCCAAAAGCTCTTAAAAGTCTTTG
27276902 GATTTGCAAATCCAAAAGCTCTTAAAAGTCTTTG
1 GATTTGCAAATCCAAAAGCTCTTAAAAGTCTTTG
27276936 GATTTG
1 GATTTG
27276942 TTTATCCGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 26 0.72
34 10 0.28
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (34 bp):
GATTTGCAAATCCAAAAGCTCTTAAAAGTCTTTG
Found at i:27279462 original size:2 final size:2
Alignment explanation
Indices: 27279455--27279480 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27279445 GTAATAATCA
27279455 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
27279481 GAAAGAAATT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27281166 original size:101 final size:100
Alignment explanation
Indices: 27280891--27281207 Score: 322
Period size: 100 Copynumber: 3.2 Consensus size: 100
27280881 ATGAAATTTA
** * * * *
27280891 TTTTTAAAAAATTCATTAAA-CTTTTTAATAGTTTGGTAATA-TCTAATTCAATATTTAAATTCT
1 TTTTTAAAAAATTCATTAAATC-TTCAAATAGTTTGATAAAACT-TAATTCAAGATTTAAATCCT
* * *
27280954 TCAATAGTTTAGTAAGAATGAAAATTTTATTATT-TT
64 CCAATAGTTTGGTAAGATTGAAAATTTTATTATTATT
* * * * * *
27280990 TTTTTATGAAAAATTCATTAAGTC-CCCAATATTTTAATAAAACCTAATTCAAGATTTAAATCCT
1 TTTTTA--AAAAATTCATTAAATCTTCAAATAGTTTGATAAAACTTAATTCAAGATTTAAATCCT
* *
27281054 CCAATAGTTTGGTAGGATTAAAAATTTTATTATTATT
64 CCAATAGTTTGGTAAGATTGAAAATTTTATTATTATT
***
27281091 ATTTTTAAAAAATTCATTAAATCTTCAAATAGTTTGATGGGACTTAATTCAAGATTTAAATCCTC
1 -TTTTTAAAAAATTCATTAAATCTTCAAATAGTTTGATAAAACTTAATTCAAGATTTAAATCCTC
* * *
27281156 CAATAATTTGGTATGATTGAAAATTTTAGT-TTA-T
65 CAATAGTTTGGTAAGATTGAAAATTTTATTATTATT
* *
27281190 TTTTTAATAAATTTATTA
1 TTTTTAAAAAATTCATTA
27281208 TGAAATTCTC
Statistics
Matches: 180, Mismatches: 31, Indels: 15
0.80 0.14 0.07
Matches are distributed among these distances:
98 16 0.09
99 7 0.04
100 76 0.42
101 74 0.41
102 7 0.04
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (100 bp):
TTTTTAAAAAATTCATTAAATCTTCAAATAGTTTGATAAAACTTAATTCAAGATTTAAATCCTCC
AATAGTTTGGTAAGATTGAAAATTTTATTATTATT
Found at i:27282137 original size:23 final size:22
Alignment explanation
Indices: 27282104--27282154 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
27282094 ATTATTTAAT
27282104 TTTTTTCTTTTTTTT-GTTTTTG
1 TTTTTTCTTTTTTTTCG-TTTTG
27282126 TTTTTTCATTTTTTTTCGTTTTG
1 TTTTTTC-TTTTTTTTCGTTTTG
27282149 TTTTTT
1 TTTTTT
27282155 TGTTTTAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 7 0.26
23 19 0.70
24 1 0.04
ACGTcount: A:0.02, C:0.06, G:0.08, T:0.84
Consensus pattern (22 bp):
TTTTTTCTTTTTTTTCGTTTTG
Found at i:27282160 original size:23 final size:23
Alignment explanation
Indices: 27282103--27282160 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
27282093 AATTATTTAA
*
27282103 TTTTTTTCTTTTTTTTGTTTTTG
1 TTTTTTTATTTTTTTTGTTTTTG
*
27282126 TTTTTTCATTTTTTTTCG-TTTTG
1 TTTTTTTATTTTTTTT-GTTTTTG
*
27282149 TTTTTTTGTTTT
1 TTTTTTTATTTT
27282161 AAAGGCCCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 29 0.97
24 1 0.03
ACGTcount: A:0.02, C:0.05, G:0.09, T:0.84
Consensus pattern (23 bp):
TTTTTTTATTTTTTTTGTTTTTG
Found at i:27282628 original size:40 final size:39
Alignment explanation
Indices: 27282497--27282633 Score: 114
Period size: 40 Copynumber: 3.3 Consensus size: 39
27282487 CCTGAAGGTT
* *
27282497 TTACAAATCTTAACTCTAAAATAAATTCAGCTCGAAAGAC
1 TTACAAATCTT-ACTCTAAAATAAATTCAACTCAAAAGAC
* * * * * *
27282537 TTACGAATCTTACTCAAAAGATTTTTATATT-ACACCCAGAAGTC
1 TTACAAATCTTACTCTAAA-A----TAAATTCA-ACTCAAAAGAC
*
27282581 TTACAAATCTTGACTCTAAAATAGATTCAACTCAAAAGAC
1 TTACAAATCTT-ACTCTAAAATAAATTCAACTCAAAAGAC
27282621 TTACAAATCTTAC
1 TTACAAATCTTAC
27282634 CTGGAGGACT
Statistics
Matches: 75, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
39 9 0.12
40 35 0.47
41 1 0.01
43 1 0.01
44 22 0.29
45 7 0.09
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (39 bp):
TTACAAATCTTACTCTAAAATAAATTCAACTCAAAAGAC
Found at i:27284137 original size:22 final size:22
Alignment explanation
Indices: 27284095--27284138 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
27284085 AAAGATTATT
* *
27284095 TTTTTCTAGAAACATCTTTTTC
1 TTTTTCTAAAAACATCATTTTC
27284117 TTTTT-TAAAAACATACATTTTC
1 TTTTTCTAAAAACAT-CATTTTC
27284139 ACCTTTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.30, C:0.16, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTTTCTAAAAACATCATTTTC
Found at i:27289304 original size:102 final size:99
Alignment explanation
Indices: 27289072--27289342 Score: 323
Period size: 102 Copynumber: 2.7 Consensus size: 99
27289062 TTAAGCATTC
* * * * * *
27289072 TAATAGTTTAGTAAGA-TCTAATTCAATATTTAAATCCTCTAATAGTTTAGTAGGATTGAAATTT
1 TAATAGTTTTGTAAGACT-TAATTCAATATTTAAATCCTCCAATAATTTGGAAGGATTGAAAATT
* * * * *
27289136 TTATTTTTTTTTTACAAAAAATTTATTAAGTCCTC
65 TTATTTTTTTTTAAAAAAAAATTCATTAAATCCTA
* * * *
27289171 CAATA-TTTTGATAAAACTTAATTCAATATTTAAATTCTCCAATAATTTGGGAGGATTGAAAATT
1 TAATAGTTTTG-TAAGACTTAATTCAATATTTAAATCCTCCAATAATTTGGAAGGATTGAAAATT
27289235 TTATTATTATTATTTAAAAAAAAATTCATTAAATCCTA
65 TTATT-TT-TT-TTTAAAAAAAAATTCATTAAATCCTA
* *
27289273 TAATAGTTTTGTAAGACTTAATTCAAAATTTAAATCCTCCAATAATTTGGAAGCATTGAAAATTT
1 TAATAGTTTTGTAAGACTTAATTCAATATTTAAATCCTCCAATAATTTGGAAGGATTGAAAATTT
27289338 T-TTTT
66 TATTTT
27289343 CAAGAAATTC
Statistics
Matches: 146, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
98 4 0.03
99 53 0.36
100 5 0.03
101 4 0.03
102 75 0.51
103 5 0.03
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (99 bp):
TAATAGTTTTGTAAGACTTAATTCAATATTTAAATCCTCCAATAATTTGGAAGGATTGAAAATTT
TATTTTTTTTTAAAAAAAAATTCATTAAATCCTA
Found at i:27290064 original size:21 final size:22
Alignment explanation
Indices: 27290019--27290071 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
27290009 CATGATTTAT
* *
27290019 AATAAAAAATTAAAACCAGATA
1 AATAAAAGATTAAAACCAGAAA
*
27290041 AATAAAAGATTAAAA-CATAAA
1 AATAAAAGATTAAAACCAGAAA
27290062 AATAAAAGAT
1 AATAAAAGAT
27290072 AATTAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 14 0.50
22 14 0.50
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.19
Consensus pattern (22 bp):
AATAAAAGATTAAAACCAGAAA
Found at i:27291402 original size:20 final size:21
Alignment explanation
Indices: 27291377--27291418 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27291367 ATTTTTTTAA
27291377 TTAAAAAA-ATCTCAAAATTT
1 TTAAAAAATATCTCAAAATTT
* *
27291397 TTAAAAAATATTTTAAAATTT
1 TTAAAAAATATCTCAAAATTT
27291418 T
1 T
27291419 GAAATATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAAAAATATCTCAAAATTT
Found at i:27291466 original size:19 final size:19
Alignment explanation
Indices: 27291435--27291471 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
27291425 TTATAAAGAA
27291435 TTAAAAAACTAAAATATTTT
1 TTAAAAAACTAAAA-ATTTT
27291455 TTAAAAAA-TAAAAATTT
1 TTAAAAAACTAAAAATTT
27291472 ATGAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TTAAAAAACTAAAAATTTT
Found at i:27291484 original size:18 final size:17
Alignment explanation
Indices: 27291465--27291507 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
27291455 TTAAAAAATA
**
27291465 AAAATTTATGAAATTTT
1 AAAATTTAAAAAATTTT
27291482 AAAATATTAAAAAATTTT
1 AAAAT-TTAAAAAATTTT
27291500 CAAAATTT
1 -AAAATTT
27291508 TAATAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 12 0.55
19 5 0.23
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
AAAATTTAAAAAATTTT
Found at i:27291557 original size:16 final size:18
Alignment explanation
Indices: 27291524--27291563 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
27291514 AAAGTCAAAA
27291524 AAAATTCAAAAAATTATG
1 AAAATTCAAAAAATTATG
*
27291542 TAAATT-AAAAAA-TATG
1 AAAATTCAAAAAATTATG
27291558 AAAATT
1 AAAATT
27291564 TTAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 9 0.45
17 6 0.30
18 5 0.25
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (18 bp):
AAAATTCAAAAAATTATG
Found at i:27291724 original size:19 final size:18
Alignment explanation
Indices: 27291696--27291744 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
27291686 AGTATTATAA
*
27291696 TTTT-AATTTTTACATATT
1 TTTTGAATTTTTA-AAATT
27291714 TTTTGAATTTTTTAAAATT
1 TTTTGAA-TTTTTAAAATT
27291733 TTTTGAATTTTT
1 TTTTGAATTTTT
27291745 TATTTTAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 9 0.32
19 13 0.46
20 6 0.21
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTTGAATTTTTAAAATT
Found at i:27291725 original size:10 final size:9
Alignment explanation
Indices: 27291711--27291745 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
27291701 ATTTTTACAT
27291711 ATTTTTTGA
1 ATTTTTTGA
*
27291720 ATTTTTTAAA
1 ATTTTTT-GA
27291730 ATTTTTTGA
1 ATTTTTTGA
27291739 ATTTTTT
1 ATTTTTT
27291746 ATTTTAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (9 bp):
ATTTTTTGA
Found at i:27292024 original size:21 final size:21
Alignment explanation
Indices: 27291980--27292027 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
27291970 TAAAATTTTT
* ***
27291980 AATTTTTTTGGATTTTTCTTA
1 AATTTTTTTAGATTTTTAGAA
27292001 AATTTTTTTAGATTTTTAGAA
1 AATTTTTTTAGATTTTTAGAA
27292022 AATTTT
1 AATTTT
27292028 AAATTTTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.62
Consensus pattern (21 bp):
AATTTTTTTAGATTTTTAGAA
Found at i:27306419 original size:28 final size:28
Alignment explanation
Indices: 27306383--27306446 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
27306373 TTAAAACCAG
* *
27306383 GTTAATATGTGTTAGTTAGTTGGACTAA
1 GTTACTATGTGTTAGTTAGTTAGACTAA
27306411 GTTACTATGTGTTAGTTAGTTAGACTAA
1 GTTACTATGTGTTAGTTAGTTAGACTAA
27306439 GTTACTAT
1 GTTACTAT
27306447 AATTTCAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (28 bp):
GTTACTATGTGTTAGTTAGTTAGACTAA
Found at i:27308147 original size:3 final size:3
Alignment explanation
Indices: 27308132--27308172 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
27308122 AAAAAATGGA
*
27308132 AAT AAT GAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27308173 AGCCTATCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27310776 original size:8 final size:8
Alignment explanation
Indices: 27310763--27310812 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
27310753 TACATGGATG
27310763 GATATATA
1 GATATATA
27310771 GATATATA
1 GATATATA
*
27310779 GATACATA
1 GATATATA
* *
27310787 GACACATA
1 GATATATA
*
27310795 GATAAATA
1 GATATATA
27310803 GAT-TATA
1 GATATATA
27310810 GAT
1 GAT
27310813 CATGGTACCA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
7 6 0.16
8 31 0.84
ACGTcount: A:0.50, C:0.06, G:0.14, T:0.30
Consensus pattern (8 bp):
GATATATA
Found at i:27316268 original size:23 final size:24
Alignment explanation
Indices: 27316242--27316287 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
27316232 TAAAAATTTC
27316242 ATAAA-TTTTATTATTTT-ATTTAA
1 ATAAATTTTTA-TATTTTAATTTAA
27316265 ATAAATTTTTATATTTTAATTTA
1 ATAAATTTTTATATTTTAATTTA
27316288 TATTCAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
ATAAATTTTTATATTTTAATTTAA
Found at i:27316298 original size:30 final size:30
Alignment explanation
Indices: 27316254--27316329 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
27316244 AAATTTTATT
27316254 ATTT-TATTTAAATAAATTTTTATATTTTA
1 ATTTATATTTAAATAAATTTTTATATTTTA
* *
27316283 ATTTATATTCAAATAAATTTTTATTTTTTA
1 ATTTATATTTAAATAAATTTTTATATTTTA
27316313 ATTTATATTTAAATAAA
1 ATTTATATTTAAATAAA
27316330 CTCTTAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
29 4 0.09
30 39 0.91
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (30 bp):
ATTTATATTTAAATAAATTTTTATATTTTA
Found at i:27317202 original size:60 final size:60
Alignment explanation
Indices: 27317109--27317228 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
27317099 TACTAGTAAT
27317109 AAATATTGCTATTGGATTAGAACTTTGGAGATATCGAACAGTTATCGATTGTGTCAAAAG
1 AAATATTGCTATTGGATTAGAACTTTGGAGATATCGAACAGTTATCGATTGTGTCAAAAG
*
27317169 AAATATTGCTATTGGATTAGAACTTTGGAGATATCGAACGGTTATCGATTGTGTCAAAAG
1 AAATATTGCTATTGGATTAGAACTTTGGAGATATCGAACAGTTATCGATTGTGTCAAAAG
27317229 TCTTAACTCT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (60 bp):
AAATATTGCTATTGGATTAGAACTTTGGAGATATCGAACAGTTATCGATTGTGTCAAAAG
Found at i:27317849 original size:17 final size:18
Alignment explanation
Indices: 27317822--27317855 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
27317812 ATTTTTTTGG
27317822 ATTTTTATAAAATTTTTC
1 ATTTTTATAAAATTTTTC
*
27317840 ATTTTT-TAAAGTTTTT
1 ATTTTTATAAAATTTTT
27317856 TACAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTTATAAAATTTTTC
Found at i:27317889 original size:23 final size:22
Alignment explanation
Indices: 27317851--27317893 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
27317841 TTTTTTAAAG
27317851 TTTTTTACAAATTTTATTATTA
1 TTTTTTACAAATTTTATTATTA
27317873 TTTTTTA-AATATATTTATTAT
1 TTTTTTACAA-AT-TTTATTAT
27317894 AAACAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 9 0.47
23 8 0.42
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTTTACAAATTTTATTATTA
Found at i:27319543 original size:2 final size:2
Alignment explanation
Indices: 27319536--27319578 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
27319526 ATCATTAATT
27319536 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27319578 T
1 T
27319579 ATATATATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:27319583 original size:2 final size:2
Alignment explanation
Indices: 27319578--27319605 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27319568 TCTCTCTCTC
27319578 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
27319606 CACATACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27320152 original size:13 final size:14
Alignment explanation
Indices: 27320134--27320162 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27320124 AAATAATTAT
27320134 AAAATTATA-ATAA
1 AAAATTATAGATAA
27320147 AAAATTATAGATAA
1 AAAATTATAGATAA
27320161 AA
1 AA
27320163 TATTCCAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
AAAATTATAGATAA
Found at i:27320985 original size:30 final size:30
Alignment explanation
Indices: 27320945--27321011 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 30
27320935 AAATTAAAAA
*
27320945 ATTAATTTAAAATTATAATATTTGATTTA-AT
1 ATTAAATT-AAATT-TAATATTTGATTTAGAT
**
27320976 -TTAAATTAAATTTTTTATTTGATTTAGAT
1 ATTAAATTAAATTTAATATTTGATTTAGAT
27321005 ATTAAAT
1 ATTAAAT
27321012 ATATATATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 12 0.39
29 7 0.23
30 12 0.39
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (30 bp):
ATTAAATTAAATTTAATATTTGATTTAGAT
Found at i:27321175 original size:19 final size:18
Alignment explanation
Indices: 27321147--27321186 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
27321137 TTAAATATAC
27321147 TAAAATTTTATATTAAAA
1 TAAAATTTTATATTAAAA
27321165 TAAATATTTTATATTAAAA
1 TAAA-ATTTTATATTAAAA
27321184 TAA
1 TAA
27321187 TATACAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAAATTTTATATTAAAA
Found at i:27323579 original size:2 final size:2
Alignment explanation
Indices: 27323572--27323608 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
27323562 CAATCAGCCA
27323572 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27323609 CATGGATAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:27324838 original size:21 final size:21
Alignment explanation
Indices: 27324810--27324863 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
27324800 ATTTTATCAT
27324810 TAAT-TTTAATTTTATTATTA
1 TAATATTTAATTTTATTATTA
*
27324830 TAATATTTAATCTTATTATTA
1 TAATATTTAATTTTATTATTA
* *
27324851 TAGTAATTAATTT
1 TAATATTTAATTT
27324864 CACATTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TAATATTTAATTTTATTATTA
Found at i:27324903 original size:22 final size:22
Alignment explanation
Indices: 27324877--27324926 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
27324867 ATTTATTATT
27324877 ATTTT-TAATCTCATCAAAATCA
1 ATTTTATAAT-TCATCAAAATCA
*
27324899 ATTTTATCATTCATCAAAAT-A
1 ATTTTATAATTCATCAAAATCA
27324920 GATTTTA
1 -ATTTTA
27324927 AAACTATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 1 0.04
22 21 0.84
23 3 0.12
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTTTATAATTCATCAAAATCA
Found at i:27324904 original size:21 final size:22
Alignment explanation
Indices: 27324879--27324955 Score: 61
Period size: 28 Copynumber: 3.3 Consensus size: 22
27324869 TTATTATTAT
27324879 TTTTAATC-TCATCAAAATCA-A
1 TTTTAATCATCATCAAAAT-AGA
27324900 TTTT-ATCATTCATCAAAATAGA
1 TTTTAATCA-TCATCAAAATAGA
27324922 TTTTAAAACTATCATTCATCAAAATAGA
1 TTTT---A--ATCA-TCATCAAAATAGA
27324950 TTTTAA
1 TTTTAA
27324956 AACTATCTAC
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
20 3 0.06
21 5 0.11
22 15 0.32
23 1 0.02
25 1 0.02
28 22 0.47
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (22 bp):
TTTTAATCATCATCAAAATAGA
Found at i:27324943 original size:28 final size:28
Alignment explanation
Indices: 27324903--27324962 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
27324893 AAATCAATTT
27324903 TATCATTCATCAAAATAGATTTTAAAAC
1 TATCATTCATCAAAATAGATTTTAAAAC
27324931 TATCATTCATCAAAATAGATTTTAAAAC
1 TATCATTCATCAAAATAGATTTTAAAAC
27324959 TATC
1 TATC
27324963 TACCTCTCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (28 bp):
TATCATTCATCAAAATAGATTTTAAAAC
Found at i:27327079 original size:7 final size:7
Alignment explanation
Indices: 27327043--27327078 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
27327033 AGCATATATA
27327043 TATATTTT
1 TATA-TTT
27327051 TATATTT
1 TATATTT
27327058 TATATTT
1 TATATTT
27327065 TATATTT
1 TATATTT
27327072 TAT-TTT
1 TATATTT
27327078 T
1 T
27327079 TCAAAAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 4 0.14
7 20 0.71
8 4 0.14
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TATATTT
Found at i:27327873 original size:433 final size:435
Alignment explanation
Indices: 27325646--27329996 Score: 5632
Period size: 433 Copynumber: 10.0 Consensus size: 435
27325636 TTAGATAAAA
* * * *
27325646 GAATTAAAACTTTAGCTCAAATTGACTCGAATAAATTATATATACTTAAAATATTATAGTTATAT
1 GAATTAAAACTTTAGCTCGATTTGACTCGAATAAATTATATATAATTAAAATATTATA-AT-TAT
* * *
27325711 AAGTATATATATATATATGAATTTTTAATTTTTATATTTTATTTTTTCAAAAAATGTTTTTTAAT
64 -A-TA-AT-TATATATATGAATTTTTATTTTTTATATCTTATTTTTTC-AAAAATATTTTTTAAT
* * * *
27325776 TTTTTATTACATAAATTAAGTTTAATAGATAGGTTTAAATTTTATTTTTTTTAATTTATGTCAAA
124 TTTTTATTACATAAATTAAGTTTAATAGATATGTTTAAAATTTA---TTTTTAATTTAGGTAAAA
* * * * *
27325841 AATTTTAAGGCTCAAAATATCGAAATAGGTTAAGTCTGGACAAACATATAAATTATTATTACAAA
186 AATTTTAAGGCTCGAAATATCGGAATAGGTTAGGTCTGGACAAACATATAAGTTATTATTACTAA
* * * *
27325906 GCATAGGCCCGATTCAAACCTAACTCGACTTGACCCATAAACACTTTTAATTTAAAAATATATAT
251 GCATAGGCCCGACTCAAACCTAAC-CGACTTGGCCCATGAACACTTATAATTTAAAAATATATAT
* * *
27325971 GAAAATG-GATGTTATGTATTAAAATTAAAATTTCAGATTCACTAGATGTTATTTTTTAATAGTA
315 GAAAA-GAGATTTTATGTATTAAAATTAAAATTTCAAATTCACTAGATGTTATTTTTTAATAGTC
* * **
27326035 ATTATATAAATTAATTGAATTAAACTTCGAATTCAACTTATTCTGCTGATATTTCAT
379 ATTATATAAATAAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCAT
* *
27326092 AAATTAAAACTTTAGTTCGATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
1 GAATTAAAACTTTAGCTCGATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
*
27326157 AAGTATATATATATATGAATTTTTATTTTTTATAAT-TTATTTTTTCAAACAA-GTTTTTTAA-T
66 -A--AT-TATATATATGAATTTTTATTTTTTAT-ATCTTATTTTTTCAAA-AATATTTTTTAATT
* *
27326219 TTTTATTACATAAATTAAGTTTAATAGATAAGTTTAAATTTTATTTTTTTAATTTAGGTAAAAAA
125 TTTTATTACATAAATTAAGTTTAATAGATATGTTTAAAATTTA--TTTTTAATTTAGGTAAAAAA
* * * *
27326284 TTTTAAGACTCGAAATATTGGAATAAGTTAGGTCTGGACAAACATATAAGTTATTATTACAAAGC
188 TTTTAAGGCTCGAAATATCGGAATAGGTTAGGTCTGGACAAACATATAAGTTATTATTACTAAGC
* * *
27326349 ATAGGCTCGACTCAAACCTAACCTGACTTGGCCCATGAACACTTCTAATTTAAAAATATATA-AA
253 ATAGGCCCGACTCAAACCTAACC-GACTTGGCCCATGAACACTTATAATTTAAAAATATATATGA
** * *
27326413 AAAGAGATTTTATGTATTAAAATCCAATTTTCAAATTCACTAGATGTTATTTTTTAATAATCATT
317 AAAGAGATTTTATGTATTAAAATTAAAATTTCAAATTCACTAGATGTTATTTTTTAATAGTCATT
* **
27326478 ATATAAATCAATTGAATTAAACTTTAGATTCAACTTATTCTATTGATATTTCAT
382 ATATAAATAAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCAT
* *
27326532 GAATTAAAAATTTAGCTCGATTTCACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
1 GAATTAAAACTTTAGCTCGATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
27326597 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTTC-AAAATATTTTTTAATTTTTTAT
66 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTTCAAAAATATTTTTTAATTTTTTAT
* * * * * *
27326661 TACGTAAATTAAGTTTAATATATATGTTTAAAATTTATTTTTAATTTAAGTTAAAATTTTTAAAG
131 TACATAAATTAAGTTTAATAGATATGTTTAAAATTTATTTTTAATTTAGGTAAAAAATTTTAAGG
* * *
27326726 CTCAAAATATCGTAATAGGTTAGGTCTGGACAAACATATAAGTTATTATTATTAAGCATAGGCCC
196 CTCGAAATATCGGAATAGGTTAGGTCTGGACAAACATATAAGTTATTATTACTAAGCATAGGCCC
* * *
27326791 AACTCAAACCTAATCCAACTTGGCCCATGAACACTTATAATTTAAAAAATATATATGAAAAAAGA
261 GACTCAAACCTAA-CCGACTTGGCCCATGAACACTTATAATTT-AAAAATATATATGAAAAGAGA
* * *
27326856 TTTTATGTATTAAAATTAAAATTTCATATCCACTATATGTTATTTTTTAATAGTCATTATATAAA
324 TTTTATGTATTAAAATTAAAATTTCAAATTCACTAGATGTTATTTTTTAATAGTCATTATATAAA
*
27326921 TAAATTGAATTAAACTTC-AATTCAACTTATTCTATTGATATTTCAT
389 TAAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCAT
** *
27326967 GAATTAAAACTTTAGCTTAATTTGACTCGAATAAATTATATATAATTAAAATGTTATAATTATAT
1 GAATTAAAACTTTAGCTCGATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
** * *
27327032 AAGCATATATATATATTTTTATATTTTATATTTTATATTTTATTTTTTCAAAAA-AGTTTTTTAA
66 -A--AT-TATATATA--TGAAT-TTTTATTTTTTATATCTTATTTTTTCAAAAATA-TTTTTTAA
** * **** * *
27327096 -TTTTTATTACATAAATTAAGTTTAATAGATA-AATTAAAA--AAAAAATAATATAGGTCAAAAA
123 TTTTTTATTACATAAATTAAGTTTAATAGATATGTTTAAAATTTATTTTTAATTTAGGTAAAAAA
* * * *
27327157 TTTTAAGGCTCGAAATATTGAAATAGGTTAGGTATGGACAAACATATAAGTTATTATTACAAAGC
188 TTTTAAGGCTCGAAATATCGGAATAGGTTAGGTCTGGACAAACATATAAGTTATTATTACTAAGC
* *
27327222 ATAGGCCCGACTCAAACCTAACCTGACTTGGCCCATGAACACTTCTAATTTAAAAATATATAAGA
253 ATAGGCCCGACTCAAACCTAACC-GACTTGGCCCATGAACACTTATAATTTAAAAATATATATGA
** * *
27327287 AAAGAGATTTTATGTATTAAAATCCAATTTTCAAATTCACTAAATGTTA-TTTTTAATA-TCATT
317 AAAGAGATTTTATGTATTAAAATTAAAATTTCAAATTCACTAGATGTTATTTTTTAATAGTCATT
* *
27327350 ATATAAAT-CATTGAATTAAACTTCAGATTCAACTTATTCTATTGATATTTCAT
382 ATATAAATAAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCAT
* *
27327403 GAATTAAAAATTTAGCTCGATTTCACTCGAATAAATTATATATAATTAAAATATTAT-ATTATAT
1 GAATTAAAACTTTAGCTCGATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
27327467 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTTCAAAAATATTTTTTAATTTTTTAT
66 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTTCAAAAATATTTTTTAATTTTTTAT
* * *
27327532 TAC-TAAATTAAGTTTAATAGATATGTTTAAAATTTATTTTTAATTTAAGT-TAGAATTTTAAGG
131 TACATAAATTAAGTTTAATAGATATGTTTAAAATTTATTTTTAATTTAGGTAAAAAATTTTAAGG
* * *
27327595 CTCAAAATATCGTAATAGGTTAGGTCT-GACAAACATATAAGTTATTATTATTAAGCATAGGCCC
196 CTCGAAATATCGGAATAGGTTAGGTCTGGACAAACATATAAGTTATTATTACTAAGCATAGGCCC
* *
27327659 AACTCAAACCTAATCCAACTTGGCCCATTGAACACTTATAATTTAAAAAATATATATGAAAA-AG
261 GACTCAAACCTAA-CCGACTTGGCCCA-TGAACACTTATAATTT-AAAAATATATATGAAAAGAG
* * *
27327723 ATTTTATGTATTAAAATTAAAATTTCATATCCACTATATGTTATTTTTTAATAGTCATTATATAA
323 ATTTTATGTATTAAAATTAAAATTTCAAATTCACTAGATGTTATTTTTTAATAGTCATTATATAA
27327788 ATAAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCAT
388 ATAAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCAT
**
27327836 GAATTAAAACTTTAGCTTAATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
1 GAATTAAAACTTTAGCTCGATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
** *
27327901 AAGCATATATAT--A-----ATTTTTTATATTTTATTTTTTCAAAAA-AGTTTTTTAATTTTTTA
66 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTTCAAAAATA-TTTTTTAATTTTTTA
** **** *
27327958 TTACATAAATTAAGTTTAATAGATA-AATTAAAA---AAAAATAATATAGGTAAAAAATTTTAAG
130 TTACATAAATTAAGTTTAATAGATATGTTTAAAATTTATTTTTAATTTAGGTAAAAAATTTTAAG
* * * * *
27328019 GCTCGAAATATTGGAATAGGTTAGGTCTGAACAAACATATAAGTTATTAATATTGAGCATAGGCC
195 GCTCGAAATATCGGAATAGGTTAGGTCTGGACAAACATATAAGTTATTATTACTAAGCATAGGCC
** * * *
27328084 CGACTCAAACCTAACTTAACTTGGCCCATGAACATTTATAATTTAGAAATATATAAGAAAAGAGA
260 CGACTCAAACCTAAC-CGACTTGGCCCATGAACACTTATAATTTAAAAATATATATGAAAAGAGA
** *
27328149 TTTTATGTATTAAAATCCAATTTTCAAATTCACTAGATGTTATTTTTTAATAGTCATTATATAAA
324 TTTTATGTATTAAAATTAAAATTTCAAATTCACTAGATGTTATTTTTTAATAGTCATTATATAAA
* *
27328214 TCAATTGAATTAAACTTCAGATTCAACTTATTCTATTGATATTTCAT
389 TAAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCAT
* * *
27328261 GAATTAAAAATTTAGCTCAATTTCACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
1 GAATTAAAACTTTAGCTCGATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
*
27328326 AATTATATATATGAATTTTTATTTTTTATATCTTA-TTTTTAAAAAATATTTTTTAATTTTTTAT
66 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTTCAAAAATATTTTTTAATTTTTTAT
* * * *
27328390 TACATAAATTAAGTTTAATAGATATGTTT-AAATTTATTTTTAATTTAAGTTATAATTTTTAAGG
131 TACATAAATTAAGTTTAATAGATATGTTTAAAATTTATTTTTAATTTAGGTAAAAAATTTTAAGG
* * * * *
27328454 CTCAAAATATCGTAATAGGTTAGGTCTTGACAAACATATAAGTTATTTTTATTAAGCATAGGCCC
196 CTCGAAATATCGGAATAGGTTAGGTCTGGACAAACATATAAGTTATTATTACTAAGCATAGGCCC
* * * * *
27328519 AACTCAAACCTAATCCGACTTGGCCCATGAATACTTATAATTTAAAAAATACATATGAAAAAATA
261 GACTCAAACCTAA-CCGACTTGGCCCATGAACACTTATAATTT-AAAAATATATATGAAAAGAGA
* * *
27328584 TTTTATGTATTAAAATTAAAATTTCATATCCACTATATGTTATTTTTTAATAGTCATTATATAAA
324 TTTTATGTATTAAAATTAAAATTTCAAATTCACTAGATGTTATTTTTTAATAGTCATTATATAAA
* *
27328649 TAAATAGAATTAAACTTTGGATTCAACTTATTCTATTGATATTTCAT
389 TAAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCAT
* *
27328696 GAATTAAAACTTTAACTTGATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
1 GAATTAAAACTTTAGCTCGATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
** * **
27328761 AAGCATATATAT--ATATAAATTTTATT-T-T-TTATTTTTTCAAAAAT-TTTTTTAA-TTTTTA
66 AATTATATATATGAATTTTTATTTT-TTATATCTTATTTTTTCAAAAATATTTTTTAATTTTTTA
* ***
27328819 TTACATAAATTAAGTTTAATAGATAAATTTTTAAAA---AAAATT-ATTTAGGTAAAAAATTTTA
130 TTACATAAATTAAGTTTAATAGAT--ATGTTTAAAATTTATTTTTAATTTAGGTAAAAAATTTTA
* * * * * **
27328880 AGGCTCGAAATATTGGAATAGGTTAGGTCTGGATAAACATATAAATTATTAATACTGAGCATAAA
193 AGGCTCGAAATATCGGAATAGGTTAGGTCTGGACAAACATATAAGTTATTATTACTAAGCATAGG
* *
27328945 CCCGACTCAAACCTAACCTGACTTGGCCTATGAACACTTATAATTTAAAAATATATAAGAAAAGA
258 CCCGACTCAAACCTAACC-GACTTGGCCCATGAACACTTATAATTTAAAAATATATATGAAAAGA
* * *
27329010 GATTTTATGTATTAAAATTCAATTTTCAAATTCACTAGATGTCATTTTTTAATAGTCATTATATA
322 GATTTTATGTATTAAAATTAAAATTTCAAATTCACTAGATGTTATTTTTTAATAGTCATTATATA
* **
27329075 AATCAATTGAATTAAACTTTAGATTCAACTTATTCTATTGATATTTCAT
387 AATAAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCAT
* *
27329124 GAATTAAAAATTTAGCTCGATTTCACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
1 GAATTAAAACTTTAGCTCGATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
27329189 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTT-AAAAATATTTTTTAATTTTTTAT
66 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTTCAAAAATATTTTTTAATTTTTTAT
* * * * * * * *
27329253 TACGTAAATTAAATTTAATAGATAGGTTT--AATTTTTTTTTAATTTAGGTTAGAATTTTTAAGA
131 TACATAAATTAAGTTTAATAGATATGTTTAAAATTTATTTTTAATTTAGGTAAAAAATTTTAAGG
* * **
27329316 CTCGAAATATCGGAATAGGTTAGGTTTGGACAAACATATAAGTTATTATTTCTAAGCATAGGCTA
196 CTCGAAATATCGGAATAGGTTAGGTCTGGACAAACATATAAGTTATTATTACTAAGCATAGGCCC
* * * * *
27329381 AACTCAAACCTAATCCGACTTGGCCCATGAATACTTCTAATTTAAAAAATATATATAAAAAAAGA
261 GACTCAAACCTAA-CCGACTTGGCCCATGAACACTTATAATTT-AAAAATATATATGAAAAGAGA
* * * *
27329446 TTTTATGTATTAAAATTAAAATTGCATATCCACTATATGTTA-TTTTTAATAGTCATTATATAAA
324 TTTTATGTATTAAAATTAAAATTTCAAATTCACTAGATGTTATTTTTTAATAGTCATTATATAAA
* *
27329510 TAAATTGAATTAAACTTCGGATTCAACTTATTTTACTGATATTTCAT
389 TAAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCAT
* * * *
27329557 GAATAAAAACTTTAGCTTGATTTAACTCGAATAAATTATATATAATTAAAATATTATAATTTTAT
1 GAATTAAAACTTTAGCTCGATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
** * * * * * *
27329622 AAGCATCTATATAAATTTTTATTTTTTATATTTTATTATTTC---AATTTTTTTTAAATTTTTAT
66 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTTCAAAAATATTTTTTAATTTTTTAT
* * *
27329684 TACATAAATTAAGTTTAATAGATA-GATTTAAAATTTATTTTTTTAATTTAGGTTAGAATTTTTA
131 TACATAAATTAAGTTTAATAGATATG-TTTAAAATTTA--TTTTTAATTTAGGTAAAAAATTTTA
* * * * * * *
27329748 AAGTTCGAAATATTGGAATAGGTTAAGTCT-AACAAACATATAAGTAATTATTACCAA-CTATAG
193 AGGCTCGAAATATCGGAATAGGTTAGGTCTGGACAAACATATAAGTTATTATTACTAAGC-ATAG
* * * * * * * * *
27329811 GCCTGACTCAAACCTAATTC-AATTTGTCCATGAATATTTTTAATTTAAAAATATATAAGAAAAG
257 GCCCGACTCAAACCTAA-CCGACTTGGCCCATGAACACTTATAATTTAAAAATATATATGAAAAG
* * *
27329875 AGATTTTATGTATTAAAATTAAAATTT-AAGATTTACTAGATGTTATTTTTTAATAATTATTATA
321 AGATTTTATGTATTAAAATTAAAATTTCAA-ATTCACTAGATGTTATTTTTTAATAGTCATTATA
* * * *
27329939 TAAATTAATTGAATTAAACTTTGAATTCAACTTATTC-AGCTGATATTTCAT
385 TAAATAAATTGAATTAAACTTCGGATTCAACTTATTCTA-TTGATATTTCAT
27329990 GAATTAA
1 GAATTAA
27329997 TGTTGTAAGT
Statistics
Matches: 3439, Mismatches: 382, Indels: 181
0.86 0.10 0.05
Matches are distributed among these distances:
424 24 0.01
425 230 0.07
426 58 0.02
427 52 0.02
428 270 0.08
429 189 0.05
430 133 0.04
431 161 0.05
432 123 0.04
433 497 0.14
434 351 0.10
435 372 0.11
436 250 0.07
437 11 0.00
438 59 0.02
439 126 0.04
440 167 0.05
441 142 0.04
442 98 0.03
443 26 0.01
444 44 0.01
445 3 0.00
446 53 0.02
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.42
Consensus pattern (435 bp):
GAATTAAAACTTTAGCTCGATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTTCAAAAATATTTTTTAATTTTTTAT
TACATAAATTAAGTTTAATAGATATGTTTAAAATTTATTTTTAATTTAGGTAAAAAATTTTAAGG
CTCGAAATATCGGAATAGGTTAGGTCTGGACAAACATATAAGTTATTATTACTAAGCATAGGCCC
GACTCAAACCTAACCGACTTGGCCCATGAACACTTATAATTTAAAAATATATATGAAAAGAGATT
TTATGTATTAAAATTAAAATTTCAAATTCACTAGATGTTATTTTTTAATAGTCATTATATAAATA
AATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCAT
Found at i:27329101 original size:863 final size:862
Alignment explanation
Indices: 27325646--27329996 Score: 6426
Period size: 863 Copynumber: 5.0 Consensus size: 862
27325636 TTAGATAAAA
* * * * * *
27325646 GAATTAAAACTTTAGCTCAAATTGACTCGAATAAATTATATATACTTAAAATATTATAGTTATAT
1 GAATTAAAAATTTAGCTCGATTTCACTCGAATAAATTATATATAATTAAAATATTATA-AT-TAT
* * *
27325711 AAGTATATATATATATATGAATTTTTAATTTTTATATTTTATTTTTTCAAAAAATGTTTTTTAAT
64 -A-TA-AT-TATATATATGAATTTTTATTTTTTATATCTTA-TTTTT-AAAAAATATTTTTTAAT
* * *
27325776 TTTTTATTACATAAATTAAGTTTAATAGATAGGTTTAAATTTTATTTTTTTTAATTTATGTCAAA
123 TTTTTATTACATAAATTAAGTTTAATAGATATGTTTAAA-TTTA---TTTTTAATTTAAGTTAAA
* * * * * **
27325841 AATTTTAAGGCTCAAAATATCGAAATAGGTTAAGTCTGGACAAACATATAAATTATTATTACAAA
184 ATTTTTAAGGCTCAAAATATCGTAATAGGTTAGGTCTTGACAAACATATAAGTTATTATTATTAA
* * * * *
27325906 GCATAGGCCCGATTCAAACCTAA-CTCGACTTGACCCATAAACACTTTTAATTT-AAAAATATAT
249 GCATAGGCCCAACTCAAACCTAATC-CGACTTGGCCCATGAACACTTATAATTTAAAAAATATAT
** * * * *
27325969 ATGAAAATGGATGTTATGTATTAAAATTAAAATTTCAGATTCACTAGATGTTATTTTTTAATAGT
313 ATGAAAAAAGATTTTATGTATTAAAATTAAAATTTCATATCCACTATATGTTATTTTTTAATAGT
* * * ** *
27326034 AATTATATAAATTAATTGAATTAAACTTCGAATTCAACTTATTCTGCTGATATTTCATAAATTAA
378 CATTATATAAATAAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCATGAATTAA
*
27326099 AACTTTAG-TTCGATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATATAAGTAT
443 AACTTTAGCTT-GATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATATAAGCAT
27326163 ATATATATATGAATTTTTATTTTTTATAATTTATTTTTTCAAACAAGTTTTTTAATTTTTATTAC
507 ATATATATAT-AATTTTTA----TT-T--TTTATTTTTTCAAA-AAGTTTTTTAATTTTTATTAC
* **** *
27326228 ATAAATTAAGTTTAATAGAT-AAGTTTAAATTTTATTTTTTTAATTTAGGTAAAAAATTTTAAGA
563 ATAAATTAAGTTTAATAGATAAATTTTAAA----A-AAAATT-ATTTAGGTAAAAAATTTTAAGG
* *
27326292 CTCGAAATATTGGAATAAGTTAGGTCTGGACAAACATATAAGTTATTATTACAAAGCATAGGCTC
622 CTCGAAATATTGGAATAGGTTAGGTCTGGACAAACATATAAGTTATTATTACAAAGCATAGGCCC
*
27326357 GACTCAAACCTAACCTGACTTGGCCCATGAACACTTCTAATTTAAAAATATATAA-AAAAGAGAT
687 GACTCAAACCTAACCTGACTTGGCCCATGAACACTTATAATTTAAAAATATATAAGAAAAGAGAT
27326421 TTTATGTATTAAAATCCAATTTTCAAATTCACTAGATGTTATTTTTTAATAATCATTATATAAAT
752 TTTATGTATTAAAATCCAATTTTCAAATTCACTAGATGTTATTTTTTAATAATCATTATATAAAT
27326486 CAATTGAATTAAACTTTAGATTCAACTTATTCTATTGATATTTCAT
817 CAATTGAATTAAACTTTAGATTCAACTTATTCTATTGATATTTCAT
27326532 GAATTAAAAATTTAGCTCGATTTCACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
1 GAATTAAAAATTTAGCTCGATTTCACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
**
27326597 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTTCAAAATATTTTTTAATTTTTTATT
66 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTAAAAAATATTTTTTAATTTTTTATT
* * *
27326662 ACGTAAATTAAGTTTAATATATATGTTTAAAATTTATTTTTAATTTAAGTTAAAATTTTTAAAGC
131 ACATAAATTAAGTTTAATAGATATGTTT-AAATTTATTTTTAATTTAAGTTAAAATTTTTAAGGC
*
27326727 TCAAAATATCGTAATAGGTTAGGTCTGGACAAACATATAAGTTATTATTATTAAGCATAGGCCCA
195 TCAAAATATCGTAATAGGTTAGGTCTTGACAAACATATAAGTTATTATTATTAAGCATAGGCCCA
*
27326792 ACTCAAACCTAATCCAACTTGGCCCATGAACACTTATAATTTAAAAAATATATATGAAAAAAGAT
260 ACTCAAACCTAATCCGACTTGGCCCATGAACACTTATAATTTAAAAAATATATATGAAAAAAGAT
27326857 TTTATGTATTAAAATTAAAATTTCATATCCACTATATGTTATTTTTTAATAGTCATTATATAAAT
325 TTTATGTATTAAAATTAAAATTTCATATCCACTATATGTTATTTTTTAATAGTCATTATATAAAT
* *
27326922 AAATTGAATTAAACTTC-AATTCAACTTATTCTATTGATATTTCATGAATTAAAACTTTAGCTTA
390 AAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCATGAATTAAAACTTTAGCTTG
*
27326986 ATTTGACTCGAATAAATTATATATAATTAAAATGTTATAATTATATAAGCATATATATATATTTT
455 ATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATATAAGCATATATATATA----
27327051 TATATTTTATATTTTATATTTTATTTTTTCAAAAAAGTTTTTTAATTTTTATTACATAAATTAAG
516 TA-ATTTT-TA---T-T-TTTTATTTTTTC-AAAAAGTTTTTTAATTTTTATTACATAAATTAAG
** * * * *
27327116 TTTAATAGATAAATTAAAAAAAAAATAATATAGGTCAAAAATTTTAAGGCTCGAAATATTGAAAT
573 TTTAATAGATAAATTTTAAAAAAAATTATTTAGGTAAAAAATTTTAAGGCTCGAAATATTGGAAT
*
27327181 AGGTTAGGTATGGACAAACATATAAGTTATTATTACAAAGCATAGGCCCGACTCAAACCTAACCT
638 AGGTTAGGTCTGGACAAACATATAAGTTATTATTACAAAGCATAGGCCCGACTCAAACCTAACCT
*
27327246 GACTTGGCCCATGAACACTTCTAATTTAAAAATATATAAGAAAAGAGATTTTATGTATTAAAATC
703 GACTTGGCCCATGAACACTTATAATTTAAAAATATATAAGAAAAGAGATTTTATGTATTAAAATC
*
27327311 CAATTTTCAAATTCACTAAATGTTA-TTTTTAAT-ATCATTATATAAATC-ATTGAATTAAACTT
768 CAATTTTCAAATTCACTAGATGTTATTTTTTAATAATCATTATATAAATCAATTGAATTAAACTT
*
27327373 CAGATTCAACTTATTCTATTGATATTTCAT
833 TAGATTCAACTTATTCTATTGATATTTCAT
27327403 GAATTAAAAATTTAGCTCGATTTCACTCGAATAAATTATATATAATTAAAATATTAT-ATTATAT
1 GAATTAAAAATTTAGCTCGATTTCACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
*
27327467 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTTCAAAAATATTTTTTAATTTTTTAT
66 AATTATATATATGAATTTTTATTTTTTATATCTTA-TTTTTAAAAAATATTTTTTAATTTTTTAT
*
27327532 TAC-TAAATTAAGTTTAATAGATATGTTTAAAATTTATTTTTAATTTAAGTTAGAA-TTTTAAGG
130 TACATAAATTAAGTTTAATAGATATGTTT-AAATTTATTTTTAATTTAAGTTAAAATTTTTAAGG
27327595 CTCAAAATATCGTAATAGGTTAGGTC-TGACAAACATATAAGTTATTATTATTAAGCATAGGCCC
194 CTCAAAATATCGTAATAGGTTAGGTCTTGACAAACATATAAGTTATTATTATTAAGCATAGGCCC
*
27327659 AACTCAAACCTAATCCAACTTGGCCCATTGAACACTTATAATTTAAAAAATATATATG-AAAAAG
259 AACTCAAACCTAATCCGACTTGGCCCA-TGAACACTTATAATTTAAAAAATATATATGAAAAAAG
27327723 ATTTTATGTATTAAAATTAAAATTTCATATCCACTATATGTTATTTTTTAATAGTCATTATATAA
323 ATTTTATGTATTAAAATTAAAATTTCATATCCACTATATGTTATTTTTTAATAGTCATTATATAA
27327788 ATAAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCATGAATTAAAACTTTAGCT
388 ATAAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCATGAATTAAAACTTTAGCT
*
27327853 TAATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATATAAGCATATATATA-AT-
453 TGATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATATAAGCATATATATATATA
*
27327916 -TTTTTATATTTTATTTTTTCAAAAAAGTTTTTTAATTTTTTATTACATAAATTAAGTTTAATAG
518 ATTTTTATTTTTTATTTTTTC-AAAAAGTTTTTTAA-TTTTTATTACATAAATTAAGTTTAATAG
* * *
27327980 ATAAA-TTAAAAAAAAATAATATAGGTAAAAAATTTTAAGGCTCGAAATATTGGAATAGGTTAGG
581 ATAAATTTTAAAAAAAATTATTTAGGTAAAAAATTTTAAGGCTCGAAATATTGGAATAGGTTAGG
* * *** * *
27328044 TCTGAACAAACATATAAGTTATTAATATTGAGCATAGGCCCGACTCAAACCTAACTTAACTTGGC
646 TCTGGACAAACATATAAGTTATTATTACAAAGCATAGGCCCGACTCAAACCTAACCTGACTTGGC
* *
27328109 CCATGAACATTTATAATTTAGAAATATATAAGAAAAGAGATTTTATGTATTAAAATCCAATTTTC
711 CCATGAACACTTATAATTTAAAAATATATAAGAAAAGAGATTTTATGTATTAAAATCCAATTTTC
* *
27328174 AAATTCACTAGATGTTATTTTTTAATAGTCATTATATAAATCAATTGAATTAAACTTCAGATTCA
776 AAATTCACTAGATGTTATTTTTTAATAATCATTATATAAATCAATTGAATTAAACTTTAGATTCA
27328239 ACTTATTCTATTGATATTTCAT
841 ACTTATTCTATTGATATTTCAT
*
27328261 GAATTAAAAATTTAGCTCAATTTCACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
1 GAATTAAAAATTTAGCTCGATTTCACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
27328326 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTAAAAAATATTTTTTAATTTTTTATT
66 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTAAAAAATATTTTTTAATTTTTTATT
*
27328391 ACATAAATTAAGTTTAATAGATATGTTTAAATTTATTTTTAATTTAAGTTATAATTTTTAAGGCT
131 ACATAAATTAAGTTTAATAGATATGTTTAAATTTATTTTTAATTTAAGTTAAAATTTTTAAGGCT
*
27328456 CAAAATATCGTAATAGGTTAGGTCTTGACAAACATATAAGTTATTTTTATTAAGCATAGGCCCAA
196 CAAAATATCGTAATAGGTTAGGTCTTGACAAACATATAAGTTATTATTATTAAGCATAGGCCCAA
* * *
27328521 CTCAAACCTAATCCGACTTGGCCCATGAATACTTATAATTTAAAAAATACATATGAAAAAATATT
261 CTCAAACCTAATCCGACTTGGCCCATGAACACTTATAATTTAAAAAATATATATGAAAAAAGATT
27328586 TTATGTATTAAAATTAAAATTTCATATCCACTATATGTTATTTTTTAATAGTCATTATATAAATA
326 TTATGTATTAAAATTAAAATTTCATATCCACTATATGTTATTTTTTAATAGTCATTATATAAATA
* * *
27328651 AATAGAATTAAACTTTGGATTCAACTTATTCTATTGATATTTCATGAATTAAAACTTTAACTTGA
391 AATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCATGAATTAAAACTTTAGCTTGA
*
27328716 TTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATATAAGCATATATATATATAAAT
456 TTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATATAAGCATATATATATATAATT
*
27328781 TTTATTTTTTATTTTTTCAAAAATTTTTTTAATTTTTATTACATAAATTAAGTTTAATAGATAAA
521 TTTATTTTTTATTTTTTCAAAAAGTTTTTTAATTTTTATTACATAAATTAAGTTTAATAGATAAA
27328846 TTTTTAAAAAAAATTATTTAGGTAAAAAATTTTAAGGCTCGAAATATTGGAATAGGTTAGGTCTG
586 -TTTTAAAAAAAATTATTTAGGTAAAAAATTTTAAGGCTCGAAATATTGGAATAGGTTAGGTCTG
* * * ** ** *
27328911 GATAAACATATAAATTATTAATACTGAGCATAAACCCGACTCAAACCTAACCTGACTTGGCCTAT
650 GACAAACATATAAGTTATTATTACAAAGCATAGGCCCGACTCAAACCTAACCTGACTTGGCCCAT
*
27328976 GAACACTTATAATTTAAAAATATATAAGAAAAGAGATTTTATGTATTAAAATTCAATTTTCAAAT
715 GAACACTTATAATTTAAAAATATATAAGAAAAGAGATTTTATGTATTAAAATCCAATTTTCAAAT
* *
27329041 TCACTAGATGTCATTTTTTAATAGTCATTATATAAATCAATTGAATTAAACTTTAGATTCAACTT
780 TCACTAGATGTTATTTTTTAATAATCATTATATAAATCAATTGAATTAAACTTTAGATTCAACTT
27329106 ATTCTATTGATATTTCAT
845 ATTCTATTGATATTTCAT
27329124 GAATTAAAAATTTAGCTCGATTTCACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
1 GAATTAAAAATTTAGCTCGATTTCACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
*
27329189 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTTAAAAATATTTTTTAATTTTTTATT
66 AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTAAAAAATATTTTTTAATTTTTTATT
* * * * * * *
27329254 ACGTAAATTAAATTTAATAGATAGGTTT-AATTTTTTTTTAATTTAGGTTAGAATTTTTAAGACT
131 ACATAAATTAAGTTTAATAGATATGTTTAAATTTATTTTTAATTTAAGTTAAAATTTTTAAGGCT
* * **
27329318 CGAAATATCGGAATAGGTTAGGT-TTGGACAAACATATAAGTTATTATT-TCTAAGCATAGGCTA
196 CAAAATATCGTAATAGGTTAGGTCTT-GACAAACATATAAGTTATTATTAT-TAAGCATAGGCCC
* * *
27329381 AACTCAAACCTAATCCGACTTGGCCCATGAATACTTCTAATTTAAAAAATATATATAAAAAAAGA
259 AACTCAAACCTAATCCGACTTGGCCCATGAACACTTATAATTTAAAAAATATATATGAAAAAAGA
*
27329446 TTTTATGTATTAAAATTAAAATTGCATATCCACTATATGTTA-TTTTTAATAGTCATTATATAAA
324 TTTTATGTATTAAAATTAAAATTTCATATCCACTATATGTTATTTTTTAATAGTCATTATATAAA
* * *
27329510 TAAATTGAATTAAACTTCGGATTCAACTTATTTTACTGATATTTCATGAATAAAAACTTTAGCTT
389 TAAATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCATGAATTAAAACTTTAGCTT
* * *
27329575 GATTTAACTCGAATAAATTATATATAATTAAAATATTATAATTTTATAAGC--ATCTATATA-AA
454 GATTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATATAAGCATATATATATATAA
* * **
27329637 TTTTTATTTTTTATATTTTATTATTTCAATTTTTTTTAAATTTTTATTACATAAATTAAGTTTAA
519 TTTTTATTTTTTAT-TTTT-TCA---AAAAGTTTTTT-AATTTTTATTACATAAATTAAGTTTAA
* *** * * * * *
27329702 TAGATAGA-TTTAAAATTTATTTTTTTAATTTAGGTTAGAATTTTTAAAGTTCGAAATATTGGAA
578 TAGATAAATTTTAAAA---A--AAATT-ATTTAGGTAAAAAATTTTAAGGCTCGAAATATTGGAA
* * * * *
27329766 TAGGTTAAGTCT-AACAAACATATAAGTAATTATTACCAA-CTATAGGCCTGACTCAAACCTAA-
637 TAGGTTAGGTCTGGACAAACATATAAGTTATTATTACAAAGC-ATAGGCCCGACTCAAACCTAAC
* * * * * * * *
27329828 TTCAATTTGTCCATGAATATTTTTAATTTAAAAATATATAAGAAAAGAGATTTTATGTATTAAAA
701 CTGACTTGGCCCATGAACACTTATAATTTAAAAATATATAAGAAAAGAGATTTTATGTATTAAAA
** * * * *
27329893 TTAAAATTT-AAGATTTACTAGATGTTATTTTTTAATAATTATTATATAAATTAATTGAATTAAA
766 TCCAATTTTCAA-ATTCACTAGATGTTATTTTTTAATAATCATTATATAAATCAATTGAATTAAA
*
27329957 CTTT-GAATTCAACTTATTC-AGCTGATATTTCAT
830 CTTTAG-ATTCAACTTATTCTA-TTGATATTTCAT
27329990 GAATTAA
1 GAATTAA
27329997 TGTTGTAAGT
Statistics
Matches: 3230, Mismatches: 186, Indels: 118
0.91 0.05 0.03
Matches are distributed among these distances:
855 218 0.07
856 41 0.01
857 15 0.00
858 171 0.05
859 141 0.04
860 259 0.08
861 172 0.05
862 207 0.06
863 439 0.14
864 35 0.01
865 5 0.00
866 146 0.05
867 40 0.01
868 198 0.06
869 167 0.05
870 92 0.03
871 130 0.04
872 15 0.00
873 143 0.04
874 50 0.02
875 219 0.07
876 99 0.03
878 104 0.03
879 27 0.01
880 35 0.01
881 2 0.00
882 2 0.00
883 1 0.00
884 3 0.00
885 1 0.00
886 53 0.02
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.42
Consensus pattern (862 bp):
GAATTAAAAATTTAGCTCGATTTCACTCGAATAAATTATATATAATTAAAATATTATAATTATAT
AATTATATATATGAATTTTTATTTTTTATATCTTATTTTTAAAAAATATTTTTTAATTTTTTATT
ACATAAATTAAGTTTAATAGATATGTTTAAATTTATTTTTAATTTAAGTTAAAATTTTTAAGGCT
CAAAATATCGTAATAGGTTAGGTCTTGACAAACATATAAGTTATTATTATTAAGCATAGGCCCAA
CTCAAACCTAATCCGACTTGGCCCATGAACACTTATAATTTAAAAAATATATATGAAAAAAGATT
TTATGTATTAAAATTAAAATTTCATATCCACTATATGTTATTTTTTAATAGTCATTATATAAATA
AATTGAATTAAACTTCGGATTCAACTTATTCTATTGATATTTCATGAATTAAAACTTTAGCTTGA
TTTGACTCGAATAAATTATATATAATTAAAATATTATAATTATATAAGCATATATATATATAATT
TTTATTTTTTATTTTTTCAAAAAGTTTTTTAATTTTTATTACATAAATTAAGTTTAATAGATAAA
TTTTAAAAAAAATTATTTAGGTAAAAAATTTTAAGGCTCGAAATATTGGAATAGGTTAGGTCTGG
ACAAACATATAAGTTATTATTACAAAGCATAGGCCCGACTCAAACCTAACCTGACTTGGCCCATG
AACACTTATAATTTAAAAATATATAAGAAAAGAGATTTTATGTATTAAAATCCAATTTTCAAATT
CACTAGATGTTATTTTTTAATAATCATTATATAAATCAATTGAATTAAACTTTAGATTCAACTTA
TTCTATTGATATTTCAT
Found at i:27334627 original size:15 final size:15
Alignment explanation
Indices: 27334607--27334644 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
27334597 ATCCAGAAGG
*
27334607 TATTATTATTATTGT
1 TATTATTATTATTCT
27334622 TATTATTATTATTCT
1 TATTATTATTATTCT
*
27334637 TTTTATTA
1 TATTATTA
27334645 ACTTTTACTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (15 bp):
TATTATTATTATTCT
Found at i:27338076 original size:2 final size:2
Alignment explanation
Indices: 27338069--27338094 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27338059 ACAAAAGAGG
27338069 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
27338095 TTAGATTCCT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27341663 original size:2 final size:2
Alignment explanation
Indices: 27341656--27341681 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27341646 GAAGCTAGTT
27341656 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
27341682 GGAGCTAGGA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27360835 original size:56 final size:57
Alignment explanation
Indices: 27360768--27360883 Score: 207
Period size: 57 Copynumber: 2.1 Consensus size: 57
27360758 TCGTGGTAAA
27360768 TGTAGAGTGAGTAGAAACGACGGCG-TTCTCCACACTGAGACAGGTTGGTTCTCTAT
1 TGTAGAGTGAGTAGAAACGACGGCGTTTCTCCACACTGAGACAGGTTGGTTCTCTAT
* *
27360824 TGTAGAGTGAGTAGAAACGACGGCGTTTCTCCGCACTGGGACAGGTTGGTTCTCTAT
1 TGTAGAGTGAGTAGAAACGACGGCGTTTCTCCACACTGAGACAGGTTGGTTCTCTAT
27360881 TGT
1 TGT
27360884 TCATTTGTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 25 0.44
57 32 0.56
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (57 bp):
TGTAGAGTGAGTAGAAACGACGGCGTTTCTCCACACTGAGACAGGTTGGTTCTCTAT
Found at i:27361584 original size:29 final size:29
Alignment explanation
Indices: 27361551--27361607 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
27361541 TCCCAAGTGA
*
27361551 CTTCTTTGTGTGTATCCTCACTTAACTTC
1 CTTCTTTGTGTGTATACTCACTTAACTTC
27361580 CTTCTTTGTGTGTATACTCACTTAACTT
1 CTTCTTTGTGTGTATACTCACTTAACTT
27361608 TGTTTAAGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.16, C:0.25, G:0.11, T:0.49
Consensus pattern (29 bp):
CTTCTTTGTGTGTATACTCACTTAACTTC
Found at i:27365890 original size:16 final size:16
Alignment explanation
Indices: 27365859--27365905 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
27365849 ATATAAAAAT
27365859 AATATATATTTGAATTAG
1 AATATA-ATTT-AATTAG
*
27365877 AATATAATTTAATTAT
1 AATATAATTTAATTAG
27365893 AAT-TAAATTTAAT
1 AATAT-AATTTAAT
27365906 AATAATTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 1 0.04
16 16 0.59
17 4 0.15
18 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
AATATAATTTAATTAG
Found at i:27365910 original size:16 final size:16
Alignment explanation
Indices: 27365882--27365915 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
27365872 ATTAGAATAT
*
27365882 AATTTAATTATAATTA
1 AATTTAATAATAATTA
27365898 AATTTAATAATAATTA
1 AATTTAATAATAATTA
27365914 AA
1 AA
27365916 AATAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTTAATAATAATTA
Found at i:27366224 original size:2 final size:2
Alignment explanation
Indices: 27366217--27366242 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27366207 AGGCTAAGAG
27366217 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
27366243 CTACTTACTT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27368727 original size:101 final size:101
Alignment explanation
Indices: 27368552--27368752 Score: 384
Period size: 101 Copynumber: 2.0 Consensus size: 101
27368542 TGTGGGATAT
* *
27368552 GTTCTTTCGTGTAAGACTTTGTTCCTTGATCATCAATACTTTTTACTTGACTTTGCATCATTTAT
1 GTTCTTTCATGTAAGACTTTGTTCCTTGATCATCAATACTTTTTACTTGACTTTGCATCAGTTAT
27368617 GCATCTTTTCATTTGCAAGTATTGCCAATAAGAATA
66 GCATCTTTTCATTTGCAAGTATTGCCAATAAGAATA
27368653 GTTCTTTCATGTAAGACTTTGTTCCTTGATCATCAATACTTTTTACTTGACTTTGCATCAGTTAT
1 GTTCTTTCATGTAAGACTTTGTTCCTTGATCATCAATACTTTTTACTTGACTTTGCATCAGTTAT
27368718 GCATCTTTTCATTTGCAAGTATTGCCAATAAGAAT
66 GCATCTTTTCATTTGCAAGTATTGCCAATAAGAAT
27368753 TCTTCTGTTT
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (101 bp):
GTTCTTTCATGTAAGACTTTGTTCCTTGATCATCAATACTTTTTACTTGACTTTGCATCAGTTAT
GCATCTTTTCATTTGCAAGTATTGCCAATAAGAATA
Found at i:27378678 original size:2 final size:2
Alignment explanation
Indices: 27378671--27378722 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
27378661 ATCAGGTTTC
27378671 CT CT CT CT CT CT CT CT 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 CT CT CT CT CT CT CT CT
27378713 CT CT CT CT CT
1 CT CT CT CT CT
27378723 ATATATATAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:27380319 original size:4 final size:4
Alignment explanation
Indices: 27380310--27380334 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
27380300 TGTGGAACTA
27380310 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
27380335 TTAATTTTCT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:27384458 original size:4 final size:4
Alignment explanation
Indices: 27384451--27384510 Score: 102
Period size: 4 Copynumber: 15.0 Consensus size: 4
27384441 ATATTCCATG
* *
27384451 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CCAT CTAT CTAC
1 CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT CTAT
27384499 CTAT CTAT CTAT
1 CTAT CTAT CTAT
27384511 ATAATATACA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.25, C:0.28, G:0.00, T:0.47
Consensus pattern (4 bp):
CTAT
Found at i:27385944 original size:15 final size:15
Alignment explanation
Indices: 27385924--27385971 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
27385914 TGAATGGATG
*
27385924 ATAAAATTAATTTTT
1 ATAAAATTAATTATT
* *
27385939 ATAAAA-TAATAATA
1 ATAAAATTAATTATT
27385953 ATAAAATTAATTATT
1 ATAAAATTAATTATT
27385968 ATAA
1 ATAA
27385972 TAATAAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAAATTAATTATT
Found at i:27385971 original size:21 final size:21
Alignment explanation
Indices: 27385947--27386026 Score: 87
Period size: 21 Copynumber: 4.0 Consensus size: 21
27385937 TTATAAAATA
*
27385947 ATAATAATAAAATTAATTATT
1 ATAATAATAAAATTAAATATT
27385968 ATAATAATAAAATTAAATATT
1 ATAATAATAAAATTAAATATT
* * *
27385989 ATAATTATGATATT-AA-ATT
1 ATAATAATAAAATTAAATATT
*
27386008 -CAATAATAAAA-TAAATATT
1 ATAATAATAAAATTAAATATT
27386027 TAAATATAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
17 1 0.02
18 9 0.18
19 6 0.12
20 2 0.04
21 31 0.63
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (21 bp):
ATAATAATAAAATTAAATATT
Found at i:27385975 original size:24 final size:23
Alignment explanation
Indices: 27385944--27386034 Score: 68
Period size: 21 Copynumber: 4.0 Consensus size: 23
27385934 TTTTTATAAA
27385944 ATAATAATAATAAAATT-AAT-T
1 ATAATAATAATAAAATTAAATAT
*
27385965 ATTATAATAATAAAATTAAATAT
1 ATAATAATAATAAAATTAAATAT
* * *
27385988 -T-ATAATTATGATATTAAAT-T
1 ATAATAATAATAAAATTAAATAT
27386008 CAATAATAA-AATAAATATTTAAATAT
1 --ATAATAATAATAAA-A-TTAAATAT
27386034 A
1 A
27386035 AACATAACAA
Statistics
Matches: 54, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
20 1 0.02
21 31 0.57
22 4 0.07
23 5 0.09
24 6 0.11
25 6 0.11
26 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (23 bp):
ATAATAATAATAAAATTAAATAT
Found at i:27385995 original size:27 final size:26
Alignment explanation
Indices: 27385924--27386005 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 26
27385914 TGAATGGATG
**
27385924 ATAAAATTAATTTTTATAAAATAATAATA
1 ATAAAATTAATAATTAT--AATAATAA-A
*
27385953 ATAAAATTAATTATTATAATAATAAA
1 ATAAAATTAATAATTATAATAATAAA
* *
27385979 ATTAAATATT-ATAATTATGATATTAAA
1 A-TAAA-ATTAATAATTATAATAATAAA
27386006 TTCAATAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 2 0.04
27 26 0.55
28 3 0.06
29 16 0.34
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (26 bp):
ATAAAATTAATAATTATAATAATAAA
Found at i:27391105 original size:19 final size:19
Alignment explanation
Indices: 27391083--27391119 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27391073 AATCAAAAAT
*
27391083 TTTATTTATAAATATAATA
1 TTTAATTATAAATATAATA
*
27391102 TTTAATTATAATTATAAT
1 TTTAATTATAAATATAAT
27391120 TTAAACTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTAATTATAAATATAATA
Found at i:27391750 original size:101 final size:100
Alignment explanation
Indices: 27391625--27391812 Score: 279
Period size: 101 Copynumber: 1.9 Consensus size: 100
27391615 TTCATCATTA
* * *
27391625 TATTTATTTTAAAAAAACTTATTTTCATAAAT-TTTTTTAATATGTTGGTAAAATTTTTTATCGA
1 TATTTATTTTAAAAAAACTTATTTTCATAAATATCTTTTAATATGTT-GTAAAATTTTATATCAA
*
27391689 AATTTATCTTTCAATCTGTTGATTTGATTAAAATTT
65 AAATTATCTTTCAATCTGTTGATTTGATTAAAATTT
* * * *
27391725 TATTTGTTTGTAAAACAATTTATTTTCATAAATATCTTTTAATATGTTGTAAAATTTTATGTCAA
1 TATTTATTT-TAAAAAAACTTATTTTCATAAATATCTTTTAATATGTTGTAAAATTTTATATCAA
27391790 AAATTATCTTTCAATCTGTTGAT
65 AAATTATCTTTCAATCTGTTGAT
27391813 AGGATTTAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
100 8 0.10
101 57 0.73
102 13 0.17
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (100 bp):
TATTTATTTTAAAAAAACTTATTTTCATAAATATCTTTTAATATGTTGTAAAATTTTATATCAAA
AATTATCTTTCAATCTGTTGATTTGATTAAAATTT
Found at i:27392155 original size:22 final size:22
Alignment explanation
Indices: 27392114--27392155 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
27392104 AAACACATAA
*
27392114 AAATAAAAAAATAAAGAAATGG
1 AAATAAAAAAATAAACAAATGG
* *
27392136 AAATAAAACAATAATCAAAT
1 AAATAAAAAAATAAACAAAT
27392156 AATTAAATAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.71, C:0.05, G:0.07, T:0.17
Consensus pattern (22 bp):
AAATAAAAAAATAAACAAATGG
Found at i:27393032 original size:20 final size:19
Alignment explanation
Indices: 27393018--27393053 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27393008 AACTTTCCCT
*
27393018 CTTTTTTTT-TTACTTTGA
1 CTTTTTTTTCTTACTTTCA
27393036 CTTTTTTTTCTTACTTTC
1 CTTTTTTTTCTTACTTTC
27393054 TAAAATAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.08, C:0.17, G:0.03, T:0.72
Consensus pattern (19 bp):
CTTTTTTTTCTTACTTTCA
Found at i:27393477 original size:24 final size:24
Alignment explanation
Indices: 27393449--27393529 Score: 69
Period size: 23 Copynumber: 3.5 Consensus size: 24
27393439 GAAATTCATA
27393449 TAAAAATTTTAAAAATTTCCTATT
1 TAAAAATTTTAAAAATTTCCTATT
* * * *
27393473 TAAAAACTTT-AATATTTCATAAT
1 TAAAAATTTTAAAAATTTCCTATT
* * *
27393496 T-AAAATTTCAAAGATTTTC-ATT
1 TAAAAATTTTAAAAATTTCCTATT
27393518 TGAAAAATTTTA
1 T-AAAAATTTTA
27393530 GGATTTCACA
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
22 9 0.21
23 17 0.40
24 17 0.40
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (24 bp):
TAAAAATTTTAAAAATTTCCTATT
Found at i:27393524 original size:46 final size:45
Alignment explanation
Indices: 27393415--27393530 Score: 112
Period size: 46 Copynumber: 2.6 Consensus size: 45
27393405 TCCAAAAGTT
* * *
27393415 AAAGATTTTCCTTTGAAAAAC-CTAGAAATTCATATAAAAATTTT
1 AAAGATTTTCATTTGAAAAACTTTAGAAATTCATATAAAAATTTC
* * * *
27393459 AAAAATTTCCTATTT-AAAAACTTTA-ATATTTCATAATTAAAATTTC
1 AAAGATTTTC-ATTTGAAAAACTTTAGA-AATTCAT-ATAAAAATTTC
*
27393505 AAAGATTTTCATTTGAAAAATTTTAG
1 AAAGATTTTCATTTGAAAAACTTTAG
27393531 GATTTCACAT
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
44 15 0.27
45 15 0.27
46 26 0.46
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (45 bp):
AAAGATTTTCATTTGAAAAACTTTAGAAATTCATATAAAAATTTC
Found at i:27394727 original size:17 final size:19
Alignment explanation
Indices: 27394705--27394745 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
27394695 AAGATACAAC
*
27394705 AAAAATAAATATT-TTTA-
1 AAAAATAAAAATTATTTAT
27394722 AAAAATAAAAATTATTTAT
1 AAAAATAAAAATTATTTAT
27394741 AAAAA
1 AAAAA
27394746 ATTTACTCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
18 4 0.19
19 5 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATAAAAATTATTTAT
Found at i:27396013 original size:9 final size:9
Alignment explanation
Indices: 27395999--27396023 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27395989 GATGGTTATA
27395999 ATGACTATG
1 ATGACTATG
27396008 ATGACTATG
1 ATGACTATG
27396017 ATGACTA
1 ATGACTA
27396024 CGACTATGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (9 bp):
ATGACTATG
Found at i:27402126 original size:23 final size:23
Alignment explanation
Indices: 27402081--27402146 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 23
27402071 ATTATTATCT
27402081 TAATTTTACTTATTAAAATTTCAA
1 TAATTTTA-TTATTAAAATTTCAA
27402105 -AATTTTATTATTAATACA-TTCAA
1 TAATTTTATTATTAA-A-ATTTCAA
27402128 TAATTTT-TTATATAAAATT
1 TAATTTTATTAT-TAAAATT
27402147 AAAAAAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
22 8 0.22
23 19 0.51
24 10 0.27
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (23 bp):
TAATTTTATTATTAAAATTTCAA
Found at i:27411309 original size:143 final size:137
Alignment explanation
Indices: 27411042--27411310 Score: 322
Period size: 143 Copynumber: 1.9 Consensus size: 137
27411032 ATATTTCTTA
* * **
27411042 ATAACTTATGCTGAATATTCTTTTTTTTCGTCTTCTCCGGTTGATTCTGTGCCATCTCCTTTCTG
1 ATAACTTATGCTGAATATTATTTTTTTTCCTCTTCTCCCCTTGATTCTGTGCCATCTCCTTTCTG
* **
27411107 CTTTGCAGAGTTTCCTCTACCTCTGTCTTCATATGACTTTTAAGCTGATGTCTTTTCATGTCTTT
66 CTTTGCAGAGTATCCTCTACCTCTGTCTTCATAAAACTTTTAAGCTGATGTCTTTTCATGTCTTT
27411172 GCCTCAT
131 GCCTCAT
* * * * *
27411179 ATAACTTATGCTGAATGTTATTTTTTCTTCCTCTTTTCCCCTTGGTTCTGTGGCATCTTCTTTCT
1 ATAACTTATGCTGAATATTATTTTTT-TTCCTCTTCTCCCCTTGATTCTGTGCCATCTCCTTTCT
* * * ** *
27411244 GCTTTGCAGATTGAACTATGCTTTACCTCTGTTTTTGTAAAACTTTTAAGGTGATGTCTTTTCAT
65 GCTTTGCAGA--G---TATCCTCTACCTCTGTCTTCATAAAACTTTTAAGCTGATGTCTTTTCAT
27411309 GT
125 GT
27411311 ATTTTTTTCT
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
137 24 0.22
138 41 0.38
140 1 0.01
143 42 0.39
ACGTcount: A:0.16, C:0.22, G:0.14, T:0.48
Consensus pattern (137 bp):
ATAACTTATGCTGAATATTATTTTTTTTCCTCTTCTCCCCTTGATTCTGTGCCATCTCCTTTCTG
CTTTGCAGAGTATCCTCTACCTCTGTCTTCATAAAACTTTTAAGCTGATGTCTTTTCATGTCTTT
GCCTCAT
Found at i:27414078 original size:98 final size:98
Alignment explanation
Indices: 27413909--27414096 Score: 333
Period size: 98 Copynumber: 1.9 Consensus size: 98
27413899 ATTTGTGGTC
* *
27413909 GAGGCATTTTCATTTTCCCTTGTGGATAATTGCAGCCATACTTTATTCCATCTTTTTCCGTCTTT
1 GAGGCATTTTCATTTTCCCCTGTGGATAATTGCAGCCATACTTTATTCCATCTTTTTCCCTCTTT
27413974 TATATAGTC-TGTCATATGAATAAAGATGTGATT
66 TATATAGTCTTGTCATATG-ATAAAGATGTGATT
27414007 GAGGCATTTTCATTTTCCCCTGTGGATAATTGCAGCCATACTTTATTCCATCTTTTTCCCTCTTT
1 GAGGCATTTTCATTTTCCCCTGTGGATAATTGCAGCCATACTTTATTCCATCTTTTTCCCTCTTT
27414072 TATATAGTCTTTGTCATATGATAAA
66 TATATAGTC-TTGTCATATGATAAA
27414097 TCTTTATTCC
Statistics
Matches: 86, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
98 72 0.84
99 5 0.06
100 9 0.10
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (98 bp):
GAGGCATTTTCATTTTCCCCTGTGGATAATTGCAGCCATACTTTATTCCATCTTTTTCCCTCTTT
TATATAGTCTTGTCATATGATAAAGATGTGATT
Found at i:27414107 original size:51 final size:51
Alignment explanation
Indices: 27414047--27414152 Score: 185
Period size: 51 Copynumber: 2.1 Consensus size: 51
27414037 TGCAGCCATA
* *
27414047 CTTTATTCCATCTTTTTCCCTCTTTTATATAGTCTTTGTCATATGATAAAT
1 CTTTATTCCATCTTTTCCCCTCTTTTATATAGTCTTTGTAATATGATAAAT
*
27414098 CTTTATTCCATCTTTTCCCCTCTTTTATATAGTCTTTTTAATATGATAAAT
1 CTTTATTCCATCTTTTCCCCTCTTTTATATAGTCTTTGTAATATGATAAAT
27414149 CTTT
1 CTTT
27414153 TCCCTCCATA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.22, C:0.20, G:0.05, T:0.54
Consensus pattern (51 bp):
CTTTATTCCATCTTTTCCCCTCTTTTATATAGTCTTTGTAATATGATAAAT
Found at i:27421817 original size:24 final size:23
Alignment explanation
Indices: 27421778--27421830 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
27421768 AAAAGAAGGT
27421778 TAATTT-TTAATATTTAAAAATA
1 TAATTTATTAATATTTAAAAATA
*
27421800 TAATTTATTTATATTTTAAAAATA
1 TAATTTATTAATA-TTTAAAAATA
*
27421824 AAATTTA
1 TAATTTA
27421831 ATAAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 6 0.22
23 5 0.19
24 16 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATTTATTAATATTTAAAAATA
Found at i:27423112 original size:19 final size:19
Alignment explanation
Indices: 27423067--27423112 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
27423057 ATAAATATTT
*
27423067 ATATTGATTTTATTTTAAA
1 ATATTAATTTTATTTTAAA
* **
27423086 TTGCTAATTTTATTTTAAA
1 ATATTAATTTTATTTTAAA
27423105 ATATTAAT
1 ATATTAAT
27423113 AAAATTTATC
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (19 bp):
ATATTAATTTTATTTTAAA
Done.