Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 317 of 378
Found at i:96433832 original size:16 final size:16
Alignment explanation
Indices: 96433807--96433855 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
96433797 TAAATTTCAA
96433807 TTTT-ATTTATTTAAT
1 TTTTAATTTATTTAAT
*
96433822 TTTTAATTTATTGAAT
1 TTTTAATTTATTTAAT
* *
96433838 TATTATTTTATATTAAT
1 TTTTAATTTAT-TTAAT
96433855 T
1 T
96433856 GAATTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 4 0.14
16 19 0.68
17 5 0.18
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTAATTTATTTAAT
Found at i:96437794 original size:48 final size:49
Alignment explanation
Indices: 96437737--96437837 Score: 195
Period size: 48 Copynumber: 2.1 Consensus size: 49
96437727 TTATTAATCG
96437737 TATTGAAATTGTAATTAATTGAAACAATACTTAATTAGTGCATATTTAA
1 TATTGAAATTGTAATTAATTGAAACAATACTTAATTAGTGCATATTTAA
96437786 TATT-AAATTGTAATTAATTGAAACAATACTTAATTAGTGCATATTTAA
1 TATTGAAATTGTAATTAATTGAAACAATACTTAATTAGTGCATATTTAA
96437834 TATT
1 TATT
96437838 CTAAGGTAGC
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 48 0.92
49 4 0.08
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (49 bp):
TATTGAAATTGTAATTAATTGAAACAATACTTAATTAGTGCATATTTAA
Found at i:96440058 original size:13 final size:14
Alignment explanation
Indices: 96440040--96440081 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
96440030 AGATACAATT
96440040 TCAGATA-ACAGAA
1 TCAGATATACAGAA
*
96440053 TCAGATATGCAGAA
1 TCAGATATACAGAA
96440067 -CAGATATACAGAA
1 TCAGATATACAGAA
96440080 TC
1 TC
96440082 CTACCCCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 19 0.76
14 6 0.24
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.19
Consensus pattern (14 bp):
TCAGATATACAGAA
Found at i:96444555 original size:26 final size:26
Alignment explanation
Indices: 96444524--96444631 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
96444514 TGAAATGCCC
*
96444524 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
96444550 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
96444576 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
96444602 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
96444628 ATCA
1 ATCA
96444632 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:96447377 original size:26 final size:27
Alignment explanation
Indices: 96447302--96447377 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 27
96447292 ATTTTATATC
*
96447302 TTATTT-TTATTAATTTATATTTAATCA
1 TTATTTATTATTAAATTATATTTAA-CA
*
96447329 TTA-TTA-TATTAAAATATGA-TTAA-A
1 TTATTTATTATTAAATTAT-ATTTAACA
*
96447353 TTATTTATTGTTAAATTATATTTAA
1 TTATTTATTATTAAATTATATTTAA
96447378 TAATAATCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
24 4 0.10
25 4 0.10
26 28 0.70
27 4 0.10
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (27 bp):
TTATTTATTATTAAATTATATTTAACA
Found at i:96447666 original size:2 final size:2
Alignment explanation
Indices: 96447659--96447685 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
96447649 AAATATTCAA
96447659 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 A
96447686 AATTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:96448261 original size:10 final size:10
Alignment explanation
Indices: 96448233--96448265 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
96448223 AATTTATAAA
96448233 TAAATATTTT
1 TAAATATTTT
96448243 T-AATATTTT
1 TAAATATTTT
*
96448252 TAAATTTTTT
1 TAAATATTTT
96448262 TAAA
1 TAAA
96448266 AAAAATTAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TAAATATTTT
Found at i:96450900 original size:55 final size:56
Alignment explanation
Indices: 96450813--96451069 Score: 276
Period size: 55 Copynumber: 4.8 Consensus size: 56
96450803 ATTAGGGTTT
*
96450813 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCATAAGGC
* * *
96450868 AAGGATATCATGTAAGACCATGTCAAGACATGGC-ATTGATAA-GTTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTC-ATAAGGC
* * *
96450923 AAAGG-TCCCATATAAGACCATGCCAAGGCATGGC-ATTGGT--GCG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG-GTTTCATAAGGC
*
96450976 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAA-GTTTC--AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCATAAGGC
* * *
96451025 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT
96451070 ACCCATGTAT
Statistics
Matches: 174, Mismatches: 17, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
49 39 0.22
50 2 0.01
52 6 0.03
53 42 0.24
54 14 0.08
55 67 0.39
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (56 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCATAAGGC
Found at i:96451019 original size:108 final size:109
Alignment explanation
Indices: 96450820--96451022 Score: 322
Period size: 108 Copynumber: 1.9 Consensus size: 109
96450810 TTTAAGGATA
* *
96450820 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATATAAGACCATGCCAAGGCATGGCAATTGGT-AGGTTTCTAAGGCAAGGATACCATGTAAGA
*
96450885 CCATGTCAAGACATGGCATTGATAAGTTTCTATAAGGCAAAGGTC
65 CCATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
96450930 CCATATAAGACCATGCCAAGGCATGGC-ATTGGT-GCG-TTCATAAGGCAAGGATACCATGTAAG
1 CCATATAAGACCATGCCAAGGCATGGCAATTGGTAG-GTTTC-TAAGGCAAGGATACCATGTAAG
*
96450992 ACCATGTCAAGACATGGCAATGGTAAGTTTC
64 ACCATGTCAAGACATGGCAATGATAAGTTTC
96451023 AAAAGGATAC
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
107 4 0.05
108 51 0.59
109 6 0.07
110 26 0.30
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (109 bp):
CCATATAAGACCATGCCAAGGCATGGCAATTGGTAGGTTTCTAAGGCAAGGATACCATGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTTCTATAAGGCAAAGGTC
Found at i:96451310 original size:16 final size:16
Alignment explanation
Indices: 96451283--96451324 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
96451273 TTTTGTTTTT
96451283 TTTTTAATTTTTA-TGAA
1 TTTTTAA-TTTTAGT-AA
96451300 TTTTTAATTTTAGTAA
1 TTTTTAATTTTAGTAA
*
96451316 TTTTAAATT
1 TTTTTAATT
96451325 ATTTTTGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (16 bp):
TTTTTAATTTTAGTAA
Found at i:96454351 original size:31 final size:32
Alignment explanation
Indices: 96454301--96454404 Score: 95
Period size: 33 Copynumber: 3.2 Consensus size: 32
96454291 AAACAAGTCT
*
96454301 ACTTAAATATAATAATAAAT-TATATTTAAATA
1 ACTT-AATATAATAATAAATAAATATTTAAATA
* * *
96454333 ATTTATTATAGTAATAAATAAAATATTTAAATA
1 ACTTAATATAATAATAAAT-AAATATTTAAATA
* * *
96454366 ACTTAATATAATGATACATAAA-ATATAAATTA
1 ACTTAATATAATAATAAATAAATATTTAAA-TA
*
96454398 ATTTAAT
1 ACTTAAT
96454405 TTTTATATGC
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
31 19 0.33
32 14 0.24
33 25 0.43
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (32 bp):
ACTTAATATAATAATAAATAAATATTTAAATA
Found at i:96454362 original size:33 final size:33
Alignment explanation
Indices: 96454301--96454391 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
96454291 AAACAAGTCT
*
96454301 ACTTAAATATAATAATAAAT--TATATTTAAATA
1 ACTT-AATATAATAATAAATAAAATATTTAAATA
* * *
96454333 ATTTATTATAGTAATAAATAAAATATTTAAATA
1 ACTTAATATAATAATAAATAAAATATTTAAATA
* *
96454366 ACTTAATATAATGATACATAAAATAT
1 ACTTAATATAATAATAAATAAAATAT
96454392 AAATTAATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
31 13 0.27
32 3 0.06
33 32 0.67
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (33 bp):
ACTTAATATAATAATAAATAAAATATTTAAATA
Found at i:96454647 original size:2 final size:2
Alignment explanation
Indices: 96454640--96454670 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
96454630 TGAGAGGAAT
96454640 TA TA TA 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 TA TA TA T
96454671 CTTTTTTTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96455049 original size:15 final size:15
Alignment explanation
Indices: 96455031--96455064 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
96455021 TCATATTGAC
96455031 TATTTTTATAT-TAAT
1 TATTTTTA-ATCTAAT
96455046 TATTTTTAATCTAAT
1 TATTTTTAATCTAAT
96455061 TATT
1 TATT
96455065 CTTCTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTTTAATCTAAT
Found at i:96455305 original size:2 final size:2
Alignment explanation
Indices: 96455274--96455337 Score: 83
Period size: 2 Copynumber: 31.5 Consensus size: 2
96455264 TTATCAGTTG
* * * *
96455274 AT AT AT CAT TT AT AT CT AT CT AT CT AT AT AT AT AT AT AT AT AT
1 AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96455317 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
96455338 AGTACAAGCT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
2 51 0.96
3 2 0.04
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96456913 original size:2 final size:2
Alignment explanation
Indices: 96456906--96456934 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
96456896 TGAAAAGAAA
96456906 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
96456935 TATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:96456939 original size:2 final size:2
Alignment explanation
Indices: 96456934--96456965 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
96456924 ACACACACAC
*
96456934 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96456966 CTCAAAAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:96460940 original size:22 final size:22
Alignment explanation
Indices: 96460894--96460945 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
96460884 AGTTGCCCTA
**
96460894 TCTTGAGACAATAGGGTGTAGG
1 TCTTGAGACAATAGGGCCTAGG
**
96460916 TCTTGAGACAATAGGGCCTTTG
1 TCTTGAGACAATAGGGCCTAGG
96460938 TCTTGAGA
1 TCTTGAGA
96460946 AAAAATCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.13, G:0.31, T:0.31
Consensus pattern (22 bp):
TCTTGAGACAATAGGGCCTAGG
Found at i:96462985 original size:2 final size:2
Alignment explanation
Indices: 96462972--96463003 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
96462962 ACATGCTCAA
*
96462972 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96463004 CAACTGCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:96467398 original size:57 final size:57
Alignment explanation
Indices: 96467277--96467400 Score: 135
Period size: 57 Copynumber: 2.2 Consensus size: 57
96467267 CATTTATAAA
* ** * * *
96467277 ATAGGATTACTAGTCCAGGCTAAATCCCGTCTTTAGCATTTGCTCATAAGAGCTTAT
1 ATAGGATTACTAGTCCACGCTAAATCCCGTCGATAACATTAGCTCATAAGAGCCTAT
* * *
96467334 TTAGGATTACTAGTCCACGCTAAATCCCTTCGATAACGTTAGCTC-TAATGAGCCTACT
1 ATAGGATTACTAGTCCACGCTAAATCCCGTCGATAACATTAGCTCATAA-GAGCCTA-T
96467392 AT-GGATTAC
1 ATAGGATTAC
96467401 CCGTCCGGGC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
56 3 0.05
57 50 0.91
58 2 0.04
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (57 bp):
ATAGGATTACTAGTCCACGCTAAATCCCGTCGATAACATTAGCTCATAAGAGCCTAT
Found at i:96476461 original size:43 final size:43
Alignment explanation
Indices: 96476381--96476466 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
96476371 TCATATTTCA
* *
96476381 TTTCTCATCTCATAATCATTTCTCATCTTTTCCATTTCTATAT
1 TTTCTCATCTCATAATCATTTCTCATCTTTGCCATTTCAATAT
* * *
96476424 TTTCTCATCTCATATTCATTTCTTATCTTTGCTATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATCTTTGCCATTTCAATAT
96476467 CGATCACAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.21, C:0.23, G:0.01, T:0.55
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATCTTTGCCATTTCAATAT
Found at i:96491125 original size:19 final size:20
Alignment explanation
Indices: 96491101--96491138 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
96491091 AGTTAATTAA
96491101 AGCTTAATTAAG-ATAATTT
1 AGCTTAATTAAGAATAATTT
96491120 AGCTTAATTAAGAATAATT
1 AGCTTAATTAAGAATAATT
96491139 AAGTATAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (20 bp):
AGCTTAATTAAGAATAATTT
Found at i:96491518 original size:22 final size:22
Alignment explanation
Indices: 96491493--96491539 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
96491483 AGAAATAAAT
*
96491493 GAAATAAAAG-AAATGAAAAAGA
1 GAAAT-AAAGCAAACGAAAAAGA
*
96491515 GAAATAAAGCAAACGAAACAGA
1 GAAATAAAGCAAACGAAAAAGA
96491537 GAA
1 GAA
96491540 GAATAGGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.68, C:0.06, G:0.19, T:0.06
Consensus pattern (22 bp):
GAAATAAAGCAAACGAAAAAGA
Found at i:96492635 original size:12 final size:12
Alignment explanation
Indices: 96492618--96492652 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
96492608 TTTGTGTACC
96492618 GCTACTGTTACT
1 GCTACTGTTACT
96492630 GCTACTGTTACT
1 GCTACTGTTACT
* *
96492642 GTTACCGTTAC
1 GCTACTGTTAC
96492653 GGTGTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (12 bp):
GCTACTGTTACT
Found at i:96492810 original size:18 final size:18
Alignment explanation
Indices: 96492789--96492827 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
96492779 ACTGAATATT
*
96492789 TGACTGTTACAGAATAAA
1 TGACTGATACAGAATAAA
*
96492807 TGACTGATACTGAATAAA
1 TGACTGATACAGAATAAA
96492825 TGA
1 TGA
96492828 ATATTACTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (18 bp):
TGACTGATACAGAATAAA
Found at i:96492835 original size:18 final size:19
Alignment explanation
Indices: 96492795--96492837 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
96492785 TATTTGACTG
* *
96492795 TTACAGAATAAATGACTGA
1 TTACTGAATAAATGAATGA
96492814 -TACTGAATAAATGAAT-A
1 TTACTGAATAAATGAATGA
96492831 TTACTGA
1 TTACTGA
96492838 TTAACCGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (19 bp):
TTACTGAATAAATGAATGA
Found at i:96494632 original size:22 final size:21
Alignment explanation
Indices: 96494584--96494635 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
96494574 AAAAAAAAAC
96494584 TACTATTTTTTATTATTTTCT
1 TACTATTTTTTATTATTTTCT
* *
96494605 TGCTATTTTCTTATTGTTTT-T
1 TACTATTTT-TTATTATTTTCT
96494626 TAACTATTTT
1 T-ACTATTTT
96494636 GCTACCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.17, C:0.10, G:0.04, T:0.69
Consensus pattern (21 bp):
TACTATTTTTTATTATTTTCT
Found at i:96494840 original size:18 final size:20
Alignment explanation
Indices: 96494819--96494859 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
96494809 GAAATATTTA
*
96494819 TTTTAATGT-TTTTA-ATAT
1 TTTTAATGTATTATATATAT
*
96494837 TTTTGATGTATTATATATAT
1 TTTTAATGTATTATATATAT
96494857 TTT
1 TTT
96494860 AAAAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 8 0.42
19 4 0.21
20 7 0.37
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (20 bp):
TTTTAATGTATTATATATAT
Found at i:96497402 original size:37 final size:37
Alignment explanation
Indices: 96497352--96497426 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
96497342 TAAGTATGAC
96497352 TTGGTCCCTGTCTGCCTTACAAAACAAAATTAGGTCA
1 TTGGTCCCTGTCTGCCTTACAAAACAAAATTAGGTCA
*
96497389 TTGGTCCCTGTCTGCCTTGCAAAACAAAATTAGGTCA
1 TTGGTCCCTGTCTGCCTTACAAAACAAAATTAGGTCA
96497426 T
1 T
96497427 CTGTGAAGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (37 bp):
TTGGTCCCTGTCTGCCTTACAAAACAAAATTAGGTCA
Found at i:96511065 original size:16 final size:16
Alignment explanation
Indices: 96511037--96511074 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
96511027 ACAATAAAAC
*
96511037 TGTAATTAAATAGAAT
1 TGTAATGAAATAGAAT
*
96511053 TGTAATGAAATAGAGT
1 TGTAATGAAATAGAAT
96511069 TGTAAT
1 TGTAAT
96511075 CAGTAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (16 bp):
TGTAATGAAATAGAAT
Found at i:96511274 original size:26 final size:26
Alignment explanation
Indices: 96511244--96511338 Score: 73
Period size: 26 Copynumber: 3.4 Consensus size: 26
96511234 GTTATTAAAT
96511244 TTTAATAAAATTATTATTAAAAATAA
1 TTTAATAAAATTATTATTAAAAATAA
* ** *
96511270 TTTAATAAAAATAATAAATAATGTAATCATAT
1 TTTAAT-AAAAT--T--ATTAT-TAAAAATAA
* * *
96511302 TTTAACATAATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAAAATAA
96511328 TTTAATAAAAT
1 TTTAATAAAAT
96511339 AAAACATAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
26 21 0.41
27 9 0.18
29 2 0.04
31 8 0.16
32 11 0.22
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (26 bp):
TTTAATAAAATTATTATTAAAAATAA
Found at i:96511280 original size:14 final size:14
Alignment explanation
Indices: 96511244--96511284 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
96511234 GTTATTAAAT
*
96511244 TTTAAT-AAAATTA
1 TTTAATAAAAATAA
*
96511257 -TTATTAAAAATAA
1 TTTAATAAAAATAA
96511270 TTTAATAAAAATAA
1 TTTAATAAAAATAA
96511284 T
1 T
96511285 AAATAATGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 4 0.17
13 6 0.26
14 13 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTTAATAAAAATAA
Found at i:96511304 original size:58 final size:57
Alignment explanation
Indices: 96511240--96511376 Score: 186
Period size: 58 Copynumber: 2.4 Consensus size: 57
96511230 TATTGTTATT
* *
96511240 AAATTTTAATAAAATTATTATTAAAAATAATTTAATAAAAATAATAA-ATAATGTAATC
1 AAATTTTAATATAATTATTATTAAAAATAATTTAAT-AAAATAA-AACATAATGTAATA
* * * *
96511298 ATATTTTAACATAATTATTATTAAATATAATTTAATAAAATAAAACATAATTTAATA
1 AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAATAAAACATAATGTAATA
96511355 AAATTCTTAATATAATTATTAT
1 AAATT-TTAATATAATTATTAT
96511377 ATGAATTAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
56 2 0.03
57 20 0.29
58 47 0.68
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (57 bp):
AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAATAAAACATAATGTAATA
Found at i:96514379 original size:13 final size:13
Alignment explanation
Indices: 96514361--96514387 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
96514351 GTACTTCTTC
96514361 ATTCTATAGGGAG
1 ATTCTATAGGGAG
96514374 ATTCTATAGGGAG
1 ATTCTATAGGGAG
96514387 A
1 A
96514388 GGTAAAGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (13 bp):
ATTCTATAGGGAG
Found at i:96515116 original size:24 final size:24
Alignment explanation
Indices: 96515087--96515136 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
96515077 AAAATCAGAT
* *
96515087 GAGCAACATAAAGAAAATTTAGCA
1 GAGCAACAGAAACAAAATTTAGCA
* *
96515111 GAGCAATAGACACAAAATTTAGCA
1 GAGCAACAGAAACAAAATTTAGCA
96515135 GA
1 GA
96515137 ATAAAAGTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.14, G:0.18, T:0.16
Consensus pattern (24 bp):
GAGCAACAGAAACAAAATTTAGCA
Found at i:96515653 original size:24 final size:23
Alignment explanation
Indices: 96515626--96515676 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
96515616 ATTTTTTTAT
*
96515626 TAAAT-AAAAACTTTTAAAATACAA
1 TAAATCAAAAACATTTAAAA-AC-A
*
96515650 TAAATCAAATACATTTAAAAACA
1 TAAATCAAAAACATTTAAAAACA
96515673 TAAA
1 TAAA
96515677 AACAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 7 0.29
25 12 0.50
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (23 bp):
TAAATCAAAAACATTTAAAAACA
Found at i:96515921 original size:22 final size:22
Alignment explanation
Indices: 96515903--96515975 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
96515893 ATAAAACATG
96515903 ACAAAAAGCAGCAGCAAACCAGC
1 ACAAAAA-CAGCAGCAAACCAGC
* *
96515926 ACTAAAACAGCAGCAAAACAGC
1 ACAAAAACAGCAGCAAACCAGC
* * * *
96515948 AC-CAAACAACAACAAAACAGC
1 ACAAAAACAGCAGCAAACCAGC
96515969 ACAAAAA
1 ACAAAAA
96515976 ACAACATCAC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
21 18 0.42
22 19 0.44
23 6 0.14
ACGTcount: A:0.59, C:0.29, G:0.11, T:0.01
Consensus pattern (22 bp):
ACAAAAACAGCAGCAAACCAGC
Found at i:96515963 original size:21 final size:20
Alignment explanation
Indices: 96515939--96515981 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
96515929 AAAACAGCAG
96515939 CAAAACAGCACCAAACAACAA
1 CAAAACAGCA-CAAACAACAA
*
96515960 CAAAACAGCACAAAAAACAA
1 CAAAACAGCACAAACAACAA
96515980 CA
1 CA
96515982 TCACCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.65, C:0.30, G:0.05, T:0.00
Consensus pattern (20 bp):
CAAAACAGCACAAACAACAA
Found at i:96515975 original size:11 final size:10
Alignment explanation
Indices: 96515906--96515974 Score: 66
Period size: 11 Copynumber: 6.4 Consensus size: 10
96515896 AAACATGACA
96515906 AAAAGCAGCAGC
1 AAAA-CAGCA-C
*
96515918 AAACCAGCAC
1 AAAACAGCAC
96515928 TAAAACAGCAGC
1 -AAAACAGCA-C
96515940 AAAACAGCAC
1 AAAACAGCAC
* *
96515950 CAAACAACAAC
1 AAAACAGC-AC
96515961 AAAACAGCAC
1 AAAACAGCAC
96515971 AAAA
1 AAAA
96515975 AACAACATCA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
10 14 0.29
11 30 0.62
12 4 0.08
ACGTcount: A:0.58, C:0.29, G:0.12, T:0.01
Consensus pattern (10 bp):
AAAACAGCAC
Found at i:96516008 original size:35 final size:36
Alignment explanation
Indices: 96515942--96516009 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 36
96515932 ACAGCAGCAA
*
96515942 AACAGCACCAAACAACAACAAAACAGCACAAAAAAC
1 AACAGCACCAAACAACAACAAAACACCACAAAAAAC
* *
96515978 AACATCACC-AACAACACCAAAA-ACCTACAAAA
1 AACAGCACCAAACAACAACAAAACACC-ACAAAA
96516010 TATAATCAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 2 0.07
35 18 0.64
36 8 0.29
ACGTcount: A:0.62, C:0.32, G:0.03, T:0.03
Consensus pattern (36 bp):
AACAGCACCAAACAACAACAAAACACCACAAAAAAC
Found at i:96524953 original size:93 final size:93
Alignment explanation
Indices: 96524841--96525012 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
96524831 GCCCATAAGT
* *
96524841 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
96524906 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
96524934 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
96524999 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
96525013 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:96525008 original size:46 final size:46
Alignment explanation
Indices: 96524833--96525008 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
96524823 TGTAACCCGC
* * *
96524833 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
96524879 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
96524929 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
96524972 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
96525009 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:96532484 original size:45 final size:45
Alignment explanation
Indices: 96532420--96532506 Score: 174
Period size: 45 Copynumber: 1.9 Consensus size: 45
96532410 GTTTGAGTTC
96532420 ACCTGTGCCAACATCAATAATCGTTTTAGCAGTTGCTAAAAAAGG
1 ACCTGTGCCAACATCAATAATCGTTTTAGCAGTTGCTAAAAAAGG
96532465 ACCTGTGCCAACATCAATAATCGTTTTAGCAGTTGCTAAAAA
1 ACCTGTGCCAACATCAATAATCGTTTTAGCAGTTGCTAAAAA
96532507 GGGCCTTCCC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (45 bp):
ACCTGTGCCAACATCAATAATCGTTTTAGCAGTTGCTAAAAAAGG
Found at i:96540196 original size:22 final size:22
Alignment explanation
Indices: 96540170--96540214 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
96540160 TGTGATGACG
96540170 TTATCTT-ATAAATATGCTGAAT
1 TTATCTTGA-AAATATGCTGAAT
*
96540192 TTATCTTGAAAATATGTTGAAT
1 TTATCTTGAAAATATGCTGAAT
96540214 T
1 T
96540215 GATTTGGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.47
Consensus pattern (22 bp):
TTATCTTGAAAATATGCTGAAT
Found at i:96540623 original size:16 final size:16
Alignment explanation
Indices: 96540602--96540645 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
96540592 ATAAATAAAT
96540602 AAAATTACATTATATA
1 AAAATTACATTATATA
96540618 AAAATTACATTATATA
1 AAAATTACATTATATA
96540634 AAAATTACATTA
1 AAAATTACATTA
96540646 AAAAATCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTACATTATATA
Found at i:96541123 original size:109 final size:111
Alignment explanation
Indices: 96540969--96541210 Score: 289
Period size: 109 Copynumber: 2.2 Consensus size: 111
96540959 TAAAAAATCA
* * * *
96540969 TAATACACTAAACCACTAAACACTAGCACTTTATGTAACCTAATCATAAAATTACTAATAAAATA
1 TAATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCAT--AATTACTAACAAAATA
* *
96541034 GCTAT-A-ATTTTTTTT-AAA-TATATTACTAAAAAATCACAATACAC
64 ACTATAATATTTTTTTTAAAATTACATTACTAAAAAATCACAATACAC
* *
96541078 TAATACACTAAACCACTAAACACTAACAATTTTTATAACTTAATCATAATTACTAACAAAATAAC
1 TAATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCATAATTACTAACAAAATAAC
* *
96541143 TATAAAATTATTTTTTTTAAAAATTACATTACTAAAAAATCGCAATACCC
66 TAT--AA-TATTTTTTTT-AAAATTACATTACTAAAAAATCACAATACAC
96541193 TAA-ACCACTAAA-CACTAA
1 TAATA-CACTAAACCACTAA
96541211 CAATTTGTAA
Statistics
Matches: 114, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
107 19 0.17
109 42 0.37
110 1 0.01
112 9 0.08
114 10 0.09
115 33 0.29
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (111 bp):
TAATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCATAATTACTAACAAAATAAC
TATAATATTTTTTTTAAAATTACATTACTAAAAAATCACAATACAC
Found at i:96541159 original size:216 final size:214
Alignment explanation
Indices: 96540659--96541237 Score: 828
Period size: 216 Copynumber: 2.7 Consensus size: 214
96540649 AATCACAAAA
* *
96540659 ACACTAAACCA-TAAACACTAACAA--TTTATAA-TCAT-A-AATTACTAACACAAAATAACTAA
1 ACACTAAACCACTAAACACTAACAATTTTTATAACTAATCATAATTACT-A-ACAAAATAACTAT
96540718 AAAATTA-TTTTTTT--AAATACATTACTAAAAAATCATAATACACTAAACCACTAAACACTAAC
64 AAAATTATTTTTTTTAAAAATACATTACTAAAAAATCATAATACACTAAACCACTAAACACTAAC
*
96540780 AATTTATATAACCTAATCATAAATTACTAATAAAATAGCTATAAAATTATTTTTTTAAATATATT
129 -ATTTATGTAACCTAATCATAAATTACTAATAAAATAGCTAT-AAATTATTTTTTTAAATATATT
96540845 ACTAAAAAATCACAATACACAAT
192 ACTAAAAAATCACAATACACAAT
* * * *
96540868 ACACTGAACCACTAAACAGTAACAATTTATGTAACCTAATCATAAATTACTAACAAAATAACTAT
1 ACACTAAACCACTAAACACTAACAATTTTTATAA-CTAATCAT-AATTACTAACAAAATAACTAT
*
96540933 -AAATT-TTTTTTTTAAAAATACATTACTAAAAAATCATAATACACTAAACCACTAAACACTAGC
64 AAAATTATTTTTTTTAAAAATACATTACTAAAAAATCATAATACACTAAACCACTAAACACTAAC
96540996 ACTTTATGTAACCTAATCATAAAATTACTAATAAAATAGCTAT-AA-T-TTTTTTTAAATATATT
129 A-TTTATGTAACCTAATCAT-AAATTACTAATAAAATAGCTATAAATTATTTTTTTAAATATATT
96541058 ACTAAAAAATCACAATACACTAAT
192 ACTAAAAAATCACAATACAC-AAT
96541082 ACACTAAACCACTAAACACTAACAATTTTTATAACTTAATCATAATTACTAACAAAATAACTATA
1 ACACTAAACCACTAAACACTAACAATTTTTATAAC-TAATCATAATTACTAACAAAATAACTATA
** *
96541147 AAATTATTTTTTTTAAAAATTACATTACTAAAAAATCGCAATACCCTAAACCACTAAACACTAAC
65 AAATTATTTTTTTTAAAAA-TACATTACTAAAAAATCATAATACACTAAACCACTAAACACTAAC
*
96541212 AATT-TGTAACCTAATCCCATAAATTA
129 ATTTATGTAACCTAAT--CATAAATTA
96541238 TTAACCAAAT
Statistics
Matches: 333, Mismatches: 17, Indels: 34
0.87 0.04 0.09
Matches are distributed among these distances:
209 10 0.03
210 12 0.04
212 5 0.02
213 58 0.17
214 72 0.22
215 37 0.11
216 110 0.33
217 29 0.09
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (214 bp):
ACACTAAACCACTAAACACTAACAATTTTTATAACTAATCATAATTACTAACAAAATAACTATAA
AATTATTTTTTTTAAAAATACATTACTAAAAAATCATAATACACTAAACCACTAAACACTAACAT
TTATGTAACCTAATCATAAATTACTAATAAAATAGCTATAAATTATTTTTTTAAATATATTACTA
AAAAATCACAATACACAAT
Found at i:96541406 original size:3 final size:3
Alignment explanation
Indices: 96541400--96541468 Score: 106
Period size: 3 Copynumber: 23.3 Consensus size: 3
96541390 TACATTACCT
96541400 TTC TTC TTC TTC TTC TTC TTC TTCC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC
*
96541446 TTC CTC -TC TTC TTC TTC -TC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
96541469 CCTTTCTCTC
Statistics
Matches: 62, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
2 4 0.06
3 55 0.89
4 3 0.05
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
TTC
Found at i:96541477 original size:25 final size:26
Alignment explanation
Indices: 96541401--96541478 Score: 124
Period size: 25 Copynumber: 3.1 Consensus size: 26
96541391 ACATTACCTT
96541401 TCTTCTTCTTCTTCTTCTTCTTCCT-
1 TCTTCTTCTTCTTCTTCTTCTTCCTC
96541426 TCTTCTTCTTCTTCTTCTTCTTCCTC
1 TCTTCTTCTTCTTCTTCTTCTTCCTC
* *
96541452 TCTTCTTCTTC-TCTTCTCCTTTCTC
1 TCTTCTTCTTCTTCTTCTTCTTCCTC
96541477 TC
1 TC
96541479 CTTTCTTTCA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
25 39 0.78
26 11 0.22
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (26 bp):
TCTTCTTCTTCTTCTTCTTCTTCCTC
Found at i:96545570 original size:21 final size:21
Alignment explanation
Indices: 96545544--96545658 Score: 94
Period size: 21 Copynumber: 5.2 Consensus size: 21
96545534 ACACACATAT
*
96545544 ATATATATAATAGTATTAGAA
1 ATATATATAATAATATTAGAA
96545565 ATATATA-ATATAATATTAGAA
1 ATATATATA-ATAATATTAGAA
96545586 ATATATAT-ATAATAGTATAAAAGAA
1 ATATATATAATAATA-T-T---AGAA
* *
96545611 AAATATAACTAATAATATTA-AT
1 ATATAT-A-TAATAATATTAGAA
96545633 ATATATATAATAATATGT-GAA
1 ATATATATAATAATAT-TAGAA
96545654 ATATA
1 ATATA
96545659 ATATTAAAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 24
0.73 0.05 0.23
Matches are distributed among these distances:
20 16 0.21
21 34 0.44
22 7 0.09
23 1 0.01
25 9 0.12
26 2 0.03
27 2 0.03
28 6 0.08
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.37
Consensus pattern (21 bp):
ATATATATAATAATATTAGAA
Found at i:96545610 original size:25 final size:25
Alignment explanation
Indices: 96545565--96545617 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
96545555 AGTATTAGAA
** *
96545565 ATATATAATATAATATTAGAAATAT
1 ATATATAATATAATAAAAGAAAAAT
96545590 ATATATAATAGT-ATAAAAGAAAAAT
1 ATATATAATA-TAATAAAAGAAAAAT
96545615 ATA
1 ATA
96545618 ACTAATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (25 bp):
ATATATAATATAATAAAAGAAAAAT
Found at i:96545615 original size:48 final size:43
Alignment explanation
Indices: 96545542--96545659 Score: 116
Period size: 44 Copynumber: 2.7 Consensus size: 43
96545532 ACACACACAT
*
96545542 ATATATATATAATAGTATTAGAAATATATAAT-ATAATATTAGAA
1 ATATATATATAATAGTATAAGAAATATA-AATAATAATATTA-AA
*
96545586 ATATATATATAATAGTATAAAAGAAAAATATAACTAATAATATT--A
1 ATATATATATAATAGTAT--AAG--AAATATAAATAATAATATTAAA
* **
96545631 ATATATATATAATAATATGTGAAATATAA
1 ATATATATATAATAGTATAAGAAATATAA
96545660 TATTAAAAAC
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
41 8 0.12
43 1 0.02
44 18 0.28
45 18 0.28
46 2 0.03
47 2 0.03
48 15 0.23
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (43 bp):
ATATATATATAATAGTATAAGAAATATAAATAATAATATTAAA
Found at i:96547836 original size:73 final size:74
Alignment explanation
Indices: 96547712--96547874 Score: 267
Period size: 73 Copynumber: 2.2 Consensus size: 74
96547702 ACATAAACTG
*
96547712 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
96547777 A-TTTTTGA
66 ATTTTTTGA
* * *
96547785 CAAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
96547850 ATTTTTTGA
66 ATTTTTTGA
*
96547859 AAAACATAAATT-AAAA
1 AAAACAGAAATTGAAAA
96547875 CAGAAATTGA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
73 65 0.79
74 17 0.21
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTGA
Found at i:96548146 original size:72 final size:71
Alignment explanation
Indices: 96548039--96548191 Score: 252
Period size: 72 Copynumber: 2.1 Consensus size: 71
96548029 TGAAAAGCAG
* *
96548039 AAATTAAAGATGCCTCATCGTACCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAA
1 AAATTAAA-ATACCTCAGCGTACCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAA
96548104 AACACAA
65 AACACAA
* *
96548111 AAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAA
1 AAATT-AAAATACCTCAGCGTACCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAA
96548176 AACACAA
65 AACACAA
96548183 AAATTAAAA
1 AAATTAAAA
96548192 GGCTTAACTC
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
71 4 0.05
72 69 0.91
73 3 0.04
ACGTcount: A:0.41, C:0.25, G:0.13, T:0.22
Consensus pattern (71 bp):
AAATTAAAATACCTCAGCGTACCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAA
ACACAA
Found at i:96548150 original size:161 final size:159
Alignment explanation
Indices: 96547672--96548169 Score: 596
Period size: 161 Copynumber: 3.1 Consensus size: 159
96547662 GACTCATAAA
*
96547672 CTCTCGCAATATGAGTTGATTTTC-TGAAAAACATAAACTGAAAACAGAAATTGAAA-ATACCTC
1 CTCTCGCAATATGAGTTGATTTTCTTGAAAAACATAAATTGAAAACAGAAATT-AAAGATACCTC
* * * * * * *
96547735 AGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAA
65 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--ATTCAAAAACAAAAATTGAA
*
96547800 ATTACCTCATCGTGTCCTGAGGCTCAACTCAC
128 ATTACCTCAACGTGTCCTGAGGCTCAACTCAC
*
96547832 CTCTCGCAATATGAGTTGATTTT-TTGAAAAACATAAATT-AAAACAGAAATT-GAGAATACCTC
1 CTCTCGCAATATGAGTTGATTTTCTTGAAAAACATAAATTGAAAACAGAAATTAAAG-ATACCTC
* ** * *** *
96547894 AGCATGCGAGTCGAGGCTCCACTCACCTCTCGCAATATGAGTTG-ATTCTGGAACATAAATTGAA
65 AGCGTGC--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTCAAAAACAAAAATTGAA
*
96547958 ATTACCTCAACGTGTCTTGAGGCTCAACTCAC
128 ATTACCTCAACGTGTCCTGAGGCTCAACTCAC
* * * *
96547990 CTCTCGCAATATGAGTTGATTTTCTTGAGAAGCATGAATTGAAAAGCAGAAATTAAAGATGCCTC
1 CTCTCGCAATATGAGTTGATTTTCTTGAAAAACATAAATTGAAAA-CAGAAATTAAAGATACCTC
* * *
96548055 ATCGTACCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATT-AAAACACAAAAATTGAA
65 AGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-AATTCAAAA-ACAAAAATTGAA
* * * *
96548119 AATACCTCAGCGTGCCCCGAGGCTCAACTCAC
128 ATTACCTCAACGTGTCCTGAGGCTCAACTCAC
96548151 CTCTCGCAATATGAGTTGA
1 CTCTCGCAATATGAGTTGA
96548170 AATTAAAACA
Statistics
Matches: 288, Mismatches: 38, Indels: 23
0.83 0.11 0.07
Matches are distributed among these distances:
157 1 0.00
158 67 0.23
159 68 0.24
160 42 0.15
161 108 0.38
162 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (159 bp):
CTCTCGCAATATGAGTTGATTTTCTTGAAAAACATAAATTGAAAACAGAAATTAAAGATACCTCA
GCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTCAAAAACAAAAATTGAAATT
ACCTCAACGTGTCCTGAGGCTCAACTCAC
Found at i:96548300 original size:122 final size:123
Alignment explanation
Indices: 96548065--96548311 Score: 349
Period size: 122 Copynumber: 2.0 Consensus size: 123
96548055 ATCGTACCCC
* *
96548065 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGC
*
96548130 GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTAA
66 GTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATT-AAA-ACAAAAATTAA
* * * *
96548190 AAGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGC
* **
96548252 GTGCCCCGAGGCTC-ACTCACTTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAA
66 GTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATT-AAAACAAAAATTAA
96548310 AA
1 AA
96548312 ATACCTCAAC
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
120 13 0.12
121 28 0.25
122 34 0.31
123 7 0.06
124 1 0.01
125 28 0.25
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (123 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGC
GTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTAAAACAAAAATTAA
Found at i:96548317 original size:70 final size:70
Alignment explanation
Indices: 96548191--96548365 Score: 212
Period size: 70 Copynumber: 2.5 Consensus size: 70
96548181 AAAAATTAAA
* * * * *
96548191 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
96548255 CCCCG
66 CCCCG
* * *
96548260 AGGC-TCACTCACTTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTTAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
96548324 GTCTTG
65 GCCCCG
96548330 AGGCTTAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTTAACTCACT-TCTCGCAATATGAGTTGATTTT
96548366 CCTTGAAAAG
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
68 20 0.22
69 9 0.10
70 33 0.37
71 27 0.30
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (70 bp):
AGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:96557929 original size:73 final size:74
Alignment explanation
Indices: 96557805--96557967 Score: 267
Period size: 73 Copynumber: 2.2 Consensus size: 74
96557795 ACATAAACTG
*
96557805 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
96557870 A-TTTTTGA
66 ATTTTTTGA
* * *
96557878 CAAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
96557943 ATTTTTTGA
66 ATTTTTTGA
*
96557952 AAAACATAAATT-AAAA
1 AAAACAGAAATTGAAAA
96557968 CAGAAATTGA
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
73 65 0.79
74 17 0.21
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (74 bp):
AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTGA
Found at i:96558055 original size:159 final size:158
Alignment explanation
Indices: 96557766--96558262 Score: 589
Period size: 159 Copynumber: 3.1 Consensus size: 158
96557756 GACTCATAAA
* *
96557766 CTCTCGCAATATGAGTTGA-TTTCTGAAAAACATAAACTGAAAACAGAAATTGAAAATACCTCAG
1 CTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAA-TTAAAACAGAAATTGAAAATACCTCAG
* * *
96557830 CGTGTC--CT-GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGA
65 CATG-CGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG--AAACAAAAATTGA
*
96557892 AATTACCTCATCGTGTCCTGAGGCTCAACTCAC
126 AATTACCTCAACGTGTCCTGAGGCTCAACTCAC
*
96557925 CTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTAAAACAGAAATTGAGAATACCTCAGC
1 CTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTAAAACAGAAATTGAAAATACCTCAGC
* * * *
96557990 ATGCGAGTCGAGGCTCCACTCACCTCTCGCAATATGAGTTGATTCTTGGAACATAAATTGAAATT
66 ATGCGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTGAAACAAAAATTGAAATT
*
96558055 ACCTCAACGTGTCTTGAGGCTCAACTCAC
130 ACCTCAACGTGTCCTGAGGCTCAACTCAC
* * * *
96558084 CTCTCGCAATATGAGTTGATTTTCTTGAGAAGCATGAATTGAAAAGCAGAAATT-AAAGATGCCT
1 CTCTCGCAATATGAGTTGATTTT-TTGAAAAACATAAATT-AAAA-CAGAAATTGAAA-ATACCT
* * * **
96558148 ---CAT-CGTACCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATT
62 CAGCATGCG-ACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTGAA-ACAAAAATT
* * * *
96558209 GAAAATACCTCAGCGTGCCCCGAGGCTCAACTCAC
124 GAAATTACCTCAACGTGTCCTGAGGCTCAACTCAC
96558244 CTCTCGCAATATGAGTTGA
1 CTCTCGCAATATGAGTTGA
96558263 AATTAAAACA
Statistics
Matches: 296, Mismatches: 30, Indels: 23
0.85 0.09 0.07
Matches are distributed among these distances:
158 3 0.01
159 149 0.50
160 91 0.31
161 40 0.14
162 13 0.04
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (158 bp):
CTCTCGCAATATGAGTTGATTTTTTGAAAAACATAAATTAAAACAGAAATTGAAAATACCTCAGC
ATGCGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACAAAAATTGAAATTA
CCTCAACGTGTCCTGAGGCTCAACTCAC
Found at i:96558360 original size:122 final size:124
Alignment explanation
Indices: 96558158--96558405 Score: 367
Period size: 122 Copynumber: 2.0 Consensus size: 124
96558148 CATCGTACCC
* *
96558158 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGC
*
96558223 GTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTAA
66 GTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTAAAA-ACAAAAATTAA
* * * *
96558283 AAGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACTAAAAATACCTCAGC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGC
* ** *
96558345 GTGCCCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAA
66 GTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTAAAAACAAAAATTAA
96558404 AA
1 AA
96558406 ATACCTCAAC
Statistics
Matches: 112, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
121 13 0.12
122 63 0.56
123 7 0.06
124 1 0.01
125 28 0.25
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (124 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTAAAAATACCTCAGC
GTGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTAAAAACAAAAATTAA
Found at i:96558427 original size:71 final size:70
Alignment explanation
Indices: 96558284--96558459 Score: 221
Period size: 71 Copynumber: 2.5 Consensus size: 70
96558274 AAAAATTAAA
* * * * *
96558284 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
96558348 CCCCG
66 CCCCG
* * *
96558353 AGGCTCAACTCACTTCTAGCAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTTAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
96558418 GTCTTG
65 GCCCCG
96558424 AGGCTTAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTTAACTCACT-TCTCGCAATATGAGTTGATTTT
96558460 CCTTGAAAAG
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
69 25 0.27
70 6 0.07
71 60 0.66
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (70 bp):
AGGCTTAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:96566628 original size:9 final size:9
Alignment explanation
Indices: 96566614--96566640 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
96566604 TTCCTTTTGA
96566614 ATCCTTTCG
1 ATCCTTTCG
96566623 ATCCTTTCG
1 ATCCTTTCG
96566632 ATCCTTTCG
1 ATCCTTTCG
96566641 TTGAATTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.33, G:0.11, T:0.44
Consensus pattern (9 bp):
ATCCTTTCG
Found at i:96570912 original size:21 final size:21
Alignment explanation
Indices: 96570886--96570988 Score: 104
Period size: 21 Copynumber: 4.8 Consensus size: 21
96570876 ACATATATAT
*
96570886 ATATATATAATAGTATTAGAA
1 ATATATATAATAATATTAGAA
96570907 ATATATA-ATATAATATTAGAA
1 ATATATATA-ATAATATTAGAA
* *
96570928 ATATATATAATAGTATAAAATAAAA
1 ATATATATAATA--AT--ATTAGAA
96570953 ATATA-ACTAATAATATTA-AA
1 ATATATA-TAATAATATTAGAA
96570973 ATATATATAATAATAT
1 ATATATATAATAATAT
96570989 ATGTGAAATA
Statistics
Matches: 70, Mismatches: 4, Indels: 17
0.77 0.04 0.19
Matches are distributed among these distances:
20 17 0.24
21 32 0.46
22 1 0.01
23 4 0.06
24 1 0.01
25 15 0.21
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (21 bp):
ATATATATAATAATATTAGAA
Found at i:96570933 original size:23 final size:23
Alignment explanation
Indices: 96570882--96571000 Score: 83
Period size: 23 Copynumber: 5.2 Consensus size: 23
96570872 ACACACATAT
*
96570882 ATATATATATATAATAGTATTAG-A
1 ATATATATA-AT-ATAATATTAGAA
96570906 A-ATATATAATATAATATTAGAA
1 ATATATATAATATAATATTAGAA
* *
96570928 ATATATATAATAGTATAAAATA-AA
1 ATATATATAATA-TA-ATATTAGAA
*
96570952 A-ATATA-ACTAATAATATTA-AA
1 ATATATATAAT-ATAATATTAGAA
96570973 ATATATATAATA-ATATATGT-GAA
1 ATATATATAATATA-ATAT-TAGAA
96570996 ATATA
1 ATATA
96571001 ATATTAAAAC
Statistics
Matches: 78, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
21 17 0.22
22 18 0.23
23 33 0.42
24 6 0.08
25 4 0.05
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATATATAATATAATATTAGAA
Found at i:96576438 original size:5 final size:5
Alignment explanation
Indices: 96576390--96576421 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
96576380 TGCTATATGG
96576390 ATTTT ACTTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT A-TTTT ATTTT ATTTT ATTTT ATTTT A
96576422 CCATTGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:96579448 original size:19 final size:19
Alignment explanation
Indices: 96579424--96579474 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
96579414 AGTGAATTTT
96579424 GATGAAATTGTAATTTAGG
1 GATGAAATTGTAATTTAGG
96579443 GATGAAATTGTAATTTAGG
1 GATGAAATTGTAATTTAGG
96579462 GACT-AAATTGTAA
1 GA-TGAAATTGTAA
96579475 AGATGCAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 30 0.97
20 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.35
Consensus pattern (19 bp):
GATGAAATTGTAATTTAGG
Found at i:96580213 original size:26 final size:26
Alignment explanation
Indices: 96580153--96580214 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 26
96580143 GTCCTGATAT
96580153 ATGGCTCTTCGTGAGCTTCCCAATTA
1 ATGGCTCTTCGTGAGCTTCCCAATTA
* * * ***
96580179 AAGGATCTTTGTGAGCTTCTTGATTA
1 ATGGCTCTTCGTGAGCTTCCCAATTA
96580205 ATGGCTCTTC
1 ATGGCTCTTC
96580215 AGAACTTCCC
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (26 bp):
ATGGCTCTTCGTGAGCTTCCCAATTA
Found at i:96580316 original size:24 final size:24
Alignment explanation
Indices: 96580289--96580407 Score: 87
Period size: 25 Copynumber: 4.8 Consensus size: 24
96580279 TGGCTCTTCG
*
96580289 GAGCTACCCGTTATTGGCTCGCAT
1 GAGCTTCCCGTTATTGGCTCGCAT
* **
96580313 GAGCTTCTCGATTA-TGGCTCTTAT
1 GAGCTTCCCG-TTATTGGCTCGCAT
* * * *
96580337 GAGCTTTCCATTATATAGCTCGGAT
1 GAGCTTCCCGTTAT-TGGCTCGCAT
* * *
96580362 AAGCTTCCCGTTACATGGCTCACAT
1 GAGCTTCCCGTTA-TTGGCTCGCAT
*
96580387 GAGCTTCCTGTTATATGGCTC
1 GAGCTTCCCGTTAT-TGGCTC
96580408 TAGAAAGGGC
Statistics
Matches: 70, Mismatches: 20, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
23 3 0.04
24 23 0.33
25 44 0.63
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.34
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCGCAT
Found at i:96591067 original size:13 final size:13
Alignment explanation
Indices: 96591049--96591073 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96591039 ATATCACCTT
96591049 GCAAAGACAAGGC
1 GCAAAGACAAGGC
96591062 GCAAAGACAAGG
1 GCAAAGACAAGG
96591074 AGCATACTTT
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:0.48, C:0.20, G:0.32, T:0.00
Consensus pattern (13 bp):
GCAAAGACAAGGC
Found at i:96600266 original size:14 final size:14
Alignment explanation
Indices: 96600247--96600293 Score: 73
Period size: 14 Copynumber: 3.6 Consensus size: 14
96600237 TTTGATTGGA
96600247 TAAGGTAAGAAGAG
1 TAAGGTAAGAAGAG
96600261 TAAGGT-A-AAGA-
1 TAAGGTAAGAAGAG
96600272 TAAGGTAAGAAGAG
1 TAAGGTAAGAAGAG
96600286 TAAGGTAA
1 TAAGGTAA
96600294 AGATAAGGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.20
12 5 0.17
13 5 0.17
14 14 0.47
ACGTcount: A:0.51, C:0.00, G:0.32, T:0.17
Consensus pattern (14 bp):
TAAGGTAAGAAGAG
Found at i:96600273 original size:25 final size:25
Alignment explanation
Indices: 96600245--96600301 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
96600235 AATTTGATTG
96600245 GATAAGGTAAGAAGAGTAAGGTAAA
1 GATAAGGTAAGAAGAGTAAGGTAAA
96600270 GATAAGGTAAGAAGAGTAAGGTAAA
1 GATAAGGTAAGAAGAGTAAGGTAAA
96600295 GATAAGG
1 GATAAGG
96600302 AAAATTATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.51, C:0.00, G:0.33, T:0.16
Consensus pattern (25 bp):
GATAAGGTAAGAAGAGTAAGGTAAA
Found at i:96600697 original size:430 final size:428
Alignment explanation
Indices: 96599893--96600700 Score: 1409
Period size: 430 Copynumber: 1.9 Consensus size: 428
96599883 CAAAAAGAAA
*
96599893 TGCTTGCAAATAATTCCATCCAACCTGGCATGCTACAAAACTTGACCAGGAATTGGAGAAAGAGT
1 TGCTTGCAAATAATTCCATCAAACCTGGCATGCTACAAAACTTGACCAGGAATTGGAGAAAGAGT
*
96599958 TCGAAAACAATTCAGCAGTTAAGAGTAGGTAACAACACATGCTGCTTGGATGCAAATAAAGACCT
66 TCGAAAACAATTCAACAGTTAAGAGTAGGTAACAACACATGCTGCTTGGATGCAAATAAAGACCT
* * * *
96600023 TTGCGTTTATTAGCAACACATTATATTTAAGAGATAAAGCTTGACACGCCTTGCATCAAGCAACT
131 CTGCCTTTATTAGAAACACATTATATTTAAGAGATAAAGCTTGACACGCCTGGCATCAAGCAACT
** *
96600088 AACCAGAATTGACAATAAGAATGATAACAGCATGATTTTATCAAAATGCCTTCAGCATGTAATAC
196 AACCAGAATCAACAATAAGAATGATAACAGCATGATTTCATCAAAATGCCTTCAGCATGTAATAC
* *
96600153 TTTCCAACTTATAACCAGAATTCATCATACAAAGAAAGAAATACAGGAAATGTACTTTAAATGGA
261 TTTCCAACTTAAAACCAGAATTCATCATACAAAGAAAGAAATACAGGAAATGTACTTTAAAGGGA
*
96600218 TGGAAAGGATGTACGATAATTTGATTGGATAAGGTAAGAAGAGTAAGGTAAAGATAAGGTAAGAA
326 TGGAAAGGATGTACGATAATTTGATTGGACAAGGTAAGAAGAGTAAGGTAAAGATAAGGTAAGAA
96600283 GAGTAAGGTAAAGATAAGGAAAATTATGCTTTATTGTC
391 GAGTAAGGTAAAGATAAGGAAAATTATGCTTTATTGTC
*
96600321 TGCTTGCAAATAATTCCATCAAACCTGGCATGCTACAAAACTTGACCGGGAATTGGAGAAAGAGT
1 TGCTTGCAAATAATTCCATCAAACCTGGCATGCTACAAAACTTGACCAGGAATTGGAGAAAGAGT
96600386 TCGAAAACAATTCAACAGTTAAGAGTAGGTAACAACACATATGCTGCTTGGATGCAAATAAAGAC
66 TCGAAAACAATTCAACAGTTAAGAGTAGGTAACAACAC--ATGCTGCTTGGATGCAAATAAAGAC
* *
96600451 CTCTGCCTTTATTAGAAACACATTATATTTAAGAGATAAAGGTTGACACGCCTGGCGTCAAGCAA
129 CTCTGCCTTTATTAGAAACACATTATATTTAAGAGATAAAGCTTGACACGCCTGGCATCAAGCAA
* * *
96600516 CTAACCAGAATCAACAATGAGAATGTTAACAGCATGATTTCATTAAAATGCCTTCAGCATGTAAT
194 CTAACCAGAATCAACAATAAGAATGATAACAGCATGATTTCATCAAAATGCCTTCAGCATGTAAT
*
96600581 ACTTTCCAACTTAAAACCAGAATTCATCATACATAGAAAGAAATACAGGAAATGTACTTTAAAGG
259 ACTTTCCAACTTAAAACCAGAATTCATCATACAAAGAAAGAAATACAGGAAATGTACTTTAAAGG
* *
96600646 GATGGAAAGGATGTACGTTAATTTGATTGGACAAGGTAAGAAGATTAAGGTAAAG
324 GATGGAAAGGATGTACGATAATTTGATTGGACAAGGTAAGAAGAGTAAGGTAAAG
96600701 GGAAGGAAAA
Statistics
Matches: 357, Mismatches: 21, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
428 100 0.28
430 257 0.72
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.25
Consensus pattern (428 bp):
TGCTTGCAAATAATTCCATCAAACCTGGCATGCTACAAAACTTGACCAGGAATTGGAGAAAGAGT
TCGAAAACAATTCAACAGTTAAGAGTAGGTAACAACACATGCTGCTTGGATGCAAATAAAGACCT
CTGCCTTTATTAGAAACACATTATATTTAAGAGATAAAGCTTGACACGCCTGGCATCAAGCAACT
AACCAGAATCAACAATAAGAATGATAACAGCATGATTTCATCAAAATGCCTTCAGCATGTAATAC
TTTCCAACTTAAAACCAGAATTCATCATACAAAGAAAGAAATACAGGAAATGTACTTTAAAGGGA
TGGAAAGGATGTACGATAATTTGATTGGACAAGGTAAGAAGAGTAAGGTAAAGATAAGGTAAGAA
GAGTAAGGTAAAGATAAGGAAAATTATGCTTTATTGTC
Found at i:96601427 original size:31 final size:31
Alignment explanation
Indices: 96601389--96601450 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
96601379 GATAACCATC
96601389 ACATAGTACCGAAAATTCAAAAGGTAACACT
1 ACATAGTACCGAAAATTCAAAAGGTAACACT
*
96601420 ACATAGTACCGGAAATTCAAAAGGTAACACT
1 ACATAGTACCGAAAATTCAAAAGGTAACACT
96601451 CAATTAACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.19
Consensus pattern (31 bp):
ACATAGTACCGAAAATTCAAAAGGTAACACT
Found at i:96619729 original size:24 final size:23
Alignment explanation
Indices: 96619702--96619747 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
96619692 ATTGTTCTAC
96619702 AAAATTAATCAAACA-AAAAAATAG
1 AAAATT-ATCAAA-AGAAAAAATAG
*
96619726 AAAATTGTCAAAAGAAAAAATA
1 AAAATTATCAAAAGAAAAAATA
96619748 AAATCGGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 13 0.65
24 6 0.30
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.17
Consensus pattern (23 bp):
AAAATTATCAAAAGAAAAAATAG
Found at i:96624358 original size:14 final size:14
Alignment explanation
Indices: 96624339--96624368 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96624329 AGAATTCCAT
96624339 CATACACACACACA
1 CATACACACACACA
*
96624353 CATACACACATACA
1 CATACACACACACA
96624367 CA
1 CA
96624369 CACCTTGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.40, G:0.00, T:0.10
Consensus pattern (14 bp):
CATACACACACACA
Found at i:96624359 original size:8 final size:8
Alignment explanation
Indices: 96624339--96624370 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
96624329 AGAATTCCAT
96624339 CATACACA
1 CATACACA
96624347 C--ACACA
1 CATACACA
96624353 CATACACA
1 CATACACA
96624361 CATACACA
1 CATACACA
96624369 CA
1 CA
96624371 CCTTGACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.27
8 16 0.73
ACGTcount: A:0.50, C:0.41, G:0.00, T:0.09
Consensus pattern (8 bp):
CATACACA
Found at i:96627523 original size:18 final size:18
Alignment explanation
Indices: 96627486--96627529 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
96627476 TTTATAAAAA
*
96627486 TATAAATTTTGAAATTTT
1 TATAAATTTTGAAATATT
96627504 TATAAATTTT-AATATATT
1 TATAAATTTTGAA-ATATT
96627522 TA-AAATTT
1 TATAAATTT
96627530 ATTTTTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TATAAATTTTGAAATATT
Found at i:96639759 original size:15 final size:15
Alignment explanation
Indices: 96639739--96639772 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
96639729 TCTCATCGAC
96639739 GAATTACACTTTCCA
1 GAATTACACTTTCCA
96639754 GAATTACACTTTCCA
1 GAATTACACTTTCCA
96639769 GAAT
1 GAAT
96639773 CCTTTCTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (15 bp):
GAATTACACTTTCCA
Found at i:96648219 original size:45 final size:45
Alignment explanation
Indices: 96648124--96648220 Score: 151
Period size: 44 Copynumber: 2.2 Consensus size: 45
96648114 TGCCTAAAAA
96648124 AAAAAGAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTAATGAAC
1 AAAAAGAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTAATGAAC
* * *
96648169 AAAAAGA-ATCAAGGTGAAAACCCGAAAAGGGGGTCTTGATTAAC
1 AAAAAGAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTAATGAAC
96648213 ACAAAAGA
1 A-AAAAGA
96648221 CTAGGATGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
44 35 0.73
45 13 0.27
ACGTcount: A:0.48, C:0.14, G:0.24, T:0.13
Consensus pattern (45 bp):
AAAAAGAGATCAAGGTGAAAACCCGAAAAGGGCGTCTTAATGAAC
Found at i:96650379 original size:3 final size:3
Alignment explanation
Indices: 96650340--96650454 Score: 74
Period size: 3 Copynumber: 36.7 Consensus size: 3
96650330 ATTTTTTAAA
* *
96650340 TAT TACT TAT TAT T-T TATT TAC CAT TAT T-T ATAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * *
96650386 TAT TAA TAT TAA TAT TAT TAT TAT TAG TA- TAT GTTT TAT TAT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
*
96650432 ATATT TAT GTAG TAT TAT TAT TA
1 -TA-T TAT -TAT TAT TAT TAT TA
96650455 GTCGTTTTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 20
0.72 0.11 0.16
Matches are distributed among these distances:
2 5 0.06
3 64 0.73
4 18 0.20
5 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:96650515 original size:2 final size:2
Alignment explanation
Indices: 96650502--96650587 Score: 65
Period size: 2 Copynumber: 44.5 Consensus size: 2
96650492 TATTTAATAC
* * *
96650502 TA TA TGA TA TA TA TA TA TA TA TA TT TCA TA TA TG T- TA TG TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA
* * *
96650545 TA TA TT TT TA -A TA T- TA TA TA TA TA TA TA T- TA T- TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
96650583 TA TA T
1 TA TA T
96650588 TTTAATATTA
Statistics
Matches: 68, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
1 5 0.07
2 60 0.88
3 3 0.04
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.55
Consensus pattern (2 bp):
TA
Found at i:96650532 original size:26 final size:25
Alignment explanation
Indices: 96650503--96650573 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
96650493 ATTTAATACT
*
96650503 ATATGATATATATATATATATATTTC
1 ATAT-ATATATATATATATATATTTA
* * *
96650529 ATATATGTTATGTATATATATTTTTA
1 ATATAT-ATATATATATATATATTTA
96650555 ATAT-TATATATATATATAT
1 ATATATATATATATATATAT
96650574 TATTATGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
24 12 0.32
25 3 0.08
26 23 0.61
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (25 bp):
ATATATATATATATATATATATTTA
Found at i:96650558 original size:24 final size:25
Alignment explanation
Indices: 96650509--96650574 Score: 82
Period size: 24 Copynumber: 2.6 Consensus size: 25
96650499 TACTATATGA
96650509 TATATATATATATATATTTCATATAT
1 TATATATATATATAT-TTTCATATAT
* *
96650535 GT-TATGTATATATATTTTTA-ATAT
1 -TATATATATATATATTTTCATATAT
96650559 TATATATATATATATT
1 TATATATATATATATT
96650575 ATTATGTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 1 0.03
24 17 0.49
25 4 0.11
26 12 0.34
27 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (25 bp):
TATATATATATATATTTTCATATAT
Found at i:96650561 original size:22 final size:22
Alignment explanation
Indices: 96650508--96650640 Score: 68
Period size: 24 Copynumber: 6.1 Consensus size: 22
96650498 ATACTATATG
* *
96650508 ATATATATATATATATATTTCATA
1 ATAT-TATGTATATATATTT-TTA
*
96650532 TATGTTATGTATATATATTTTTA
1 -ATATTATGTATATATATTTTTA
*
96650555 ATATTA--TATATATA--TATA
1 ATATTATGTATATATATTTTTA
*
96650573 TTATTATG--TATATA-TTTTA
1 ATATTATGTATATATATTTTTA
96650592 ATATTAT-TAGTTATATATCTTTT-
1 ATATTATGTA--TATATAT-TTTTA
* * *
96650615 ATACTATTGTATGTATATTTCTA
1 ATATTA-TGTATATATATTTTTA
96650638 ATA
1 ATA
96650641 CTATATTGTA
Statistics
Matches: 85, Mismatches: 11, Indels: 26
0.70 0.09 0.21
Matches are distributed among these distances:
18 14 0.16
19 9 0.11
20 8 0.09
22 14 0.16
23 16 0.19
24 19 0.22
25 5 0.06
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.56
Consensus pattern (22 bp):
ATATTATGTATATATATTTTTA
Found at i:96650564 original size:18 final size:18
Alignment explanation
Indices: 96650541--96650598 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
96650531 ATATGTTATG
96650541 TATATATATTTTTAATAT
1 TATATATATTTTTAATAT
* * *
96650559 TATATATATATATATTAT
1 TATATATATTTTTAATAT
*
96650577 TATGTATATATTTTAATAT
1 TATATATAT-TTTTAATAT
96650596 TAT
1 TAT
96650599 TAGTTATATA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 23 0.72
19 9 0.28
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
TATATATATTTTTAATAT
Found at i:96650586 original size:24 final size:24
Alignment explanation
Indices: 96650504--96650609 Score: 84
Period size: 22 Copynumber: 4.5 Consensus size: 24
96650494 TTTAATACTA
96650504 TATGATATATATATATATATATTTCAT
1 TATG-TATATATATATATATA-TT-AT
*
96650531 ATATGT-TATGTATATATAT-TT-T
1 -TATGTATATATATATATATATTAT
*
96650553 TA-ATATTATATATATATATATTAT
1 TATGTA-TATATATATATATATTAT
*
96650577 TATGTATATAT-TTTA-ATATTAT
1 TATGTATATATATATATATATTAT
96650599 TA-GT-TATATAT
1 TATGTATATATAT
96650610 CTTTTATACT
Statistics
Matches: 67, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
20 6 0.09
21 5 0.07
22 22 0.33
23 5 0.07
24 10 0.15
25 2 0.03
26 12 0.18
27 1 0.01
28 4 0.06
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.56
Consensus pattern (24 bp):
TATGTATATATATATATATATTAT
Found at i:96650614 original size:24 final size:22
Alignment explanation
Indices: 96650570--96650653 Score: 66
Period size: 22 Copynumber: 3.7 Consensus size: 22
96650560 ATATATATAT
96650570 ATATTATTATGTATATATTTTA
1 ATATTATTATGTATATATTTTA
*
96650592 ATATTATTA-GTTATATATCTTTT
1 ATATTATTATG-TATATAT-TTTA
* *
96650615 ATACTATTGTATGTATAT-TTCTA
1 ATATTA-T-TATGTATATATTTTA
*
96650638 ATACTA-TATTGTATAT
1 ATATTATTA-TGTATAT
96650654 TTCTAACACC
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
20 2 0.04
21 8 0.15
22 16 0.31
23 16 0.31
24 2 0.04
25 7 0.13
26 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (22 bp):
ATATTATTATGTATATATTTTA
Found at i:96650631 original size:23 final size:25
Alignment explanation
Indices: 96650571--96650644 Score: 75
Period size: 23 Copynumber: 3.1 Consensus size: 25
96650561 TATATATATA
* *
96650571 TATTATTATGTATATATTTTAATAT
1 TATTAGTATGTATATATTTTAATAC
* *
96650596 TATTAGT-TATATATCTTTT-ATAC
1 TATTAGTATGTATATATTTTAATAC
*
96650619 TATT-GTATGTATAT-TTCTAATAC
1 TATTAGTATGTATATATTTTAATAC
96650642 TAT
1 TAT
96650645 ATTGTATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
22 5 0.12
23 20 0.49
24 10 0.24
25 6 0.15
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (25 bp):
TATTAGTATGTATATATTTTAATAC
Found at i:96650764 original size:28 final size:27
Alignment explanation
Indices: 96650732--96650796 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
96650722 GTTTTCTTTA
* *
96650732 TATTATTATCATTTCTA-ACATATGTATG
1 TATTATTAT-ATTTATATA-ATATGTATC
*
96650760 TATTATATATATTTATATATTATGTATC
1 TATTAT-TATATTTATATAATATGTATC
96650788 TATTATTAT
1 TATTATTAT
96650797 GATATCTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 3 0.09
28 25 0.78
29 4 0.12
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (27 bp):
TATTATTATATTTATATAATATGTATC
Found at i:96650804 original size:15 final size:15
Alignment explanation
Indices: 96650760--96650811 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
96650750 CATATGTATG
*
96650760 TATTA-TAT-ATATT
1 TATTATTATGATATC
96650773 TATATATTATG-TATC
1 TAT-TATTATGATATC
96650788 TATTATTATGATATC
1 TATTATTATGATATC
*
96650803 TATTTTTAT
1 TATTATTAT
96650812 CCCGATTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 3 0.09
14 9 0.27
15 21 0.64
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (15 bp):
TATTATTATGATATC
Found at i:96650995 original size:3 final size:3
Alignment explanation
Indices: 96650987--96651031 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
96650977 ATACATCTTT
* *
96650987 TTA TTA TTA TTA TAA TTA TTA TTA TTA TTA GTA TATA TTTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA -TTA TTA T
96651032 ATATGTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 31 0.86
4 4 0.11
5 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:96651048 original size:21 final size:19
Alignment explanation
Indices: 96650993--96651070 Score: 69
Period size: 23 Copynumber: 4.2 Consensus size: 19
96650983 CTTTTTATTA
96650993 TTATTATA-AT-TAT-TA-
1 TTATTATATATGTATATAT
96651008 TTATTAT-TA-GTATATAT
1 TTATTATATATGTATATAT
96651025 TTATTATATATGTATATATCT
1 TTATTATATATGTATATA--T
*
96651046 TTAATATATATATGTATATGT
1 TT-AT-TATATATGTATATAT
96651067 TTAT
1 TTAT
96651071 GCAGTGTTAT
Statistics
Matches: 52, Mismatches: 1, Indels: 15
0.76 0.01 0.22
Matches are distributed among these distances:
15 11 0.21
16 2 0.04
17 7 0.13
18 2 0.04
19 7 0.13
20 2 0.04
21 6 0.12
22 2 0.04
23 13 0.25
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (19 bp):
TTATTATATATGTATATAT
Found at i:96651157 original size:25 final size:26
Alignment explanation
Indices: 96651112--96651161 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
96651102 ATTATTATTT
96651112 CTATATATATATATATATTTTAATAA
1 CTATATATATATATATATTTTAATAA
* *
96651138 CTATAT-TATGTATTTATTTTAATA
1 CTATATATATATATATATTTTAATA
96651162 TATATGTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (26 bp):
CTATATATATATATATATTTTAATAA
Found at i:96654324 original size:40 final size:40
Alignment explanation
Indices: 96654246--96654389 Score: 175
Period size: 40 Copynumber: 3.5 Consensus size: 40
96654236 ACCCAAGTAT
* *
96654246 CTTCGGGAATTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* **
96654285 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
96654325 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
*
96654368 CTTCGAGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
96654390 CATCCGAATA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
39 12 0.14
40 47 0.53
41 1 0.01
43 28 0.32
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:96662292 original size:40 final size:40
Alignment explanation
Indices: 96662214--96662357 Score: 184
Period size: 40 Copynumber: 3.5 Consensus size: 40
96662204 ACCCAAGTAT
* *
96662214 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
* **
96662253 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGC
*
96662293 CTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGCAACTA---GCACAAATGC
96662336 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
96662358 CATCCGAATA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
39 12 0.13
40 47 0.53
41 1 0.01
43 29 0.33
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGC
Found at i:96678842 original size:9 final size:9
Alignment explanation
Indices: 96678828--96678856 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
96678818 ATATACATAG
96678828 TTTGTTTTT
1 TTTGTTTTT
96678837 TTTG-TTTT
1 TTTGTTTTT
96678845 TTTGTTTTT
1 TTTGTTTTT
96678854 TTT
1 TTT
96678857 TAAAAACAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (9 bp):
TTTGTTTTT
Found at i:96682917 original size:27 final size:26
Alignment explanation
Indices: 96682872--96682924 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
96682862 CCTCGCTGCA
*
96682872 ATCTGGTGGCCTCGCCACATATATCTG
1 ATCTGGTGACCTCGCCACA-ATATCTG
* *
96682899 ATCTGGTGACTTCGTCACAATATCTG
1 ATCTGGTGACCTCGCCACAATATCTG
96682925 GCAGCCTCGC
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:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (26 bp):
ATCTGGTGACCTCGCCACAATATCTG
Found at i:96684168 original size:13 final size:13
Alignment explanation
Indices: 96684150--96684174 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
96684140 TGTTTGTGAA
96684150 CATGGCCGTGTCG
1 CATGGCCGTGTCG
96684163 CATGGCCGTGTC
1 CATGGCCGTGTC
96684175 TAGCTTCGTT
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:0.08, C:0.32, G:0.36, T:0.24
Consensus pattern (13 bp):
CATGGCCGTGTCG
Found at i:96694639 original size:42 final size:42
Alignment explanation
Indices: 96694579--96694702 Score: 164
Period size: 42 Copynumber: 3.0 Consensus size: 42
96694569 CGTTTTCTCA
** * *
96694579 ATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-G
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-ATCG
*
96694621 ATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCG
96694663 ATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATATC
1 ATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATATC
96694703 TCACTGATGC
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
41 10 0.14
42 63 0.85
43 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCG
Found at i:96694731 original size:88 final size:91
Alignment explanation
Indices: 96694619--96694786 Score: 218
Period size: 93 Copynumber: 1.9 Consensus size: 91
96694609 CTTCACATAA
* * *
96694619 TGATGCCATAGCCCAGCTATGGTCTTACACA-T-AT-TCAT-ATATCGATGCCATAGCCCAGCTA
1 TGATGCCATAGCCCAGATATGGTCTTACACAGTAATAT-ATCATACCGATGCCATAGCCCAGATA
96694680 TGGTCTTACACGAATCACATATCTCAC
65 TGGTCTTACACGAATCACATATCTCAC
* * *
96694707 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCATACCGATGCCATATCCCAGAT
1 TGATGCCATAGCCCAGATATGGTCTTACACAGTA--ATATATCATACCGATGCCATAGCCCAGAT
*
96694772 ATGGTCTTATACGAA
64 ATGGTCTTACACGAA
96694787 AATCACTTGT
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
88 28 0.42
89 1 0.01
92 4 0.06
93 34 0.51
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (91 bp):
TGATGCCATAGCCCAGATATGGTCTTACACAGTAATATATCATACCGATGCCATAGCCCAGATAT
GGTCTTACACGAATCACATATCTCAC
Found at i:96694764 original size:47 final size:46
Alignment explanation
Indices: 96694661--96694786 Score: 164
Period size: 47 Copynumber: 2.7 Consensus size: 46
96694651 ATTCATATAT
* * * *
96694661 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCTCAC
* * *
96694707 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCAT-AC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATC-TCAC
96694754 CGATGCCATATCCCAGATATGGTCTTATACGAA
1 CGATGCCATATCCCAGATATGGTCTTATACGAA
96694787 AATCACTTGT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 28 0.41
47 40 0.58
48 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCTCAC
Found at i:96694844 original size:31 final size:31
Alignment explanation
Indices: 96694809--96694988 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
96694799 CTTGTCACTT
*
96694809 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
96694840 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
96694871 GTAGCCGGAGTTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
96694902 GTAGCCGGAA-CTACCAATTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
96694933 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
96694964 GTAGCTAAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
96694989 TGTCATTTGT
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
30 3 0.02
31 132 0.96
32 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:96695070 original size:50 final size:51
Alignment explanation
Indices: 96694971--96695092 Score: 194
Period size: 50 Copynumber: 2.4 Consensus size: 51
96694961 CAGGTAGCTA
* *
96694971 AAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
*
96695022 AAGCTATCACTTATCACTT-TCACTTT-TCTTTGATCAGATAAGTGTAGCCG
1 AAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGTGTAGCCG
96695072 AAGCTATCACTTATCACTTGT
1 AAGCTATCACTTATCACTTGT
96695093 TACCATGGTC
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
50 45 0.68
51 21 0.32
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (51 bp):
AAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGTGTAGCCG
Found at i:96696211 original size:42 final size:43
Alignment explanation
Indices: 96696140--96696221 Score: 157
Period size: 42 Copynumber: 1.9 Consensus size: 43
96696130 CAATTCAGTC
96696140 CTTGCTCAATTAACCCCTCAATTAAGATAATTTTCTCAATTAA
1 CTTGCTCAATTAACCCCTCAATTAAGATAATTTTCTCAATTAA
96696183 CTTGCTCAATTAA-CCCTCAATTAAGATAATTTTCTCAAT
1 CTTGCTCAATTAACCCCTCAATTAAGATAATTTTCTCAAT
96696222 CAATACTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
42 26 0.67
43 13 0.33
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (43 bp):
CTTGCTCAATTAACCCCTCAATTAAGATAATTTTCTCAATTAA
Found at i:96701110 original size:14 final size:14
Alignment explanation
Indices: 96701091--96701117 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
96701081 TTAATTAAAA
96701091 TAATTAAATAATTC
1 TAATTAAATAATTC
96701105 TAATTAAATAATT
1 TAATTAAATAATT
96701118 TATACAATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (14 bp):
TAATTAAATAATTC
Found at i:96702679 original size:2 final size:2
Alignment explanation
Indices: 96702672--96702700 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
96702662 TCTAAACATT
96702672 TA TA 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 TA TA T
96702701 GAATCAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96711402 original size:30 final size:30
Alignment explanation
Indices: 96711366--96711457 Score: 109
Period size: 30 Copynumber: 3.1 Consensus size: 30
96711356 TTATTTGCAT
*
96711366 ATTAGGGCTTAAGGTTTTGGAAAA-AAATAA
1 ATTAGGGCTTAAGGTTTT-AAAAATAAATAA
* *
96711396 ATTAGGGTTTATGGTTTTAAAAATAAATAA
1 ATTAGGGCTTAAGGTTTTAAAAATAAATAA
* *
96711426 ATTAGGG-TTTA-TTTTTAAAAATAAATAA
1 ATTAGGGCTTAAGGTTTTAAAAATAAATAA
96711454 ATTA
1 ATTA
96711458 AGGTTTAGAG
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
28 20 0.36
29 6 0.11
30 29 0.53
ACGTcount: A:0.45, C:0.01, G:0.16, T:0.38
Consensus pattern (30 bp):
ATTAGGGCTTAAGGTTTTAAAAATAAATAA
Found at i:96711441 original size:28 final size:29
Alignment explanation
Indices: 96711386--96711464 Score: 126
Period size: 28 Copynumber: 2.8 Consensus size: 29
96711376 AAGGTTTTGG
96711386 AAAA-AAATAAATTAGGGTTTATGGTTTTA
1 AAAATAAATAAATTAGGGTTTAT-GTTTTA
96711415 AAAATAAATAAATTAGGGTTTAT-TTTTA
1 AAAATAAATAAATTAGGGTTTATGTTTTA
*
96711443 AAAATAAATAAATTAAGGTTTA
1 AAAATAAATAAATTAGGGTTTA
96711465 GAGTCTAGGG
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
28 26 0.54
29 4 0.08
30 18 0.38
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (29 bp):
AAAATAAATAAATTAGGGTTTATGTTTTA
Found at i:96711818 original size:155 final size:156
Alignment explanation
Indices: 96711637--96711930 Score: 405
Period size: 156 Copynumber: 1.9 Consensus size: 156
96711627 TGTATAGAAA
* * **
96711637 AAGCTTCCAGCTAGACGCTTTTTTTGTACTGTTGATT-TTGAAAAATAATTTTGAAAAGATAGTT
1 AAGCTTCCAGCTAGACACTTTTTTTGTACTATTGATTCTAAAAAAATAATTTTGAAAAGATAGTT
*** * * *
96711701 CT-AAAAAACTATCCCGGGATTTTTGGGAAATCTTATAGTTGGGGTTGAAAAACAGTTCAAGTAG
66 CTGAAAAAA-TATCCCGGGATTCACGGGAAATCTGATAGTTAGGGTTGAAAAACACTTCAAGTAG
96711765 GATGCACTGTCAGTAAAAGTACTAAAC
130 GATGCACTGTCAGTAAAAGTACTAAAC
* * *
96711792 AAGCTTCCAGCT-GAACACTTTTTTTGTACTATTGGTTCTAAAAAAATAATTTTGAGAAGATGGT
1 AAGCTTCCAGCTAG-ACACTTTTTTTGTACTATTGATTCTAAAAAAATAATTTTGAAAAGATAGT
* * *
96711856 TTTGAAAAAATATCTCGGGATTCACGGGAAATCTGATAGTTAGGGTTGAAAAACTCTTCAAGTAG
65 TCTGAAAAAATATCCCGGGATTCACGGGAAATCTGATAGTTAGGGTTGAAAAACACTTCAAGTAG
96711921 GATGCACTGT
130 GATGCACTGT
96711931 TAGCAAAATA
Statistics
Matches: 120, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
154 1 0.01
155 32 0.27
156 81 0.68
157 6 0.05
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (156 bp):
AAGCTTCCAGCTAGACACTTTTTTTGTACTATTGATTCTAAAAAAATAATTTTGAAAAGATAGTT
CTGAAAAAATATCCCGGGATTCACGGGAAATCTGATAGTTAGGGTTGAAAAACACTTCAAGTAGG
ATGCACTGTCAGTAAAAGTACTAAAC
Found at i:96715754 original size:47 final size:47
Alignment explanation
Indices: 96715701--96715847 Score: 240
Period size: 47 Copynumber: 3.1 Consensus size: 47
96715691 TTAGGATTTT
96715701 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
*
96715748 ATGTGATGAATGTGAGCATGTATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * *
96715795 ATATGATGAATATGAACATGCATATATGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
96715842 ATGTGA
1 ATGTGA
96715848 AATATGTATG
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 92 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:96715886 original size:48 final size:48
Alignment explanation
Indices: 96715817--96715951 Score: 216
Period size: 48 Copynumber: 2.8 Consensus size: 48
96715807 TGAACATGCA
* * *
96715817 TATATGTGATAAGGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* *
96715865 TATATGTGGTAAAGCCGAATGGCTAGTGCGAAATATGTATGAGGTATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
*
96715913 TATATGTGGTAAAGCCGAATGGCTAGTGTGAGATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
96715952 GGCGATGTGC
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
Found at i:96716149 original size:37 final size:37
Alignment explanation
Indices: 96716098--96716243 Score: 256
Period size: 37 Copynumber: 3.9 Consensus size: 37
96716088 GGAAATATAT
*
96716098 TCCGGGTAAAACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
96716135 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
96716172 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
96716209 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
96716244 CGTCTGAGCT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:96719069 original size:56 final size:57
Alignment explanation
Indices: 96718983--96719146 Score: 206
Period size: 59 Copynumber: 2.9 Consensus size: 57
96718973 TAACTCCTAA
* * ** *
96718983 TTTATTAAATGAAACAATA-AAAATATAATTTGCACAAACATATTTTAAAGAA-CTTT
1 TTTATTAAATGAAACAATATAAAA-ATAATTTGTACAAAAATATTCAAAAGAATCTAT
* *
96719039 TTTATTAAATGAAATAGTATAAAAATAATTTGTACAAAAATATTCAAAAGAATTTCTAT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAGAA--TCTAT
* *
96719098 TTTATTAAATGAAACAATATAAAAACAATTTGTACAAATATATTCAAAA
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAA
96719147 ATAAATCAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
56 41 0.44
57 4 0.04
59 48 0.52
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.35
Consensus pattern (57 bp):
TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTCAAAAGAATCTAT
Found at i:96728903 original size:19 final size:20
Alignment explanation
Indices: 96728881--96728928 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
96728871 TTGTATTTGT
*
96728881 TATATTTTA-ATATTGAAAA
1 TATATTTTATATATTCAAAA
* *
96728900 TATAATTTATATATTCAAAT
1 TATATTTTATATATTCAAAA
*
96728920 TAAATTTTA
1 TATATTTTA
96728929 CAAATAATTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (20 bp):
TATATTTTATATATTCAAAA
Found at i:96729533 original size:21 final size:21
Alignment explanation
Indices: 96729507--96729560 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
96729497 CACCGGTGGT
*
96729507 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGATACTGTAGC
96729528 GGTGAGATTAGATACTGTAGC
1 GGTGAGATTAGATACTGTAGC
*
96729549 AGTGAGATTAGA
1 GGTGAGATTAGA
96729561 AACAATGGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGATACTGTAGC
Found at i:96732178 original size:18 final size:17
Alignment explanation
Indices: 96732155--96732198 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
96732145 TATTAAATAA
96732155 AAAAATTAAAAAGTTTAT
1 AAAAATTAAAAAG-TTAT
*
96732173 AAAAATTCTAAAAGTTAT
1 AAAAATT-AAAAAGTTAT
*
96732191 AAAGATTA
1 AAAAATTA
96732199 CTGTTTTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (17 bp):
AAAAATTAAAAAGTTAT
Found at i:96732894 original size:18 final size:19
Alignment explanation
Indices: 96732873--96732912 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
96732863 TTTTCGTATA
96732873 TTATAAAT-TTTAATATTT
1 TTATAAATATTTAATATTT
* *
96732891 TTATAATTATTTACTATTT
1 TTATAAATATTTAATATTT
96732910 TTA
1 TTA
96732913 ATAATTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATAAATATTTAATATTT
Found at i:96732908 original size:19 final size:21
Alignment explanation
Indices: 96732881--96732923 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
96732871 TATTATAAAT
96732881 TTTAATATTTTT-ATAATT-A
1 TTTAATATTTTTAATAATTCA
*
96732900 TTTACTATTTTTAATAATTCA
1 TTTAATATTTTTAATAATTCA
96732921 TTT
1 TTT
96732924 TACAATATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.52
20 6 0.29
21 4 0.19
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTAATATTTTTAATAATTCA
Found at i:96738835 original size:24 final size:23
Alignment explanation
Indices: 96738803--96738848 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
96738793 ATTTATAATA
*
96738803 AATATATTTCATAAATAAAAATTT
1 AATAAATTTCATAAA-AAAAATTT
*
96738827 AATAAATTTTATAAAAAAAATT
1 AATAAATTTCATAAAAAAAATT
96738849 ATATTTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
AATAAATTTCATAAAAAAAATTT
Found at i:96747201 original size:2 final size:2
Alignment explanation
Indices: 96747196--96747226 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
96747186 TAAAAAACTC
*
96747196 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96747227 ACAATTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Done.