Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 42 of 52
Found at i:6857760 original size:25 final size:24
Alignment explanation
Indices: 6857709--6857777 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
6857699 AAAGTTATGA
* *
6857709 ATTTTAAATTTA-TATATATAAAT
1 ATTTTAAATTAACTATAAATAAAT
*
6857732 ATTTTAAATTAACTATTAAATAAGT
1 ATTTTAAATTAACTA-TAAATAAAT
* *
6857757 ATTTAAAATTGACTAATAAAT
1 ATTTTAAATTAACT-ATAAAT
6857778 TTAAAAAATA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
23 11 0.29
24 2 0.05
25 24 0.63
26 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (24 bp):
ATTTTAAATTAACTATAAATAAAT
Found at i:6857953 original size:6 final size:6
Alignment explanation
Indices: 6857942--6858016 Score: 64
Period size: 6 Copynumber: 12.5 Consensus size: 6
6857932 TATATTCATG
* * * *
6857942 TATTTA TATTTA TATTCA TA-TTA TTTTTA TATTT- TATTTT TAATTTT
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA T-ATTTA
* *
6857989 TATATA TATTTA TATTATA TAATTA TAT
1 TATTTA TATTTA TATT-TA TATTTA TAT
6858017 CATATTTAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
5 8 0.14
6 37 0.66
7 11 0.20
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (6 bp):
TATTTA
Found at i:6858007 original size:13 final size:13
Alignment explanation
Indices: 6857932--6858021 Score: 51
Period size: 13 Copynumber: 6.8 Consensus size: 13
6857922 TAAATTTTGA
*
6857932 TATATTCATGTATT
1 TATATT-ATATATT
6857946 TATATT-TATATT
1 TATATTATATATT
*
6857958 CATATTAT-T-TT
1 TATATTATATATT
* *
6857969 TATATTTTATTTT
1 TATATTATATATT
*
6857982 TAATTTTTATATATATT
1 T-A--TAT-TATATATT
*
6857999 TATATTATATAAT
1 TATATTATATATT
*
6858012 TATATCATAT
1 TATATTATAT
6858022 TTAAAATTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
11 8 0.14
12 12 0.20
13 20 0.34
14 9 0.15
16 3 0.05
17 7 0.12
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (13 bp):
TATATTATATATT
Found at i:6859305 original size:23 final size:22
Alignment explanation
Indices: 6859251--6859308 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
6859241 TATTATCTGA
* *
6859251 TAATTATATAAATTTTAAATTT
1 TAATTTTATTAATTTTAAATTT
**
6859273 TGAAAATTATTAATTTTATAATTT
1 T-AATTTTATTAATTTTA-AATTT
6859297 TAATTTTATTAA
1 TAATTTTATTAA
6859309 CATAATATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
22 1 0.04
23 21 0.75
24 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TAATTTTATTAATTTTAAATTT
Found at i:6859335 original size:22 final size:22
Alignment explanation
Indices: 6859293--6859336 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
6859283 TAATTTTATA
6859293 ATTTTAATTTTATTAACATAAT
1 ATTTTAATTTTATTAACATAAT
6859315 ATTTTATATTATT-TTAA-ATAAT
1 ATTTTA-ATT-TTATTAACATAAT
6859337 TATGAATAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 11 0.55
23 7 0.35
24 2 0.10
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTAATTTTATTAACATAAT
Found at i:6860023 original size:23 final size:24
Alignment explanation
Indices: 6859993--6860040 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
6859983 TTTTTTTATT
6859993 TTTTATTAATTATAAA-TA-ATAAA
1 TTTTATT-ATTATAAATTAGATAAA
*
6860016 TTTTATTATTTTAAATTAGATAAA
1 TTTTATTATTATAAATTAGATAAA
6860040 T
1 T
6860041 CGAATTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 9 0.41
24 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTTATTATTATAAATTAGATAAA
Found at i:6860623 original size:21 final size:21
Alignment explanation
Indices: 6860584--6860623 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6860574 TAATTAATAT
* *
6860584 TATTTATTATTTTAATTTTCA
1 TATTTAATATATTAATTTTCA
*
6860605 TATTTAATATATTATTTTT
1 TATTTAATATATTAATTTT
6860624 ATTAAATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTAATATATTAATTTTCA
Found at i:6860888 original size:41 final size:41
Alignment explanation
Indices: 6860831--6860913 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
6860821 GAACCGCGTT
* *
6860831 TCAGGCCACCGGTTCCTAGAAAAATAATATATATATATAAA
1 TCAGGCCACCGGTTCCTAGAAAAATAATATATAAAAATAAA
*
6860872 TCAGGCCACCGTTTCCTAGAAAAATAATATATAAAAATAAA
1 TCAGGCCACCGGTTCCTAGAAAAATAATATATAAAAATAAA
6860913 T
1 T
6860914 AAATAAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.27
Consensus pattern (41 bp):
TCAGGCCACCGGTTCCTAGAAAAATAATATATAAAAATAAA
Found at i:6860921 original size:12 final size:11
Alignment explanation
Indices: 6860891--6860929 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
6860881 CGTTTCCTAG
6860891 AAAAATAATATA
1 AAAAATAA-ATA
6860903 TAAAAATAAATA
1 -AAAAATAAATA
6860915 AATAAATAAATA
1 AA-AAATAAATA
6860927 AAA
1 AAA
6860930 GTCATAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.12
12 14 0.56
13 8 0.32
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:6865649 original size:2 final size:2
Alignment explanation
Indices: 6865632--6865674 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
6865622 TGCTTTATGT
* *
6865632 TA TA TT TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6865674 T
1 T
6865675 TTTGTATTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:6866892 original size:19 final size:18
Alignment explanation
Indices: 6866870--6866913 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 18
6866860 TTTTAATATT
6866870 AATATATTTTAATAATAAA
1 AATATATTTTAA-AATAAA
6866889 AATATA--TTAAAATAAA
1 AATATATTTTAAAATAAA
6866905 AATTATATT
1 AA-TATATT
6866914 AAGTTAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
19 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AATATATTTTAAAATAAA
Found at i:6866911 original size:17 final size:17
Alignment explanation
Indices: 6866873--6866915 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
6866863 TAATATTAAT
*
6866873 ATATTTTAATAATAAAA
1 ATATATTAATAATAAAA
6866890 ATATATTAA-AATAAAA
1 ATATATTAATAATAAAA
6866906 ATTATATTAA
1 A-TATATTAA
6866916 GTTAATTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATATTAATAATAAAA
Found at i:6871200 original size:371 final size:361
Alignment explanation
Indices: 6870636--6871369 Score: 1150
Period size: 370 Copynumber: 2.0 Consensus size: 361
6870626 ATTTTCTATA
*
6870636 ATATGTTAATAATAATATAAATAAAATAGTACTTATTTAATTAACGGTAAAATATTAATTTAAAC
1 ATATGCTAATAATAATATAAATAAAATAGTACTTATTTAATTAACGGTAAAATATTAATTTAAAC
* *
6870701 TTATTGTTTAGTTATTCCTTATATCATTTATCTAACTAAATAATGTAATATTATTACTAATTTAT
66 TTATTGTTTAGTTATTCCTTATATCATTTATCTAACCAAATAATATAATATTATTACTAATTTAT
6870766 TCTATTCAATCAATCAAATTAATTAAAATCTATTACCCCTTAATTTATTTTTACCAAATAATTAT
131 TCTATTCAATCAATCAAATTAATTAAAATCTATTACCCCTTAATTTATTTTTACC--A-AA-TA-
* *
6870831 TTTATTTTCATTTTATTTTTAACATCTAAGTATGCATTTATTGAAAGAG-AAATTGCAAAATCTT
191 ---A--TT-ATTTTATTTTTAACATCTAAATATGCATTTATCGAAAGAGAAAATTGCAAAATCTT
6870895 TACTATAGTTTCCAATACATTAGTGGAAGTCTTTTTCGTTAATTAGTCATTGCTTATAGCTAGTT
250 TACTATAGTTTCCAATACATTAGTGGAAGTCTTTTTCGTTAATTAGTCATTGCTTATAGCTAGTT
** *
6870960 GTGTTAAAAAAATTTCAA-TTAAAAAAA-AAGTATATATACCCTTTGG
315 GTGTT-AAAAAATTTCAACAAAAAAAAAGAAGTAAATATACCCTTTGG
* *
6871006 ATATGCTAATAATAATATAAATAAAATAGTACTTATTTAATTAAGGGTAAAATATTAATTTAAAT
1 ATATGCTAATAATAATATAAATAAAATAGTACTTATTTAATTAACGGTAAAATATTAATTTAAAC
* *
6871071 TTATTGTTTAGTTATTCCTTATATCATTTTATCTAACCAAATAATATAATATTATTATTTATTTA
66 TTATTGTTTAGTTATTCCTTATATCA-TTTATCTAACCAAATAATATAATATTATTACTAATTTA
* ** *
6871136 TTCTATTCGATCAATCAAATTAATTAAAATCTATTACTTCTTAATTTATTTTTACCGAATAATTA
130 TTCTATTCAATCAATCAAATTAATTAAAATCTATTACCCCTTAATTTATTTTTACCAAATAATTA
6871201 TTTTATTTTTAACATCTAAATATGCATTTATCGAAAGAGAAAATTGCAAAATCTTTACTATAGTT
195 TTTTATTTTTAACATCTAAATATGCATTTATCGAAAGAGAAAATTGCAAAATCTTTACTATAGTT
* *
6871266 TCCAATATATTAGTGGTAGTCTTTTTCGTTAATTAGTCATTGCTTATAGCTAGTTGTGTTAAAAA
260 TCCAATACATTAGTGGAAGTCTTTTTCGTTAATTAGTCATTGCTTATAGCTAGTTGTGTTAAAAA
*
6871331 TTTTCAACCAAAAAAAAAGAAGTAAATATACCCTTTGG
325 ATTTCAA-CAAAAAAAAAGAAGTAAATATACCCTTTGG
6871369 A
1 A
6871370 GCAATATTCA
Statistics
Matches: 340, Mismatches: 19, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
360 49 0.14
361 85 0.25
362 7 0.02
363 20 0.06
367 2 0.01
368 2 0.01
370 88 0.26
371 87 0.26
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (361 bp):
ATATGCTAATAATAATATAAATAAAATAGTACTTATTTAATTAACGGTAAAATATTAATTTAAAC
TTATTGTTTAGTTATTCCTTATATCATTTATCTAACCAAATAATATAATATTATTACTAATTTAT
TCTATTCAATCAATCAAATTAATTAAAATCTATTACCCCTTAATTTATTTTTACCAAATAATTAT
TTTATTTTTAACATCTAAATATGCATTTATCGAAAGAGAAAATTGCAAAATCTTTACTATAGTTT
CCAATACATTAGTGGAAGTCTTTTTCGTTAATTAGTCATTGCTTATAGCTAGTTGTGTTAAAAAA
TTTCAACAAAAAAAAAGAAGTAAATATACCCTTTGG
Found at i:6872024 original size:36 final size:33
Alignment explanation
Indices: 6871949--6872012 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
6871939 TATTATAAAT
6871949 TTTCTTCTTAAAAGAAAGAAAATTTTTTTTTAA
1 TTTCTTCTTAAAAGAAAGAAAATTTTTTTTTAA
*
6871982 TTTCTTCTTAAAAGAAAGAAATTTTTTTTTT
1 TTTCTTCTTAAAAGAAAGAAAATTTTTTTTT
6872013 TTGAATTTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (33 bp):
TTTCTTCTTAAAAGAAAGAAAATTTTTTTTTAA
Found at i:6873028 original size:19 final size:20
Alignment explanation
Indices: 6873004--6873059 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 20
6872994 TTAACAAAGC
6873004 ATTAAAATATAATA-ATTTT
1 ATTAAAATATAATATATTTT
6873023 ATTAAAATAATAAAATATTATTTT
1 ATTAAAAT-AT--AATA-TATTTT
*
6873047 ATTAAAAAATAAT
1 ATTAAAATATAAT
6873060 TGTACTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 8 0.26
20 2 0.06
21 3 0.10
22 4 0.13
23 2 0.06
24 12 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
ATTAAAATATAATATATTTT
Found at i:6873409 original size:6 final size:6
Alignment explanation
Indices: 6873400--6873448 Score: 62
Period size: 6 Copynumber: 8.0 Consensus size: 6
6873390 TTTTGTTAAT
* * *
6873400 AATATA AATATA AATATA AATTATT TATATA TATATA AATATA AATATA
1 AATATA AATATA AATATA AA-TATA AATATA AATATA AATATA AATATA
6873449 TTTAATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (6 bp):
AATATA
Found at i:6873435 original size:25 final size:26
Alignment explanation
Indices: 6873401--6873475 Score: 95
Period size: 25 Copynumber: 3.0 Consensus size: 26
6873391 TTTGTTAATA
*
6873401 ATATAAATATAAATATAAAT-TATTT
1 ATATATATATAAATATAAATATATTT
6873426 ATATATATATAAATATAAATATATTT
1 ATATATATATAAATATAAATATATTT
* *
6873452 A-ATATAT-TATAT-TAATTATATTT
1 ATATATATATAAATATAAATATATTT
6873475 A
1 A
6873476 AATAAATAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
23 11 0.24
24 4 0.09
25 25 0.54
26 6 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
ATATATATATAAATATAAATATATTT
Found at i:6873488 original size:38 final size:38
Alignment explanation
Indices: 6873440--6873515 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 38
6873430 ATATATAAAT
6873440 ATAAATATATT-TAATATATTATATTAATTA-TATTTAA
1 ATAAATATATTGT-ATATATTATATTAATTATTATTTAA
* *
6873477 ATAAATAATATTGTATTTATTATATTAGTTATTATTTAA
1 ATAAAT-ATATTGTATATATTATATTAATTATTATTTAA
6873516 TAATATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 6 0.18
38 20 0.59
39 8 0.24
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (38 bp):
ATAAATATATTGTATATATTATATTAATTATTATTTAA
Found at i:6873617 original size:15 final size:17
Alignment explanation
Indices: 6873597--6873633 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
6873587 AATATAAAAA
6873597 TAATTAAATA-ATTT-T
1 TAATTAAATATATTTGT
6873612 TAATT-AATATATTTGT
1 TAATTAAATATATTTGT
6873628 TAATTA
1 TAATTA
6873634 TTATCTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.21
15 9 0.47
16 6 0.32
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TAATTAAATATATTTGT
Found at i:6877588 original size:46 final size:46
Alignment explanation
Indices: 6877518--6877613 Score: 158
Period size: 46 Copynumber: 2.1 Consensus size: 46
6877508 CAATAGAGCT
* *
6877518 TTTATATTTCACAAGTAAGATTAACAAGATAATATATATATATATA
1 TTTATATCTCACAAGTAAGATTAACAAGATAACATATATATATATA
6877564 TTTATATCTCACAAGTAATG-TTAACAAGATAACATATATATATATA
1 TTTATATCTCACAAGTAA-GATTAACAAGATAACATATATATATATA
6877610 TTTA
1 TTTA
6877614 AAAATTAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 46 0.98
47 1 0.02
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (46 bp):
TTTATATCTCACAAGTAAGATTAACAAGATAACATATATATATATA
Found at i:6878790 original size:32 final size:32
Alignment explanation
Indices: 6878751--6878817 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
6878741 CAAATCATTC
** *
6878751 AAAATCAATGTTGAGTGCA-AAAATTCAATAAA
1 AAAATCAAAATTGAGTG-ATAAAATCCAATAAA
*
6878783 AAAATCAAAATTGAGTGATAAAATCCAATTAA
1 AAAATCAAAATTGAGTGATAAAATCCAATAAA
6878815 AAA
1 AAA
6878818 TAAAAGCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 1 0.03
32 29 0.97
ACGTcount: A:0.57, C:0.09, G:0.10, T:0.24
Consensus pattern (32 bp):
AAAATCAAAATTGAGTGATAAAATCCAATAAA
Found at i:6880851 original size:2 final size:2
Alignment explanation
Indices: 6880846--6880882 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6880836 TTAATTAAAA
6880846 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
6880883 GAAAGTAGAA
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:6881483 original size:16 final size:17
Alignment explanation
Indices: 6881462--6881493 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6881452 ATTTTTAAAT
6881462 TTTTGTTA-AAGAATAA
1 TTTTGTTATAAGAATAA
6881478 TTTTGTTATAAGAATA
1 TTTTGTTATAAGAATA
6881494 TTAAACTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (17 bp):
TTTTGTTATAAGAATAA
Found at i:6883031 original size:18 final size:20
Alignment explanation
Indices: 6882988--6883035 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
6882978 ATATTCGTGA
6882988 TTTT-TTTA-TTTAAATAGT
1 TTTTATTTATTTTAAATAGT
*
6883006 TTTAATTTATTTTAAA-A-T
1 TTTTATTTATTTTAAATAGT
6883024 TTTTATTTATTT
1 TTTTATTTATTT
6883036 AATATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 15 0.58
19 5 0.19
20 6 0.23
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTATTTATTTTAAATAGT
Found at i:6883168 original size:24 final size:27
Alignment explanation
Indices: 6883132--6883184 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 27
6883122 AATATATAAA
6883132 TAATTTATCAAT-AT-ATTTTTA-TAT
1 TAATTTATCAATAATAATTTTTATTAT
* *
6883156 TAATTTTTTAATAATAATTTTTATTAT
1 TAATTTATCAATAATAATTTTTATTAT
6883183 TA
1 TA
6883185 TTTCATCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.42
25 2 0.08
26 7 0.29
27 5 0.21
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (27 bp):
TAATTTATCAATAATAATTTTTATTAT
Found at i:6884144 original size:14 final size:13
Alignment explanation
Indices: 6884112--6884150 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
6884102 AATCTAACAT
* *
6884112 TTATTAAAAAAAC
1 TTATCAAAAAAAA
6884125 TTATCAAAATAAAA
1 TTATCAAAA-AAAA
6884139 TTATCAAAAAAA
1 TTATCAAAAAAA
6884151 TTTAGCTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
TTATCAAAAAAAA
Found at i:6885173 original size:2 final size:2
Alignment explanation
Indices: 6885168--6885198 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6885158 TCTCTCTCAC
*
6885168 TA TA TA TA TA TA CA 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
6885199 TGCATTTGAT
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:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6885783 original size:37 final size:37
Alignment explanation
Indices: 6885731--6885810 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 37
6885721 AAAGATTTTG
6885731 CTTTTGGGTTAATATAT-ATATATATATATATATATGT
1 CTTTTGGGTTAATATATAATATATATATATATATAT-T
*
6885768 CTTTTGGGTTTATATATACATATATATATATATATATT
1 CTTTTGGGTTAATATATA-ATATATATATATATATATT
6885806 CTTTT
1 CTTTT
6885811 AAAGGCAGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
37 16 0.40
38 6 0.15
39 18 0.45
ACGTcount: A:0.33, C:0.05, G:0.09, T:0.54
Consensus pattern (37 bp):
CTTTTGGGTTAATATATAATATATATATATATATATT
Found at i:6886981 original size:18 final size:18
Alignment explanation
Indices: 6886958--6886992 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6886948 TTGACGTATT
6886958 TAAATATAATATATTTAA
1 TAAATATAATATATTTAA
*
6886976 TAAATATATTATATTTA
1 TAAATATAATATATTTA
6886993 TATTTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAATATAATATATTTAA
Found at i:6886983 original size:13 final size:15
Alignment explanation
Indices: 6886954--6886985 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
6886944 AAATTTGACG
6886954 TATTTAAATATAATA
1 TATTTAAATATAATA
6886969 TATTT-AATA-AATA
1 TATTTAAATATAATA
6886982 TATT
1 TATT
6886986 ATATTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTTAAATATAATA
Found at i:6887957 original size:19 final size:20
Alignment explanation
Indices: 6887921--6887958 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
6887911 ATATATATAA
6887921 TAAATATAAAAAATATTTTT
1 TAAATATAAAAAATATTTTT
6887941 TAAA-ATAAATAAA-ATTTT
1 TAAATATAAA-AAATATTTT
6887959 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAAATATAAAAAATATTTTT
Found at i:6890895 original size:25 final size:25
Alignment explanation
Indices: 6890861--6890910 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
6890851 TACCGATTGG
6890861 AATGGATTCTTCGAATGTAATGGCC
1 AATGGATTCTTCGAATGTAATGGCC
6890886 AATGGATTCTTCGAATGTAATGGCC
1 AATGGATTCTTCGAATGTAATGGCC
6890911 CTTATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (25 bp):
AATGGATTCTTCGAATGTAATGGCC
Found at i:6894330 original size:2 final size:2
Alignment explanation
Indices: 6894323--6894349 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6894313 TCTTTGTACA
6894323 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
6894350 ATTTGAAAGA
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:6900611 original size:15 final size:16
Alignment explanation
Indices: 6900591--6900625 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
6900581 TATTTTTTAA
6900591 TTAATTTTTTAA-AAT
1 TTAATTTTTTAATAAT
6900606 TTAA-TTTTTAATAAT
1 TTAATTTTTTAATAAT
6900621 TTAAT
1 TTAAT
6900626 AATTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTAATTTTTTAATAAT
Found at i:6900700 original size:21 final size:18
Alignment explanation
Indices: 6900664--6900713 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 18
6900654 AAATAACTTA
6900664 ATATATTTTTTA-ATATT
1 ATATATTTTTTATATATT
*
6900681 -TATA--TTATA-ATATT
1 ATATATTTTTTATATATT
6900695 ATATATTTTTTATATATT
1 ATATATTTTTTATATATT
6900713 A
1 A
6900714 AAAACTACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 9 0.33
15 4 0.15
16 4 0.15
17 4 0.15
18 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATATTTTTTATATATT
Found at i:6900729 original size:21 final size:22
Alignment explanation
Indices: 6900705--6900755 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
6900695 ATATATTTTT
*
6900705 TATATATTAAAAACT-ACA-TAA
1 TATATATTAAAAA-TAAAATTAA
6900726 TATATA-TAAAAATAAAATTAA
1 TATATATTAAAAATAAAATTAA
6900747 TATATATTA
1 TATATATTA
6900756 TATAATGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 8 0.31
21 15 0.58
22 2 0.08
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (22 bp):
TATATATTAAAAATAAAATTAA
Found at i:6900864 original size:17 final size:18
Alignment explanation
Indices: 6900813--6900864 Score: 65
Period size: 17 Copynumber: 3.0 Consensus size: 18
6900803 AAAATAAAAT
6900813 TTTAATTTTTTTAAA-TAA
1 TTTAA-TTTTTTAAATTAA
*
6900831 TTTAATTTTTT-ATTTAA
1 TTTAATTTTTTAAATTAA
6900848 TTT-ATTTTTTAAATTAA
1 TTTAATTTTTTAAATTAA
6900865 AATTTTTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 8 0.27
17 17 0.57
18 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTAATTTTTTAAATTAA
Found at i:6901175 original size:15 final size:15
Alignment explanation
Indices: 6901155--6901185 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6901145 ACCCTTGACA
*
6901155 TAAATTTTTTTAATT
1 TAAATTTATTTAATT
6901170 TAAATTTATTTAATT
1 TAAATTTATTTAATT
6901185 T
1 T
6901186 GATTTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TAAATTTATTTAATT
Found at i:6901256 original size:14 final size:14
Alignment explanation
Indices: 6901236--6901269 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6901226 ATTAATTATA
*
6901236 AAATATATAAATTT
1 AAATATAAAAATTT
*
6901250 TAATATAAAAATTT
1 AAATATAAAAATTT
6901264 AAATAT
1 AAATAT
6901270 TTTAATATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATATAAAAATTT
Found at i:6901260 original size:22 final size:23
Alignment explanation
Indices: 6901227--6901277 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
6901217 TTATTTAAAA
6901227 TTAAT-TATAAAATATATAA-ATT
1 TTAATATATAAAATATA-AATATT
*
6901249 TTAATATA-AAAATTTAAATATT
1 TTAATATATAAAATATAAATATT
6901271 TTAATAT
1 TTAATAT
6901278 TTTTTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAATATATAAAATATAAATATT
Found at i:6901776 original size:14 final size:15
Alignment explanation
Indices: 6901750--6901778 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6901740 TAATTAGTTT
6901750 TTAAAATATAATAAA
1 TTAAAATATAATAAA
6901765 TTAAAA-ATAATAAA
1 TTAAAATATAATAAA
6901779 AAATTATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TTAAAATATAATAAA
Found at i:6902568 original size:21 final size:21
Alignment explanation
Indices: 6902544--6902668 Score: 71
Period size: 21 Copynumber: 5.8 Consensus size: 21
6902534 AAAATTATTT
*
6902544 TATTTAATATTTTAATTTTAA
1 TATTTAATATATTAATTTTAA
** *
6902565 TATTTTTTATATTATTTTTAA
1 TATTTAATATATTAATTTTAA
* *
6902586 TATTATAATATATT-ATACTCAA
1 TATT-TAATATATTAAT-TTTAA
*
6902608 -AATTACATATATT--TTTTAA
1 TATTTA-ATATATTAATTTTAA
6902627 TATTATAATATATT-ATTTTCATA
1 TATT-TAATATATTAATTTT-A-A
*
6902650 TATTTTATATTATATAATT
1 TATTTAATA-TAT-TAATT
6902669 ATATTATACT
Statistics
Matches: 79, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
19 3 0.04
20 12 0.15
21 37 0.47
22 15 0.19
23 8 0.10
24 1 0.01
25 3 0.04
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTTAATATATTAATTTTAA
Found at i:6902650 original size:33 final size:33
Alignment explanation
Indices: 6902613--6902675 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
6902603 CTCAAAATTA
*
6902613 CATATATTTTTTAATATTATAA-TATATTATTTT
1 CATATATTTTATAATA-TATAATTATATTATTTT
*
6902646 CATATATTTTATATTATATAATTATATTAT
1 CATATATTTTATAATATATAATTATATTAT
6902676 ACTCAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 5 0.19
33 22 0.81
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (33 bp):
CATATATTTTATAATATATAATTATATTATTTT
Found at i:6902670 original size:13 final size:14
Alignment explanation
Indices: 6902626--6902676 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
6902616 ATATTTTTTA
6902626 ATATTATAATATATT
1 ATATTAT-ATATATT
* *
6902641 ATTTTCATATATTTT
1 ATATT-ATATATATT
6902656 ATATTATATA-ATT
1 ATATTATATATATT
6902669 ATATTATA
1 ATATTATA
6902677 CTCAAAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 10 0.32
14 5 0.16
15 14 0.45
16 2 0.06
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (14 bp):
ATATTATATATATT
Found at i:6908808 original size:2 final size:2
Alignment explanation
Indices: 6908795--6908828 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
6908785 TGTTAGTATT
*
6908795 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6908829 ACATTTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:6908940 original size:15 final size:15
Alignment explanation
Indices: 6908903--6908950 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
6908893 TGATTAACGT
6908903 ATATAAATTATAA-AA
1 ATATAAATTA-AATAA
6908918 TATGATAAATTAAATAA
1 -AT-ATAAATTAAATAA
*
6908935 ATATAAATTATATAA
1 ATATAAATTAAATAA
6908950 A
1 A
6908951 AAGTTATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 13 0.45
16 6 0.21
17 10 0.34
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
ATATAAATTAAATAA
Found at i:6909989 original size:2 final size:2
Alignment explanation
Indices: 6909982--6910026 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
6909972 GTTTTCTCTT
*
6909982 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6910024 TA T
1 TA T
6910027 GTATTACCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:6910263 original size:19 final size:20
Alignment explanation
Indices: 6910228--6910268 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
6910218 ATGTGTCAAA
*
6910228 TTTTATAAAGT-ATTAAATT
1 TTTTATAAAGTAATAAAATT
6910247 TTTTATAAA-TAAATAAAATT
1 TTTTATAAAGT-AATAAAATT
6910267 TT
1 TT
6910269 AAACATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 1 0.05
19 9 0.47
20 9 0.47
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
TTTTATAAAGTAATAAAATT
Found at i:6910877 original size:2 final size:2
Alignment explanation
Indices: 6910870--6910904 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6910860 GTTTCTTCAA
6910870 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 A
6910905 CTCATTCGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6913547 original size:58 final size:57
Alignment explanation
Indices: 6913485--6913599 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 57
6913475 GGCAGATAAC
6913485 TTATTATCTTTGCAATCACAAATTTTCCCCTTCAACTACTAATATTAATAAGGCACAT
1 TTATTATCTTTGCAATCACAAATTTTCCCCTTCAACTACT-ATATTAATAAGGCACAT
*
6913543 TTATTATCTTTGCAATCACAAATTTTCCCCTTCGACTACTATATTAATAAGGCACAT
1 TTATTATCTTTGCAATCACAAATTTTCCCCTTCAACTACTATATTAATAAGGCACAT
6913600 GAATACAAGT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
57 17 0.30
58 39 0.70
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (57 bp):
TTATTATCTTTGCAATCACAAATTTTCCCCTTCAACTACTATATTAATAAGGCACAT
Found at i:6916116 original size:3 final size:3
Alignment explanation
Indices: 6916103--6916173 Score: 72
Period size: 3 Copynumber: 23.0 Consensus size: 3
6916093 GTTTGTTTAT
* * *
6916103 TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TGTT TTG TAA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
6916149 TTGT TTA TTA TTA TTA TTA TTA TTA
1 TT-A TTA TTA TTA TTA TTA TTA TTA
6916174 CTATAAGTAG
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 1 0.02
3 51 0.88
4 6 0.10
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6916831 original size:25 final size:23
Alignment explanation
Indices: 6916803--6916858 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
6916793 ATTAATATTT
*
6916803 ATATTTAATAT-ATATTTAAATATAA
1 ATATTAAATATAAT-TTTAAA-A-AA
*
6916828 ATATAAAATATAATTTTAAAAAA
1 ATATTAAATATAATTTTAAAAAA
6916851 ATATTAAA
1 ATATTAAA
6916859 AGCACCCGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 9 0.33
24 1 0.04
25 15 0.56
26 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
ATATTAAATATAATTTTAAAAAA
Found at i:6916852 original size:23 final size:26
Alignment explanation
Indices: 6916809--6916859 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
6916799 ATTTATATTT
6916809 AATATATATTTAAATATAAATA-TAA
1 AATATATATTTAAATATAAATATTAA
6916834 AATATA-ATTTTAAA-A-AAATATTAA
1 AATATATA-TTTAAATATAAATATTAA
6916858 AA
1 AA
6916860 GCACCCGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
23 5 0.21
24 7 0.29
25 12 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
AATATATATTTAAATATAAATATTAA
Found at i:6922993 original size:15 final size:17
Alignment explanation
Indices: 6922973--6923008 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
6922963 TAATTTATGT
6922973 AATAAA-TTAAAA-TTA
1 AATAAATTTAAAATTTA
6922988 AATAAATTTAAAATTTA
1 AATAAATTTAAAATTTA
6923005 AATA
1 AATA
6923009 TTAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 6 0.32
17 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AATAAATTTAAAATTTA
Found at i:6923837 original size:25 final size:25
Alignment explanation
Indices: 6923803--6923855 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
6923793 TTTTGGTTTG
6923803 ATTGCTTGAACGCTAAGACAAGCAA
1 ATTGCTTGAACGCTAAGACAAGCAA
6923828 ATTGCTTGAACGCTAAGACAAGCAA
1 ATTGCTTGAACGCTAAGACAAGCAA
6923853 ATT
1 ATT
6923856 TTACTAGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (25 bp):
ATTGCTTGAACGCTAAGACAAGCAA
Found at i:6924035 original size:16 final size:16
Alignment explanation
Indices: 6923973--6924038 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
6923963 AATAAATTTA
*
6923973 ATAATATTAGATATAATT
1 ATAATA-TA-ATATAAAT
6923991 AT-ATA-AATAT-AAT
1 ATAATATAATATAAAT
* *
6924004 AAAAAATAAT-TAAAAT
1 ATAATATAATAT-AAAT
6924020 ATAATATAATATAAAT
1 ATAATATAATATAAAT
6924036 ATA
1 ATA
6924039 TTAATATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
13 3 0.08
14 7 0.18
15 4 0.11
16 18 0.47
17 4 0.11
18 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
ATAATATAATATAAAT
Found at i:6924574 original size:25 final size:25
Alignment explanation
Indices: 6924528--6924575 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
6924518 AATTTATTTT
* *
6924528 ATTATTTAAAAATAATTTTAAATTA
1 ATTATTTAAAAATAAATATAAATTA
* *
6924553 ATTATTTATAATTAAATATAAAT
1 ATTATTTAAAAATAAATATAAAT
6924576 AAAAATAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTATTTAAAAATAAATATAAATTA
Found at i:6925102 original size:21 final size:22
Alignment explanation
Indices: 6925078--6925121 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6925068 TATTAATAAA
*
6925078 ACATATTTTA-TTTATATGTTT
1 ACATATTTAATTTTATATGTTT
*
6925099 ACATATTTAATTTTATATTTTT
1 ACATATTTAATTTTATATGTTT
6925121 A
1 A
6925122 TCTTTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (22 bp):
ACATATTTAATTTTATATGTTT
Found at i:6925606 original size:30 final size:29
Alignment explanation
Indices: 6925562--6925621 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 29
6925552 GATAAAAATT
*
6925562 TTATATAAATATAAAATATTTTAAATATAA
1 TTATATAAATATAAAATA-TATAAATATAA
6925592 TTATAATAAA-ATAAAATATATAAATATAA
1 TTAT-ATAAATATAAAATATATAAATATAA
6925621 T
1 T
6925622 ATGAATATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 11 0.39
30 12 0.43
31 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
TTATATAAATATAAAATATATAAATATAA
Found at i:6925611 original size:15 final size:15
Alignment explanation
Indices: 6925563--6925620 Score: 66
Period size: 15 Copynumber: 3.9 Consensus size: 15
6925553 ATAAAAATTT
6925563 TATATAAATATAAAA
1 TATATAAATATAAAA
* *
6925578 TATTTTAAATAT-AAT
1 TA-TATAAATATAAAA
6925593 TATAATAAA-ATAAAA
1 TAT-ATAAATATAAAA
6925608 TATATAAATATAA
1 TATATAAATATAA
6925621 TATGAATATG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 8 0.23
15 19 0.54
16 8 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TATATAAATATAAAA
Found at i:6929608 original size:41 final size:41
Alignment explanation
Indices: 6929551--6929634 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
6929541 AACCCCCTCT
6929551 TAGGCATTGTTTGATTATTAATATATATATATATATATATA
1 TAGGCATTGTTTGATTATTAATATATATATATATATATATA
6929592 TAGGCATTGTTTGATTATTAATATATATATATATATATATA
1 TAGGCATTGTTTGATTATTAATATATATATATATATATATA
6929633 TA
1 TA
6929635 TATATATATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.39, C:0.02, G:0.10, T:0.49
Consensus pattern (41 bp):
TAGGCATTGTTTGATTATTAATATATATATATATATATATA
Found at i:6929619 original size:2 final size:2
Alignment explanation
Indices: 6929612--6929650 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6929602 TTGATTATTA
6929612 AT 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 AT A
6929651 ATGTTTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6931706 original size:29 final size:31
Alignment explanation
Indices: 6931680--6931741 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
6931670 TATGTTTTTA
6931680 TTAAATCTAAAAAAGTTCTTAC-CTTTTAAT
1 TTAAATCTAAAAAAGTTCTTACTCTTTTAAT
* * *
6931710 TTATATCTAAATAAGTTTTTACTC-TTTAAT
1 TTAAATCTAAAAAAGTTCTTACTCTTTTAAT
6931740 TT
1 TT
6931742 GTAACTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.50
Consensus pattern (31 bp):
TTAAATCTAAAAAAGTTCTTACTCTTTTAAT
Found at i:6932212 original size:18 final size:18
Alignment explanation
Indices: 6932189--6932225 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6932179 GGTAACACAA
6932189 CAACATC-TCCTTCCTCAT
1 CAACATCTTCC-TCCTCAT
6932207 CAACATCTTCCTCCTCAT
1 CAACATCTTCCTCCTCAT
6932225 C
1 C
6932226 CGATTCATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.22, C:0.46, G:0.00, T:0.32
Consensus pattern (18 bp):
CAACATCTTCCTCCTCAT
Found at i:6934779 original size:12 final size:12
Alignment explanation
Indices: 6934753--6934817 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
6934743 TATATTTATT
6934753 TAAAT-TTAATAA
1 TAAATATTAAT-A
6934765 TAAATATTAATA
1 TAAATATTAATA
* * *
6934777 TAAAAATAAATT
1 TAAATATTAATA
* * *
6934789 TTAATATTATTT
1 TAAATATTAATA
*
6934801 TAAATAATAATA
1 TAAATATTAATA
6934813 TAAAT
1 TAAAT
6934818 TTTGAACTCT
Statistics
Matches: 41, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
12 36 0.88
13 5 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TAAATATTAATA
Found at i:6935269 original size:3 final size:3
Alignment explanation
Indices: 6935261--6935301 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
6935251 GTTCTAAGAA
6935261 AAT AAT AAT 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
6935302 AATTAAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6936667 original size:30 final size:30
Alignment explanation
Indices: 6936633--6936693 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
6936623 ATTTAATTTG
* *
6936633 ATTTAATTTTAATTA-ATAAAAATTATTTTT
1 ATTTAAATTTAATTATAT-AAAATAATTTTT
6936663 ATTTAAATTTAATTATATAAAATAATTTTT
1 ATTTAAATTTAATTATATAAAATAATTTTT
6936693 A
1 A
6936694 ATATTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 26 0.93
31 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
ATTTAAATTTAATTATATAAAATAATTTTT
Found at i:6938001 original size:15 final size:15
Alignment explanation
Indices: 6937967--6938011 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
6937957 AAAATTATTT
* *
6937967 ATTTAATATTTAAAT
1 ATTTAATAATTAAAA
*
6937982 TTTTAATAATTAAAA
1 ATTTAATAATTAAAA
6937997 ATTTAACTAATTAAA
1 ATTTAA-TAATTAAA
6938012 TTAATTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 17 0.68
16 8 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTAATAATTAAAA
Found at i:6939944 original size:17 final size:18
Alignment explanation
Indices: 6939922--6939955 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6939912 AATAAAGGTT
6939922 CTTCGTGCAGT-ATCATG
1 CTTCGTGCAGTCATCATG
6939939 CTTCGTGCAGTCATCAT
1 CTTCGTGCAGTCATCAT
6939956 TAATTCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (18 bp):
CTTCGTGCAGTCATCATG
Found at i:6941254 original size:22 final size:22
Alignment explanation
Indices: 6941226--6941270 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
6941216 TAAGGTATGT
*
6941226 GGAATTTCAAACAGGCCACTTA
1 GGAATTTCAAACAGGCAACTTA
6941248 GGAATTTCAAACAGGCAACTTA
1 GGAATTTCAAACAGGCAACTTA
6941270 G
1 G
6941271 TTGTATGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (22 bp):
GGAATTTCAAACAGGCAACTTA
Found at i:6941777 original size:3 final size:3
Alignment explanation
Indices: 6941764--6941812 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
6941754 GCAAAGGGTG
* * * *
6941764 ATT ACT ATT ATT ATT AAT ATT ATT AATA ATT ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT
6941810 ATT
1 ATT
6941813 TGTTGTCTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
3 35 0.95
4 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:6947921 original size:13 final size:13
Alignment explanation
Indices: 6947905--6947929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6947895 AATTATATAA
6947905 TAAAATTCAATTT
1 TAAAATTCAATTT
6947918 TAAAATTCAATT
1 TAAAATTCAATT
6947930 AAGCATATTA
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:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATTCAATTT
Found at i:6951075 original size:33 final size:32
Alignment explanation
Indices: 6950991--6951089 Score: 94
Period size: 32 Copynumber: 2.9 Consensus size: 32
6950981 ATTTTACGAT
*
6950991 CATATTTAAATTATTATATATTTATATAAATTTTAA
1 CATATTT-AATT-TT-TATA-TTATATAATTTTTAA
*
6951027 TATATTAGTAA--TTTATATTATATAATTTTTAA
1 CATATT--TAATTTTTATATTATATAATTTTTAA
6951059 CATATTTACATTTTTATATTATATATATTTT
1 CATATTTA-ATTTTTATATTATATA-ATTTT
6951090 ATAATGTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
30 2 0.04
31 1 0.02
32 19 0.35
33 17 0.31
34 7 0.13
36 5 0.09
37 2 0.04
38 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (32 bp):
CATATTTAATTTTTATATTATATAATTTTTAA
Found at i:6951088 original size:17 final size:16
Alignment explanation
Indices: 6951038--6951089 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
6951028 ATATTAGTAA
6951038 TTTATATTATATAATT
1 TTTATATTATATAATT
* *
6951054 TTTA-ACATATTTACATT
1 TTTATA-TTATATA-ATT
6951071 TTTATATTATATATATT
1 TTTATATTATATA-ATT
6951088 TT
1 TT
6951090 ATAATGTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 1 0.04
16 9 0.32
17 17 0.61
18 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTATATTATATAATT
Found at i:6951090 original size:33 final size:32
Alignment explanation
Indices: 6950976--6951090 Score: 92
Period size: 33 Copynumber: 3.3 Consensus size: 32
6950966 TTTAGATATG
6950976 TATATATTTTACGATCATATTTAAATTATTATATATTTA
1 TATATATTTTA--A-CATATTT-AATT-TT-TATA-TTA
* *
6951015 TATAAATTTTAATATATTAGTAA--TTTATATTA
1 TATATATTTTAACATATT--TAATTTTTATATTA
6951047 TATA-ATTTTTAACATATTTACATTTTTATATTA
1 TATATA-TTTTAACATATTTA-ATTTTTATATTA
6951080 TATATATTTTA
1 TATATATTTTA
6951091 TAATGTTTAA
Statistics
Matches: 66, Mismatches: 3, Indels: 20
0.74 0.03 0.22
Matches are distributed among these distances:
30 2 0.03
31 2 0.03
32 18 0.27
33 22 0.33
34 3 0.05
36 5 0.08
37 3 0.05
38 1 0.02
39 10 0.15
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (32 bp):
TATATATTTTAACATATTTAATTTTTATATTA
Found at i:6951613 original size:14 final size:14
Alignment explanation
Indices: 6951594--6951625 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
6951584 ATAATTTCAG
6951594 ATATGATTATATTA
1 ATATGATTATATTA
6951608 ATATGATTATATTA
1 ATATGATTATATTA
6951622 ATAT
1 ATAT
6951626 AATGCGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (14 bp):
ATATGATTATATTA
Found at i:6951693 original size:33 final size:32
Alignment explanation
Indices: 6951638--6951728 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 32
6951628 TGCGTATGAA
*
6951638 ATATTAAAATATAATATAATATAACACGAAT-AT
1 ATATTAAAAT-TTATATAATATAA-ACGAATAAT
* * *
6951671 ATTTTTAAAATTTATATAATATAAATGATTAAT
1 A-TATTAAAATTTATATAATATAAACGAATAAT
6951704 ATATTAAAATTTATATAAATATAAA
1 ATATTAAAATTTATAT-AATATAAA
6951729 AAATTTTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
32 18 0.36
33 24 0.48
34 8 0.16
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (32 bp):
ATATTAAAATTTATATAATATAAACGAATAAT
Found at i:6951725 original size:18 final size:17
Alignment explanation
Indices: 6951676--6951729 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
6951666 AATATATTTT
6951676 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
*
6951692 T-AAA-TGAT-TAATATA
1 TAAAATTTATATAA-ATA
6951707 TTAAAATTTATATAAATA
1 -TAAAATTTATATAAATA
6951725 TAAAA
1 TAAAA
6951730 AATTTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 11
0.70 0.05 0.26
Matches are distributed among these distances:
13 1 0.03
14 4 0.13
15 6 0.20
16 2 0.07
17 8 0.27
18 6 0.20
19 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:6952056 original size:27 final size:24
Alignment explanation
Indices: 6952026--6952075 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
6952016 ATTTATTTAA
6952026 ATTTAATTATAAATATATAAAAATAAT
1 ATTTAA-TA-AAATA-ATAAAAATAAT
*
6952053 ATTTAATAATATAATAAAAATAA
1 ATTTAATAAAATAATAAAAATAA
6952076 AAAAATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 4 0.18
26 2 0.09
27 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATTTAATAAAATAATAAAAATAAT
Found at i:6953524 original size:32 final size:33
Alignment explanation
Indices: 6953467--6953551 Score: 109
Period size: 32 Copynumber: 2.5 Consensus size: 33
6953457 TATTCGTATT
* *
6953467 CATATTTAAAATATTATATATTTATATGAATTTTGA
1 CATA-TTAATATATT-TAT-TTTATATAAATTTTGA
6953503 CATATTAATA-ATTTATTTTATATAAATTTTGA
1 CATATTAATATATTTATTTTATATAAATTTTGA
*
6953535 CATTTTAATATATTTAT
1 CATATTAATATATTTAT
6953552 ATTAATTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
32 24 0.53
33 9 0.20
34 3 0.07
35 5 0.11
36 4 0.09
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (33 bp):
CATATTAATATATTTATTTTATATAAATTTTGA
Found at i:6958908 original size:27 final size:27
Alignment explanation
Indices: 6958877--6958954 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
6958867 CAAAGCCACC
*
6958877 CTTTGTGTTTGTCAAAAATGGTGGTTA
1 CTTTGTGTTTGTCAAAAATAGTGGTTA
* * * * *
6958904 CTTTGTATTTATAAAAAATAATGGTTC
1 CTTTGTGTTTGTCAAAAATAGTGGTTA
* *
6958931 CTTTTTGTTTGTCAAAAATTGTGG
1 CTTTGTGTTTGTCAAAAATAGTGG
6958955 CTTGTTGTTT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.27, C:0.08, G:0.19, T:0.46
Consensus pattern (27 bp):
CTTTGTGTTTGTCAAAAATAGTGGTTA
Found at i:6959514 original size:30 final size:30
Alignment explanation
Indices: 6959478--6959541 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
6959468 AATCTCCGAC
*
6959478 GCAGGCATCCCAGAGCCG-GCCATCCCGGTG
1 GCAGGCATCCCAGAGCCGAG-CATCCCGGAG
* * *
6959508 GCAGGCATTCCGGAGTCGAGCATCCCGGAG
1 GCAGGCATCCCAGAGCCGAGCATCCCGGAG
6959538 GCAG
1 GCAG
6959542 CAGGGATCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.34, G:0.36, T:0.11
Consensus pattern (30 bp):
GCAGGCATCCCAGAGCCGAGCATCCCGGAG
Found at i:6960105 original size:2 final size:2
Alignment explanation
Indices: 6960098--6960141 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
6960088 TGGATCTATT
6960098 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6960140 TA
1 TA
6960142 AAGGGGTCGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6960492 original size:14 final size:13
Alignment explanation
Indices: 6960473--6960517 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
6960463 TTTACTTAAT
6960473 AATTAATAATAATA
1 AATTAATAATAA-A
6960487 AATTAATTAATAAA
1 AATTAA-TAATAAA
*
6960501 AATATAAAAATAAA
1 AAT-TAATAATAAA
6960515 AAT
1 AAT
6960518 ATTTTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 19 0.68
15 9 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AATTAATAATAAA
Found at i:6960672 original size:30 final size:30
Alignment explanation
Indices: 6960614--6960684 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
6960604 AATATATTCG
6960614 TATTTTTTT-TAATAATTTTTATTGTATTT
1 TATTTTTTTATAATAATTTTTATTGTATTT
*
6960643 ATATTTTTTTATAAT-ATTATTT-TTTTATTT
1 -TATTTTTTTATAATAATT-TTTATTGTATTT
6960673 T-TTATTTTTATA
1 TATT-TTTTTATA
6960685 CAAATATAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
28 2 0.05
29 9 0.24
30 19 0.51
31 7 0.19
ACGTcount: A:0.25, C:0.00, G:0.01, T:0.73
Consensus pattern (30 bp):
TATTTTTTTATAATAATTTTTATTGTATTT
Found at i:6960679 original size:31 final size:30
Alignment explanation
Indices: 6960614--6960681 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
6960604 AATATATTCG
*
6960614 TATTTTTTTTAATAATTTTTATTGTATTTA
1 TATTTTTTTTAATAATTTTTATTATATTTA
*
6960644 TATTTTTTTATAATATTATTTTT-TTAT-TTTT
1 TATTTTTTT-TAATA--ATTTTTATTATATTTA
6960675 TATTTTT
1 TATTTTT
6960682 ATACAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 9 0.27
31 15 0.45
32 3 0.09
33 6 0.18
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.75
Consensus pattern (30 bp):
TATTTTTTTTAATAATTTTTATTATATTTA
Found at i:6962481 original size:2 final size:2
Alignment explanation
Indices: 6962474--6962499 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6962464 TGGATCTATT
6962474 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
6962500 AAGGGGTCGC
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:6963030 original size:30 final size:30
Alignment explanation
Indices: 6962972--6963042 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
6962962 AATATATTCG
6962972 TATTTTTTT-TAATAATTTTTATTGTATTT
1 TATTTTTTTATAATAATTTTTATTGTATTT
*
6963001 ATATTTTTTTATAAT-ATTATTT-TTTTATTT
1 -TATTTTTTTATAATAATT-TTTATTGTATTT
6963031 T-TTATTTTTATA
1 TATT-TTTTTATA
6963043 CAAATATAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
28 2 0.05
29 9 0.24
30 19 0.51
31 7 0.19
ACGTcount: A:0.25, C:0.00, G:0.01, T:0.73
Consensus pattern (30 bp):
TATTTTTTTATAATAATTTTTATTGTATTT
Found at i:6963037 original size:31 final size:30
Alignment explanation
Indices: 6962972--6963039 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 30
6962962 AATATATTCG
*
6962972 TATTTTTTTTAATAATTTTTATTGTATTTA
1 TATTTTTTTTAATAATTTTTATTATATTTA
*
6963002 TATTTTTTTATAATATTATTTTT-TTAT-TTTT
1 TATTTTTTT-TAATA--ATTTTTATTATATTTA
6963033 TATTTTT
1 TATTTTT
6963040 ATACAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
30 9 0.27
31 15 0.45
32 3 0.09
33 6 0.18
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.75
Consensus pattern (30 bp):
TATTTTTTTTAATAATTTTTATTATATTTA
Found at i:6964847 original size:2 final size:2
Alignment explanation
Indices: 6964830--6964870 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
6964820 ATTTTTAATA
* *
6964830 AT AT GT AT AA AT AT AT AT AT AT AT AT AT AT AT -T 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
6964871 GTAAAGGAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6965316 original size:39 final size:39
Alignment explanation
Indices: 6965228--6965307 Score: 110
Period size: 37 Copynumber: 2.1 Consensus size: 39
6965218 AAATTAATTA
* *
6965228 ATAAAAATATAAAAAATAAAATTATTTTTATTTTTATTTT
1 ATAAAAA-ATTAAAAATAAAATTATTTTTATATTTATTTT
*
6965268 ATAAAAAATTAAAATTAAAA-TA-TTTTATATTTATTTT
1 ATAAAAAATTAAAAATAAAATTATTTTTATATTTATTTT
6965305 ATA
1 ATA
6965308 TGTAAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 17 0.46
38 2 0.05
39 11 0.30
40 7 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (39 bp):
ATAAAAAATTAAAAATAAAATTATTTTTATATTTATTTT
Found at i:6967382 original size:10 final size:9
Alignment explanation
Indices: 6967369--6967407 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
6967359 TTATAATCAT
6967369 TTTTAATATA
1 TTTT-ATATA
6967379 TTTTATAT-
1 TTTTATATA
6967387 TTTTATATA
1 TTTTATATA
6967396 TTTTAATATA
1 TTTT-ATATA
6967406 TT
1 TT
6967408 AATAATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 8 0.30
9 8 0.30
10 11 0.41
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTATATA
Found at i:6967389 original size:17 final size:18
Alignment explanation
Indices: 6967369--6967415 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
6967359 TTATAATCAT
6967369 TTTTAATATATTTT-ATA
1 TTTTAATATATTTTAATA
*
6967386 TTTTTATATATTTTAATA
1 TTTTAATATATTTTAATA
*
6967404 TATTAATA-ATTT
1 TTTTAATATATTT
6967416 ATGTTATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAATATATTTTAATA
Found at i:6967399 original size:27 final size:28
Alignment explanation
Indices: 6967327--6967407 Score: 103
Period size: 27 Copynumber: 2.9 Consensus size: 28
6967317 AATAATGTAC
*
6967327 ATATTTATATCATATTTATAATATATTTT
1 ATATTTTTATCATATTT-TAATATATTTT
* * *
6967356 ATGTTATAATCAT-TTTTAATATATTTT
1 ATATTTTTATCATATTTTAATATATTTT
6967383 ATATTTTTAT-ATATTTTAATATATT
1 ATATTTTTATCATATTTTAATATATT
6967408 AATAATTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.05
27 30 0.68
28 3 0.07
29 9 0.20
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (28 bp):
ATATTTTTATCATATTTTAATATATTTT
Found at i:6970112 original size:15 final size:16
Alignment explanation
Indices: 6970092--6970122 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
6970082 TTAGATCATA
6970092 TTTTTTTC-TTTTTTT
1 TTTTTTTCATTTTTTT
6970107 TTTTTTTCATTTTTTT
1 TTTTTTTCATTTTTTT
6970123 CATTTCCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.90
Consensus pattern (16 bp):
TTTTTTTCATTTTTTT
Found at i:6970119 original size:9 final size:9
Alignment explanation
Indices: 6970091--6970127 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
6970081 CTTAGATCAT
6970091 ATTTTTTTC
1 ATTTTTTTC
6970100 -TTTTTTT-
1 ATTTTTTTC
6970107 -TTTTTTTC
1 ATTTTTTTC
6970115 ATTTTTTTC
1 ATTTTTTTC
6970124 ATTT
1 ATTT
6970128 CCTCATTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 7 0.27
8 7 0.27
9 12 0.46
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (9 bp):
ATTTTTTTC
Found at i:6971730 original size:23 final size:25
Alignment explanation
Indices: 6971704--6971760 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
6971694 TTTAAAAAAT
6971704 TTAATATAA-CATATCAT-TTAATA
1 TTAATATAATCATATCATATTAATA
* *
6971727 TTAATA-AATTATATCATATTAATT
1 TTAATATAATCATATCATATTAATA
*
6971751 TTTATATAAT
1 TTAATATAAT
6971761 ATAATATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 2 0.07
23 13 0.46
24 10 0.36
25 3 0.11
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (25 bp):
TTAATATAATCATATCATATTAATA
Found at i:6974000 original size:18 final size:18
Alignment explanation
Indices: 6973957--6974005 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
6973947 TTTATCCAAG
*
6973957 AAGCAGCAAAGCTGCTAC
1 AAGCAGCAAAGCTGCAAC
*
6973975 AAGTAGCAAAGCTGCAAC
1 AAGCAGCAAAGCTGCAAC
* *
6973993 ATGCAGCATAGCT
1 AAGCAGCAAAGCT
6974006 ACAAACATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.14
Consensus pattern (18 bp):
AAGCAGCAAAGCTGCAAC
Found at i:6977536 original size:2 final size:2
Alignment explanation
Indices: 6977529--6977580 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
6977519 GGATTAAGTC
* *
6977529 AT AT AT AT AT AT AT AT AT AT AT GT 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 AT AT AT AT AT
6977571 AT AT AT AT AT
1 AT AT AT AT AT
6977581 GTGTGTGGCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6978322 original size:2 final size:2
Alignment explanation
Indices: 6978315--6978347 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6978305 ATTCCAACAC
6978315 TA 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 TA T
6978348 TTGCATTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6978881 original size:14 final size:13
Alignment explanation
Indices: 6978854--6978900 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
6978844 TCATTCAATG
6978854 ATTTAAAT-TATT
1 ATTTAAATATATT
6978866 ATTTAAAATATATT
1 ATTT-AAATATATT
* *
6978880 ATATAAATA-ATA
1 ATTTAAATATATT
6978892 ATTTAAATA
1 ATTTAAATA
6978901 AAATCAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 14 0.47
13 9 0.30
14 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTTAAATATATT
Found at i:6980206 original size:18 final size:18
Alignment explanation
Indices: 6980165--6980206 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
6980155 CGTAATTGTA
6980165 TAATATTTATAATATAATT
1 TAATA-TTATAATATAATT
6980184 T-ATATTATAAT-TATATT
1 TAATATTATAATATA-ATT
6980201 TAATAT
1 TAATAT
6980207 GTTTTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.10
17 11 0.52
18 7 0.33
19 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATATTATAATATAATT
Found at i:6983286 original size:16 final size:16
Alignment explanation
Indices: 6983265--6983308 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
6983255 TCCTAGACCA
6983265 TTCTTTTTTTTCTTCT
1 TTCTTTTTTTTCTTCT
6983281 TTCTTTCTTTTT-TTCT
1 TTCTTT-TTTTTCTTCT
* *
6983297 TCCTTTCTTTTC
1 TTCTTTTTTTTC
6983309 ATATCCTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 4 0.17
16 15 0.62
17 5 0.21
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTCTTTTTTTTCTTCT
Found at i:6983290 original size:20 final size:20
Alignment explanation
Indices: 6983269--6983306 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
6983259 AGACCATTCT
6983269 TTTTTTTCTT-CTTTCTTTC
1 TTTTTTTCTTCCTTTCTTTC
6983288 TTTTTTTCTTCCTTTCTTT
1 TTTTTTTCTTCCTTTCTTT
6983307 TCATATCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTTTTTCTTCCTTTCTTTC
Found at i:6986211 original size:13 final size:14
Alignment explanation
Indices: 6986185--6986223 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
6986175 TCAAATTTTT
*
6986185 TATTTTTATTAATTA
1 TATTTTTA-AAATTA
6986200 T-TTTTTAAAATTA
1 TATTTTTAAAATTA
6986213 TATTTTTAAAA
1 TATTTTTAAAA
6986224 ATTTTCAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 6 0.27
14 15 0.68
15 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTTTTAAAATTA
Found at i:6986299 original size:14 final size:15
Alignment explanation
Indices: 6986280--6986314 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
6986270 AAAAATTTTT
6986280 TTTTTTAATTTT-AA
1 TTTTTTAATTTTAAA
*
6986294 TTTTTTTATTTTAAA
1 TTTTTTAATTTTAAA
6986309 TTTTTT
1 TTTTTT
6986315 TTATTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTAATTTTAAA
Found at i:6986299 original size:16 final size:15
Alignment explanation
Indices: 6986278--6986322 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 15
6986268 TAAAAAATTT
6986278 TTTTTTTTAATTTTAA
1 TTTTTTTT-ATTTTAA
6986294 -TTTTTTTATTTTAAA
1 TTTTTTTTATTTT-AA
6986309 TTTTTTTTATTTTA
1 TTTTTTTTATTTTA
6986323 TAACGATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 10 0.37
16 12 0.44
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTTTATTTTAA
Found at i:6987013 original size:18 final size:16
Alignment explanation
Indices: 6986976--6987032 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 16
6986966 TGTTATAATC
* *
6986976 ATATTTAATATTTTTT
1 ATATTTAATAATTTTA
6986992 ATATTTATATAAATTTTA
1 ATATTTA-AT-AATTTTA
6987010 ATATGTTAATAATTTATA
1 ATAT-TTAATAATTT-TA
6987028 ATATT
1 ATATT
6987033 AGATTTTGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 7 0.20
17 8 0.23
18 17 0.49
19 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
ATATTTAATAATTTTA
Found at i:6990169 original size:12 final size:12
Alignment explanation
Indices: 6990148--6990187 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
6990138 TCTTAAGCTA
*
6990148 TCTTTTTTTTTT
1 TCTTTCTTTTTT
6990160 TCTTTCTTTTTT
1 TCTTTCTTTTTT
*
6990172 TTTTTCTTTTTT
1 TCTTTCTTTTTT
6990184 TCTT
1 TCTT
6990188 CTCCTTTCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TCTTTCTTTTTT
Found at i:6990169 original size:16 final size:16
Alignment explanation
Indices: 6990148--6990184 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
6990138 TCTTAAGCTA
6990148 TCTTTTTTTTTTTCTT
1 TCTTTTTTTTTTTCTT
6990164 TCTTTTTTTTTTTCTT
1 TCTTTTTTTTTTTCTT
6990180 T-TTTT
1 TCTTTT
6990185 CTTCTCCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (16 bp):
TCTTTTTTTTTTTCTT
Found at i:6990946 original size:15 final size:16
Alignment explanation
Indices: 6990926--6990958 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
6990916 ATTATTAGAT
6990926 CAAATTTGATAT-TTA
1 CAAATTTGATATATTA
6990941 CAAATTTGATATATTA
1 CAAATTTGATATATTA
6990957 CA
1 CA
6990959 TTAACCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.42
Consensus pattern (16 bp):
CAAATTTGATATATTA
Found at i:6991141 original size:13 final size:13
Alignment explanation
Indices: 6991123--6991147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6991113 TTTTTATATT
6991123 ATTGATATTTATG
1 ATTGATATTTATG
6991136 ATTGATATTTAT
1 ATTGATATTTAT
6991148 TAAAATAACT
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:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
ATTGATATTTATG
Found at i:6993064 original size:24 final size:24
Alignment explanation
Indices: 6993030--6993082 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
6993020 TAAAAGATAA
6993030 AAAAAATTTAAAATAATTTTAAAAT
1 AAAAAATTTAAAAT-ATTTTAAAAT
* *
6993055 AAAAAA-TTAATATTTTTTAAAAT
1 AAAAAATTTAAAATATTTTAAAAT
*
6993078 TAAAA
1 AAAAA
6993083 GTTTTGAGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.52
24 6 0.24
25 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAAAATTTAAAATATTTTAAAAT
Found at i:6993731 original size:2 final size:2
Alignment explanation
Indices: 6993724--6993753 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6993714 AACAATAGTT
6993724 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6993754 GGGGATAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6996740 original size:31 final size:31
Alignment explanation
Indices: 6996642--6996795 Score: 123
Period size: 31 Copynumber: 5.0 Consensus size: 31
6996632 CGATTTAAAA
* * *
6996642 CAAAAACTACTATTCTTATCTGGTGACATGG
1 CAAAAACTACTATTCTTATCCGGTGGCACGG
* * * **
6996673 TAAAAA-TCACTGTTCTTATCTGGTGGCATAG
1 CAAAAACT-ACTATTCTTATCCGGTGGCACGG
* *
6996704 AAAAAACTACTATTCTTATCCGGTGGCGCGG
1 CAAAAACTACTATTCTTATCCGGTGGCACGG
* * **
6996735 CAAAAA-TCACTATTTTTATTCGGTGATACGG
1 CAAAAACT-ACTATTCTTATCCGGTGGCACGG
* * *
6996766 CAAAAACCATTATTCTTAACCGGTGGCACG
1 CAAAAACTACTATTCTTATCCGGTGGCACG
6996796 ATTTGAAATC
Statistics
Matches: 96, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
30 2 0.02
31 93 0.97
32 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (31 bp):
CAAAAACTACTATTCTTATCCGGTGGCACGG
Found at i:6996771 original size:62 final size:62
Alignment explanation
Indices: 6996642--6996795 Score: 161
Period size: 62 Copynumber: 2.5 Consensus size: 62
6996632 CGATTTAAAA
* * * * *
6996642 CAAAAACTACTATTCTTATCTGGTGACATGGTAAAAATCACTGTTCTTATCTGGTGGCATAG
1 CAAAAACTACTATTCTTATCCGGTGGCACGGCAAAAATCACTATTCTTATCTGGTGGCATAG
* * *
6996704 AAAAAACTACTATTCTTATCCGGTGGCGCGGCAAAAATCACTATTTTTAT-TCGGT-G-ATACGG
1 CAAAAACTACTATTCTTATCCGGTGGCACGGCAAAAATCACTATTCTTATCT-GGTGGCATA--G
* * *
6996766 CAAAAACCATTATTCTTAACCGGTGGCACG
1 CAAAAACTACTATTCTTATCCGGTGGCACG
6996796 ATTTGAAATC
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
60 3 0.04
61 2 0.03
62 71 0.93
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (62 bp):
CAAAAACTACTATTCTTATCCGGTGGCACGGCAAAAATCACTATTCTTATCTGGTGGCATAG
Found at i:6997655 original size:14 final size:16
Alignment explanation
Indices: 6997630--6997661 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6997620 AAAATATTAC
6997630 TACTATAAAATA-ATT
1 TACTATAAAATATATT
6997645 TACTA-AAAATATATT
1 TACTATAAAATATATT
6997660 TA
1 TA
6997662 TTATGTCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TACTATAAAATATATT
Found at i:6999156 original size:2 final size:2
Alignment explanation
Indices: 6999149--6999195 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
6999139 CCAACCCACA
*
6999149 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6999191 AT AT A
1 AT AT A
6999196 ATTTCGTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6999513 original size:18 final size:18
Alignment explanation
Indices: 6999490--6999524 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6999480 TCGTTTGAAT
6999490 TTTTTATTTTTATTAAAA
1 TTTTTATTTTTATTAAAA
*
6999508 TTTTTATTTTTTTTAAA
1 TTTTTATTTTTATTAAA
6999525 TATTATATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTATTTTTATTAAAA
Found at i:6999630 original size:17 final size:17
Alignment explanation
Indices: 6999608--6999640 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
6999598 AAATTAAATA
6999608 TATTTATATTTAATATG
1 TATTTATATTTAATATG
6999625 TATTTATATTTAATAT
1 TATTTATATTTAATAT
6999641 TTAAGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTTATATTTAATATG
Done.