Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 338 of 373
Found at i:113161919 original size:18 final size:18
Alignment explanation
Indices: 113161879--113161925 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
113161869 AGCAGTGTCC
* *
113161879 TTTCAACTTCTTTTTTTTCA
1 TTTCAA-TT-TTTGTTTTAA
113161899 TTTCAATTTTTGTTTTAA
1 TTTCAATTTTTGTTTTAA
113161917 TTTCAATTT
1 TTTCAATTT
113161926 ATAATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 17 0.68
19 2 0.08
20 6 0.24
ACGTcount: A:0.19, C:0.13, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTCAATTTTTGTTTTAA
Found at i:113161987 original size:16 final size:16
Alignment explanation
Indices: 113161968--113162030 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
113161958 TTCATAATCA
113161968 TCATTT-CATTTTATAT
1 TCATTTACATTTTAT-T
113161984 TCATTTAACATTTTATT
1 TCATTT-ACATTTTATT
113162001 TCA-TTA-A-TTTATTT
1 TCATTTACATTTTA-TT
*
113162015 TCATTTA-AATTTATT
1 TCATTTACATTTTATT
113162030 T
1 T
113162031 TTTTCCTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.10
14 6 0.14
15 8 0.19
16 12 0.29
17 4 0.10
18 8 0.19
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (16 bp):
TCATTTACATTTTATT
Found at i:113162208 original size:21 final size:21
Alignment explanation
Indices: 113162166--113162208 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
113162156 TATCTGGGTC
*
113162166 ATTTAAAATTTTTCATATTTT
1 ATTTAAAATTTTTCATAATTT
*
113162187 ATTTAAATTTTTTC-TCAATTT
1 ATTTAAAATTTTTCAT-AATTT
113162208 A
1 A
113162209 AACATCATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTAAAATTTTTCATAATTT
Found at i:113162430 original size:22 final size:21
Alignment explanation
Indices: 113162391--113162441 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
113162381 TGTCCTTTTT
* *
113162391 TTTTGTTTTTATTTCATTTCA
1 TTTTATTTGTATTTCATTTCA
113162412 TTTTATTTGTATTTCCATTTCA
1 TTTTATTTGTATTT-CATTTCA
*
113162434 TTTCATTT
1 TTTTATTT
113162442 AAATTATCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.16, C:0.12, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTATTTGTATTTCATTTCA
Found at i:113162458 original size:21 final size:22
Alignment explanation
Indices: 113162433--113162754 Score: 110
Period size: 22 Copynumber: 13.6 Consensus size: 22
113162423 TTTCCATTTC
113162433 ATTTCATTTAAATTATCTTTTT
1 ATTTCATTTAAATTATCTTTTT
*
113162455 -TTTCATTTAAATTTAATTTTTTT
1 ATTTCATTTAAA-TT-ATCTTTTT
*
113162478 ATTTCTTTTAAATTATCTTTCTT
1 ATTTCATTTAAATTATCTTT-TT
*
113162501 CCCATTTTAATTT-AATT-T-TTTTCT
1 ---A-TTTCATTTAAATTATCTTTT-T
* *
113162525 CATTTCAATTAAATTATTTTTTT
1 -ATTTCATTTAAATTATCTTTTT
*
113162548 CCATTTTAATTT-AATT-T-TTTTCT
1 --A-TTTCATTTAAATTATCTTTT-T
113162571 CATTTCATTTAAATTATCTTTCTT
1 -ATTTCATTTAAATTATCTTT-TT
*
113162595 CCCATTTTAATTT-AATT-T-TTTTCT
1 ---A-TTTCATTTAAATTATCTTTT-T
113162619 CATTTCATTTAAATTATCTTTTTT
1 -ATTTCATTTAAATTATC-TTTTT
* * * *
113162643 CCATTTCAATTTAATTTA-ATTCTC
1 --ATTTC-ATTTAAATTATCTTTTT
*
113162667 ATTTCATTTAAATTATCTTTCT
1 ATTTCATTTAAATTATCTTTTT
* * *
113162689 -TTCCATTTTAATTTATTTTATTCT
1 ATTTCA-TTTAAATTATCTT-TT-T
*
113162713 CATTTCATTTAAATTTAATTTTTTTCT
1 -ATTTCATTTAAA-TT-A-TCTTTT-T
113162740 CATTTCATTTAAATT
1 -ATTTCATTTAAATT
113162755 TAATTTTTTT
Statistics
Matches: 235, Mismatches: 27, Indels: 72
0.70 0.08 0.22
Matches are distributed among these distances:
21 44 0.19
22 47 0.20
23 20 0.09
24 37 0.16
25 24 0.10
26 28 0.12
27 31 0.13
28 4 0.02
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTCATTTAAATTATCTTTTT
Found at i:113162515 original size:27 final size:25
Alignment explanation
Indices: 113162484--113162879 Score: 192
Period size: 27 Copynumber: 16.2 Consensus size: 25
113162474 TTTTATTTCT
*
113162484 TTTAAATTATCTTTCTTCCCATTTTAA
1 TTTAAATTAT-TTT-TTCTCATTTTAA
*
113162511 TTT-AA-T-TTTTTTCTCATTTCAA
1 TTTAAATTATTTTTTCTCATTTTAA
113162533 -TTAAATTATTTTTT-TCCATTTTAA
1 TTTAAATTATTTTTTCT-CATTTTAA
*
113162557 TTT-AA-T-TTTTTTCTCA-TTTCA
1 TTTAAATTATTTTTTCTCATTTTAA
*
113162578 TTTAAATTATCTTTCTTCCCATTTTAA
1 TTTAAATTAT-TTT-TTCTCATTTTAA
*
113162605 TTT-AA-T-TTTTTTCTCA-TTTCA
1 TTTAAATTATTTTTTCTCATTTTAA
*
113162626 TTTAAATTATCTTTTT-TCCATTTCAA
1 TTTAAATTAT-TTTTTCT-CATTTTAA
** *
113162652 TTT-AA-T-TTAATTCTCA-TTTCA
1 TTTAAATTATTTTTTCTCATTTTAA
113162673 TTTAAATTATCTTTCTT-TCCATTTTAA
1 TTTAAATTAT-TTT-TTCT-CATTTTAA
* *
113162700 TTT--A-T-TTTATTCTCA-TTTCA
1 TTTAAATTATTTTTTCTCATTTTAA
*
113162720 TTTAAATTTAATTTTTTTCTCA-TTTCA
1 TTTAAA-TT-A-TTTTTTCTCATTTTAA
*
113162747 TTTAAATTTAATTTTTTTTCTC-TTTTCA
1 TTTAAA-TT-A--TTTTTTCTCATTTTAA
113162775 TTTAAATTATCTTTCTT-TCCATTTTAA
1 TTTAAATTAT-TTT-TTCT-CATTTTAA
*
113162802 TTT-AA-T-TTTTTTCTCA-TTTCA
1 TTTAAATTATTTTTTCTCATTTTAA
*
113162823 TTTAAATTTAATTTTTTCTC-TTTTCA
1 TTTAAA-TT-ATTTTTTCTCATTTTAA
*
113162849 GTTAAATTATCTTTCTT-TCCATTTTAA
1 TTTAAATTAT-TTT-TTCT-CATTTTAA
113162876 TTTA
1 TTTA
113162880 CGTTTTTACA
Statistics
Matches: 293, Mismatches: 25, Indels: 102
0.70 0.06 0.24
Matches are distributed among these distances:
20 7 0.02
21 33 0.11
22 46 0.16
23 20 0.07
24 29 0.10
25 30 0.10
26 47 0.16
27 60 0.20
28 21 0.07
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTAAATTATTTTTTCTCATTTTAA
Found at i:113162568 original size:48 final size:47
Alignment explanation
Indices: 113162431--113162830 Score: 533
Period size: 48 Copynumber: 8.3 Consensus size: 47
113162421 TATTTCCATT
* *
113162431 TCATTTCATTTAAATTATCTTTTTTTTCATTTAAATTTAA-TTTTTT-
1 TCATTTCATTTAAATTATC-TTTTTTCCATTTTAATTTAATTTTTTTC
* *
113162477 T-ATTTCTTTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTC
1 TCATTTCATTTAAATTATCTTT-TTTCCATTTTAATTTAATTTTTTTC
*
113162524 TCATTTCAATTAAATTAT-TTTTTTCCATTTTAATTTAATTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTCCATTTTAATTTAATTTTTTTC
*
113162570 TCATTTCATTTAAATTATCTTTCTTCCCATTTTAATTTAATTTTTTTC
1 TCATTTCATTTAAATTATCTTT-TTTCCATTTTAATTTAATTTTTTTC
* **
113162618 TCATTTCATTTAAATTATCTTTTTTCCATTTCAATTTAATTTAATTC
1 TCATTTCATTTAAATTATCTTTTTTCCATTTTAATTTAATTTTTTTC
*
113162665 TCATTTCATTTAAATTATCTTTCTTTCCATTTTAATTT-ATTTTATTC
1 TCATTTCATTTAAATTATCTTT-TTTCCATTTTAATTTAATTTTTTTC
113162712 TCATTTCATTTAAATTTAAT-TTTTTTCTCATTTCATTTAAATTTAATTTTTTTTC
1 TCATTTCATTTAAA-TT-ATCTTTTTTC-CA--T--TTT-AATTTAA-TTTTTTTC
*
113162767 TCTTTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAATTTTTTTC
1 TCATTTCATTTAAATTATCTTT-TTTCCATTTTAATTTAATTTTTTTC
113162815 TCATTTCATTTAAATT
1 TCATTTCATTTAAATT
113162831 TAATTTTTTC
Statistics
Matches: 317, Mismatches: 18, Indels: 36
0.85 0.05 0.10
Matches are distributed among these distances:
44 3 0.01
45 30 0.09
46 48 0.15
47 76 0.24
48 104 0.33
49 9 0.03
50 4 0.01
52 4 0.01
53 7 0.02
54 8 0.03
55 24 0.08
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.62
Consensus pattern (47 bp):
TCATTTCATTTAAATTATCTTTTTTCCATTTTAATTTAATTTTTTTC
Found at i:113162886 original size:74 final size:75
Alignment explanation
Indices: 113162455--113162879 Score: 442
Period size: 74 Copynumber: 5.8 Consensus size: 75
113162445 TTATCTTTTT
* * *
113162455 TTTCATTTAAATTTAA-TTTTTT-T-ATTTCTTTTAAATTATCTTTCTTCCCATTTTAATTTAAT
1 TTTCATTTAAATTTAATTTTTTTCTCTTTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAAT
113162517 TTTTTTCTCA
66 TTTTTTCTCA
* * * *
113162527 TTTCAATTAAA-TT-ATTTTTTTC-CATTTTAATTT-AATT-T-TTT-TCT-CA-TTTCATTTAA
1 TTTCATTTAAATTTAATTTTTTTCTC-TTTTCATTTAAATTATCTTTCTTTCCATTTTAATTT-A
*
113162583 ATTATCTTTCT--
64 ATT-TTTTTCTCA
** * * *
113162594 TCCCATTTTAATTTAATTTTTTTCTCATTTCATTTAAATTATCTTT-TTTCCATTTCAATTTAAT
1 TTTCATTTAAATTTAATTTTTTTCTCTTTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAAT
**
113162658 TTAATTCTCA
66 TTTTTTCTCA
* ** * *
113162668 TTTCATTTAAA-TT-ATCTTTCTTTC-CATTTTAATTTATTTTAT-TCTCATTT-CATTTAAATT
1 TTTCATTTAAATTTAAT-TTT-TTTCTC-TTTTCATTTAAATTATCTTTC-TTTCCATTTTAATT
113162728 TAATTTTTTTCTCA
62 TAATTTTTTTCTCA
113162742 TTTCATTTAAATTTAATTTTTTTTCTCTTTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAA
1 TTTCATTTAAATTTAA-TTTTTTTCTCTTTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAA
113162807 TTTTTTTCTCA
65 TTTTTTTCTCA
*
113162818 TTTCATTTAAATTTAA-TTTTTTCTCTTTTCAGTTAAATTATCTTTCTTTCCATTTTAATTTA
1 TTTCATTTAAATTTAATTTTTTTCTCTTTTCATTTAAATTATCTTTCTTTCCATTTTAATTTA
113162880 CGTTTTTACA
Statistics
Matches: 290, Mismatches: 36, Indels: 52
0.77 0.10 0.14
Matches are distributed among these distances:
67 14 0.05
68 8 0.03
69 23 0.08
70 9 0.03
71 10 0.03
72 26 0.09
73 20 0.07
74 107 0.37
75 25 0.09
76 47 0.16
77 1 0.00
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.62
Consensus pattern (75 bp):
TTTCATTTAAATTTAATTTTTTTCTCTTTTCATTTAAATTATCTTTCTTTCCATTTTAATTTAAT
TTTTTTCTCA
Found at i:113163552 original size:133 final size:133
Alignment explanation
Indices: 113163309--113163579 Score: 515
Period size: 133 Copynumber: 2.0 Consensus size: 133
113163299 ATTATAGAAA
113163309 ATTCATTCCCCCACATACGCAATATGCATTGTAACTTGTAGATCTTGTCTATGAATTGTTCAACA
1 ATTCATTCCCCCACATACGCAATATGCATTGTAACTTGTAGATCTTGTCTATGAATTGTTCAACA
*
113163374 TTTAAGTTTGCTTTCGCACACGCTGCATGAACATGCGCACATGGACCAAAGAGTCTTAAATATCC
66 TTTAAGTTTGCTTTCGCACACGCTGCATAAACATGCGCACATGGACCAAAGAGTCTTAAATATCC
113163439 CGC
131 CGC
* *
113163442 ATTCGTTCCCCCACATACGTAATATGCATTGTAACTTGTAGATCTTGTCTATGAATTGTTCAACA
1 ATTCATTCCCCCACATACGCAATATGCATTGTAACTTGTAGATCTTGTCTATGAATTGTTCAACA
113163507 TTTAAGTTTGCTTTCGCACACGCTGCATAAACATGCGCACATGGACCAAAGAGTCTTAAATATCC
66 TTTAAGTTTGCTTTCGCACACGCTGCATAAACATGCGCACATGGACCAAAGAGTCTTAAATATCC
113163572 CGC
131 CGC
113163575 ATTCA
1 ATTCA
113163580 GATCACCTAT
Statistics
Matches: 134, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
133 134 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (133 bp):
ATTCATTCCCCCACATACGCAATATGCATTGTAACTTGTAGATCTTGTCTATGAATTGTTCAACA
TTTAAGTTTGCTTTCGCACACGCTGCATAAACATGCGCACATGGACCAAAGAGTCTTAAATATCC
CGC
Found at i:113167759 original size:5 final size:5
Alignment explanation
Indices: 113167749--113167780 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
113167739 GTCCCTGTGA
113167749 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
113167781 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:113167769 original size:14 final size:14
Alignment explanation
Indices: 113167750--113167780 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
113167740 TCCCTGTGAA
113167750 AAATAAAATAAAAT
1 AAATAAAATAAAAT
113167764 AAATAAAATAAAAT
1 AAATAAAATAAAAT
113167778 AAA
1 AAA
113167781 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:113177304 original size:26 final size:26
Alignment explanation
Indices: 113177275--113177327 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
113177265 TTTACAGTTT
113177275 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
113177301 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
113177327 T
1 T
113177328 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:113179444 original size:18 final size:18
Alignment explanation
Indices: 113179423--113179470 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 18
113179413 ATAAAAATAT
113179423 TTATAAATATAAAATAAA
1 TTATAAATATAAAATAAA
113179441 TTAT--AT-T-AAATAAA
1 TTATAAATATAAAATAAA
*
113179455 TTTTAAATATAAAATA
1 TTATAAATATAAAATA
113179471 TTAATGTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
14 10 0.40
15 1 0.04
16 4 0.16
17 1 0.04
18 9 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTATAAATATAAAATAAA
Found at i:113188384 original size:9 final size:9
Alignment explanation
Indices: 113188372--113188478 Score: 54
Period size: 9 Copynumber: 10.8 Consensus size: 9
113188362 ATAAAAATCA
113188372 ATAAAATTT
1 ATAAAATTT
113188381 ATAAAA-TT
1 ATAAAATTT
*
113188389 ATTAAATTTT
1 A-TAAAATTT
*
113188399 AATAAAAATAT
1 -AT-AAAATTT
*
113188410 AAAAAATTT
1 ATAAAATTT
113188419 ATAAAAAATTT
1 AT--AAAATTT
113188430 ATAAAAAAATTT
1 AT---AAAATTT
*
113188442 GTAAAATTTT
1 ATAAAA-TTT
*
113188452 ATAAAAATCGT
1 AT-AAAAT-TT
*
113188463 AAAAAATTT
1 ATAAAATTT
113188472 ATAAAAT
1 ATAAAAT
113188479 GCATCAAAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
8 3 0.04
9 28 0.37
10 14 0.18
11 21 0.28
12 10 0.13
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (9 bp):
ATAAAATTT
Found at i:113188386 original size:19 final size:18
Alignment explanation
Indices: 113188362--113188425 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 18
113188352 ATTATAAAAA
113188362 ATAAAAATCAATAAAATTT
1 ATAAAAAT-AATAAAATTT
* * *
113188381 ATAAAATTATTAAATTTT
1 ATAAAAATAATAAAATTT
*
113188399 AATAAAAATATAAAAAATTT
1 -ATAAAAATA-ATAAAATTT
113188419 ATAAAAA
1 ATAAAAA
113188426 ATTTATAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
18 8 0.22
19 22 0.61
20 6 0.17
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAAAAATAATAAAATTT
Found at i:113188423 original size:11 final size:11
Alignment explanation
Indices: 113188407--113188477 Score: 76
Period size: 11 Copynumber: 6.6 Consensus size: 11
113188397 TTAATAAAAA
113188407 TATAAAAAATT
1 TATAAAAAATT
113188418 TATAAAAAATT
1 TATAAAAAATT
113188429 TATAAAAAAATT
1 TAT-AAAAAATT
* *
113188441 TGT-AAAATTT
1 TATAAAAAATT
113188451 TAT-AAAAA-T
1 TATAAAAAATT
**
113188460 CGTAAAAAATT
1 TATAAAAAATT
113188471 TATAAAA
1 TATAAAA
113188478 TGCATCAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
9 2 0.04
10 17 0.35
11 20 0.41
12 10 0.20
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (11 bp):
TATAAAAAATT
Found at i:113188425 original size:12 final size:12
Alignment explanation
Indices: 113188410--113188447 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
113188400 ATAAAAATAT
113188410 AAAAAATTTAT-
1 AAAAAATTTATA
113188421 AAAAAATTTATA
1 AAAAAATTTATA
*
113188433 AAAAAATTTGTA
1 AAAAAATTTATA
113188445 AAA
1 AAA
113188448 TTTTATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (12 bp):
AAAAAATTTATA
Found at i:113188435 original size:22 final size:22
Alignment explanation
Indices: 113188407--113188477 Score: 85
Period size: 20 Copynumber: 3.3 Consensus size: 22
113188397 TTAATAAAAA
*
113188407 TATAAAAAATTTATAAAAAATT
1 TATAAAAAATTTGTAAAAAATT
*
113188429 TATAAAAAAATTTGT-AAAATTT
1 TAT-AAAAAATTTGTAAAAAATT
*
113188451 TAT-AAAAA-TCGTAAAAAATT
1 TATAAAAAATTTGTAAAAAATT
113188471 TATAAAA
1 TATAAAA
113188478 TGCATCAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.07
20 14 0.33
21 3 0.07
22 12 0.29
23 10 0.24
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (22 bp):
TATAAAAAATTTGTAAAAAATT
Found at i:113188718 original size:20 final size:20
Alignment explanation
Indices: 113188663--113188805 Score: 102
Period size: 20 Copynumber: 7.3 Consensus size: 20
113188653 ACGTACGATA
*
113188663 ATTTTTATAATTTTTTTTACA
1 ATTTTTATAATTTTTTTTA-T
* *
113188684 AATTTTAT-A-TTTCTTTAT
1 ATTTTTATAATTTTTTTTAT
* *
113188702 ATTTTTATAATTTTCTTTCT
1 ATTTTTATAATTTTTTTTAT
113188722 A-TTTTAT-A-TTTTTTTAT
1 ATTTTTATAATTTTTTTTAT
** **
113188739 GATTTTTATAA-AATTTACA-
1 -ATTTTTATAATTTTTTTTAT
*
113188758 ATTTTTATAATTTTTTTTAC
1 ATTTTTATAATTTTTTTTAT
* *
113188778 AGTTTTATAATTTTTTTTCT
1 ATTTTTATAATTTTTTTTAT
113188798 AATTTTTA
1 -ATTTTTA
113188806 ATATATTTAT
Statistics
Matches: 95, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
17 7 0.07
18 19 0.20
19 24 0.25
20 32 0.34
21 13 0.14
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.66
Consensus pattern (20 bp):
ATTTTTATAATTTTTTTTAT
Found at i:113188738 original size:37 final size:40
Alignment explanation
Indices: 113188663--113188749 Score: 126
Period size: 39 Copynumber: 2.2 Consensus size: 40
113188653 ACGTACGATA
*
113188663 ATTTTTATAATTTTTTTTACAAATTTTATATTTCTTTAT-
1 ATTTTTATAATTTTCTTTACAAATTTTATATTTCTTTATG
* *
113188702 ATTTTTATAATTTTCTTT-C-TATTTTATATTTTTTTATG
1 ATTTTTATAATTTTCTTTACAAATTTTATATTTCTTTATG
113188740 ATTTTTATAA
1 ATTTTTATAA
113188750 AATTTACAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 16 0.36
38 11 0.25
39 17 0.39
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.68
Consensus pattern (40 bp):
ATTTTTATAATTTTCTTTACAAATTTTATATTTCTTTATG
Found at i:113188853 original size:18 final size:19
Alignment explanation
Indices: 113188827--113188864 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
113188817 GTTTTCTCAT
113188827 TAAAATTTAAT-ATTTTTA
1 TAAAATTTAATAATTTTTA
* *
113188845 TAAATTTTATTAATTTTTA
1 TAAAATTTAATAATTTTTA
113188864 T
1 T
113188865 TTTCTATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TAAAATTTAATAATTTTTA
Found at i:113189933 original size:22 final size:23
Alignment explanation
Indices: 113189891--113189945 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
113189881 GTCATCACCT
113189891 AAAATATTAAAATAGTTTAAAAG
1 AAAATATTAAAATAGTTTAAAAG
* *
113189914 AAATTATTAAAA-A-TTATAAAAT
1 AAAATATTAAAATAGTT-TAAAAG
113189936 AAAATATTAA
1 AAAATATTAA
113189946 CTTTTTTTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 15 0.54
23 11 0.39
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAATATTAAAATAGTTTAAAAG
Found at i:113190542 original size:13 final size:14
Alignment explanation
Indices: 113190521--113190549 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
113190511 TGAAAAATGA
113190521 ATTAGAAAATATTT
1 ATTAGAAAATATTT
113190535 ATTA-AAAATATTT
1 ATTAGAAAATATTT
113190548 AT
1 AT
113190550 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:113191113 original size:31 final size:32
Alignment explanation
Indices: 113191064--113191127 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
113191054 ATATTAAATA
*
113191064 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
113191095 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
113191127 A
1 A
113191128 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:113191201 original size:142 final size:140
Alignment explanation
Indices: 113190925--113191205 Score: 302
Period size: 142 Copynumber: 2.0 Consensus size: 140
113190915 AGAATAAAAC
* * *
113190925 ATATTTATTAATTAAATAATTAAATAATGAGATTTTTTTTGATAAATAAATTAAATAATGACAAT
1 ATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTAATAAATAAATTAAATAATGACAAA
* * * * * *
113190990 TGTAATGAATTTATTGGTACAAATGTGAAAATATAAGTGTGTACAATTGTAATATTAGTATTTAA
66 TGTAATGAA-TAATTGGTACAAATGTGAAAATAAAAATGTGTACAAGTGTAATATAAATATTTAA
113191055 TATTAAATAAG
130 TATTAAATAAG
* * * *
113191066 ATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAATATATTAAATTATGACAA
1 ATATTTATTAATTAAATAATTAAATAATGAGATTTTT-TGTAATAAATAAATTAAATAATGACAA
* *
113191131 ATGT-ATGGTAA-AATTTGT-GAAATGTGTAATAATAAAAATGCT-TACAAGTGTTAA-ATAAAT
65 ATGTAAT-G-AATAATTGGTACAAATGTG-AA-AATAAAAATG-TGTACAAGTG-TAATATAAAT
**
113191191 ATTTGTTATTAAATA
124 ATTTAATATTAAATA
113191206 GATTCTATAG
Statistics
Matches: 116, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
140 7 0.06
141 44 0.38
142 59 0.51
143 6 0.05
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.42
Consensus pattern (140 bp):
ATATTTATTAATTAAATAATTAAATAATGAGATTTTTTGTAATAAATAAATTAAATAATGACAAA
TGTAATGAATAATTGGTACAAATGTGAAAATAAAAATGTGTACAAGTGTAATATAAATATTTAAT
ATTAAATAAG
Found at i:113192088 original size:15 final size:15
Alignment explanation
Indices: 113192040--113192089 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
113192030 TTTATCAAAT
113192040 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
113192055 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
113192070 TTATATTGATTGAAA
1 TTATATTGATTGAAA
113192085 TTATA
1 TTATA
113192090 ATATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:113195308 original size:21 final size:21
Alignment explanation
Indices: 113195282--113195352 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
113195272 TTTCCAACCC
113195282 TTTGTCAGAATCCCAAAACTT
1 TTTGTCAGAATCCCAAAACTT
* **
113195303 TTTGTCAAAAATCTTTTCC--AACCC
1 TTTGTC-AGAATC----CCAAAACTT
113195327 TTTGTCAGAATCCCAAAACTT
1 TTTGTCAGAATCCCAAAACTT
113195348 TTTGT
1 TTTGT
113195353 TATCCAATCT
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
19 2 0.05
21 14 0.38
22 5 0.14
23 5 0.14
24 9 0.24
26 2 0.05
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (21 bp):
TTTGTCAGAATCCCAAAACTT
Found at i:113195311 original size:45 final size:45
Alignment explanation
Indices: 113195262--113195352 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
113195252 GAAGTAAGAT
*
113195262 TCAAAAATTTTTTCCAACCCTTTGTCAGAATCCCAAAACTTTTTG
1 TCAAAAATCTTTTCCAACCCTTTGTCAGAATCCCAAAACTTTTTG
113195307 TCAAAAATCTTTTCCAACCCTTTGTCAGAATCCCAAAACTTTTTG
1 TCAAAAATCTTTTCCAACCCTTTGTCAGAATCCCAAAACTTTTTG
113195352 T
1 T
113195353 TATCCAATCT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (45 bp):
TCAAAAATCTTTTCCAACCCTTTGTCAGAATCCCAAAACTTTTTG
Found at i:113218305 original size:31 final size:31
Alignment explanation
Indices: 113218270--113218334 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
113218260 TTACAATTTG
* *
113218270 GTCATTGAATTATTCAAAAGATTTCATTTAA
1 GTCATTAAACTATTCAAAAGATTTCATTTAA
* ** *
113218301 GTCATTAAACTATTTAAAATTTTTTATTTAA
1 GTCATTAAACTATTCAAAAGATTTCATTTAA
113218332 GTC
1 GTC
113218335 GCTCGTTAAG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.46
Consensus pattern (31 bp):
GTCATTAAACTATTCAAAAGATTTCATTTAA
Found at i:113219359 original size:5 final size:5
Alignment explanation
Indices: 113219349--113219413 Score: 91
Period size: 5 Copynumber: 13.2 Consensus size: 5
113219339 AATTATGTTT
113219349 TTATA TTATA TTATTA TTA-A -TATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTA-TA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
113219398 TTATTA TTATA -TATA T
1 TTA-TA TTATA TTATA T
113219414 GACAAAGAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
3 2 0.04
4 6 0.11
5 37 0.67
6 10 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:113219365 original size:3 final size:3
Alignment explanation
Indices: 113219352--113219407 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
113219342 TATGTTTTTA
*
113219352 TAT TA- TAT TAT TAT TAA TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
113219394 TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT
113219408 ATATATGACA
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
2 14 0.31
3 31 0.69
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:113219479 original size:40 final size:40
Alignment explanation
Indices: 113219422--113219513 Score: 148
Period size: 40 Copynumber: 2.2 Consensus size: 40
113219412 ATGACAAAGA
113219422 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
113219463 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
113219503 AAGGAAAGAAA
1 AA-GAAAGAAA
113219514 AAAGAAAAGA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 33 0.70
41 14 0.30
ACGTcount: A:0.64, C:0.09, G:0.27, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:113220274 original size:29 final size:30
Alignment explanation
Indices: 113220215--113220272 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
113220205 TCCGAGCCTT
*
113220215 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
113220245 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
113220273 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:113220502 original size:13 final size:13
Alignment explanation
Indices: 113220484--113220515 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
113220474 TTTCCAGCAA
113220484 TTATGAATTTATT
1 TTATGAATTTATT
113220497 TTATGAATTTATT
1 TTATGAATTTATT
*
113220510 TGATGA
1 TTATGA
113220516 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:113220723 original size:50 final size:50
Alignment explanation
Indices: 113220610--113220851 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
113220600 ATTTGGGTAA
* * *
113220610 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
113220666 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
113220716 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
113220766 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
113220816 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
113220852 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:113220799 original size:100 final size:103
Alignment explanation
Indices: 113220610--113220859 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
113220600 ATTTGGGTAA
113220610 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
113220675 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
113220716 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
113220778 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
113220816 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
113220860 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:113229735 original size:45 final size:45
Alignment explanation
Indices: 113229671--113229760 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
113229661 TTGTTCCTCG
113229671 ACTGCATAGGAAGATGGAGGATACCTCCATTTTCGCCTAATTTTT
1 ACTGCATAGGAAGATGGAGGATACCTCCATTTTCGCCTAATTTTT
113229716 ACTGCATAGGAAGATGGAGGATACCTCCATTTTCGCCTAATTTTT
1 ACTGCATAGGAAGATGGAGGATACCTCCATTTTCGCCTAATTTTT
113229761 TCTTCTTTCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (45 bp):
ACTGCATAGGAAGATGGAGGATACCTCCATTTTCGCCTAATTTTT
Found at i:113237127 original size:13 final size:13
Alignment explanation
Indices: 113237109--113237133 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
113237099 GAGGGCTACC
113237109 AAAATTCTTTTTG
1 AAAATTCTTTTTG
113237122 AAAATTCTTTTT
1 AAAATTCTTTTT
113237134 TTTTTTTTGT
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:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
AAAATTCTTTTTG
Found at i:113240936 original size:47 final size:47
Alignment explanation
Indices: 113240827--113240937 Score: 120
Period size: 47 Copynumber: 2.4 Consensus size: 47
113240817 CCGGGATAAG
* *
113240827 CACATAGTGAT-TCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTG-TCTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
113240874 CACAAAGT-ACTTCATCGGAACAAATCTGAAACTTTAACAGTAGTCG-A
1 CACATAGTGTC-TCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
113240921 CACATAGTGTCTCATCG
1 CACATAGTGTCTCATCG
113240938 ACTCAATGTC
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
47 49 0.94
48 3 0.06
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGTCTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:113241706 original size:4 final size:4
Alignment explanation
Indices: 113241697--113241725 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
113241687 CCCTTTTCTA
113241697 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
113241726 CACGTTTGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:113248753 original size:99 final size:100
Alignment explanation
Indices: 113248644--113248836 Score: 266
Period size: 99 Copynumber: 1.9 Consensus size: 100
113248634 TACACTCGTA
* * * *
113248644 GTGCCATAACCCAGTTATGGTCT-TGTC-TTCAAGATGTCATAGCTCAATTATGGTCTTACA-TA
1 GTGCCATAACCCAATTATGGTCTCT-TCATT-AAAATGTCATAGCCCAACTATGGTCTTACATTA
* *
113248706 TATACTGCCATGGTGCAACCATGGTCTTATGTTCACG
64 AATACTGCCATGGTCCAACCATGGTCTTATGTTCACG
*
113248743 GTGCCATAACCCAATTATGGTCTCTTCATTAAAATGTCATAGCCCAGCTATGGTCTTACATTTAA
1 GTGCCATAACCCAATTATGGTCTCTTCATTAAAATGTCATAGCCCAACTATGGTCTTACA-TTAA
*
113248808 ATATTGCCATGGTCCAACCATGGTCTTAT
65 ATACTGCCATGGTCCAACCATGGTCTTAT
113248837 CCATCAATTC
Statistics
Matches: 82, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
99 50 0.61
100 3 0.04
101 29 0.35
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (100 bp):
GTGCCATAACCCAATTATGGTCTCTTCATTAAAATGTCATAGCCCAACTATGGTCTTACATTAAA
TACTGCCATGGTCCAACCATGGTCTTATGTTCACG
Found at i:113261134 original size:23 final size:23
Alignment explanation
Indices: 113261107--113261159 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
113261097 AAATATCCCT
*
113261107 AAAGAAATCAGAGTTTAACT-GGG
1 AAAGAAAT-AAAGTTTAACTAGGG
*
113261130 AAAGATAGTAAAGTTTAACTAGGG
1 AAAGA-AATAAAGTTTAACTAGGG
113261154 -AAGAAA
1 AAAGAAA
113261160 CCCGATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.04
23 19 0.76
24 5 0.20
ACGTcount: A:0.49, C:0.06, G:0.25, T:0.21
Consensus pattern (23 bp):
AAAGAAATAAAGTTTAACTAGGG
Found at i:113266556 original size:53 final size:53
Alignment explanation
Indices: 113266415--113266574 Score: 181
Period size: 52 Copynumber: 3.1 Consensus size: 53
113266405 TGACGGAATA
* *
113266415 GATGTGATAA-GTGCGC-CCGTATAAGACCATAGT-TGGGCTATGACATCGGTGT
1 GATGTGATAATGTGC-CTCCGTATAAGACCATA-TCTGGGCTATGGCATCGGTAT
* *
113266467 -ATTGTGAT-ATGT-ACTCCCGTATAAGACCATGA-CTGGGCTATGGCATCAGTAT
1 GA-TGTGATAATGTGCCT-CCGTATAAGACCAT-ATCTGGGCTATGGCATCGGTAT
*
113266519 GATGTGATAATGTGCCTCCGTATAAGACCATATCTGGGATATGGCATCGGTAT
1 GATGTGATAATGTGCCTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAT
113266572 GAT
1 GAT
113266575 ATGTGATCTG
Statistics
Matches: 91, Mismatches: 7, Indels: 19
0.78 0.06 0.16
Matches are distributed among these distances:
50 1 0.01
51 2 0.02
52 45 0.49
53 41 0.45
54 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (53 bp):
GATGTGATAATGTGCCTCCGTATAAGACCATATCTGGGCTATGGCATCGGTAT
Found at i:113266637 original size:46 final size:46
Alignment explanation
Indices: 113266535--113266638 Score: 145
Period size: 46 Copynumber: 2.3 Consensus size: 46
113266525 ATAATGTGCC
* * * *
113266535 TCCGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
1 TCCGTATAAGACCATATCTGGAATATGGCACCGGTATGATACGTAA
* *
113266581 TCTGTATAAGACCATATCTGGAATATGGTACCGGTATGATACGTAA
1 TCCGTATAAGACCATATCTGGAATATGGCACCGGTATGATACGTAA
*
113266627 TCCGTGTAAGAC
1 TCCGTATAAGAC
113266639 TATGGCAGGG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (46 bp):
TCCGTATAAGACCATATCTGGAATATGGCACCGGTATGATACGTAA
Found at i:113274154 original size:53 final size:51
Alignment explanation
Indices: 113274063--113274215 Score: 163
Period size: 46 Copynumber: 3.0 Consensus size: 51
113274053 CGGTGTATTG
* ** * *
113274063 TGATATGTACTCCAGTATAAGACCATGGCTGGGCTATGGCATCAGTATGATG
1 TGATATGTGCTCC-GTATAAGACCATATCTGGGATATGGCATCAGTATGATA
*
113274115 TGATAATGTGCCTCCGTAGAAGACCATATCTGGGATATGGCATC-G---G-TA
1 TGAT-ATGTG-CTCCGTATAAGACCATATCTGGGATATGGCATCAGTATGATA
* * *
113274163 TGATATGTGATCTGTATAAGACCATATCTGAGATATGGCATCAGTATGATA
1 TGATATGTGCTCCGTATAAGACCATATCTGGGATATGGCATCAGTATGATA
113274214 TG
1 TG
113274216 TGATCCGTGT
Statistics
Matches: 84, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
46 29 0.35
47 6 0.07
48 5 0.06
49 1 0.01
50 1 0.01
51 4 0.05
52 5 0.06
53 29 0.35
54 4 0.05
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (51 bp):
TGATATGTGCTCCGTATAAGACCATATCTGGGATATGGCATCAGTATGATA
Found at i:113274184 original size:46 final size:46
Alignment explanation
Indices: 113274127--113274266 Score: 172
Period size: 46 Copynumber: 3.0 Consensus size: 46
113274117 ATAATGTGCC
*
113274127 TCCGTAGAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
1 TCCGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
* * *
113274173 TCTGTATAAGACCATATCTGAGATATGGCATCAGTATGATATGTGA
1 TCCGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
* ** * * *
113274219 TCCGTGTAAGACCATGGCAGGGCTATGGCTTCGGTATGTGATATGTGA
1 TCCGTATAAGACCATATCTGGGATATGGCATCGGTA--TGATATGTGA
113274267 CTATGTGTAA
Statistics
Matches: 79, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
46 69 0.87
48 10 0.13
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGTATAAGACCATATCTGGGATATGGCATCGGTATGATATGTGA
Found at i:113275250 original size:20 final size:20
Alignment explanation
Indices: 113275222--113275260 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
113275212 GACCACATGG
*
113275222 CCTACCCACACGGGTGTGTC
1 CCTACCCACACGGGCGTGTC
*
113275242 CCTATCCACACGGGCGTGT
1 CCTACCCACACGGGCGTGT
113275261 GGCCCTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (20 bp):
CCTACCCACACGGGCGTGTC
Found at i:113275266 original size:22 final size:20
Alignment explanation
Indices: 113275222--113275266 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
113275212 GACCACATGG
*
113275222 CCTACCCACACGGGTGTGTC
1 CCTACCCACACGGGTGTGGC
*
113275242 CCTATCCACACGGGCGTGTGGC
1 CCTACCCACAC-GG-GTGTGGC
113275264 CCT
1 CCT
113275267 GTTTCACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 2 0.10
22 9 0.43
ACGTcount: A:0.13, C:0.40, G:0.27, T:0.20
Consensus pattern (20 bp):
CCTACCCACACGGGTGTGGC
Found at i:113275812 original size:7 final size:7
Alignment explanation
Indices: 113275800--113275852 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
113275790 GCATACACCT
113275800 TAAACCC
1 TAAACCC
113275807 TAAACCC
1 TAAACCC
*
113275814 TAAACCT
1 TAAACCC
* *
113275821 TAGAGCC
1 TAAACCC
*
113275828 TACACCC
1 TAAACCC
*
113275835 TAAACCT
1 TAAACCC
113275842 TAAACCC
1 TAAACCC
113275849 -AAAC
1 TAAAC
113275853 TCAAACTCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
6 4 0.11
7 33 0.89
ACGTcount: A:0.42, C:0.38, G:0.04, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:113275820 original size:21 final size:21
Alignment explanation
Indices: 113275796--113275852 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
113275786 TAGAGCATAC
113275796 ACCTTAAACCCTAAACCCTAA
1 ACCTTAAACCCTAAACCCTAA
* * *
113275817 ACCTTAGAGCCTACACCCTAA
1 ACCTTAAACCCTAAACCCTAA
113275838 ACCTTAAACCC-AAAC
1 ACCTTAAACCCTAAAC
113275853 TCAAACTCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.40, C:0.39, G:0.04, T:0.18
Consensus pattern (21 bp):
ACCTTAAACCCTAAACCCTAA
Found at i:113275823 original size:35 final size:35
Alignment explanation
Indices: 113275772--113275852 Score: 119
Period size: 35 Copynumber: 2.3 Consensus size: 35
113275762 ACATAAATTT
* *
113275772 TAAACCCTAAATCTTAGAGCATACACCTTAAACCC
1 TAAACCCTAAACCTTAGAGCATACACCCTAAACCC
* *
113275807 TAAACCCTAAACCTTAGAGCCTACACCCTAAACCT
1 TAAACCCTAAACCTTAGAGCATACACCCTAAACCC
113275842 TAAACCC-AAAC
1 TAAACCCTAAAC
113275853 TCAAACTCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 4 0.10
35 38 0.90
ACGTcount: A:0.41, C:0.35, G:0.05, T:0.20
Consensus pattern (35 bp):
TAAACCCTAAACCTTAGAGCATACACCCTAAACCC
Found at i:113276318 original size:14 final size:14
Alignment explanation
Indices: 113276299--113276328 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
113276289 AAATTATTAA
*
113276299 TTATTAATAATATT
1 TTATTAAAAATATT
113276313 TTATTAAAAATATT
1 TTATTAAAAATATT
113276327 TT
1 TT
113276329 TGTAGAAAAA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTATTAAAAATATT
Found at i:113279181 original size:25 final size:23
Alignment explanation
Indices: 113279130--113279182 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
113279120 CCCTATACTT
* *
113279130 TTATTTTTAAGAATTTAATCTAT
1 TTATTTTTAAGAATTTAATCCAA
*
113279153 TTATTTTTTAGAATTTCAAGTCCAA
1 TTATTTTTAAGAATTT-AA-TCCAA
113279178 TTATT
1 TTATT
113279183 AACACTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 15 0.60
24 2 0.08
25 8 0.32
ACGTcount: A:0.32, C:0.08, G:0.06, T:0.55
Consensus pattern (23 bp):
TTATTTTTAAGAATTTAATCCAA
Found at i:113280735 original size:6 final size:6
Alignment explanation
Indices: 113280724--113280759 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
113280714 GAAAGGAAAC
113280724 AATGAG AATGAG AATGAG AATGAG AATGAG AATGAG
1 AATGAG AATGAG AATGAG AATGAG AATGAG AATGAG
113280760 CATGGGGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (6 bp):
AATGAG
Found at i:113282094 original size:13 final size:13
Alignment explanation
Indices: 113282054--113282096 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
113282044 TTCAACAACG
*
113282054 AATCAATTAATTG
1 AATCAATTAATTT
* *
113282067 AATTAAATAAATTT
1 AA-TCAATTAATTT
113282081 AATCAATTAATTT
1 AATCAATTAATTT
113282094 AAT
1 AAT
113282097 TTTAACTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (13 bp):
AATCAATTAATTT
Found at i:113282226 original size:27 final size:27
Alignment explanation
Indices: 113282196--113282252 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
113282186 ATTAAATTTA
*
113282196 GTATTACTATCAAATTTTATAATAAGT
1 GTATCACTATCAAATTTTATAATAAGT
* * *
113282223 GTATCATTATCAAATTTTGTAGTAAGT
1 GTATCACTATCAAATTTTATAATAAGT
113282250 GTA
1 GTA
113282253 CCATCATGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (27 bp):
GTATCACTATCAAATTTTATAATAAGT
Found at i:113283950 original size:16 final size:16
Alignment explanation
Indices: 113283929--113283959 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
113283919 CATTTTATTT
*
113283929 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
113283945 ATATTAAGATAATTA
1 ATATTAAGATAATTA
113283960 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:113283988 original size:28 final size:27
Alignment explanation
Indices: 113283925--113283989 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
113283915 ACTTCATTTT
113283925 ATTTATATTAGGATAATTAAATATTAAG
1 ATTT-TATTAGGATAATTAAATATTAAG
* * * *
113283953 ATAATTATTAGGATTATTTAAATTTTAGG
1 AT-TTTATTAGGA-TAATTAAATATTAAG
113283982 ATTTTATT
1 ATTTTATT
113283990 TTAATTATCT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (27 bp):
ATTTTATTAGGATAATTAAATATTAAG
Found at i:113290367 original size:8 final size:8
Alignment explanation
Indices: 113290354--113290417 Score: 65
Period size: 8 Copynumber: 7.2 Consensus size: 8
113290344 TTTATTTCTA
113290354 ATTTTATT
1 ATTTTATT
113290362 ATTTTATT
1 ATTTTATT
113290370 ATTTTATT
1 ATTTTATT
113290378 ATTTTATTT
1 ATTTTA-TT
*
113290387 CAATTTGTTTT
1 --ATTT-TATT
113290398 ATTTTTAATT
1 A-TTTT-ATT
113290408 ATTTTATT
1 ATTTTATT
113290416 AT
1 AT
113290418 ATTAATAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
8 27 0.56
9 8 0.17
10 6 0.12
11 6 0.12
12 1 0.02
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (8 bp):
ATTTTATT
Found at i:113290933 original size:9 final size:9
Alignment explanation
Indices: 113290919--113290944 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
113290909 ACTGGTTTGG
113290919 TTGTTGCTA
1 TTGTTGCTA
113290928 TTGTTGCTA
1 TTGTTGCTA
113290937 TTGTTGCT
1 TTGTTGCT
113290945 GGCTCACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.58
Consensus pattern (9 bp):
TTGTTGCTA
Found at i:113296814 original size:213 final size:213
Alignment explanation
Indices: 113296447--113296879 Score: 843
Period size: 213 Copynumber: 2.0 Consensus size: 213
113296437 TCGTACCTGA
113296447 CCTAAAAATTACAAATTTTCTACGAAGTAAAGGCCACTTTTTGATGTTTTTACTTGCTCATTTAA
1 CCTAAAAATTACAAATTTTCTACGAAGTAAAGGCCACTTTTTGATGTTTTTACTTGCTCATTTAA
*
113296512 CTTTTCAAACAAGATCGGTTTTTTAATATAAAAATACATATCAACTTGTGACTTCTTTTAACAAA
66 CCTTTCAAACAAGATCGGTTTTTTAATATAAAAATACATATCAACTTGTGACTTCTTTTAACAAA
113296577 ATAAAAAAAGAAAAAATTATTCCCCATTGACATTAGTTGCACATGTTTTTCCTCTTTGATTGATT
131 ATAAAAAAAGAAAAAATTATTCCCCATTGACATTAGTTGCACATGTTTTTCCTCTTTGATTGATT
113296642 CCCACAATGCTCTAGGGG
196 CCCACAATGCTCTAGGGG
113296660 CCTAAAAATTACAAATTTTCTACGAAGTAAAGGCCACTTTTTGATGTTTTTACTTGCTCATTTAA
1 CCTAAAAATTACAAATTTTCTACGAAGTAAAGGCCACTTTTTGATGTTTTTACTTGCTCATTTAA
113296725 CCTTTCAAACAAGATCGGTTTTTTAATATAAAAATACATATCAACTTGTGACTTCTTTTAACAAA
66 CCTTTCAAACAAGATCGGTTTTTTAATATAAAAATACATATCAACTTGTGACTTCTTTTAACAAA
113296790 ATAAAAAAAGAAAAAATTATTCCCCATTGACATTAGTTGCACATGTTTTTCCTCTTTGATTGATT
131 ATAAAAAAAGAAAAAATTATTCCCCATTGACATTAGTTGCACATGTTTTTCCTCTTTGATTGATT
113296855 CCCACAATGCTCTAGGGG
196 CCCACAATGCTCTAGGGG
113296873 --TAAAAAT
1 CCTAAAAAT
113296880 CTATGTATGT
Statistics
Matches: 219, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
211 7 0.03
213 212 0.97
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (213 bp):
CCTAAAAATTACAAATTTTCTACGAAGTAAAGGCCACTTTTTGATGTTTTTACTTGCTCATTTAA
CCTTTCAAACAAGATCGGTTTTTTAATATAAAAATACATATCAACTTGTGACTTCTTTTAACAAA
ATAAAAAAAGAAAAAATTATTCCCCATTGACATTAGTTGCACATGTTTTTCCTCTTTGATTGATT
CCCACAATGCTCTAGGGG
Found at i:113310053 original size:44 final size:46
Alignment explanation
Indices: 113309975--113310060 Score: 131
Period size: 44 Copynumber: 1.9 Consensus size: 46
113309965 TATAATTGAG
113309975 TAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATGGAA
1 TAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATGGAA
* **
113310021 TAGAGCTGTAAT-AG-CATTCTTTTGTTTGGTTGAATGGAAT
1 TAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAAT
113310061 AGATATTGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 23 0.62
45 2 0.05
46 12 0.32
ACGTcount: A:0.29, C:0.07, G:0.26, T:0.38
Consensus pattern (46 bp):
TAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATGGAA
Found at i:113310289 original size:58 final size:60
Alignment explanation
Indices: 113310158--113310295 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 60
113310148 TTATTAAATT
* * * * * *
113310158 TTAATA-AATTTATTGTTAAATATATTTTAATAAAAATAAAAATAAATAGTTTAATCATATTT
1 TTAATATAA-TTATTATTAAATACAATTTAATAAAAAT--AAATAAATAATTTAATAATATTC
* *
113310220 TTAATGTAATTATTATTAAATACAATTTAAT-AAAAT-AATATATAATTTAATAATATTC
1 TTAATATAATTATTATTAAATACAATTTAATAAAAATAAATAAATAATTTAATAATATTC
113310278 TTAATATAATTATTATTA
1 TTAATATAATTATTATTA
113310296 TATGAATTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
58 35 0.53
61 5 0.08
62 24 0.36
63 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (60 bp):
TTAATATAATTATTATTAAATACAATTTAATAAAAATAAATAAATAATTTAATAATATTC
Found at i:113310319 original size:22 final size:23
Alignment explanation
Indices: 113310294--113310342 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
113310284 TAATTATTAT
*
113310294 TATATGA-ATT-TAAAAATCATA
1 TATATGATATTATAAAAATAATA
113310315 GTATATGATATTATAAAAATAATA
1 -TATATGATATTATAAAAATAATA
113310339 TATA
1 TATA
113310343 ACCTACTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 7 0.29
23 7 0.29
24 10 0.42
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (23 bp):
TATATGATATTATAAAAATAATA
Found at i:113312088 original size:13 final size:13
Alignment explanation
Indices: 113312070--113312094 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
113312060 GTTTTTTTTA
113312070 AAATTAGGGTTTC
1 AAATTAGGGTTTC
113312083 AAATTAGGGTTT
1 AAATTAGGGTTT
113312095 AAAAAAATTT
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
AAATTAGGGTTTC
Found at i:113312869 original size:12 final size:12
Alignment explanation
Indices: 113312852--113312886 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
113312842 TTTAGATTTA
*
113312852 TTATTATTGTTG
1 TTATTATTATTG
113312864 TTATTATTATTG
1 TTATTATTATTG
*
113312876 TTATCATTATT
1 TTATTATTATT
113312887 ATTTACATTG
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:0.23, C:0.03, G:0.09, T:0.66
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:113312869 original size:15 final size:15
Alignment explanation
Indices: 113312849--113312889 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
113312839 AAATTTAGAT
*
113312849 TTATTATTATTGTTG
1 TTATTATTATTGTTA
113312864 TTATTATTATTGTTA
1 TTATTATTATTGTTA
*
113312879 TCATTATTATT
1 TTATTATTATT
113312890 TACATTGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (15 bp):
TTATTATTATTGTTA
Found at i:113316565 original size:19 final size:19
Alignment explanation
Indices: 113316541--113316595 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
113316531 CAACGCCTCT
113316541 TTTGCATT-CATTTCATTCA
1 TTTGCATTACATTTCA-TCA
113316560 TTTGCATTACATTTCATCA
1 TTTGCATTACATTTCATCA
* *
113316579 TATGCATTAAATTTCAT
1 TTTGCATTACATTTCAT
113316596 GAAAAGACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 26 0.79
20 7 0.21
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTGCATTACATTTCATCA
Found at i:113324910 original size:176 final size:177
Alignment explanation
Indices: 113324616--113325088 Score: 675
Period size: 177 Copynumber: 2.7 Consensus size: 177
113324606 GAATTCACAA
* * *
113324616 CCTTATCTCTCTGAGGTTGTAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCG
1 CCTTATCTCTCTGAGGTTGCAAGAGAGCAGGTTGAAGATTATAGTCTTATCTTCCTGAGGTAGCA
* * * *
113324681 AGGAAGCACACTGAAGATTGAAGATCTTATCTCCCTAAGCAA-TAGTGGAGCAGATCGAAGTTGG
66 AGGAAGCAGACTGAAAATTGAAGATCTTATCTCTCTAAG-AAGTAGTGGAGCAGATCGAAGATGG
* *
113324745 -GAATCTTATCTTCCCGAGGTAGCAGGGGAGCAGGTTTTAGCGACCAG
130 TGAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGGTTTTAGCCACCAG
* * *
113324792 CCTTATCTCTTTGAGGTAGCAAGAGAGCAGGTTAAAGATTATAGTCTTATCTTCCTGAGGTAGCA
1 CCTTATCTCTCTGAGGTTGCAAGAGAGCAGGTTGAAGATTATAGTCTTATCTTCCTGAGGTAGCA
* *
113324857 AGGAAGTAGGCTGAAAATTGAAGATCTTATCTCTCTAAGAAGTAGTGGAGCAGATCGAAGATGGT
66 AGGAAGCAGACTGAAAATTGAAGATCTTATCTCTCTAAGAAGTAGTGGAGCAGATCGAAGATGGT
* *
113324922 GAATCTTATCTTCCTAAGGTAGCAGGGGAGCAGGTTTTAGCCATCAG
131 GAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGGTTTTAGCCACCAG
* * *
113324969 CCTTATCTCTCTGAGGTTGCAAAAGAGCAGGTTGAAGATTGA-AGTCTTATCTTCCTAAGGTAAC
1 CCTTATCTCTCTGAGGTTGCAAGAGAGCAGGTTGAAGATT-ATAGTCTTATCTTCCTGAGGTAGC
* * ** *
113325033 AAGAAAGCAGACT-AAGAATTGAAAATCTCGTCTCTCTAAGCAGTAGTGGAGCAGAT
65 AAGGAAGCAGACTGAA-AATTGAAGATCTTATCTCTCTAAGAAGTAGTGGAGCAGAT
113325089 TTAAGCCACC
Statistics
Matches: 264, Mismatches: 29, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
175 2 0.01
176 116 0.44
177 145 0.55
178 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (177 bp):
CCTTATCTCTCTGAGGTTGCAAGAGAGCAGGTTGAAGATTATAGTCTTATCTTCCTGAGGTAGCA
AGGAAGCAGACTGAAAATTGAAGATCTTATCTCTCTAAGAAGTAGTGGAGCAGATCGAAGATGGT
GAATCTTATCTTCCCAAGGTAGCAGGGGAGCAGGTTTTAGCCACCAG
Found at i:113325338 original size:44 final size:43
Alignment explanation
Indices: 113325204--113325347 Score: 121
Period size: 44 Copynumber: 3.3 Consensus size: 43
113325194 TCTGATGTTA
* * * *
113325204 CAGTGGGGCAGGATGAAGTTACGAGTCCTATCTCCCTAAAGTTA
1 CAGTGGAGCAGGATGAAG-TACAAGTCTTATCTCCCTAAAGTTG
** **
113325248 CAGTGGAGCA-GATTGAAGATAGCAAACCTTATCTCTTTGAAA-TTG
1 CAGTGGAGCAGGA-TGAAG-TA-CAAGTCTTATCTCCCT-AAAGTTG
* *
113325293 CAATGGAGCAGGCTGAAGTCACAAGTCTTATCTCCCTAAAGTTG
1 CAGTGGAGCAGGATGAAGT-ACAAGTCTTATCTCCCTAAAGTTG
*
113325337 CAGCGGAGCAG
1 CAGTGGAGCAG
113325348 ACAAAAAATG
Statistics
Matches: 77, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
43 5 0.06
44 41 0.53
45 27 0.35
46 4 0.05
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (43 bp):
CAGTGGAGCAGGATGAAGTACAAGTCTTATCTCCCTAAAGTTG
Found at i:113325392 original size:89 final size:89
Alignment explanation
Indices: 113325211--113325375 Score: 195
Period size: 89 Copynumber: 1.9 Consensus size: 89
113325201 TTACAGTGGG
* * * *** *
113325211 GCAGGATGAAGTTACGAGTCCTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGATAGCAAACC
1 GCAGGATGAAGTCACAAGTCCTATCTCCCTAAAGTTACAGCGGAGCAGACAAAAAATAGCAAACC
* *
113325276 TTATCTCTTTGAAATTGCAATGGA
66 TTATCTCTCTGAAATTGCAATAGA
* * * * * *
113325300 GCAGGCTGAAGTCACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACAAAAAATGGCGAATC
1 GCAGGATGAAGTCACAAGTCCTATCTCCCTAAAGTTACAGCGGAGCAGACAAAAAATAGCAAACC
113325365 TTATCTCTCTG
66 TTATCTCTCTG
113325376 GAGTTGGAGT
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
89 62 1.00
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (89 bp):
GCAGGATGAAGTCACAAGTCCTATCTCCCTAAAGTTACAGCGGAGCAGACAAAAAATAGCAAACC
TTATCTCTCTGAAATTGCAATAGA
Found at i:113325422 original size:31 final size:31
Alignment explanation
Indices: 113325362--113325423 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
113325352 AAAATGGCGA
* * **
113325362 ATCTTATCTCTCTGGAGTTGGAGTAGAGCAG
1 ATCTTATCTATCTGAAGTTACAGTAGAGCAG
*
113325393 ATCTTATCTATCTGAAGTTACAGTGGAGCAG
1 ATCTTATCTATCTGAAGTTACAGTAGAGCAG
113325424 GTTGAAGTCA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (31 bp):
ATCTTATCTATCTGAAGTTACAGTAGAGCAG
Found at i:113325488 original size:120 final size:122
Alignment explanation
Indices: 113325296--113325642 Score: 423
Period size: 130 Copynumber: 2.8 Consensus size: 122
113325286 GAAATTGCAA
* * * * *
113325296 TGGAGCAGGCTGAAGTCACAAGTCTTATCTCCCTAAAGTTGCAGCGGAGCAGACAAAAAATGGCG
1 TGGAGCAGGTTGAAGTCACAAGTCTTATCTCTCTGAAGTTGCAGCGGAACAGACTAAAAATGGCG
* * * *
113325361 AATCTTATCTCTCTGGAGTTGGAGTAGAGCAG-AT-CTTATCTATCTGAAGTTACAG
66 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGAATACTTATATATCTAAAGTTACAG
* *
113325416 TGGAGCAGGTTGAAGTCACAAGTCTCATCTCTCTGAAGTTGCAGCGGAACAAACTAAAAATGGCG
1 TGGAGCAGGTTGAAGTCACAAGTCTTATCTCTCTGAAGTTGCAGCGGAACAGACTAAAAATGGCG
* *
113325481 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCATAGCAAACCTTATATCTCTAAAGTTGCAG
66 AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGA--AT-----A-CTTATATATCTAAAGTTACAG
* *
113325546 TGGAGCAGGTTGAAGTCACAAGTCTTACCT-TCTTGAAGTTACAGC-GAATCAGACTAAAAATGG
1 TGGAGCAGGTTGAAGTCACAAGTCTTATCTCTC-TGAAGTTGCAGCGGAA-CAGACTAAAAATGG
* *
113325609 CGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAG
64 CGAATCTTATCTCTCTGAAGTTGTAGTAGAGCAG
113325643 GTTGAAAACT
Statistics
Matches: 196, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
120 88 0.45
123 2 0.01
129 5 0.03
130 101 0.52
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (122 bp):
TGGAGCAGGTTGAAGTCACAAGTCTTATCTCTCTGAAGTTGCAGCGGAACAGACTAAAAATGGCG
AATCTTATCTCTCTGAAGTTGTAGTAGAGCAGAATACTTATATATCTAAAGTTACAG
Found at i:113327354 original size:12 final size:12
Alignment explanation
Indices: 113327337--113327368 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
113327327 AAATTTAGAT
113327337 TTATTATTGTTA
1 TTATTATTGTTA
113327349 TTATTATTGTTA
1 TTATTATTGTTA
*
113327361 TCATTATT
1 TTATTATT
113327369 ATTTACGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.66
Consensus pattern (12 bp):
TTATTATTGTTA
Found at i:113328724 original size:27 final size:30
Alignment explanation
Indices: 113328685--113328739 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
113328675 TAAAGTGAAT
*
113328685 AAAAGAAACAGAGTAAAGA-AA-AGAAACA
1 AAAAGAAACAGAGAAAAGAGAACAGAAACA
*
113328713 AAAAG-AATAGAGAAAAGAGAACAGAAA
1 AAAAGAAACAGAGAAAAGAGAACAGAAA
113328740 ACATTCGAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 11 0.48
28 7 0.30
29 5 0.22
ACGTcount: A:0.71, C:0.05, G:0.20, T:0.04
Consensus pattern (30 bp):
AAAAGAAACAGAGAAAAGAGAACAGAAACA
Found at i:113330018 original size:16 final size:16
Alignment explanation
Indices: 113329993--113330026 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
113329983 AGGTAAGTAT
* *
113329993 TGATATTTGAGTTGAA
1 TGATAATTGAATTGAA
113330009 TGATAATTGAATTGAA
1 TGATAATTGAATTGAA
113330025 TG
1 TG
113330027 GTAAATGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (16 bp):
TGATAATTGAATTGAA
Found at i:113330241 original size:23 final size:23
Alignment explanation
Indices: 113330215--113330301 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
113330205 GCTTTACTGA
* *
113330215 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
113330238 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
113330259 TCAGGCACCTCGTGTGTC--ATT
1 TCAGGCACCTCATGTGTCGTATT
* * *
113330280 TTAGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
113330302 ACTGATCAGG
Statistics
Matches: 53, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.02
21 32 0.60
23 20 0.38
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:113330262 original size:21 final size:22
Alignment explanation
Indices: 113330227--113330276 Score: 84
Period size: 21 Copynumber: 2.3 Consensus size: 22
113330217 AGGCACTTTA
113330227 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA-TTCAGGCACCTCG
113330250 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAGGCACCTCG
113330271 TGTGTC
1 TGTGTC
113330277 ATTTTAGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 18 0.67
23 9 0.33
ACGTcount: A:0.12, C:0.26, G:0.28, T:0.34
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCACCTCG
Found at i:113332413 original size:21 final size:21
Alignment explanation
Indices: 113332388--113332431 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
113332378 AAACCATCCA
113332388 AAAATACAATACTACTTAATC
1 AAAATACAATACTACTTAATC
*
113332409 AAAATGCAATACTACTTAATC
1 AAAATACAATACTACTTAATC
113332430 AA
1 AA
113332432 TACTACTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATACAATACTACTTAATC
Found at i:113337421 original size:33 final size:36
Alignment explanation
Indices: 113337384--113337455 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
113337374 AATTCCACGT
*
113337384 CAAATTGAAAGAG-AAAAGA-A-AATAATTC-AATTC
1 CAAATGGAAAGAGAAAAAGAGAGAATAA-TCAAATTC
*
113337417 CAAATGGAAATAGAAAAAGAGAGAATAATCAAATTC
1 CAAATGGAAAGAGAAAAAGAGAGAATAATCAAATTC
113337453 CAA
1 CAA
113337456 TGTGAAGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
33 11 0.33
34 6 0.18
35 3 0.09
36 13 0.39
ACGTcount: A:0.58, C:0.10, G:0.14, T:0.18
Consensus pattern (36 bp):
CAAATGGAAAGAGAAAAAGAGAGAATAATCAAATTC
Found at i:113343416 original size:22 final size:24
Alignment explanation
Indices: 113343372--113343462 Score: 91
Period size: 23 Copynumber: 4.0 Consensus size: 24
113343362 CTGCAGCCCG
* *
113343372 CATGAGCTTATCGTTTCAACTCTT
1 CATGAGCTTACCGTTTCAGCTCTT
113343396 -ATGAGCTTACCG-TTCAGCTCTT
1 CATGAGCTTACCGTTTCAGCTCTT
113343418 CA-GAGCTTACCGTTTCAG-TCTT
1 CATGAGCTTACCGTTTCAGCTCTT
* * * * *
113343440 TAGGGGTTTACCGTTTCAACTCT
1 CATGAGCTTACCGTTTCAGCTCT
113343463 ACGAAGCTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
22 24 0.42
23 30 0.53
24 3 0.05
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (24 bp):
CATGAGCTTACCGTTTCAGCTCTT
Found at i:113343473 original size:23 final size:23
Alignment explanation
Indices: 113343376--113343477 Score: 61
Period size: 23 Copynumber: 4.5 Consensus size: 23
113343366 AGCCCGCATG
* *
113343376 AGCTTATCGTTTCAACTCTTATG-
1 AGCTTACCGTTTCAACTC-TACGA
* *
113343399 AGCTTACCG-TTCAGCTCTTC-A
1 AGCTTACCGTTTCAACTCTACGA
* * *
113343420 GAGCTTACCGTTTCAGTCTTTA-GG
1 -AGCTTACCGTTTCA-ACTCTACGA
* *
113343444 GGTTTACCGTTTCAACTCTACGA
1 AGCTTACCGTTTCAACTCTACGA
113343467 AGCTTA-CGTTT
1 AGCTTACCGTTT
113343478 AGCTCAATTG
Statistics
Matches: 58, Mismatches: 15, Indels: 13
0.67 0.17 0.15
Matches are distributed among these distances:
21 1 0.02
22 25 0.43
23 29 0.50
24 3 0.05
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.38
Consensus pattern (23 bp):
AGCTTACCGTTTCAACTCTACGA
Found at i:113350603 original size:48 final size:48
Alignment explanation
Indices: 113350547--113350715 Score: 212
Period size: 48 Copynumber: 3.5 Consensus size: 48
113350537 TATGTCCTAG
*
113350547 ACATGGTCTTACACTAGCTCTCGTAACAATGCCGATGCCATGTTCCAA
1 ACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
* * * * ** * * * *
113350595 ACATGGTCTTACATTGGATCACATATTAAGGCCGATGGCATGTCCCAG
1 ACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
**
113350643 ACATGGTCTTACACTAGCTCTCATAACAATGTTGATGCCATGTTCCAA
1 ACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
*
113350691 ACATGGTCTTACACTAGCTCACATA
1 ACATGGTCTTACACTAGCTCTCATA
113350716 TACCCTAATG
Statistics
Matches: 97, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 97 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (48 bp):
ACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAA
Found at i:113350713 original size:96 final size:96
Alignment explanation
Indices: 113350538--113350716 Score: 295
Period size: 96 Copynumber: 1.9 Consensus size: 96
113350528 TGCCAATGCT
* *
113350538 ATGTCCTAGACATGGTCTTACACTAGCTCTCGTAACAATGCCGATGCCATGTTCCAAACATGGTC
1 ATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACATGGTC
* *
113350603 TTACATTGGATCACATATTAAGGCCGATGGC
66 TTACACTAGATCACATATTAAGGCCGATGGC
**
113350634 ATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGTTGATGCCATGTTCCAAACATGGTC
1 ATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACATGGTC
*
113350699 TTACACTAGCTCACATAT
66 TTACACTAGATCACATAT
113350717 ACCCTAATGG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 76 1.00
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (96 bp):
ATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAATGCCGATGCCATGTTCCAAACATGGTC
TTACACTAGATCACATATTAAGGCCGATGGC
Found at i:113356742 original size:40 final size:40
Alignment explanation
Indices: 113356698--113356817 Score: 145
Period size: 40 Copynumber: 3.0 Consensus size: 40
113356688 TTAAGTTACC
* * *
113356698 ATAGTGAATCAGGAACAAATCTTATCCACTTTAAATAT-TT
1 ATAGTGAATCAGGAATAAATCCTATTCACTTT-AATATCTT
* *
113356738 ATAGTGAATCAGGAATAAATCCTATTCACCTTAATTTCTT
1 ATAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTT
* *
113356778 TTAGTGAATCAAGAATAAATCCTATTCACTTTTAAT-TCTT
1 ATAGTGAATCAGGAATAAATCCTATTCAC-TTTAATATCTT
113356818 GAGAAGGCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.06
40 61 0.87
41 5 0.07
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (40 bp):
ATAGTGAATCAGGAATAAATCCTATTCACTTTAATATCTT
Found at i:113358794 original size:23 final size:25
Alignment explanation
Indices: 113358768--113358814 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
113358758 TATCATTCAT
*
113358768 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
113358791 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
113358815 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:113359246 original size:46 final size:46
Alignment explanation
Indices: 113359075--113359256 Score: 222
Period size: 46 Copynumber: 4.0 Consensus size: 46
113359065 TTTGACGTGA
* * * * * * *
113359075 TGCCATAGTGTCTTTCAACTATGGTTTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
113359121 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
113359167 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
113359213 TGCCATGGTATCTTTCAACCATGGTCTTCCACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
113359257 AGAGCACACT
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.03
46 116 0.97
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:113361939 original size:14 final size:14
Alignment explanation
Indices: 113361920--113361946 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
113361910 ACAAAGGAAG
113361920 AAAAAAATAAAGAA
1 AAAAAAATAAAGAA
113361934 AAAAAAATAAAGA
1 AAAAAAATAAAGA
113361947 GAGGGATAAT
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:0.85, C:0.00, G:0.07, T:0.07
Consensus pattern (14 bp):
AAAAAAATAAAGAA
Found at i:113363557 original size:6 final size:6
Alignment explanation
Indices: 113363547--113363617 Score: 63
Period size: 6 Copynumber: 11.5 Consensus size: 6
113363537 GGGACGATTT
* * * **
113363547 TATTAT TATTAT TATTTAA TATTAA TA-AAA TTATTTT TATTTAA TATTAA
1 TATTAA TATTAA TA-TTAA TATTAA TATTAA -TATTAA TA-TTAA TATTAA
113363597 TATTAA TATTAA TATTAA TAT
1 TATTAA TATTAA TATTAA TAT
113363618 AAAATTTAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
5 2 0.04
6 43 0.80
7 9 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TATTAA
Found at i:113363579 original size:25 final size:25
Alignment explanation
Indices: 113363551--113363598 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
113363541 CGATTTTATT
113363551 ATTATTATTATTTAATATTAATAAA
1 ATTATTATTATTTAATATTAATAAA
*
113363576 ATTATTTTTATTTAATATTAATA
1 ATTATTATTATTTAATATTAATA
113363599 TTAATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTATTATTATTTAATATTAATAAA
Found at i:113363606 original size:25 final size:25
Alignment explanation
Indices: 113363547--113363617 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
113363537 GGGACGATTT
*
113363547 TATTATTATTATTATTTAATATTAA
1 TATTAATATTATTATTTAATATTAA
* *
113363572 TA-AAATTATTTTTATTTAATATTAA
1 TATTAA-TATTATTATTTAATATTAA
*
113363597 TATTAATATTAATA-TTAATAT
1 TATTAATATTATTATTTAATAT
113363618 AAAATTTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 8 0.21
25 28 0.74
26 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTAATATTATTATTTAATATTAA
Found at i:113363626 original size:18 final size:17
Alignment explanation
Indices: 113363585--113363626 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
113363575 AATTATTTTT
*
113363585 ATTTAATATTAATATTA
1 ATTTAATATTAATATAA
113363602 ATATTAATATTAATATAAA
1 AT-TTAATATTAATAT-AA
113363621 ATTTAA
1 ATTTAA
113363627 ATTTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 17 0.77
19 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTAATATTAATATAA
Found at i:113379888 original size:20 final size:18
Alignment explanation
Indices: 113379849--113379906 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 18
113379839 AAAATTATTA
*
113379849 TTTTAGAATTTTTTT-A-
1 TTTTAAAATTTTTTTAAT
113379865 TTTTAAAATTTATTTTATAT
1 TTTTAAAATTT-TTTTA-AT
*
113379885 TTTTAGAATTTTTTTAAT
1 TTTTAAAATTTTTTTAAT
113379903 TTTT
1 TTTT
113379907 TTTTATAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
16 10 0.28
17 4 0.11
18 6 0.17
19 6 0.17
20 10 0.28
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTAAAATTTTTTTAAT
Found at i:113379908 original size:20 final size:18
Alignment explanation
Indices: 113379843--113379907 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 18
113379833 GATCTTAAAA
113379843 TTATTATTTTAGAATTTTT
1 TTATT-TTTTAGAATTTTT
*
113379862 TTA--TTTTAAAATTTATT
1 TTATTTTTTAGAATTT-TT
113379879 TTATATTTTTAGAATTTTT
1 TTAT-TTTTTAGAATTTTT
113379898 TTAATTTTTT
1 TT-ATTTTTT
113379908 TTTATAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 10 0.26
17 5 0.13
19 12 0.31
20 12 0.31
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTATTTTTTAGAATTTTT
Found at i:113384193 original size:42 final size:42
Alignment explanation
Indices: 113384113--113384195 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
113384103 TCTCCTACAG
* * *
113384113 CGCATATTATTAAGGAAGACAACCACGCATAAGTACGAAAAA
1 CGCATATTATAAAGGAAGACAACCACACATAAGCACGAAAAA
* *
113384155 CGCATATTATAAAGGAAGACAACCGCACATGAGCACGAAAA
1 CGCATATTATAAAGGAAGACAACCACACATAAGCACGAAAA
113384196 TCTATCGTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.47, C:0.20, G:0.18, T:0.14
Consensus pattern (42 bp):
CGCATATTATAAAGGAAGACAACCACACATAAGCACGAAAAA
Found at i:113385350 original size:13 final size:13
Alignment explanation
Indices: 113385332--113385358 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
113385322 GATTTTCTTA
113385332 TATTTTATTTTAC
1 TATTTTATTTTAC
113385345 TATTTTATTTTAC
1 TATTTTATTTTAC
113385358 T
1 T
113385359 TTGTATTACT
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:0.22, C:0.07, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTTTATTTTAC
Found at i:113388935 original size:55 final size:55
Alignment explanation
Indices: 113388846--113388951 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 55
113388836 TTAATGTAAG
* * * *
113388846 AGTCGATTTAAATATATAAATAATCAATTCAAAAGAAACATTATTTCAACACGAT
1 AGTCAATTTAAACATATAAAAAATCAATTCAAAAGAAACAGTATTTCAACACGAT
113388901 AGTCAATTTAAACATATAAAAAAT-ATATTCAAAAGAAACAGTATTTCAACA
1 AGTCAATTTAAACATATAAAAAATCA-ATTCAAAAGAAACAGTATTTCAACA
113388952 ATTAAGACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 1 0.02
55 45 0.98
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.29
Consensus pattern (55 bp):
AGTCAATTTAAACATATAAAAAATCAATTCAAAAGAAACAGTATTTCAACACGAT
Found at i:113393114 original size:31 final size:32
Alignment explanation
Indices: 113393073--113393135 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
113393063 TTATTTATAA
*
113393073 AAGATATTTAT-TAATTAAATA-ATTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
113393104 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
113393136 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:113393298 original size:15 final size:15
Alignment explanation
Indices: 113393245--113393302 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
113393235 AAAGTAAAAC
*
113393245 AAAAGAAAAAGAAATG
1 AAAAGAAACAGAAA-G
* *
113393261 AAGAA-AAAAAGATAG
1 AA-AAGAAACAGAAAG
113393276 AAAAGAAACAGAAAG
1 AAAAGAAACAGAAAG
*
113393291 AAACGAAACAGA
1 AAAAGAAACAGA
113393303 GAGCAAGGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 2 0.06
15 22 0.61
16 10 0.28
17 2 0.06
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.03
Consensus pattern (15 bp):
AAAAGAAACAGAAAG
Found at i:113394892 original size:12 final size:12
Alignment explanation
Indices: 113394875--113394899 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
113394865 GCCGACTACT
113394875 GTTACTGTTACC
1 GTTACTGTTACC
113394887 GTTACTGTTACC
1 GTTACTGTTACC
113394899 G
1 G
113394900 ATTCGGAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:113395049 original size:53 final size:47
Alignment explanation
Indices: 113394934--113395046 Score: 163
Period size: 47 Copynumber: 2.4 Consensus size: 47
113394924 TTGTTACTGT
**
113394934 TACCATTACTGTTACTGTTTTGGATTTGTTCCGATGAGGTACTCCGTG
1 TACCA-TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCCGTG
*
113394982 TACCATACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCTGTG
1 TACCATACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCCGTG
* * *
113395029 TACCGTATTGCTACTGTT
1 TACCATACTGTTACTGTT
113395047 ACTATTACTG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 54 0.92
48 5 0.08
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.41
Consensus pattern (47 bp):
TACCATACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTCCGTG
Found at i:113395222 original size:18 final size:18
Alignment explanation
Indices: 113395174--113395259 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
113395164 AAAGATCGAC
*
113395174 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAACTT-AT
113395193 TGTTACTGAATAACTTAT
1 TGTTACTGAATAACTTAT
* * *
113395211 TATTATTGAATAATTTAT
1 TGTTACTGAATAACTTAT
* * *
113395229 TGTTACCGAATAACTGAC
1 TGTTACTGAATAACTTAT
113395247 TGTTACTGAATAA
1 TGTTACTGAATAA
113395260 ATAATCGTTC
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
18 41 0.73
19 15 0.27
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (18 bp):
TGTTACTGAATAACTTAT
Found at i:113395257 original size:36 final size:37
Alignment explanation
Indices: 113395171--113395259 Score: 126
Period size: 36 Copynumber: 2.4 Consensus size: 37
113395161 TGGAAAGATC
*
113395171 GACTGTTACTGAATAATTTAATTGTTACTGAATAACT
1 GACTGTTACTGAATAATTTAATTGTTACCGAATAACT
* * * *
113395208 TATTATTATTGAATAATTT-ATTGTTACCGAATAACT
1 GACTGTTACTGAATAATTTAATTGTTACCGAATAACT
113395244 GACTGTTACTGAATAA
1 GACTGTTACTGAATAA
113395260 ATAATCGTTC
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 28 0.65
37 15 0.35
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (37 bp):
GACTGTTACTGAATAATTTAATTGTTACCGAATAACT
Found at i:113400517 original size:24 final size:24
Alignment explanation
Indices: 113400490--113400541 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
113400480 TTAGTAAGTC
*
113400490 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
113400514 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
113400538 AAAT
1 AAAT
113400542 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:113402487 original size:24 final size:24
Alignment explanation
Indices: 113402460--113402511 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
113402450 TTAGTAAGTC
*
113402460 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
113402484 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
113402508 AAAT
1 AAAT
113402512 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:113409849 original size:35 final size:36
Alignment explanation
Indices: 113409799--113409867 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 36
113409789 ATAACTTAAT
113409799 ATATTATAATTACATTCAATAAT-TCAAATAAAAAAA
1 ATATTATAATTACATT-AATAATCTCAAATAAAAAAA
* * *
113409835 ATATTAT-TTTACATTAATTATCTCAATTAAAAA
1 ATATTATAATTACATTAATAATCTCAAATAAAAA
113409868 TACAACATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
34 5 0.17
35 17 0.59
36 7 0.24
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (36 bp):
ATATTATAATTACATTAATAATCTCAAATAAAAAAA
Found at i:113422673 original size:30 final size:30
Alignment explanation
Indices: 113422637--113422693 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
113422627 GGAGATAAAA
113422637 AATTGCT-TCTGTTAGTTTCTTAAGATTTAG
1 AATTGCTAT-TGTTAGTTTCTTAAGATTTAG
*
113422667 AATTGCTATTGTTAGTTTCTTGAGATT
1 AATTGCTATTGTTAGTTTCTTAAGATT
113422694 GAAAGCTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.23, C:0.09, G:0.18, T:0.51
Consensus pattern (30 bp):
AATTGCTATTGTTAGTTTCTTAAGATTTAG
Found at i:113425527 original size:3 final size:3
Alignment explanation
Indices: 113425519--113425550 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
113425509 TGAAAGCAAG
*
113425519 AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
113425551 AAAACCAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:113425800 original size:26 final size:24
Alignment explanation
Indices: 113425746--113425820 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
113425736 AATGATAAGG
*
113425746 ATAATATATAAAAAAATATACATG
1 ATAATATATAAAAAAATATACATA
* *
113425770 A-AATAGTATAAAAAAATGTATATA
1 ATAATA-TATAAAAAAATATACATA
113425794 ACTAATAATATAAAAATATATATACAT
1 A-TAAT-ATATAAAAA-A-ATATACAT
113425821 GTAATAACAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
23 4 0.10
24 17 0.43
26 11 0.28
27 2 0.05
28 6 0.15
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (24 bp):
ATAATATATAAAAAAATATACATA
Found at i:113425825 original size:26 final size:26
Alignment explanation
Indices: 113425747--113425840 Score: 95
Period size: 26 Copynumber: 3.7 Consensus size: 26
113425737 ATGATAAGGA
113425747 TAAT-ATATAAAAA-A-ATATACATG
1 TAATAATATAAAAATATATATACATG
* * * * * **
113425770 AAATAGTATAAAAAAATGTATATAAC
1 TAATAATATAAAAATATATATACATG
113425796 TAATAATATAAAAATATATATACATG
1 TAATAATATAAAAATATATATACATG
*
113425822 TAATAACATAAAAATATAT
1 TAATAATATAAAAATATAT
113425841 GAATAGTATG
Statistics
Matches: 54, Mismatches: 14, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
23 3 0.06
24 8 0.15
25 1 0.02
26 42 0.78
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (26 bp):
TAATAATATAAAAATATATATACATG
Found at i:113426177 original size:18 final size:18
Alignment explanation
Indices: 113426154--113426200 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
113426144 GTATAAGTAG
113426154 ATATAATAAT-AAATAATA
1 ATATAATAATAAAAT-ATA
* *
113426172 ATATAAAAAGAAAATATA
1 ATATAATAATAAAATATA
113426190 ATATAATAATA
1 ATATAATAATA
113426201 GTGATAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
ATATAATAATAAAATATA
Found at i:113426209 original size:12 final size:12
Alignment explanation
Indices: 113426192--113426220 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
113426182 AAAATATAAT
113426192 ATAATAATAGTG
1 ATAATAATAGTG
113426204 ATAATAATAGTG
1 ATAATAATAGTG
113426216 ATAAT
1 ATAAT
113426221 GTTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (12 bp):
ATAATAATAGTG
Found at i:113426383 original size:3 final size:3
Alignment explanation
Indices: 113426364--113426398 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
113426354 ATAAATAAAA
* *
113426364 AAT ACT AAT ACT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
113426399 GAGTGATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:113426667 original size:29 final size:25
Alignment explanation
Indices: 113426616--113426684 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
113426606 TTAGGAAATA
113426616 ATACTATGTATAAAAATATATACAT
1 ATACTATGTATAAAAATATATACAT
*
113426641 ATACATATGTAATAAAAA-ATA-ATAT
1 ATAC-TATGT-ATAAAAATATATACAT
* *
113426666 ACACTAATGTATAATAATA
1 ATACT-ATGTATAAAAATA
113426685 ATAATAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
24 7 0.19
25 15 0.41
26 8 0.22
27 7 0.19
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.33
Consensus pattern (25 bp):
ATACTATGTATAAAAATATATACAT
Found at i:113426682 original size:3 final size:3
Alignment explanation
Indices: 113426676--113426748 Score: 89
Period size: 3 Copynumber: 25.0 Consensus size: 3
113426666 ACACTAATGT
*
113426676 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG AT- ATGA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
* *
113426719 AGA ATA ATA ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
113426749 GTGTTTAGAC
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
2 6 0.10
3 56 0.89
4 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:113428042 original size:10 final size:10
Alignment explanation
Indices: 113428027--113428071 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
113428017 AAATTTTAAC
113428027 TTTTTTAT-A
1 TTTTTTATAA
113428036 TTTTTT-TGAA
1 TTTTTTAT-AA
*
113428046 -TTTTTAAAA
1 TTTTTTATAA
113428055 TTTTTTATAA
1 TTTTTTATAA
113428065 TTTTTTA
1 TTTTTTA
113428072 AAAATATAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
8 1 0.03
9 13 0.43
10 16 0.53
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:113428042 original size:19 final size:18
Alignment explanation
Indices: 113428020--113428073 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 18
113428010 ATTTTTAAAA
*
113428020 TTTTAACTTTTTTATATTT
1 TTTTAA-TTTTTTAAATTT
*
113428039 TTTTGAATTTTTAAAATTT
1 TTTT-AATTTTTTAAATTT
113428058 TTTATAATTTTTTAAA
1 TTT-TAATTTTTTAAA
113428074 AATATAACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 27 0.90
20 3 0.10
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTAATTTTTTAAATTT
Found at i:113428085 original size:28 final size:28
Alignment explanation
Indices: 113428011--113428085 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
113428001 ATTTAGAAAA
*
113428011 TTTTTAAAATTTTAAC-TTTTTTATATT
1 TTTTTAAAATTTTAACATTTTTTATAAT
* * *
113428038 TTTTTGAATTTTTAAAATTTTTTATAAT
1 TTTTTAAAATTTTAACATTTTTTATAAT
* *
113428066 TTTTTAAAAATATAACATTT
1 TTTTTAAAATTTTAACATTT
113428086 GAAATTTTTA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 13 0.34
28 25 0.66
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (28 bp):
TTTTTAAAATTTTAACATTTTTTATAAT
Found at i:113428151 original size:19 final size:18
Alignment explanation
Indices: 113428091--113428151 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 18
113428081 CATTTGAAAT
*
113428091 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTT-AA
*
113428109 TTTTAAAAATTATTTTTCAT
1 TTTTAAAAATTA-TTTT-AA
*
113428129 TTTTGAAAATTATTTTAA
1 TTTTAAAAATTATTTTAA
113428147 GTTTT
1 -TTTT
113428152 TTTTGGTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 9 0.26
19 10 0.29
20 16 0.46
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTAAAAATTATTTTAA
Found at i:113428152 original size:20 final size:20
Alignment explanation
Indices: 113428038--113428144 Score: 69
Period size: 20 Copynumber: 5.2 Consensus size: 20
113428028 TTTTTATATT
113428038 TTTTTGAATTTTT-AAAATT-
1 TTTTT-AATTTTTAAAAATTA
113428057 TTTTATAATTTTTTAAAAATATAACA
1 TTTT-TAA-TTTTTAAAAAT-T---A
** *
113428083 TTTGAAATTTTTATAAA-TA
1 TTTTTAATTTTTAAAAATTA
*
113428102 TTTTGAA-TTTTAAAAATTA
1 TTTTTAATTTTTAAAAATTA
* *
113428121 TTTTTCATTTTTGAAAATTA
1 TTTTTAATTTTTAAAAATTA
113428141 TTTT
1 TTTT
113428145 AAGTTTTTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
18 8 0.12
19 19 0.28
20 21 0.30
21 5 0.07
22 2 0.03
24 9 0.13
25 2 0.03
26 3 0.04
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTTTAATTTTTAAAAATTA
Done.