Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 61 of 129
Found at i:11820249 original size:20 final size:20
Alignment explanation
Indices: 11820205--11820269 Score: 78
Period size: 20 Copynumber: 3.1 Consensus size: 20
11820195 TAATAAATCT
11820205 AATAAAACAAATAAATCAACTAAA
1 AATAAAA-AAATAAA--AA-TAAA
*
11820229 AA-AATAAAATAAAAATAAA
1 AATAAAAAAATAAAAATAAA
11820248 AATAAAAAAATAAAAATAAA
1 AATAAAAAAATAAAAATAAA
11820268 AA
1 AA
11820270 CCAATTGGGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 6 0.16
20 20 0.53
22 7 0.18
23 3 0.08
24 2 0.05
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (20 bp):
AATAAAAAAATAAAAATAAA
Found at i:11820472 original size:6 final size:6
Alignment explanation
Indices: 11820461--11820513 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
11820451 TTGACACTTT
11820461 TTTTTG TTTTTG TTTTT- TATTTT- TTTTTG -TTTTG -TTTTG TTTTT-
1 TTTTTG TTTTTG TTTTTG T-TTTTG TTTTTG TTTTTG TTTTTG TTTTTG
*
11820505 TTTTGG TTT
1 TTTTTG TTT
11820514 GTTAAAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
5 19 0.45
6 23 0.55
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.85
Consensus pattern (6 bp):
TTTTTG
Found at i:11820476 original size:5 final size:5
Alignment explanation
Indices: 11820458--11820516 Score: 54
Period size: 5 Copynumber: 12.4 Consensus size: 5
11820448 AACTTGACAC
* *
11820458 TTTT- TTTTG TTTTTG TTTT- TTAT- TTTT- TTTTG TTTTG TTTTG TTTTT
1 TTTTG TTTTG -TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
*
11820505 TTTTG GTTTG TT
1 TTTTG TTTTG TT
11820517 AAAATTTTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
4 14 0.30
5 27 0.59
6 5 0.11
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.85
Consensus pattern (5 bp):
TTTTG
Found at i:11820486 original size:22 final size:22
Alignment explanation
Indices: 11820463--11820513 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
11820453 GACACTTTTT
11820463 TTTGT-TTTTGTTTT-TTATTTT
1 TTTGTGTTTTGTTTTGTT-TTTT
*
11820484 TTTTTGTTTTGTTTTGTTTTTT
1 TTTGTGTTTTGTTTTGTTTTTT
11820506 TTTG-GTTT
1 TTTGTGTTT
11820514 GTTAAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 8 0.31
22 16 0.62
23 2 0.08
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.84
Consensus pattern (22 bp):
TTTGTGTTTTGTTTTGTTTTTT
Found at i:11820514 original size:15 final size:15
Alignment explanation
Indices: 11820458--11820516 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
11820448 AACTTGACAC
11820458 TTTTTTTTGTTTT-T
1 TTTTTTTTGTTTTGT
*
11820472 GTTTTTTAT-TTTT-T
1 -TTTTTTTTGTTTTGT
*
11820486 TTTGTTTTGTTTTGT
1 TTTTTTTTGTTTTGT
*
11820501 TTTTTTTTGGTTTGT
1 TTTTTTTTGTTTTGT
11820516 T
1 T
11820517 AAAATTTTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 6 0.16
14 9 0.24
15 22 0.59
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.85
Consensus pattern (15 bp):
TTTTTTTTGTTTTGT
Found at i:11820514 original size:20 final size:20
Alignment explanation
Indices: 11820475--11820516 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
11820465 TGTTTTTGTT
*
11820475 TTTTATTTTTTTTTGTTTTG
1 TTTTATTTTTTTTTGGTTTG
*
11820495 TTTTGTTTTTTTTTGGTTTG
1 TTTTATTTTTTTTTGGTTTG
11820515 TT
1 TT
11820517 AAAATTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.02, C:0.00, G:0.14, T:0.83
Consensus pattern (20 bp):
TTTTATTTTTTTTTGGTTTG
Found at i:11820716 original size:41 final size:41
Alignment explanation
Indices: 11820532--11820851 Score: 302
Period size: 41 Copynumber: 7.4 Consensus size: 41
11820522 TTTGATCAAA
* * * *
11820532 GCTCCTCTAAGCAGAGGCTTAACGACTATGAGAAACATAAACAAG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGA-AAA-AT-AA-ATG
11820577 GCTCCTCTAATCAGAGGCTCAACGATTACGACTTTAGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCT---C-A--ACGACTTT-GAAAAATAAATG
* * *
11820625 GCTCCTATAATAAGAGGCTCAACGACTTTAGAAAAATAAATT
1 GCTCCTCTAATCAGAGGCTCAACGACTTT-GAAAAATAAATG
* * * * *
11820667 ACTTCTCTAAACAGAGGCTCAAAGACTTTGAAAAATAAACG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
*
11820708 GCTCCTCTAATCAGAGGCTCAACGACTTTAAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
* * *
11820749 GCTCCTCTAATCAGAGGCTCAACGATTTTAAAAAAATAAATT
1 GCTCCTCTAATCAGAGGCTCAACGACTTT-GAAAAATAAATG
* *
11820791 GCTCCTCCAAACAGAGG-T-AACTATGACTTTGAAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAAC---GACTTTG-AAAAATAAATG
*
11820834 GCTCCTCTGATCAGAGGC
1 GCTCCTCTAATCAGAGGC
11820852 ACCACAACTT
Statistics
Matches: 231, Mismatches: 31, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
40 3 0.01
41 74 0.32
42 69 0.30
43 29 0.13
44 1 0.00
45 19 0.08
48 19 0.08
49 3 0.01
50 2 0.01
51 10 0.04
52 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
Found at i:11820784 original size:83 final size:84
Alignment explanation
Indices: 11820532--11820851 Score: 317
Period size: 83 Copynumber: 3.7 Consensus size: 84
11820522 TTTGATCAAA
* * * * *
11820532 GCTCCTCTAAGCAGAGGCTTAACGACTATGAGAAACATAAACAAGGCTCCTCTAATCAGAGGCTC
1 GCTCCTCTAATCAGAGGCTCAACGACT-TTAGAAAAAT-AA-ATGGCTCCTCTAATCAGAGGCTC
11820597 AACGATTACGACTTTAGAAAAATAAATG
63 AACGA-T-----TTTAGAAAAATAAATG
* * ** * * *
11820625 GCTCCTATAATAAGAGGCTCAACGACTTTAGAAAAATAAATTACTTCTCTAAACAGAGGCTCAAA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAAC
* *
11820690 GACTTT-GAAAAATAAACG
66 GATTTTAGAAAAATAAATG
11820708 GCTCCTCTAATCAGAGGCTCAACGACTTTA-AAAAATAAATGGCTCCTCTAATCAGAGGCTCAAC
1 GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAAC
* *
11820772 GATTTTAAAAAAATAAATT
66 GATTTTAGAAAAATAAATG
* * *
11820791 GCTCCTCCAAACAGAGG-T-AACTATGACTTT-GAAAAAATAAATGGCTCCTCTGATCAGAGGC
1 GCTCCTCTAATCAGAGGCTCAAC---GACTTTAG-AAAAATAAATGGCTCCTCTAATCAGAGGC
11820852 ACCACAACTT
Statistics
Matches: 193, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
81 3 0.02
82 35 0.18
83 63 0.33
84 9 0.05
85 28 0.15
90 22 0.11
91 2 0.01
92 8 0.04
93 23 0.12
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (84 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTAGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAAC
GATTTTAGAAAAATAAATG
Found at i:11822035 original size:63 final size:63
Alignment explanation
Indices: 11821935--11822190 Score: 178
Period size: 63 Copynumber: 3.8 Consensus size: 63
11821925 TCAGCATTAA
* * * *
11821935 CCATTTC-AAATAAATTTAATC-TTTGTCACTTGATCATCGTTCATAAGCTTTTCAATACTAG
1 CCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCGTTCATAAGCTTTTCAATACTAG
*
11821996 CCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCGTTCATAAGTGGTCATCGTTC-ATA
1 CCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCGTTCATAA---G-C-T-TTTCAAT-
*
11822060 AGCT-T
59 A-CTAG
* ** * *
11822065 CTCAATACTAGCTATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCTTTCATAAGCTTCT
1 C-C-AT--T-TC-A--AA---ACAAATTTCATCATCTGTCACTTGGTCATCGTTCATAAGCTTTT
* *
11822130 CAGTACCAG
55 CAATACTAG
* *
11822139 TCATTTCAAAACAAATTTCATCATCTGTCATTTGGTCATCGTTCATAAGCTT
1 CCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCGTTCATAAGCTT
11822191 CTCAGCACCA
Statistics
Matches: 151, Mismatches: 21, Indels: 44
0.70 0.10 0.20
Matches are distributed among these distances:
61 7 0.05
62 12 0.08
63 63 0.42
66 1 0.01
67 1 0.01
68 4 0.03
69 6 0.04
70 4 0.03
71 2 0.01
72 2 0.01
73 3 0.02
74 4 0.03
75 3 0.02
76 1 0.01
77 1 0.01
80 37 0.25
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (63 bp):
CCATTTCAAAACAAATTTCATCATCTGTCACTTGGTCATCGTTCATAAGCTTTTCAATACTAG
Found at i:11822050 original size:17 final size:17
Alignment explanation
Indices: 11822028--11822061 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11822018 ATCTGTCACT
11822028 TGGTCATCGTTCATAAG
1 TGGTCATCGTTCATAAG
11822045 TGGTCATCGTTCATAAG
1 TGGTCATCGTTCATAAG
11822062 CTTCTCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (17 bp):
TGGTCATCGTTCATAAG
Found at i:11822101 original size:80 final size:80
Alignment explanation
Indices: 11821968--11822124 Score: 287
Period size: 80 Copynumber: 2.0 Consensus size: 80
11821958 TGTCACTTGA
*
11821968 TCATCGTTCATAAGCTTTTCAATACTAGCCATTTCAAAACAAATTTCATCATCTGTCACTTGGTC
1 TCATCGTTCATAAGCTTCTCAATACTAGCCATTTCAAAACAAATTTCATCATCTGTCACTTGGTC
11822033 ATCGTTCATAAGTGG
66 ATCGTTCATAAGTGG
*
11822048 TCATCGTTCATAAGCTTCTCAATACTAGCTATTTCAAAACAAATTTCATCATCTGTCACTTGGTC
1 TCATCGTTCATAAGCTTCTCAATACTAGCCATTTCAAAACAAATTTCATCATCTGTCACTTGGTC
*
11822113 ATCTTTCATAAG
66 ATCGTTCATAAG
11822125 CTTCTCAGTA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (80 bp):
TCATCGTTCATAAGCTTCTCAATACTAGCCATTTCAAAACAAATTTCATCATCTGTCACTTGGTC
ATCGTTCATAAGTGG
Found at i:11822191 original size:63 final size:64
Alignment explanation
Indices: 11822045--11822202 Score: 257
Period size: 63 Copynumber: 2.5 Consensus size: 64
11822035 CGTTCATAAG
* *
11822045 TGGTCATCGTTCATAAGCTTCTCAATACTAG-CTATTTCAAAACAAATTTCATCATCTGTCACT
1 TGGTCATCGTTCATAAGCTTCTCAGTACCAGTCTATTTCAAAACAAATTTCATCATCTGTCACT
* *
11822108 TGGTCATCTTTCATAAGCTTCTCAGTACCAGTC-ATTTCAAAACAAATTTCATCATCTGTCATT
1 TGGTCATCGTTCATAAGCTTCTCAGTACCAGTCTATTTCAAAACAAATTTCATCATCTGTCACT
*
11822171 TGGTCATCGTTCATAAGCTTCTCAGCACCAGT
1 TGGTCATCGTTCATAAGCTTCTCAGTACCAGT
11822203 TTCGTCTATG
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
63 87 0.99
64 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (64 bp):
TGGTCATCGTTCATAAGCTTCTCAGTACCAGTCTATTTCAAAACAAATTTCATCATCTGTCACT
Found at i:11822905 original size:10 final size:10
Alignment explanation
Indices: 11822892--11822974 Score: 50
Period size: 10 Copynumber: 8.3 Consensus size: 10
11822882 TTTTTTTTCA
11822892 TTTTCTCATT
1 TTTTCTCATT
11822902 TTTTCTTC-TT
1 TTTTC-TCATT
*
11822912 TTTCCTCTATT
1 TTTTCTC-ATT
*
11822923 GTTT-T-ATT
1 TTTTCTCATT
11822931 TTTT-T-ATT
1 TTTTCTCATT
11822939 TTTTCATCATTTT
1 TTTTC-TCA--TT
**
11822952 TTTTCTTTTT
1 TTTTCTCATT
11822962 TTTTCTCATT
1 TTTTCTCATT
11822972 TTT
1 TTT
11822975 CATCCATTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
8 14 0.25
9 2 0.04
10 26 0.46
11 7 0.12
12 1 0.02
13 7 0.12
ACGTcount: A:0.08, C:0.14, G:0.01, T:0.76
Consensus pattern (10 bp):
TTTTCTCATT
Found at i:11822954 original size:22 final size:22
Alignment explanation
Indices: 11822929--11822974 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
11822919 TATTGTTTTA
11822929 TTTTT-TTATTTTTTCATCATTT
1 TTTTTCTTATTTTTTC-TCATTT
*
11822951 TTTTTCTTTTTTTTTCTCATTT
1 TTTTTCTTATTTTTTCTCATTT
11822973 TT
1 TT
11822975 CATCCATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTCTTATTTTTTCTCATTT
Found at i:11827123 original size:59 final size:60
Alignment explanation
Indices: 11827003--11827147 Score: 247
Period size: 59 Copynumber: 2.4 Consensus size: 60
11826993 TTTTTGTTTT
*
11827003 AACTTTTCCTCAAAAATATTTTTTAGAAAAAACTTATTTTCAAGGAAAATTGATACTTTC
1 AACTTTTCCTCAAAAATATTTTTTAGAAAAAACTTATTTTCAAGAAAAATTGATACTTTC
* *
11827063 AACTTTTCCTCAAAAATAATTTTTAG-AAAATCTTATTTTCAAGAAAAATTGATACTTTC
1 AACTTTTCCTCAAAAATATTTTTTAGAAAAAACTTATTTTCAAGAAAAATTGATACTTTC
11827122 AACTTTTCCTCAAAAAATATTTTTTA
1 AACTTTTCCTC-AAAAATATTTTTTA
11827148 AATCTTTTTA
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
59 42 0.52
60 38 0.47
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.41
Consensus pattern (60 bp):
AACTTTTCCTCAAAAATATTTTTTAGAAAAAACTTATTTTCAAGAAAAATTGATACTTTC
Found at i:11828520 original size:18 final size:18
Alignment explanation
Indices: 11828497--11828535 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11828487 TTGTTAAACT
11828497 AAAGATAAATCTAA-TAAA
1 AAAGATAAATC-AACTAAA
11828515 AAAGATAAATCAACTAAA
1 AAAGATAAATCAACTAAA
11828533 AAA
1 AAA
11828536 ATCAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.69, C:0.08, G:0.05, T:0.18
Consensus pattern (18 bp):
AAAGATAAATCAACTAAA
Found at i:11828542 original size:24 final size:24
Alignment explanation
Indices: 11828515--11828571 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
11828505 ATCTAATAAA
* *
11828515 AAAGATAAAT-CAACTAAAAAAAT
1 AAAGATAAATAAAAATAAAAAAAT
*
11828538 CAAAGAAAAATAAAAATAAAAAAAT
1 -AAAGATAAATAAAAATAAAAAAAT
*
11828563 AAAAATAAA
1 AAAGATAAA
11828572 AGGCCAATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.77, C:0.05, G:0.04, T:0.14
Consensus pattern (24 bp):
AAAGATAAATAAAAATAAAAAAAT
Found at i:11828560 original size:14 final size:14
Alignment explanation
Indices: 11828543--11828572 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11828533 AAAATCAAAG
11828543 AAAAATAAAAATAA
1 AAAAATAAAAATAA
11828557 AAAAATAAAAATAA
1 AAAAATAAAAATAA
11828571 AA
1 AA
11828573 GGCCAATTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:11829831 original size:18 final size:18
Alignment explanation
Indices: 11829805--11829839 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11829795 TATAAGTTAC
*
11829805 AATTCAATTTTTAATTAA
1 AATTCAATTTCTAATTAA
*
11829823 AATTTAATTTCTAATTA
1 AATTCAATTTCTAATTA
11829840 TTGTTTAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTCAATTTCTAATTAA
Found at i:11833071 original size:29 final size:31
Alignment explanation
Indices: 11833012--11833079 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
11833002 AAATATTGTG
*
11833012 AATAATTAAAACATCTAAAAATTATGTATAA
1 AATAATAAAAACATCTAAAAATTATGTATAA
*
11833043 AATAATAAAAATAT-TAAAATATTA-G-ATAA
1 AATAATAAAAACATCTAAAA-ATTATGTATAA
*
11833072 TATAATAA
1 AATAATAA
11833080 TTTTTTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 11 0.33
30 6 0.18
31 16 0.48
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (31 bp):
AATAATAAAAACATCTAAAAATTATGTATAA
Found at i:11839502 original size:34 final size:35
Alignment explanation
Indices: 11839459--11839528 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 35
11839449 TGTTCTATAG
*
11839459 AGTCAAATTTCTCATTTCACACAACCAAAA-CTAA
1 AGTCAAATTTCTCATTCCACACAACCAAAACCTAA
**
11839493 AGTCAAATTTCTCATTCCACATGACCAAAACCTAA
1 AGTCAAATTTCTCATTCCACACAACCAAAACCTAA
11839528 A
1 A
11839529 TGATCTTTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 27 0.84
35 5 0.16
ACGTcount: A:0.43, C:0.27, G:0.04, T:0.26
Consensus pattern (35 bp):
AGTCAAATTTCTCATTCCACACAACCAAAACCTAA
Found at i:11843354 original size:33 final size:30
Alignment explanation
Indices: 11843313--11843378 Score: 78
Period size: 33 Copynumber: 2.1 Consensus size: 30
11843303 TTTATTTTCT
** *
11843313 AAAATTATGTATTTTAATATTTTTATATAATA
1 AAAATTATGTATAATAAAATTTTT-TA-AATA
11843345 AAAATTTATGTATAATAAAATTTTTTAAATA
1 AAAA-TTATGTATAATAAAATTTTTTAAATA
11843376 AAA
1 AAA
11843379 GAAAAACTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 7 0.23
32 6 0.20
33 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (30 bp):
AAAATTATGTATAATAAAATTTTTTAAATA
Found at i:11843376 original size:17 final size:17
Alignment explanation
Indices: 11843331--11843378 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
11843321 GTATTTTAAT
11843331 ATTTTTATATAATAAAA
1 ATTTTTATATAATAAAA
* *
11843348 ATTTATGTATAAT-AAA
1 ATTTTTATATAATAAAA
11843364 ATTTTT-TA-AATAAAA
1 ATTTTTATATAATAAAA
11843379 GAAAAACTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 3 0.11
15 5 0.19
16 8 0.30
17 11 0.41
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
ATTTTTATATAATAAAA
Found at i:11845682 original size:22 final size:22
Alignment explanation
Indices: 11845654--11845708 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
11845644 AATCTTTAAC
*
11845654 AACTTAATAGTAAATTAATAAT
1 AACTTAATAGTAAATGAATAAT
*
11845676 AACTTAATAGTAAGTGAATAAT
1 AACTTAATAGTAAATGAATAAT
* *
11845698 AATTTAGTAGT
1 AACTTAATAGT
11845709 CAAAGTTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.49, C:0.04, G:0.11, T:0.36
Consensus pattern (22 bp):
AACTTAATAGTAAATGAATAAT
Found at i:11845872 original size:22 final size:22
Alignment explanation
Indices: 11845847--11845931 Score: 89
Period size: 22 Copynumber: 3.9 Consensus size: 22
11845837 AAAAAATAAG
* * *
11845847 TGATAACTTAGTAGTTAATTAT
1 TGATAACTTAATAGTAAATTAA
* * *
11845869 TGATAATTTACTAATAAATTAA
1 TGATAACTTAATAGTAAATTAA
*
11845891 TGATAACTTAATAGTAAATTAG
1 TGATAACTTAATAGTAAATTAA
* *
11845913 GGATAACTTTATAGTAAAT
1 TGATAACTTAATAGTAAAT
11845932 CAATTTTAGT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (22 bp):
TGATAACTTAATAGTAAATTAA
Found at i:11845918 original size:44 final size:44
Alignment explanation
Indices: 11845847--11845931 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
11845837 AAAAAATAAG
* * **
11845847 TGATAACTTAGTAGTTAATTATTGATAA-TTTACTAATAAATTAA
1 TGATAACTTAATAGTAAATTAGGGATAACTTTA-TAATAAATTAA
*
11845891 TGATAACTTAATAGTAAATTAGGGATAACTTTATAGTAAAT
1 TGATAACTTAATAGTAAATTAGGGATAACTTTATAATAAAT
11845932 CAATTTTAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 31 0.89
45 4 0.11
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (44 bp):
TGATAACTTAATAGTAAATTAGGGATAACTTTATAATAAATTAA
Found at i:11846001 original size:22 final size:21
Alignment explanation
Indices: 11845871--11846001 Score: 56
Period size: 22 Copynumber: 6.2 Consensus size: 21
11845861 TTAATTATTG
* * *
11845871 ATAATTTACTAATAAATTAATG
1 ATAATTTAATAGTAAA-TAATT
* ***
11845893 ATAACTTAATAGTAAATTAGGG
1 ATAATTTAATAGTAAA-TAATT
11845915 ATAACTTT-ATAGTAAATCAATT
1 ATAA-TTTAATAGTAAAT-AATT
* * *
11845937 TTAGTTTAATAGT-AATAAAT
1 ATAATTTAATAGTAAATAATT
* * *
11845957 -TGA--TAGTAGTAAATAATAA
1 ATAATTTAATAGTAAATAAT-T
11845976 ATAATTTAATAGTAAATCAATT
1 ATAATTTAATAGTAAAT-AATT
11845998 ATAA
1 ATAA
11846002 ATTGGTAGCA
Statistics
Matches: 80, Mismatches: 20, Indels: 18
0.68 0.17 0.15
Matches are distributed among these distances:
17 6 0.08
18 5 0.06
19 1 0.01
20 5 0.06
21 7 0.09
22 51 0.64
23 5 0.06
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (21 bp):
ATAATTTAATAGTAAATAATT
Found at i:11846031 original size:22 final size:21
Alignment explanation
Indices: 11845960--11846032 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
11845950 AATAAATTGA
* *
11845960 TAGTAGTAAATAATAAATAATT
1 TAGTAGTAAATAAT-TATAAAT
*
11845982 TAATAGTAAATCAATTATAAAT
1 TAGTAGTAAAT-AATTATAAAT
* * *
11846004 TGGTAGCAAATAATTGATAACT
1 TAGTAGTAAATAATT-ATAAAT
11846026 TAGTAGT
1 TAGTAGT
11846033 GCTTGGTAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
21 4 0.10
22 33 0.82
23 3 0.08
ACGTcount: A:0.48, C:0.04, G:0.12, T:0.36
Consensus pattern (21 bp):
TAGTAGTAAATAATTATAAAT
Found at i:11846338 original size:22 final size:21
Alignment explanation
Indices: 11846307--11846434 Score: 96
Period size: 22 Copynumber: 5.9 Consensus size: 21
11846297 GTAAATTAGT
11846307 ATAACTTAATAATAAATCATCA
1 ATAACTTAATAATAAATCAT-A
* * *
11846329 ATAACATAATAATTAATCAATG
1 ATAACTTAATAATAAATC-ATA
11846351 ATAACTTAATAATAAATCATGA
1 ATAACTTAATAATAAATCAT-A
* *
11846373 AAAATTTAAT-ATAAATCATTA
1 ATAACTTAATAATAAATCA-TA
** * *
11846394 ATATTTTAATGATGAATCATA
1 ATAACTTAATAATAAATCATA
* * *
11846415 GATAATTTAGTGATAAATCA
1 -ATAACTTAATAATAAATCA
11846435 ATGATAATTT
Statistics
Matches: 87, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
21 21 0.24
22 64 0.74
23 2 0.02
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.35
Consensus pattern (21 bp):
ATAACTTAATAATAAATCATA
Found at i:11846440 original size:22 final size:22
Alignment explanation
Indices: 11846343--11846454 Score: 95
Period size: 22 Copynumber: 5.1 Consensus size: 22
11846333 CATAATAATT
* *
11846343 AATCAATGATAACTTAATAATA
1 AATCAATGATAATTTAATGATA
*
11846365 AATC-ATGAAAAATTTAAT-ATA
1 AATCAATG-ATAATTTAATGATA
* * * *
11846386 AATCATTAATATTTTAATGATG
1 AATCAATGATAATTTAATGATA
*
11846408 AATC-ATAGATAATTTAGTGATA
1 AATCAAT-GATAATTTAATGATA
**
11846430 AATCAATGATAATTTTGTGATA
1 AATCAATGATAATTTAATGATA
11846452 AAT
1 AAT
11846455 AATAAAAAAA
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
21 19 0.26
22 51 0.71
23 2 0.03
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.38
Consensus pattern (22 bp):
AATCAATGATAATTTAATGATA
Found at i:11846678 original size:22 final size:23
Alignment explanation
Indices: 11846612--11846679 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 23
11846602 TAAATTAACT
11846612 AATC-ATTGATAACTTT-TAGTA
1 AATCAATTGATAACTTTATAGTA
*
11846633 AAT-AATTGATAA-ATTAGTAGTA
1 AATCAATTGATAACTTTA-TAGTA
*
11846655 AATCAATT-ATAACTTTATAATA
1 AATCAATTGATAACTTTATAGTA
11846677 AAT
1 AAT
11846680 TATCAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 2 0.05
21 11 0.28
22 19 0.49
23 7 0.18
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (23 bp):
AATCAATTGATAACTTTATAGTA
Found at i:11846737 original size:22 final size:22
Alignment explanation
Indices: 11846712--11846782 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
11846702 CACCAACAAT
* *
11846712 TTAATGATAAATCATTCATAAC
1 TTAATGACAAATCATTCATAAA
11846734 TTAATGACAAAGT-ATTCATAAA
1 TTAATGACAAA-TCATTCATAAA
* *
11846756 TTAGT-AGCAAATCATTTATAAA
1 TTAATGA-CAAATCATTCATAAA
11846778 TTAAT
1 TTAAT
11846783 AATACATCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
21 2 0.05
22 38 0.93
23 1 0.02
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (22 bp):
TTAATGACAAATCATTCATAAA
Found at i:11847151 original size:11 final size:11
Alignment explanation
Indices: 11847132--11847172 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
11847122 TTAAAAATTG
*
11847132 ATAACTTAATA
1 ATAAATTAATA
11847143 ATAAATTAATA
1 ATAAATTAATA
*
11847154 ATAATTTAATA
1 ATAAATTAATA
*
11847165 GTAAATTA
1 ATAAATTA
11847173 GTGATAACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (11 bp):
ATAAATTAATA
Found at i:11847157 original size:22 final size:22
Alignment explanation
Indices: 11847108--11847408 Score: 93
Period size: 22 Copynumber: 13.5 Consensus size: 22
11847098 TAAAAAAAGG
11847108 TGATAACTTAATAATTAAA--AA
1 TGATAACTTAATAA-TAAATTAA
11847129 TTGATAACTTAATAATAAATTAA
1 -TGATAACTTAATAATAAATTAA
* * * *
11847152 TAATAATTTAATAGTAAATTAG
1 TGATAACTTAATAATAAATTAA
* *
11847174 TGATAACTTAACAGTAAATT--
1 TGATAACTTAATAATAAATTAA
* *
11847194 TGTTTCAATTTAATAAT-AATTAA
1 TG-AT-AACTTAATAATAAATTAA
* **
11847217 TTGATAAAACTTAGTTGTAAA-TAA
1 -TGAT--AACTTAATAATAAATTAA
* * * *
11847241 TAAATAACTTATTAGTAAAATCAA
1 T-GATAACTTAATAAT-AAATTAA
* * ** *
11847265 TGATAACTTATTAGTTGATTAT
1 TGATAACTTAATAATAAATTAA
* * *
11847287 TGAAAACTTAAAAATAAATCAA
1 TGATAACTTAATAATAAATTAA
* *
11847309 T-ATAAC-TAAGTAGTATTAA-TCA
1 TGATAACTTAA-TA--ATAAATTAA
* * * *
11847331 TCAATAACTTAATAGTTAATTAC
1 T-GATAACTTAATAATAAATTAA
* * *
11847354 TAATAACTTAATAGTAAA-TCA
1 TGATAACTTAATAATAAATTAA
* *
11847375 TGGATAATTTAAT-ATAAATTAG
1 T-GATAACTTAATAATAAATTAA
11847397 TGATAACTTAAT
1 TGATAACTTAAT
11847409 TAATGAATCA
Statistics
Matches: 207, Mismatches: 51, Indels: 43
0.69 0.17 0.14
Matches are distributed among these distances:
20 5 0.02
21 30 0.14
22 117 0.57
23 26 0.13
24 24 0.12
25 5 0.02
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (22 bp):
TGATAACTTAATAATAAATTAA
Found at i:11847387 original size:44 final size:44
Alignment explanation
Indices: 11847334--11847428 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
11847324 TTAATCATCA
* * *
11847334 ATAACTTAATAGTTAATTACTAATAACTTAA-TAGTAAATCATGG
1 ATAATTTAATA-TAAATTACTAATAACTTAATTAATAAATCATGG
* * *
11847378 ATAATTTAATATAAATTAGTGATAACTTAATTAATGAATCATGG
1 ATAATTTAATATAAATTACTAATAACTTAATTAATAAATCATGG
*
11847422 TTAATTT
1 ATAATTT
11847429 TGTAATAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 16 0.37
44 27 0.63
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.40
Consensus pattern (44 bp):
ATAATTTAATATAAATTACTAATAACTTAATTAATAAATCATGG
Found at i:11847535 original size:22 final size:22
Alignment explanation
Indices: 11847487--11847535 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
11847477 GTCAATCAAC
*
11847487 GATAACATAGGAGTAAATGCAT
1 GATAACATAAGAGTAAATGCAT
* *
11847509 AATAACATAATAGTAAAT-CATT
1 GATAACATAAGAGTAAATGCA-T
11847531 GATAA
1 GATAA
11847536 TTTAGATGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.51, C:0.08, G:0.14, T:0.27
Consensus pattern (22 bp):
GATAACATAAGAGTAAATGCAT
Found at i:11847553 original size:22 final size:22
Alignment explanation
Indices: 11847521--11847616 Score: 81
Period size: 22 Copynumber: 4.4 Consensus size: 22
11847511 TAACATAATA
*
11847521 GTAAATCATTGATAATTTAGAT
1 GTAAATTATTGATAATTTAGAT
* *
11847543 GTACATTATTGATAACTTAGCA-
1 GTAAATTATTGATAATTTAG-AT
* * *
11847565 GTAAACTACTAATAATTTA-ATT
1 GTAAATTATTGATAATTTAGA-T
*
11847587 GTAAATTAGTGATAATTTAG-T
1 GTAAATTATTGATAATTTAGAT
11847608 CGTAAATTA
1 -GTAAATTA
11847617 ATTAATTACT
Statistics
Matches: 58, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 55 0.95
23 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.40
Consensus pattern (22 bp):
GTAAATTATTGATAATTTAGAT
Found at i:11847630 original size:30 final size:30
Alignment explanation
Indices: 11847590--11847646 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11847580 TTTAATTGTA
* *
11847590 AATTAGTGATAA-TTTAGTCGTAAATTAATT
1 AATTACTGATAACTTT-GTAGTAAATTAATT
11847620 AATTACTGATAACTTTGTAGTAAATTA
1 AATTACTGATAACTTTGTAGTAAATTA
11847647 TCTATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.42
Consensus pattern (30 bp):
AATTACTGATAACTTTGTAGTAAATTAATT
Found at i:11847674 original size:22 final size:22
Alignment explanation
Indices: 11847649--11847690 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
11847639 GTAAATTATC
11847649 TATAAATTAATAAAAAATCAGT
1 TATAAATTAATAAAAAATCAGT
* * *
11847671 TATAAGTTTATAACAAATCA
1 TATAAATTAATAAAAAATCA
11847691 TCAGTAATTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (22 bp):
TATAAATTAATAAAAAATCAGT
Found at i:11847816 original size:44 final size:43
Alignment explanation
Indices: 11847695--11847816 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 43
11847685 AAATCATCAG
* * *
11847695 TAATTTAGTAGTAAATCATCTA-CATTTAGTAGTAAATCAATTA
1 TAATTTAGTAGTAAATTAT-TATAATTTAGCAGTAAATCAATTA
* *
11847738 TAACTTAGTAGTAAATTATTTATGAA-TTAACAGTAAATCAA-TA
1 TAATTTAGTAGTAAATTA-TTAT-AATTTAGCAGTAAATCAATTA
11847781 CTAATTTAGTAGTAAATTATTAATAATTTAGCAGTA
1 -TAATTTAGTAGTAAATTATT-ATAATTTAGCAGTA
11847817 TATTATTGAT
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
43 24 0.36
44 41 0.62
45 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.39
Consensus pattern (43 bp):
TAATTTAGTAGTAAATTATTATAATTTAGCAGTAAATCAATTA
Found at i:11847839 original size:66 final size:65
Alignment explanation
Indices: 11847699--11847842 Score: 159
Period size: 66 Copynumber: 2.2 Consensus size: 65
11847689 CATCAGTAAT
* *
11847699 TTAGTAGTAAATCATCTACATTTAGTAGTAAATCAATTATAACTTAGTAGTAAATTATTTATGAA
1 TTAGTAGTAAATCATCTACATTTAGTAGTAAATCAATTATAACTTAGCAGTAAATTATTGATGAA
** * * *
11847764 TTAACAGTAAATCAATACTA-ATTTAGTAGTAAAT-TATTAATAATTTAGCAGTATATTATTGAT
1 TTAGTAGTAAATC-AT-CTACATTTAGTAGTAAATCAATT-ATAACTTAGCAGTAAATTATTGAT
*
11847827 -AGC
63 GA-A
11847830 TTAGTAGTAAATC
1 TTAGTAGTAAATC
11847843 GCTAATAACA
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
65 15 0.23
66 47 0.72
67 3 0.05
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (65 bp):
TTAGTAGTAAATCATCTACATTTAGTAGTAAATCAATTATAACTTAGCAGTAAATTATTGATGAA
Found at i:11847878 original size:22 final size:22
Alignment explanation
Indices: 11847695--11847876 Score: 100
Period size: 22 Copynumber: 8.3 Consensus size: 22
11847685 AAATCATCAG
* *
11847695 TAATTTAGTAGTAAA-TCAT-C
1 TAATTTAGTAGTAAATTAATAA
* *
11847715 TACATTTAGTAGTAAATCAATTA
1 TA-ATTTAGTAGTAAATTAATAA
* * *
11847738 TAACTTAGTAGTAAATTATTTA
1 TAATTTAGTAGTAAATTAATAA
** * *
11847760 TGAA-TTAACAGTAAATCAATAC
1 T-AATTTAGTAGTAAATTAATAA
*
11847782 TAATTTAGTAGTAAATTATTAA
1 TAATTTAGTAGTAAATTAATAA
* * * *
11847804 TAATTTAGCAGTATATTATTGA
1 TAATTTAGTAGTAAATTAATAA
** ***
11847826 TAGCTTAGTAGTAAATCGCTAA
1 TAATTTAGTAGTAAATTAATAA
** * *
11847848 TAACATAATAGTAAATTAATGA
1 TAATTTAGTAGTAAATTAATAA
11847870 TAATTTA
1 TAATTTA
11847877 ATTATTAATC
Statistics
Matches: 120, Mismatches: 37, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
20 2 0.02
21 15 0.12
22 99 0.82
23 4 0.03
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.39
Consensus pattern (22 bp):
TAATTTAGTAGTAAATTAATAA
Found at i:11848247 original size:21 final size:20
Alignment explanation
Indices: 11848223--11848296 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 20
11848213 TTGTAAAAAA
*
11848223 TTACCAAAATTGTATTAATGG
1 TTACCAAAATTATATTAA-GG
*
11848244 TTACCATAATTATATGATAA-G
1 TTACCAAAATTATAT--TAAGG
*
11848265 TTACCAAAACTATATTGAAGG
1 TTACCAAAATTATATT-AAGG
11848286 TTACCAAAATT
1 TTACCAAAATT
11848297 TTATCAAAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.02
20 2 0.05
21 38 0.86
23 3 0.07
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (20 bp):
TTACCAAAATTATATTAAGG
Found at i:11848270 original size:42 final size:42
Alignment explanation
Indices: 11848218--11848314 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
11848208 AAATTTTGTA
* * * * *
11848218 AAAAATTACCAAAATTGTATT-AATGGTTACCATAATTATATG
1 AAAAGTTACCAAAACTATATTGAA-GGTTACCAAAATTATATC
* *
11848260 ATAAGTTACCAAAACTATATTGAAGGTTACCAAAATTTTATC
1 AAAAGTTACCAAAACTATATTGAAGGTTACCAAAATTATATC
*
11848302 AAAAGTTATCAAA
1 AAAAGTTACCAAA
11848315 TAAAAATTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
42 43 0.96
43 2 0.04
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.33
Consensus pattern (42 bp):
AAAAGTTACCAAAACTATATTGAAGGTTACCAAAATTATATC
Found at i:11848309 original size:21 final size:21
Alignment explanation
Indices: 11848218--11848314 Score: 77
Period size: 21 Copynumber: 4.6 Consensus size: 21
11848208 AAATTTTGTA
* *
11848218 AAAAATTACCAAAATTGTATT
1 AAAAGTTACCAAAATTATATT
** * *
11848239 AATGGTTACCATAATTATATG
1 AAAAGTTACCAAAATTATATT
* *
11848260 ATAAGTTACCAAAACTATATT
1 AAAAGTTACCAAAATTATATT
* * * *
11848281 GAAGGTTACCAAAATTTTATC
1 AAAAGTTACCAAAATTATATT
*
11848302 AAAAGTTATCAAA
1 AAAAGTTACCAAA
11848315 TAAAAATTAT
Statistics
Matches: 55, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.33
Consensus pattern (21 bp):
AAAAGTTACCAAAATTATATT
Found at i:11848352 original size:26 final size:26
Alignment explanation
Indices: 11848291--11848341 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
11848281 GAAGGTTACC
*
11848291 AAAATTTTATCAAAAGTTATCAAATA
1 AAAATTATATCAAAAGTTATCAAATA
11848317 AAAATTATATCAAAAGTTATCAAAT
1 AAAATTATATCAAAAGTTATCAAAT
11848342 TTTACTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAATTATATCAAAAGTTATCAAATA
Found at i:11851613 original size:5 final size:5
Alignment explanation
Indices: 11851603--11851629 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
11851593 CACACACACA
11851603 TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TA
11851630 AAGCATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:11853943 original size:49 final size:49
Alignment explanation
Indices: 11853852--11854008 Score: 237
Period size: 49 Copynumber: 3.2 Consensus size: 49
11853842 TAAGAGTTTG
* *
11853852 AAAATCT-AACCTTTGAAACGCTTCTCCTAAA-ATAGAGGCTTTGAAACTTTA
1 AAAATCTCAA-CTTT-AAAAGCTACTCCTAAACA-A-AGGCTTTGAAACTTTA
11853903 AAAATCTCAACTTTAAAAGCTACTCCTAAACAAAGGCTTTGAAACTTTA
1 AAAATCTCAACTTTAAAAGCTACTCCTAAACAAAGGCTTTGAAACTTTA
*
11853952 AAAATCTCAACTTTAAAAGCTACTCCTAAACAAAGGCTTTAAAACTTTA
1 AAAATCTCAACTTTAAAAGCTACTCCTAAACAAAGGCTTTGAAACTTTA
11854001 AAAATCTC
1 AAAATCTC
11854009 TAGGACTATG
Statistics
Matches: 101, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
49 72 0.71
50 15 0.15
51 12 0.12
52 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (49 bp):
AAAATCTCAACTTTAAAAGCTACTCCTAAACAAAGGCTTTGAAACTTTA
Found at i:11854005 original size:149 final size:149
Alignment explanation
Indices: 11853735--11854007 Score: 322
Period size: 149 Copynumber: 1.8 Consensus size: 149
11853725 TCATACTTAT
* * *
11853735 TAGAGGCTCTAAAACTTTAAAAATCTCATCTTTGAAAAGCGCATCCTAATAAAGACTTTGAAACT
1 TAGAGGCTCTAAAACTTTAAAAATCTCAACTTTGAAAAGCACATCCTAACAAAGACTTTGAAACT
* * * * * * * * * *
11853800 TTAAAGTCTGATATTTGAAAGGCTCTTCGTGAACAGAGGTTTTAAGAGTTTGAAAATCTAACCTT
66 TTAAAATCTCATATTTGAAAAGCTCTTCCTAAACAAAGGCTTTAAAACTTTAAAAATCTAACCTT
11853865 TGAAACGCTTCTCCTAAAA
131 TGAAACGCTTCTCCTAAAA
* * *
11853884 TAGAGGCTTTGAAACTTTAAAAATCTCAACTTT-AAAAGCTAC-TCCTAAACAAAGGCTTTGAAA
1 TAGAGGCTCTAAAACTTTAAAAATCTCAACTTTGAAAAGC-ACATCCT-AACAAAGACTTTGAAA
11853947 CTTTAAAAATCTCA-ACTTT-AAAAGCTAC-TCCTAAACAAAGGCTTTAAAACTTTAAAAATCT
64 CTTT-AAAATCTCATA-TTTGAAAAGCT-CTTCCTAAACAAAGGCTTTAAAACTTTAAAAATCT
11854008 CTAGGACTAT
Statistics
Matches: 103, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
148 10 0.10
149 82 0.80
150 11 0.11
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (149 bp):
TAGAGGCTCTAAAACTTTAAAAATCTCAACTTTGAAAAGCACATCCTAACAAAGACTTTGAAACT
TTAAAATCTCATATTTGAAAAGCTCTTCCTAAACAAAGGCTTTAAAACTTTAAAAATCTAACCTT
TGAAACGCTTCTCCTAAAA
Found at i:11858221 original size:17 final size:16
Alignment explanation
Indices: 11858180--11858222 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
11858170 TACTCACTAC
*
11858180 TTGCTGCTTGCTCCCG
1 TTGCTGCTTGCTCCCA
*
11858196 TTACTGCTTGCTACCCA
1 TTGCTGCTTGCT-CCCA
11858213 TTGCTGCTTG
1 TTGCTGCTTG
11858223 TTGCCTGCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.07, C:0.33, G:0.21, T:0.40
Consensus pattern (16 bp):
TTGCTGCTTGCTCCCA
Found at i:11860286 original size:26 final size:26
Alignment explanation
Indices: 11860256--11860319 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
11860246 TTTTATTTGA
* *
11860256 GTATTGCTCA-TCGATTTAGAGCTTGT
1 GTATTGCTCACT-GATTTAAAGCTTAT
*
11860282 GTATTGTTCACTGATTTAAAGCTTAT
1 GTATTGCTCACTGATTTAAAGCTTAT
*
11860308 GTATCGCTCACT
1 GTATTGCTCACT
11860320 AACTTAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 31 0.97
27 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (26 bp):
GTATTGCTCACTGATTTAAAGCTTAT
Found at i:11860405 original size:15 final size:15
Alignment explanation
Indices: 11860385--11860416 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11860375 TACTGTTTTA
*
11860385 AAGCTTGTGTTTATG
1 AAGCTTGTGTCTATG
11860400 AAGCTTGTGTCTATG
1 AAGCTTGTGTCTATG
11860415 AA
1 AA
11860417 CTACATGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.09, G:0.25, T:0.41
Consensus pattern (15 bp):
AAGCTTGTGTCTATG
Found at i:11860808 original size:100 final size:98
Alignment explanation
Indices: 11860627--11860995 Score: 282
Period size: 100 Copynumber: 3.7 Consensus size: 98
11860617 TTGTTTAGCC
* ** * * * * *
11860627 TTAAAAATCTTAAGTTCAAAAGGTTCTTCATAAATAAAAATTTTAAAACTTTAAAAATCTCAACT
1 TTAAAAATC-TAATTTTTAAAGGTTCTTCATGAATAAAGACTTTGAAACTTTAAAAATCTCATCT
* **
11860692 TTAAAAGGATCATCCTAAACAGACTTTTTGACAA-T
65 TTGAAAGGATTTTCCTAAACAGAC-TTTTGA-AACT
*
11860727 TTAAAAATCTAATTTTTCAAAGGTTCTTCATGAATATAGACTTTGAAACTTTAAAAATCTCATCT
1 TTAAAAATCTAATTTTT-AAAGGTTCTTCATGAATAAAGACTTTGAAACTTTAAAAATCTCATCT
* * * * *
11860792 GTGAAGGGTTTTTCCTATACAGAGGC-TTTAAAACT
65 TTGAAAGGATTTTCCTAAACAGA--CTTTTGAAACT
* * ** * * * * *
11860827 TTAAAAATCTTATCTTTAAAAGGCTT-TTTTTGAATAGAGGCTTAGAAAGTTT-AAAATCTCATA
1 TTAAAAATCTAAT-TTTTAAAGG-TTCTTCATGAATAAAGACTTTGAAACTTTAAAAATCTCATC
* *
11860890 TTTGAAAGGCTTTTCCTAAATAGACTTTTGAAACT
64 TTTGAAAGGATTTTCCTAAACAGACTTTTGAAACT
* * * * * * *
11860925 TTAAAAATCTCAACTTTTAAAGGCTAC-TCCTAAACAAAGGCTTTGAAA-TGTTAAAAATTTCAT
1 TTAAAAATCT-AATTTTTAAAGG-TTCTTCATGAATAAAGACTTTGAAACT-TTAAAAATCTCAT
11860988 CTTTGAAA
63 CTTTGAAA
11860996 AACTTCTCTT
Statistics
Matches: 214, Mismatches: 44, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
97 2 0.01
98 45 0.21
99 53 0.25
100 108 0.50
101 5 0.02
102 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.37
Consensus pattern (98 bp):
TTAAAAATCTAATTTTTAAAGGTTCTTCATGAATAAAGACTTTGAAACTTTAAAAATCTCATCTT
TGAAAGGATTTTCCTAAACAGACTTTTGAAACT
Found at i:11860912 original size:49 final size:51
Alignment explanation
Indices: 11860668--11861177 Score: 251
Period size: 50 Copynumber: 10.4 Consensus size: 51
11860658 AAATAAAAAT
* * * **
11860668 TTTA-AAACTTTAAAAATCTCAACTTTAAAAGGATCATCCTAAACAGA--C
1 TTTAGAAACTTTAAAAATCTCATCTTTGAAAGGCTTTTCCTAAACAGAGGC
* * * * * * * * *
11860716 TTTTTGACAA-TTTAAAAATCTAATTTTTCAAAGG-TTCTTCATGAATATAGAC
1 -TTTAGA-AACTTTAAAAATCTCATCTTTGAAAGGCTT-TTCCTAAACAGAGGC
* * * *
11860768 TTT-GAAACTTTAAAAATCTCATCTGTGAAGGGTTTTTCCTATACAGAGGC
1 TTTAGAAACTTTAAAAATCTCATCTTTGAAAGGCTTTTCCTAAACAGAGGC
* * ** * *
11860818 TTTA-AAACTTTAAAAATCTTATCTTTAAAAGGCTTTTTTTGAATAGAGGC
1 TTTAGAAACTTTAAAAATCTCATCTTTGAAAGGCTTTTCCTAAACAGAGGC
* * *
11860868 -TTAGAAAGTTT-AAAATCTCATATTTGAAAGGCTTTTCCTAAATAGA--C
1 TTTAGAAACTTTAAAAATCTCATCTTTGAAAGGCTTTTCCTAAACAGAGGC
* * * ** *
11860915 TTTTGAAACTTTAAAAATCTCAACTTTTAAAGGCTACTCCTAAACAAAGGC
1 TTTAGAAACTTTAAAAATCTCATCTTTGAAAGGCTTTTCCTAAACAGAGGC
* ** * * * * *
11860966 TTT-GAAA-TGTTAAAAATTTCATCTTTGAAAAACTTCTCTTAAGCAAAGGT
1 TTTAGAAACT-TTAAAAATCTCATCTTTGAAAGGCTTTTCCTAAACAGAGGC
* * * * * **
11861016 TTTA-AAACTTTAAAAATCTTAACTCT-AAAGGCTATTCCTAAATAGCTGC
1 TTTAGAAACTTTAAAAATCTCATCTTTGAAAGGCTTTTCCTAAACAGAGGC
* * * * *
11861065 TTTA-AAAGTTTAAAAATCTCATC----AAAGACTCCTT-CTAAACAAAAG-
1 TTTAGAAACTTTAAAAATCTCATCTTTGAAAGGCT-TTTCCTAAACAGAGGC
* * * * * * * *
11861110 TTTTGAAAATTTAAAAGTATCATCTTTGAAAAGTTTTTCCTAAACAAAAGC
1 TTTAGAAACTTTAAAAATCTCATCTTTGAAAGGCTTTTCCTAAACAGAGGC
11861161 TTT-GAAAC--TAAAAATCT
1 TTTAGAAACTTTAAAAATCT
11861178 TTTTTTTTTA
Statistics
Matches: 345, Mismatches: 92, Indels: 49
0.71 0.19 0.10
Matches are distributed among these distances:
45 3 0.01
46 29 0.08
47 3 0.01
48 16 0.05
49 101 0.29
50 177 0.51
51 15 0.04
52 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (51 bp):
TTTAGAAACTTTAAAAATCTCATCTTTGAAAGGCTTTTCCTAAACAGAGGC
Found at i:11861738 original size:12 final size:12
Alignment explanation
Indices: 11861721--11861763 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
11861711 TATCCATCCA
11861721 TTTTTCCTTTTT
1 TTTTTCCTTTTT
*
11861733 TTTTTCATTTTCT
1 TTTTTCCTTTT-T
11861746 TTTTT-CTTCTTT
1 TTTTTCCTT-TTT
11861758 TTTTTC
1 TTTTTC
11861764 ATGATCTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 18 0.69
13 8 0.31
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTTTCCTTTTT
Found at i:11861771 original size:25 final size:24
Alignment explanation
Indices: 11861721--11861771 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
11861711 TATCCATCCA
**
11861721 TTTTTCCTTTTTTTTTTCATTTTC
1 TTTTTCCTTTTTTTTTTCATGATC
*
11861745 TTTTTTCTTCTTTTTTTTCATGATC
1 TTTTTCCTT-TTTTTTTTCATGATC
11861770 TT
1 TT
11861772 AAACTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 8 0.35
25 15 0.65
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTTCCTTTTTTTTTTCATGATC
Found at i:11862422 original size:7 final size:8
Alignment explanation
Indices: 11862405--11862431 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
11862395 TTTTCATTAA
11862405 TTTTTATT
1 TTTTTATT
11862413 TTTTTATT
1 TTTTTATT
11862421 TTTTTATT
1 TTTTTATT
11862429 TTT
1 TTT
11862432 ACGTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTATT
Found at i:11869537 original size:304 final size:304
Alignment explanation
Indices: 11868988--11869601 Score: 1174
Period size: 304 Copynumber: 2.0 Consensus size: 304
11868978 TACCAAACTC
* *
11868988 AACCCATTTGGCATCGATGCTTTTATGCATATCATGCCCTTTCATCACATTGAACCTTTCTTTTA
1 AACCCATTTGGCATCGATGCTTTTATGCATATCATGCCCTTTCATCACATTGAACCTTTCATCTA
11869053 ACATATTATACTTATTTCACATTTCTATGTTCCCCATCAATTTTGATATCCTTATTAACTTCTAT
66 ACATATTATACTTATTTCACATTTCTATGTTCCCCATCAATTTTGATATCCTTATTAACTTCTAT
11869118 TGCTCTTTGGGATTGCCAAGATTTGGCACTATGATAGGACCAACAAAAGCAAAAACTAGATTGAC
131 TGCTCTTTGGGATTGCCAAGATTTGGCACTATGATAGGACCAACAAAAGCAAAAACTAGATTGAC
11869183 ATTTATATGATTTAAAGATGGCTTAGTAGAAGGACCTGTATAGGTGTAAGGCTAATAACTTGTTA
196 ATTTATATGATTTAAAGATGGCTTAGTAGAAGGACCTGTATAGGTGTAAGGCTAATAACTTGTTA
11869248 GATGTGTATATACAATATGCAGATTCTAAGTATAAGGAGGTGTG
261 GATGTGTATATACAATATGCAGATTCTAAGTATAAGGAGGTGTG
*
11869292 AACCCATTTGGCATCGATGCTTTTATGCATATCATGCCTTTTCATCACATTGAACCTTTCATCTA
1 AACCCATTTGGCATCGATGCTTTTATGCATATCATGCCCTTTCATCACATTGAACCTTTCATCTA
*
11869357 ACATATTATACTTGTTTCACATTTCTATGTTCCCCATCAATTTTGATATCCTTATTAACTTCTAT
66 ACATATTATACTTATTTCACATTTCTATGTTCCCCATCAATTTTGATATCCTTATTAACTTCTAT
*
11869422 TGCTCTTTGGGATTGCCAAGATTTGGCACTATGATAGGACCAACAAAAGTAAAAACTAGATTGAC
131 TGCTCTTTGGGATTGCCAAGATTTGGCACTATGATAGGACCAACAAAAGCAAAAACTAGATTGAC
11869487 ATTTATATGATTTAAAGATGGCTTAGTAGAAGGACCTGTATAGGTGTAAGGCTAATAACTTGTTA
196 ATTTATATGATTTAAAGATGGCTTAGTAGAAGGACCTGTATAGGTGTAAGGCTAATAACTTGTTA
*
11869552 GATGTGTATATACAATATGCGGATTCTAAGTATAAGGAGGTGTG
261 GATGTGTATATACAATATGCAGATTCTAAGTATAAGGAGGTGTG
11869596 AACCCA
1 AACCCA
11869602 GGCGAGTATA
Statistics
Matches: 304, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
304 304 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (304 bp):
AACCCATTTGGCATCGATGCTTTTATGCATATCATGCCCTTTCATCACATTGAACCTTTCATCTA
ACATATTATACTTATTTCACATTTCTATGTTCCCCATCAATTTTGATATCCTTATTAACTTCTAT
TGCTCTTTGGGATTGCCAAGATTTGGCACTATGATAGGACCAACAAAAGCAAAAACTAGATTGAC
ATTTATATGATTTAAAGATGGCTTAGTAGAAGGACCTGTATAGGTGTAAGGCTAATAACTTGTTA
GATGTGTATATACAATATGCAGATTCTAAGTATAAGGAGGTGTG
Found at i:11873346 original size:22 final size:22
Alignment explanation
Indices: 11873321--11873382 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
11873311 AAAACATTTG
*
11873321 AAAAAATCATGCAAATATCATT
1 AAAAAATCATGCAAATATCATA
*
11873343 AAAAAATCATGCTAAAATATTATA
1 AAAAAATCATGC--AAATATCATA
*
11873367 ATAAAAATCATACAAA
1 A-AAAAATCATGCAAA
11873383 AAATCATACA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 12 0.35
23 3 0.09
24 9 0.26
25 10 0.29
ACGTcount: A:0.60, C:0.11, G:0.03, T:0.26
Consensus pattern (22 bp):
AAAAAATCATGCAAATATCATA
Found at i:11873404 original size:15 final size:12
Alignment explanation
Indices: 11873321--11873392 Score: 51
Period size: 12 Copynumber: 6.1 Consensus size: 12
11873311 AAAACATTTG
*
11873321 AAAAAATCATGC
1 AAAAAATCATAC
* *
11873333 -AAATATCAT-T
1 AAAAAATCATAC
*
11873343 AAAAAATCATGC
1 AAAAAATCATAC
* *
11873355 TAAAATATTATA-
1 -AAAAAATCATAC
11873367 ATAAAAATCATAC
1 A-AAAAATCATAC
11873380 AAAAAATCATAC
1 AAAAAATCATAC
11873392 A
1 A
11873393 GCAAAATATC
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
11 17 0.37
12 20 0.43
13 9 0.20
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.25
Consensus pattern (12 bp):
AAAAAATCATAC
Found at i:11873642 original size:7 final size:7
Alignment explanation
Indices: 11873632--11873697 Score: 59
Period size: 7 Copynumber: 10.0 Consensus size: 7
11873622 TAGAAAATAG
11873632 AAAAAAT
1 AAAAAAT
11873639 AAAAAAT
1 AAAAAAT
*
11873646 AAAACA-
1 AAAAAAT
*
11873652 AAAACAT
1 AAAAAAT
*
11873659 -CAAAAT
1 AAAAAAT
*
11873665 CAAAAAT
1 AAAAAAT
11873672 AAAAAAT
1 AAAAAAT
11873679 -AAAAAT
1 AAAAAAT
*
11873685 AAAAGA-
1 AAAAAAT
11873691 AAAAAAT
1 AAAAAAT
11873698 GGAAACCTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
6 21 0.44
7 27 0.56
ACGTcount: A:0.80, C:0.06, G:0.02, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:11873649 original size:6 final size:6
Alignment explanation
Indices: 11873633--11873688 Score: 51
Period size: 6 Copynumber: 8.7 Consensus size: 6
11873623 AGAAAATAGA
*
11873633 AAAAAT AAAAAAT AAAACA- AAAACAT CAAAAT CAAAAAT AAAAAAT AAAAAT
1 AAAAAT -AAAAAT AAAA-AT AAAA-AT AAAAAT -AAAAAT -AAAAAT AAAAAT
11873685 AAAA
1 AAAA
11873689 GAAAAAAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
6 22 0.51
7 21 0.49
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:11873655 original size:13 final size:13
Alignment explanation
Indices: 11873639--11873697 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
11873629 TAGAAAAAAT
11873639 AAAAAATAAAACA
1 AAAAAATAAAACA
*
11873652 AAAACATCAAAATC-
1 AAAAAAT-AAAA-CA
11873666 -AAAAATAAAA-A
1 AAAAAATAAAACA
*
11873677 ATAAAAATAAAAGA
1 A-AAAAATAAAACA
11873691 AAAAAAT
1 AAAAAAT
11873698 GGAAACCTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
12 4 0.11
13 27 0.71
14 6 0.16
15 1 0.03
ACGTcount: A:0.80, C:0.07, G:0.02, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAACA
Found at i:11873697 original size:33 final size:33
Alignment explanation
Indices: 11873633--11873697 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
11873623 AGAAAATAGA
**
11873633 AAAAATAAAAAATAAAACAAAAACATCAAAATC
1 AAAAATAAAAAATAAAACAAAAACAAAAAAATC
*
11873666 AAAAATAAAAAATAAAA-ATAAAAGAAAAAAAT
1 AAAAATAAAAAATAAAACA-AAAACAAAAAAAT
11873698 GGAAACCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.80, C:0.06, G:0.02, T:0.12
Consensus pattern (33 bp):
AAAAATAAAAAATAAAACAAAAACAAAAAAATC
Found at i:11880606 original size:19 final size:19
Alignment explanation
Indices: 11880582--11880644 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
11880572 ATAATACCTC
11880582 TTTTAATTTACATATTAAA
1 TTTTAATTTACATATTAAA
*
11880601 TTTTAATATA-ATAATATAAA
1 TTTTAATTTACAT-AT-TAAA
*
11880621 -ATTAA-TTACATATTAAA
1 TTTTAATTTACATATTAAA
11880638 TTATTAA
1 TT-TTAA
11880645 AATACCTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
17 4 0.11
18 6 0.17
19 21 0.60
20 4 0.11
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTTAATTTACATATTAAA
Found at i:11880767 original size:17 final size:17
Alignment explanation
Indices: 11880723--11880768 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
11880713 TCATTAAATT
*
11880723 ACATATATTAAATTTTA
1 ACATATATTAAATATTA
*
11880740 ACATA-AATAAA-ATTA
1 ACATATATTAAATATTA
11880755 ACTATATATTAAAT
1 AC-ATATATTAAAT
11880769 TACAAATTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
15 5 0.22
16 8 0.35
17 10 0.43
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (17 bp):
ACATATATTAAATATTA
Found at i:11880768 original size:16 final size:15
Alignment explanation
Indices: 11880715--11880770 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 15
11880705 TATTACTTTC
11880715 ATTAAATT-ACATAT
1 ATTAAATTAACATAT
*
11880729 ATTAAATTTTAACATAA
1 ATTAAA--TTAACATAT
*
11880746 ATAAAATTAACTATAT
1 ATTAAATTAAC-ATAT
11880762 ATTAAATTA
1 ATTAAATTA
11880771 CAAATTTCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 6 0.18
15 5 0.15
16 13 0.38
17 10 0.29
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTAAATTAACATAT
Found at i:11882553 original size:22 final size:23
Alignment explanation
Indices: 11882519--11882564 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
11882509 AATTTGATTT
* *
11882519 TTTTAGTTTTTTATTTTCCAAAA
1 TTTTAGTTTTTTAATTTCAAAAA
11882542 TTTTA-TTTTTTAATTTCAAAAA
1 TTTTAGTTTTTTAATTTCAAAAA
11882564 T
1 T
11882565 AAAATTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTAGTTTTTTAATTTCAAAAA
Found at i:11901936 original size:12 final size:14
Alignment explanation
Indices: 11901908--11901963 Score: 53
Period size: 15 Copynumber: 4.0 Consensus size: 14
11901898 ATAATAATTC
11901908 AAATTTAATATTAA
1 AAATTTAATATTAA
11901922 AAATTTAA-A-TAA
1 AAATTTAATATTAA
**
11901934 AAATTTGTTAATTAA
1 AAATTTAAT-ATTAA
*
11901949 AAACTTAATTATTAA
1 AAATTTAA-TATTAA
11901964 TTTTTTTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
12 9 0.27
13 1 0.03
14 9 0.27
15 13 0.39
16 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (14 bp):
AAATTTAATATTAA
Found at i:11904589 original size:19 final size:19
Alignment explanation
Indices: 11904557--11904593 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11904547 AATATATTAT
*
11904557 TATTAATTTTTATAAAAAC
1 TATTAATTTATATAAAAAC
*
11904576 TATTACTTTATATAAAAA
1 TATTAATTTATATAAAAA
11904594 TAATTATAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTAATTTATATAAAAAC
Found at i:11908433 original size:27 final size:28
Alignment explanation
Indices: 11908384--11908447 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
11908374 AACTTTCCAT
* * * *
11908384 ATTTTTTAATTTTTATTTTTTTAGAAAA
1 ATTTTATAATATTTATTGTTTTAAAAAA
11908412 ATTTTATAATATTTA-TGTTTTAAAAAA
1 ATTTTATAATATTTATTGTTTTAAAAAA
*
11908439 AGTTTATAA
1 ATTTTATAA
11908448 AATGAAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
27 18 0.58
28 13 0.42
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (28 bp):
ATTTTATAATATTTATTGTTTTAAAAAA
Found at i:11908873 original size:25 final size:24
Alignment explanation
Indices: 11908845--11908893 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
11908835 ATTGAATTTT
*
11908845 TTAAAAATTAAATTTGATTTAAAAA
1 TTAAAAAATAAATTT-ATTTAAAAA
* *
11908870 TTAAAAAATATATTTTTTTAAAAA
1 TTAAAAAATAAATTTATTTAAAAA
11908894 ATTCAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
TTAAAAAATAAATTTATTTAAAAA
Found at i:11910190 original size:22 final size:22
Alignment explanation
Indices: 11910150--11910191 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11910140 TTATGAACTA
*
11910150 ATAAATAAAAATTTATTAATAT
1 ATAAATAAAAATATATTAATAT
11910172 ATAAATAAATAATAT-TTAAT
1 ATAAATAAA-AATATATTAAT
11910192 TATTTATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAAATAAAAATATATTAATAT
Found at i:11911464 original size:13 final size:13
Alignment explanation
Indices: 11911446--11911471 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11911436 ATCCAAAATA
11911446 ATTTTATTTATTT
1 ATTTTATTTATTT
11911459 ATTTTATTTATTT
1 ATTTTATTTATTT
11911472 GTTGGTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTTATTTATTT
Found at i:11913234 original size:17 final size:18
Alignment explanation
Indices: 11913199--11913237 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11913189 TTTCTGCTTA
* *
11913199 TTTTTTGTTTGTTTTAAT
1 TTTTTTGTTTGATTCAAT
11913217 TTTTTTGTTT-ATTCAAT
1 TTTTTTGTTTGATTCAAT
11913234 TTTT
1 TTTT
11913238 AATGCTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.77
Consensus pattern (18 bp):
TTTTTTGTTTGATTCAAT
Found at i:11914514 original size:143 final size:144
Alignment explanation
Indices: 11914255--11914517 Score: 309
Period size: 143 Copynumber: 1.8 Consensus size: 144
11914245 GAGAAGTGAA
* * * * * **
11914255 AAATTACTAAAACATCCTTAAGGGTATTTTTCGTAATTTGACTTTCTCAAAGTTGAATTTTTGTG
1 AAATTACAAAAACACCCTTAAGGGTATTTTTCATAATTTGACCTTCTCAAAGTTGAAATTTTACG
* **
11914320 AAAACTTCAAAATCATAATTGAATATTTCTTAATGATTTTTGATGCATTGAAAACCTATATCACA
66 AAAACTTCAAAATCATAATTGAATATTTCTTAATGATTTTTAAAACATTGAAAACCTATATCACA
11914385 CCTTAGGAGGTGTG
131 CCTTAGGAGGTGTG
* *
11914399 AAATTACAAAAATACCCTTAAGGGTA-TTTTCATAATTTGACCTTCAT-AAGGTTGAAATTTTAC
1 AAATTACAAAAACACCCTTAAGGGTATTTTTCATAATTTGACCTTC-TCAAAGTTGAAATTTTAC
* * * * **
11914462 GAAACACTTC-AGATCATAGTTTAATATTAT-TTGATGATTTTTAAAATTTTGAAAAC
65 GAAA-ACTTCAAAATCATAATTGAATATT-TCTTAATGATTTTTAAAACATTGAAAAC
11914518 TTTGATTGTA
Statistics
Matches: 98, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
143 68 0.69
144 30 0.31
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.39
Consensus pattern (144 bp):
AAATTACAAAAACACCCTTAAGGGTATTTTTCATAATTTGACCTTCTCAAAGTTGAAATTTTACG
AAAACTTCAAAATCATAATTGAATATTTCTTAATGATTTTTAAAACATTGAAAACCTATATCACA
CCTTAGGAGGTGTG
Found at i:11914688 original size:144 final size:142
Alignment explanation
Indices: 11914551--11914808 Score: 304
Period size: 144 Copynumber: 1.8 Consensus size: 142
11914541 GAAATTTTCA
* * ** * * *
11914551 AAATACCTTTTAGGGGTAATTTCACAATTTGATATTTTTGAA-GTTGATTTTTTACGAAACTTTT
1 AAATACCTTTTAAGGGTAATTTCACAATTCGATATTTTT-AAGGTCAAATTTTCACGAAAATTTT
* * *
11914615 TATATCATGATTTTATAATATTTGATGATTTTTGGT-GTATTCAAAATCATAGCAGTACTTTAAA
65 TATATCATAATTTCATAATATTTCATGATTTTTGGTGGT-TT-AAAATCATAGCAGTACTTTAAA
11914679 AGGTGTGAAATTACTT
128 AGGTGTGAAATTA-TT
** * *** *
11914695 AAATATTTTTTAAGGTTAATTTTGTAATTCGATCTTTTTAAGGTCAAATTTTCACGAAAATTTTT
1 AAATACCTTTTAAGGGTAATTTCACAATTCGATATTTTTAAGGTCAAATTTTCACGAAAATTTTT
*
11914760 ATATCTTAATTTCATAATATTTCATGATTTTTGGTGGTTTAAAATCATA
66 ATATCATAATTTCATAATATTTCATGATTTTTGGTGGTTTAAAATCATA
11914809 AAAATGAGCA
Statistics
Matches: 94, Mismatches: 18, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
143 11 0.12
144 81 0.86
145 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (142 bp):
AAATACCTTTTAAGGGTAATTTCACAATTCGATATTTTTAAGGTCAAATTTTCACGAAAATTTTT
ATATCATAATTTCATAATATTTCATGATTTTTGGTGGTTTAAAATCATAGCAGTACTTTAAAAGG
TGTGAAATTATT
Found at i:11916254 original size:24 final size:24
Alignment explanation
Indices: 11916222--11916267 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
11916212 CGAAAATTTC
*
11916222 AAACCCTAAATTCCATCAAACCCT
1 AAACCCTAAATCCCATCAAACCCT
*
11916246 AAACCCTAAATCCCATGAAACC
1 AAACCCTAAATCCCATCAAACC
11916268 TAATTCTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.43, C:0.37, G:0.02, T:0.17
Consensus pattern (24 bp):
AAACCCTAAATCCCATCAAACCCT
Found at i:11916333 original size:14 final size:12
Alignment explanation
Indices: 11916308--11916358 Score: 57
Period size: 12 Copynumber: 4.0 Consensus size: 12
11916298 ACCCCAAATC
11916308 TTAAACCCTAAA
1 TTAAACCCTAAA
*
11916320 CTTTAAACCATAAA
1 --TTAAACCCTAAA
11916334 TTAAACCCTAAA
1 TTAAACCCTAAA
*
11916346 GTAAGACCCTAAA
1 TTAA-ACCCTAAA
11916359 CCCTAATCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
12 14 0.42
13 8 0.24
14 11 0.33
ACGTcount: A:0.49, C:0.24, G:0.04, T:0.24
Consensus pattern (12 bp):
TTAAACCCTAAA
Found at i:11918621 original size:38 final size:38
Alignment explanation
Indices: 11918570--11918646 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
11918560 ATTTTTGGAA
* *
11918570 ATAATAAGATAATACATGTATCCAATCTTATGTACATC
1 ATAATAAGATAATACATGCATCCAATCTTATATACATC
* * *
11918608 ATAATAGGATAATACATGCATTCAGTCTTATATACATC
1 ATAATAAGATAATACATGCATCCAATCTTATATACATC
11918646 A
1 A
11918647 GTAGATAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.34
Consensus pattern (38 bp):
ATAATAAGATAATACATGCATCCAATCTTATATACATC
Found at i:11923685 original size:24 final size:24
Alignment explanation
Indices: 11923645--11923693 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
11923635 AAACCATATC
* *
11923645 ATATTATGATTATAAATA-AATTA
1 ATATTATAATTAAAAATATAATTA
11923668 ATATTAATAATTAAAAATATAATTA
1 ATATT-ATAATTAAAAATATAATTA
11923693 A
1 A
11923694 AAAAAAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 11 0.50
25 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATATTATAATTAAAAATATAATTA
Found at i:11925733 original size:21 final size:20
Alignment explanation
Indices: 11925709--11925747 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11925699 ATAAAAAAAA
11925709 TAAAAAAATAAAGAAAAAGTC
1 TAAAAAAA-AAAGAAAAAGTC
*
11925730 TAAAAAAAGAAGAAAAAG
1 TAAAAAAAAAAGAAAAAG
11925748 AGAAAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (20 bp):
TAAAAAAAAAAGAAAAAGTC
Found at i:11926951 original size:11 final size:10
Alignment explanation
Indices: 11926931--11927002 Score: 54
Period size: 11 Copynumber: 6.5 Consensus size: 10
11926921 AAAAATGAAA
11926931 AAAAAGAAAAG
1 AAAAA-AAAAG
*
11926942 AAGAAAAAAAT
1 AA-AAAAAAAG
*
11926953 AATAAACAAAAT
1 AA-AAA-AAAAG
*
11926965 AAACAATAAAG
1 AAA-AAAAAAG
11926976 AAAAAAAAAG
1 AAAAAAAAAG
11926986 AAAAAGAAAAG
1 AAAAA-AAAAG
11926997 AGAAAA
1 A-AAAA
11927003 GAAATGTGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
10 11 0.22
11 24 0.47
12 16 0.31
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.06
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:11926991 original size:16 final size:16
Alignment explanation
Indices: 11926928--11927006 Score: 63
Period size: 16 Copynumber: 4.8 Consensus size: 16
11926918 GGGAAAAATG
11926928 AAAAAAAAG-AAAAGA
1 AAAAAAAAGAAAAAGA
* *
11926943 AGAAAAAAATAATAAACA
1 A-AAAAAAAGAA-AAAGA
* *
11926961 AAATAAACA-ATAAAGA
1 AAA-AAAAAGAAAAAGA
11926977 AAAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
11926993 AAAGAGAAAAGAAA
1 AAA-A-AAAAGAAA
11927007 TGTGATGAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
15 5 0.10
16 23 0.46
17 5 0.10
18 17 0.34
ACGTcount: A:0.81, C:0.03, G:0.11, T:0.05
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:11927002 original size:12 final size:12
Alignment explanation
Indices: 11926974--11927006 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
11926964 TAAACAATAA
*
11926974 AGAAAAAAAAAG
1 AGAAAAGAAAAG
11926986 A-AAAAGAAAAG
1 AGAAAAGAAAAG
11926997 AGAAAAGAAA
1 AGAAAAGAAA
11927007 TGTGATGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AGAAAAGAAAAG
Found at i:11927370 original size:19 final size:19
Alignment explanation
Indices: 11927346--11927386 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
11927336 ATGTAATAAT
*
11927346 AAAAAAAAAAGAAAAAGAG
1 AAAAAAAAAAGAAAAAAAG
*
11927365 AAAAAAAGAAGAAAAAAAG
1 AAAAAAAAAAGAAAAAAAG
11927384 AAA
1 AAA
11927387 GATGAATGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAAGAAAAAAAG
Found at i:11927388 original size:12 final size:11
Alignment explanation
Indices: 11927357--11927385 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11927347 AAAAAAAAAG
11927357 AAAAAG-AGAA
1 AAAAAGAAGAA
11927367 AAAAAGAAGAA
1 AAAAAGAAGAA
11927378 AAAAAGAA
1 AAAAAGAA
11927386 AGATGAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAAAAGAAGAA
Found at i:11928180 original size:20 final size:20
Alignment explanation
Indices: 11928151--11928188 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11928141 AAATCTGAAA
* *
11928151 TGCATGTTGCATTTACATGT
1 TGCATATTGCATCTACATGT
11928171 TGCATATTGCATCTACAT
1 TGCATATTGCATCTACAT
11928189 TTTAGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (20 bp):
TGCATATTGCATCTACATGT
Found at i:11928517 original size:42 final size:42
Alignment explanation
Indices: 11928471--11928642 Score: 185
Period size: 41 Copynumber: 4.1 Consensus size: 42
11928461 CTGTGAATTT
* *
11928471 TTTACTCTATTGTGAATCCAGAATGTTCCAAACTATGAATCA
1 TTTACTCTATTGTGAATCTAGAATGTTTCAAACTATGAATCA
* *
11928513 TTTACTCTGTTGTGAATTTA-AA-GTCTTCAAACTATGAATCA
1 TTTACTCTATTGTGAATCTAGAATGT-TTCAAACTATGAATCA
* *
11928554 TTTACTCT-TATGTGAATCTAGAGTCTTTCAAACTATGAATCA
1 TTTACTCTAT-TGTGAATCTAGAATGTTTCAAACTATGAATCA
* * *
11928596 -TTACTCTATTGTGAATTTA-AAT-TCTTACAAACTGTGAATCG
1 TTTACTCTATTGTGAATCTAGAATGT-TT-CAAACTATGAATCA
11928637 TTTACT
1 TTTACT
11928643 TTGATAGGAA
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
39 1 0.01
40 7 0.06
41 62 0.56
42 40 0.36
43 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (42 bp):
TTTACTCTATTGTGAATCTAGAATGTTTCAAACTATGAATCA
Found at i:11928555 original size:41 final size:40
Alignment explanation
Indices: 11928499--11928642 Score: 191
Period size: 41 Copynumber: 3.5 Consensus size: 40
11928489 CAGAATGTTC
11928499 CAAACTATGAATCATTTACTCTGTTGTGAATTTAAAGTCTT
1 CAAACTATGAATCATTTACTCT-TTGTGAATTTAAAGTCTT
* *
11928540 CAAACTATGAATCATTTACTCTTATGTGAATCTAGAGTCTTT
1 CAAACTATGAATCATTTACTCTT-TGTGAATTTAAAGTC-TT
*
11928582 CAAACTATGAATCA-TTACTCTATTGTGAATTTAAATTCTT
1 CAAACTATGAATCATTTACTCT-TTGTGAATTTAAAGTCTT
* *
11928622 ACAAACTGTGAATCGTTTACT
1 -CAAACTATGAATCATTTACT
11928643 TTGATAGGAA
Statistics
Matches: 91, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
40 3 0.03
41 66 0.73
42 22 0.24
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (40 bp):
CAAACTATGAATCATTTACTCTTTGTGAATTTAAAGTCTT
Found at i:11928586 original size:83 final size:83
Alignment explanation
Indices: 11928471--11928642 Score: 240
Period size: 83 Copynumber: 2.1 Consensus size: 83
11928461 CTGTGAATTT
* *
11928471 TTTACTCTATTGTGAATCCAGAATGTTCCAAACTATGAATCATTTACTCTGTTGTGAATTTAAAG
1 TTTACTCTATTGTGAATCCAGAATCTTCCAAACTATGAATCA-TTACTCTATTGTGAATTTAAAG
11928536 TCTT-CAAACTATGAATCA
65 TCTTACAAACTATGAATCA
* * * *
11928554 TTTACTCT-TATGTGAATCTAGAGTCTTTCAAACTATGAATCATTACTCTATTGTGAATTTAAAT
1 TTTACTCTAT-TGTGAATCCAGAATCTTCCAAACTATGAATCATTACTCTATTGTGAATTTAAAG
* *
11928618 TCTTACAAACTGTGAATCG
65 TCTTACAAACTATGAATCA
11928637 TTTACT
1 TTTACT
11928643 TTGATAGGAA
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
82 25 0.32
83 54 0.68
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (83 bp):
TTTACTCTATTGTGAATCCAGAATCTTCCAAACTATGAATCATTACTCTATTGTGAATTTAAAGT
CTTACAAACTATGAATCA
Found at i:11928654 original size:83 final size:84
Alignment explanation
Indices: 11928499--11928730 Score: 238
Period size: 83 Copynumber: 2.7 Consensus size: 84
11928489 CAGAATGTTC
*
11928499 CAAACTATGAATCATTTACTCTGTTGTGAATTTAAAGTCTTCAAACTATGAATCATTTACTCTTA
1 CAAACTATGAATCATTTACTCTATTGTGAATTTAAAGTCTTCAAACTATGAATCATTTACTCTTA
*
11928564 TGTGAATCTAGAG-TCTTT
66 TGTGAATCTAAAGTTCTTT
* * *
11928582 CAAACTATGAATCA-TTACTCTATTGTGAATTTAAATTCTTACAAACTGTGAATCGTTTACT-TT
1 CAAACTATGAATCATTTACTCTATTGTGAATTTAAAGTCTT-CAAACTATGAATCATTTACTCTT
11928645 GATAG-GAATCTAAAGTTCTTT
65 -AT-GTGAATCTAAAGTTCTTT
* * * * * *
11928666 AAAACTGTGAGTCGTTTAATTATTTACTTTATTGTAAATTTAGAGTCTTCCAACTATGAATCATT
1 CAAAC--T-A-T-G---AATCATTTACTCTATTGTGAATTTAAAGTCTTCAAACTATGAATCATT
11928731 ACTTCTATTG
Statistics
Matches: 122, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
82 26 0.21
83 43 0.35
84 10 0.08
86 1 0.01
87 1 0.01
88 1 0.01
89 1 0.01
92 17 0.14
93 22 0.18
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (84 bp):
CAAACTATGAATCATTTACTCTATTGTGAATTTAAAGTCTTCAAACTATGAATCATTTACTCTTA
TGTGAATCTAAAGTTCTTT
Found at i:11928760 original size:41 final size:40
Alignment explanation
Indices: 11928689--11928767 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 40
11928679 GTTTAATTAT
* * *
11928689 TTACTTTATTGTAAATTTAGAGTCTTCCAACTATGAATCA
1 TTACTTTATTGTAAATTCAGAATCTGCCAACTATGAATCA
*
11928729 TTACTTCTATTGTGAATTCAGAATCTGCCAACTATGAAT
1 TTACTT-TATTGTAAATTCAGAATCTGCCAACTATGAAT
11928768 TATCTTTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
40 6 0.18
41 28 0.82
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (40 bp):
TTACTTTATTGTAAATTCAGAATCTGCCAACTATGAATCA
Found at i:11928886 original size:18 final size:18
Alignment explanation
Indices: 11928863--11928903 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
11928853 CTTTCAATGT
11928863 GAATCCTGAATCTTTGAA
1 GAATCCTGAATCTTTGAA
11928881 GAATCCTGAATCTTTGAA
1 GAATCCTGAATCTTTGAA
11928899 GAATC
1 GAATC
11928904 TTGATGTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (18 bp):
GAATCCTGAATCTTTGAA
Found at i:11928912 original size:68 final size:69
Alignment explanation
Indices: 11928825--11928956 Score: 180
Period size: 69 Copynumber: 1.9 Consensus size: 69
11928815 TCTCAAAAAT
* * *
11928825 TTTGAAAAAACTTGGTGTGAATCCT-AGCCTT-TCAATGTGAATC-CTGAATCTTTGAAGAATCC
1 TTTGAAAAAACTTGATGTGAAT-CTAAGCCTTCTCAATGTGAATCTC-AAACCTTTGAAGAATCC
11928887 TGAATC
64 TGAATC
* *
11928893 TTTGAAGAATCTTGATGTGAATCTAAGCCTTCTCAATGTGAATCTCAAACCTTTGAAGAATCCT
1 TTTGAAAAAACTTGATGTGAATCTAAGCCTTCTCAATGTGAATCTCAAACCTTTGAAGAATCCT
11928957 AGTGTGAATG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
67 2 0.04
68 25 0.45
69 28 0.50
70 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (69 bp):
TTTGAAAAAACTTGATGTGAATCTAAGCCTTCTCAATGTGAATCTCAAACCTTTGAAGAATCCTG
AATC
Found at i:11928947 original size:69 final size:68
Alignment explanation
Indices: 11928825--11928956 Score: 178
Period size: 68 Copynumber: 1.9 Consensus size: 68
11928815 TCTCAAAAAT
* * *
11928825 TTTGAAAAAACTTGGTGTGAATCCTAGCCTTTCAATGTGAATCCTGAATCTTTGAAGAATCCTGA
1 TTTGAAAAAACTTGATGTGAATCCTAGCCTTTCAATGTGAATCCTAAACCTTTGAAGAATCCTGA
11928890 ATC
66 ATC
* *
11928893 TTTGAAGAATCTTGATGTGAAT-CTAAGCCTTCTCAATGTGAAT-CTCAAACCTTTGAAGAATCC
1 TTTGAAAAAACTTGATGTGAATCCT-AGCCTT-TCAATGTGAATCCT-AAACCTTTGAAGAATCC
11928956 T
63 T
11928957 AGTGTGAATG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
67 2 0.04
68 27 0.48
69 27 0.48
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (68 bp):
TTTGAAAAAACTTGATGTGAATCCTAGCCTTTCAATGTGAATCCTAAACCTTTGAAGAATCCTGA
ATC
Found at i:11929054 original size:51 final size:51
Alignment explanation
Indices: 11928993--11929160 Score: 178
Period size: 51 Copynumber: 3.3 Consensus size: 51
11928983 AACCCTAGCC
* ** *
11928993 TTTCGGTGTGAATCTTAAACCTTTGAAGAATTTTAGTGTGAATGCTAGTCT
1 TTTCGATGTGAATCTTAAACCTTTGAAGAATCCTAGTGTGAATACTAGTCT
* * * * * * *
11929044 TTTCGATGTGAATCCTAAACCTTTAAAAAATCCTAATGTGAATCCTAGCCC
1 TTTCGATGTGAATCTTAAACCTTTGAAGAATCCTAGTGTGAATACTAGTCT
* * *
11929095 TTTCAGA-GTGAATCTCAAACCTTTGAAGAATCCTGGTATGAATACTAGTCT
1 TTTC-GATGTGAATCTTAAACCTTTGAAGAATCCTAGTGTGAATACTAGTCT
*
11929146 TTT-GGTGTGAATCTT
1 TTTCGATGTGAATCTT
11929161 GAAATTTTTT
Statistics
Matches: 93, Mismatches: 22, Indels: 5
0.77 0.18 0.04
Matches are distributed among these distances:
49 1 0.01
50 8 0.09
51 82 0.88
52 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (51 bp):
TTTCGATGTGAATCTTAAACCTTTGAAGAATCCTAGTGTGAATACTAGTCT
Found at i:11929115 original size:102 final size:100
Alignment explanation
Indices: 11928975--11929158 Score: 251
Period size: 102 Copynumber: 1.8 Consensus size: 100
11928965 TGTCTACCTT
* * * ** * *
11928975 CTAATGTAAACCCTAGCCTTTCGGTGTGAATCTTAAACCTTTGAAGAATTTTAGTGTGAATGCTA
1 CTAATGTAAACCCTAGCCTTTCAGAGTGAATCTCAAACCTTTGAAGAATCCTAGTATGAATACTA
11929040 GTCTTTTCGATGTGAATCCTAAACCTTTAAAAAATC
66 GTCTTTT-GATGTGAATCCTAAACCTTTAAAAAATC
* * *
11929076 CTAATGTGAATCCTAGCCCTTTCAGAGTGAATCTCAAACCTTTGAAGAATCCTGGTATGAATACT
1 CTAATGTAAACCCTAG-CCTTTCAGAGTGAATCTCAAACCTTTGAAGAATCCTAGTATGAATACT
*
11929141 AGTCTTTTGGTGTGAATC
65 AGTCTTTTGATGTGAATC
11929159 TTGAAATTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
101 23 0.32
102 48 0.68
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (100 bp):
CTAATGTAAACCCTAGCCTTTCAGAGTGAATCTCAAACCTTTGAAGAATCCTAGTATGAATACTA
GTCTTTTGATGTGAATCCTAAACCTTTAAAAAATC
Found at i:11929156 original size:20 final size:19
Alignment explanation
Indices: 11929128--11929200 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 19
11929118 TGAAGAATCC
*
11929128 TGGTATGAATACTAGTCTTT
1 TGGTGTGAAT-CTAGTCTTT
* *
11929148 TGGTGTGAATCTTGAAATTTTT
1 TGGTGTGAATC-T--AGTCTTT
* *
11929170 TGGTGTGAATTCTGGCCTTT
1 TGGTGTGAA-TCTAGTCTTT
11929190 TGGTGTGAATC
1 TGGTGTGAATC
11929201 CTAAAACCTT
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
19 3 0.07
20 22 0.52
22 15 0.36
23 2 0.05
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.45
Consensus pattern (19 bp):
TGGTGTGAATCTAGTCTTT
Found at i:11929210 original size:22 final size:21
Alignment explanation
Indices: 11929144--11929211 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 21
11929134 GAATACTAGT
* *
11929144 CTTTTGGTGTGAATCTTGAAAT
1 CTTTTGGTGTGAATCCT-AAAC
* * **
11929166 TTTTTGGTGTGAATTCT-GGC
1 CTTTTGGTGTGAATCCTAAAC
11929186 CTTTTGGTGTGAATCCTAAAAC
1 CTTTTGGTGTGAATCCT-AAAC
11929208 CTTT
1 CTTT
11929212 GAAAAATCTT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
20 15 0.44
22 19 0.56
ACGTcount: A:0.19, C:0.13, G:0.22, T:0.46
Consensus pattern (21 bp):
CTTTTGGTGTGAATCCTAAAC
Found at i:11929217 original size:144 final size:144
Alignment explanation
Indices: 11929023--11929307 Score: 355
Period size: 144 Copynumber: 2.0 Consensus size: 144
11929013 CTTTGAAGAA
*
11929023 TTTTAGTGTGAATGCTAGTCTTTTCGATGTGAATCCTAAACCTTTAAAAAATCCTAATGTG-AA-
1 TTTTAGTGTGAATGCTAGCCTTTTCGATGTGAATCCTAAACCTTTAAAAAAT-CT-ATGTGTAAC
* * *
11929086 TCCTAGCCCTT-TCAGAGTGAAT-CTCAAACCTTTGAAGAATCCTGGTATGAATACTAGTCTTTT
64 TCCCA-CCCTTATCAGAGTGAATCCT-AAACCTTTGAAAAATCCTGGTATGAATACTAGCCTTTT
*
11929149 GGTGTGAATCTTGAAATT
127 GGTATGAATCTTGAAATT
* * * * * *
11929167 TTTTGGTGTGAATTCTGGCCTTTT-GGTGTGAATCCTAAAACCTTTGAAAAATCTTTGTGTAACT
1 TTTTAGTGTGAATGCTAGCCTTTTCGATGTGAATCCT-AAACCTTTAAAAAATCTATGTGTAACT
* ** *
11929231 CCCACCCTTATCAGTGTGAATCCTAAACCTTTGAAAAATTTTGGTATGAATCCTAGCCTTTTGGT
65 CCCACCCTTATCAGAGTGAATCCTAAACCTTTGAAAAATCCTGGTATGAATACTAGCCTTTTGGT
11929296 ATGAATCTTGAA
130 ATGAATCTTGAA
11929308 CCTTTTGAAG
Statistics
Matches: 121, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
142 4 0.03
143 20 0.17
144 95 0.79
145 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (144 bp):
TTTTAGTGTGAATGCTAGCCTTTTCGATGTGAATCCTAAACCTTTAAAAAATCTATGTGTAACTC
CCACCCTTATCAGAGTGAATCCTAAACCTTTGAAAAATCCTGGTATGAATACTAGCCTTTTGGTA
TGAATCTTGAAATT
Found at i:11929313 original size:21 final size:20
Alignment explanation
Indices: 11929269--11929314 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
11929259 CTTTGAAAAA
*
11929269 TTTTGGTATGAATCCTAGCC
1 TTTTGGTATGAATCCTAACC
*
11929289 TTTTGGTATGAATCTTGAACC
1 TTTTGGTATGAATCCT-AACC
11929310 TTTTG
1 TTTTG
11929315 AAGAAACCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.46
Consensus pattern (20 bp):
TTTTGGTATGAATCCTAACC
Found at i:11929334 original size:51 final size:51
Alignment explanation
Indices: 11929277--11929497 Score: 126
Period size: 51 Copynumber: 4.1 Consensus size: 51
11929267 AATTTTGGTA
*
11929277 TGAATCCTAGCCTTTTGGTATGAATCTTGAACCTTTTGAAGAAACCTTTTG
1 TGAATCCTAGCCTTTTGGTATGAATCCTGAACCTTTTGAAGAAACCTTTTG
** * * * * * *
11929328 TGAATCCCAAAACTTTTGAAAGATTTTTCGGTGTGAATCCCGAACC-TCTAAAG-AATCTTGGTG
1 TGAAT--C----C---T---AGCCTTTT-GGTATGAATCCTGAACCTTTTGAAGAAACCTT-TTG
** * * * *
11929391 TGAATTATAGCCTTTTGGTATGAATCTTGAACCTTTTGAA-TAATCTCATTG
1 TGAATCCTAGCCTTTTGGTATGAATCCTGAACCTTTTGAAGAAACCT-TTTG
* *
11929442 TGAATCCTAGCCTTTTGGTGTGAATCCT-AACCTTTTGAAGAAACCTTATG
1 TGAATCCTAGCCTTTTGGTATGAATCCTGAACCTTTTGAAGAAACCTTTTG
11929492 TGAATC
1 TGAATC
11929498 TCAAAACTTT
Statistics
Matches: 124, Mismatches: 28, Indels: 37
0.66 0.15 0.20
Matches are distributed among these distances:
50 33 0.27
51 50 0.40
53 1 0.01
54 1 0.01
57 1 0.01
60 1 0.01
62 5 0.04
63 18 0.15
64 14 0.11
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (51 bp):
TGAATCCTAGCCTTTTGGTATGAATCCTGAACCTTTTGAAGAAACCTTTTG
Found at i:11929465 original size:20 final size:20
Alignment explanation
Indices: 11929440--11929478 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11929430 ATAATCTCAT
*
11929440 TGTGAATCCTAGCCTTTTGG
1 TGTGAATCCTAACCTTTTGG
11929460 TGTGAATCCTAACCTTTTG
1 TGTGAATCCTAACCTTTTG
11929479 AAGAAACCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.41
Consensus pattern (20 bp):
TGTGAATCCTAACCTTTTGG
Found at i:11929481 original size:164 final size:164
Alignment explanation
Indices: 11929277--11929677 Score: 676
Period size: 164 Copynumber: 2.4 Consensus size: 164
11929267 AATTTTGGTA
* * * *
11929277 TGAATCCTAGCCTTTTGGTATGAATCTTGAACCTTTTGAAGAAACCTTTTGTGAATCCCAAAACT
1 TGAATCCTAGCCTTTTGGTGTGAATCCT-AACCTTTTGAAGAAACCTTATGTGAATCTCAAAACT
* * *
11929342 TTTGAAAGATTTTTCGGTGTGAATCCCGAACCTCTAAAGAATCTTGGTGTGAATTATAGCCTTTT
65 TTTGAAAGACTCTTCGGTGTGAATCCCGAACATCTAAAGAATCTTGGTGTGAATTATAGCCTTTT
11929407 GGTATGAATCTTGAACCTTTTGAATAATCTCATTG
130 GGTATGAATCTTGAACCTTTTGAATAATCTCATTG
11929442 TGAATCCTAGCCTTTTGGTGTGAATCCTAACCTTTTGAAGAAACCTTATGTGAATCTCAAAACTT
1 TGAATCCTAGCCTTTTGGTGTGAATCCTAACCTTTTGAAGAAACCTTATGTGAATCTCAAAACTT
* *
11929507 TTGAAGGACTCTTCGGTGTGAATCCCGAACATGTAAAGAATCTTGGTGTGAATTATAGCCTTTTG
66 TTGAAAGACTCTTCGGTGTGAATCCCGAACATCTAAAGAATCTTGGTGTGAATTATAGCCTTTTG
11929572 GTATGAATCTTGAACCTTTTGAATAATCTCATTG
131 GTATGAATCTTGAACCTTTTGAATAATCTCATTG
* *
11929606 TGAATCCTAGCCTTTTGGTGTGAATCCCTAACCTTTTGAAGAATCCTTATGTGAATCTCAAACCT
1 TGAATCCTAGCCTTTTGGTGTGAAT-CCTAACCTTTTGAAGAAACCTTATGTGAATCTCAAAACT
*
11929671 ATTGAAA
65 TTTGAAA
11929678 AAAACCTTTT
Statistics
Matches: 222, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
164 154 0.69
165 68 0.31
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (164 bp):
TGAATCCTAGCCTTTTGGTGTGAATCCTAACCTTTTGAAGAAACCTTATGTGAATCTCAAAACTT
TTGAAAGACTCTTCGGTGTGAATCCCGAACATCTAAAGAATCTTGGTGTGAATTATAGCCTTTTG
GTATGAATCTTGAACCTTTTGAATAATCTCATTG
Found at i:11929629 original size:20 final size:21
Alignment explanation
Indices: 11929604--11929643 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11929594 ATAATCTCAT
*
11929604 TGTGAAT-CCTAGCCTTTTGG
1 TGTGAATCCCTAACCTTTTGG
11929624 TGTGAATCCCTAACCTTTTG
1 TGTGAATCCCTAACCTTTTG
11929644 AAGAATCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (21 bp):
TGTGAATCCCTAACCTTTTGG
Found at i:11929662 original size:51 final size:51
Alignment explanation
Indices: 11929553--11929650 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
11929543 AGAATCTTGG
* * *
11929553 TGTGAATTATAGCCTTTTGGTATGAATCTTGAACCTTTTGAATAATCTCAT
1 TGTGAATCATAGCCTTTTGGTATGAATCCTGAACCTTTTGAAGAATCTCAT
* *
11929604 TGTGAATCCTAGCCTTTTGGTGTGAATCCCT-AACCTTTTGAAGAATC
1 TGTGAATCATAGCCTTTTGGTATGAAT-CCTGAACCTTTTGAAGAATC
11929651 CTTATGTGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 39 0.95
52 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (51 bp):
TGTGAATCATAGCCTTTTGGTATGAATCCTGAACCTTTTGAAGAATCTCAT
Found at i:11929700 original size:32 final size:31
Alignment explanation
Indices: 11929624--11929734 Score: 125
Period size: 31 Copynumber: 3.6 Consensus size: 31
11929614 AGCCTTTTGG
* * *
11929624 TGTGAATCCCTAACCTTTTGAAGAATCCTTA
1 TGTGAATCCCAAACCTTTTGAAGAAACCTTT
* * *
11929655 TGTGAATCTCAAACCTATTGAAAAAAACCTTT
1 TGTGAATCCCAAACCTTTTG-AAGAAACCTTT
*
11929687 TGTGAATCCCAAACCTTTTGAAGAAATCTTT
1 TGTGAATCCCAAACCTTTTGAAGAAACCTTT
* *
11929718 TCTGAATCTC-AACCTTT
1 TGTGAATCCCAAACCTTT
11929735 CAGTGTGAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
30 7 0.10
31 34 0.51
32 26 0.39
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (31 bp):
TGTGAATCCCAAACCTTTTGAAGAAACCTTT
Found at i:11929757 original size:164 final size:163
Alignment explanation
Indices: 11929277--11929758 Score: 571
Period size: 164 Copynumber: 2.9 Consensus size: 163
11929267 AATTTTGGTA
* * * *
11929277 TGAATCCTAGCCTTTTGGTATGAATCTTGAACCTTTTGAAGAAACCTTTTGTGAATCCCAAAACT
1 TGAATCCTAGCCTTTTGGTGTGAATCCT-AACCTTTTGAAGAAACCTTATGTGAATCTCAAAACT
* * * * * * * * *
11929342 TTTGAAAGATTTTTCGGTGTGAATCCCGAACCTCTAAAGAATCTTGGTGTGAATTATAGCCTTTT
65 ATTGAAAAACTCTTC-GTGTGAATCCCAAACATGTAAAGAATCTTGGTCTGAATTATAGCCTTTC
*
11929407 GGTATGAATCTTGAACCTTTTGAATAATCTCATTG
129 AGTATGAATCTTGAACCTTTTGAATAATCTCATTG
*
11929442 TGAATCCTAGCCTTTTGGTGTGAATCCTAACCTTTTGAAGAAACCTTATGTGAATCTCAAAACTT
1 TGAATCCTAGCCTTTTGGTGTGAATCCTAACCTTTTGAAGAAACCTTATGTGAATCTCAAAACTA
** * * **
11929507 TTGAAGGACTCTTCGGTGTGAATCCCGAACATGTAAAGAATCTTGGTGTGAATTATAGCCTTTTG
66 TTGAAAAACTCTTC-GTGTGAATCCCAAACATGTAAAGAATCTTGGTCTGAATTATAGCCTTTCA
11929572 GTATGAATCTTGAACCTTTTGAATAATCTCATTG
130 GTATGAATCTTGAACCTTTTGAATAATCTCATTG
* *
11929606 TGAATCCTAGCCTTTTGGTGTGAATCCCTAACCTTTTGAAGAATCCTTATGTGAATCTCAAACCT
1 TGAATCCTAGCCTTTTGGTGTGAAT-CCTAACCTTTTGAAGAAACCTTATGTGAATCTCAAAACT
* * * * *
11929671 ATTGAAAAAAAC-CTT-TTGTGAATCCCAAACCTTTTGAAGAAATCTT-TTCTGAATCTCA-A-C
65 ATTG--AAAAACTCTTCGTGTGAATCCCAAA-CATGTAAAG-AATCTTGGTCTGAAT-T-ATAGC
*
11929731 CTTTCAGTGTGAATCTTGAA-CTTTTGAA
124 CTTTCAGTATGAATCTTGAACCTTTTGAA
11929759 GAACCTTTCG
Statistics
Matches: 286, Mismatches: 24, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
164 174 0.61
165 96 0.34
166 11 0.04
167 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.37
Consensus pattern (163 bp):
TGAATCCTAGCCTTTTGGTGTGAATCCTAACCTTTTGAAGAAACCTTATGTGAATCTCAAAACTA
TTGAAAAACTCTTCGTGTGAATCCCAAACATGTAAAGAATCTTGGTCTGAATTATAGCCTTTCAG
TATGAATCTTGAACCTTTTGAATAATCTCATTG
Found at i:11929785 original size:20 final size:20
Alignment explanation
Indices: 11929760--11929801 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
11929750 ACTTTTGAAG
*
11929760 AACCTTTCGATGTGAATCTC
1 AACCTTTCAATGTGAATCTC
*
11929780 AACCTTTCAATGTGATTCTC
1 AACCTTTCAATGTGAATCTC
11929800 AA
1 AA
11929802 AGACCTTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (20 bp):
AACCTTTCAATGTGAATCTC
Found at i:11932350 original size:14 final size:14
Alignment explanation
Indices: 11932305--11932350 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
11932295 AAAAAGAAAA
*
11932305 TTGAAACCCCAAAC
1 TTGAAACCCCAAAT
*
11932319 TTGAAACCCTAAAAAT
1 TTGAAACCC--CAAAT
11932335 TTGAAACCCCAAAT
1 TTGAAACCCCAAAT
11932349 TT
1 TT
11932351 CATTAAACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 15 0.56
16 12 0.44
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (14 bp):
TTGAAACCCCAAAT
Found at i:11932386 original size:24 final size:24
Alignment explanation
Indices: 11932338--11932387 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
11932328 TAAAAATTTG
** *
11932338 AAACCCCAAATTTCATTAAACCCT
1 AAACCCCAAATCCCATAAAACCCT
*
11932362 AAACCCCAAATCCCATAAAATCCT
1 AAACCCCAAATCCCATAAAACCCT
11932386 AA
1 AA
11932388 TTCCCAAACC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (24 bp):
AAACCCCAAATCCCATAAAACCCT
Found at i:11932475 original size:21 final size:21
Alignment explanation
Indices: 11932434--11932517 Score: 77
Period size: 21 Copynumber: 4.1 Consensus size: 21
11932424 CCAAAATTGA
*
11932434 AACCCT-AAAA-TAAAACACT
1 AACCCTAAAAACTAAAACCCT
11932453 AACCCTAAAAACCT-AAACCCT
1 AACCCTAAAAA-CTAAAACCCT
* * *
11932474 AACCTTAAAAATTAAAAGCCT
1 AACCCTAAAAACTAAAACCCT
*
11932495 AACCCT-AAACCTTAAAACCCT
1 AACCCTAAAAAC-TAAAACCCT
11932516 AA
1 AA
11932518 AGCCTAACCT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
19 6 0.12
20 8 0.15
21 37 0.71
22 1 0.02
ACGTcount: A:0.51, C:0.30, G:0.01, T:0.18
Consensus pattern (21 bp):
AACCCTAAAAACTAAAACCCT
Found at i:11932519 original size:28 final size:29
Alignment explanation
Indices: 11932453--11932537 Score: 97
Period size: 28 Copynumber: 3.0 Consensus size: 29
11932443 ATAAAACACT
*
11932453 AACCCTAAAAACCTAAACCCT-AACCTTAA
1 AACCCTAAAAGCCT-AACCCTAAACCTTAA
**
11932482 AA-ATTAAAAGCCTAACCCTAAACCTTAA
1 AACCCTAAAAGCCTAACCCTAAACCTTAA
*
11932510 AACCCT-AAAGCCTAA-CCTAAACCCTAA
1 AACCCTAAAAGCCTAACCCTAAACCTTAA
11932537 A
1 A
11932538 CCAATTGTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
27 18 0.38
28 27 0.56
29 3 0.06
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (29 bp):
AACCCTAAAAGCCTAACCCTAAACCTTAA
Found at i:11936707 original size:20 final size:20
Alignment explanation
Indices: 11936684--11936722 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11936674 GTGAAAACAA
11936684 GAAAGAAAAAAAAAATAAAG
1 GAAAGAAAAAAAAAATAAAG
* *
11936704 GAAAGGAAAAAAAATTAAA
1 GAAAGAAAAAAAAAATAAA
11936723 AAAAAAAACA
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:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (20 bp):
GAAAGAAAAAAAAAATAAAG
Found at i:11937992 original size:22 final size:22
Alignment explanation
Indices: 11937967--11938072 Score: 117
Period size: 22 Copynumber: 4.8 Consensus size: 22
11937957 AATTTATGAT
*
11937967 TGGAGGACTTTGAGATTGTGCC
1 TGGAGGACTTTAAGATTGTGCC
**
11937989 TGGAGGACTTTAAGATTGTGTT
1 TGGAGGACTTTAAGATTGTGCC
*
11938011 TAGG-GGACTTTAAAATTGTGCC
1 T-GGAGGACTTTAAGATTGTGCC
* *
11938033 TAGAGGACTTTGAGATTGTGTCC
1 TGGAGGACTTTAAGATTGTG-CC
*
11938056 -GGAGGACCTTAAGATTG
1 TGGAGGACTTTAAGATTG
11938073 CATTCTGAGG
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.01
22 64 0.93
23 4 0.06
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.33
Consensus pattern (22 bp):
TGGAGGACTTTAAGATTGTGCC
Found at i:11938085 original size:66 final size:66
Alignment explanation
Indices: 11937969--11938096 Score: 170
Period size: 66 Copynumber: 1.9 Consensus size: 66
11937959 TTTATGATTG
* ** *
11937969 GAGGACTTTGAGATTGTGCCTGGAGGACTTTAAGATTGTGTTTAGGGGACTTTAAAATTGTGCCT
1 GAGGACTTTGAGATTGTGCCTGGAGGACCTTAAGATTGCATTTAGAGGACTTTAAAATTGTGCCT
11938034 A
66 A
* *
11938035 GAGGACTTTGAGATTGTGTCC-GGAGGACCTTAAGATTGCATTCT-GAGGACTTTGAGATTGTG
1 GAGGACTTTGAGATTGTG-CCTGGAGGACCTTAAGATTGCATT-TAGAGGACTTTAAAATTGTG
11938097 TCCAAAAAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
66 51 0.94
67 3 0.06
ACGTcount: A:0.23, C:0.12, G:0.31, T:0.34
Consensus pattern (66 bp):
GAGGACTTTGAGATTGTGCCTGGAGGACCTTAAGATTGCATTTAGAGGACTTTAAAATTGTGCCT
A
Found at i:11938109 original size:66 final size:66
Alignment explanation
Indices: 11937973--11938112 Score: 151
Period size: 66 Copynumber: 2.1 Consensus size: 66
11937963 TGATTGGAGG
* ** * * *
11937973 ACTTTGAGATTGTGCCTGGAGGACTTTAAGATTGTGTTTAGGGGACTTTAAAATTGTGCCTAGAG
1 ACTTTGAGATTGTGCCTGGAGGACCTTAAGATTGCATTTAGAGGACTTTAAAATTGTGCCTAAAA
*
11938038 G
66 A
* *
11938039 ACTTTGAGATTGTGTCC-GGAGGACCTTAAGATTGCATTCT-GAGGACTTTGAGATTGTGTCC-A
1 ACTTTGAGATTGTG-CCTGGAGGACCTTAAGATTGCATT-TAGAGGACTTTAAAATTGTG-CCTA
11938101 AAAA
63 AAAA
11938105 ACTTTGAG
1 ACTTTGAG
11938113 GTTTTTGGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
66 57 0.92
67 5 0.08
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.34
Consensus pattern (66 bp):
ACTTTGAGATTGTGCCTGGAGGACCTTAAGATTGCATTTAGAGGACTTTAAAATTGTGCCTAAAA
A
Found at i:11941404 original size:6 final size:6
Alignment explanation
Indices: 11941382--11941415 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
11941372 ATGAACTTTA
11941382 TTTTTC TTTTT- TTTTTC TTTTTCC TTTTTC TTTT
1 TTTTTC TTTTTC TTTTTC TTTTT-C TTTTTC TTTT
11941416 CAAGGCACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:11946337 original size:24 final size:24
Alignment explanation
Indices: 11946293--11946346 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
11946283 TTAGAGGAGA
11946293 GAAAA-TT-TTTTACAAATTTTTT
1 GAAAAGTTGTTTTACAAATTTTTT
11946315 GGAAAAGTTGTTTT-CAAATTTTTT
1 -GAAAAGTTGTTTTACAAATTTTTT
11946339 G-AAAGTTG
1 GAAAAGTTG
11946347 ATGCTTCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 7 0.24
23 6 0.21
24 12 0.41
25 4 0.14
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (24 bp):
GAAAAGTTGTTTTACAAATTTTTT
Done.