Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, 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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 97 of 120
Found at i:13097912 original size:65 final size:65
Alignment explanation
Indices: 13097717--13097912 Score: 153
Period size: 65 Copynumber: 3.0 Consensus size: 65
13097707 TTCGCAGTTT
* * * * * * * *
13097717 GATCCCAATCACCCATTTTTTATCTTAAC-TCAGTCCAAATCATGTTTTTTTTTTTTACTCACGA
1 GATCCCGATCACCCA-ATTTGATCTCAACTTCA-TCTAAATCAT-TTTATTTTTTTAACTCATGA
*
13097781 TTT
63 TTC
* ** * * * * * **
13097784 GATCCCGATCATCCTTTTTTATCTCAACTTGATCTAAATTATTTTATTTTTTAAATTTGTGATTC
1 GATCCCGATCACCCAATTTGATCTCAACTTCATCTAAATCATTTTATTTTTTTAACTCATGATTC
* *
13097849 GATCCC-AGTCACCCAATTTGATCTCGATTTCATCTAAATCATTTTATTTTTTTAACTCATGATT
1 GATCCCGA-TCACCCAATTTGATCTCAACTTCATCTAAATCATTTTATTTTTTTAACTCATGATT
13097913 TAATCTCGGT
Statistics
Matches: 100, Mismatches: 27, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
64 1 0.01
65 65 0.65
66 20 0.20
67 14 0.14
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.47
Consensus pattern (65 bp):
GATCCCGATCACCCAATTTGATCTCAACTTCATCTAAATCATTTTATTTTTTTAACTCATGATTC
Found at i:13098019 original size:67 final size:66
Alignment explanation
Indices: 13097886--13098037 Score: 207
Period size: 66 Copynumber: 2.3 Consensus size: 66
13097876 TTTCATCTAA
* * *
13097886 ATCATTTTATTTTTTTAACTCATGATTTAATCTCGGTTGCTTATTTTTTATCTCAGCTCAATCTA
1 ATCATTTTATTTTTTTGACTCATAATTTAATCTCGGTTGCTTATTTTTTATCTCAGCTCAAGCTA
13097951 G
66 G
* * * * *
13097952 ATTATTTTATTTTTTTGACTCGTAATTTGATC-CTGGTTGTTTATTTTTTAATCTCAGCTCGAGC
1 ATCATTTTATTTTTTTGACTCATAATTTAATCTC-GGTTGCTTATTTTTT-ATCTCAGCTCAAGC
13098016 TAG
64 TAG
13098019 ATCATTTTATTTTTTTGAC
1 ATCATTTTATTTTTTTGAC
13098038 CGACAATTCG
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
65 1 0.01
66 41 0.55
67 33 0.44
ACGTcount: A:0.21, C:0.14, G:0.11, T:0.53
Consensus pattern (66 bp):
ATCATTTTATTTTTTTGACTCATAATTTAATCTCGGTTGCTTATTTTTTATCTCAGCTCAAGCTA
G
Found at i:13098525 original size:3 final size:3
Alignment explanation
Indices: 13098517--13098573 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
13098507 ATCCAACCAA
13098517 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13098565 TAT TAT TAT
1 TAT TAT TAT
13098574 CAATTTTATT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13103181 original size:3 final size:3
Alignment explanation
Indices: 13103173--13103202 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
13103163 TGAGATGCAA
13103173 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
1 GTT GTT GTT GTT GTT GTT GTT GTT GTT GTT
13103203 ATTATTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
GTT
Found at i:13103207 original size:3 final size:3
Alignment explanation
Indices: 13103201--13103242 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
13103191 GTTGTTGTTG
13103201 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13103243 GAAATAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13108533 original size:18 final size:18
Alignment explanation
Indices: 13108512--13108563 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
13108502 TTATGTTGGG
13108512 GGATACATTTGAGGTGGA
1 GGATACATTTGAGGTGGA
* *
13108530 GGATACATTTAAGGTAGA
1 GGATACATTTGAGGTGGA
*
13108548 TGATACATTTGAGGTG
1 GGATACATTTGAGGTG
13108564 AATAATAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.31, C:0.06, G:0.33, T:0.31
Consensus pattern (18 bp):
GGATACATTTGAGGTGGA
Found at i:13118184 original size:31 final size:31
Alignment explanation
Indices: 13118148--13118208 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
13118138 AAATCGAAAC
*
13118148 CTTAAACCACCTAAACCTTAA-CT-TTAAACCA
1 CTTAAA-C-CCTAAACCTAAATCTCTTAAACCA
13118179 CTTAAACCCTAAACCTAAATCTCTTAAACC
1 CTTAAACCCTAAACCTAAATCTCTTAAACC
13118209 CTAACACTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 11 0.41
30 3 0.11
31 13 0.48
ACGTcount: A:0.41, C:0.33, G:0.00, T:0.26
Consensus pattern (31 bp):
CTTAAACCCTAAACCTAAATCTCTTAAACCA
Found at i:13118197 original size:22 final size:22
Alignment explanation
Indices: 13118144--13118212 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
13118134 CTTAAAATCG
*
13118144 AAACCTTAAACCACCTAAA-CCT
1 AAACC-TAAACCACTTAAACCCT
* *
13118166 TAACTTTAAACCACTTAAACCCT
1 AAAC-CTAAACCACTTAAACCCT
* *
13118189 AAACCTAAATCTCTTAAACCCT
1 AAACCTAAACCACTTAAACCCT
13118211 AA
1 AA
13118213 CACTTGAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
22 32 0.84
23 6 0.16
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (22 bp):
AAACCTAAACCACTTAAACCCT
Found at i:13119037 original size:34 final size:34
Alignment explanation
Indices: 13118965--13119044 Score: 88
Period size: 34 Copynumber: 2.4 Consensus size: 34
13118955 AATTTTATGT
*
13118965 ATTTTAAAAAATAAATTTTTGAGAATACAAAATG
1 ATTTTAAAAAATAAATTTTTGAGAATACAAAATA
* ** ** *
13118999 ATTTTTAAAAATTTATTTTTGAGAATGTAATATA
1 ATTTTAAAAAATAAATTTTTGAGAATACAAAATA
*
13119033 ATTTTCAAAAAT
1 ATTTTAAAAAAT
13119045 CGATATTTGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (34 bp):
ATTTTAAAAAATAAATTTTTGAGAATACAAAATA
Found at i:13119505 original size:2 final size:2
Alignment explanation
Indices: 13119498--13119540 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
13119488 CAGGAAACCC
13119498 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
13119540 C
1 C
13119541 ACTTTTTCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:13124311 original size:27 final size:24
Alignment explanation
Indices: 13124249--13124312 Score: 58
Period size: 24 Copynumber: 2.5 Consensus size: 24
13124239 TAAGCAATTT
*
13124249 TTTAATAAAAATATATTAATTTTAA
1 TTTAATAAAAA-ATAATAATTTTAA
**
13124274 -TTAATCTAAAATAATAATTTATATTA
1 TTTAATAAAAAATAATAATTT-TA--A
13124300 TTTAATAAAAAAT
1 TTTAATAAAAAAT
13124313 TTATTTACTA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
23 9 0.30
24 10 0.33
26 1 0.03
27 10 0.33
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTAATAAAAAATAATAATTTTAA
Found at i:13124603 original size:18 final size:19
Alignment explanation
Indices: 13124557--13124604 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
13124547 TTAATATTAT
*
13124557 TTAAACATAAAAAAAATAA
1 TTAAACATAAAAAAAACAA
* *
13124576 TTAAA-GTAAAAAAAGCAA
1 TTAAACATAAAAAAAACAA
13124594 -TAAACATAAAA
1 TTAAACATAAAA
13124605 TTATAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 4 0.17
18 15 0.62
19 5 0.21
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (19 bp):
TTAAACATAAAAAAAACAA
Found at i:13131297 original size:20 final size:20
Alignment explanation
Indices: 13131259--13131298 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13131249 TTGATTTAAT
*
13131259 TTTTTATTTTTTATTTTTTC
1 TTTTTATTTTTTATCTTTTC
13131279 TTTTTATTTTCTTA-CTTTTC
1 TTTTTATTTT-TTATCTTTTC
13131299 CTTGTCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTATTTTTTATCTTTTC
Found at i:13133538 original size:16 final size:17
Alignment explanation
Indices: 13133519--13133552 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13133509 AATCAAATTA
13133519 TATATTTTAT-AATTTT
1 TATATTTTATAAATTTT
*
13133535 TATATTTTTTAAATTTT
1 TATATTTTATAAATTTT
13133552 T
1 T
13133553 TAAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATATTTTATAAATTTT
Found at i:13133554 original size:18 final size:18
Alignment explanation
Indices: 13133516--13133552 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
13133506 TCTAATCAAA
13133516 TTATATATTTTATAATTT
1 TTATATATTTTATAATTT
*
13133534 TTATATTTTTTA-AATTT
1 TTATATATTTTATAATTT
13133551 TT
1 TT
13133553 TAAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATATATTTTATAATTT
Found at i:13133917 original size:13 final size:13
Alignment explanation
Indices: 13133899--13133932 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13133889 ACAAATTATT
* *
13133899 ATTTAATATTTTA
1 ATTTAATATATGA
13133912 ATTTAATATATGA
1 ATTTAATATATGA
13133925 ATTTAATA
1 ATTTAATA
13133933 AAAATATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
ATTTAATATATGA
Found at i:13135436 original size:27 final size:26
Alignment explanation
Indices: 13135391--13135444 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
13135381 TAAAATTATC
*
13135391 AAAATTTAAATATTAATTATTAAATT
1 AAAATTTAAATATTAATTAATAAATT
* *
13135417 AAAATTTTAATATTTTATTAATAAATT
1 AAAATTTAAATA-TTAATTAATAAATT
13135444 A
1 A
13135445 TACTATTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
AAAATTTAAATATTAATTAATAAATT
Found at i:13136076 original size:2 final size:2
Alignment explanation
Indices: 13136069--13136106 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
13136059 ATTCACGTGA
13136069 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
13136107 GTTCTATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:13145315 original size:28 final size:26
Alignment explanation
Indices: 13145254--13145324 Score: 61
Period size: 28 Copynumber: 2.6 Consensus size: 26
13145244 AATTTAAAAT
13145254 TTTAATAAAAATATATATAAATTTTA
1 TTTAATAAAAATATATATAAATTTTA
** **
13145280 TGAAAATAAAAATTATATATTTATATTTA
1 T-TTAATAAAAA-TATATATAAAT-TTTA
*
13145309 TTTAATATATAATATA
1 TTTAATA-AAAATATA
13145325 AATTATAATG
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
26 1 0.03
27 8 0.24
28 17 0.50
29 8 0.24
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (26 bp):
TTTAATAAAAATATATATAAATTTTA
Found at i:13145911 original size:16 final size:15
Alignment explanation
Indices: 13145887--13145924 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
13145877 ATTTAAAGAT
*
13145887 ATATAAAAAATTATAA
1 ATATTAAAAATT-TAA
13145903 ATATT-AAAATTTAA
1 ATATTAAAAATTTAA
13145917 ATATTAAA
1 ATATTAAA
13145925 TTTATTGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 8 0.40
16 4 0.20
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATTAAAAATTTAA
Found at i:13145919 original size:14 final size:14
Alignment explanation
Indices: 13145893--13145928 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
13145883 AGATATATAA
13145893 AAAATTATAAATATT
1 AAAATT-TAAATATT
13145908 AAAATTTAAATATT
1 AAAATTTAAATATT
13145922 -AAATTTA
1 AAAATTTA
13145929 TTGATATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.33
14 8 0.38
15 6 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAAATTTAAATATT
Found at i:13156794 original size:53 final size:53
Alignment explanation
Indices: 13156722--13156832 Score: 213
Period size: 53 Copynumber: 2.1 Consensus size: 53
13156712 CGATTTCTTT
*
13156722 TTTTTGTGAGTATTTTCTGACCACAACTCTGTTTCTTATTACTATTTTTTTTC
1 TTTTTGTGAGTATTTTCTGACCACAACTCTGTTTCTTATTACTATTTTTTTTA
13156775 TTTTTGTGAGTATTTTCTGACCACAACTCTGTTTCTTATTACTATTTTTTTTA
1 TTTTTGTGAGTATTTTCTGACCACAACTCTGTTTCTTATTACTATTTTTTTTA
13156828 TTTTT
1 TTTTT
13156833 CTAAATTTAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.17, C:0.15, G:0.09, T:0.59
Consensus pattern (53 bp):
TTTTTGTGAGTATTTTCTGACCACAACTCTGTTTCTTATTACTATTTTTTTTA
Found at i:13164816 original size:18 final size:17
Alignment explanation
Indices: 13164793--13164827 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
13164783 ATAAAAATTT
13164793 TAAAAATATATAAATTAA
1 TAAAAATATAT-AATTAA
13164811 TAAAAATATATAATTAA
1 TAAAAATATATAATTAA
13164828 ATTTGGTTCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAAATATATAATTAA
Found at i:13165432 original size:37 final size:38
Alignment explanation
Indices: 13165391--13165482 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 38
13165381 AAAGAATCTT
13165391 AAAATTTTAATAAAAAATTCA-AAAAAAATAAAAAATG
1 AAAATTTTAATAAAAAATTCACAAAAAAATAAAAAATG
* * *** *
13165428 AAAATTCTAATAAAACATTCACAAAACTTTAAAATATG
1 AAAATTTTAATAAAAAATTCACAAAAAAATAAAAAATG
*
13165466 AAAACTTTAA-AAAAAAT
1 AAAATTTTAATAAAAAAT
13165483 CTAAATTTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
37 25 0.56
38 20 0.44
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.26
Consensus pattern (38 bp):
AAAATTTTAATAAAAAATTCACAAAAAAATAAAAAATG
Found at i:13165685 original size:14 final size:13
Alignment explanation
Indices: 13165660--13165698 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
13165650 CCAAATTTTC
*
13165660 AAAAATTAAAAAT
1 AAAAATAAAAAAT
*
13165673 TAAAATAATAAAAT
1 AAAAATAA-AAAAT
13165687 AAAAATAAAAAA
1 AAAAATAAAAAA
13165699 CAATCATGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:13165861 original size:10 final size:9
Alignment explanation
Indices: 13165843--13165925 Score: 57
Period size: 9 Copynumber: 9.6 Consensus size: 9
13165833 TATTATTAGA
13165843 TTTTTAAAT
1 TTTTTAAAT
*
13165852 TTTTTAAAA
1 TTTTTAAAT
* *
13165861 TTTTCAGAT
1 TTTTTAAAT
*
13165870 TTGTT-AAT
1 TTTTTAAAT
13165878 TTTTTAAAAT
1 TTTTT-AAAT
*
13165888 TTTCT--AT
1 TTTTTAAAT
*
13165895 TTTTTAAAG
1 TTTTTAAAT
*
13165904 ATTTT-AAT
1 TTTTTAAAT
*
13165912 TTTTTAGAT
1 TTTTTAAAT
13165921 TTTTT
1 TTTTT
13165926 TAGTTTTTTC
Statistics
Matches: 54, Mismatches: 15, Indels: 10
0.68 0.19 0.13
Matches are distributed among these distances:
7 6 0.11
8 12 0.22
9 29 0.54
10 7 0.13
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:13165869 original size:26 final size:26
Alignment explanation
Indices: 13165840--13165891 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
13165830 CTTTATTATT
13165840 AGATTT-TTAAATTTTTTAAAATTTTC
1 AGATTTGTT-AATTTTTTAAAATTTTC
13165866 AGATTTGTTAATTTTTTAAAATTTTC
1 AGATTTGTTAATTTTTTAAAATTTTC
13165892 TATTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.58
Consensus pattern (26 bp):
AGATTTGTTAATTTTTTAAAATTTTC
Found at i:13165882 original size:18 final size:17
Alignment explanation
Indices: 13165843--13165924 Score: 64
Period size: 17 Copynumber: 4.8 Consensus size: 17
13165833 TATTATTAGA
*
13165843 TTTTTAA-ATTTTTTAAA
1 TTTTTAAGA-TTTTTAAT
* *
13165860 ATTTTCAGATTTGTTAAT
1 TTTTTAAGATTT-TTAAT
*
13165878 TTTTTAAAATTTTCT-AT
1 TTTTTAAGATTTT-TAAT
13165895 TTTTTAAAGA-TTTTAAT
1 TTTTT-AAGATTTTTAAT
13165912 TTTTT-AGATTTTT
1 TTTTTAAGATTTTT
13165925 TTAGTTTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
15 3 0.06
16 5 0.10
17 26 0.50
18 18 0.35
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (17 bp):
TTTTTAAGATTTTTAAT
Found at i:13165896 original size:17 final size:17
Alignment explanation
Indices: 13165873--13165917 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
13165863 TTCAGATTTG
13165873 TTAATTTTTTAAA-ATT
1 TTAATTTTTTAAAGATT
*
13165889 TTCTATTTTTTAAAGATT
1 TT-AATTTTTTAAAGATT
13165907 TTAATTTTTTA
1 TTAATTTTTTA
13165918 GATTTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 2 0.08
17 18 0.72
18 5 0.20
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TTAATTTTTTAAAGATT
Found at i:13165908 original size:26 final size:26
Alignment explanation
Indices: 13165843--13165934 Score: 71
Period size: 26 Copynumber: 3.5 Consensus size: 26
13165833 TATTATTAGA
13165843 TTTTTAAATTTTTTAAAATTTTCAGAT
1 TTTTTAAATTTTTTAAAA-TTTCAGAT
* *
13165870 TTGTT-AATTTTTTAAAATTTTC-TAT
1 TTTTTAAATTTTTTAAAA-TTTCAGAT
** ** *
13165895 TTTTTAAAGATTTTAATTTTTTAGAT
1 TTTTTAAATTTTTTAAAATTTCAGAT
* *
13165921 TTTTTTAGTTTTTT
1 TTTTTAAATTTTTT
13165935 CATTTTTTCG
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
25 9 0.18
26 37 0.74
27 4 0.08
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.65
Consensus pattern (26 bp):
TTTTTAAATTTTTTAAAATTTCAGAT
Found at i:13165926 original size:18 final size:18
Alignment explanation
Indices: 13165843--13165934 Score: 66
Period size: 18 Copynumber: 5.3 Consensus size: 18
13165833 TATTATTAGA
*
13165843 TTTTT-AAATTTTTTAAA
1 TTTTTAAAATTTTTTAAT
* * * *
13165860 ATTTTCAGATTTGTTAAT
1 TTTTTAAAATTTTTTAAT
*
13165878 TTTTTAAAATTTTCT-AT
1 TTTTTAAAATTTTTTAAT
13165895 TTTTTAAAGA--TTTTAAT
1 TTTTTAAA-ATTTTTTAAT
* * *
13165912 TTTTTAGATTTTTTTAGT
1 TTTTTAAAATTTTTTAAT
13165930 TTTTT
1 TTTTT
13165935 CATTTTTTCG
Statistics
Matches: 57, Mismatches: 13, Indels: 9
0.72 0.16 0.11
Matches are distributed among these distances:
16 3 0.05
17 23 0.40
18 31 0.54
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTTTAAAATTTTTTAAT
Found at i:13170624 original size:13 final size:13
Alignment explanation
Indices: 13170603--13170638 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
13170593 TTCCAGGATG
13170603 TTAGTTTGAATTT
1 TTAGTTTGAATTT
*
13170616 TTAGCTTGAA-TT
1 TTAGTTTGAATTT
13170628 TTAGTTTGAAT
1 TTAGTTTGAAT
13170639 GCTTGGTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.25, C:0.03, G:0.17, T:0.56
Consensus pattern (13 bp):
TTAGTTTGAATTT
Found at i:13174730 original size:15 final size:16
Alignment explanation
Indices: 13174710--13174742 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
13174700 AAATATTAAT
13174710 AAAGGAAAGG-AAAGA
1 AAAGGAAAGGAAAAGA
13174725 AAAGGAAAGGAAAAGA
1 AAAGGAAAGGAAAAGA
13174741 AA
1 AA
13174743 GTTTTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AAAGGAAAGGAAAAGA
Found at i:13174761 original size:5 final size:5
Alignment explanation
Indices: 13174710--13174743 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
13174700 AAATATTAAT
* *
13174710 AAAGG AAAGG AAAGA AAAGG AAAGG AAAAG AAAG
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAG
13174744 TTTTTTAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (5 bp):
AAAGG
Found at i:13175624 original size:34 final size:34
Alignment explanation
Indices: 13175576--13175643 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
13175566 GTTTACAAGG
*
13175576 TAAACCAAAAGTTATTTTGGTTTCCACCTCTTTT
1 TAAACCAAAAGTTATTTTGGTTTCAACCTCTTTT
*
13175610 TAAACCAAAGGTTATTTTGGTTTCAACCTCTTTT
1 TAAACCAAAAGTTATTTTGGTTTCAACCTCTTTT
13175644 CCTTTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.44
Consensus pattern (34 bp):
TAAACCAAAAGTTATTTTGGTTTCAACCTCTTTT
Found at i:13182016 original size:19 final size:18
Alignment explanation
Indices: 13181997--13182060 Score: 50
Period size: 18 Copynumber: 3.7 Consensus size: 18
13181987 AAATAAATTA
13181997 AATATTAATAAATTTTTT
1 AATATTAATAAATTTTTT
13182015 AATATT--T-AATTTATTT
1 AATATTAATAAATTT-TTT
13182031 -A-ATTAATAAATATTTGTT
1 AATATTAATAAAT-TTT-TT
13182049 AA-ATTTAATAAA
1 AATA-TTAATAAA
13182061 CTAATAAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
14 3 0.08
15 6 0.16
16 5 0.13
17 4 0.11
18 10 0.26
19 2 0.05
20 8 0.21
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
AATATTAATAAATTTTTT
Found at i:13184509 original size:22 final size:22
Alignment explanation
Indices: 13184467--13184515 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
13184457 ATTAAAAAAT
13184467 ATTTAATAAATATAATATTTAA
1 ATTTAATAAATATAATATTTAA
* *
13184489 ATTTCAATAATTAT-ATTTTTAA
1 ATTT-AATAAATATAATATTTAA
13184511 ATTTA
1 ATTTA
13184516 TTTTCATACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.04
22 15 0.62
23 8 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTAATAAATATAATATTTAA
Found at i:13184826 original size:26 final size:26
Alignment explanation
Indices: 13184793--13184848 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
13184783 TATCAAATAA
13184793 AAATTTTT-AATAAATTATTTAAATT-
1 AAATTTTTGAAT-AATTATTTAAATTG
*
13184818 AAATATTTTGGATAATTATTTAAATTG
1 AAAT-TTTTGAATAATTATTTAAATTG
13184845 AAAT
1 AAAT
13184849 CAAAATCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 4 0.15
26 17 0.63
27 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.48
Consensus pattern (26 bp):
AAATTTTTGAATAATTATTTAAATTG
Found at i:13191090 original size:32 final size:32
Alignment explanation
Indices: 13191054--13191115 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
13191044 ACTGGACTTA
13191054 GATATTGACTCTTCTAATAGATATTATTATTG
1 GATATTGACTCTTCTAATAGATATTATTATTG
* *
13191086 GATATTGACTCTTCTAATAGTTGTTATTAT
1 GATATTGACTCTTCTAATAGATATTATTAT
13191116 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.48
Consensus pattern (32 bp):
GATATTGACTCTTCTAATAGATATTATTATTG
Found at i:13194388 original size:2 final size:2
Alignment explanation
Indices: 13194376--13194408 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
13194366 ATGCTATGGC
13194376 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13194409 TGGAAAGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13203885 original size:17 final size:18
Alignment explanation
Indices: 13203863--13203954 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 18
13203853 ACTATTAAAA
13203863 TATTAAAAATAATT-TAT
1 TATTAAAAATAATTATAT
13203880 TATT-AAAATATATTGAAATAT
1 TATTAAAAATA-ATT---ATAT
**
13203901 TATT-ATTA-AATTATTAT
1 TATTAAAAATAATTA-TAT
13203918 TATTAAAAAATAATTATAT
1 TATT-AAAAATAATTATAT
* *
13203937 T-TTAATAATAATAATAT
1 TATTAAAAATAATTATAT
13203954 T
1 T
13203955 TAATATTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
16 7 0.12
17 27 0.45
18 2 0.03
19 9 0.15
20 6 0.10
21 9 0.15
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (18 bp):
TATTAAAAATAATTATAT
Found at i:13203906 original size:27 final size:25
Alignment explanation
Indices: 13203855--13203916 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 25
13203845 ATTAATATAC
13203855 TATTAAAATATTAAAAATAATTTAT
1 TATTAAAATATTAAAAATAATTTAT
**
13203880 TATTAAAATATATTGAAAT-A-TTAT
1 TATTAAAATAT-TAAAAATAATTTAT
*
13203904 TATTAAATTATTA
1 TATTAAAATATTA
13203917 TTATTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.03
24 14 0.44
25 12 0.38
26 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
TATTAAAATATTAAAAATAATTTAT
Found at i:13203915 original size:14 final size:14
Alignment explanation
Indices: 13203898--13203924 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13203888 TATATTGAAA
13203898 TATTATTATTAAAT
1 TATTATTATTAAAT
13203912 TATTATTATTAAA
1 TATTATTATTAAA
13203925 AAATAATTAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TATTATTATTAAAT
Found at i:13203915 original size:35 final size:36
Alignment explanation
Indices: 13203844--13203919 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 36
13203834 TTTCAAATAA
* *
13203844 TATTAATATACTATTAAAATATTAAAAATAATTTAT
1 TATTAAAATACTATTAAAATATTAAAAATAAATTAT
* ** *
13203880 TATTAAAATA-TATTGAAATATTATTATTAAATTAT
1 TATTAAAATACTATTAAAATATTAAAAATAAATTAT
13203915 TATTA
1 TATTA
13203920 TTAAAAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 25 0.74
36 9 0.26
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (36 bp):
TATTAAAATACTATTAAAATATTAAAAATAAATTAT
Found at i:13203970 original size:16 final size:16
Alignment explanation
Indices: 13203926--13203959 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
13203916 ATTATTAAAA
*
13203926 AATAATTATATTTTAAT
1 AATAATAATA-TTTAAT
13203943 AATAATAATATTTAAT
1 AATAATAATATTTAAT
13203959 A
1 A
13203960 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATAATAATATTTAAT
Found at i:13204058 original size:26 final size:26
Alignment explanation
Indices: 13204015--13204143 Score: 83
Period size: 26 Copynumber: 4.9 Consensus size: 26
13204005 TTTTTATTCT
* *
13204015 TTATATTATTTATCAATATATTCTAATA
1 TTAT-TTATTAAT-AATATATTATAATA
13204043 TTATTTATTAATAATAT-TTATTAATA
1 TTATTTATTAATAATATATTA-TAATA
*
13204069 -TATTATATTAATAGTATATTAT-ATA
1 TTATT-TATTAATAATATATTATAATA
* *
13204094 TTA-ATA-TAATATTAT-TTATTAATA
1 TTATTTATTAATAATATATTA-TAATA
*
13204118 TTAATATATT-ATAATATTATTTATAA
1 TT-ATTTATTAATAATA-TA-TTATAA
13204144 ATAAAATTAT
Statistics
Matches: 83, Mismatches: 6, Indels: 24
0.73 0.05 0.21
Matches are distributed among these distances:
22 3 0.04
23 9 0.11
24 7 0.08
25 10 0.12
26 32 0.39
27 12 0.14
28 7 0.08
29 3 0.04
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (26 bp):
TTATTTATTAATAATATATTATAATA
Found at i:13204059 original size:16 final size:16
Alignment explanation
Indices: 13204038--13204153 Score: 88
Period size: 13 Copynumber: 7.6 Consensus size: 16
13204028 CAATATATTC
13204038 TAATATTATTTATTAA
1 TAATATTATTTATTAA
13204054 T-A-A-TATTTATTAA
1 TAATATTATTTATTAA
13204067 T-ATATTA--TATTAA
1 TAATATTATTTATTAA
*
13204080 TAGTATATTATATATTAATA
1 TA--ATATTATTTATT-A-A
13204100 TAATATTATTTATTAA
1 TAATATTATTTATTAA
* *
13204116 T-AT-TAATATATT-A
1 TAATATTATTTATTAA
*
13204129 TAATATTATTTATAAA
1 TAATATTATTTATTAA
*
13204145 TAAAATTAT
1 TAATATTAT
13204154 ATTCAAAAGT
Statistics
Matches: 81, Mismatches: 7, Indels: 24
0.72 0.06 0.21
Matches are distributed among these distances:
13 21 0.26
14 11 0.14
15 11 0.14
16 18 0.22
17 1 0.01
18 15 0.19
19 1 0.01
20 3 0.04
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.53
Consensus pattern (16 bp):
TAATATTATTTATTAA
Found at i:13204107 original size:29 final size:28
Alignment explanation
Indices: 13204061--13204142 Score: 79
Period size: 24 Copynumber: 3.1 Consensus size: 28
13204051 TAATAATATT
13204061 TATTAATATATTATATTAATAGTATATTATA
1 TATTAATATA--ATATTAATA-TATATTATA
13204092 TATTAATATAATATT-AT-T-TATTA-A
1 TATTAATATAATATTAATATATATTATA
*
13204116 TATTAATATATTA-TAATAT-TATT-TA
1 TATTAATATAATATTAATATATATTATA
13204141 TA
1 TA
13204143 AATAAAATTA
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
23 1 0.02
24 15 0.32
25 13 0.28
26 1 0.02
28 2 0.04
29 5 0.11
31 10 0.21
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (28 bp):
TATTAATATAATATTAATATATATTATA
Found at i:13204127 original size:18 final size:19
Alignment explanation
Indices: 13204061--13204136 Score: 83
Period size: 18 Copynumber: 4.3 Consensus size: 19
13204051 TAATAATATT
13204061 TATTAATA-TATTATATTAA
1 TATTAATATTATT-TATTAA
* *
13204080 TAGT-ATATTATATATTAA
1 TATTAATATTATTTATTAA
13204098 TA-TAATATTATTTATTAA
1 TATTAATATTATTTATTAA
13204116 TATTAATA-TA-TTA-TAA
1 TATTAATATTATTTATTAA
13204132 TATTA
1 TATTA
13204137 TTTATAAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
16 8 0.16
17 4 0.08
18 28 0.55
19 11 0.22
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (19 bp):
TATTAATATTATTTATTAA
Found at i:13209188 original size:100 final size:100
Alignment explanation
Indices: 13209065--13209265 Score: 348
Period size: 100 Copynumber: 2.0 Consensus size: 100
13209055 CCTGGTCTAT
* * * *
13209065 TGCTGTACTTGACAATTTCTATTGCCTTTAGCAATGTTCACGTTGCCTAATGCATGACTAGTAAC
1 TGCTGTACTTGACAATTTCTATTGCCTTAAGCAATGTTCACATTGCCTAAGGCATGACTAGAAAC
*
13209130 ATTCATATTGTAACTATAACAAGCATTGTACTAGC
66 ATTCATATTGTAACTATAACAAGCATTGTACAAGC
13209165 TGCTGTACTTGACAATTTCTATTGCCTTAAGCAATGTTCACATTGCCTAAGGCATGACTAGAAAC
1 TGCTGTACTTGACAATTTCTATTGCCTTAAGCAATGTTCACATTGCCTAAGGCATGACTAGAAAC
*
13209230 ATTCATATTGTAACTATAACAGGCATTGTACAAGC
66 ATTCATATTGTAACTATAACAAGCATTGTACAAGC
13209265 T
1 T
13209266 TCTGATGTTG
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 95 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (100 bp):
TGCTGTACTTGACAATTTCTATTGCCTTAAGCAATGTTCACATTGCCTAAGGCATGACTAGAAAC
ATTCATATTGTAACTATAACAAGCATTGTACAAGC
Found at i:13220743 original size:14 final size:13
Alignment explanation
Indices: 13220724--13220758 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
13220714 TCAGAGTTTT
*
13220724 TTATAATTATTGTA
1 TTATAATTATT-AA
13220738 TTATAATTATTAA
1 TTATAATTATTAA
13220751 TTATAATT
1 TTATAATT
13220759 TAAAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (13 bp):
TTATAATTATTAA
Found at i:13221748 original size:4 final size:4
Alignment explanation
Indices: 13221741--13221783 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
13221731 TATATATGTA
13221741 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
13221784 AGCAGCAGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:13232315 original size:45 final size:45
Alignment explanation
Indices: 13232258--13232353 Score: 156
Period size: 45 Copynumber: 2.1 Consensus size: 45
13232248 ACTTGAATGT
* *
13232258 TTTTTCGACGGATGAGCCAACCCTACATGTCTGGTCACAATGTCC
1 TTTTTCGACGGATCAGCCAACCCTACAAGTCTGGTCACAATGTCC
* *
13232303 TTTTTCGCCGGATCAGCCAACCCTACAAGTCTGGTCACAATGTTC
1 TTTTTCGACGGATCAGCCAACCCTACAAGTCTGGTCACAATGTCC
13232348 TTTTTC
1 TTTTTC
13232354 CATTGTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (45 bp):
TTTTTCGACGGATCAGCCAACCCTACAAGTCTGGTCACAATGTCC
Found at i:13244742 original size:38 final size:37
Alignment explanation
Indices: 13244691--13244772 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 37
13244681 TTATAAAAAT
*
13244691 AATTTATTTTCAAAAAATATCTT-TCAATATATTGGTAA
1 AATTT-TTTTCAAAAAATATCTTCT-AATATATTGATAA
* *
13244729 AATTTTTTGTCAAATATTATCTTCTAATATATTGATAA
1 AATTTTTT-TCAAAAAATATCTTCTAATATATTGATAA
13244767 AATTTT
1 AATTTT
13244773 ATAAAAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
37 3 0.08
38 35 0.90
39 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (37 bp):
AATTTTTTTCAAAAAATATCTTCTAATATATTGATAA
Found at i:13244969 original size:4 final size:4
Alignment explanation
Indices: 13244957--13245048 Score: 73
Period size: 4 Copynumber: 23.2 Consensus size: 4
13244947 AAAAATTTAC
* * * ** *
13244957 AAAT GAAT AAAT AAAT AAAC AAAC AAAT AAAT -AA- AAAT AACC ACAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* *
13245003 AAAT AAAT GAAG AAAT AAAT -AAT AAAT AAAT AAAAT AAAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT A
13245049 CAAAAAATTC
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
3 7 0.10
4 54 0.77
5 9 0.13
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:13245444 original size:29 final size:28
Alignment explanation
Indices: 13245389--13245447 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
13245379 TAATTTTTTA
* * * *
13245389 TTTATATATTTATTTATATAATGATATT
1 TTTAAATATTTATTTAAAAAATAATATT
13245417 TTTAAATATTATATTTAAAAAATAATATT
1 TTTAAATATT-TATTTAAAAAATAATATT
13245446 TT
1 TT
13245448 ATATTTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
TTTAAATATTTATTTAAAAAATAATATT
Found at i:13245449 original size:21 final size:21
Alignment explanation
Indices: 13245425--13245470 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
13245415 TTTTTAAATA
13245425 TTATATTTAAAAAATAATATT
1 TTATATTTAAAAAATAATATT
**
13245446 TTATATTTAAAATTTAATATT
1 TTATATTTAAAAAATAATATT
13245467 TTAT
1 TTAT
13245471 TAATTTCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATATTTAAAAAATAATATT
Found at i:13246391 original size:6 final size:6
Alignment explanation
Indices: 13246380--13246450 Score: 81
Period size: 6 Copynumber: 11.8 Consensus size: 6
13246370 ATAAAGCTGG
* * * *
13246380 AAATTA AAATTA AAATTA AAATCA AAGTTA AAATTA AAATTA ACA-TC
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA
*
13246427 ATATTA AAATTA AAATTA TAAATT
1 AAATTA AAATTA AAATTA -AAATT
13246451 TTTATTTTAT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
5 3 0.06
6 46 0.85
7 5 0.09
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (6 bp):
AAATTA
Found at i:13246410 original size:24 final size:23
Alignment explanation
Indices: 13246380--13246449 Score: 104
Period size: 24 Copynumber: 3.0 Consensus size: 23
13246370 ATAAAGCTGG
13246380 AAATTAAAATTAAAATTAAAATC
1 AAATTAAAATTAAAATTAAAATC
*
13246403 AAAGTTAAAATTAAAATTAACATC
1 AAA-TTAAAATTAAAATTAAAATC
*
13246427 ATATTAAAATTAAAATTATAAAT
1 AAATTAAAATTAAAATTA-AAAT
13246450 TTTTATTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
23 18 0.43
24 24 0.57
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (23 bp):
AAATTAAAATTAAAATTAAAATC
Found at i:13246953 original size:2 final size:2
Alignment explanation
Indices: 13246946--13246977 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
13246936 AACAGTTAGA
13246946 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13246978 GTATGTATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13246982 original size:4 final size:4
Alignment explanation
Indices: 13246975--13247001 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
13246965 TATATATATA
13246975 TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TAT
13247002 AATCATTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:13257982 original size:25 final size:24
Alignment explanation
Indices: 13257954--13258020 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 24
13257944 TAATATTTTT
*
13257954 TAATCAAATAAATAATAAAATA-AAA
1 TAAT-AAATAAA-AATAAAAAATAAA
*
13257979 TAATTTAAAGAAAAATTAAAAAATAAA
1 TAA--TAAATAAAAA-TAAAAAATAAA
13258006 TAATAAATAAAAATA
1 TAATAAATAAAAATA
13258021 GGGTAATAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
24 2 0.06
25 14 0.40
26 12 0.34
27 7 0.20
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (24 bp):
TAATAAATAAAAATAAAAAATAAA
Found at i:13259317 original size:15 final size:16
Alignment explanation
Indices: 13259297--13259330 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
13259287 CTATTTTGTT
13259297 AAATTTT-AAATTAAA
1 AAATTTTAAAATTAAA
13259312 AAATTTTAAAATTAAA
1 AAATTTTAAAATTAAA
13259328 AAA
1 AAA
13259331 ATAAAAGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATTTTAAAATTAAA
Found at i:13260188 original size:13 final size:14
Alignment explanation
Indices: 13260170--13260206 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
13260160 AACTTGTCCA
13260170 AAAAAAATCA-AAC
1 AAAAAAATCACAAC
13260183 -AAAAAA-CACAAC
1 AAAAAAATCACAAC
13260195 AAAAAAATCACA
1 AAAAAAATCACA
13260207 TCTCTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.10
12 9 0.43
13 6 0.29
14 4 0.19
ACGTcount: A:0.76, C:0.19, G:0.00, T:0.05
Consensus pattern (14 bp):
AAAAAAATCACAAC
Found at i:13262428 original size:35 final size:35
Alignment explanation
Indices: 13262378--13262444 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
13262368 ATATGTCAAC
* * *
13262378 TTAGTTGTAGGTTTATACCCAGAAAACATTTGAAG
1 TTAGTTGTAGATTTATAACCAAAAAACATTTGAAG
* *
13262413 TTAGTTGTATATTTATAACCAAAAAATATTTG
1 TTAGTTGTAGATTTATAACCAAAAAACATTTG
13262445 GTTTATATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (35 bp):
TTAGTTGTAGATTTATAACCAAAAAACATTTGAAG
Found at i:13263558 original size:15 final size:15
Alignment explanation
Indices: 13263538--13263574 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
13263528 TATTTGTATT
13263538 TATAAGCTAACCTCA
1 TATAAGCTAACCTCA
13263553 TATAAGCTAACCTCA
1 TATAAGCTAACCTCA
13263568 TATAAGC
1 TATAAGC
13263575 AACAATATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (15 bp):
TATAAGCTAACCTCA
Found at i:13266604 original size:62 final size:61
Alignment explanation
Indices: 13266529--13266735 Score: 147
Period size: 62 Copynumber: 3.3 Consensus size: 61
13266519 ACCAAAAATT
*
13266529 TTTAGAAGAAAATTATTGAAAGTGTTTGTTATCAAGAAACGCCTTCAATATTTATGTACAAAA
1 TTTAAAAG-AAATTATTGAAAGTGTTTGTTATCAAGAAACGCCTTCAATA-TTATGTACAAAA
** * * * *
13266592 TTTAAAAGAAATTATTG-AA-TGCATGTT-TCAATAGAAAATGCCTTTAATAATCT-TA-AAATT
1 TTTAAAAGAAATTATTGAAAGTGTTTGTTATC-A-AG-AAACGCCTTCAATATTATGTACAAA--
*
13266652 T
61 A
* * * * * *
13266653 TTTAAAGAAAAATTATTGAAGGTGTTTGTTATAAAAAAACGCATTCAATAATTATGTACTAAA
1 TTTAAA-AGAAATTATTGAAAGTGTTTGTTATCAAGAAACGCCTTCAAT-ATTATGTACAAAA
* *
13266716 CTTAAAAGGAATTATT-AAAG
1 TTTAAAAGAAATTATTGAAAG
13266736 GCAGTTTTTT
Statistics
Matches: 107, Mismatches: 25, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
59 5 0.05
60 9 0.08
61 15 0.14
62 49 0.46
63 17 0.16
64 9 0.08
65 3 0.03
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (61 bp):
TTTAAAAGAAATTATTGAAAGTGTTTGTTATCAAGAAACGCCTTCAATATTATGTACAAAA
Found at i:13266665 original size:124 final size:124
Alignment explanation
Indices: 13266507--13266731 Score: 328
Period size: 124 Copynumber: 1.8 Consensus size: 124
13266497 TCTAAAAGAC
* * *
13266507 GCCTTTAATAATACCAAAAATTTTTAGAAGAAAATTATTGAAAGTGTTTGTTATCAAGAAACGCC
1 GCCTTTAATAATACCAAAAATTTTTAGAAGAAAATTATTGAAAGTGTTTGTTATAAAAAAACGCA
* *
13266572 TTCAATATTTATGTACAAAATTTAAAAGAAATTATTGAATGCATGTTTCAATAGAAAAT
66 TTCAATAATTATGTACAAAACTTAAAAGAAATTATTGAATGCATGTTTCAATAGAAAAT
* * *
13266631 GCCTTTAATAAT-CTTAAAATTTTTTA-AAGAAAAATTATTGAAGGTGTTTGTTATAAAAAAACG
1 GCCTTTAATAATAC-CAAAAATTTTTAGAAG-AAAATTATTGAAAGTGTTTGTTATAAAAAAACG
* *
13266694 CATTCAATAATTATGTACTAAACTTAAAAGGAATTATT
64 CATTCAATAATTATGTACAAAACTTAAAAGAAATTATT
13266732 AAAGGCAGTT
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
123 4 0.04
124 85 0.96
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.36
Consensus pattern (124 bp):
GCCTTTAATAATACCAAAAATTTTTAGAAGAAAATTATTGAAAGTGTTTGTTATAAAAAAACGCA
TTCAATAATTATGTACAAAACTTAAAAGAAATTATTGAATGCATGTTTCAATAGAAAAT
Found at i:13267007 original size:63 final size:63
Alignment explanation
Indices: 13266840--13267012 Score: 222
Period size: 63 Copynumber: 2.7 Consensus size: 63
13266830 CTCAAAATTT
* * * ** *
13266840 TTAAAAAAAAATTATTGAAGGTATTTTTTTTATCAAAAAATACCTTTAATAATTATGTACAAAA
1 TTAAAAAAAAATTATTAAAGGTATTTTTTTTA-GAATAAACGCCTTCAATAATTATGTACAAAA
*
13266904 TTAAAAAAAAATTATTAAAGGTA-TTTTTTTGGAATAAAACGCCTTCAATAATTATGTACAAAA
1 TTAAAAAAAAATTATTAAAGGTATTTTTTTTAGAAT-AAACGCCTTCAATAATTATGTACAAAA
** * *
13266967 TTTTAAAAAAATTATTAAAGATATTTTTTTTAGAATAAACGTCTTC
1 TTAAAAAAAAATTATTAAAGGTATTTTTTTTAGAATAAACGCCTTC
13267013 TCTTAAAATT
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
62 2 0.02
63 60 0.63
64 33 0.35
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (63 bp):
TTAAAAAAAAATTATTAAAGGTATTTTTTTTAGAATAAACGCCTTCAATAATTATGTACAAAA
Found at i:13267078 original size:244 final size:246
Alignment explanation
Indices: 13266654--13267152 Score: 557
Period size: 244 Copynumber: 2.0 Consensus size: 246
13266644 TTAAAATTTT
* * * *
13266654 TTAAAGAAAAATTATTGAAGGTGTTTGTTATAAAAAAACGCATTCAATAATTATGTACTAAACTT
1 TTAAAAAAAAATTATTAAAGGTATTTGTTATAAAAAAACGCATTCAATAATTATGTACAAAACTT
* *
13266719 AAAAGGAATTATTAAAGGCAGTTTTTTAGAATAAACGTCTTTTCTAACAATCTTAAAATTTGAGT
66 AAAAGAAATTATTAAAGACAGTTTTTTAGAATAAACGTC--TTCT-AC-ATCTTAAAATTTGAGT
* * *
13266784 ACTACTATATTAAAAACGTTTTTCAGTAGAAGATGCCTTTAATAATCTCAAAA-TTTTTAAAAAA
127 ACTACTATATTAAAAACGTTTTTAAGTAAAAGACGCCTTTAATAATCTCAAAATTTTTTAAAAAA
* * * * * *
13266848 AAATTATTGAAGG-TATTTTTTTTATCAAAAAATACCTTTAATAATTATGTACA-AAA
192 AAATTATTAAAGGCGA---TTGTTATAAAAAAATACCTTCAATAATTATATACATAAA
* * *
13266904 TTAAAAAAAAATTATTAAAGGTATTT-TTTTGGAATAAAACGCCTTCAATAATTATGTACAAAAT
1 TTAAAAAAAAATTATTAAAGGTATTTGTTAT--AAAAAAACGCATTCAATAATTATGTACAAAA-
* * *
13266968 TTTAAAA-AAATTATTAAAGATATTTTTTTTAGAATAAACGTC-T-T-C-TCTTAAAATTTGAGT
63 CTTAAAAGAAATTATTAAAGACA-GTTTTTTAGAATAAACGTCTTCTACATCTTAAAATTTGAGT
* * *** * * *
13267028 ACTAGTATATTGAAGGTGTTTTTAAGTAAAAGGCGTCTTTAATAATCTCAAAATTTTTTAAAAGA
127 ACTACTATATTAAAAACGTTTTTAAGTAAAAGACGCCTTTAATAATCTCAAAATTTTTTAAAAAA
* *
13267093 ACATTATTAAAGGCGATTGTTATAAAAAAATACCTTCAATAATTATATATATAAA
192 AAATTATTAAAGGCGATTGTTATAAAAAAATACCTTCAATAATTATATACATAAA
13267148 TTAAA
1 TTAAA
13267153 TGTAATCAGT
Statistics
Matches: 211, Mismatches: 31, Indels: 20
0.81 0.12 0.08
Matches are distributed among these distances:
243 30 0.14
244 66 0.31
245 21 0.10
246 2 0.01
248 1 0.00
249 4 0.02
250 23 0.11
251 40 0.19
252 24 0.11
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.38
Consensus pattern (246 bp):
TTAAAAAAAAATTATTAAAGGTATTTGTTATAAAAAAACGCATTCAATAATTATGTACAAAACTT
AAAAGAAATTATTAAAGACAGTTTTTTAGAATAAACGTCTTCTACATCTTAAAATTTGAGTACTA
CTATATTAAAAACGTTTTTAAGTAAAAGACGCCTTTAATAATCTCAAAATTTTTTAAAAAAAAAT
TATTAAAGGCGATTGTTATAAAAAAATACCTTCAATAATTATATACATAAA
Found at i:13268812 original size:31 final size:27
Alignment explanation
Indices: 13268777--13268861 Score: 86
Period size: 31 Copynumber: 3.1 Consensus size: 27
13268767 TATTACTAGT
13268777 AATAATATTAAATAACAATAATAATAATAA
1 AATAATATTAAATAA-AA-AATAA-AATAA
* *
13268807 CAATAATATTATATAAAAAATAACATAA
1 -AATAATATTAAATAAAAAATAAAATAA
13268835 AATAA-ATTAAA-ATAAAAA-AAAATAA
1 AATAATATTAAATA-AAAAATAAAATAA
13268860 AA
1 AA
13268862 AGAAAAAGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
25 9 0.18
26 10 0.20
27 5 0.10
28 4 0.08
29 5 0.10
30 2 0.04
31 14 0.29
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.26
Consensus pattern (27 bp):
AATAATATTAAATAAAAAATAAAATAA
Found at i:13268834 original size:5 final size:5
Alignment explanation
Indices: 13268823--13268861 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
13268813 TATTATATAA
* * *
13268823 AAAAT AACAT AAAAT AAATT AAAAT AAAAA AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
13268862 AGAAAAAGAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:13268848 original size:20 final size:20
Alignment explanation
Indices: 13268823--13268860 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13268813 TATTATATAA
* *
13268823 AAAATAACATAAAATAAATT
1 AAAATAAAAAAAAATAAATT
13268843 AAAATAAAAAAAAATAAA
1 AAAATAAAAAAAAATAAA
13268861 AAGAAAAAGA
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:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAATAAAAAAAAATAAATT
Found at i:13269923 original size:78 final size:76
Alignment explanation
Indices: 13269817--13270462 Score: 325
Period size: 81 Copynumber: 8.2 Consensus size: 76
13269807 AAAGGTTATG
* * *
13269817 CAAATTTTAAAT-TTAAAAGGCTCCTCTCACCAGAGGCAACGAACTTTAAATTCAGAAGCTCTTC
1 CAAACTTTAAATGTTAAAAAGCTCCTCTCACCAAAGGCAACGAACTTTAAATTCA-AAGCTCTT-
*
13269881 TTACCAGAGGCAA
64 TTACCAAAGGCAA
*** * * * *
13269894 TGGACTTTAAATGTTAAAAAGCTCATCTCACCATAGGCAACAAATTTTAAATTCAAAAGCTCCTT
1 CAAACTTTAAATGTTAAAAAGCTCCTCTCACCAAAGGCAACGAACTTTAAATTC-AAAGCT-CTT
*
13269959 TAACCAAAGGCAA
64 TTACCAAAGGCAA
* * * *
13269972 CAAACTTTAAATGTTAAAAAGCTCCTTTAACCAAAGACAACGAACTTTAAATGTTAATAGGCTCT
1 CAAACTTTAAATGTTAAAAAGCTCCTCTCACCAAAGGCAACGAACTTTAAAT-TCAA-A-GCTCT
13270037 TTTAACCAAAGGCAA
63 TTT-ACCAAAGGCAA
** * * * * *
13270052 CAAACTTTAAATGTTAAAAAGGCTTTTTTAACTAAAGGCAATGAACTTTAAATGTTAAAAAGGCT
1 CAAACTTTAAATGTTAAAAA-GCTCCTCTCACCAAAGGCAACGAACTTTAAA--TT-CAAA-GC-
* *
13270117 TCTCTGACCAAAGGCAA
60 TCTTTTACCAAAGGCAA
* * ** * * * * *
13270134 CAAACTTTAGAT-TCAAAAATGCTTTTTTAACCAAAGACAATGAACTTTAAATGTTAAAAAGGCT
1 CAAACTTTAAATGTTAAAAA-GCTCCTCTCACCAAAGGCAACGAACTTTAAA--TT-CAAA-GCT
* * *
13270198 CTTCTGACTAGAGGCAA
61 CTT-TTACCAAAGGCAA
* * * * * * * * *
13270215 CAAACTTTAGAT-TCAAAAGTGCACCTTTAACCAAAGGCAACAAATTTTAAATGTTAGAAAGGCT
1 CAAACTTTAAATGTTAAAA-AGCTCCTCTCACCAAAGGCAACGAACTTTAAA--TT-CAAA-GCT
* * *
13270279 CCTCTAACCAGAGGCAA
61 -CTTTTACCAAAGGCAA
* ** * * * * ** * * *
13270296 CGAACTTTAAATGTTAAAAACGCTTATTTGATCAGAGGCAATAAACTTTACATTCAATAGTGTTT
1 CAAACTTTAAATGTTAAAAA-GCTCCTCTCACCAAAGGCAACGAACTTTAAATTCAA-AG-CTCT
13270361 ATTTAACCAAAGGCAA
63 -TTT-ACCAAAGGCAA
* * * * * *
13270377 CAAACTTTAAATGTTAAAAAAACTCTTCTGACCAGAGGTAACGAACTTTAAA-T--GA-CTCCTT
1 CAAACTTTAAATGTT-AAAAAGCTCCTCTCACCAAAGGCAACGAACTTTAAATTCAAAGCT-CTT
* *
13270438 TAACTAAAGGCAA
64 TTACCAAAGGCAA
13270451 CAAACTTTAAAT
1 CAAACTTTAAAT
13270463 TAAAAATCTA
Statistics
Matches: 461, Mismatches: 85, Indels: 49
0.77 0.14 0.08
Matches are distributed among these distances:
74 22 0.05
75 3 0.01
76 1 0.00
77 9 0.02
78 96 0.21
79 14 0.03
80 43 0.09
81 205 0.44
82 61 0.13
83 7 0.02
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (76 bp):
CAAACTTTAAATGTTAAAAAGCTCCTCTCACCAAAGGCAACGAACTTTAAATTCAAAGCTCTTTT
ACCAAAGGCAA
Found at i:13269932 original size:40 final size:40
Alignment explanation
Indices: 13269822--13270430 Score: 412
Period size: 40 Copynumber: 15.2 Consensus size: 40
13269812 TTATGCAAAT
* * * *
13269822 TTTAAAT-TTAAAAGGCTCCTCTCACCAGAGGCAACGAAC
1 TTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAACGAAC
* * * * * *
13269861 TTTAAA--TTCAGAAGCT-CTTCTTACCAGAGGCAATGGAC
1 TTTAAATGTTAAAAAGCTCCTT-TAACCAAAGGCAACGAAC
* * * * * *
13269899 TTTAAATGTTAAAAAGCTCATCTCACCATAGGCAACAAAT
1 TTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAACGAAC
* *
13269939 TTTAAA--TTCAAAAGCTCCTTTAACCAAAGGCAACAAAC
1 TTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAACGAAC
*
13269977 TTTAAATGTTAAAAAGCTCCTTTAACCAAAGACAACGAAC
1 TTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAACGAAC
* * * *
13270017 TTTAAATGTTAATAGGCTCTTTTAACCAAAGGCAACAAAC
1 TTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAACGAAC
** * *
13270057 TTTAAATGTTAAAAAGGCTTTTTTAACTAAAGGCAATGAAC
1 TTTAAATGTTAAAAA-GCTCCTTTAACCAAAGGCAACGAAC
* * * *
13270098 TTTAAATGTTAAAAAGGCTTCTCTGACCAAAGGCAACAAAC
1 TTTAAATGTTAAAAA-GCTCCTTTAACCAAAGGCAACGAAC
* * ** * *
13270139 TTTAGAT-TCAAAAATGCTTTTTTAACCAAAGACAATGAAC
1 TTTAAATGTTAAAAA-GCTCCTTTAACCAAAGGCAACGAAC
* * * *
13270179 TTTAAATGTTAAAAAGGCT-CTTCTGACTAGAGGCAACAAAC
1 TTTAAATGTTAAAAA-GCTCCTT-TAACCAAAGGCAACGAAC
* * * * * *
13270220 TTTAGAT-TCAAAAGTGCACCTTTAACCAAAGGCAACAAAT
1 TTTAAATGTTAAAA-AGCTCCTTTAACCAAAGGCAACGAAC
* * *
13270260 TTTAAATGTTAGAAAGGCTCCTCTAACCAGAGGCAACGAAC
1 TTTAAATGTTA-AAAAGCTCCTTTAACCAAAGGCAACGAAC
** * * * **
13270301 TTTAAATGTTAAAAACGCTTATTTGATCAGAGGCAATAAAC
1 TTTAAATGTTAAAAA-GCTCCTTTAACCAAAGGCAACGAAC
* * ** * ** *
13270342 TTTACAT-TCAATAGTGTTTATTTAACCAAAGGCAACAAAC
1 TTTAAATGTTAA-AAAGCTCCTTTAACCAAAGGCAACGAAC
* * * *
13270382 TTTAAATGTTAAAAAAACT-CTTCTGACCAGAGGTAACGAAC
1 TTTAAATGTT-AAAAAGCTCCTT-TAACCAAAGGCAACGAAC
13270423 TTTAAATG
1 TTTAAATG
13270431 ACTCCTTTAA
Statistics
Matches: 446, Mismatches: 106, Indels: 34
0.76 0.18 0.06
Matches are distributed among these distances:
37 2 0.00
38 60 0.13
39 6 0.01
40 197 0.44
41 176 0.39
42 5 0.01
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.28
Consensus pattern (40 bp):
TTTAAATGTTAAAAAGCTCCTTTAACCAAAGGCAACGAAC
Found at i:13270152 original size:81 final size:82
Alignment explanation
Indices: 13269831--13270315 Score: 413
Period size: 81 Copynumber: 6.0 Consensus size: 82
13269821 TTTTAAATTT
* * * * * * * *
13269831 AAAAGGCTCCTCTCACCAGAGGCAACGAACTTTAAA--TTCAGAA-GCTCTTCTTACCAGAGGCA
1 AAAAGGCTCCTTTAACCAAAGACAACGAACTTTAAATGTTAAAAAGGCTCTTCTAACCAAAGGCA
*** *
13269893 ATGGACTTTAAATGTTA
66 ACAAACTTTAAATGTCA
* * * * * * * *
13269910 AAAA-GCTCATCTCACCATAGGCAACAAATTTTAAA--TTCAAAA-GCTCCTT-TAACCAAAGGC
1 AAAAGGCTCCTTTAACCAAAGACAACGAACTTTAAATGTTAAAAAGGCT-CTTCTAACCAAAGGC
*
13269970 AACAAACTTTAAATGTTA
65 AACAAACTTTAAATGTCA
* *
13269988 AAAA-GCTCCTTTAACCAAAGACAACGAACTTTAAATGTT-AATAGGCTCTTTTAACCAAAGGCA
1 AAAAGGCTCCTTTAACCAAAGACAACGAACTTTAAATGTTAAAAAGGCTCTTCTAACCAAAGGCA
*
13270051 ACAAACTTTAAATGTTA
66 ACAAACTTTAAATGTCA
** * * * *
13270068 AAAAGGCTTTTTTAACTAAAGGCAATGAACTTTAAATGTTAAAAAGGCT-TCTCTGACCAAAGGC
1 AAAAGGCTCCTTTAACCAAAGACAACGAACTTTAAATGTTAAAAAGGCTCT-TCTAACCAAAGGC
*
13270132 AACAAACTTTAGAT-TCA
65 AACAAACTTTAAATGTCA
* ** * * * *
13270149 AAAATGCTTTTTTAACCAAAGACAATGAACTTTAAATGTTAAAAAGGCTCTTCTGACTAGAGGCA
1 AAAAGGCTCCTTTAACCAAAGACAACGAACTTTAAATGTTAAAAAGGCTCTTCTAACCAAAGGCA
*
13270214 ACAAACTTTAGAT-TC-
66 ACAAACTTTAAATGTCA
* * * * * * *
13270229 AAAAGTGCACCTTTAACCAAAGGCAACAAATTTTAAATGTTAGAAAGGCTCCTCTAACCAGAGGC
1 AAAAG-GCTCCTTTAACCAAAGACAACGAACTTTAAATGTTAAAAAGGCTCTTCTAACCAAAGGC
* *
13270294 AACGAACTTTAAATGTTA
65 AACAAACTTTAAATGTCA
13270312 AAAA
1 AAAA
13270316 CGCTTATTTG
Statistics
Matches: 346, Mismatches: 48, Indels: 20
0.84 0.12 0.05
Matches are distributed among these distances:
78 88 0.25
79 13 0.04
80 42 0.12
81 166 0.48
82 33 0.10
83 4 0.01
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (82 bp):
AAAAGGCTCCTTTAACCAAAGACAACGAACTTTAAATGTTAAAAAGGCTCTTCTAACCAAAGGCA
ACAAACTTTAAATGTCA
Found at i:13270213 original size:122 final size:121
Alignment explanation
Indices: 13269966--13270430 Score: 440
Period size: 122 Copynumber: 3.8 Consensus size: 121
13269956 CTTTAACCAA
* * * * *
13269966 AGGCAACAAACTTTAAATGTTAAAAA-GCTCCTTTAACCAAAGACAACGAACTTTAAATGTTAAT
1 AGGCAATAAACTTTAAATGTTAAAAAGGCTCCTTTAACCAAAGGCAACAAACTTTAAATGTAAAA
* * *
13270030 AGGCTCTTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAAGGCTTTTTTAACTAA
66 AGGCTCTTTTAACCAAAGGCAACGAACTTTAAATGTTAAAAAGGC-TTTTTGACTAG
* * * * *
13270087 AGGCAATGAACTTTAAATGTTAAAAAGGCTTCTCTGACCAAAGGCAACAAACTTTAGAT-TCAAA
1 AGGCAATAAACTTTAAATGTTAAAAAGGCTCCTTTAACCAAAGGCAACAAACTTTAAATGT-AAA
* * * * *
13270151 AATGCTTTTTTAACCAAAGACAATGAACTTTAAATGTTAAAAAGGCTCTTCTGACTAG
65 AAGGCTCTTTTAACCAAAGGCAACGAACTTTAAATGTTAAAAAGGCT-TTTTGACTAG
* * * * * *
13270209 AGGCAACAAACTTTAGA--TTCAAAAGTGCACCTTTAACCAAAGGCAACAAATTTTAAATGTTAG
1 AGGCAATAAACTTTAAATGTTAAAAAG-GCTCCTTTAACCAAAGGCAACAAACTTTAAATG-TAA
* * * *
13270272 AAAGGCTCCTCTAACCAGAGGCAACGAACTTTAAATGTTAAAAACGCTTATTTGA-TCAG
64 AAAGGCTCTTTTAACCAAAGGCAACGAACTTTAAATGTTAAAAAGGCTT-TTTGACT-AG
* * * * **
13270331 AGGCAATAAACTTTACA--TTCAATAGTGTTTATTTAACCAAAGGCAACAAACTTTAAATGTTAA
1 AGGCAATAAACTTTAAATGTTAAAAAG-GCTCCTTTAACCAAAGGCAACAAACTTTAAATG-TAA
** * * * *
13270394 AAAAACTCTTCTGACCAGAGGTAACGAACTTTAAATG
64 AAAGGCTCTTTTAACCAAAGGCAACGAACTTTAAATG
13270431 ACTCCTTTAA
Statistics
Matches: 284, Mismatches: 52, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
120 7 0.02
121 54 0.19
122 222 0.78
123 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (121 bp):
AGGCAATAAACTTTAAATGTTAAAAAGGCTCCTTTAACCAAAGGCAACAAACTTTAAATGTAAAA
AGGCTCTTTTAACCAAAGGCAACGAACTTTAAATGTTAAAAAGGCTTTTTGACTAG
Found at i:13270266 original size:203 final size:201
Alignment explanation
Indices: 13269822--13270430 Score: 635
Period size: 203 Copynumber: 3.0 Consensus size: 201
13269812 TTATGCAAAT
* * * * * * * * * *
13269822 TTTAAAT-TTAAAAGGCTCCTCTCACCAGAGGCAACGAACTTTAAA--TTCAGAA-GCTCTTCTT
1 TTTAAATGTCAAAAGGCACCTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAAGGCTCCTCTA
* * * * *
13269883 ACCAGAGGCAATGGACTTTAAATGTTAAAAAGC-TCATCTCACCATAGGCAACAAATTTTAAATT
66 ACCAAAGGCAATGAACTTTAAATGTTAAAAAGCTTC-TCTGACCAAAGGCAACAAACTTTAAATT
** * * *
13269947 C-AAAA-GCTCCTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAAGCTCCTT-TAACCAAAGA
130 CAAAAATGCTTTTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAAGCT-CTTCTGACCAGAGG
13270009 CAACGAAC
194 CAACGAAC
* * * * ** *
13270017 TTTAAATGTTAATAGGCTCTTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAAGGCTTTTTTA
1 TTTAAATGTCAAAAGGCACCTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAAGGCTCCTCTA
* *
13270082 ACTAAAGGCAATGAACTTTAAATGTTAAAAAGGCTTCTCTGACCAAAGGCAACAAACTTTAGATT
66 ACCAAAGGCAATGAACTTTAAATGTTAAAAA-GCTTCTCTGACCAAAGGCAACAAACTTTAAATT
* ** *
13270147 CAAAAATGCTTTTTTAACCAAAGACAATGAACTTTAAATGTTAAAAAGGCTCTTCTGACTAGAGG
130 CAAAAATGCTTTTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAA-GCTCTTCTGACCAGAGG
*
13270212 CAACAAAC
194 CAACGAAC
* * *
13270220 TTTAGAT-TCAAAAGTGCACCTTTAACCAAAGGCAACAAATTTTAAATGTTAGAAAGGCTCCTCT
1 TTTAAATGTCAAAAG-GCACCTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAAGGCTCCTCT
* * * * * * * *
13270284 AACCAGAGGCAACGAACTTTAAATGTTAAAAACGCTTATTTGATCAGAGGCAATAAACTTTACAT
65 AACCAAAGGCAATGAACTTTAAATGTTAAAAA-GCTTCTCTGACCAAAGGCAACAAACTTTAAAT
* * *
13270349 TCAATAGTG-TTTATTTAACCAAAGGCAACAAACTTTAAATGTTAAAAAAACTCTTCTGACCAGA
129 TCAAAAATGCTTT-TTTAACCAAAGGCAACAAACTTTAAATGTT-AAAAAGCTCTTCTGACCAGA
*
13270413 GGTAACGAAC
192 GGCAACGAAC
13270423 TTTAAATG
1 TTTAAATG
13270431 ACTCCTTTAA
Statistics
Matches: 342, Mismatches: 58, Indels: 19
0.82 0.14 0.05
Matches are distributed among these distances:
195 7 0.02
196 32 0.09
198 5 0.01
199 34 0.10
200 27 0.08
201 6 0.02
202 46 0.13
203 180 0.53
204 5 0.01
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.28
Consensus pattern (201 bp):
TTTAAATGTCAAAAGGCACCTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAAGGCTCCTCTA
ACCAAAGGCAATGAACTTTAAATGTTAAAAAGCTTCTCTGACCAAAGGCAACAAACTTTAAATTC
AAAAATGCTTTTTTAACCAAAGGCAACAAACTTTAAATGTTAAAAAGCTCTTCTGACCAGAGGCA
ACGAAC
Found at i:13270626 original size:39 final size:40
Alignment explanation
Indices: 13270547--13270638 Score: 116
Period size: 40 Copynumber: 2.3 Consensus size: 40
13270537 ACCAGAGGCT
* * *
13270547 TTTAAAATTAAAAAGCTCCTCTGACTAGAGGCTATGAAAC
1 TTTAAATTTAAAAAGCTCCTCTGACTAGAGACAATGAAAC
*
13270587 TTTAAATTTAAAAAGCTTCTCTGACCT-GAGACAAT-AAAC
1 TTTAAATTTAAAAAGCTCCTCTGA-CTAGAGACAATGAAAC
*
13270626 TTTAAATTCAAAA
1 TTTAAATTTAAAA
13270639 GGCTGAGAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 16 0.35
40 28 0.61
41 2 0.04
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (40 bp):
TTTAAATTTAAAAAGCTCCTCTGACTAGAGACAATGAAAC
Found at i:13285873 original size:8 final size:8
Alignment explanation
Indices: 13285863--13285901 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
13285853 CAAGGAGACA
*
13285863 TATATATA
1 TATATATG
13285871 TATATATG
1 TATATATG
*
13285879 TATGTATG
1 TATATATG
*
13285887 TATGTATG
1 TATATATG
13285895 TATATAT
1 TATATAT
13285902 TAGTAAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (8 bp):
TATATATG
Found at i:13287762 original size:22 final size:20
Alignment explanation
Indices: 13287729--13287768 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13287719 CATGAAATTC
*
13287729 AAATTATTTCAAAATTTGATT
1 AAATTATCTC-AAATTTGATT
13287750 AAATCTATCTCAAATTTGA
1 AAAT-TATCTCAAATTTGA
13287769 ATTATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (20 bp):
AAATTATCTCAAATTTGATT
Found at i:13289624 original size:12 final size:12
Alignment explanation
Indices: 13289607--13289631 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13289597 TTTGACAAAT
13289607 TTTAAAGACATA
1 TTTAAAGACATA
13289619 TTTAAAGACATA
1 TTTAAAGACATA
13289631 T
1 T
13289632 CCATTCAGTT
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:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (12 bp):
TTTAAAGACATA
Found at i:13290797 original size:11 final size:11
Alignment explanation
Indices: 13290781--13290835 Score: 56
Period size: 11 Copynumber: 4.7 Consensus size: 11
13290771 CCGATTCTTT
13290781 TTTTTTTTGTA
1 TTTTTTTTGTA
*
13290792 TTTTTTTGGTA
1 TTTTTTTTGTA
*
13290803 TTTTTTTATGTG
1 TTTTTTT-TGTA
*
13290815 TTTATTTTTTTA
1 TTT-TTTTTGTA
13290827 GTTTTTTTT
1 -TTTTTTTT
13290836 TTTGCATGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
11 17 0.47
12 12 0.33
13 7 0.19
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (11 bp):
TTTTTTTTGTA
Found at i:13290797 original size:13 final size:12
Alignment explanation
Indices: 13290778--13290839 Score: 54
Period size: 13 Copynumber: 5.0 Consensus size: 12
13290768 GAGCCGATTC
13290778 TTTTTTTTTTTG
1 TTTTTTTTTTTG
* *
13290790 -TATTTTTTTGG
1 TTTTTTTTTTTG
*
13290801 TATTTTTTTATGTG
1 T-TTTTTTT-TTTG
*
13290815 TTTATTTTTTTAG
1 TTT-TTTTTTTTG
13290828 TTTTTTTTTTTG
1 TTTTTTTTTTTG
13290840 CATGATTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
11 9 0.24
12 8 0.21
13 13 0.34
14 8 0.21
ACGTcount: A:0.08, C:0.00, G:0.11, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:13290822 original size:16 final size:14
Alignment explanation
Indices: 13290801--13290838 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
13290791 ATTTTTTTGG
13290801 TATTTTTTTATGTGTT
1 TATTTTTTTA-GT-TT
13290817 TATTTTTTTAGTTT
1 TATTTTTTTAGTTT
13290831 T-TTTTTTT
1 TATTTTTTT
13290839 GCATGATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.32
14 3 0.14
15 2 0.09
16 10 0.45
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.82
Consensus pattern (14 bp):
TATTTTTTTAGTTT
Found at i:13290939 original size:24 final size:25
Alignment explanation
Indices: 13290903--13290964 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
13290893 CTAATTATAC
13290903 AATGATGAAATTTATAAAAATT-TTA
1 AATGAT-AAATTTATAAAAATTCTTA
* *
13290928 AATGATAAATTTTTATAAATTCTTA
1 AATGATAAATTTATAAAAATTCTTA
**
13290953 GGTGATAAATTT
1 AATGATAAATTT
13290965 TGTCTAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.44
Consensus pattern (25 bp):
AATGATAAATTTATAAAAATTCTTA
Found at i:13291421 original size:53 final size:53
Alignment explanation
Indices: 13291227--13291422 Score: 170
Period size: 53 Copynumber: 3.7 Consensus size: 53
13291217 TTTTCTTTCC
* * * * * *
13291227 AAAAAAAAAAAGA-ATTTCTAAATAGGCTCAAATGGTG-AAAATTTAAAAATT
1 AAAAAAAAAAAAATATTTCTGAATTGACCCAAATGGTGAAAAATTTTAAAATT
** *
13291278 AAAAAAAAAAAAATATTTCTGAATTGACCCAAATAATGAAAAA-TTTAGAGA-T
1 AAAAAAAAAAAAATATTTCTGAATTGACCCAAATGGTGAAAAATTTTA-AAATT
* * *
13291330 AAAGAAAATAAAAAAAATTT-TGAAATAAGCCCAAATGGTGAAAAATTTTAAAATT
1 AAA-AAAA-AAAAAATATTTCTGAATTGA-CCCAAATGGTGAAAAATTTTAAAATT
* * *
13291385 CAAAAAGAGAAAATATTTCT-AATTTGACCCAAATGGTG
1 AAAAAAAAAAAAATATTTCTGAA-TTGACCCAAATGGTG
13291423 GAATAATTAG
Statistics
Matches: 114, Mismatches: 21, Indels: 18
0.75 0.14 0.12
Matches are distributed among these distances:
51 12 0.11
52 25 0.22
53 38 0.33
54 32 0.28
55 7 0.06
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.26
Consensus pattern (53 bp):
AAAAAAAAAAAAATATTTCTGAATTGACCCAAATGGTGAAAAATTTTAAAATT
Found at i:13295496 original size:11 final size:11
Alignment explanation
Indices: 13295476--13295584 Score: 88
Period size: 11 Copynumber: 10.2 Consensus size: 11
13295466 TAATGGATGG
*
13295476 AAAAAGATGAA
1 AAAAAAATGAA
13295487 AAAAAAATG--
1 AAAAAAATGAA
13295496 AAAAAAATGAA
1 AAAAAAATGAA
13295507 AAAAAAATG-A
1 AAAAAAATGAA
13295517 AAAAAAATG--
1 AAAAAAATGAA
*
13295526 -AAAAAATGAG
1 AAAAAAATGAA
*
13295536 GAAAAAATGAA
1 AAAAAAATGAA
*
13295547 AGAAAGAGAA-AAA
1 A-AAA-A-AATGAA
13295560 TAAAAAAATGAA
1 -AAAAAAATGAA
*
13295572 AAAAATATGAA
1 AAAAAAATGAA
13295583 AA
1 AA
13295585 TGAGAGAAAA
Statistics
Matches: 82, Mismatches: 6, Indels: 20
0.76 0.06 0.19
Matches are distributed among these distances:
8 8 0.10
9 9 0.11
10 10 0.12
11 40 0.49
12 6 0.07
13 6 0.07
14 3 0.04
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:13295499 original size:8 final size:8
Alignment explanation
Indices: 13295488--13295575 Score: 61
Period size: 8 Copynumber: 9.8 Consensus size: 8
13295478 AAAGATGAAA
13295488 AAAAAATG
1 AAAAAATG
13295496 AAAAAAATG
1 -AAAAAATG
13295505 AAAAAAAAATG
1 ---AAAAAATG
13295516 AAAAAAAATG
1 --AAAAAATG
13295526 AAAAAATGAGG
1 AAAAAAT---G
13295537 AAAAAATG
1 AAAAAATG
13295545 AAAGAAA-G
1 AAA-AAATG
*
13295553 AGAAAAATA
1 A-AAAAATG
13295562 AAAAAATG
1 AAAAAATG
13295570 AAAAAA
1 AAAAAA
13295576 ATATGAAAAT
Statistics
Matches: 69, Mismatches: 2, Indels: 17
0.78 0.02 0.19
Matches are distributed among these distances:
8 28 0.41
9 14 0.20
10 10 0.14
11 17 0.25
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (8 bp):
AAAAAATG
Found at i:13295500 original size:20 final size:20
Alignment explanation
Indices: 13295475--13295584 Score: 105
Period size: 21 Copynumber: 5.2 Consensus size: 20
13295465 CTAATGGATG
*
13295475 GAAAAAGATGAAAAAAAAAT
1 GAAAAAAATGAAAAAAAAAT
13295495 GAAAAAAATGAAAAAAAAAT
1 GAAAAAAATGAAAAAAAAAT
** *
13295515 GAAAAAAAATGAAAAAATGAG
1 G-AAAAAAATGAAAAAAAAAT
*
13295536 GAAAAAATGAAAGAAAGAGAAAAAT
1 G-AAAAA--AATGAAA-A-AAAAAT
*
13295561 -AAAAAAATGAAAAAAATAT
1 GAAAAAAATGAAAAAAAAAT
13295580 GAAAA
1 GAAAA
13295585 TGAGAGAAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
19 5 0.07
20 25 0.34
21 29 0.39
23 11 0.15
24 1 0.01
25 3 0.04
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (20 bp):
GAAAAAAATGAAAAAAAAAT
Found at i:13295584 original size:9 final size:9
Alignment explanation
Indices: 13295487--13295577 Score: 98
Period size: 9 Copynumber: 9.9 Consensus size: 9
13295477 AAAAGATGAA
13295487 AAAAAAATG
1 AAAAAAATG
13295496 AAAAAAATG
1 AAAAAAATG
13295505 AAAAAAAAATG
1 --AAAAAAATG
13295516 AAAAAAAATG
1 -AAAAAAATG
13295526 -AAAAAATG
1 AAAAAAATG
13295534 AGGAAAAAATG
1 A--AAAAAATG
*
13295545 AAAGAAA-G
1 AAAAAAATG
*
13295553 AGAAAAAT-
1 AAAAAAATG
13295561 AAAAAAATG
1 AAAAAAATG
13295570 AAAAAAAT
1 AAAAAAAT
13295578 ATGAAAATGA
Statistics
Matches: 71, Mismatches: 4, Indels: 14
0.80 0.04 0.16
Matches are distributed among these distances:
8 21 0.30
9 22 0.31
10 10 0.14
11 18 0.25
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (9 bp):
AAAAAAATG
Found at i:13296982 original size:59 final size:58
Alignment explanation
Indices: 13296868--13296983 Score: 144
Period size: 59 Copynumber: 2.0 Consensus size: 58
13296858 AATCTTTAAG
* * * *
13296868 GTGTGAAACCTAAAATTTGTCGAATGTGAATCTTCGAACTCAAATGAGAATCTTTGAT
1 GTGTGAAACCTAAAATTTGTCAAATGTGAACCTTCGAACTCAAATAAGAAGCTTTGAT
* * *
13296926 GTGTGAAACCCTAAAATTTGTCAAATGTGAGCCTTTTG-ACTCGAATAAGAAGCTTTGA
1 GTGTGAAA-CCTAAAATTTGTCAAATGTGAACC-TTCGAACTCAAATAAGAAGCTTTGA
13296984 ACTTTTGGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
58 8 0.16
59 38 0.78
60 3 0.06
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (58 bp):
GTGTGAAACCTAAAATTTGTCAAATGTGAACCTTCGAACTCAAATAAGAAGCTTTGAT
Found at i:13297329 original size:41 final size:41
Alignment explanation
Indices: 13297262--13297511 Score: 299
Period size: 42 Copynumber: 6.0 Consensus size: 41
13297252 TAATAAGCTT
13297262 TTTATTTTGTCAAAGTTGTGGTTGCCTCTGTTTAGA-GAGCAA
1 TTTATTTT-TCAAAGTTGTGG-TGCCTCTGTTTAGAGGAGCAA
13297304 TTTATTTTTCAAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
1 TTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * *
13297346 TTTATTTTTTCAAAGTTGTGGTGCCTCTATTTAGAAGAGTAA
1 TTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * *
13297388 TTTA-TTTTCTAAAGTTGTGATGCCTCTGTTTAGATGAGCATT
1 TTTATTTTTC-AAAGTTGTGGTGCCTCTGTTTAGAGGAGCA-A
* *
13297430 TTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCAT
1 TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
* * *
13297471 TTTATTTTTTTCAAAGTCGTTGAG-CTCCTGTTTAGAGGAGC
1 TTTA--TTTTTCAAAGTTGTGGTGCCT-CTGTTTAGAGGAGC
13297512 TTTGTTTACC
Statistics
Matches: 184, Mismatches: 15, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
40 5 0.03
41 47 0.26
42 93 0.51
43 39 0.21
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.44
Consensus pattern (41 bp):
TTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAGAGGAGCAA
Found at i:13297412 original size:83 final size:82
Alignment explanation
Indices: 13297262--13297478 Score: 310
Period size: 83 Copynumber: 2.6 Consensus size: 82
13297252 TAATAAGCTT
* * *
13297262 TTTATTTTGTCAAAGTTGTGGTTGCCTCTGTTTAG-AGAGCAATTTATTTTTCAAAAGTTGTGGT
1 TTTATTTTTTCAAAGTTGTGG-TGCCTCTATTTAGAAGAGCAATTTA-TTTTCAAAAGTTGTGAT
13297326 GCCTCTGTTTAGAGGAGCAA
64 GCCTCTGTTTAGAGGAGC-A
* *
13297346 TTTATTTTTTCAAAGTTGTGGTGCCTCTATTTAGAAGAGTAATTTATTTTCTAAAGTTGTGATGC
1 TTTATTTTTTCAAAGTTGTGGTGCCTCTATTTAGAAGAGCAATTTATTTTCAAAAGTTGTGATGC
*
13297411 CTCTGTTTAGATGAGCA
66 CTCTGTTTAGAGGAGCA
* * *
13297428 TTTTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAGGAGCATTTTATTTT
1 TTTAT-TTTTTCAAAGTTGTGGTGCCTCTATTTAGAAGAGCAATTTATTTT
13297479 TTTCAAAGTC
Statistics
Matches: 121, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
82 5 0.04
83 86 0.71
84 30 0.25
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.46
Consensus pattern (82 bp):
TTTATTTTTTCAAAGTTGTGGTGCCTCTATTTAGAAGAGCAATTTATTTTCAAAAGTTGTGATGC
CTCTGTTTAGAGGAGCA
Found at i:13309560 original size:2 final size:2
Alignment explanation
Indices: 13309553--13309590 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
13309543 CGTGGAGCAC
13309553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13309591 CTCAATTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13310986 original size:2 final size:2
Alignment explanation
Indices: 13310979--13311021 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
13310969 GATTCATCAC
*
13310979 TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13311020 TA
1 TA
13311022 ATCAAGTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13317908 original size:22 final size:22
Alignment explanation
Indices: 13317883--13317940 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
13317873 AAAAAATAAT
*
13317883 ATTATTATATTATATAA-TATTA
1 ATTATTAAATTA-ATAATTATTA
*
13317905 ATTATTAAATTAATAATTATTT
1 ATTATTAAATTAATAATTATTA
*
13317927 ATTATTAAAATAAT
1 ATTATTAAATTAAT
13317941 TATACTACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 4 0.12
22 28 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTATTAAATTAATAATTATTA
Found at i:13317910 original size:7 final size:7
Alignment explanation
Indices: 13317883--13317934 Score: 52
Period size: 7 Copynumber: 7.1 Consensus size: 7
13317873 AAAAAATAAT
13317883 ATTATTA
1 ATTATTA
13317890 TATTATATA
1 -ATTAT-TA
13317899 A-TATTA
1 ATTATTA
13317905 ATTATTAA
1 ATTATT-A
*
13317913 ATTAATA
1 ATTATTA
*
13317920 ATTATTT
1 ATTATTA
13317927 ATTATTA
1 ATTATTA
13317934 A
1 A
13317935 AATAATTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
6 3 0.08
7 20 0.54
8 12 0.32
9 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
ATTATTA
Found at i:13318009 original size:15 final size:15
Alignment explanation
Indices: 13317964--13318018 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
13317954 ATAATGAAAT
**
13317964 ATTAAAATATTTATG
1 ATTAAAATATTTAAA
* *
13317979 TTTAATAATATATAAA
1 ATTAA-AATATTTAAA
13317995 ATTAAAATATTTAAA
1 ATTAAAATATTTAAA
13318010 ATTAAAATA
1 ATTAAAATA
13318019 CCAAAATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
15 22 0.67
16 11 0.33
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
ATTAAAATATTTAAA
Found at i:13318219 original size:22 final size:22
Alignment explanation
Indices: 13318170--13318218 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
13318160 TTATAAAAAT
13318170 ATTTTTAAAATTAAAATATTAG
1 ATTTTTAAAATTAAAATATTAG
* * *
13318192 ATTTTTAATATTAATATTTTA-
1 ATTTTTAAAATTAAAATATTAG
13318213 ATTTTT
1 ATTTTT
13318219 TTATGTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTTTAAAATTAAAATATTAG
Found at i:13319082 original size:15 final size:16
Alignment explanation
Indices: 13319062--13319100 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
13319052 ATTGAAATGG
13319062 ATTTAAAT-TTTATAA
1 ATTTAAATATTTATAA
13319077 ATTTAAATAATTTATAA
1 ATTTAAAT-ATTTATAA
13319094 ATATTAA
1 AT-TTAA
13319101 TGTATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.38
17 9 0.43
18 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTAAATATTTATAA
Found at i:13320295 original size:99 final size:99
Alignment explanation
Indices: 13320181--13320628 Score: 454
Period size: 99 Copynumber: 4.5 Consensus size: 99
13320171 GAGTTCGGGC
* * *
13320181 TCTTCTAAGAATTCAGACTCTTCATCAGGTTCTGGTGCTTCTAGCTCTTCCACAAGTTCTGATTC
1 TCTTCTAAGACTTCAGACTCTTCATCAGATTCTGGTGCTTCTAGCTCTTCCACAAGATCTGATTC
* * *
13320246 TTTATCAGGTTCTAACAATTCAAAAGGTTCTGGT
66 TTTATCAGGTTCTAACAATTTAAAGGGTTCTGGA
* * * * * * *
13320280 TCTTCTAAGACTTCAGGCTTTTCATCAGATTTTGGTGTTTCTAGCTCTTCTACAAGATCAGGTTC
1 TCTTCTAAGACTTCAGACTCTTCATCAGATTCTGGTGCTTCTAGCTCTTCCACAAGATCTGATTC
* * * *
13320345 TTCATCAGGTTCTAGCAATTTTAAGGGTTTTGGA
66 TTTATCAGGTTCTAACAATTTAAAGGGTTCTGGA
* * *
13320379 TCTTCAAAGACTTCAGACTCTTCATCAGGTTCTGGTGCTTCTGGCTCTTCCACAA-ATTCT-AGT
1 TCTTCTAAGACTTCAGACTCTTCATCAGATTCTGGTGCTTCTAGCTCTTCCACAAGA-TCTGA-T
* * *
13320442 TTTTTATCAGGTTCAAACAATTTTAAGGGTTC-GGA
64 TCTTTATCAGGTTCTAACAATTTAAAGGGTTCTGGA
* * * ** *
13320477 TTCTTCTAAGACTTCAGACTTTTCATCAGATTCTGGTACATC-AGCCTCTTTTACAGGATCTGAT
1 -TCTTCTAAGACTTCAGACTCTTCATCAGATTCTGGTGCTTCTAG-CTCTTCCACAAGATCTGAT
* ** * **
13320541 TCATTATCAGGTTCTAGTAATTTAGAGGGTTCTCAA
64 TCTTTATCAGGTTCTAACAATTTAAAGGGTTCTGGA
* * * * * **
13320577 TCTTCTAAAACTTCAGACTCTTTATCAAATTCTGATGCCTCCGGCTCTTCCA
1 TCTTCTAAGACTTCAGACTCTTCATCAGATTCTGGTGCTTCTAGCTCTTCCA
13320629 AAAGGTCAGG
Statistics
Matches: 281, Mismatches: 60, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
98 5 0.02
99 272 0.97
100 4 0.01
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (99 bp):
TCTTCTAAGACTTCAGACTCTTCATCAGATTCTGGTGCTTCTAGCTCTTCCACAAGATCTGATTC
TTTATCAGGTTCTAACAATTTAAAGGGTTCTGGA
Found at i:13320488 original size:198 final size:198
Alignment explanation
Indices: 13320181--13320628 Score: 548
Period size: 198 Copynumber: 2.3 Consensus size: 198
13320171 GAGTTCGGGC
* * * *
13320181 TCTTCTAAGAATTCAGACTCTTCATCAGGTTCTGGTGCTTCTAGCTCTTCCACAAGTTCTGATTC
1 TCTTCAAAGACTTCAGACTCTTCATCAGGTTCTGGTGCTTCTGGCTCTTCCACAAATTCTGATTC
* *
13320246 TTTATCAGGTTCTAACAATTCAAAAGGTTCTGGTTCTTCTAAGACTTCAGGCTTTTCATCAGATT
66 TTTATCAGGTTCAAACAATTCAAAAGGTTCTGGTTCTTCTAAGACTTCAGACTTTTCATCAGATT
* *** *
13320311 TTGGTGTTTCTAG-CTCTTCTACAAGATCAGGTTC-TTCATCAGGTTCTAGCAATTTTA-AGGGT
131 CTGGTACATC-AGCCTCTTCTACAAGATCAGATTCATT-ATCAGGTTCTAGCAA-TTTAGAGGGT
* **
13320373 TTTGGA
193 TCTCAA
13320379 TCTTCAAAGACTTCAGACTCTTCATCAGGTTCTGGTGCTTCTGGCTCTTCCACAAATTCT-AGTT
1 TCTTCAAAGACTTCAGACTCTTCATCAGGTTCTGGTGCTTCTGGCTCTTCCACAAATTCTGA-TT
* ** *
13320443 TTTTATCAGGTTCAAACAATTTTAAGGGTTC-GGATTCTTCTAAGACTTCAGACTTTTCATCAGA
65 CTTTATCAGGTTCAAACAATTCAAAAGGTTCTGG-TTCTTCTAAGACTTCAGACTTTTCATCAGA
* * * *
13320507 TTCTGGTACATCAGCCTCTTTTACAGGATCTGATTCATTATCAGGTTCTAGTAATTTAGAGGGTT
129 TTCTGGTACATCAGCCTCTTCTACAAGATCAGATTCATTATCAGGTTCTAGCAATTTAGAGGGTT
13320572 CTCAA
194 CTCAA
* ** * * *
13320577 TCTTCTAAA-ACTTCAGACTCTTTATCAAATTCTGATGCCTCCGGCTCTTCCA
1 TCTTC-AAAGACTTCAGACTCTTCATCAGGTTCTGGTGCTTCTGGCTCTTCCA
13320629 AAAGGTCAGG
Statistics
Matches: 216, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
197 9 0.04
198 202 0.94
199 5 0.02
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (198 bp):
TCTTCAAAGACTTCAGACTCTTCATCAGGTTCTGGTGCTTCTGGCTCTTCCACAAATTCTGATTC
TTTATCAGGTTCAAACAATTCAAAAGGTTCTGGTTCTTCTAAGACTTCAGACTTTTCATCAGATT
CTGGTACATCAGCCTCTTCTACAAGATCAGATTCATTATCAGGTTCTAGCAATTTAGAGGGTTCT
CAA
Found at i:13325800 original size:16 final size:16
Alignment explanation
Indices: 13325764--13325804 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
13325754 ATTAAAATTT
13325764 TAATTTT-AATTATCA
1 TAATTTTAAATTATCA
*
13325779 -AATTTTAAATTATGA
1 TAATTTTAAATTATCA
13325794 TAATTTTAAAT
1 TAATTTTAAAT
13325805 ATAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 7 0.30
16 10 0.43
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (16 bp):
TAATTTTAAATTATCA
Found at i:13326272 original size:16 final size:16
Alignment explanation
Indices: 13326235--13326273 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
13326225 GAAAATAAAA
13326235 ATTTTTGTTGAAATTTT
1 ATTTTT-TTGAAATTTT
*
13326252 A-TTTTTTGTAATTTT
1 ATTTTTTTGAAATTTT
13326267 ATTTTTT
1 ATTTTTT
13326274 AGTTTAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 10 0.50
16 9 0.45
17 1 0.05
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (16 bp):
ATTTTTTTGAAATTTT
Found at i:13326824 original size:18 final size:18
Alignment explanation
Indices: 13326801--13326840 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
13326791 GTTCCTTTCA
* *
13326801 AAATTACTTTTTTTTTTT
1 AAATTACTTTTTCTTTTG
13326819 AAATTACTTTTTCTTTTG
1 AAATTACTTTTTCTTTTG
13326837 AAAT
1 AAAT
13326841 ATAAAAATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (18 bp):
AAATTACTTTTTCTTTTG
Found at i:13330942 original size:63 final size:61
Alignment explanation
Indices: 13330875--13331009 Score: 141
Period size: 61 Copynumber: 2.2 Consensus size: 61
13330865 GGCAGATAAT
*
13330875 GCCTTCAATAATTCCCTCATAAAAAAATAT-AT-GCGATTATTGAAGGCATTTTTT-ACAAGAAA
1 GCCTTCAATAATT---TCACAAAAAAATATCATAG-GATTATTGAAGGCATTTTTTGACAA-AAA
13330937 C
61 C
* * * * * *
13330938 GCCTTTAATAATTTCACCAAAAAATTTCATAGGCTTATTGAAGGCATTTTTTGTCCAAAAC
1 GCCTTCAATAATTTCACAAAAAAATATCATAGGATTATTGAAGGCATTTTTTGACAAAAAC
13330999 GCCTTCAATAA
1 GCCTTCAATAA
13331010 ATATCATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
60 11 0.18
61 35 0.57
62 3 0.05
63 12 0.20
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (61 bp):
GCCTTCAATAATTTCACAAAAAAATATCATAGGATTATTGAAGGCATTTTTTGACAAAAAC
Found at i:13332161 original size:35 final size:35
Alignment explanation
Indices: 13332108--13332176 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
13332098 TGTATATGAC
* *
13332108 AAGTTAGTTGTAAGTTTATACCCAGAAAATATTTA
1 AAGTCAGTTGTAAGTTTATACCCAAAAAATATTTA
* *
13332143 AAGTCAGTTGTATA-TTTATGCCTAAAAAATATTT
1 AAGTCAGTTGTA-AGTTTATACCCAAAAAATATTT
13332177 GATTTATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 28 0.97
36 1 0.03
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (35 bp):
AAGTCAGTTGTAAGTTTATACCCAAAAAATATTTA
Found at i:13336308 original size:185 final size:185
Alignment explanation
Indices: 13335991--13336386 Score: 489
Period size: 185 Copynumber: 2.1 Consensus size: 185
13335981 TAGACACTCG
***
13335991 CCTTTAATAATTATGTATAAAAATTAAAAGAAATTATGAAAGCGTTTCTCTAGAATAAACACTTT
1 CCTTTAATAATTATGTACGTAAATTAAAAGAAATTATGAAAGCGTTTCTCTAGAATAAACACTTT
* * * *
13336056 CACTAACTGTTTCAAAATTTGAGTTATAAAATATTAAAGGCATTTTTCATTGAAAGACGCTTTTA
66 CACTAACCGTCTCAAAATTTAAGTTATAAAATATTAAAGGCATTTTTCATTGAAAGACGCCTTTA
* * * *
13336121 ATAATCCTAAAAATTTTAAGAGAAACTTACTGAAGGCGTTTGTTCTCAAGAAACA
131 ATAATCCTAAAAATTTTAAGAAAAAATTACTGAAGGCATTTGTTCTCAAAAAACA
* *
13336176 CCTTTAATAATTATGTACGTAAATTAAAA-AAATTA-GTAAAG-GTATTTTTCTAGAATAAAC-G
1 CCTTTAATAATTATGTACGTAAATTAAAAGAAATTATG-AAAGCG--TTTCTCTAGAATAAACAC
* * * ** *
13336237 TCTTCACTAACCGTCTCAAAATTTAAGTTGTGAAATATTGAAGGTGTTTTTC-TCT-AGAAGATG
63 T-TTCACTAACCGTCTCAAAATTTAAGTTATAAAATATTAAAGGCATTTTTCAT-TGA-AAGACG
* *
13336300 CCTTTAATAATCCTAAAAATTTTAAGAAAAAATTATTGAAGGCATTTGTTCTCAAAAAATA
125 CCTTTAATAATCCTAAAAATTTTAAGAAAAAATTACTGAAGGCATTTGTTCTCAAAAAACA
* *
13336361 CCTTCAATAATTATGCACGTAAATTA
1 CCTTTAATAATTATGTACGTAAATTA
13336387 GTAATCTAAA
Statistics
Matches: 182, Mismatches: 23, Indels: 12
0.84 0.11 0.06
Matches are distributed among these distances:
183 2 0.01
184 13 0.07
185 167 0.92
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (185 bp):
CCTTTAATAATTATGTACGTAAATTAAAAGAAATTATGAAAGCGTTTCTCTAGAATAAACACTTT
CACTAACCGTCTCAAAATTTAAGTTATAAAATATTAAAGGCATTTTTCATTGAAAGACGCCTTTA
ATAATCCTAAAAATTTTAAGAAAAAATTACTGAAGGCATTTGTTCTCAAAAAACA
Found at i:13336802 original size:116 final size:117
Alignment explanation
Indices: 13336561--13336803 Score: 255
Period size: 124 Copynumber: 2.0 Consensus size: 117
13336551 ATAAAATGCA
* * *
13336561 TTCACTAACTGTCTTAAATTTGAGTTGTGAAATATTGAAAGTGATTTTCACTAGAAGACGCCTTT
1 TTCACTAACCGTCTAAAATTTGAGTTGTGAAATATTGAAAGCGATTTTCACTAGAAGACGCC--T
*
13336626 AATAATCCCAAAAATTTTAAGAGAAAATTAGTGAAGACATTTTTCTCGAATAAACACC
64 --T-ATCCCAAAAATTTTAAGAGAAAATTAGTGAAGACATTTTTCTC-AAAAAACACC
* *
13336684 TTCACTAACCGTCTCAAAATTTGAGTTGT-AGAATATTGAAGGCGTTTTTCACTAGAAGACGCC-
1 TTCACTAACCGTCT-AAAATTTGAGTTGTGA-AATATTGAAAGCGATTTTCACTAGAAGACGCCT
* * * *
13336747 T-TCCCAAAAA-TTTAAGA-AGAAATTATTGAAGGCGTTTATTCT-AAAAATACGCC
64 TATCCCAAAAATTTTAAGAGA-AAATTAGTGAAGACATTT-TTCTCAAAAA-ACACC
13336800 TTCA
1 TTCA
13336804 ATAATTATGC
Statistics
Matches: 105, Mismatches: 10, Indels: 17
0.80 0.08 0.13
Matches are distributed among these distances:
115 5 0.05
116 30 0.29
117 13 0.12
119 1 0.01
123 14 0.13
124 42 0.40
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.33
Consensus pattern (117 bp):
TTCACTAACCGTCTAAAATTTGAGTTGTGAAATATTGAAAGCGATTTTCACTAGAAGACGCCTTA
TCCCAAAAATTTTAAGAGAAAATTAGTGAAGACATTTTTCTCAAAAAACACC
Found at i:13337025 original size:186 final size:185
Alignment explanation
Indices: 13336752--13337179 Score: 536
Period size: 186 Copynumber: 2.3 Consensus size: 185
13336742 ACGCCTTCCC
* *
13336752 AAAAATTTAAGAAG-AAATTATTGAAGGCGTTTATTC-TAAAAATACGCCTTCAATAATTATGCA
1 AAAAATTTAA-AAGAAAATTATTGAAGGCATTTATTCTTAAAAA-ATGCCTTCAATAATTATGCA
* * * * * * * *
13336815 CATAAATTAGAATGAATTAGTGAAGGTATTTTTTTATAATAAACGCATTGATTAACCGTTTCAAA
64 CATAAATTAGAAGGAATAAGTGAAGGGATTTTTCTATAATAAACGCACTCACTAACCGTCTCAAA
* *
13336880 ATTTGAGTTGTAAAATACTGAAGACATTTTTTATTAAAAGACACCTTAAATAATCTCA
129 ATTTGAGTTATAAAATACTGAAGACATTTTTTACTAAAAGACACCTTAAATAATCT-A
** * * * *
13336938 AAACTTTTAAAAGAAAATTATTGAAGGCATTTGTTCTTAAAAAATGTCTTTAATAATTATGCACG
1 AAAAATTTAAAAGAAAATTATTGAAGGCATTTATTCTTAAAAAATGCCTTCAATAATTATGCACA
* *
13337003 TAAATTAGAAGGAATAAGTGAAGGGATTTTTCTATAATAAATGCCCTCACTAACCGTCTCAAAAT
66 TAAATTAGAAGGAATAAGTGAAGGGATTTTTCTATAATAAACGCACTCACTAACCGTCTCAAAAT
* ** * * * *
13337068 TTGAGTTATAAAATATTGAAGGTATTTTTTACTAGAAGACGCTTTTAATAATCTA
131 TTGAGTTATAAAATACTGAAGACATTTTTTACTAAAAGACACCTTAAATAATCTA
* * * *
13337123 AAAAATTTAAGAGAAAATTATTGAAGGCATTTATTCTCAAGAAATGCCTTCACTAAT
1 AAAAATTTAAAAGAAAATTATTGAAGGCATTTATTCTTAAAAAATGCCTTCAATAAT
13337180 CATCTTAAAG
Statistics
Matches: 204, Mismatches: 36, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
185 52 0.25
186 146 0.72
187 6 0.03
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (185 bp):
AAAAATTTAAAAGAAAATTATTGAAGGCATTTATTCTTAAAAAATGCCTTCAATAATTATGCACA
TAAATTAGAAGGAATAAGTGAAGGGATTTTTCTATAATAAACGCACTCACTAACCGTCTCAAAAT
TTGAGTTATAAAATACTGAAGACATTTTTTACTAAAAGACACCTTAAATAATCTA
Found at i:13345176 original size:35 final size:35
Alignment explanation
Indices: 13345133--13345231 Score: 103
Period size: 34 Copynumber: 2.9 Consensus size: 35
13345123 TGTTTTATAG
*
13345133 ATACAAATGCCTCTAATGTAGTGGCATTTTTTTAT
1 ATACAAATGCCTCTAATGTAGTGGCATTTTTTCAT
* * *
13345168 ATACAAATGTCGT-TAATATAGAGGCA-TTTTTCAT
1 ATACAAATG-CCTCTAATGTAGTGGCATTTTTTCAT
* * * *
13345202 ATATAAATGCCGCTAATGTAATGGCGTTTT
1 ATACAAATGCCTCTAATGTAGTGGCATTTT
13345232 ATAGAAAATG
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
33 1 0.02
34 24 0.48
35 23 0.46
36 2 0.04
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.39
Consensus pattern (35 bp):
ATACAAATGCCTCTAATGTAGTGGCATTTTTTCAT
Found at i:13345204 original size:34 final size:35
Alignment explanation
Indices: 13345133--13345218 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
13345123 TGTTTTATAG
* * *
13345133 ATACAAATGCCTCTAATGTAGTGGCATTTTTTTAT
1 ATACAAATGCCTCTAATATAGAGGCATTTTTTCAT
*
13345168 ATACAAATGTCGT-TAATATAGAGGCA-TTTTTCAT
1 ATACAAATG-CCTCTAATATAGAGGCATTTTTTCAT
* *
13345202 ATATAAATGCCGCTAAT
1 ATACAAATGCCTCTAAT
13345219 GTAATGGCGT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
33 1 0.02
34 19 0.45
35 20 0.48
36 2 0.05
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (35 bp):
ATACAAATGCCTCTAATATAGAGGCATTTTTTCAT
Found at i:13354336 original size:62 final size:62
Alignment explanation
Indices: 13354267--13354488 Score: 204
Period size: 63 Copynumber: 3.6 Consensus size: 62
13354257 AATCCCTTCA
* * *
13354267 TAAAAAA-TGAAAAAGATTATTGAAGGCATTTTTTTACAGAAAATGCCTTCAATAATCTCCTC
1 TAAAAAATTGAAAAGGATTATTGAAGGTATTTTTTTA-AGAAAATACCTTCAATAATCTCCTC
* * * * ** *
13354329 TAAAAAATTGGAATGGATTATTGAATGTGTTGTTGGTAAAAAAATACCTTCAATAATCTCCT-
1 TAAAAAATTGAAAAGGATTATTGAAGGTATT-TTTTTAAGAAAATACCTTCAATAATCTCCTC
* * * *
13354391 TATCAAAATT-TAAGGGAATTATTGAAGGTA-TTTTTTATAGAAAATACCTTTAATAA-C-CCTC
1 TA-AAAAATTGAAAAGG-ATTATTGAAGGTATTTTTTTA-AGAAAATACCTTCAATAATCTCCTC
*
13354452 TTTAAAAAATTTAAAAGGATTATTGAAGGTATTTTTT
1 --TAAAAAATTGAAAAGGATTATTGAAGGTATTTTTT
13354489 GTCTGAGATG
Statistics
Matches: 128, Mismatches: 22, Indels: 19
0.76 0.13 0.11
Matches are distributed among these distances:
60 3 0.02
61 5 0.04
62 49 0.38
63 67 0.52
64 4 0.03
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (62 bp):
TAAAAAATTGAAAAGGATTATTGAAGGTATTTTTTTAAGAAAATACCTTCAATAATCTCCTC
Found at i:13365171 original size:18 final size:18
Alignment explanation
Indices: 13365130--13365171 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
13365120 AATTTTTTTT
13365130 ATTTATATATAATATAAAA
1 ATTTA-ATATAATATAAAA
13365149 A-TTAATATGAAT-TAAAA
1 ATTTAATAT-AATATAAAA
13365166 ATTTAA
1 ATTTAA
13365172 ATTATGAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 10 0.48
18 10 0.48
19 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATTTAATATAATATAAAA
Found at i:13368008 original size:15 final size:14
Alignment explanation
Indices: 13367970--13368013 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
13367960 AAATTAAAAT
*
13367970 AACGTTAAATTTAA
1 AACGTTTAATTTAA
*
13367984 ATCGTTTAATTTAA
1 AACGTTTAATTTAA
*
13367998 AACTTTATAATTTAA
1 AACGTT-TAATTTAA
13368013 A
1 A
13368014 CCAATGTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (14 bp):
AACGTTTAATTTAA
Found at i:13368400 original size:16 final size:15
Alignment explanation
Indices: 13368379--13368416 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
13368369 AATTATTATG
13368379 ATAAAATAAATAATTA
1 ATAAAATAAA-AATTA
*
13368395 ATAAAATAAAACTTA
1 ATAAAATAAAAATTA
13368410 A-AAAATA
1 ATAAAATA
13368417 TTTTGTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 5 0.24
16 10 0.48
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAAAATAAAAATTA
Found at i:13368524 original size:6 final size:6
Alignment explanation
Indices: 13368513--13368544 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
13368503 TTTATTTTAT
13368513 AATATA AATATA AATATA AATATAA AATATA A
1 AATATA AATATA AATATA AATAT-A AATATA A
13368545 TAATTATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATATA
Found at i:13373048 original size:17 final size:17
Alignment explanation
Indices: 13373017--13373051 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13373007 TTTAAATAAA
**
13373017 TTTTTTTATTGTTAGAC
1 TTTTTTTATAATTAGAC
13373034 TTTTTTTATAATTAGAC
1 TTTTTTTATAATTAGAC
13373051 T
1 T
13373052 AAAAAATGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.09, T:0.63
Consensus pattern (17 bp):
TTTTTTTATAATTAGAC
Found at i:13381791 original size:49 final size:48
Alignment explanation
Indices: 13381738--13381854 Score: 162
Period size: 48 Copynumber: 2.4 Consensus size: 48
13381728 CTCCAATCAG
13381738 AGGCTCAATAACTTTAAAAATTTATTTTAAAAAAAGCTCATCTAAGCAA
1 AGGCTCAATAACTTTAAAAATTTATTTT-AAAAAAGCTCATCTAAGCAA
* * * ** *
13381787 AGGCTCAACAACTTTAAAAATTTATTTTGAAAAAGCTCCTCTAATTAG
1 AGGCTCAATAACTTTAAAAATTTATTTTAAAAAAGCTCATCTAAGCAA
*
13381835 AGGTTCAATAACTTTAAAAA
1 AGGCTCAATAACTTTAAAAA
13381855 ATTCATCTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
48 33 0.55
49 27 0.45
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (48 bp):
AGGCTCAATAACTTTAAAAATTTATTTTAAAAAAGCTCATCTAAGCAA
Done.