Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 84 of 147
Found at i:15494016 original size:17 final size:17
Alignment explanation
Indices: 15494002--15494037 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
15493992 TTATTTATTT
15494002 TAAATA-ATAATTTATA
1 TAAATATATAATTTATA
15494018 TAAATATATAA-TTATA
1 TAAATATATAATTTATA
15494034 TAAA
1 TAAA
15494038 AATAAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATATATAATTTATA
Found at i:15494023 original size:16 final size:15
Alignment explanation
Indices: 15494002--15494042 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
15493992 TTATTTATTT
15494002 TAAATAATAATTTATA
1 TAAATAATAA-TTATA
15494018 TAAATATATAATTATA
1 TAAATA-ATAATTATA
15494034 TAAA-AATAA
1 TAAATAATAA
15494043 ATGAAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.17
15 1 0.04
16 15 0.62
17 4 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAATAATAATTATA
Found at i:15494215 original size:18 final size:18
Alignment explanation
Indices: 15494184--15494225 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
15494174 TTTAACTCTT
*
15494184 TTTA-TTAATCAAATAAA
1 TTTATTTAATAAAATAAA
*
15494201 TTTATTTAATAAAATATA
1 TTTATTTAATAAAATAAA
15494219 TTTATTT
1 TTTATTT
15494226 TGATTAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTATTTAATAAAATAAA
Found at i:15503040 original size:32 final size:32
Alignment explanation
Indices: 15503004--15503068 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
15502994 TACTAAACTT
* * * * *
15503004 TAAAATGATTTGAATTTCAAATTATTTGAATC
1 TAAAATAATTTAAATTTAAAATAATTTAAATC
15503036 TAAAATAATTTAAATTTAAAATAATTTAAATC
1 TAAAATAATTTAAATTTAAAATAATTTAAATC
15503068 T
1 T
15503069 TTGTCTAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (32 bp):
TAAAATAATTTAAATTTAAAATAATTTAAATC
Found at i:15503063 original size:16 final size:16
Alignment explanation
Indices: 15502997--15503066 Score: 77
Period size: 16 Copynumber: 4.3 Consensus size: 16
15502987 TAAATTTTAC
*
15502997 TAAACTTTAAAATGATT
1 TAAA-TTTAAAATAATT
* * *
15503014 TGAATTTCAAATTATT
1 TAAATTTAAAATAATT
* *
15503030 TGAATCTAAAATAATT
1 TAAATTTAAAATAATT
15503046 TAAATTTAAAATAATT
1 TAAATTTAAAATAATT
15503062 TAAAT
1 TAAAT
15503067 CTTTGTCTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
16 42 0.93
17 3 0.07
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (16 bp):
TAAATTTAAAATAATT
Found at i:15503722 original size:24 final size:25
Alignment explanation
Indices: 15503669--15503727 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 25
15503659 ATATTAGTAT
*
15503669 AATTAAA-AATAATAAATATAATAA
1 AATTAAATTATAATAAATATAATAA
* *
15503693 AATTAATTTATAA-AAATTTAATAA
1 AATTAAATTATAATAAATATAATAA
**
15503717 TTTTAAATTAT
1 AATTAAATTAT
15503728 GTTTTCAATC
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
AATTAAATTATAATAAATATAATAA
Found at i:15506985 original size:2 final size:2
Alignment explanation
Indices: 15506978--15507004 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15506968 GATTTTAAGA
15506978 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15507005 GATAGATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15507009 original size:4 final size:4
Alignment explanation
Indices: 15507002--15507028 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
15506992 ATATATATAT
15507002 ATAG ATAG ATAG ATAG ATAG ATAG ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATA
15507029 ATTTGCAACA
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:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (4 bp):
ATAG
Found at i:15510881 original size:12 final size:12
Alignment explanation
Indices: 15510864--15510888 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15510854 CAAAAACAAG
15510864 TTTGTTCAAGTA
1 TTTGTTCAAGTA
15510876 TTTGTTCAAGTA
1 TTTGTTCAAGTA
15510888 T
1 T
15510889 AATCTTCAAG
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:0.24, C:0.08, G:0.16, T:0.52
Consensus pattern (12 bp):
TTTGTTCAAGTA
Found at i:15517091 original size:19 final size:19
Alignment explanation
Indices: 15517067--15517104 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15517057 CACAAACTCC
*
15517067 CTTCGTTAAAGCTTGATGT
1 CTTCGTTAAAACTTGATGT
15517086 CTTCGTTAAAACTTGATGT
1 CTTCGTTAAAACTTGATGT
15517105 TCCTGTCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (19 bp):
CTTCGTTAAAACTTGATGT
Found at i:15519881 original size:23 final size:23
Alignment explanation
Indices: 15519855--15519902 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
15519845 AAATTACTCT
*
15519855 TAAGTGGTATATTGGTAATTTTA
1 TAAGTGATATATTGGTAATTTTA
*
15519878 TAAGTGATATTTTGGTAATTTTA
1 TAAGTGATATATTGGTAATTTTA
15519901 TA
1 TA
15519903 CCTTCTAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (23 bp):
TAAGTGATATATTGGTAATTTTA
Found at i:15524411 original size:13 final size:13
Alignment explanation
Indices: 15524393--15524417 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15524383 TCTTTTGTTC
15524393 TTTTTCTCTTTCT
1 TTTTTCTCTTTCT
15524406 TTTTTCTCTTTC
1 TTTTTCTCTTTC
15524418 ACTTAGTCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTCTCTTTCT
Found at i:15526980 original size:36 final size:39
Alignment explanation
Indices: 15526920--15526997 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
15526910 ATATTTTGAT
* *
15526920 ATCATCATAAATCACAAAATATTA-TAAA-AATATTCTAAC
1 ATCATAATAAATCAC-AAATATTATTAAACAAAATTC-AAC
15526959 ATCATAATAAATCAC-AA-ATTATTAAACAAAATTCAAC
1 ATCATAATAAATCACAAATATTATTAAACAAAATTCAAC
15526996 AT
1 AT
15526998 AAATAATAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
36 4 0.11
37 11 0.31
38 6 0.17
39 14 0.40
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.29
Consensus pattern (39 bp):
ATCATAATAAATCACAAATATTATTAAACAAAATTCAAC
Found at i:15539368 original size:25 final size:23
Alignment explanation
Indices: 15539340--15539392 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 23
15539330 ATAAATATTA
15539340 AAATAAAAAGAAGTAAAACAAAAGT
1 AAATAAAAAGAAG-AAAACAAAA-T
* *
15539365 AAATGAAAAGAAGAAAATAAAAT
1 AAATAAAAAGAAGAAAACAAAAT
15539388 AAATA
1 AAATA
15539393 TACAAATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.20
24 8 0.32
25 12 0.48
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (23 bp):
AAATAAAAAGAAGAAAACAAAAT
Found at i:15545803 original size:59 final size:61
Alignment explanation
Indices: 15545740--15545891 Score: 202
Period size: 61 Copynumber: 2.5 Consensus size: 61
15545730 CTATATAAGG
* * * **
15545740 AAAATTGATACTTTCAACTTTTCCTTAAAA-ATTTTTCTTGAT-AATTTTTATTTTTTAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTCTTGATGAAATTTTAATTTCAAAA
* *
15545799 AAAATTGATA-TTTCTAACTTTTCCTCAAAATATTTTTTTTTATGAAATTTTAATTTCAAAA
1 AAAATTGATACTTTC-AACTTTTCCTCAAAATATTTTTCTTGATGAAATTTTAATTTCAAAA
*
15545860 AAAATTAATACTTTCAACTTTTCCTCAAAATA
1 AAAATTGATACTTTCAACTTTTCCTCAAAATA
15545892 CTTTGGAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
58 4 0.05
59 24 0.30
60 10 0.12
61 39 0.48
62 4 0.05
ACGTcount: A:0.38, C:0.12, G:0.03, T:0.48
Consensus pattern (61 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTCTTGATGAAATTTTAATTTCAAAA
Found at i:15545968 original size:62 final size:59
Alignment explanation
Indices: 15545898--15546090 Score: 219
Period size: 57 Copynumber: 3.2 Consensus size: 59
15545888 AATACTTTGG
* *
15545898 AAAATTTTTATTTTAGAAAATTTATTTTTAAGAAAAATTGATATTTTCAATTTTTCCTCA
1 AAAAATTTT-TTTTAGAAAATTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCCTCA
* * *
15545958 AAACA--TTTTTTAGAAATTTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCTTCA
1 AAAAATTTTTTTTAGAAAATTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCCTCA
* * * * * *
15546015 AAAATATATTTTTTTAAAAAATTTTATTTTCAATAAAAATTGATACTTTCAACTTTTCTTTA
1 AAAA-AT-TTTTTTTAGAAAA-TTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCCTCA
*
15546077 AAAATGTTTTTTTT
1 AAAA-ATTTTTTTT
15546091 TAAATGTTTT
Statistics
Matches: 115, Mismatches: 13, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
57 50 0.43
58 3 0.03
60 3 0.03
61 17 0.15
62 42 0.37
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (59 bp):
AAAAATTTTTTTTAGAAAATTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCCTCA
Found at i:15545978 original size:71 final size:71
Alignment explanation
Indices: 15545830--15545982 Score: 173
Period size: 71 Copynumber: 2.1 Consensus size: 71
15545820 TCCTCAAAAT
* * *
15545830 ATTTTTTTTTATGAAATTTTAATTTCAAAAAAAATTAATACTTTCAACTTTTCCTCAAAATACTT
1 ATTTTATTTTATGAAAATTTAATTTCAAAAAAAATTAATACTTTCAACTTTTCCTCAAAACACTT
15545895 TGGAAA
66 TGGAAA
* * * * * * *
15545901 ATTTTTATTTTA-GAAAATTTATTTTTAAGAAAAATTGATATTTTCAATTTTTCCTCAAAACATT
1 A-TTTTATTTTATGAAAATTTAATTTCAAAAAAAATTAATACTTTCAACTTTTCCTCAAAACACT
**
15545965 TTTTAGAA
65 TTGGA-AA
15545973 ATTTTATTTT
1 ATTTTATTTT
15545983 TAAGAAAAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
71 56 0.82
72 12 0.18
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (71 bp):
ATTTTATTTTATGAAAATTTAATTTCAAAAAAAATTAATACTTTCAACTTTTCCTCAAAACACTT
TGGAAA
Found at i:15546091 original size:62 final size:61
Alignment explanation
Indices: 15545898--15546094 Score: 235
Period size: 62 Copynumber: 3.3 Consensus size: 61
15545888 AATACTTTGG
* * * *
15545898 AAAATTTTTATTTTAGAAAA-TTTATTTTTAAGAAAAATTGATATTTTCAATTTTTCCTCA
1 AAAATTTTTTTTTTAAAAAATTTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCTTCA
*
15545958 AAACA----TTTTTT-AGAAATTTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCTTCA
1 AAA-ATTTTTTTTTTAAAAAATTTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCTTCA
* * * * *
15546015 AAAATATATTTTTTTAAAAAATTTTATTTTCAATAAAAATTGATACTTTCAACTTTTCTTTA
1 AAAAT-TTTTTTTTTAAAAAATTTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCTTCA
15546077 AAAATGTTTTTTTTTAAA
1 AAAAT-TTTTTTTTTAAA
15546095 TGTTTTTCTT
Statistics
Matches: 117, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
56 4 0.03
57 46 0.39
60 3 0.03
61 7 0.06
62 57 0.49
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (61 bp):
AAAATTTTTTTTTTAAAAAATTTTATTTTTAAGAAAAATTGATATTTTCAACTTTTCTTCA
Found at i:15546092 original size:16 final size:15
Alignment explanation
Indices: 15546068--15546106 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
15546058 TACTTTCAAC
15546068 TTTTCTTTAAAAATGT
1 TTTTCTTT-AAAATGT
*
15546084 TTTT-TTTTAAATGT
1 TTTTCTTTAAAATGT
15546098 TTTTCTTTA
1 TTTTCTTTA
15546107 TTCATTTATC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 10 0.50
15 6 0.30
16 4 0.20
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (15 bp):
TTTTCTTTAAAATGT
Found at i:15548074 original size:40 final size:40
Alignment explanation
Indices: 15548028--15548326 Score: 289
Period size: 40 Copynumber: 7.4 Consensus size: 40
15548018 TTTGATCAAA
*
15548028 GCTCCTCTAAACAGACGCTCAACGACTTTGAAAAATAAAT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAAT
* **
15548068 GTTCCTCTAAACAGAGGCTCATTGACTTTGAAAAATAAAT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAAT
* * * *
15548108 ACTCCTATAAACAGAGGATCAATGACTTTGAAAAATAAAT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAAT
* * * * * *
15548148 GCTCCACTAAACAAAAG-TACCACAACTTTGGAAAATAAAT
1 GCTCCTCTAAACAGAGGCT-CAACGACTTTGAAAAATAAAT
* * * * *
15548188 GCTCTTCTAAATAGAGGCATCAA-AATTTTGGAAAATAAAT
1 GCTCCTCTAAACAGAGGC-TCAACGACTTTGAAAAATAAAT
* * *
15548228 GCTCTTCTAAACAGAGGCACCACGACTTTG-AAAATAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAA-T
* * * * *
15548268 GCTCTTCTAAATAGAGGCAACCACAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGC-TCAACGACTTTGAAAAATAAA-T
15548310 GCTCCTCTAAACAGAGG
1 GCTCCTCTAAACAGAGG
15548327 TAACCATAAC
Statistics
Matches: 218, Mismatches: 34, Indels: 12
0.83 0.13 0.05
Matches are distributed among these distances:
39 11 0.05
40 168 0.77
41 13 0.06
42 26 0.12
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAAT
Found at i:15548573 original size:23 final size:23
Alignment explanation
Indices: 15548520--15548581 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
15548510 TTCAATTTCA
* * *
15548520 TAATAATTCAAATTTGCAAGATC
1 TAATGATTCACATTTGCAACATC
* * *
15548543 TCACGATTCACATTTGCAACATT
1 TAATGATTCACATTTGCAACATC
*
15548566 TAATGATTCTCATTTG
1 TAATGATTCACATTTG
15548582 AATTTTGGAG
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.39
Consensus pattern (23 bp):
TAATGATTCACATTTGCAACATC
Found at i:15548809 original size:25 final size:25
Alignment explanation
Indices: 15548781--15548914 Score: 195
Period size: 25 Copynumber: 5.5 Consensus size: 25
15548771 TTTGAAATTC
*
15548781 AAAGATTCTCATTTGAAAATATCTT
1 AAAGATTCTCATTTGAAAACATCTT
* *
15548806 AAAGATCCTCATTT-AAGAC-TC--
1 AAAGATTCTCATTTGAAAACATCTT
*
15548827 AAAGATTCTTATTTGAAAACATCTT
1 AAAGATTCTCATTTGAAAACATCTT
*
15548852 AAAGATTCTAATTTGAAAACATCTT
1 AAAGATTCTCATTTGAAAACATCTT
15548877 AAAGATTCTCATTTGAAAACATCTT
1 AAAGATTCTCATTTGAAAACATCTT
15548902 AAAGATTCTCATT
1 AAAGATTCTCATT
15548915 AAAAGATTCT
Statistics
Matches: 97, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.12
22 4 0.04
23 4 0.04
24 3 0.03
25 74 0.76
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (25 bp):
AAAGATTCTCATTTGAAAACATCTT
Found at i:15549339 original size:70 final size:71
Alignment explanation
Indices: 15549265--15549428 Score: 186
Period size: 70 Copynumber: 2.3 Consensus size: 71
15549255 CACCATCTAT
* * * * * *
15549265 AGGCTTCTCAACACTAACAATTTCGACATAATTTTCATCCATTGCCCCACATCA-TTTAATCACT
1 AGGCTTCTCAGCACTAACAATTTCAACATAAATTTCATCCATTGACCCACATCATTTTAACCACC
15549329 ACTCAC
66 ACTCAC
* * * * * *
15549335 AGGCTCCTTAGTACTAACAATTTCAACATAAATTTCATCCATTGACCTACATTATTTTCACCACC
1 AGGCTTCTCAGCACTAACAATTTCAACATAAATTTCATCCATTGACCCACATCATTTTAACCACC
*
15549400 ATTCAC
66 ACTCAC
* *
15549406 AGACTTCTCAGCACTAACCATTT
1 AGGCTTCTCAGCACTAACAATTT
15549429 TAGAATAAAC
Statistics
Matches: 75, Mismatches: 18, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
70 45 0.60
71 30 0.40
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.32
Consensus pattern (71 bp):
AGGCTTCTCAGCACTAACAATTTCAACATAAATTTCATCCATTGACCCACATCATTTTAACCACC
ACTCAC
Found at i:15549855 original size:18 final size:15
Alignment explanation
Indices: 15549818--15549846 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15549808 GTTGAATGAG
15549818 ATATTCAAACAATTA
1 ATATTCAAACAATTA
15549833 ATATTCAAACAATT
1 ATATTCAAACAATT
15549847 TTAAATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (15 bp):
ATATTCAAACAATTA
Found at i:15550115 original size:22 final size:19
Alignment explanation
Indices: 15550057--15550115 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 19
15550047 TTTTCTCTCA
15550057 TTTTTTTCTCTTTTTTATT
1 TTTTTTTCTCTTTTTTATT
15550076 TTTTTTTCTCATCTTTTTAATT
1 TTTTTTTCTC-T-TTTTT-ATT
*
15550098 CTTTTTTTTTCTTATTTT
1 -TTTTTTTCTCTT-TTTT
15550116 CTTTCTCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 10 0.29
20 1 0.03
21 6 0.18
22 8 0.24
23 9 0.26
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTTTTCTCTTTTTTATT
Found at i:15551001 original size:305 final size:300
Alignment explanation
Indices: 15550437--15551349 Score: 1245
Period size: 305 Copynumber: 3.0 Consensus size: 300
15550427 AAGGACTCTC
* * * *
15550437 ATTACTTTACCCCAACTTGTTATGGCATTCATTTTTTCTCTATTTTTCTTTTTTTTTTTGTTTTT
1 ATTAATTTGCCCCAACTTGTTATGGCATTAATTTTTTCTC--TTTTT-TTTTTTTTTAT-TTTTT
* * * *
15550502 TTAGATCTTTTGTGATCTTTAGAATCTATTTTTTTTCAAATATTATCCCCCAGTGTGAAAGGTGA
62 TTAGATCTTTTGTGATCTTT-GGA-CTCTTTTTTTTCAAAAATTATCCCCCAGTGTGGAAGGTGA
* * *
15550567 TCATTAGG-AAGGATTCTTTTAGAAAAAAAAATCATAACAGGCTCAAAAAGGTAATGATGAATCA
125 TCATTAGGCAAGG-TTCTTTTA-AAAAAAAAATCATAACAGGCTCAAAGAGGTAACGATGAATGA
* * *
15550631 TTTTTTTTAAAAAAAGATGGTTATTTTTTATCTCAAATGTGAATGCTTTCTTTGAACATCATCTA
188 -TTTTTTGAAAAAAAAATGGTCATTTTTTATCTCAAATGTGAATGCTTTCTTTGAACATCATCTA
* * *
15550696 TTGAACAAGCTCATGAATATTAATAAGAGACTGCATTTCTTTGAGTCAT
252 TTGAACAAGCTCATGAATCTTTATAAGAGACTGCATTTCTTCGAGTCAT
*
15550745 ATTAATTTGTCCCAACTTGTTATGGCATTAATTTTTTCTCTTTTTTTCTTTTTTTATTTTTTTTA
1 ATTAATTTGCCCCAACTTGTTATGGCATTAATTTTTTCTCTTTTTTT-TTTTTTTATTTTTTTTA
* * * *
15550810 GATCTTTTATGATCTTTGGGCTCTTTTTTATTCAAAAATTATCCCTCAATGTGGAAGGTGATCAT
65 GATCTTTTGTGATCTTTGGACTCTTTTTT-TTCAAAAATTATCCCCCAGTGTGGAAGGTGATCAT
* * *
15550875 TAGGCAATGTTCTTTTAAAAAAAAAAAATCATAACAAGCTCAAAGAGGTAACAATGAATGA-TTT
129 TAGGCAAGGTTCTTTT--AAAAAAAAAATCATAACAGGCTCAAAGAGGTAACGATGAATGATTTT
* * *
15550939 TCGAAAAACAAATATCGTCATTTGTTATCTCAAATAG-GAATGCTTTCTTTGAACATCATCTATT
192 TTGAAAAA-AAA-ATGGTCATTTTTTATCTCAAAT-GTGAATGCTTTCTTTGAACATCATCTATT
*
15551003 GAACAAGCTCATGAATCTTTATAAGAGACTGCATTTCTTCGAGCCAT
254 GAACAAGCTCATGAATCTTTATAAGAGACTGCATTTCTTCGAGTCAT
15551050 ATTAATTTGCCCCAACTTGTTATGGCATTAA-TTTTT-TC--TTTTTTTTTTTTA-TTTTTTTAG
1 ATTAATTTGCCCCAACTTGTTATGGCATTAATTTTTTCTCTTTTTTTTTTTTTTATTTTTTTTAG
** *
15551110 ATCTTTTGTGATCTTTGGACTCTTTTTTTT-TTAAATTATCCCCCAGTATGGAAGGTGATCATTA
66 ATCTTTTGTGATCTTTGGACTCTTTTTTTTCAAAAATTATCCCCCAGTGTGGAAGGTGATCATTA
* * *
15551174 GGCAGGGTTCTTTT-AGAAAAAAATCATAATAGGCTCAAAGAGGTAACGATGAATGATTTTTTGA
131 GGCAAGGTTCTTTTAAAAAAAAAATCATAACAGGCTCAAAGAGGTAACGATGAATGATTTTTTGA
* *
15551238 AAAAAAAATGGTCATTTTTTATCTCAAATGTAAATGCTTTCTTTGAATATCATCTATTGAACAAG
196 AAAAAAAATGGTCATTTTTTATCTCAAATGTGAATGCTTTCTTTGAACATCATCTATTGAACAAG
* * *
15551303 CTCATGAATCTTTATAAGAGATTGCA-TTCCTCGAATCAT
261 CTCATGAATCTTTATAAGAGACTGCATTTCTTCGAGTCAT
15551342 ATTAATTT
1 ATTAATTT
15551350 CATATCTCTA
Statistics
Matches: 543, Mismatches: 52, Indels: 36
0.86 0.08 0.06
Matches are distributed among these distances:
292 19 0.03
293 77 0.14
294 41 0.08
295 10 0.02
297 41 0.08
298 2 0.00
299 35 0.06
300 8 0.01
301 5 0.01
303 19 0.03
304 50 0.09
305 185 0.34
306 15 0.03
308 36 0.07
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (300 bp):
ATTAATTTGCCCCAACTTGTTATGGCATTAATTTTTTCTCTTTTTTTTTTTTTTATTTTTTTTAG
ATCTTTTGTGATCTTTGGACTCTTTTTTTTCAAAAATTATCCCCCAGTGTGGAAGGTGATCATTA
GGCAAGGTTCTTTTAAAAAAAAAATCATAACAGGCTCAAAGAGGTAACGATGAATGATTTTTTGA
AAAAAAAATGGTCATTTTTTATCTCAAATGTGAATGCTTTCTTTGAACATCATCTATTGAACAAG
CTCATGAATCTTTATAAGAGACTGCATTTCTTCGAGTCAT
Found at i:15553597 original size:17 final size:17
Alignment explanation
Indices: 15553572--15553605 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15553562 ATGATCATGA
*
15553572 AAATGATGCATAGAATG
1 AAATAATGCATAGAATG
*
15553589 AAATAATGCATATAATG
1 AAATAATGCATAGAATG
15553606 CAATGATGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.18, T:0.26
Consensus pattern (17 bp):
AAATAATGCATAGAATG
Found at i:15554807 original size:60 final size:61
Alignment explanation
Indices: 15554742--15554905 Score: 215
Period size: 60 Copynumber: 2.7 Consensus size: 61
15554732 TTCATATAAA
* ** *
15554742 AAAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTTTCTG-AAATTTTAATTTCAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTAAGAAAAATTTAATTTCAAG
** *
15554802 AAAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTAAAAGAAAAATTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTAAGAAAAATTTAATTTCAAG
* * *
15554862 GAAAATTGATATTTTCAACTTTTCCTTAAAAATATATTTTTTAA
1 AAAAATTGATACTTTCAACTTTTCC-TCAAAATATATTTTTTAA
15554906 ATATTTTTTA
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
59 7 0.08
60 68 0.76
61 5 0.06
62 9 0.10
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.44
Consensus pattern (61 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTAAGAAAAATTTAATTTCAAG
Found at i:15554865 original size:18 final size:18
Alignment explanation
Indices: 15554833--15554879 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
15554823 TTCCTCAAAA
*
15554833 ATATTTTAAAAGAAAAATT
1 ATATTTTCAAAG-AAAATT
*
15554852 -TATTTTCAAGGAAAATT
1 ATATTTTCAAAGAAAATT
15554869 GATATTTTCAA
1 -ATATTTTCAA
15554880 CTTTTCCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.25
18 9 0.38
19 9 0.38
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (18 bp):
ATATTTTCAAAGAAAATT
Found at i:15556865 original size:22 final size:22
Alignment explanation
Indices: 15556840--15556890 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
15556830 TAGATAAACC
*
15556840 ATAAAATAAAATAAAATAAATG-
1 ATAAAATAAAAGAAAA-AAATGA
*
15556862 ATAAATATGAAAGAAAAAAATGA
1 ATAAA-ATAAAAGAAAAAAATGA
15556885 ATAAAA
1 ATAAAA
15556891 ATCCCTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.20
Consensus pattern (22 bp):
ATAAAATAAAAGAAAAAAATGA
Found at i:15568212 original size:22 final size:21
Alignment explanation
Indices: 15568171--15568212 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15568161 TAGAATCTAA
*
15568171 ATCGATGATTATCATCTAACC
1 ATCGATGATTATCATATAACC
*
15568192 ATCGATGATGTCTCATATAAC
1 ATCGATGAT-TATCATATAAC
15568213 AAAACTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (21 bp):
ATCGATGATTATCATATAACC
Found at i:15570938 original size:357 final size:356
Alignment explanation
Indices: 15570272--15571166 Score: 1114
Period size: 357 Copynumber: 2.5 Consensus size: 356
15570262 GAACATATCG
* * * * ** * * *
15570272 CCACACAAATTCTAACACTATTATTAAAGGCGTATATCCAAGAAAAATACCTTTAATAATTCCTA
1 CCACATAAATTATAACACTGTTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCCTA
* * * * *
15570337 TTATAGTTTGTAGTA-AATTACTGAAGGCGGTTGT-AGAAAACAATGCCTTCAATAATTTCCCTA
66 TCATAGTTTGTA-TATAATTACTAAAGGCGGTT-TCAGAAAACAATGCCTTTAATAATTTTCTTA
* * * * * *
15570400 AAAAAATTTTTTGGATTATTAAAGGCATATTTTATTATGAGACACTTTCAATATACCACGATGGT
129 AAAAAATTTTTT-GATTATTAAAGGCGTATTTTATTATAAAACGCCTTCAATATACCACAATGGT
***
15570465 AATGGAAGGCATTTATTAGAAAAGGTGTCTTCAATACACCTTTAAACTTAGAAATCCATTACTGA
193 AATGGAAGGCATTTATTAGAAAAGGCACCTTCAATACACCTTTAAACTTAGAAATCCATTACTGA
** * * * *
15570530 AGGCGTTTGTTAATAAGAAACGCCTTCAAAATTTTCTCACTTAATATTTTAAGAATTATTAAAAG
258 AGGAATTTGTTAATAACAAACACCTTCAAAATTTTCTCACTAAATATTTTAAAAATTATT-AAAG
15570595 CA-TCTTCTACTATAAAATACC-TTCTATATACCA
322 CAGTCTTCTACTATAAAATACCTTTCTATATACCA
*
15570628 CCACATAAATTATAACACTGTTATTGAAGGCGTATATTTAAGATAGATGGCTTTAATAATTCCTA
1 CCACATAAATTATAACACTGTTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCCTA
* * *
15570693 TCATAGTTTGTATATAATTACTAAAAGTGGTTTCAAAAAACAATGCCTTTAATAATTTTCTTAAA
66 TCATAGTTTGTATATAATTACTAAAGGCGGTTTCAGAAAACAATGCCTTTAATAATTTTCTT-AA
* * ** *
15570758 AAAAATTTTTCGAATTATTAAAGGCGTATTTTATTATAAAATGCCTTCAATATATTATAATGGTA
130 AAAAATTTTTTG-ATTATTAAAGGCGTATTTTATTATAAAACGCCTTCAATATACCACAATGGTA
* * * *
15570823 ATGGAAGGCATTTATTAGAAAATGCACCTTGAATATACCTTTAAACTTAGTAATCCATTACTGAA
194 ATGGAAGGCATTTATTAGAAAAGGCACCTTCAATACACCTTTAAACTTAGAAATCCATTACTGAA
* * * *
15570888 GGAATTTGTTAATAACAGACACTTTCAAAATTTTTTCACTAAATATTTTAAAAATTATTAAAGGA
259 GGAATTTGTTAATAACAAACACCTTCAAAATTTTCTCACTAAATATTTTAAAAATTATTAAAGCA
* * *
15570953 GTCTTCTACTGTAAAATACCTTTTTTTATACCA
324 GTCTTCTACTATAAAATACCTTTCTATATACCA
* * * * * * *
15570986 CCATATAAATTGTAATATTGTTATTGAAGGCGTATATTTAAGATAGACGCCTTTAACAATTCTTA
1 CCACATAAATTATAACACTGTTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCCTA
* * * * *
15571051 TCACAGTTTGTATATAATTACTAAAGGCGATTGCAGATAACAATGCCTTTAATAATTTTTTTAAA
66 TCATAGTTTGTATATAATTACTAAAGGCGGTTTCAGAAAACAATGCCTTTAATAATTTTCTTAAA
* * * *
15571116 AAAATTTTCTTGATTATTAAAGGTGTCTTTAATTATAAAACGTCTTCAATA
131 AAAATTTT-TTGATTATTAAAGGCGTATTTTATTATAAAACGCCTTCAATA
15571167 ATTTGTTATA
Statistics
Matches: 461, Mismatches: 71, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
355 3 0.01
356 110 0.24
357 225 0.49
358 123 0.27
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.37
Consensus pattern (356 bp):
CCACATAAATTATAACACTGTTATTGAAGGCGTATATTTAAGATAGATGCCTTTAATAATTCCTA
TCATAGTTTGTATATAATTACTAAAGGCGGTTTCAGAAAACAATGCCTTTAATAATTTTCTTAAA
AAAATTTTTTGATTATTAAAGGCGTATTTTATTATAAAACGCCTTCAATATACCACAATGGTAAT
GGAAGGCATTTATTAGAAAAGGCACCTTCAATACACCTTTAAACTTAGAAATCCATTACTGAAGG
AATTTGTTAATAACAAACACCTTCAAAATTTTCTCACTAAATATTTTAAAAATTATTAAAGCAGT
CTTCTACTATAAAATACCTTTCTATATACCA
Found at i:15572010 original size:798 final size:802
Alignment explanation
Indices: 15570557--15572165 Score: 2158
Period size: 798 Copynumber: 2.0 Consensus size: 802
15570547 AAACGCCTTC
* *
15570557 AAAATTTTCTCACTTAATATTTTAAGAATTATTAAAAGCATCTTCTACTATAAAATACCTTCTAT
1 AAAATTTTCTCACTTAAAATTTTAAGAATTATTAAAAGCATATTCTACTATAAAATACCTTCTAT
* * * * * * *
15570622 ATACCACCACATAAATTATAACACTGTTATTGAAGGCGTATATTTAAGATAGATGGCTTTAATAA
66 ATACCACCACACAAATTATAACACTGTTATTGAAAGCATATATCTAAGAAAGACGGATTTAATAA
* * * * *
15570687 TTCCTATCATAGTTTGTATATAATTACTAAAAGTGGTTTCAAAAAACAATGCCTTTAATAATTTT
131 TTCCTATCACAGTTTGTAGATAATTACTAAAAGTGATTACAAAAAACAATGCCTTCAATAATTTT
* * * * * ** *
15570752 CTTAAAAAAAATTTTTCGAATTATTAAAGGCGTATTTTATTATAAAATGCCTTCAATATATTATA
196 CCTAAAAAAAATTTCTCGAATTATTAAAGGCATATTTTATAATAAAACGCCTTCAATATACCACA
* *
15570817 ATGGTAATGGAAGGCATTTATTAGAAAATGCACCTTGAATATACCTTTAAACTTAGTAATCCATT
261 ATGGTAATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATT
* *
15570882 ACTGAAGGAATTTGTTAATAACAGACACTTTCAAAATTTTTTCACTAAATATTTTAAAAATTATT
326 ACTGAAGGAATTTGTTAATAACAGACACCTTCAAAATTTTTCCACTAAATATTTTAAAAATTATT
* * * * * * * * *
15570947 AAAGGAGTCTTCTACTGTAAAATACCTTTTTTTATACCACCATATAAATTGTAATATTGTTATTG
391 AAAGGAGTCTTCTACAGTAAAATACCTTTCTATATACCACCACACAAATTCTAACACTGTTATTA
* * * * *
15571012 AAGGCGTATATTTAAGATAGACGCCTTTAACAATTCTTATCACAGTTTGTATATAATTACTAAAG
456 AAGGCGTATATCTAAGAAAGACGCCTTTAACAATTCTTATCACAGCTTGTAGATAATAACTAAAG
* * * * * *
15571077 GCGATTGCAGATAACAATGCCTTTAATAATTTTTTTAAAAAAATTTTCTTGATTATTAAAGGTGT
521 GCGATTGCAGAAAACAACGCATTTAATAATTTTTTCAAAAAAATTTTCTTGATTAGTAAAGGCGT
* **
15571142 CTTTAATTATAAAACGTCTTCAATAATTTGTTATAAACTTTGAAAATCCATAATTATTAAAGGTG
586 CTTTAATTATAAAACGCCTTCAATAATTTGTTATAAACACTGAAAATCCATAATTATTAAAGGTG
* *
15571207 ATTTTTTAGTGAAAATGCCTTTTATAATTTTTTAGAATTAGAAAAGG-TGTTTTCTTATAA-AAT
651 ATTTTTTACTGAAAATGCCTTTTATAATTTTTAAGAATTAGAAAAGGATGTTTTCTTATAAGAA-
15571270 ACGCATTTAATAAGTTGGTTGGATAATTTTAAAGGCTTATAATTAAAGGCGTCTTT-TTTGT-AA
715 ACGCATTTAATAAGTTGGTTGGATAATTTTAAAGGCTTATAATTAAAGGCGTCTTTCTTTGTAAA
**
15571333 AAATGCCTTCAATAATCGCCAAT
780 AAATAACTTCAATAATCGCCAAT
* * * * * *
15571356 AAAATTTTCTCACTTAAAATTTTGAGAATTATTAAAAGCGTATTTTACTATTAAATGCTTTGC-A
1 AAAATTTTCTCACTTAAAATTTTAAGAATTATTAAAAGCATATTCTACTATAAAATACCTT-CTA
** * *
15571420 TATACTGCCACACAAATTCTAACACTGTTATTGAAAGCATATATCTAAGAAAGACGTATTTAATA
65 TATACCACCACACAAATTATAACACTGTTATTGAAAGCATATATCTAAGAAAGACGGATTTAATA
* *
15571485 ATTCCTATCACAGTTTGTAGATAATTACTAAAGGTGATTACAGAAAACAATGCCTTCAATAATTT
130 ATTCCTATCACAGTTTGTAGATAATTACTAAAAGTGATTACAAAAAACAATGCCTTCAATAATTT
* * * * *
15571550 TCCTAAAAAAAATTTCTCGAATTATTAAAGGCATCTTTTATAATGACACGCTTTTAATATACCAC
195 TCCTAAAAAAAATTTCTCGAATTATTAAAGGCATATTTTATAATAAAACGCCTTCAATATACCAC
* * ** * *
15571615 GATGGTAAT-GAAGGCGTTTATTAGAAAAGGTGCCTTCAATGTACTTTTAAACTTAGTAATCCAT
260 AATGGTAATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCAT
* * * * * * * * *
15571679 TATTGAATGTATTTTTTAATAACAGACGCCTTCAAAATTTTTCCATTTAATATTTTGAGAATTAT
325 TACTGAAGGAATTTGTTAATAACAGACACCTTCAAAATTTTTCCACTAAATATTTTAAAAATTAT
* *
15571744 TAAAAGTA-TCTTCTACAGTAAAATACC-TTCTATATACCGCCACACAAATTCTAACACTGTTAT
390 T-AAAGGAGTCTTCTACAGTAAAATACCTTTCTATATACCACCACACAAATTCTAACACTGTTAT
* ** * *
15571807 TAAAGGCGTATATCTAAGAAAGATGTTTTTAATAATTCTTATCACAGCTTGTAGATAATAATTAA
454 TAAAGGCGTATATCTAAGAAAGACGCCTTTAACAATTCTTATCACAGCTTGTAGATAATAACTAA
* *
15571872 AGGC-AGTTGTAGAAAACAACGCATTTAATAATTTTTCTCAAAAAAATTTT-TTGGATTGGTAAA
519 AGGCGA-TTGCAGAAAACAACGCATTTAATAATTTTT-TCAAAAAAATTTTCTT-GATTAGTAAA
* * * *
15571935 GGCGTCTTTTATTATAAACCGCCTTTAATAATTTGTTATAAACACTGGAAATCCATAATTATTAA
581 GGCGTCTTTAATTATAAAACGCCTTCAATAATTTGTTATAAACACTGAAAATCCATAATTATTAA
* * *
15572000 AGGTGATTTTTTACTGAAAATGCCTTTTATAGTTTTTAAGAATTAGAAAAGGTATTTTTTTTTAT
646 AGGTGATTTTTTACTGAAAATGCCTTTTATAATTTTTAAGAATTAGAAAAGG-ATGTTTTCTTAT
*
15572065 AAGAAACGCCTTTAATAAGTTGGTTGGATAATTTTAAAGGCTTATAATTAAAGGCGTCTTTCTTT
710 AAGAAACGCATTTAATAAGTTGGTTGGATAATTTTAAAGGCTTATAATTAAAGGCGTCTTTCTTT
*
15572130 GTAAAAAATAACTTCAATAATCTCCAAT
775 GTAAAAAATAACTTCAATAATCGCCAAT
15572158 AAAATTTT
1 AAAATTTT
15572166 TAAGTGACTA
Statistics
Matches: 697, Mismatches: 103, Indels: 17
0.85 0.13 0.02
Matches are distributed among these distances:
796 1 0.00
797 114 0.16
798 247 0.35
799 231 0.33
800 67 0.10
801 7 0.01
802 30 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (802 bp):
AAAATTTTCTCACTTAAAATTTTAAGAATTATTAAAAGCATATTCTACTATAAAATACCTTCTAT
ATACCACCACACAAATTATAACACTGTTATTGAAAGCATATATCTAAGAAAGACGGATTTAATAA
TTCCTATCACAGTTTGTAGATAATTACTAAAAGTGATTACAAAAAACAATGCCTTCAATAATTTT
CCTAAAAAAAATTTCTCGAATTATTAAAGGCATATTTTATAATAAAACGCCTTCAATATACCACA
ATGGTAATGGAAGGCATTTATTAGAAAAGGCACCTTCAATATACCTTTAAACTTAGTAATCCATT
ACTGAAGGAATTTGTTAATAACAGACACCTTCAAAATTTTTCCACTAAATATTTTAAAAATTATT
AAAGGAGTCTTCTACAGTAAAATACCTTTCTATATACCACCACACAAATTCTAACACTGTTATTA
AAGGCGTATATCTAAGAAAGACGCCTTTAACAATTCTTATCACAGCTTGTAGATAATAACTAAAG
GCGATTGCAGAAAACAACGCATTTAATAATTTTTTCAAAAAAATTTTCTTGATTAGTAAAGGCGT
CTTTAATTATAAAACGCCTTCAATAATTTGTTATAAACACTGAAAATCCATAATTATTAAAGGTG
ATTTTTTACTGAAAATGCCTTTTATAATTTTTAAGAATTAGAAAAGGATGTTTTCTTATAAGAAA
CGCATTTAATAAGTTGGTTGGATAATTTTAAAGGCTTATAATTAAAGGCGTCTTTCTTTGTAAAA
AATAACTTCAATAATCGCCAAT
Found at i:15572530 original size:38 final size:38
Alignment explanation
Indices: 15572488--15572565 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
15572478 TTAATATTGA
15572488 CATATGTGTTTATATATTTTCATTAACATCACCGTCAG
1 CATATGTGTTTATATATTTTCATTAACATCACCGTCAG
15572526 CATATGTGTTTATATATTTTCATTAACATCACCGTCAG
1 CATATGTGTTTATATATTTTCATTAACATCACCGTCAG
15572564 CA
1 CA
15572566 CAGTCGTCCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.41
Consensus pattern (38 bp):
CATATGTGTTTATATATTTTCATTAACATCACCGTCAG
Found at i:15576879 original size:5 final size:5
Alignment explanation
Indices: 15576869--15576901 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
15576859 AAAAAAGTAA
15576869 AAAAG AAAAG AAAAG AAAAG ACAAAG -AAAG AAA
1 AAAAG AAAAG AAAAG AAAAG A-AAAG AAAAG AAA
15576902 TATGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:15585400 original size:15 final size:15
Alignment explanation
Indices: 15585382--15585412 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15585372 ATATTATACG
15585382 AAATACAAAAAAAAT
1 AAATACAAAAAAAAT
*
15585397 AAATACCAAAAAAAT
1 AAATACAAAAAAAAT
15585412 A
1 A
15585413 CAAAAAAAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (15 bp):
AAATACAAAAAAAAT
Found at i:15585421 original size:11 final size:11
Alignment explanation
Indices: 15585391--15585447 Score: 51
Period size: 11 Copynumber: 4.8 Consensus size: 11
15585381 GAAATACAAA
15585391 AAAAATAAATAC
1 AAAAA-AAATAC
*
15585403 CAAAAAAATAC
1 AAAAAAAATAC
*
15585414 AAAAAAAAGAAC
1 AAAAAAAA-TAC
*
15585426 AGCAAAAAAATAG
1 A--AAAAAAATAC
15585439 AAAAAAAAT
1 AAAAAAAAT
15585448 CGAGGATGGC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
11 21 0.57
12 7 0.19
13 2 0.05
14 7 0.19
ACGTcount: A:0.77, C:0.09, G:0.05, T:0.09
Consensus pattern (11 bp):
AAAAAAAATAC
Found at i:15585431 original size:25 final size:26
Alignment explanation
Indices: 15585382--15585447 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 26
15585372 ATATTATACG
*
15585382 AAATACAAAAAAAATAAATACCAAAA
1 AAATACAAAAAAAATAAACACCAAAA
* *
15585408 AAATACAAAAAAAA-GAACAGCAAAA
1 AAATACAAAAAAAATAAACACCAAAA
*
15585433 AAATAGAAAAAAAAT
1 AAATACAAAAAAAAT
15585448 CGAGGATGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 21 0.60
26 14 0.40
ACGTcount: A:0.77, C:0.09, G:0.05, T:0.09
Consensus pattern (26 bp):
AAATACAAAAAAAATAAACACCAAAA
Found at i:15586850 original size:15 final size:15
Alignment explanation
Indices: 15586832--15586922 Score: 58
Period size: 15 Copynumber: 5.9 Consensus size: 15
15586822 TAAAACCTCT
15586832 TAAATCCAAACCCCC
1 TAAATCCAAACCCCC
* *
15586847 TAAAATTCGAAACCCAC
1 T-AAA-TCCAAACCCCC
* *
15586864 AAAATTCAAACCCCC
1 TAAATCCAAACCCCC
* ** *
15586879 AAAATCCAAAATCCT
1 TAAATCCAAACCCCC
*
15586894 TAAAGTCCAAA-CCCT
1 TAAA-TCCAAACCCCC
*
15586909 TAAATCAAAACCCC
1 TAAATCCAAACCCC
15586923 AAACCACAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
14 5 0.08
15 33 0.56
16 12 0.20
17 9 0.15
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.16
Consensus pattern (15 bp):
TAAATCCAAACCCCC
Found at i:15586905 original size:31 final size:31
Alignment explanation
Indices: 15586823--15586907 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 31
15586813 CTAAGTTTCT
*
15586823 AAAACCTCTTAAATCCAAACCCCCTAAAATTC
1 AAAACC-CTTAAATCCAAACCCCCTAAAATCC
* ** *
15586855 GAAACCCACAAAATTCAAACCCCC-AAAATCC
1 AAAACCC-TTAAATCCAAACCCCCTAAAATCC
*
15586886 AAAATCCTTAAAGTCCAAACCC
1 AAAACCCTTAAA-TCCAAACCC
15586908 TTAAATCAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
30 3 0.07
31 20 0.49
32 18 0.44
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.16
Consensus pattern (31 bp):
AAAACCCTTAAATCCAAACCCCCTAAAATCC
Found at i:15586956 original size:16 final size:16
Alignment explanation
Indices: 15586935--15586965 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15586925 ACCACAAAAC
15586935 CCAAACCCTAAAATCT
1 CCAAACCCTAAAATCT
*
15586951 CCAAACTCTAAAATC
1 CCAAACCCTAAAATC
15586966 AAAACCCTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.19
Consensus pattern (16 bp):
CCAAACCCTAAAATCT
Found at i:15593535 original size:12 final size:12
Alignment explanation
Indices: 15593504--15593548 Score: 63
Period size: 12 Copynumber: 3.6 Consensus size: 12
15593494 GGGGGTATAA
*
15593504 AAAAAACAAAAAC
1 AAAAAA-AAAAAG
15593517 AACAAAAAAAAAG
1 AA-AAAAAAAAAG
15593530 AAAAAAAAAAAG
1 AAAAAAAAAAAG
15593542 AAAAAAA
1 AAAAAAA
15593549 TTGGTTATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 17 0.57
13 9 0.30
14 4 0.13
ACGTcount: A:0.89, C:0.07, G:0.04, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:15594855 original size:33 final size:33
Alignment explanation
Indices: 15594801--15595246 Score: 566
Period size: 33 Copynumber: 13.7 Consensus size: 33
15594791 AAAAAAAAAA
*
15594801 CTTTAAGCCCA-ATTATCTGGCC-TCAAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATC-AATGAAG
15594833 CTTTAAGCCCAGTTTATCTGGCCATCAATGATA-
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGA-AG
* *
15594866 -TTTAAGCCC-GTTTATCTGGCCTTAAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * *
15594897 ATTTAAGCCTAGTTTATTTGGCCATCAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * *
15594930 CTTTAAGTCCAGTTTATCTGACCATCAATAAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
15594963 TTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
15594996 CTTTAAGCCTAGTTTATCTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
15595029 TTTTAAGCCCAGCTTATCTGGCCATCAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
15595062 CTTTAAGCCCAGTTTATCT-GCCATCAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
15595094 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * *
15595127 TTTTAAGTCCAGTTTATCTGGCCATTAATGAAG
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* *
15595160 CTTTAAGCCCAGTTTATCTAGCCATCAAT-AAA
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * * * *
15595192 ATTTAAGCTCAGTTTAGCTGGCCTTCAAT-AAA
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * *
15595224 ATTTAAGCCAAGTTTATTTGGCC
1 CTTTAAGCCCAGTTTATCTGGCC
15595247 CCAAAAGAAG
Statistics
Matches: 364, Mismatches: 43, Indels: 14
0.86 0.10 0.03
Matches are distributed among these distances:
30 1 0.00
31 18 0.05
32 108 0.30
33 234 0.64
34 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (33 bp):
CTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
Found at i:15595127 original size:98 final size:99
Alignment explanation
Indices: 15594801--15595246 Score: 566
Period size: 98 Copynumber: 4.6 Consensus size: 99
15594791 AAAAAAAAAA
*
15594801 CTTTAAGCCCA-ATTATCTGGCC-TCAAATGAAGCTTTAAGCCCAGTTTATCTGGCCATCAATGA
1 CTTTAAGCCCAGTTTATCTGGCCATC-AATGAAGCTTTAAGCCCAGTTTATCTGGCCATCAATGA
* *
15594864 TA--TTTAAGCCC-GTTTATCTGGCCTTAAATGAAG
65 -AGCTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * * * * *
15594897 ATTTAAGCCTAGTTTATTTGGCCATCAATGAAGCTTTAAGTCCAGTTTATCTGACCATCAATAAA
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTGGCCATCAATGAA
* *
15594962 GTTTTAAGCCCAGTTTATCTGGCCATTAATGAAG
66 GCTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * * *
15594996 CTTTAAGCCTAGTTTATCTGGCCATTAATGAAGTTTTAAGCCCAGCTTATCTGGCCATCAATGAA
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTGGCCATCAATGAA
15595061 GCTTTAAGCCCAGTTTATCT-GCCATCAATGAAG
66 GCTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * *
15595094 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAGTTTTAAGTCCAGTTTATCTGGCCATTAATGAA
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTGGCCATCAATGAA
* *
15595159 GCTTTAAGCCCAGTTTATCTAGCCATCAAT-AAA
66 GCTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
* * * * ** * *
15595192 ATTTAAGCTCAGTTTAGCTGGCCTTCAAT-AAAATTTAAGCCAAGTTTATTTGGCC
1 CTTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTGGCC
15595247 CCAAAAGAAG
Statistics
Matches: 310, Mismatches: 34, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
96 10 0.03
97 65 0.21
98 130 0.42
99 105 0.34
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (99 bp):
CTTTAAGCCCAGTTTATCTGGCCATCAATGAAGCTTTAAGCCCAGTTTATCTGGCCATCAATGAA
GCTTTAAGCCCAGTTTATCTGGCCATCAATGAAG
Found at i:15595968 original size:17 final size:17
Alignment explanation
Indices: 15595927--15595962 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
15595917 ATGAGGAGCA
15595927 TTTAAAGATTTTGAGAT
1 TTTAAAGATTTTGAGAT
15595944 TTTAAAGATTTTGAGAT
1 TTTAAAGATTTTGAGAT
15595961 TT
1 TT
15595963 GTAAGACCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (17 bp):
TTTAAAGATTTTGAGAT
Found at i:15596025 original size:138 final size:138
Alignment explanation
Indices: 15595806--15596088 Score: 521
Period size: 138 Copynumber: 2.0 Consensus size: 138
15595796 ATGAGGAGCA
*
15595806 TTTAAAGATTTTGAGATTTGTAAGACCTCCGGGCATAATCTCTAAAAGCCTCTGTGCATGGCTTT
1 TTTAAAGATTTTGAGATTTGTAAGACCTCCGGGCATAATCTCTAAAAGCCTCTGTGCATGACTTT
15595871 CAAGATTAAAAGATTTTCAAATTTTAAAGTTTCATCACTTCTGATTATGAGGAGCATTTAAAGAT
66 CAAGATTAAAAGATTTTCAAATTTTAAAGTTTCATCACTTCTGATTATGAGGAGCATTTAAAGAT
15595936 TTTGAGAT
131 TTTGAGAT
*
15595944 TTTAAAGATTTTGAGATTTGTAAGACCTCCGGGCATAATCTCTAAAAGCCTCTTTGCATGACTTT
1 TTTAAAGATTTTGAGATTTGTAAGACCTCCGGGCATAATCTCTAAAAGCCTCTGTGCATGACTTT
*
15596009 CAAGATTAAAAGATTTTTAAATTTTAAAGTTTCATCACTTCTGATTATGAGGAGCATTTAAAGAT
66 CAAGATTAAAAGATTTTCAAATTTTAAAGTTTCATCACTTCTGATTATGAGGAGCATTTAAAGAT
*
15596074 TTTGTGAT
131 TTTGAGAT
15596082 TTGTAAA
1 TT-TAAA
15596089 ACCTCCGGGC
Statistics
Matches: 140, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
138 136 0.97
139 4 0.03
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (138 bp):
TTTAAAGATTTTGAGATTTGTAAGACCTCCGGGCATAATCTCTAAAAGCCTCTGTGCATGACTTT
CAAGATTAAAAGATTTTCAAATTTTAAAGTTTCATCACTTCTGATTATGAGGAGCATTTAAAGAT
TTTGAGAT
Found at i:15596099 original size:121 final size:121
Alignment explanation
Indices: 15595944--15596230 Score: 475
Period size: 121 Copynumber: 2.4 Consensus size: 121
15595934 ATTTTGAGAT
** *
15595944 TTTAAAGATTTTGAGATTTGTAAGACCTCCGGGCATAATCTCTAAAAGCCTCTTTGCATGACTTT
1 TTTAAAGATTTTGAGATTTGTAAGACCTCCGGGCATAATCTCTAAAAGCCTCTACGCAAGACTTT
*
15596009 CAAGATTAAAAGATTTTTAAATTTTAAAGTTTCATCACTTCTGATTATGAGGAGCA
66 CAAGATTAAAAGATTTTTAAATTTTAAAGTTTCATCACCTCTGATTATGAGGAGCA
* * *
15596065 TTTAAAGATTTTGTGATTTGTAAAACCTCCGGGCATAATCTCTAAAAGCCTCTACGTAAGACTTT
1 TTTAAAGATTTTGAGATTTGTAAGACCTCCGGGCATAATCTCTAAAAGCCTCTACGCAAGACTTT
**
15596130 CAAGATTAAAAGATTTTTAAATTTTAAAGTTTCATTGCCTCTGATTATGAGGAGCA
66 CAAGATTAAAAGATTTTTAAATTTTAAAGTTTCATCACCTCTGATTATGAGGAGCA
* *
15596186 TTCAAAGATTTTGAGATTTGTAAGATCTCCGGGCATAATCTCTAA
1 TTTAAAGATTTTGAGATTTGTAAGACCTCCGGGCATAATCTCTAA
15596231 GACCTCTGAG
Statistics
Matches: 153, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
121 153 1.00
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (121 bp):
TTTAAAGATTTTGAGATTTGTAAGACCTCCGGGCATAATCTCTAAAAGCCTCTACGCAAGACTTT
CAAGATTAAAAGATTTTTAAATTTTAAAGTTTCATCACCTCTGATTATGAGGAGCA
Found at i:15596243 original size:22 final size:22
Alignment explanation
Indices: 15596218--15596267 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
15596208 AGATCTCCGG
15596218 GCATAATCTCTAAGACCTCTGA
1 GCATAATCTCTAAGACCTCTGA
* *
15596240 GCATAATCTGTAAGACCTCTGG
1 GCATAATCTCTAAGACCTCTGA
15596262 GCATAA
1 GCATAA
15596268 ATTTGATTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (22 bp):
GCATAATCTCTAAGACCTCTGA
Found at i:15596366 original size:22 final size:23
Alignment explanation
Indices: 15596338--15596389 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
15596328 ATCAATTCTA
*
15596338 TAAGACCTTCAGGT-ATGATTTT
1 TAAGACCTTCAGATCATGATTTT
*
15596360 TAAGACC-TCCGATCATGATTTT
1 TAAGACCTTCAGATCATGATTTT
15596382 TAAGACCT
1 TAAGACCT
15596390 CCGGGCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (23 bp):
TAAGACCTTCAGATCATGATTTT
Found at i:15596403 original size:23 final size:22
Alignment explanation
Indices: 15596355--15596399 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15596345 TTCAGGTATG
* *
15596355 ATTTTTAAGACCTCCGATCATG
1 ATTTTTAAGACCTCCGAGCATA
*
15596377 ATTTTTAAGACCTCCGGGCATA
1 ATTTTTAAGACCTCCGAGCATA
15596399 A
1 A
15596400 ATTTGATTCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (22 bp):
ATTTTTAAGACCTCCGAGCATA
Found at i:15596443 original size:132 final size:130
Alignment explanation
Indices: 15596200--15596635 Score: 563
Period size: 132 Copynumber: 3.3 Consensus size: 130
15596190 AAGATTTTGA
* * * * * * * * * *
15596200 GATT-TGTAAGATCTCCGGGCATAATCTCTAAGACCTCTGAGCATAATCTGTAAGACCTCTGGGC
1 GATTCTGTAAGACCTTCGGGCATGATTTGTAAGACCTCCGA-CATGATTTCTAAGACCTCCGGGC
* *
15596264 ATAAATTTGATTCGCGGTGTTATCCCGATCAATGCTTTATCTTTTGACTTACGATGTTATCCCAA
65 ATAAATTTGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTTGACTT-CGATGTTATCCCAA
15596329 TC
129 TC
* * * * * *
15596331 AATTCTATAAGACCTTCAGGTATGATTTTTAAGACCTCCGATCATGATTTTTAAGACCTCCGGGC
1 GATTCTGTAAGACCTTCGGGCATGATTTGTAAGACCTCCGA-CATGATTTCTAAGACCTCCGGGC
*
15596396 ATAAATTTGATTCGCGGTGTTATCTCGATCGATTCTTTATCTTTTGACTTGCGATGTTATCCCAA
65 ATAAATTTGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTTGACTT-CGATGTTATCCCAA
15596461 TC
129 TC
* *
15596463 GATTCTGTAAGACATTCGGGCATGATTCTGTAAGACATCCGGACATGATTTCTAAGACCTCCGGG
1 GATTCTGTAAGACCTTCGGGCATGATT-TGTAAGACCTCC-GACATGATTTCTAAGACCTCCGGG
* *
15596528 CATAAATTCGATTCGCGGTGTTATCCCGATCGATTCTTTAT-TTTTCAACTT-GTAGTGTTATCC
64 CATAAATTTGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTT-GACTTCG-A-TGTTATCC
15596591 CAATC
126 CAATC
15596596 GATTCTGTAAGACCTTCGGGCATGATTTGTAAGACCTCCG
1 GATTCTGTAAGACCTTCGGGCATGATTTGTAAGACCTCCG
15596636 GGCATAAATT
Statistics
Matches: 267, Mismatches: 32, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
131 5 0.02
132 147 0.55
133 113 0.42
134 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (130 bp):
GATTCTGTAAGACCTTCGGGCATGATTTGTAAGACCTCCGACATGATTTCTAAGACCTCCGGGCA
TAAATTTGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTCGATGTTATCCCAATC
Found at i:15596493 original size:23 final size:23
Alignment explanation
Indices: 15596463--15596530 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
15596453 TATCCCAATC
*
15596463 GATTCTGTAAGACATTCGGGCAT
1 GATTCTGTAAGACATCCGGGCAT
*
15596486 GATTCTGTAAGACATCCGGACAT
1 GATTCTGTAAGACATCCGGGCAT
* *
15596509 GATT-TCTAAGACCTCCGGGCAT
1 GATTCTGTAAGACATCCGGGCAT
15596531 AAATTCGATT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 15 0.38
23 25 0.62
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (23 bp):
GATTCTGTAAGACATCCGGGCAT
Found at i:15596558 original size:133 final size:133
Alignment explanation
Indices: 15596250--15596636 Score: 575
Period size: 132 Copynumber: 2.9 Consensus size: 133
15596240 GCATAATCTG
* * * *
15596250 TAAGACCTCTGGGCATAAATTTGATTCGCGGTGTTATCCCGATCAATGCTTTATCTTTTGACTTA
1 TAAGACCTCCGGGCATAAATTTGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTG
* * * * *
15596315 CGATGTTATCCCAATCAATTCTATAAGACCTTCAGGTATGATTTTTAAGACCTCC-GATCATGAT
66 CGATGTTATCCCAATCGATTCTGTAAGACCTTCGGGCATGATTTGTAAGACCTCCGGATCATGAT
*
15596379 TTT
131 TTC
*
15596382 TAAGACCTCCGGGCATAAATTTGATTCGCGGTGTTATCTCGATCGATTCTTTATCTTTTGACTTG
1 TAAGACCTCCGGGCATAAATTTGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTG
* *
15596447 CGATGTTATCCCAATCGATTCTGTAAGACATTCGGGCATGATTCTGTAAGACATCCGGA-CATGA
66 CGATGTTATCCCAATCGATTCTGTAAGACCTTCGGGCATGATT-TGTAAGACCTCCGGATCATGA
15596511 TTTC
130 TTTC
* *
15596515 TAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTATCCCGATCGATTCTTTAT-TTTTCAACTT
1 TAAGACCTCCGGGCATAAATTTGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTT-GACTT
*
15596579 G-TAGTGTTATCCCAATCGATTCTGTAAGACCTTCGGGCATGATTTGTAAGACCTCCGG
65 GCGA-TGTTATCCCAATCGATTCTGTAAGACCTTCGGGCATGATTTGTAAGACCTCCGG
15596637 GCATAAATTC
Statistics
Matches: 232, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
132 116 0.50
133 114 0.49
134 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (133 bp):
TAAGACCTCCGGGCATAAATTTGATTCGCGGTGTTATCCCGATCGATTCTTTATCTTTTGACTTG
CGATGTTATCCCAATCGATTCTGTAAGACCTTCGGGCATGATTTGTAAGACCTCCGGATCATGAT
TTC
Found at i:15596627 original size:22 final size:23
Alignment explanation
Indices: 15596596--15596640 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
15596586 TATCCCAATC
*
15596596 GATTCTGTAAGACCTTCGGGCAT
1 GATTCTGTAAGACCTCCGGGCAT
15596619 GATT-TGTAAGACCTCCGGGCAT
1 GATTCTGTAAGACCTCCGGGCAT
15596641 AAATTCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (23 bp):
GATTCTGTAAGACCTCCGGGCAT
Found at i:15596679 original size:110 final size:110
Alignment explanation
Indices: 15596486--15596688 Score: 291
Period size: 110 Copynumber: 1.8 Consensus size: 110
15596476 ATTCGGGCAT
* * * *
15596486 GATTCTGTAAGACATCCGGACATGATTTCTAAGACCTCCGGGCATAAATTCGATTCGCGGTGTTA
1 GATTCTGTAAGACATCCGGACATGATTTCTAAGACCTCCGGGCATAAATTCAATTCACGATATTA
15596551 TCCCGATCGATTCTTTATTTTTCAACTTGTAGTGTTATCCCAATC
66 TCCCGATCGATTCTTTATTTTTCAACTTGTAGTGTTATCCCAATC
* * * * *
15596596 GATTCTGTAAGACCTTCGGGCATGATTTGTAAGACCTCCGGGCATAAATTCAATTTACGATATTA
1 GATTCTGTAAGACATCCGGACATGATTTCTAAGACCTCCGGGCATAAATTCAATTCACGATATTA
**
15596661 TCTTGATCGATT-TATTATTTTTCAACTT
66 TCCCGATCGATTCT-TTATTTTTCAACTT
15596689 ACGGTGTCAT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
109 1 0.01
110 80 0.99
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (110 bp):
GATTCTGTAAGACATCCGGACATGATTTCTAAGACCTCCGGGCATAAATTCAATTCACGATATTA
TCCCGATCGATTCTTTATTTTTCAACTTGTAGTGTTATCCCAATC
Found at i:15596877 original size:15 final size:15
Alignment explanation
Indices: 15596859--15596913 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
15596849 ATATTATACG
15596859 AAATACAAAAAAAAT
1 AAATACAAAAAAAAT
* *
15596874 AAATACCAAAAATAT
1 AAATACAAAAAAAAT
15596889 -AATAC--AAAAAA-
1 AAATACAAAAAAAAT
15596900 AAATACAAAAAAAA
1 AAATACAAAAAAAA
15596914 GAACAGCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 10 0.29
14 11 0.32
15 13 0.38
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.13
Consensus pattern (15 bp):
AAATACAAAAAAAAT
Found at i:15596886 original size:13 final size:12
Alignment explanation
Indices: 15596868--15596910 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
15596858 GAAATACAAA
15596868 AAAAATAAATACC
1 AAAAATAAATA-C
15596881 AAAAATATAATAC
1 AAAAATA-AATAC
*
15596894 AAAAAAAAATAC
1 AAAAATAAATAC
15596906 AAAAA
1 AAAAA
15596911 AAAGAACAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 10 0.36
13 14 0.50
14 4 0.14
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAATAAATAC
Found at i:15596910 original size:12 final size:12
Alignment explanation
Indices: 15596867--15596940 Score: 69
Period size: 12 Copynumber: 5.8 Consensus size: 12
15596857 CGAAATACAA
15596867 AAAAAATAAATACC
1 AAAAAA-AAATA-C
*
15596881 AAAAATATAATAC
1 AAAAA-AAAATAC
15596894 AAAAAAAAATAC
1 AAAAAAAAATAC
15596906 AAAAAAAAGA-AC
1 AAAAAAAA-ATAC
* *
15596918 AGCAAAAAAATAG
1 A-AAAAAAAATAC
15596931 AAAAAAAAAT
1 AAAAAAAAAT
15596941 CTAGGATGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
12 26 0.51
13 15 0.29
14 9 0.18
15 1 0.02
ACGTcount: A:0.77, C:0.08, G:0.04, T:0.11
Consensus pattern (12 bp):
AAAAAAAAATAC
Found at i:15597057 original size:36 final size:36
Alignment explanation
Indices: 15597010--15597082 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
15597000 TACCTTGTTC
*
15597010 ATCCTACCCTACTACCAGAAAATACAGAAGAAATAA
1 ATCCTACCCTACTACCAGAAAATACAAAAGAAATAA
*
15597046 ATCCTACCCTACTACCAGAGAATACAAAAGAAATAA
1 ATCCTACCCTACTACCAGAAAATACAAAAGAAATAA
15597082 A
1 A
15597083 GAGGCATGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.51, C:0.25, G:0.08, T:0.16
Consensus pattern (36 bp):
ATCCTACCCTACTACCAGAAAATACAAAAGAAATAA
Found at i:15598395 original size:15 final size:15
Alignment explanation
Indices: 15598377--15598464 Score: 79
Period size: 16 Copynumber: 5.8 Consensus size: 15
15598367 AAAACCTCTT
15598377 AAATCCAAACCCATA
1 AAATCCAAACCCATA
* *
15598392 AAATTCGAAACCCACA
1 AAA-TCCAAACCCATA
**
15598408 AAATCCAAACCCCCA
1 AAATCCAAACCCATA
* *
15598423 AAATCCAAAATCCTTA
1 AAATCC-AAACCCATA
*
15598439 AAATCCAAACCC-TT
1 AAATCCAAACCCATA
*
15598453 AAATCAAAACCC
1 AAATCCAAACCC
15598465 CAAACCACAG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.20
15 24 0.39
16 25 0.41
ACGTcount: A:0.50, C:0.34, G:0.01, T:0.15
Consensus pattern (15 bp):
AAATCCAAACCCATA
Found at i:15598412 original size:31 final size:31
Alignment explanation
Indices: 15598377--15598468 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 31
15598367 AAAACCTCTT
* *
15598377 AAATCCAAACCCATAAAATTCGAAACCCACA
1 AAATCCAAACCCATAAAATCCAAAACCCACA
** * **
15598408 AAATCCAAACCCCCAAAATCCAAAATCCTTA
1 AAATCCAAACCCATAAAATCCAAAACCCACA
*
15598439 AAATCCAAACCC-TTAAAT-CAAAACCC-CA
1 AAATCCAAACCCATAAAATCCAAAACCCACA
15598467 AA
1 AA
15598469 CCACAGAACC
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
28 3 0.06
29 7 0.14
30 4 0.08
31 36 0.72
ACGTcount: A:0.51, C:0.34, G:0.01, T:0.14
Consensus pattern (31 bp):
AAATCCAAACCCATAAAATCCAAAACCCACA
Found at i:15598462 original size:14 final size:15
Alignment explanation
Indices: 15598367--15598464 Score: 65
Period size: 15 Copynumber: 6.5 Consensus size: 15
15598357 CTAAGTTTCA
15598367 AAAACCTCTT-AAATC
1 AAAACC-CTTAAAATC
* *
15598382 CAAACCCATAAAATTC
1 AAAACCCTTAAAA-TC
* **
15598398 GAAACCCACAAAATC
1 AAAACCCTTAAAATC
* **
15598413 CAAACCCCCAAAATCC
1 AAAACCCTTAAAAT-C
*
15598429 AAAATCCTTAAAATC
1 AAAACCCTTAAAATC
*
15598444 CAAACCCTT-AAATC
1 AAAACCCTTAAAATC
15598458 AAAACCC
1 AAAACCC
15598465 CAAACCACAG
Statistics
Matches: 67, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
14 13 0.19
15 30 0.45
16 24 0.36
ACGTcount: A:0.49, C:0.34, G:0.01, T:0.16
Consensus pattern (15 bp):
AAAACCCTTAAAATC
Found at i:15599852 original size:11 final size:11
Alignment explanation
Indices: 15599831--15599860 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
15599821 ACATCCATGA
15599831 AAGAA-TATAT
1 AAGAACTATAT
15599841 AAGAACTATAT
1 AAGAACTATAT
15599852 AAGAACTAT
1 AAGAACTAT
15599861 CTCAGACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.27
Consensus pattern (11 bp):
AAGAACTATAT
Found at i:15603487 original size:18 final size:18
Alignment explanation
Indices: 15603460--15603498 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
15603450 TGAACATCTT
15603460 AGCCTGCTCAATCTTAGA
1 AGCCTGCTCAATCTTAGA
*
15603478 AGCCTTCTCAATCTTAGA
1 AGCCTGCTCAATCTTAGA
15603496 AGC
1 AGC
15603499 TTTATTGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (18 bp):
AGCCTGCTCAATCTTAGA
Found at i:15604902 original size:87 final size:87
Alignment explanation
Indices: 15604756--15604926 Score: 272
Period size: 87 Copynumber: 2.0 Consensus size: 87
15604746 AATGTTAAGG
* *
15604756 GCATTTTAGCATTCAAAAGGCAAAATTGACTTTTCCCTCAAAAGTTAAGTCAGTTGACAAATAAA
1 GCATTTTAGCATTCAAAAGGCAAAATGGACTTTTCCCTCAAAAGTTAAGTCAGTTGACAAACAAA
15604821 GGAATTCTCA-TCATTTTGGCAA
66 GGAATT-TCAGTCATTTTGGCAA
* *
15604843 GCATTTTAGCATTCAAAGGGCAAAATGGACTTTTCCCTTAAAAGTTAAGTCAGTTGACAAACAAA
1 GCATTTTAGCATTCAAAAGGCAAAATGGACTTTTCCCTCAAAAGTTAAGTCAGTTGACAAACAAA
* *
15604908 GGCATTTTAGTCATTTTGG
66 GGAATTTCAGTCATTTTGG
15604927 TAGAGATAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 2 0.03
87 75 0.97
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (87 bp):
GCATTTTAGCATTCAAAAGGCAAAATGGACTTTTCCCTCAAAAGTTAAGTCAGTTGACAAACAAA
GGAATTTCAGTCATTTTGGCAA
Found at i:15609297 original size:20 final size:19
Alignment explanation
Indices: 15609229--15609297 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 19
15609219 AGCCCAAATG
*
15609229 TTTATTTTTTATTATAT-T
1 TTTATTTTTTATTTTATCT
15609247 ATATTATATTATTTATATTTATCT
1 -T-TTAT-TT-TTTAT-TTTATCT
*
15609271 TTCATTTTTTATTTTATCCT
1 TTTATTTTTTATTTTAT-CT
15609291 TTTATTT
1 TTTATTT
15609298 AATTTTTAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
19 6 0.15
20 17 0.41
21 4 0.10
22 8 0.20
23 5 0.12
24 1 0.02
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTATTTTTTATTTTATCT
Found at i:15609370 original size:17 final size:17
Alignment explanation
Indices: 15609348--15609380 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15609338 TATTTTAATT
*
15609348 TCCTTTGTTTATCTTTG
1 TCCTTTATTTATCTTTG
15609365 TCCTTTATTTATCTTT
1 TCCTTTATTTATCTTT
15609381 CCTTATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.09, C:0.18, G:0.06, T:0.67
Consensus pattern (17 bp):
TCCTTTATTTATCTTTG
Found at i:15610489 original size:30 final size:30
Alignment explanation
Indices: 15610449--15610506 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
15610439 TTAATTATTT
* * *
15610449 AATATATATATTTATATAATGATATTTTTA
1 AATATATATATTTAAAAAATAATATTTTTA
*
15610479 AATATTTATATTTAAAAAATAATATTTT
1 AATATATATATTTAAAAAATAATATTTT
15610507 ATTAATTTCG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
AATATATATATTTAAAAAATAATATTTTTA
Found at i:15610494 original size:14 final size:14
Alignment explanation
Indices: 15610444--15610494 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
15610434 TTTAATTAAT
15610444 TATTT-AATATATA
1 TATTTAAATATATA
*
15610457 TATTTATATAATGATA
1 TATTTAAAT-AT-ATA
* *
15610473 TTTTTAAATATTTA
1 TATTTAAATATATA
15610487 TATTTAAA
1 TATTTAAA
15610495 AAATAATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 5 0.17
14 11 0.37
15 4 0.13
16 10 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TATTTAAATATATA
Found at i:15610897 original size:14 final size:14
Alignment explanation
Indices: 15610862--15610901 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
15610852 AAAAATGTCA
* *
15610862 TTAAAAAAGATATT
1 TTAAAAAATAAATT
15610876 TT-AAAAATAAATT
1 TTAAAAAATAAATT
15610889 TTAAAAAATAAAT
1 TTAAAAAATAAAT
15610902 AAAAATTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (14 bp):
TTAAAAAATAAATT
Found at i:15612580 original size:13 final size:12
Alignment explanation
Indices: 15612559--15612626 Score: 50
Period size: 13 Copynumber: 5.4 Consensus size: 12
15612549 TATTATATGA
15612559 TATTATTTATCTTT
1 TATT-TTTAT-TTT
15612573 TATTTTTA-TTT
1 TATTTTTATTTT
*
15612584 TATCTTTATATTT
1 TATTTTTAT-TTT
*
15612597 AATTTTTAATTTT
1 TATTTTT-ATTTT
*
15612610 TAATTTTT-TTGT
1 T-ATTTTTATTTT
15612622 TATTT
1 TATTT
15612627 ATTTATTGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
11 14 0.31
12 4 0.09
13 15 0.33
14 12 0.27
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (12 bp):
TATTTTTATTTT
Found at i:15612581 original size:6 final size:6
Alignment explanation
Indices: 15612559--15612626 Score: 50
Period size: 7 Copynumber: 10.8 Consensus size: 6
15612549 TATTATATGA
* *
15612559 TATTATT TATCTTT TATTTT TA-TTT TATCTT TATATTT AATTTT TAATTTT
1 TATT-TT TAT-TTT TATTTT TATTTT TATTTT TAT-TTT TATTTT T-ATTTT
*
15612610 TAATTTT T-TTGT TATTT
1 T-ATTTT TATTTT TATTT
15612627 ATTTATTGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
5 9 0.18
6 15 0.30
7 25 0.50
8 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (6 bp):
TATTTT
Found at i:15612601 original size:18 final size:18
Alignment explanation
Indices: 15612564--15612602 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15612554 TATGATATTA
*
15612564 TTTATCTTTTATTTTTAT
1 TTTATCTTTTATTTTAAT
15612582 TTTATC-TTTATATTTAAT
1 TTTATCTTTTAT-TTTAAT
15612600 TTT
1 TTT
15612603 TAATTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATCTTTTATTTTAAT
Found at i:15612625 original size:43 final size:42
Alignment explanation
Indices: 15612570--15612651 Score: 96
Period size: 42 Copynumber: 1.9 Consensus size: 42
15612560 ATTATTTATC
15612570 TTTTATTTTTATTTTATCT-TTATATTTAATTTTTAATTTTTAA
1 TTTTATTTTTA-TTTATCTATTATATTTAA-TTTTAATTTTTAA
* * *
15612613 TTTT-TTTGTTATTTATTTATTGTATTTTATTTTAATTTT
1 TTTTATTT-TTATTTATCTATTATATTTAATTTTAATTTT
15612652 CTTTGTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
42 19 0.56
43 15 0.44
ACGTcount: A:0.22, C:0.01, G:0.02, T:0.74
Consensus pattern (42 bp):
TTTTATTTTTATTTATCTATTATATTTAATTTTAATTTTTAA
Found at i:15614163 original size:30 final size:30
Alignment explanation
Indices: 15614127--15614186 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
15614117 CTAGTGCTTT
15614127 CAACATTAATCTGAAGACAAATTACTCTTA
1 CAACATTAATCTGAAGACAAATTACTCTTA
15614157 CAACATTAATCTGAAGACAAATTACTCTTA
1 CAACATTAATCTGAAGACAAATTACTCTTA
15614187 ATGAGATAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (30 bp):
CAACATTAATCTGAAGACAAATTACTCTTA
Found at i:15621733 original size:21 final size:20
Alignment explanation
Indices: 15621709--15621753 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
15621699 TTTGTAGATG
* *
15621709 TTATAGAATTTTTTTTGGATA
1 TTATAGAATATTTTTTAG-TA
15621730 TTAT-GAATATTTTTTAGTA
1 TTATAGAATATTTTTTAGTA
15621749 TTATA
1 TTATA
15621754 TTTTGTTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 6 0.29
20 11 0.52
21 4 0.19
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.58
Consensus pattern (20 bp):
TTATAGAATATTTTTTAGTA
Found at i:15621750 original size:19 final size:21
Alignment explanation
Indices: 15621698--15621753 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
15621688 TTTTGAGGAC
* * *
15621698 TTTTGTAGATGTTATAGAATT
1 TTTTTTAGATATTATAGAATA
*
15621719 TTTTTTGGATATTAT-GAATA
1 TTTTTTAGATATTATAGAATA
15621739 TTTTTTAG-TATTATA
1 TTTTTTAGATATTATA
15621754 TTTTGTTGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 6 0.21
20 11 0.38
21 12 0.41
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (21 bp):
TTTTTTAGATATTATAGAATA
Found at i:15622080 original size:27 final size:29
Alignment explanation
Indices: 15622047--15622117 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 29
15622037 TATCAATGGA
*
15622047 TTATCGATAG-ATTTTACTGATGGA-TTT
1 TTATCGATAGAATTTTACTGATAGATTTT
**
15622074 TTATCGAT-GAATTTTTTTGATAGATTTT
1 TTATCGATAGAATTTTACTGATAGATTTT
*
15622102 TTATCGATAAAATTTT
1 TTATCGATAGAATTTT
15622118 TCGTTAGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 19 0.51
28 11 0.30
29 6 0.16
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (29 bp):
TTATCGATAGAATTTTACTGATAGATTTT
Found at i:15622082 original size:14 final size:14
Alignment explanation
Indices: 15622047--15622110 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
15622037 TATCAATGGA
15622047 TTATCGATAGA-TT
1 TTATCGATAGATTT
*
15622060 TTA-CTGATGGATTT
1 TTATC-GATAGATTT
15622074 TTATCGAT-GAATTT
1 TTATCGATAG-ATTT
*
15622088 TT-TTGATAGATTTT
1 TTATCGATAGA-TTT
15622102 TTATCGATA
1 TTATCGATA
15622111 AAATTTTTCG
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
12 1 0.02
13 14 0.34
14 20 0.49
15 6 0.15
ACGTcount: A:0.27, C:0.06, G:0.16, T:0.52
Consensus pattern (14 bp):
TTATCGATAGATTT
Found at i:15622117 original size:15 final size:15
Alignment explanation
Indices: 15622070--15622118 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
15622060 TTACTGATGG
15622070 ATTTTTATCGAT-GA
1 ATTTTTATCGATAGA
*
15622084 ATTTTT-TTGATAGA
1 ATTTTTATCGATAGA
* *
15622098 TTTTTTATCGATAAA
1 ATTTTTATCGATAGA
15622113 ATTTTT
1 ATTTTT
15622119 CGTTAGTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 4 0.14
14 13 0.46
15 11 0.39
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.57
Consensus pattern (15 bp):
ATTTTTATCGATAGA
Found at i:15622471 original size:2 final size:2
Alignment explanation
Indices: 15622464--15622490 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15622454 CCCAACAATT
15622464 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
15622491 GGAGGATTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15623305 original size:20 final size:22
Alignment explanation
Indices: 15623266--15623305 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
15623256 GTACAAGCCT
*
15623266 AATTTTATTAATTTTTTAAAAG
1 AATTTTATTAATTGTTTAAAAG
15623288 AATTTT-TT-ATTGTTTAAA
1 AATTTTATTAATTGTTTAAA
15623306 TATTAATAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
AATTTTATTAATTGTTTAAAAG
Found at i:15634420 original size:26 final size:28
Alignment explanation
Indices: 15634394--15634460 Score: 82
Period size: 29 Copynumber: 2.4 Consensus size: 28
15634384 CATCCAATGG
15634394 TTATATTTAAA-CATTTATATAGGTGGT
1 TTATATTTAAATCATTTATATAGGTGGT
* * * *
15634421 TTAGATTAAAAATTATTTGTATAGGTGGT
1 TTATATT-TAAATCATTTATATAGGTGGT
15634450 TTATATTTAAA
1 TTATATTTAAA
15634461 AAATTTTGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
27 6 0.19
28 6 0.19
29 20 0.62
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (28 bp):
TTATATTTAAATCATTTATATAGGTGGT
Found at i:15634445 original size:29 final size:30
Alignment explanation
Indices: 15634406--15634471 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 30
15634396 ATATTTAAAC
* *
15634406 ATTTATATAGGTGGTTTAGA-TTAAAAATT
1 ATTTGTATAGGTGGTTTAGATTTAAAAAAT
*
15634435 ATTTGTATAGGTGGTTTATATTTAAAAAAT
1 ATTTGTATAGGTGGTTTAGATTTAAAAAAT
15634465 -TTTGTAT
1 ATTTGTAT
15634472 CTTCAACGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 25 0.76
30 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (30 bp):
ATTTGTATAGGTGGTTTAGATTTAAAAAAT
Found at i:15643201 original size:87 final size:87
Alignment explanation
Indices: 15643064--15643266 Score: 255
Period size: 87 Copynumber: 2.3 Consensus size: 87
15643054 ATCTGCGTTG
* * * * * * *
15643064 AAAGGCATTTGCATCATTAGATTAAAAAGTTACATGTGCACTTTATTAAAAGACATTTGCATTGA
1 AAAGGCATTTACATTATTAGACTAGAAA-TTTCATGTGCACTTTATTAAAAGACATCTACATTGA
*
15643129 CATTCGCATTTGCACTTTTGTTT
65 CATTCGCATTTGCACTTTTGTTA
* *
15643152 AAGGGCATTTACATTATTATACTAGAAATTTCATGTGCACTTT-TGTAAAAGACATCTACATTGA
1 AAAGGCATTTACATTATTAGACTAGAAATTTCATGTGCACTTTAT-TAAAAGACATCTACATTGA
** *
15643216 TTTTTGCATTTGCACTTTTGTTA
65 CATTCGCATTTGCACTTTTGTTA
*
15643239 AAAGGCATTTGCATTATTAGACTAGAAA
1 AAAGGCATTTACATTATTAGACTAGAAA
15643267 CTTACATATG
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
86 1 0.01
87 75 0.77
88 22 0.22
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.39
Consensus pattern (87 bp):
AAAGGCATTTACATTATTAGACTAGAAATTTCATGTGCACTTTATTAAAAGACATCTACATTGAC
ATTCGCATTTGCACTTTTGTTA
Found at i:15643301 original size:87 final size:86
Alignment explanation
Indices: 15643064--15643289 Score: 220
Period size: 87 Copynumber: 2.6 Consensus size: 86
15643054 ATCTGCGTTG
* * * * * * * *
15643064 AAAGGCATTTGCATCATTAGATTAAAAAGTTACATGTGCACTTTAT-TAAAAGACATTTGCATTG
1 AAAGGCATTTACATTATTAGACTAGAAA-TTACATATGCACTTT-TGGAAAAGACA-CTACATTG
** * *
15643128 ACATTCGCATTTGCACTTTTGTTT
63 ATTTTTGCATTTGCACTTTTGTTA
* * * * *
15643152 AAGGGCATTTACATTATTATACTAGAAATTTCATGTGCACTTTTGTAAAAGACATCTACATTGAT
1 AAAGGCATTTACATTATTAGACTAGAAATTACATATGCACTTTTGGAAAAGACA-CTACATTGAT
15643217 TTTTGCATTTGCACTTTTGTTA
65 TTTTGCATTTGCACTTTTGTTA
* *
15643239 AAAGGCATTTGCATTATTAGACTAGAAACTTACATATGCTCTTTTAGGAAA
1 AAAGGCATTTACATTATTAGACTAGAAA-TTACATATGCACTTTT-GGAAA
15643290 TATACATCAT
Statistics
Matches: 115, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
86 1 0.01
87 75 0.65
88 35 0.30
89 4 0.03
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (86 bp):
AAAGGCATTTACATTATTAGACTAGAAATTACATATGCACTTTTGGAAAAGACACTACATTGATT
TTTGCATTTGCACTTTTGTTA
Found at i:15643352 original size:20 final size:20
Alignment explanation
Indices: 15643312--15643350 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15643302 GGAAAAATTC
*
15643312 GCATTTGCATCCTCGTAAAA
1 GCATTTGCATCATCGTAAAA
15643332 GCATTTGCATCAT-GTAAAA
1 GCATTTGCATCATCGTAAAA
15643351 AGAATGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (20 bp):
GCATTTGCATCATCGTAAAA
Found at i:15644181 original size:21 final size:22
Alignment explanation
Indices: 15644149--15644191 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
15644139 AAAAGTTCAC
**
15644149 AAAAAAGTAAAATTGAAAAAAA
1 AAAAAAGTAAAAGAGAAAAAAA
15644171 AAAAAAG-AAAAGAGAAAAAAA
1 AAAAAAGTAAAAGAGAAAAAAA
15644192 GGTAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (22 bp):
AAAAAAGTAAAAGAGAAAAAAA
Found at i:15646593 original size:78 final size:79
Alignment explanation
Indices: 15646511--15646655 Score: 204
Period size: 78 Copynumber: 1.8 Consensus size: 79
15646501 CCAAGATAAG
* * *
15646511 ATTTTAAG-CTAAATCTAGCTAGCACTAAGATATTTAA-CCTAGTTAAGTTGGCACTATATGATA
1 ATTTTAAGTCT-AATCTAGCTAGCACTAAGATATTTAAGCCTAGTTAAGTTGGAACTAGATGAGA
15646574 TTTATTTAAAATGAA
65 TTTATTTAAAATGAA
* * * *
15646589 ATTTTAAGTCTAATCTAGTTGGCATTAAGATTTTTAAGCCTAGTTAAGTTGGAACTAGATGAGAT
1 ATTTTAAGTCTAATCTAGCTAGCACTAAGATATTTAAGCCTAGTTAAGTTGGAACTAGATGAGAT
15646654 TT
66 TT
15646656 TTAAGCTCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
78 30 0.52
79 28 0.48
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (79 bp):
ATTTTAAGTCTAATCTAGCTAGCACTAAGATATTTAAGCCTAGTTAAGTTGGAACTAGATGAGAT
TTATTTAAAATGAA
Found at i:15646624 original size:30 final size:29
Alignment explanation
Indices: 15646590--15646687 Score: 72
Period size: 30 Copynumber: 3.1 Consensus size: 29
15646580 TAAAATGAAA
*
15646590 TTTTAAGTCTAATCTAGTTGGCATTAAGAT
1 TTTTAAG-CTAATCTAGTTGGCAATAAGAT
* *
15646620 TTTTAAGCCTAGT-TAAGTTGGAACTAGATGAGAT
1 TTTTAAG-CTAATCT-AGTTGG--C-A-ATAAGAT
* *
15646654 TTTTAAGCTCAATCTAGTTGCCACTAAGAT
1 TTTTAAGCT-AATCTAGTTGGCAATAAGAT
15646684 TTTT
1 TTTT
15646688 TAGCATAGTT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
29 1 0.02
30 26 0.49
31 1 0.02
32 2 0.04
33 3 0.06
34 19 0.36
35 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (29 bp):
TTTTAAGCTAATCTAGTTGGCAATAAGAT
Found at i:15646668 original size:64 final size:64
Alignment explanation
Indices: 15646590--15646719 Score: 190
Period size: 64 Copynumber: 2.0 Consensus size: 64
15646580 TAAAATGAAA
* * *
15646590 TTTTAAGTCTAATCTAGTTGGCATTAAGATTTTTAAGCCTAGTTAAGTTGGAACTAGATGAGAT
1 TTTTAAGTCTAATCTAGTTGCCACTAAGATTTTTAAGCATAGTTAAGTTGGAACTAGATGAGAT
* * *
15646654 TTTTAAG-CTCAATCTAGTTGCCACTAAGATTTTTTAGCATAGTTAAGTTGGCATTAGATGAGAT
1 TTTTAAGTCT-AATCTAGTTGCCACTAAGATTTTTAAGCATAGTTAAGTTGGAACTAGATGAGAT
15646718 TT
1 TT
15646720 ATCTAAGATG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 2 0.03
64 57 0.97
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (64 bp):
TTTTAAGTCTAATCTAGTTGCCACTAAGATTTTTAAGCATAGTTAAGTTGGAACTAGATGAGAT
Found at i:15646794 original size:143 final size:142
Alignment explanation
Indices: 15646504--15646815 Score: 344
Period size: 143 Copynumber: 2.2 Consensus size: 142
15646494 GATTTATCCA
* * * *
15646504 AGATAAGA-TTTTAAGCTAAATCTAGCTAGCACTAAGATATTTAACCTAGTTAAGTTGGCACTAT
1 AGATGAGATTTTTAAGCTCAATCTAGCTAGCACTAAGATATTTAACATAGTTAAGTTGGCACTAG
* * * * * * * *
15646568 ATGATATTTATTTAAAATGAAATTTTAAGTCTAATCTAGTTGGCATTAAGATTTTTAAGCCTAGT
66 ATGAGATTTATCTAAAATGAAATTTTAAGCCCAATCTAGATGGCATTAAGATTTTTAAACCCAAT
*
15646633 TAAGTTGGAACT
131 TAAGTTAGAACT
* * * *
15646645 AGATGAGATTTTTAAGCTCAATCTAG-TTGCCACTAAGATTTTTTAGCATAGTTAAGTTGGCATT
1 AGATGAGATTTTTAAGCTCAATCTAGCTAG-CACTAAGA-TATTTAACATAGTTAAGTTGGCACT
* * *
15646709 AGATGAGATTTATCTAAGATGTAATTTTTAAGCCCAATTTAGATGGCA-TAGAGATTTTTAAACC
64 AGATGAGATTTATCTAAAATG-AAATTTTAAGCCCAATCTAGATGGCATTA-AGATTTTTAAACC
*
15646773 CAATTAAGTTAGCACT
127 CAATTAAGTTAGAACT
* * *
15646789 A-ATGAGATATTTAAACCCAATCTAGCT
1 AGATGAGATTTTTAAGCTCAATCTAGCT
15646816 GATACTGATA
Statistics
Matches: 141, Mismatches: 24, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
141 9 0.06
142 24 0.17
143 61 0.43
144 47 0.33
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (142 bp):
AGATGAGATTTTTAAGCTCAATCTAGCTAGCACTAAGATATTTAACATAGTTAAGTTGGCACTAG
ATGAGATTTATCTAAAATGAAATTTTAAGCCCAATCTAGATGGCATTAAGATTTTTAAACCCAAT
TAAGTTAGAACT
Found at i:15646802 original size:33 final size:32
Alignment explanation
Indices: 15646759--15646846 Score: 101
Period size: 30 Copynumber: 2.8 Consensus size: 32
15646749 AGATGGCATA
15646759 GAGATTTTTAAACCCAATTAAGTTAGCACTAAT
1 GAGATTTTTAAACCCAATTAAGTT-GCACTAAT
* * *
15646792 GAGATATTTAAACCCAATCT-AGCTG-A-TACT
1 GAGATTTTTAAACCCAAT-TAAGTTGCACTAAT
*
15646822 GATATTTTTAAACCCAATTAAGTTG
1 GAGATTTTTAAACCCAATTAAGTTG
15646847 GCACACATTG
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
29 1 0.02
30 23 0.49
31 1 0.02
32 1 0.02
33 20 0.43
34 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (32 bp):
GAGATTTTTAAACCCAATTAAGTTGCACTAAT
Found at i:15646843 original size:143 final size:143
Alignment explanation
Indices: 15646522--15646850 Score: 317
Period size: 143 Copynumber: 2.3 Consensus size: 143
15646512 TTTTAAGCTA
* * * * *
15646522 AATCTAGCT-AGCACTAAGATATTT-AAC-CTAGTTAAGTTGGCACTATATGATATTTATTTAAA
1 AATCTAGCTGA-CACTAAGATTTTTAAACAC-AATTAAGTTGGCACTAGATGAGATTTATCTAAA
* * * * * * *
15646584 ATGAAATTTTAAGTCTAATCTAGTTGGCATTAAGATTTTTAAGCCTAGTTAAGTTGGAACTAGAT
64 ATGAAATTTTAAGCCCAATCTAGATGGCATTAAGATTTTTAAACCCAATTAAGTTAGAACTAGAT
* * *
15646649 GAGATTTTTAAGCTC
129 GAGATATTTAAACCC
* * * * * * * *
15646664 AATCTAGTTGCCACTAAGATTTTTTAGCATAGTTAAGTTGGCATTAGATGAGATTTATCTAAGAT
1 AATCTAGCTGACACTAAGATTTTTAAACACAATTAAGTTGGCACTAGATGAGATTTATCTAAAAT
* * *
15646729 GTAATTTTTAAGCCCAATTTAGATGGCA-TAGAGATTTTTAAACCCAATTAAGTTAGCACTA-AT
66 G-AAATTTTAAGCCCAATCTAGATGGCATTA-AGATTTTTAAACCCAATTAAGTTAGAACTAGAT
15646792 GAGATATTTAAACCC
129 GAGATATTTAAACCC
* * * *
15646807 AATCTAGCTGATACTGATATTTTTAAACCCAATTAAGTTGGCAC
1 AATCTAGCTGACACTAAGATTTTTAAACACAATTAAGTTGGCAC
15646851 ACATTGATTT
Statistics
Matches: 148, Mismatches: 34, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
142 20 0.14
143 82 0.55
144 46 0.31
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (143 bp):
AATCTAGCTGACACTAAGATTTTTAAACACAATTAAGTTGGCACTAGATGAGATTTATCTAAAAT
GAAATTTTAAGCCCAATCTAGATGGCATTAAGATTTTTAAACCCAATTAAGTTAGAACTAGATGA
GATATTTAAACCC
Found at i:15646911 original size:61 final size:59
Alignment explanation
Indices: 15646797--15646964 Score: 158
Period size: 61 Copynumber: 2.8 Consensus size: 59
15646787 CTAATGAGAT
* ** * * * * **
15646797 ATTTAAACCCAATCTAGCTGATACT-GATATTTTTAAACCCAATTAAGTTGGCACACATTG
1 ATTTAAACACAATCTAGCTGGCA-TGGAGATTTTT-AACCTAGTTAAGTAGGCACACAAAG
* *
15646857 ATTTAAGCATAATCTAAGCTGGCATGGAGATTTTTCAACCTAGTTAAGTAGGCACACAAAG
1 ATTTAAACACAATCT-AGCTGGCATGGAGATTTTT-AACCTAGTTAAGTAGGCACACAAAG
* * * *
15646918 ATTTAAACCCAATCTAGTTGGCATTGAGATTTTTAAGCTAGTTAAGT
1 ATTTAAACACAATCTAGCTGGCATGGAGATTTTTAACCTAGTTAAGT
15646965 TAGCATATTG
Statistics
Matches: 88, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
59 12 0.14
60 30 0.34
61 46 0.52
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.33
Consensus pattern (59 bp):
ATTTAAACACAATCTAGCTGGCATGGAGATTTTTAACCTAGTTAAGTAGGCACACAAAG
Found at i:15646980 original size:59 final size:61
Alignment explanation
Indices: 15646734--15646964 Score: 150
Period size: 61 Copynumber: 3.8 Consensus size: 61
15646724 AAGATGTAAT
* * * * * * * *
15646734 TTTTAAGCCCAATTTAGATGGCATAGAGATTTTTAAACCCAATTAAGTTA-GCACTA-ATGAGA
1 TTTTAAACCCAATCTAGTTGGCATGGAGATTTTTCAACCTAGTTAAG-TAGGCAC-ACA-AAGA
* ** * * * * * **
15646796 TATTTAAACCCAATCTAGCTGATACT-GATATTTTTAAACCCAATTAAGTTGGCACACATTGA
1 T-TTTAAACCCAATCTAGTTGGCA-TGGAGATTTTTCAACCTAGTTAAGTAGGCACACAAAGA
* ** *
15646858 -TTTAAGCATAATCTAAGCTGGCATGGAGATTTTTCAACCTAGTTAAGTAGGCACACAAAGA
1 TTTTAAACCCAATCT-AGTTGGCATGGAGATTTTTCAACCTAGTTAAGTAGGCACACAAAGA
* *
15646919 -TTTAAACCCAATCTAGTTGGCATTGAGATTTTT-AAGCTAGTTAAGT
1 TTTTAAACCCAATCTAGTTGGCATGGAGATTTTTCAACCTAGTTAAGT
15646965 TAGCATATTG
Statistics
Matches: 136, Mismatches: 27, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
59 12 0.09
60 29 0.21
61 46 0.34
62 5 0.04
63 43 0.32
64 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (61 bp):
TTTTAAACCCAATCTAGTTGGCATGGAGATTTTTCAACCTAGTTAAGTAGGCACACAAAGA
Found at i:15649913 original size:19 final size:19
Alignment explanation
Indices: 15649882--15649929 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
15649872 CAAACCTAAG
15649882 GTCAAATCCTAAA-ATAAAA
1 GTCAAA-CCTAAACATAAAA
* *
15649901 GTCAAACCATAAACCTTAAA
1 GTCAAACC-TAAACATAAAA
15649921 GTCAAACCT
1 GTCAAACCT
15649930 TAGAGCCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.08
19 11 0.44
20 12 0.48
ACGTcount: A:0.50, C:0.23, G:0.06, T:0.21
Consensus pattern (19 bp):
GTCAAACCTAAACATAAAA
Found at i:15649951 original size:58 final size:57
Alignment explanation
Indices: 15649873--15650069 Score: 171
Period size: 58 Copynumber: 3.4 Consensus size: 57
15649863 CCTAAACCCC
* * * **
15649873 AAACCTAAGGTCAAATCCTAAAATAAAAGTCAAACCATAAACCTTAAAGTCAAACCTT
1 AAACCCAAAGTCAAACCCTAAAACCAAAGTCAAACC-TAAACCTTAAAGTCAAACCTT
* * ** * * *
15649931 AGAGCCAAAGTCAAACCCTAAAACCATTGTCAAACCCGACACCTTAGAGTCAAACCTT
1 AAACCCAAAGTCAAACCCTAAAACCAAAGTCAAA-CCTAAACCTTAAAGTCAAACCTT
* * * * *
15649989 AAACCCAAAATCAAGCCCCAAAACCAAAGTCAAACCTAAATCC-AAAAGTCAAACCCT
1 AAACCCAAAGTCAAACCCTAAAACCAAAGTCAAACCTAAA-CCTTAAAGTCAAACCTT
* * *
15650046 AAACCTTAAAATCAAATCCTAAAA
1 AAACC-CAAAGTCAAACCCTAAAA
15650070 AGTCAAATAC
Statistics
Matches: 108, Mismatches: 28, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
57 20 0.19
58 86 0.80
59 2 0.02
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (57 bp):
AAACCCAAAGTCAAACCCTAAAACCAAAGTCAAACCTAAACCTTAAAGTCAAACCTT
Found at i:15650036 original size:19 final size:19
Alignment explanation
Indices: 15649882--15650069 Score: 77
Period size: 19 Copynumber: 9.7 Consensus size: 19
15649872 CAAACCTAAG
*
15649882 GTCAAATCCTAAAA-TAAAA
1 GTCAAA-CCTAAAACCAAAA
*
15649901 GTCAAACC-ATAAACCTTAAA
1 GTCAAACCTA-AAACC-AAAA
* *
15649921 GTCAAACCTTAGAGCC-AAA
1 GTCAAACC-TAAAACCAAAA
**
15649940 GTCAAACCCTAAAACC-ATT
1 GTCAAA-CCTAAAACCAAAA
** * * *
15649959 GTCAAACCCGACACCTTAGA
1 GTCAAACCTAAAACC-AAAA
*
15649979 GTCAAACCTTAAACCCAAAA
1 GTCAAACC-TAAAACCAAAA
* *
15649999 -TCAAGCCCCAAAACC-AAA
1 GTCAA-ACCTAAAACCAAAA
*
15650017 GTCAAACCTAAATCCAAAA
1 GTCAAACCTAAAACCAAAA
15650036 GTCAAACCCT-AAACCTTAAAA
1 GTCAAA-CCTAAAACC--AAAA
15650057 -TCAAATCCTAAAA
1 GTCAAA-CCTAAAA
15650070 AGTCAAATAC
Statistics
Matches: 126, Mismatches: 27, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
17 1 0.01
18 21 0.17
19 53 0.42
20 37 0.29
21 13 0.10
22 1 0.01
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (19 bp):
GTCAAACCTAAAACCAAAA
Found at i:15650107 original size:35 final size:33
Alignment explanation
Indices: 15650025--15650109 Score: 82
Period size: 35 Copynumber: 2.5 Consensus size: 33
15650015 AAGTCAAACC
* * *
15650025 TAAATCCAAAAGTCAAACCCTAAACCTTAAAAT
1 TAAATCCTAAAGTCAAAACCTAAACCCTAAAAT
*
15650058 CAAATCCTAAAAAGTCAAATACC-AAACTCCTAAAAGT
1 TAAATCCT--AAAGTCAAA-ACCTAAAC-CCTAAAA-T
15650095 TAAATCCTAAAGTCA
1 TAAATCCTAAAGTCA
15650110 GACCCTTATC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
33 6 0.14
35 20 0.48
36 8 0.19
37 8 0.19
ACGTcount: A:0.51, C:0.24, G:0.05, T:0.21
Consensus pattern (33 bp):
TAAATCCTAAAGTCAAAACCTAAACCCTAAAAT
Found at i:15652885 original size:21 final size:20
Alignment explanation
Indices: 15652850--15652889 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
15652840 TATCATGGTT
*
15652850 TTGTTTGGTTGTTACTCTTTC
1 TTGTTTGCTTGTTAC-CTTTC
*
15652871 TTGTTTGCTTTTTACCTTT
1 TTGTTTGCTTGTTACCTTT
15652890 TGCTATAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.05, C:0.15, G:0.15, T:0.65
Consensus pattern (20 bp):
TTGTTTGCTTGTTACCTTTC
Found at i:15655911 original size:2 final size:2
Alignment explanation
Indices: 15655904--15655932 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15655894 CCAAAAACAC
15655904 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15655933 AAAGAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15656323 original size:234 final size:234
Alignment explanation
Indices: 15655914--15656382 Score: 929
Period size: 234 Copynumber: 2.0 Consensus size: 234
15655904 ATATATATAT
15655914 ATATATATATATATATATAAAAGAAAAAGAATGATGTATGTACCAAGAAATAAAAACATTAAATT
1 ATATATATATATATATATAAAAGAAAAAGAATGATGTATGTACCAAGAAATAAAAACATTAAATT
*
15655979 GCCGATAGTTATATGATTTGTTGATAAAATTTTAAATTATTAATTTCATTAACTAAAATTTAATT
66 GCCGATAGTTATATAATTTGTTGATAAAATTTTAAATTATTAATTTCATTAACTAAAATTTAATT
15656044 TACAATAGTTTCAAATATTAAAAAAATTATATTAAATTGAAACACTACTGAAATTTATGGAAGAT
131 TACAATAGTTTCAAATATTAAAAAAATTATATTAAATTGAAACACTACTGAAATTTATGGAAGAT
15656109 ATCAAGGGGTATGAACAAGATATTTATTTTTATGATGAG
196 ATCAAGGGGTATGAACAAGATATTTATTTTTATGATGAG
15656148 ATATATATATATATATATAAAAGAAAAAGAATGATGTATGTACCAAGAAATAAAAACATTAAATT
1 ATATATATATATATATATAAAAGAAAAAGAATGATGTATGTACCAAGAAATAAAAACATTAAATT
15656213 GCCGATAGTTATATAATTTGTTGATAAAATTTTAAATTATTAATTTCATTAACTAAAATTTAATT
66 GCCGATAGTTATATAATTTGTTGATAAAATTTTAAATTATTAATTTCATTAACTAAAATTTAATT
15656278 TACAATAGTTTCAAATATTAAAAAAATTATATTAAATTGAAACACTACTGAAATTTATGGAAGAT
131 TACAATAGTTTCAAATATTAAAAAAATTATATTAAATTGAAACACTACTGAAATTTATGGAAGAT
15656343 ATCAAGGGGTATGAACAAGATATTTATTTTTATGATGAG
196 ATCAAGGGGTATGAACAAGATATTTATTTTTATGATGAG
15656382 A
1 A
15656383 AATTTTCTCT
Statistics
Matches: 234, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
234 234 1.00
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.36
Consensus pattern (234 bp):
ATATATATATATATATATAAAAGAAAAAGAATGATGTATGTACCAAGAAATAAAAACATTAAATT
GCCGATAGTTATATAATTTGTTGATAAAATTTTAAATTATTAATTTCATTAACTAAAATTTAATT
TACAATAGTTTCAAATATTAAAAAAATTATATTAAATTGAAACACTACTGAAATTTATGGAAGAT
ATCAAGGGGTATGAACAAGATATTTATTTTTATGATGAG
Found at i:15664443 original size:129 final size:129
Alignment explanation
Indices: 15664206--15664464 Score: 455
Period size: 129 Copynumber: 2.0 Consensus size: 129
15664196 CATATCTATG
* * *
15664206 TCCAAAGATTCAAACAAATATTTATGTAATAAAAACTATTAATCAAAGCAATCAAGAACTAGGCA
1 TCCAAAGATTCAAACAAATAATCATGCAATAAAAACTATTAATCAAAGCAATCAAGAACTAGGCA
*
15664271 TGAATATTAATCAATCCAAGCATTTAACAAAGTTAAGAAAAATCTTATCAAATAGCTTGGCGAT
66 TGAATATTAATCAATCCAAGCATTTAACAAAGTCAAGAAAAATCTTATCAAATAGCTTGGCGAT
15664335 TCCAAAGATTCAAACAAATAATCATGCAATAAAAACTATTAATCAAAGCAATCAAGAACTAGGCA
1 TCCAAAGATTCAAACAAATAATCATGCAATAAAAACTATTAATCAAAGCAATCAAGAACTAGGCA
* * *
15664400 TGAATATTAATCAATCCAAGCATTTAACAAAGTCAAGACAAATCTTATCAAGTAGCTTGGTGAT
66 TGAATATTAATCAATCCAAGCATTTAACAAAGTCAAGAAAAATCTTATCAAATAGCTTGGCGAT
15664464 T
1 T
15664465 AATATCTCAC
Statistics
Matches: 123, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 123 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (129 bp):
TCCAAAGATTCAAACAAATAATCATGCAATAAAAACTATTAATCAAAGCAATCAAGAACTAGGCA
TGAATATTAATCAATCCAAGCATTTAACAAAGTCAAGAAAAATCTTATCAAATAGCTTGGCGAT
Found at i:15667851 original size:29 final size:29
Alignment explanation
Indices: 15667807--15667865 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
15667797 ATCTCACTAC
15667807 AAAGCTCTCAAGAGGATACCTTACCTCTT
1 AAAGCTCTCAAGAGGATACCTTACCTCTT
*
15667836 AAAGCTCTCAATAGGATACCTTACCTCTT
1 AAAGCTCTCAAGAGGATACCTTACCTCTT
15667865 A
1 A
15667866 TTTTATTCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (29 bp):
AAAGCTCTCAAGAGGATACCTTACCTCTT
Found at i:15672024 original size:17 final size:16
Alignment explanation
Indices: 15672002--15672051 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
15671992 TTGGTTCAAG
15672002 TATTTTTTTATATTTTA
1 TATTTTTTTA-ATTTTA
*
15672019 TATTTTTATTGATTTTA
1 TATTTTT-TTAATTTTA
*
15672036 TTTTATTTTTAATTTT
1 TATT-TTTTTAATTTT
15672052 TACCAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 23 0.82
18 5 0.18
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (16 bp):
TATTTTTTTAATTTTA
Found at i:15672060 original size:27 final size:29
Alignment explanation
Indices: 15672007--15672060 Score: 67
Period size: 27 Copynumber: 1.9 Consensus size: 29
15671997 TCAAGTATTT
***
15672007 TTTTATATTTTATATTTTTATTGATTTTA
1 TTTTATATTTTATATTTTTACCAATTTTA
15672036 TTTTAT-TTTTA-ATTTTTACCAATTT
1 TTTTATATTTTATATTTTTACCAATTT
15672061 ATCTTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 11 0.50
28 5 0.23
29 6 0.27
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (29 bp):
TTTTATATTTTATATTTTTACCAATTTTA
Found at i:15672096 original size:17 final size:17
Alignment explanation
Indices: 15672071--15672111 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
15672061 ATCTTTTTAT
15672071 TATTATTATGTTTTGAAA
1 TATT-TTATGTTTTGAAA
15672089 TATTTTATGTTTTGAAA
1 TATTTTATGTTTTGAAA
15672106 TATTTT
1 TATTTT
15672112 TTATATAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (17 bp):
TATTTTATGTTTTGAAA
Found at i:15672766 original size:15 final size:15
Alignment explanation
Indices: 15672743--15672774 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
15672733 AAAAATTTCC
15672743 TTTTCTTCTAAAAAA
1 TTTTCTTCTAAAAAA
*
15672758 TTTTTTTCTAAAAAA
1 TTTTCTTCTAAAAAA
15672773 TT
1 TT
15672775 ATAAATAAAC
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:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTCTTCTAAAAAA
Found at i:15675251 original size:201 final size:197
Alignment explanation
Indices: 15674878--15675319 Score: 480
Period size: 201 Copynumber: 2.2 Consensus size: 197
15674868 CATTTAACTT
* * * * * * *
15674878 AAAACTAATTGGCAATATGTGGAGGGGTCCAACTTGAATATAAGGCTACAAGAAATTTAAAATTT
1 AAAACCAATTAGCAATAAGT-GAAGGGCCCAACTTGAATATAAGACTACAAGAAATTTAAAATTC
* * ** *
15674943 ATTAAATGGATATAACTTACTTTAGCAGGCTCCCATCATGTGTAGGTGAAGATGGAAGAAGCCTT
65 ATTAAATGGA-ATAACTCACTTTAACAGGCTCCCATCACATGTAGGTGAAGATGGAAGAAACCTT
* * *
15675008 CCATATGACAATTAAAAAAGGGCAACAGAAAGAATATCTTGGCTTTGAT-ACCATGTTAAGCATC
129 CCACATGACAATTAAAAAAGGGCAACAGAAAGAAAATCTTGGCTCTGATGA-CATGTTAAGCATC
15675072 CAACTC
193 C-ACTC
** ** * * * *
15675078 ACTACCAATTAGCTGTAAGTGAAGGGGCTCAACTTGAATATAAGACTACAAGATATTTGATATTC
1 AAAACCAATTAGCAATAAGTGAA-GGGCCCAACTTGAATATAAGACTACAAGAAATTTAAAATTC
*
15675143 ATTAGATATAGG-ATAACTCACTTTAATAGGC-CCCTATCACATGTAGGTGAAGATGGAAGAAAC
65 ATTA-A-AT-GGAATAACTCACTTTAACAGGCTCCC-ATCACATGTAGGTGAAGATGGAAGAAAC
* * * *
15675206 TTTTCACATGACAAATTAATAAAGGGCAA-TGAAA-AAAAGTCTTGGCTCTGATGACATGTTAAG
126 CTTCCACATGAC-AATTAAAAAAGGGCAACAGAAAGAAAA-TCTTGGCTCTGATGACATGTTAAG
*
15675269 CATCCACTT
189 CATCCACTC
*
15675278 AAAACCAATTGGCAATAAGTGAAGGGCCCAACTTGAATATAA
1 AAAACCAATTAGCAATAAGTGAAGGGCCCAACTTGAATATAA
15675320 AATTATAAAA
Statistics
Matches: 199, Mismatches: 35, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
199 20 0.10
200 78 0.39
201 81 0.41
202 18 0.09
203 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (197 bp):
AAAACCAATTAGCAATAAGTGAAGGGCCCAACTTGAATATAAGACTACAAGAAATTTAAAATTCA
TTAAATGGAATAACTCACTTTAACAGGCTCCCATCACATGTAGGTGAAGATGGAAGAAACCTTCC
ACATGACAATTAAAAAAGGGCAACAGAAAGAAAATCTTGGCTCTGATGACATGTTAAGCATCCAC
TC
Found at i:15680788 original size:2 final size:2
Alignment explanation
Indices: 15680781--15680805 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15680771 TTAAGGCAAA
15680781 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
15680806 TACATATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15683035 original size:21 final size:19
Alignment explanation
Indices: 15683010--15683056 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
15683000 AGTTAATAAT
*
15683010 TAACTAACAAACTAGAACAA
1 TAACTAACAAACTACAA-AA
*
15683030 TCAACTAATAAACTACAAAA
1 T-AACTAACAAACTACAAAA
15683050 TAACTAA
1 TAACTAA
15683057 ATAATCAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 6 0.25
20 4 0.17
21 14 0.58
ACGTcount: A:0.60, C:0.19, G:0.02, T:0.19
Consensus pattern (19 bp):
TAACTAACAAACTACAAAA
Found at i:15694776 original size:26 final size:26
Alignment explanation
Indices: 15694747--15694809 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
15694737 AACTATTAAA
*
15694747 ATATTAAAATTATTTATTACTAAAGT
1 ATATTAAAATTATTTATTACTAAAAT
* *
15694773 ATATTGAAATTATTTATTATTAAAAT
1 ATATTAAAATTATTTATTACTAAAAT
*
15694799 -TATTAATATTA
1 ATATTAAAATTA
15694810 AAAATAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 9 0.28
26 23 0.72
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (26 bp):
ATATTAAAATTATTTATTACTAAAAT
Found at i:15694810 original size:15 final size:15
Alignment explanation
Indices: 15694773--15694859 Score: 61
Period size: 16 Copynumber: 5.5 Consensus size: 15
15694763 TTACTAAAGT
*
15694773 ATATTGAAATTATTTA
1 ATATTAAAATTA-TTA
*
15694789 TTATTAAAATTATTA
1 ATATTAAAATTATTA
*
15694804 ATATTAAAAATAATTA
1 ATATT-AAAATTATTA
*
15694820 TATTTTAATAATAATATTTA
1 -ATATTAA-AAT--TA-TTA
15694840 ATATTAAAA-TATT-
1 ATATTAAAATTATTA
15694853 ATATTAA
1 ATATTAA
15694860 TGTACAAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
13 7 0.12
14 2 0.03
15 9 0.16
16 21 0.36
17 7 0.12
18 2 0.03
19 7 0.12
20 3 0.05
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (15 bp):
ATATTAAAATTATTA
Found at i:15694928 original size:22 final size:24
Alignment explanation
Indices: 15694897--15694945 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
15694887 TATATTCTTT
*
15694897 ATATTATTTATGAATATATTA-TA
1 ATATTATTTATGAATATAATATTA
*
15694920 ATATT-TTTATTAATATAATATTA
1 ATATTATTTATGAATATAATATTA
15694943 ATA
1 ATA
15694946 AATTATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
ATATTATTTATGAATATAATATTA
Found at i:15694981 original size:18 final size:18
Alignment explanation
Indices: 15694954--15694994 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
15694944 TAAATTATAT
*
15694954 TAATAGTATATTATTTAG
1 TAATAATATATTATTTAG
*
15694972 TAATAATATATTATTTAT
1 TAATAATATATTATTTAG
15694990 TAATA
1 TAATA
15694995 TATTATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TAATAATATATTATTTAG
Found at i:15694993 original size:15 final size:16
Alignment explanation
Indices: 15694896--15695007 Score: 77
Period size: 16 Copynumber: 6.9 Consensus size: 16
15694886 TTATATTCTT
*
15694896 TATATTAT-TTATGAA
1 TATATTATATTATTAA
* **
15694911 TATATTATAATATTTT
1 TATATTATATTATTAA
* *
15694927 TATTAATATAATATTAA
1 TA-TATTATATTATTAA
* * *
15694944 TAAATTATATTAATAG
1 TATATTATATTATTAA
15694960 TATATTAT-TTAGTAATAA
1 TATATTATATTA-T--TAA
15694978 TATATTAT-TTATTAA
1 TATATTATATTATTAA
*
15694993 TATATTATAATATTA
1 TATATTATATTATTA
15695008 TTTATAAGTA
Statistics
Matches: 75, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
15 22 0.29
16 26 0.35
17 14 0.19
18 13 0.17
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TATATTATATTATTAA
Found at i:15695203 original size:15 final size:14
Alignment explanation
Indices: 15695176--15695205 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15695166 TTTTTATATG
15695176 CAAAAATCATTTTT
1 CAAAAATCATTTTT
*
15695190 CAAAAATTATTTTT
1 CAAAAATCATTTTT
15695204 CA
1 CA
15695206 TGAAACAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (14 bp):
CAAAAATCATTTTT
Found at i:15696494 original size:23 final size:23
Alignment explanation
Indices: 15696460--15696518 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
15696450 GAATAGTTCA
15696460 AACTAT-TCATTTTGAATAAACTT
1 AACTATCT-ATTTTGAATAAACTT
* * *
15696483 ATCTCTCTATTTTGAATAGACTT
1 AACTATCTATTTTGAATAAACTT
15696506 AACTATCTATTTT
1 AACTATCTATTTT
15696519 TATTTTTTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 29 0.97
24 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.47
Consensus pattern (23 bp):
AACTATCTATTTTGAATAAACTT
Found at i:15701960 original size:15 final size:15
Alignment explanation
Indices: 15701942--15701971 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15701932 AGACCTAAAT
*
15701942 CCTAAATTTCCAACA
1 CCTAAAATTCCAACA
15701957 CCTAAAATTCCAACA
1 CCTAAAATTCCAACA
15701972 ATTTAAACAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.23
Consensus pattern (15 bp):
CCTAAAATTCCAACA
Done.