Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008258.1 Hibiscus syriacus cultivar Beakdansim tig00110911_pilon, 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: 1617810
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:811593 original size:15 final size:14
Alignment explanation
Indices: 811568--811639 Score: 92
Period size: 14 Copynumber: 5.1 Consensus size: 14
811558 AAAATTCAAT
811568 AATTA-TAAAAATAA
1 AATTATTAAAAAT-A
811582 AATTATTAAAAATA
1 AATTATTAAAAATA
*
811596 AATAATTTAAAAATA
1 AATTA-TTAAAAATA
*
811611 AATTATTAAAATTA
1 AATTATTAAAAATA
*
811625 AATAATTAAAAATA
1 AATTATTAAAAATA
811639 A
1 A
811640 TCATATTTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
14 31 0.61
15 20 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTATTAAAAATA
Found at i:811646 original size:29 final size:29
Alignment explanation
Indices: 811558--811639 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 29
811548 ATAAATATAA
*
811558 AAAATTCAATAATTATAAAAATAAAATTATT
1 AAAATTAAATAATT-TAAAAAT-AAATTATT
*
811589 AAAAATAAATAATTTAAAAATAAATTATT
1 AAAATTAAATAATTTAAAAATAAATTATT
811618 AAAATTAAATAA-TTAAAAATAA
1 AAAATTAAATAATTTAAAAATAA
811640 TCATATTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
28 10 0.21
29 19 0.40
30 7 0.15
31 12 0.25
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (29 bp):
AAAATTAAATAATTTAAAAATAAATTATT
Found at i:812692 original size:18 final size:18
Alignment explanation
Indices: 812649--812700 Score: 95
Period size: 19 Copynumber: 2.8 Consensus size: 18
812639 TTACATAACT
812649 CACATGTTAAATTAAACC
1 CACATGTTAAATTAAACC
812667 CAACATGTTAAATTAAACC
1 C-ACATGTTAAATTAAACC
812686 CACATGTTAAATTAA
1 CACATGTTAAATTAA
812701 TGTAATGCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.29
Consensus pattern (18 bp):
CACATGTTAAATTAAACC
Found at i:813305 original size:3 final size:3
Alignment explanation
Indices: 813297--813358 Score: 97
Period size: 3 Copynumber: 20.3 Consensus size: 3
813287 TATAAAAATA
*
813297 AAT AAT AAT AAT AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAC
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
813343 AAT AAT AAT AAC AAT A
1 AAT AAT AAT AAT AAT A
813359 GCTTAAGTCG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:820496 original size:13 final size:13
Alignment explanation
Indices: 820478--820525 Score: 75
Period size: 13 Copynumber: 3.9 Consensus size: 13
820468 ACCCGACCAG
820478 ACCCGACCCGTTT
1 ACCCGACCCGTTT
820491 ACCCGACCCG---
1 ACCCGACCCGTTT
820501 ACCCGACCCGTTT
1 ACCCGACCCGTTT
820514 ACCCGACCCGTT
1 ACCCGACCCGTT
820526 CCGTTGATCC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 10 0.31
13 22 0.69
ACGTcount: A:0.17, C:0.50, G:0.17, T:0.17
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:820522 original size:23 final size:23
Alignment explanation
Indices: 820468--820523 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
820458 ATCGGTTCCG
*
820468 ACCCGACCAGACCCGACCCGTTT
1 ACCCGACCCGACCCGACCCGTTT
820491 ACCCGACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGACCCGTTT
820514 ACCCGACCCG
1 ACCCGACCCG
820524 TTCCGTTGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.20, C:0.52, G:0.18, T:0.11
Consensus pattern (23 bp):
ACCCGACCCGACCCGACCCGTTT
Found at i:820523 original size:5 final size:5
Alignment explanation
Indices: 820465--820510 Score: 56
Period size: 5 Copynumber: 8.6 Consensus size: 5
820455 TTGATCGGTT
*
820465 CCGAC CCGAC CAGAC CCGAC CCGTTTAC CCGAC CCGAC CCGAC CCG
1 CCGAC CCGAC CCGAC CCGAC CCG---AC CCGAC CCGAC CCGAC CCG
820511 TTTACCCGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 31 0.86
8 5 0.14
ACGTcount: A:0.20, C:0.54, G:0.20, T:0.07
Consensus pattern (5 bp):
CCGAC
Found at i:822901 original size:24 final size:24
Alignment explanation
Indices: 822802--822901 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
822792 ATATTTTATC
* *
822802 TGATTTCTGATATGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * *
822826 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTT
* * * *
822850 TGAT-TCCTAACCTGGATTCTGTTA
1 TGATAT-CTGATCTGAATTCTGTTT
*
822874 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
822898 TGAT
1 TGAT
822902 TTTTGATATC
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 56 0.97
25 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:824946 original size:18 final size:18
Alignment explanation
Indices: 824907--824950 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
824897 ATCGGTTCCA
*
824907 ACCCGACCCGACCCATTT
1 ACCCGACCCGACCCATTG
*
824925 ACCCGACCCGA-CTAGTTG
1 ACCCGACCCGACCCA-TTG
824943 ACCCGACC
1 ACCCGACC
824951 TGTTTACCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.23, C:0.48, G:0.16, T:0.14
Consensus pattern (18 bp):
ACCCGACCCGACCCATTG
Found at i:834315 original size:13 final size:13
Alignment explanation
Indices: 834296--834371 Score: 83
Period size: 13 Copynumber: 6.3 Consensus size: 13
834286 GTTCCAACTC
834296 GACCCGACCCGTT
1 GACCCGACCCGTT
*
834309 TACCCGACCC---
1 GACCCGACCCGTT
834319 GACCCGACCCGTT
1 GACCCGACCCGTT
*
834332 TACCCGA--C-TT
1 GACCCGACCCGTT
834342 GACCCGACCCGTT
1 GACCCGACCCGTT
*
834355 GATCCGACCCGTT
1 GACCCGACCCGTT
834368 GACC
1 GACC
834372 GTTGACCACA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
10 17 0.33
11 1 0.02
12 1 0.02
13 32 0.63
ACGTcount: A:0.17, C:0.46, G:0.20, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:834325 original size:23 final size:23
Alignment explanation
Indices: 834295--834365 Score: 106
Period size: 23 Copynumber: 3.1 Consensus size: 23
834285 GGTTCCAACT
834295 CGACCCGACCCGTTTACCCGACC
1 CGACCCGACCCGTTTACCCGACC
*
834318 CGACCCGACCCGTTTACCCGACT
1 CGACCCGACCCGTTTACCCGACC
* * *
834341 TGACCCGACCCGTTGATCCGACC
1 CGACCCGACCCGTTTACCCGACC
834364 CG
1 CG
834366 TTGACCGTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.17, C:0.48, G:0.20, T:0.15
Consensus pattern (23 bp):
CGACCCGACCCGTTTACCCGACC
Found at i:839054 original size:13 final size:13
Alignment explanation
Indices: 839038--839090 Score: 67
Period size: 13 Copynumber: 4.3 Consensus size: 13
839028 CCGTTTACCC
839038 GACCCGACCCGTT
1 GACCCGACCCGTT
839051 GACCCGA--C-TT
1 GACCCGACCCGTT
839061 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
839074 GATCCGGCCCGTT
1 GACCCGACCCGTT
839087 GACC
1 GACC
839091 GTTGACCACA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.26
11 1 0.03
12 1 0.03
13 23 0.68
ACGTcount: A:0.15, C:0.43, G:0.25, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:839066 original size:18 final size:18
Alignment explanation
Indices: 839016--839058 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
839006 ATCGGTTCCA
* *
839016 ACCCAACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
839034 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
839052 ACCCGAC
1 ACCCGAC
839059 TTGACCCGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.51, G:0.16, T:0.12
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:839084 original size:18 final size:18
Alignment explanation
Indices: 839022--839084 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 18
839012 TCCAACCCAA
* *
839022 CCCGACCCGTTTACCCGA
1 CCCGACCCGTTGACCCGG
839040 CCCGACCCGTTGACCCGACTTG
1 CCCGACCCGTTGACCCG----G
*
839062 ACCCGACCCGTTGATCCGG
1 -CCCGACCCGTTGACCCGG
839081 CCCG
1 CCCG
839085 TTGACCGTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
18 20 0.54
19 1 0.03
23 16 0.43
ACGTcount: A:0.14, C:0.48, G:0.22, T:0.16
Consensus pattern (18 bp):
CCCGACCCGTTGACCCGG
Found at i:841646 original size:24 final size:24
Alignment explanation
Indices: 841614--841672 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
841604 ATTTGAAATC
*
841614 TGTTCTGATTTCTAACCTGGATTA
1 TGTTCTGATTTCTAACCTGAATTA
* * *
841638 TGTTCTGATATCTGATCTGAATTA
1 TGTTCTGATTTCTAACCTGAATTA
*
841662 TGTTTTGATTT
1 TGTTCTGATTT
841673 TTGATATCTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (24 bp):
TGTTCTGATTTCTAACCTGAATTA
Found at i:846783 original size:20 final size:21
Alignment explanation
Indices: 846747--846785 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
846737 ATGATGGTAA
846747 GGAAGAAGAAAAGAAAGAAAT
1 GGAAGAAGAAAAGAAAGAAAT
846768 GGAA-AAGAATAA-AAAGAA
1 GGAAGAAGAA-AAGAAAGAA
846786 TGGTGTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (21 bp):
GGAAGAAGAAAAGAAAGAAAT
Found at i:858066 original size:18 final size:19
Alignment explanation
Indices: 858045--858088 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
858035 GTTGTTTTTA
*
858045 AAATAAAAGATAAA-AATT
1 AAATAAAAGAAAAATAATT
858063 AAATAAAAGAAAAATAATT
1 AAATAAAAGAAAAATAATT
858082 AAATAAA
1 AAATAAA
858089 CAAATTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (19 bp):
AAATAAAAGAAAAATAATT
Found at i:858777 original size:70 final size:72
Alignment explanation
Indices: 858678--858865 Score: 206
Period size: 75 Copynumber: 2.6 Consensus size: 72
858668 TAAAACATCT
* * *
858678 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAAAATAATAT-T-T-AAA
1 TAAAACCTAACTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAAAA-AATATATATAAAA
858739 ATAATATTC-
64 ATAATA-TCA
* *
858748 TAAACCCTAACTAAACTACTAAAACCTATTTAAACTAAAATACCTAAAAAAATATAAAATATAAA
1 TAAAACCTAACTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAAAAATAT---ATATAAA
858813 AATAATATCA
63 AATAATATCA
* * * *
858823 TAAAACTTAATTAAAATACCAAGACCTATTTAAACTAAAATAC
1 TAAAACCTAACTAAAATACTAAAACCTATTTAAACTAAAATAC
858866 AAAGATAAAA
Statistics
Matches: 100, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
69 10 0.10
70 40 0.40
73 1 0.01
74 3 0.03
75 46 0.46
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.29
Consensus pattern (72 bp):
TAAAACCTAACTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAAAAATATATATAAAAAT
AATATCA
Found at i:858890 original size:75 final size:72
Alignment explanation
Indices: 858699--858896 Score: 199
Period size: 75 Copynumber: 2.7 Consensus size: 72
858689 TAAAACACTT
* *
858699 AAAA-CTATTTAAACTAAAATAC--CTAAAA-ATAATATTTAAAATAATATTCTAAACCCTAACT
1 AAAACCTATTTAAACTAAAATACAAATAAAATATAATATTTAAAATAATA-TCTAAAACCTAACT
* *
858760 AAACTACT
65 AAAATACC
* * *
858768 AAAACCTATTTAAACTAAAATACCTAAA-AAAATATAAAATATAAAAATAATATCATAAAACTTA
1 AAAACCTATTTAAACTAAAATA-C-AAATAAAATATAATAT-TTAAAATAATATC-TAAAACCTA
*
858832 ATTAAAATACC
62 ACTAAAATACC
* * *
858843 AAGACCTATTTAAACTAAAATACAAAGATAAAATATAATGTTTAAAATATTATC
1 AAAACCTATTTAAACTAAAATAC-AA-ATAAAATATAATATTTAAAATAATATC
858897 CTAGACTTGA
Statistics
Matches: 105, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
69 4 0.04
70 17 0.16
71 1 0.01
73 4 0.04
74 11 0.10
75 58 0.55
76 10 0.10
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.29
Consensus pattern (72 bp):
AAAACCTATTTAAACTAAAATACAAATAAAATATAATATTTAAAATAATATCTAAAACCTAACTA
AAATACC
Found at i:859557 original size:11 final size:10
Alignment explanation
Indices: 859541--859576 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
859531 AGTTCGTTAA
859541 AAAATAAAATC
1 AAAATAAAA-C
859552 AAAATAAAAC
1 AAAATAAAAC
859562 AAAATAAAAAC
1 AAAAT-AAAAC
859573 AAAA
1 AAAA
859577 ACAAAAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAATAAAAC
Found at i:864902 original size:16 final size:15
Alignment explanation
Indices: 864881--864911 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
864871 AACAATAAAA
864881 TAATAAATAGTAATAG
1 TAATAAATA-TAATAG
864897 TAATAAATATAATAG
1 TAATAAATATAATAG
864912 GGGATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
TAATAAATATAATAG
Found at i:864956 original size:18 final size:19
Alignment explanation
Indices: 864935--864978 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
864925 GTTGTTTTTA
*
864935 AAATAAAAG-ATAAGAATT
1 AAATAAAAGAAAAAGAATT
*
864953 AAATAAAAGAAAAATAATT
1 AAATAAAAGAAAAAGAATT
864972 AAATAAA
1 AAATAAA
864979 CAAATTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (19 bp):
AAATAAAAGAAAAAGAATT
Found at i:865692 original size:70 final size:70
Alignment explanation
Indices: 865557--865693 Score: 165
Period size: 70 Copynumber: 2.0 Consensus size: 70
865547 TAAAACATCT
* *
865557 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATAACTAAAAATAATATTTAAAATAA
1 TAAATCCTAACTAAAACACTTAAAACTATTTAAACTAAAATAACTAAAAATAATATTAAAAATAA
865622 AATTC
66 AATTC
** *
865627 TAAATCCTAACTAAAGTAC-TAAAATCT-TTTGAAACTAAAATACCTAAAACA-AATA-TAAAAT
1 TAAATCCTAACTAAAACACTTAAAA-CTATTT-AAACTAAAATAACTAAAA-ATAATATTAAAA-
865688 ATAAAA
62 ATAAAA
865694 ATAATATCCT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
69 12 0.21
70 45 0.78
71 1 0.02
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.29
Consensus pattern (70 bp):
TAAATCCTAACTAAAACACTTAAAACTATTTAAACTAAAATAACTAAAAATAATATTAAAAATAA
AATTC
Found at i:865769 original size:76 final size:73
Alignment explanation
Indices: 865557--865781 Score: 201
Period size: 76 Copynumber: 3.1 Consensus size: 73
865547 TAAAACATCT
* * *
865557 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAAT---AACTAAAA-ATAATATTTAAA
1 TAAAACCTAATTAAAATAC-TAAAACTATTTAAACTAAAATACAAAATAAAATATAATATTTAAA
* *
865618 ATAAAATTC
65 ATAATATCC
* * * * *
865627 TAAATCCTAACTAAAGTACTAAAATCT-TTTGAAACTAAAATACCTAAAA-CAAATATAAAATAT
1 TAAAACCTAATTAAAATACTAAAA-CTATTT-AAACTAAAATA-C-AAAATAAAATATAATAT-T
*
865690 AAAAATAATATCC
61 TAAAATAATATCC
* * *
865703 TAAAACTTAATTAAAATACCAAAACCTATTTAAACTAAAATACAAAGATAAAATATAATGTTTAA
1 TAAAACCTAATTAAAATACTAAAA-CTATTTAAACTAAAATACAAA-ATAAAATATAATATTTAA
*
865768 AATATTATCC
64 AATAATATCC
865778 TAAA
1 TAAA
865782 CTTGAGTTTA
Statistics
Matches: 123, Mismatches: 20, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
69 8 0.07
70 28 0.23
74 6 0.05
75 26 0.21
76 52 0.42
77 3 0.02
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (73 bp):
TAAAACCTAATTAAAATACTAAAACTATTTAAACTAAAATACAAAATAAAATATAATATTTAAAA
TAATATCC
Found at i:866102 original size:13 final size:13
Alignment explanation
Indices: 866084--866109 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
866074 AATCCATCCT
866084 TAAAACATAAAAA
1 TAAAACATAAAAA
866097 TAAAACATAAAAA
1 TAAAACATAAAAA
866110 CCTAACATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAACATAAAAA
Found at i:867014 original size:2 final size:2
Alignment explanation
Indices: 867009--867044 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
866999 TCTCTACTTT
867009 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
867045 CATAGTAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:875360 original size:60 final size:59
Alignment explanation
Indices: 875287--875422 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
875277 AAAAGACGAG
* ** *
875287 TTTTGTTACTTTTAATAGTC-GGAGAACTCAACAAA-ACATCGTACTATAATT-GGATGACTA
1 TTTTGTAACTTTTAATAGTCAAAAG-ACTCAACAAACA-AT-GTACTATAATTAAGA-GACTA
*
875347 TTTTGTAACTTTTAATAGTCAAAAGACTCAACAAACAATGTCCTATAATTAAGAGACTA
1 TTTTGTAACTTTTAATAGTCAAAAGACTCAACAAACAATGTACTATAATTAAGAGACTA
*
875406 TTTTATAACTTTTAATA
1 TTTTGTAACTTTTAATA
875423 ATTAAAGCTT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 31 0.46
60 33 0.49
61 3 0.04
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (59 bp):
TTTTGTAACTTTTAATAGTCAAAAGACTCAACAAACAATGTACTATAATTAAGAGACTA
Found at i:875415 original size:59 final size:60
Alignment explanation
Indices: 875294--875422 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 60
875284 GAGTTTTGTT
** * *
875294 ACTTTTAATAGTCGGAGAACTCAACAAAACATCGTACTATAATTGGATGACTATTTTGTA
1 ACTTTTAATAGTCAAAGAACTCAACAAAACATCGTACTATAATTAGATGACTATTTTATA
*
875354 ACTTTTAATAGTCAAA-AGACTCAAC-AAACAAT-GTCCTATAATTAAGA-GACTATTTTATA
1 ACTTTTAATAGTCAAAGA-ACTCAACAAAAC-ATCGTACTATAATT-AGATGACTATTTTATA
875413 ACTTTTAATA
1 ACTTTTAATA
875423 ATTAAAGCTT
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
59 36 0.59
60 25 0.41
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (60 bp):
ACTTTTAATAGTCAAAGAACTCAACAAAACATCGTACTATAATTAGATGACTATTTTATA
Found at i:877493 original size:5 final size:5
Alignment explanation
Indices: 877483--877517 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
877473 ATGTAGGTAT
877483 TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA
877518 AATACATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:877540 original size:6 final size:6
Alignment explanation
Indices: 877529--877583 Score: 67
Period size: 6 Copynumber: 9.0 Consensus size: 6
877519 ATACATATGC
* *
877529 ATGTAT ATGTAT ATATAT AT-TAT GAATATAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT --ATGTAT ATGTAT ATGTAT ATGTAT
877578 ATGTAT
1 ATGTAT
877584 GTATGTGTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
5 3 0.07
6 36 0.82
7 2 0.05
8 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (6 bp):
ATGTAT
Found at i:877545 original size:2 final size:2
Alignment explanation
Indices: 877484--877608 Score: 52
Period size: 2 Copynumber: 66.5 Consensus size: 2
877474 TGTAGGTATT
*
877484 TA TA T- TA TA T- TA TA T- TA TA T- TA TA T- TA TA T- TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
877520 TA CA TA TG CA TG TA TA TG TA TA TA TA TA T- TA TGA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
* * * * * * * *
877561 TG TA TA TG TA TA TG TA TA TG TA TG TA TG TG TG TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
877602 TA TA TA T
1 TA TA TA T
877609 GGGTGCACAC
Statistics
Matches: 89, Mismatches: 24, Indels: 20
0.67 0.18 0.15
Matches are distributed among these distances:
1 9 0.10
2 79 0.89
3 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (2 bp):
TA
Found at i:877545 original size:10 final size:10
Alignment explanation
Indices: 877463--877608 Score: 61
Period size: 10 Copynumber: 14.3 Consensus size: 10
877453 TAAATTATGT
877463 TATATGTAGTA
1 TATATGTA-TA
* * *
877474 TGTAGGTATT
1 TATATGTATA
877484 TATAT-TATA
1 TATATGTATA
877493 TTATAT-TATA
1 -TATATGTATA
877503 TTATAT-TATA
1 -TATATGTATA
** *
877513 TTATAAATACA
1 -TATATGTATA
877524 TATGCATGTATA
1 TAT--ATGTATA
* *
877536 TGTATATATA
1 TATATGTATA
*
877546 TATTATGAATA
1 TA-TATGTATA
877557 TATATGTATA
1 TATATGTATA
877567 TGTATATGTATA
1 --TATATGTATA
*
877579 TGTATG--TA
1 TATATGTATA
* *
877587 TGTGTGTATA
1 TATATGTATA
877597 TATAT-TATA
1 TATATGTATA
877606 TAT
1 TAT
877609 GGGTGCACAC
Statistics
Matches: 105, Mismatches: 21, Indels: 20
0.72 0.14 0.14
Matches are distributed among these distances:
8 7 0.07
9 10 0.10
10 55 0.52
11 17 0.16
12 16 0.15
ACGTcount: A:0.37, C:0.01, G:0.12, T:0.50
Consensus pattern (10 bp):
TATATGTATA
Found at i:877564 original size:31 final size:30
Alignment explanation
Indices: 877443--877608 Score: 109
Period size: 31 Copynumber: 5.5 Consensus size: 30
877433 TAATTAATTA
*
877443 ATAT-TATATATAAATTATG-T-TATATGT
1 ATATGTATATATATATTATGATATATATGT
*
877470 AGTATGTAGGTATTTATATTAT-AT-TATAT-T
1 A-TATGTA--TATATATATTATGATATATATGT
*
877500 ATAT-TATAT-TATATTATAAATACATATGCATGT
1 ATATGTATATATATATTAT-GAT--ATAT--ATGT
877533 ATATGTATATATATATTATGAATATATATGT
1 ATATGTATATATATATTATG-ATATATATGT
* * *
877564 ATATGTATATGTATATGTATG-TATGTGTGT
1 ATATGTATATATATAT-TATGATATATATGT
*
877594 ATATATAT-TATATAT
1 ATATGTATATATATAT
877609 GGGTGCACAC
Statistics
Matches: 114, Mismatches: 8, Indels: 32
0.74 0.05 0.21
Matches are distributed among these distances:
25 8 0.07
26 3 0.03
27 3 0.03
28 5 0.04
29 11 0.10
30 19 0.17
31 35 0.31
32 6 0.05
33 9 0.08
34 5 0.04
35 10 0.09
ACGTcount: A:0.38, C:0.01, G:0.11, T:0.50
Consensus pattern (30 bp):
ATATGTATATATATATTATGATATATATGT
Found at i:878336 original size:18 final size:16
Alignment explanation
Indices: 878304--878336 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
878294 TGTTGTAAGG
878304 TAATTTTTTTAATATA
1 TAATTTTTTTAATATA
878320 TAATATTTTTT-ATATA
1 TAAT-TTTTTTAATATA
878336 T
1 T
878337 GATTATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TAATTTTTTTAATATA
Found at i:884311 original size:28 final size:26
Alignment explanation
Indices: 884280--884354 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 26
884270 CTAAAATTAT
* *
884280 TAATAATTACAAAAATTAATATATAAAC
1 TAATAATTAAAAAAATAAAT-TAT-AAC
*
884308 TAATAA-TAAAAAAATAAATTATTAC
1 TAATAATTAAAAAAATAAATTATAAC
884333 TAATAATTTAAATTAAAATAAA
1 TAATAA-TTAAA--AAAATAAA
884355 ATTTAAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
25 8 0.20
26 3 0.08
27 15 0.38
28 6 0.15
29 8 0.20
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (26 bp):
TAATAATTAAAAAAATAAATTATAAC
Found at i:891110 original size:129 final size:128
Alignment explanation
Indices: 890823--891172 Score: 337
Period size: 129 Copynumber: 2.7 Consensus size: 128
890813 TAATGTTTAA
* * * *
890823 TTTTCAGATTTGATTTTCCTGAAGAGTACTAAAGCAAGTCAACTC-TGAATCAAATTTTTC-CAA
1 TTTTCAGATTTGATCTTCCTGAAGAGCAC-AAAGCAAATCAAC-CATGATTC-AATTTTTCTC-A
* * * ** * * * * *
890886 AGAGTGGTGGAGTTAATCAAAATTTTAAGATATAGTCTCCCCTAAAGAGTAGCAGAGTATATCCT
62 AGAGTAGTGAAATTAATCAAAA-TTTCCGATATAATATCCCCTAAAGAGTAGCAGAATAGATCCC
890951 TAT
126 TAT
* *
890954 ATTTCAGATTTGATCTTCCTGAAGAGCAGCAAAGCAAATCAACCATGATTCAATTTTTCTTAATG
1 TTTTCAGATTTGATCTTCCTGAAGAGCA-CAAAGCAAATCAACCATGATTCAATTTTTCTCAA-G
* * *
891019 AGTAGTGAAATTAATCAAAATTTCCGA-ATAATATCCCTTAAAGATTAGCGGAATAGATCCCTAT
64 AGTAGTGAAATTAATCAAAATTTCCGATATAATATCCCCTAAAGAGTAGCAGAATAGATCCCTAT
* * * * * * *
891083 TTTTAAGATTTGATCTTCCTGAAGAGCACCGACGCAAATTAACCATGATTAAATTTTTTCTGAAA
1 TTTTCAGATTTGATCTTCCTGAAGAGCA-CAAAGCAAATCAACCATGATTCAA-TTTTTCTCAAG
* * *
891148 AGCAGTGAAATGAATTAAAATTTCC
64 AGTAGTGAAATTAATCAAAATTTCC
891173 AAATCTGATC
Statistics
Matches: 183, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
129 97 0.53
130 25 0.14
131 60 0.33
132 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (128 bp):
TTTTCAGATTTGATCTTCCTGAAGAGCACAAAGCAAATCAACCATGATTCAATTTTTCTCAAGAG
TAGTGAAATTAATCAAAATTTCCGATATAATATCCCCTAAAGAGTAGCAGAATAGATCCCTAT
Found at i:891664 original size:2 final size:2
Alignment explanation
Indices: 891659--891684 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
891649 TAAATATTTG
891659 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
891685 CAGTTGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:893142 original size:69 final size:69
Alignment explanation
Indices: 893060--893199 Score: 280
Period size: 69 Copynumber: 2.0 Consensus size: 69
893050 ATATAAGTTC
893060 ATGGATTAATTTTTTTTACCCTTTCATTAAATTTTTAAATTTGTAAAAAAAATTATATAAATATT
1 ATGGATTAATTTTTTTTACCCTTTCATTAAATTTTTAAATTTGTAAAAAAAATTATATAAATATT
893125 ATGA
66 ATGA
893129 ATGGATTAATTTTTTTTACCCTTTCATTAAATTTTTAAATTTGTAAAAAAAATTATATAAATATT
1 ATGGATTAATTTTTTTTACCCTTTCATTAAATTTTTAAATTTGTAAAAAAAATTATATAAATATT
893194 ATGA
66 ATGA
893198 AT
1 AT
893200 TTAATTTTTT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 71 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.48
Consensus pattern (69 bp):
ATGGATTAATTTTTTTTACCCTTTCATTAAATTTTTAAATTTGTAAAAAAAATTATATAAATATT
ATGA
Found at i:893238 original size:37 final size:37
Alignment explanation
Indices: 893162--893238 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
893152 TCATTAAATT
*
893162 TTTAAATTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAAATTTGTAAAAAAAATTATATAAATATTATCAA
* * * *
893199 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAAATTTGTAAAAAAAATTATATAAATATTAT-CAA
893236 TTT
1 TTT
893239 GTAATATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 13 0.38
37 21 0.62
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTAAATTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:893858 original size:113 final size:112
Alignment explanation
Indices: 893647--893902 Score: 404
Period size: 113 Copynumber: 2.3 Consensus size: 112
893637 TTTTTGGTTT
* *
893647 GTGTCGATACTTTATAAAAATATATAGATCCATAACAATATAACAAGTAAAAAAATGACAAAATC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
* * * *
893712 GATCTATAAATTACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GATCTATAAATGACAAAACAGGTAAAACACTACCGGATATATTAAAA
* * * *
893759 GTGTTGGTACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAAGT-AAAAAAATGACAAAAC
*
893824 CGGTCTATAAATGACAAAACAGGTAAAACACTACCGGATATATTAAAA
65 CGATCTATAAATGACAAAACAGGTAAAACACTACCGGATATATTAAAA
893872 GTGTCGATACTTTATAAAAATATATCGATCC
1 GTGTCGATACTTTATAAAAATATATCGATCC
893903 TTTATAAAAA
Statistics
Matches: 129, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
112 43 0.33
113 86 0.67
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
GATCTATAAATGACAAAACAGGTAAAACACTACCGGATATATTAAAA
Found at i:893922 original size:21 final size:21
Alignment explanation
Indices: 893875--893922 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
893865 ATTAAAAGTG
*
893875 TCGATACTTTATAAAAATATA
1 TCGATCCTTTATAAAAATATA
*
893896 TCGATCCTTTATAAAAATGTA
1 TCGATCCTTTATAAAAATATA
*
893917 TTGATC
1 TCGATC
893923 TATAACAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (21 bp):
TCGATCCTTTATAAAAATATA
Found at i:894007 original size:132 final size:133
Alignment explanation
Indices: 893768--894034 Score: 437
Period size: 132 Copynumber: 2.0 Consensus size: 133
893758 AGTGTTGGTA
893768 CTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAAATGACAAAACCGGTCTATA
1 CTTTATAAAAATGTATCGATCCATAACAATATAACAGGT-AAAAAAATGACAAAACCGGTCTATA
**
893833 AATGACAAAACAGGTAAAACACTACCGGATATATTAAAAGTGTCGATACTTTATAAAAATATATC
65 AATGACAAAACAGGTAAAACACTACCACATATATTAAAAGTGTCGATACTTTATAAAAATATATC
893898 GATC
130 GATC
* *
893902 CTTTATAAAAATGTATTGATCTATAACAATATAACAGGT-AAAAAATGACAAAACCGGTCTATAA
1 CTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAA
* * * * *
893966 ATGACAAAACAGGTAAAGCGCTACCACATATATTGAAAGTGTTGATACTTTATAAAAATGTATCG
66 ATGACAAAACAGGTAAAACACTACCACATATATTAAAAGTGTCGATACTTTATAAAAATATATCG
894031 ATC
131 ATC
894034 C
1 C
894035 ATAACAATAT
Statistics
Matches: 124, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
132 87 0.70
134 37 0.30
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.27
Consensus pattern (133 bp):
CTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAA
ATGACAAAACAGGTAAAACACTACCACATATATTAAAAGTGTCGATACTTTATAAAAATATATCG
ATC
Found at i:894050 original size:111 final size:112
Alignment explanation
Indices: 893896--894130 Score: 391
Period size: 112 Copynumber: 2.1 Consensus size: 112
893886 TAAAAATATA
* * *
893896 TCGATCCTTTATAAAAATGTATTGATCTATAACAATATAACAGGTAAA-AAATGACAAAACCGGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAACAAATGACAAAACCGGT
893960 CTATAAATGACAAAACAGGTAAAGCGCTACCACATATATTGAAAGTG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCACATATATTGAAAGTG
*
894007 TTGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAACAAATGACAAAACCGGT
1 TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAACAAATGACAAAACCGGT
* * * *
894072 CTATAAATGACAAAATAGGTAAAGCGCTACCAGATATGTTGATAGTG
66 CTATAAATGACAAAACAGGTAAAGCGCTACCACATATATTGAAAGTG
894119 TCGATACTTTAT
1 TCGATACTTTAT
894131 TATAAGTATC
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
111 44 0.39
112 70 0.61
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (112 bp):
TCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAACAAATGACAAAACCGGT
CTATAAATGACAAAACAGGTAAAGCGCTACCACATATATTGAAAGTG
Found at i:894308 original size:182 final size:182
Alignment explanation
Indices: 894001--894638 Score: 1062
Period size: 182 Copynumber: 3.5 Consensus size: 182
893991 ACATATATTG
*
894001 AAAGTGTTGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAACAA-ATGACAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAA-AATATGACAA
** ** * *
894065 AACCGGTCTATAAATGACAAAATAGGTAAAGCGCTACCAGATATGTTGATAGTGTCGATACTTTA
65 AACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTA
* *
894130 TTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAAT
130 TTATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
**
894183 AAAGTGTCGATACTTTATAAAAATGTATTAATCCATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
*
894248 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCGGATATGTTGAAAGTGTCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTAT
* *
894313 TATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCTCCAAT
131 TATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
* *
894365 AAAGTGTCGATACTTTATAAAAATGTATCGATCCAAAATAATATAACAGGTAAAAATATGACAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* *
894430 ACCGGTCTCGAAATGACAAAACCGATAAAGAGCTACCAGATATGTTGAGAGTGTCGATACTTTAT
66 ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTAT
894495 TATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
131 TATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
*
894547 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAA
1 AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
* * *
894612 ATCGGTCTCGAAATGATAAAACTGGTA
66 ACCGGTCTCGAAATGACAAAACCGGTA
894639 GTAAAAAAGT
Statistics
Matches: 425, Mismatches: 30, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
181 2 0.00
182 423 1.00
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (182 bp):
AAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAA
ACCGGTCTCGAAATGACAAAACCGGTAAAGAGCTACCAGATATGTTGAAAGTGTCGATACTTTAT
TATAAGTATCGACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCTAAT
Found at i:895307 original size:23 final size:23
Alignment explanation
Indices: 895278--895325 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
895268 AAATATGTCA
*
895278 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAATACATT
*
895301 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATACATT
895324 AT
1 AT
895326 TGTACTTAAT
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:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACATT
Found at i:897712 original size:5 final size:5
Alignment explanation
Indices: 897704--897851 Score: 60
Period size: 5 Copynumber: 30.2 Consensus size: 5
897694 AAAGCAAAGC
* * *
897704 AATAA AATAA ACA-AA CA-AA AATAA AGTAA AAT-A AA-AA AATAT AAT-A
1 AATAA AATAA A-ATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
* * * * * * *
897750 AATAA AAT-A AACAA AACAA AACAA AACAA AATAA AATAGA GATTA AACAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATA-A AATAA AATAA
* * ** *
897800 GAA-AA AATAA GATTA AATCT AATAA AA-ACA AGAAAA AATAA AATAA
1 -AATAA AATAA AATAA AATAA AATAA AATA-A A-ATAA AATAA AATAA
897846 AATAA A
1 AATAA A
897852 TAGAAGATAA
Statistics
Matches: 110, Mismatches: 21, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
4 19 0.17
5 81 0.74
6 9 0.08
7 1 0.01
ACGTcount: A:0.74, C:0.06, G:0.04, T:0.16
Consensus pattern (5 bp):
AATAA
Found at i:897812 original size:20 final size:21
Alignment explanation
Indices: 897773--897816 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
897763 AAACAAAACA
897773 AAACAAAATAAAATAGAGATT
1 AAACAAAATAAAATAGAGATT
897794 AAACAAGAA-AAAATA-AGATT
1 AAACAA-AATAAAATAGAGATT
897814 AAA
1 AAA
897817 TCTAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.36
21 12 0.55
22 2 0.09
ACGTcount: A:0.70, C:0.05, G:0.09, T:0.16
Consensus pattern (21 bp):
AAACAAAATAAAATAGAGATT
Found at i:897876 original size:2 final size:2
Alignment explanation
Indices: 897871--897921 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
897861 AAAAACTACC
897871 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
897913 AT AT AT AT A
1 AT AT AT AT A
897922 AATAAAATTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:899233 original size:2 final size:2
Alignment explanation
Indices: 899226--899272 Score: 53
Period size: 2 Copynumber: 24.5 Consensus size: 2
899216 TATAATGATA
** *
899226 AT AT AT AT AT AT AT AT AT AT AT AT AT GC AT A- AT AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
899267 -T AT AT A
1 AT AT AT A
899273 ATTATAGCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
1 2 0.05
2 35 0.95
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:901057 original size:21 final size:21
Alignment explanation
Indices: 901031--901098 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
901021 AACCCACCTT
901031 ATTTTTTTCTTTTCTTTTTCA
1 ATTTTTTTCTTTTCTTTTTCA
901052 A-TTTTTTCTTTTTCCTTTTTC-
1 ATTTTTTTC-TTTT-CTTTTTCA
* *
901073 CTTTTTCTT-TTGTTTTTTTTCA
1 ATTTTT-TTCTT-TTCTTTTTCA
901095 ATTT
1 ATTT
901099 AGGGCGCCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
20 7 0.18
21 13 0.34
22 16 0.42
23 2 0.05
ACGTcount: A:0.07, C:0.15, G:0.01, T:0.76
Consensus pattern (21 bp):
ATTTTTTTCTTTTCTTTTTCA
Found at i:901058 original size:20 final size:18
Alignment explanation
Indices: 901033--901089 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 18
901023 CCCACCTTAT
901033 TTTTTTCTTTTCTTTTTC
1 TTTTTTCTTTTCTTTTTC
901051 AATTTTTTCTTTTTCCTTTTTC
1 --TTTTTTC-TTTT-CTTTTTC
* *
901073 CTTTTTCTTTTGTTTTT
1 TTTTTTCTTTTCTTTTT
901090 TTTCAATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 5 0.15
19 4 0.12
20 13 0.39
21 4 0.12
22 7 0.21
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTTTTCTTTTCTTTTTC
Found at i:909773 original size:13 final size:12
Alignment explanation
Indices: 909750--909783 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
909740 ATTTTGGCTT
909750 TTTTGTTTTTTTA
1 TTTT-TTTTTTTA
909763 TTTATTTTTTTTA
1 TTT-TTTTTTTTA
909776 TTTTTTTT
1 TTTTTTTT
909784 AAAATAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 14 0.70
14 1 0.05
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTTTA
Found at i:912587 original size:18 final size:18
Alignment explanation
Indices: 912553--912615 Score: 81
Period size: 18 Copynumber: 3.5 Consensus size: 18
912543 GCTTAGAATT
* *
912553 TGTCCTGAAGGACCACTA
1 TGTCCCGAAGGATCACTA
*
912571 TGTCCCGAGGGATCACTA
1 TGTCCCGAAGGATCACTA
* *
912589 TGTTCCGAAGGATCTCTA
1 TGTCCCGAAGGATCACTA
912607 TGTCCCGAA
1 TGTCCCGAA
912616 TGACCACTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (18 bp):
TGTCCCGAAGGATCACTA
Found at i:916687 original size:18 final size:18
Alignment explanation
Indices: 916656--916690 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
916646 GCGCAAAATT
* *
916656 TGTCCTGAATGACCACTA
1 TGTCCCGAAGGACCACTA
916674 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
916691 TATCACATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:923965 original size:33 final size:33
Alignment explanation
Indices: 923901--923966 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
923891 AAAGCAAAGC
* **
923901 AATAAAATAAACAAACTAAAATAAAGTAAAATA
1 AATAAAATAAACAAACTAAAACAAAACAAAATA
*
923934 AATAAAATCAACAAAAC-AAAACAAAACAAAATA
1 AATAAAATAAAC-AAACTAAAACAAAACAAAATA
923967 GAGATGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.74, C:0.11, G:0.02, T:0.14
Consensus pattern (33 bp):
AATAAAATAAACAAACTAAAACAAAACAAAATA
Found at i:927822 original size:5 final size:5
Alignment explanation
Indices: 927812--927837 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
927802 TTTAAAAAAA
927812 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
927838 ACCTGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:930333 original size:104 final size:105
Alignment explanation
Indices: 930152--930360 Score: 375
Period size: 104 Copynumber: 2.0 Consensus size: 105
930142 TTAGTGAAAG
* * *
930152 ATCATGATATTAAGAGGGTCTGGGGTAGTTACTTCTTTGGCTTATTTAATGATGGTTCCTCTCCC
1 ATCATGATATTAAGAGGGTCTGAGGTAGTTACTTCTTTGGCTTATTTAATGACGGTGCCTCTCCC
930217 TATAGTGATAGTATCGTTGATGGGTCAGCCGACCATCATA
66 TATAGTGATAGTATCGTTGATGGGTCAGCCGACCATCATA
930257 ATCATGATATTAAGAGGGTCT-AGGTAGTTACTTCTTTGGCTTATTTAATGACGGTGCCTCTCCC
1 ATCATGATATTAAGAGGGTCTGAGGTAGTTACTTCTTTGGCTTATTTAATGACGGTGCCTCTCCC
*
930321 TATAGTGATAGTATCGTTGATGGGTCAGCTGACCATCATA
66 TATAGTGATAGTATCGTTGATGGGTCAGCCGACCATCATA
930361 CTACGGCCAA
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
104 79 0.79
105 21 0.21
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (105 bp):
ATCATGATATTAAGAGGGTCTGAGGTAGTTACTTCTTTGGCTTATTTAATGACGGTGCCTCTCCC
TATAGTGATAGTATCGTTGATGGGTCAGCCGACCATCATA
Found at i:936246 original size:19 final size:19
Alignment explanation
Indices: 936205--936247 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
936195 TAAAAGAAAT
* * *
936205 TGATACCTTAGGAAGGTAT
1 TGATACCTAAGGAAGATAC
936224 TGATACCTAAGGAAGATAC
1 TGATACCTAAGGAAGATAC
936243 TGATA
1 TGATA
936248 TCTCATAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (19 bp):
TGATACCTAAGGAAGATAC
Found at i:940272 original size:21 final size:20
Alignment explanation
Indices: 940216--940276 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
940206 GTTGTGGCCG
940216 TTTCTAGCTGTTGGGGATGA
1 TTTCTAGCTGTTGGGGATGA
*
940236 TTTCTAACTGTTGGGGATGA
1 TTTCTAGCTGTTGGGGATGA
*
940256 TTTCTAGCCGTTTGGGGATGA
1 TTTCTAGCTG-TTGGGGATGA
940277 AATATCTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
20 27 0.73
21 10 0.27
ACGTcount: A:0.16, C:0.11, G:0.33, T:0.39
Consensus pattern (20 bp):
TTTCTAGCTGTTGGGGATGA
Found at i:940666 original size:787 final size:766
Alignment explanation
Indices: 938591--940891 Score: 3813
Period size: 787 Copynumber: 3.0 Consensus size: 766
938581 ACAAGAGAGA
* *
938591 TAAAATAAGATTGGAAAAACTCTTCTCTTGCGTTTGAATGCTTGGATAAGTGTTCTAACTCTTCT
1 TAAAATAAGATTGGAAAAACGCTTCTCTTGTGTTTGAATGCTTGGATAAGTGTTCTAACTCTTCT
*
938656 TCAAGTGTCATCAACTTGTATTTATATGTTGGAATGAAGTTGT-G--G----T---C--------
66 TCAAGTGTCCTCAACTTGTATTTATATGTTGGAATGAAGTTGTGGCCGTTTCTAGCCGTTGGGGA
* * *
938703 -G-TTTCTAGCCG-TTGGGGATGATATCTCTATAAAATAAAACTACCCAGTACAGAGGGTATCAA
131 TGATTTCTAGCCGTTTGGGGATGAAATATCTATAAAATAAAACTGCCCAGTACAGAGGGTATCAA
* *
938765 TACTCCTAAAGAGAGTATCGGTACTACCTTTGTTATTTTTAAATCAACTAGCGATTACTAGTCGT
196 TACTCCTAAAGAGAGTATCGGTACTACCTTTGTTATTTTTAAATCAACTAGCCATTACTAGTCAT
938830 TGGGGCTTGATGGTATCGATACTATGCCTATGGTACGATACTACTATGTAAAGTAGTATCGGTAC
261 TGGGGCTTGATGGTATCGATACTATGCCTATGGTACGATACTACTATGTAAAGTAGTATCGGTAC
* * * *
938895 CCCTTTGGGTATCGGTACCATTTTTTCATTCTGGAATTTGAGTAATGCTAGTAGTATCAATACTA
326 CCCTTTGGGTATCGATACCATTTTTGCATTCTGGAATTTGAGCAATGCTGGTAGTATCAATACTA
938960 CCTAGTGAGTACCGATACTTCCCTTACCTTTGGTATCGGTACCATATAAACAATATCGGTACTGT
391 CCTAGTGAGTACCGATACTTCCCTTACCTTTGGTATC-GTACCATATAAACAATATCGGTACTGT
* *
939025 TCATGAGGCATCGATACTGCAAGAACAATATCGGTACTGCTTATCTAGAAAATTATTTTGTACTC
455 TCATGAGGCATCGATACTGTAAGAACAATATCGGTACTGCTTGTCTAGAAAATTATTTTGTACTC
* *
939090 AAGTCCAAGTTAGATGGGCTTTGAATAATTTTTGAAAACTTTGAACAAATTCAATTCAAGTCCAA
520 AAGTCCAAGTTAGATGGACTTTGAATTATTTTTGAAAACTTTGAACAAATTCAATTCAAGTCCAA
* *
939155 AAATATTTTACCTTAATT-TTATATCAAAATCTTATAAAACTTGATTCAACAATCTCCCCCTTTT
585 AAACATTTTACCTTAATTGTTATATCAAAATCTTATAAAACATGATTCAACAATCTCCCCCTTTT
* *
939219 AATATAACAAAACATTTGAAAAATTGTTTTGGCAAAACTCCCCCTTAATAAAATATTTAATGAAA
650 GATATAACAAAACATTTGAAAATTTGTTTTGGCAAAACTCCCCCTTAATAAAATATTTAATGAAA
*
939284 AATATAGT-AATTGTTGGAAAATGTATGAAAATGTTTAGCTCCCCTTTTTCAT
715 AAGATA-TCAATTGTTGGAAAATGTATGAAAATGTTTAGCTCCCCTTTTTCAT
*
939336 TAAAATAAGATTGGAAAAACGCTTCTCTTGTGTTTGAATGCTTGGATAAGTGTTGTAACTCTTCT
1 TAAAATAAGATTGGAAAAACGCTTCTCTTGTGTTTGAATGCTTGGATAAGTGTTCTAACTCTTCT
* *
939401 TCAAGTGTCCTCGACTTGTATTTATATGTTGGAATGAAGTTGTGGTCGTTTCTAGCCGTTGGGGA
66 TCAAGTGTCCTCAACTTGTATTTATATGTTGGAATGAAGTTGTGGCCGTTTCTAGCCGTTGGGGA
* *
939466 TGATTTTTAGCCATTTGGGGATGAAATATCTATAAAATAAAACTGCCCAGTACAGAGGGTATCAA
131 TGATTTCTAGCCGTTTGGGGATGAAATATCTATAAAATAAAACTGCCCAGTACAGAGGGTATCAA
*
939531 TACTCCTAAAGAGAGTATCGATACTACCTTTGTTATTTTTAAATCAACTAGCCATTACTAGTCAT
196 TACTCCTAAAGAGAGTATCGGTACTACCTTTGTTATTTTTAAATCAACTAGCCATTACTAGTCAT
* *
939596 TGGGGCTTGATGGTATCGATATTATGCCTATGGTACGATACTAATATGTAAAGTAGTATCGGTAC
261 TGGGGCTTGATGGTATCGATACTATGCCTATGGTACGATACTACTATGTAAAGTAGTATCGGTAC
*
939661 CCCTTTGAGTATCGATACCATTTTTGCATTCTGGAATTTGAGCAATGCTGGTAGTATCAATACTA
326 CCCTTTGGGTATCGATACCATTTTTGCATTCTGGAATTTGAGCAATGCTGGTAGTATCAATACTA
*
939726 CTTAGTGAGTACCGATACTTCCCTTACCTTTGGTATCGATACCATATAAACAATATCGGTACTGT
391 CCTAGTGAGTACCGATACTTCCCTTACCTTTGGTATCG-TACCATATAAACAATATCGGTACTGT
* * *
939791 TCATGAGGCATCGATACTGTGAGAACAATATCGATACTACTTGTCTAGAAAATTATTTTGTACTC
455 TCATGAGGCATCGATACTGTAAGAACAATATCGGTACTGCTTGTCTAGAAAATTATTTTGTACTC
*
939856 AGGTCCAAGTTAGATGGACTTTGAATTATTTTTGAAAACTTTGAACAAATTCAATTCAAGTCCAA
520 AAGTCCAAGTTAGATGGACTTTGAATTATTTTTGAAAACTTTGAACAAATTCAATTCAAGTCCAA
*
939921 AAACATTTTACTTTAATTGTTATATCAAAATCTTATAAAACATGATTCAACAATCTCCCCCTTTT
585 AAACATTTTACCTTAATTGTTATATCAAAATCTTATAAAACATGATTCAACAATCTCCCCCTTTT
*
939986 GATATAACAAAACATTTGAAAATTTGTTTTGGCAAAACTTCCCCTTAATAAAATATTTAATGAAA
650 GATATAACAAAACATTTGAAAATTTGTTTTGGCAAAACTCCCCCTTAATAAAATATTTAATGAAA
940051 AAGATATCAATTGTTGGAAAATGTATGAAAATGTTTAGCTCCCCTTTTTCAT
715 AAGATATCAATTGTTGGAAAATGTATGAAAATGTTTAGCTCCCCTTTTTCAT
* *
940103 TAAAATAAGATTGGAAAAACTCTTCTCTTGTGTTTGAATGCTTGGATAGGTGTTCTAACTCTTCT
1 TAAAATAAGATTGGAAAAACGCTTCTCTTGTGTTTGAATGCTTGGATAAGTGTTCTAACTCTTCT
940168 TCAAGTGTCCTCAACTTGTATTTATATGTTGGAATGAAGTTGTGGCCGTTTCTAGCTGTTGGGGA
66 TCAAGTGTCCTCAACTTGTATTTATATGTTGGAATGAAGTTGTGGCCG-TT-T--C---T----A
940233 TGATTTCTAACTGTTGGGGATGATTTCTAGCCGTTTGGGGATGAAATATCTATAAAATAAAACTG
120 -G----C---C-GTTGGGGATGATTTCTAGCCGTTTGGGGATGAAATATCTATAAAATAAAACTG
*
940298 CCCAGTACAGAGGGTATCAATACTCCTAAGGAGAGTATCGGTACTACCTTTGTTATTTTTAAATC
176 CCCAGTACAGAGGGTATCAATACTCCTAAAGAGAGTATCGGTACTACCTTTGTTATTTTTAAATC
*
940363 AACTAGCCATTACTAGTCATTGGGGTTTGATGGTATCGATACTATGCCTATGGTACGATACTACT
241 AACTAGCCATTACTAGTCATTGGGGCTTGATGGTATCGATACTATGCCTATGGTACGATACTACT
* *
940428 ATGTAAAGTAGTATCAGTACCCCTTTGGGTATCGATACCATTTTTGCATTATGGAATTTGAGCAA
306 ATGTAAAGTAGTATCGGTACCCCTTTGGGTATCGATACCATTTTTGCATTCTGGAATTTGAGCAA
940493 TGCTGGTAGTATCAATACTACCTAGTGAGTACCGATACTTCCCTTACCTTTGGTATCAGTACCAT
371 TGCTGGTAGTATCAATACTACCTAGTGAGTACCGATACTTCCCTTACCTTTGGTATC-GTACCAT
*
940558 ATAAACAATATCGGTACTGTTCATGAGTCATCGATACTGTAAGAACAATATCGGTACTGCTTGTC
435 ATAAACAATATCGGTACTGTTCATGAGGCATCGATACTGTAAGAACAATATCGGTACTGCTTGTC
940623 TAGAAAATTATTTTGTACTCAAGTCCAAGTTAGATGGACTTTGAATTATTTTTGAAAACTTTGAA
500 TAGAAAATTATTTTGTACTCAAGTCCAAGTTAGATGGACTTTGAATTATTTTTGAAAACTTTGAA
940688 CAAATTCAATTCAAGTCCAAAAACATTTTACCTTAATTGTTATATCAAAATCTTATAAAACATGA
565 CAAATTCAATTCAAGTCCAAAAACATTTTACCTTAATTGTTATATCAAAATCTTATAAAACATGA
*
940753 TTCAAAAATCTCCCCCTTTTGATATAACAAAACATTTGAAAATTTGTTTTGGCAAAACTCCCCCT
630 TTCAACAATCTCCCCCTTTTGATATAACAAAACATTTGAAAATTTGTTTTGGCAAAACTCCCCCT
940818 TAATAAAATATTTAATGAAAAAGATATCAATTGTTGGAAAATGTATGAAAATGTTTAGCT-CCCT
695 TAATAAAATATTTAATGAAAAAGATATCAATTGTTGGAAAATGTATGAAAATGTTTAGCTCCCCT
940882 TTTTCAT
760 TTTTCAT
940889 TAA
1 TAA
940892 GAAATTGAAT
Statistics
Matches: 1451, Mismatches: 60, Indels: 49
0.93 0.04 0.03
Matches are distributed among these distances:
745 103 0.07
746 1 0.00
748 1 0.00
752 1 0.00
755 1 0.00
764 1 0.00
765 9 0.01
766 434 0.30
767 264 0.18
768 2 0.00
769 1 0.00
771 1 0.00
774 1 0.00
778 1 0.00
779 1 0.00
783 1 0.00
786 15 0.01
787 612 0.42
788 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (766 bp):
TAAAATAAGATTGGAAAAACGCTTCTCTTGTGTTTGAATGCTTGGATAAGTGTTCTAACTCTTCT
TCAAGTGTCCTCAACTTGTATTTATATGTTGGAATGAAGTTGTGGCCGTTTCTAGCCGTTGGGGA
TGATTTCTAGCCGTTTGGGGATGAAATATCTATAAAATAAAACTGCCCAGTACAGAGGGTATCAA
TACTCCTAAAGAGAGTATCGGTACTACCTTTGTTATTTTTAAATCAACTAGCCATTACTAGTCAT
TGGGGCTTGATGGTATCGATACTATGCCTATGGTACGATACTACTATGTAAAGTAGTATCGGTAC
CCCTTTGGGTATCGATACCATTTTTGCATTCTGGAATTTGAGCAATGCTGGTAGTATCAATACTA
CCTAGTGAGTACCGATACTTCCCTTACCTTTGGTATCGTACCATATAAACAATATCGGTACTGTT
CATGAGGCATCGATACTGTAAGAACAATATCGGTACTGCTTGTCTAGAAAATTATTTTGTACTCA
AGTCCAAGTTAGATGGACTTTGAATTATTTTTGAAAACTTTGAACAAATTCAATTCAAGTCCAAA
AACATTTTACCTTAATTGTTATATCAAAATCTTATAAAACATGATTCAACAATCTCCCCCTTTTG
ATATAACAAAACATTTGAAAATTTGTTTTGGCAAAACTCCCCCTTAATAAAATATTTAATGAAAA
AGATATCAATTGTTGGAAAATGTATGAAAATGTTTAGCTCCCCTTTTTCAT
Found at i:950764 original size:18 final size:18
Alignment explanation
Indices: 950743--950777 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
950733 CTTGTTTGGT
*
950743 TGTTCATCTTTTTTGAGG
1 TGTTCATCTTCTTTGAGG
950761 TGTTCATCTTCTTTGAG
1 TGTTCATCTTCTTTGAG
950778 TTAAGGACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.54
Consensus pattern (18 bp):
TGTTCATCTTCTTTGAGG
Found at i:950839 original size:26 final size:26
Alignment explanation
Indices: 950783--950839 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
950773 TTGAGTTAAG
*
950783 GACTTCAATTAAGTTATAAAATAGTC
1 GACTTCAATCAAGTTATAAAATAGTC
* * * *
950809 AACTTCAATCAAGTTATCAAGTATTC
1 GACTTCAATCAAGTTATAAAATAGTC
950835 GACTT
1 GACTT
950840 TTAGTTTCAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (26 bp):
GACTTCAATCAAGTTATAAAATAGTC
Found at i:951294 original size:24 final size:24
Alignment explanation
Indices: 951267--951502 Score: 95
Period size: 24 Copynumber: 9.7 Consensus size: 24
951257 GTTAACCCTT
951267 CTTCTTCTTCTTCTCCTCCTCCTC
1 CTTCTTCTTCTTCTCCTCCTCCTC
* * *
951291 CTTCTATTCTTTCTTCTCTTCATTCTC
1 CTTC--TTC-TTCTTCTCCTCCTCCTC
* * * ** *
951318 CTCCTTCTCCTTCTCATTTTTCTC
1 CTTCTTCTTCTTCTCCTCCTCCTC
* *
951342 CTTCTTC-T-TT-TCCTTCTCCTG
1 CTTCTTCTTCTTCTCCTCCTCCTC
* * *
951363 CTTCTTCTTCTTTTCCAT-CTTCTT
1 CTTCTTCTTCTTCTCC-TCCTCCTC
* * * *
951387 CTCCTTCTTCTTCTCATTCTCCTT
1 CTTCTTCTTCTTCTCCTCCTCCTC
* * * * * *
951411 CTCCTTCTCCTTCTCATTCTACTT
1 CTTCTTCTTCTTCTCCTCCTCCTC
* * *
951435 CTTCTTC-TCATTCTACTTACTATTCTC
1 CTTCTTCTTC-TTCT-CCT-C-CTCCTC
* *
951462 CTTCTTTTTCTTCTTCTCCTCCTC
1 CTTCTTCTTCTTCTCCTCCTCCTC
*
951486 CTTCTTATTCTTCTCCT
1 CTTCTTCTTCTTCTCCT
951503 TTTCATTTTT
Statistics
Matches: 163, Mismatches: 36, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
21 14 0.09
22 3 0.02
23 4 0.02
24 99 0.61
25 7 0.04
26 4 0.02
27 30 0.18
28 2 0.01
ACGTcount: A:0.05, C:0.39, G:0.00, T:0.56
Consensus pattern (24 bp):
CTTCTTCTTCTTCTCCTCCTCCTC
Found at i:951325 original size:21 final size:20
Alignment explanation
Indices: 951301--951442 Score: 77
Period size: 21 Copynumber: 6.3 Consensus size: 20
951291 CTTCTATTCT
951301 TTCTTCTCTTCATTCTCCTCC
1 TTCTTCT-TTCATTCTCCTCC
* * *
951322 TTCTCCTTCTCATTTTTCTCC
1 TTCTTCTT-TCATTCTCCTCC
*
951343 TTCTTCTTTTCCTTCTCCTGCTTC
1 TTCTTC-TTTCATTCTCCT-C--C
*
951367 TTCTTCTTTTCCATCTTCTTCTCC
1 TTCTTC-TTT-CA--TTCTCCTCC
951391 TTCTTCTTCTCATTCTCCTTCTCC
1 TTCTTCTT-TCATTCT-C--CTCC
* * *
951415 TTCTCCTTCTCATTCTACTTC
1 TTCTTCTT-TCATTCTCCTCC
951436 TTCTTCT
1 TTCTTCT
951443 CATTCTACTT
Statistics
Matches: 95, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
20 1 0.01
21 41 0.43
22 3 0.03
23 4 0.04
24 38 0.40
25 1 0.01
26 1 0.01
27 6 0.06
ACGTcount: A:0.04, C:0.39, G:0.01, T:0.56
Consensus pattern (20 bp):
TTCTTCTTTCATTCTCCTCC
Found at i:951352 original size:15 final size:15
Alignment explanation
Indices: 951322--951412 Score: 51
Period size: 15 Copynumber: 5.7 Consensus size: 15
951312 ATTCTCCTCC
951322 TTCTCCTTC-TCATTT
1 TTCTCCTTCTTC-TTT
951337 TTCTCCTTCTTCTTTT
1 TTCTCCTTCTTC-TTT
* *
951353 CCTTCTCCTGCTTCTTC
1 --TTCTCCTTCTTCTTT
* * *
951370 TTCT-TTTCCATCTTC
1 TTCTCCTT-CTTCTTT
951385 TTCTCCTTCTTCTTCT
1 TTCTCCTTCTTCTT-T
951401 CATTCTCCTTCT
1 --TTCTCCTTCT
951413 CCTTCTCCTT
Statistics
Matches: 59, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
14 1 0.02
15 28 0.47
16 7 0.12
17 2 0.03
18 21 0.36
ACGTcount: A:0.03, C:0.37, G:0.01, T:0.58
Consensus pattern (15 bp):
TTCTCCTTCTTCTTT
Found at i:951358 original size:18 final size:18
Alignment explanation
Indices: 951263--951547 Score: 174
Period size: 18 Copynumber: 15.8 Consensus size: 18
951253 TTCTGTTAAC
*
951263 CCTTCTTCTTCTTCTTCT
1 CCTTCTCCTTCTTCTTCT
* *
951281 CCTCCTCCTCCTTCTAT-T
1 CCTTCTCCTTCTTCT-TCT
* *
951299 CTTTCTTCTCTTCATTCTCCT
1 CCTTC-TC-CTTC-TTCTTCT
951320 CCTTCTCCTTC-TCATT-T
1 CCTTCTCCTTCTTC-TTCT
*
951337 --TTCTCCTTCTTCTTTT
1 CCTTCTCCTTCTTCTTCT
*
951353 CCTTCTCCTGCTTCTTCT
1 CCTTCTCCTTCTTCTTCT
* * *
951371 TCTTTTCCATCTTCTTCT
1 CCTTCTCCTTCTTCTTCT
*
951389 CCTTCTTCTTC-TCATTCT
1 CCTTCTCCTTCTTC-TTCT
*
951407 CCTTCTCCTTCTCCTTCT
1 CCTTCTCCTTCTTCTTCT
* *
951425 CATTCTACTTCTTCTTCT
1 CCTTCTCCTTCTTCTTCT
* * *
951443 CATTCTACTTAC-TATTCT
1 CCTTCTCCTT-CTTCTTCT
**
951461 CCTTCTTTTTCTTCTTCT
1 CCTTCTCCTTCTTCTTCT
* *
951479 CCTCCTCCTTCTTATTCT
1 CCTTCTCCTTCTTCTTCT
* * * *
951497 TCTCCT-TTTCATTTTTCT
1 CCTTCTCCTTC-TTCTTCT
* *
951515 CCTTCTTC-TCATTCTTTT
1 CCTTCTCCTTC-TTCTTCT
*
951533 CCTTCTCATTCTTCT
1 CCTTCTCCTTCTTCT
951548 CCTTATTTTC
Statistics
Matches: 207, Mismatches: 43, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
15 11 0.05
16 3 0.01
17 9 0.04
18 159 0.77
19 11 0.05
20 5 0.02
21 9 0.04
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (18 bp):
CCTTCTCCTTCTTCTTCT
Found at i:951501 original size:15 final size:16
Alignment explanation
Indices: 951483--951551 Score: 81
Period size: 15 Copynumber: 4.4 Consensus size: 16
951473 TCTTCTCCTC
951483 CTCCTTCTT-ATTCTT
1 CTCCTTCTTCATTCTT
*
951498 CTCCTT-TTCATTTTT
1 CTCCTTCTTCATTCTT
951513 CTCCTTCTTCTCATTCTT
1 CTCCTTC-T-TCATTCTT
*
951531 TTCCTTC-TCATTCTT
1 CTCCTTCTTCATTCTT
951546 CTCCTT
1 CTCCTT
951552 ATTTTCCTCC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.04
15 30 0.65
17 1 0.02
18 13 0.28
ACGTcount: A:0.06, C:0.35, G:0.00, T:0.59
Consensus pattern (16 bp):
CTCCTTCTTCATTCTT
Found at i:951523 original size:33 final size:33
Alignment explanation
Indices: 951475--951551 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
951465 CTTTTTCTTC
* * * *
951475 TTCTCCTCCTCCTTCTTATTCTTCTCCTTTTCA
1 TTCTTCTCCTTCTTCTCATTCTTCTCCTTCTCA
* *
951508 TTTTTCTCCTTCTTCTCATTCTTTTCCTTCTCA
1 TTCTTCTCCTTCTTCTCATTCTTCTCCTTCTCA
951541 TTCTTCTCCTT
1 TTCTTCTCCTT
951552 ATTTTCCTCC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.05, C:0.36, G:0.00, T:0.58
Consensus pattern (33 bp):
TTCTTCTCCTTCTTCTCATTCTTCTCCTTCTCA
Found at i:951538 original size:24 final size:24
Alignment explanation
Indices: 951511--951565 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
951501 CTTTTCATTT
*
951511 TTCTCCTTCTTCTCATTCTTTTCC
1 TTCTCCTTCTTCTCATTATTTTCC
* *
951535 TTCTCATTCTTCTCCTTATTTTCC
1 TTCTCCTTCTTCTCATTATTTTCC
*
951559 TCCTCCT
1 TTCTCCT
951566 GCCACATTGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (24 bp):
TTCTCCTTCTTCTCATTATTTTCC
Found at i:953591 original size:21 final size:19
Alignment explanation
Indices: 953567--953893 Score: 222
Period size: 21 Copynumber: 15.7 Consensus size: 19
953557 CATATTCGCA
953567 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTT--CG
** *
953588 TTGCGATAGTTGAAGTTCTCA
1 TTGCGATAGTCCAAG-T-TCG
* *
953609 TTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCG
* *
953630 TTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCG
953651 TTGCGATAGTCCAAGTTTGCG
1 TTGCGATAGTCCAAG-TT-CG
*
953672 TTGCGATTTATTCCAAGTTCG
1 TTGCGA--TAGTCCAAGTTCG
* *
953693 TTGTGATAGTCGAAGTTCACG
1 TTGCGATAGTCCAAGTT--CG
* * *
953714 TTGCAATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCG
* *
953735 TTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCG
953756 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTT--CG
*
953777 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTT--CG
* *
953798 TTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCG
* *
953819 TTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCG
953840 TTGCGATAGTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCG
953859 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTT--CG
953880 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
953894 AATTGCAACG
Statistics
Matches: 260, Mismatches: 28, Indels: 36
0.80 0.09 0.11
Matches are distributed among these distances:
19 53 0.20
20 2 0.01
21 171 0.66
22 4 0.02
23 30 0.12
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (19 bp):
TTGCGATAGTCCAAGTTCG
Found at i:953653 original size:63 final size:61
Alignment explanation
Indices: 953567--953894 Score: 326
Period size: 63 Copynumber: 5.2 Consensus size: 61
953557 CATATTCGCA
* ** *
953567 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTTGAAGTTCTCATTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAATTC-CGTTGCGATAGTCCAAGTT-TCGTTGCGATTTATTCCAAATTCG
* *
953630 TTGCGATTTATTCCAAATT-CGTTGCGATAGTCCAAGTTTGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGA--TAGTCCAAATTCCGTTGCGATAGTCCAAGTTT-CGTTGCGATTTATTCCAAATTCG
* * * * * *
953693 TTGTGATAGTCGAAGTTCACGTTGCAATTTATTCCAA-ATTCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAATTC-CGTTGCGA--TAGTCCAAGTTTCGTTGCGATTTATTCCAAATTCG
* * *
953756 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAATTC-CGTTGCGATAGTCCAAGTT-TCGTTGCGATTTATTCCAAATTCG
* * *
953819 TTGCGATTTATTCCAAATT-CGTTGCGATAGTCCAAG-TTCGTTGCGA--TAGTCCAAGTTCGCG
1 TTGCGA--TAGTCCAAATTCCGTTGCGATAGTCCAAGTTTCGTTGCGATTTATTCCAAATT--CG
953880 TTGCGATAGTCCAAA
1 TTGCGATAGTCCAAA
953895 ATTGCAACGA
Statistics
Matches: 223, Mismatches: 29, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
59 17 0.08
61 30 0.13
62 3 0.01
63 146 0.65
64 2 0.01
65 25 0.11
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.36
Consensus pattern (61 bp):
TTGCGATAGTCCAAATTCCGTTGCGATAGTCCAAGTTTCGTTGCGATTTATTCCAAATTCG
Found at i:953716 original size:84 final size:81
Alignment explanation
Indices: 953628--953886 Score: 376
Period size: 84 Copynumber: 3.1 Consensus size: 81
953618 ATTCCAAATT
* * *
953628 CGTTGCGATTTATTCCAAATTCGTTGCGA-TAGTCCAAGTTTGCGTTGCGATTTATTCCAAGTTC
1 CGTTGCGATTTATTCCAAATTCGTTGCGATTATTCCAA-ATT-CGTTGCGA--TAGTCCAAGTTC
* *
953692 GTTGTGATAGTCGAAGTTCA
62 GTTGCGATAGTCGAAGTTCG
*
953712 CGTTGCAATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCG
1 CGTTGCGATTTATTCCAAATTCGTTGCGA-TTATTCCAAATTCGTTGCGATAGTCCAAGTT--CG
953777 TTGCGATAGTCGAAGTTCG
63 TTGCGATAGTCGAAGTTCG
953796 CGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGTT
1 CGTTGCGATTTATTCCAAATTCGTTGCGA-TTATTCCAAATTCGTTGCGATAGTCCAAGTTCGTT
*
953861 GCGATAGTCCAAGTTCG
65 GCGATAGTCGAAGTTCG
953878 CGTTGCGAT
1 CGTTGCGAT
953887 AGTCCAAAAT
Statistics
Matches: 163, Mismatches: 8, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
82 39 0.24
84 115 0.71
85 2 0.01
86 7 0.04
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (81 bp):
CGTTGCGATTTATTCCAAATTCGTTGCGATTATTCCAAATTCGTTGCGATAGTCCAAGTTCGTTG
CGATAGTCGAAGTTCG
Found at i:954620 original size:21 final size:21
Alignment explanation
Indices: 954594--954705 Score: 83
Period size: 21 Copynumber: 5.4 Consensus size: 21
954584 ATTTTGGACT
954594 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
954615 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
*
954636 ATCACAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
954657 ATCGCAACGTGAACTTCGACT--
1 ATCGCAAC--GAATTTGGAATAA
954678 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
954697 ATCGCAACG
1 ATCGCAACG
954706 CGAACTTCGA
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
19 24 0.35
21 28 0.41
23 17 0.25
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:954721 original size:21 final size:21
Alignment explanation
Indices: 954615--954751 Score: 129
Period size: 21 Copynumber: 6.6 Consensus size: 21
954605 TTTGGAATAA
954615 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* * * *
954636 ATCACAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCGACT
*
954655 AAATCGCAACGTGAACTTCGACT
1 --ATCGCAACGCGAACTTCGACT
* * **
954678 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTCGACT
954697 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
*
954718 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
*
954739 ATCGCAATGCGAA
1 ATCGCAACGCGAA
954752 TATGTAAATC
Statistics
Matches: 90, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
19 23 0.26
21 59 0.66
23 8 0.09
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:954736 original size:42 final size:42
Alignment explanation
Indices: 954590--954726 Score: 242
Period size: 42 Copynumber: 3.3 Consensus size: 42
954580 TGCGATTTTG
954590 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* *
954632 GACTATCACAACGAATTTGGAATAAATCGCAACGTGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
954674 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
954714 GACTATCGCAACG
1 GACTATCGCAACG
954727 CGAACTTGGA
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 31 0.34
41 1 0.01
42 59 0.65
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:954743 original size:82 final size:83
Alignment explanation
Indices: 954590--954745 Score: 237
Period size: 82 Copynumber: 1.9 Consensus size: 83
954580 TGCGATTTTG
*
954590 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAATTTGGAAT
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAACTTGGAAT
954655 AAATCGCAACGTGAACTTC
66 -AATCGCAACGTGAACTTC
*
954674 GACTATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGA
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCACAA--CGAACTTGGA
*
954737 CT-ATCGCAA
64 ATAATCGCAA
954746 TGCGAATATG
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
82 36 0.54
83 1 0.01
84 30 0.45
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.21
Consensus pattern (83 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCACAACGAACTTGGAAT
AATCGCAACGTGAACTTC
Found at i:954832 original size:21 final size:21
Alignment explanation
Indices: 954808--954883 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
954798 AATTTGGAAA
* *
954808 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTGGACT
954829 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTGGACT
* *
954850 ATCCCAATGAGAACTTGGACT
1 ATCGCAATGCGAACTTGGACT
954871 ATCGCAATGCGAA
1 ATCGCAATGCGAA
954884 TATGTAAATC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (21 bp):
ATCGCAATGCGAACTTGGACT
Found at i:954902 original size:111 final size:110
Alignment explanation
Indices: 954685--954910 Score: 296
Period size: 111 Copynumber: 2.0 Consensus size: 110
954675 ACTATCGCAA
* *
954685 CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGACTATCGCAATGCG
1 CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGACTATCCCAATGAG
* * * * **
954750 AATATGTAAATCGCAATGTGATAGTCGAAGTTCGCGTTGCGATAGT
66 AATATGGAAATCGCAATGCGATAGTC-AAGATCACAATGCGATAGT
*
954796 CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGACTATCCCAATGAG
1 CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGACTATCCCAATGAG
*
954861 AACT-TGGACTATCGCAATGCGAATATGT-AA-ATCACAATGCGATAGT
66 AA-TATGGA-AATCGCAATGCG-ATA-GTCAAGATCACAATGCGATAGT
954907 CGAA
1 CGAA
954911 GTTCGCGTTG
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
111 83 0.82
112 13 0.13
113 3 0.03
114 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (110 bp):
CGAATTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTGGACTATCCCAATGAG
AATATGGAAATCGCAATGCGATAGTCAAGATCACAATGCGATAGT
Found at i:954924 original size:21 final size:21
Alignment explanation
Indices: 954898--954944 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
954888 TAAATCACAA
954898 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
954919 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
954940 TGCGA
1 TGCGA
954945 ATCTGGAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTCGCGT
Found at i:964669 original size:22 final size:21
Alignment explanation
Indices: 964627--964666 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
964617 AAGATTATTT
*
964627 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
964648 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
964667 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:967872 original size:20 final size:20
Alignment explanation
Indices: 967847--967896 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
967837 ATATATTATA
967847 TTTTCGAG-CTGCTCACGAAC
1 TTTTCGAGTC-GCTCACGAAC
967867 TTTTCGAGTCGCTCACGAAC
1 TTTTCGAGTCGCTCACGAAC
967887 TTTTCGAGTC
1 TTTTCGAGTC
967897 AAATATCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (20 bp):
TTTTCGAGTCGCTCACGAAC
Found at i:969194 original size:22 final size:20
Alignment explanation
Indices: 969151--969195 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
969141 ATGTGAAAAA
**
969151 TAAAATATTAAATTTATTTT
1 TAAAATATTAAATTTAAATT
969171 TAAAATATATAAATTTTAAATT
1 TAAAATAT-TAAA-TTTAAATT
969193 TAA
1 TAA
969196 TTTCATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 4 0.19
22 9 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAAATATTAAATTTAAATT
Found at i:973923 original size:22 final size:21
Alignment explanation
Indices: 973898--973942 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
973888 TTTATTTGAC
*
973898 ATCAGATTCAGTTCGAGTTTGG
1 ATCAGATTAAGTTC-AGTTTGG
* *
973920 ATCAGGTTAATTTCAGTTTGG
1 ATCAGATTAAGTTCAGTTTGG
973941 AT
1 AT
973943 TGATGTTAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.40
Consensus pattern (21 bp):
ATCAGATTAAGTTCAGTTTGG
Found at i:974585 original size:2 final size:2
Alignment explanation
Indices: 974578--974698 Score: 219
Period size: 2 Copynumber: 61.0 Consensus size: 2
974568 GAAGTAAGGG
974578 AT AT AT AT AT AT AT AT AT A- AGT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
974620 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
974662 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
974699 TAAGTCAACG
Statistics
Matches: 116, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.02
2 113 0.97
3 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:983498 original size:25 final size:25
Alignment explanation
Indices: 983470--983524 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
983460 CGTTTGCAAT
*
983470 TTTTTTTGAAATTTTGGCTTTTTTG
1 TTTTTTTGAAATTTTGCCTTTTTTG
****
983495 TTTTTTTTTTTTTTTGCCTTTTTTG
1 TTTTTTTGAAATTTTGCCTTTTTTG
983520 TTTTT
1 TTTTT
983525 CTTTTGTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.05, C:0.05, G:0.11, T:0.78
Consensus pattern (25 bp):
TTTTTTTGAAATTTTGCCTTTTTTG
Found at i:983502 original size:11 final size:11
Alignment explanation
Indices: 983488--983535 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
983478 AAATTTTGGC
983488 TTTTTTGTTTT
1 TTTTTTGTTTT
*
983499 TTTTTTTTTTT
1 TTTTTTGTTTT
983510 GCCTTTTTTGTTTT
1 ---TTTTTTGTTTT
*
983524 TCTTTTGTTTT
1 TTTTTTGTTTT
983535 T
1 T
983536 GAAATAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 21 0.68
14 10 0.32
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.85
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:983529 original size:25 final size:26
Alignment explanation
Indices: 983481--983536 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 26
983471 TTTTTTGAAA
* *
983481 TTTTGGCTTTTTTGTTTTT-TTTTTT
1 TTTTGCCTTTTTTGTTTTTCTTTTGT
983506 TTTTGCCTTTTTTGTTTTTCTTTTGT
1 TTTTGCCTTTTTTGTTTTTCTTTTGT
983532 TTTTG
1 TTTTG
983537 AAATAAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.00, C:0.07, G:0.12, T:0.80
Consensus pattern (26 bp):
TTTTGCCTTTTTTGTTTTTCTTTTGT
Found at i:985980 original size:81 final size:81
Alignment explanation
Indices: 985842--986015 Score: 269
Period size: 81 Copynumber: 2.1 Consensus size: 81
985832 CTAAGAACCA
985842 CTCAAATCAACTTCAACATTAATTTCCAAATTCATAATTTGATCAACTACTCACAAACTTATCCG
1 CTCAAATCAACTTCAACATTAATTTCCAAATTCATAATTTGATCAACTACTCACAAACTTAT-CG
* *
985907 -GTCGAGTTGGACCTTT
65 AATCGAATTGGACCTTT
* * * * *
985923 CTCAAATCAACTTTAGCATTAATTTCCAAATTCATAATTTGATCAATTGCTCGCAAACTTATCGA
1 CTCAAATCAACTTCAACATTAATTTCCAAATTCATAATTTGATCAACTACTCACAAACTTATCGA
985988 ATCGAATTGGACCTTT
66 ATCGAATTGGACCTTT
986004 CTCAAATCAACT
1 CTCAAATCAACT
986016 CGTGAAGGTC
Statistics
Matches: 85, Mismatches: 7, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
80 2 0.02
81 83 0.98
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.34
Consensus pattern (81 bp):
CTCAAATCAACTTCAACATTAATTTCCAAATTCATAATTTGATCAACTACTCACAAACTTATCGA
ATCGAATTGGACCTTT
Found at i:987725 original size:53 final size:52
Alignment explanation
Indices: 987655--987764 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 52
987645 TCACCTGACT
* *
987655 CGAAACCCGATCCGACTTTTGAGATAAAA-CTTGACTCCGACTCTGACCCAACC
1 CGAAACCCGATCCGACTTTTGAAATAAAATC-TGACTCCGA-TCCGACCCAACC
* * * *
987708 TGAAACTCGATTCGACTTTTGAAATAAAATCTGACTCTGATCCGACCCAACC
1 CGAAACCCGATCCGACTTTTGAAATAAAATCTGACTCCGATCCGACCCAACC
987760 CGAAA
1 CGAAA
987765 TAATATATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
52 15 0.31
53 33 0.67
54 1 0.02
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (52 bp):
CGAAACCCGATCCGACTTTTGAAATAAAATCTGACTCCGATCCGACCCAACC
Found at i:988529 original size:30 final size:29
Alignment explanation
Indices: 988495--988552 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
988485 TATAGAAAAA
*
988495 TAATAATAAATATAA-ATTGAAATATAATTG
1 TAATAATAAAT-TAAGATT-AAAAATAATTG
*
988525 TAATAGTAAATTAAGATTAAAAATAATT
1 TAATAATAAATTAAGATTAAAAATAATT
988553 ATTAAGGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (29 bp):
TAATAATAAATTAAGATTAAAAATAATTG
Found at i:994072 original size:126 final size:125
Alignment explanation
Indices: 993904--994196 Score: 498
Period size: 126 Copynumber: 2.3 Consensus size: 125
993894 TTATTATATT
* * *
993904 TTAATAGACTAAATTAAAAATAAGGCTCATAAATATTAATATATCATTTTCTTATATTAATACAA
1 TTAATATACTAAATT-AAAAGAAGGCCCATAAATATTAATATATCATTTTCTTATATTAATACAA
* *
993969 GAGGG-CATATAAACTTATTTCTTATTGACTTATTGCTCTCATCATAACGTTAAAAACTATA
65 GAGGGTC-CATAAACTTATTTCTTATTGACTTATTACTCTCATCATAACGTTAAAAACTATA
994030 TTAATATACTAAATTAAAAGAAGGTCCCATAAATATTAATATATCATTTTCTTATATTAATACAA
1 TTAATATACTAAATTAAAAGAAGG-CCCATAAATATTAATATATCATTTTCTTATATTAATACAA
994095 GAGGGTCCATAAACTTATTTCTTATTGACTTATTACTCTCATCATAACGTTAAAAACTATA
65 GAGGGTCCATAAACTTATTTCTTATTGACTTATTACTCTCATCATAACGTTAAAAACTATA
994156 TTAATATACTAAATTAAAAGAAGGGCCCATAAATATTAATA
1 TTAATATACTAAATTAAAAGAA-GGCCCATAAATATTAATA
994197 AACTAAATTA
Statistics
Matches: 159, Mismatches: 5, Indels: 6
0.94 0.03 0.04
Matches are distributed among these distances:
125 8 0.05
126 148 0.93
127 3 0.02
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (125 bp):
TTAATATACTAAATTAAAAGAAGGCCCATAAATATTAATATATCATTTTCTTATATTAATACAAG
AGGGTCCATAAACTTATTTCTTATTGACTTATTACTCTCATCATAACGTTAAAAACTATA
Found at i:994202 original size:35 final size:35
Alignment explanation
Indices: 994153--994224 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
994143 GTTAAAAACT
* *
994153 ATATTAATATACTAAATTAAAAGAAGGGCCCATAA
1 ATATTAATAAACTAAATTAAAAGAAGGACCCATAA
*
994188 ATATTAATAAACTAAATTAAAAGCAGGACCCATAA
1 ATATTAATAAACTAAATTAAAAGAAGGACCCATAA
994223 AT
1 AT
994225 TTATTTCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (35 bp):
ATATTAATAAACTAAATTAAAAGAAGGACCCATAA
Found at i:1001158 original size:103 final size:103
Alignment explanation
Indices: 1000978--1001191 Score: 259
Period size: 103 Copynumber: 2.1 Consensus size: 103
1000968 CGACTAACCG
* * *
1000978 TTAACACATACTTACACTGATGTAATTGAACAAAATAAAAAAAATACAACACTTAACACATACTT
1 TTAACACATACTTACACCGATATAAGTGAACAAAATAAAAAAAATACAACACTTAACACATACTT
* *
1001043 ACACTGGTGTAAGTGGATAAAATAAAAAA-GTATAGCAC
66 ACACTGGCGTAAGTGAATAAAA-AAAAAACGTATAGCAC
* * ** ** * ** *
1001081 TTAACACATACTTACACCGGTATAAGTGAATAAAATTTAAAAAATGTAGCACTTAATGCATAGTT
1 TTAACACATACTTACACCGATATAAGTGAACAAAATAAAAAAAATACAACACTTAACACATACTT
* *
1001146 ACACTTGCGTAAGTGAATAAAAAAAAAACGTGTAGCAC
66 ACACTGGCGTAAGTGAATAAAAAAAAAACGTATAGCAC
1001184 TTAACACA
1 TTAACACA
1001192 GAGTTACATC
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
102 6 0.06
103 87 0.94
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.25
Consensus pattern (103 bp):
TTAACACATACTTACACCGATATAAGTGAACAAAATAAAAAAAATACAACACTTAACACATACTT
ACACTGGCGTAAGTGAATAAAAAAAAAACGTATAGCAC
Found at i:1001199 original size:51 final size:51
Alignment explanation
Indices: 1000978--1001191 Score: 234
Period size: 52 Copynumber: 4.2 Consensus size: 51
1000968 CGACTAACCG
* * * * ** *
1000978 TTAACACATACTTACACTGATGTAATTGAACAAAATAAAAAAAATACAACAC
1 TTAACACATACTTACACTGGTGTAAGTGAATAAAAT-AAAAAAGTGTAGCAC
* *
1001030 TTAACACATACTTACACTGGTGTAAGTGGATAAAATAAAAAAGTATAGCAC
1 TTAACACATACTTACACTGGTGTAAGTGAATAAAATAAAAAAGTGTAGCAC
* *
1001081 TTAACACATACTTACACCGGTATAAGTGAATAAAATTTAAAAAA-TGTAGCAC
1 TTAACACATACTTACACTGGTGTAAGTGAATAAAA--TAAAAAAGTGTAGCAC
** * * *
1001133 TTAATGCATAGTTACACTTGCGTAAGTGAATAAAA-AAAAAACGTGTAGCAC
1 TTAACACATACTTACACTGGTGTAAGTGAATAAAATAAAAAA-GTGTAGCAC
1001184 TTAACACA
1 TTAACACA
1001192 GAGTTACATC
Statistics
Matches: 138, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
49 6 0.04
51 58 0.42
52 67 0.49
53 7 0.05
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.25
Consensus pattern (51 bp):
TTAACACATACTTACACTGGTGTAAGTGAATAAAATAAAAAAGTGTAGCAC
Found at i:1006051 original size:65 final size:66
Alignment explanation
Indices: 1005982--1006129 Score: 196
Period size: 65 Copynumber: 2.3 Consensus size: 66
1005972 AAATGTGCCT
* *
1005982 GGAGTGCATCGATGCATG-GTCTGTGCATCGGT-ACACAAAATGCATTTGATATTAAAAAATATT
1 GGAGTGCATCGATGCATGCCT-TGTGCATCGGTAACACAAAATGCATTTGA-AATAAAAAATATT
1006045 C-A
64 CAA
* **
1006047 GGAGTGCATCGATGCATGCCTTGTGCATCGGTACACACAAAATGCATTTGAAATACAATTTATTC
1 GGAGTGCATCGATGCATGCCTTGTGCATCGGTA-ACACAAAATGCATTTGAAATAAAAAATATTC
1006112 AA
65 AA
1006114 GG-GTGCATCGATGCAT
1 GGAGTGCATCGATGCAT
1006130 TAAATTGTGC
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
65 29 0.39
66 25 0.34
67 20 0.27
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (66 bp):
GGAGTGCATCGATGCATGCCTTGTGCATCGGTAACACAAAATGCATTTGAAATAAAAAATATTCA
A
Found at i:1006138 original size:67 final size:67
Alignment explanation
Indices: 1005982--1006149 Score: 184
Period size: 67 Copynumber: 2.5 Consensus size: 67
1005972 AAATGTGCCT
** *
1005982 GGAGTGCATCGATGCAT-GGTCTGTGCATCGGT--ACACAAAATGCATTTGATATTAAAAAATAT
1 GGAGTGCATCGATGCATAAAT-TGTGCATCGGTACACACAAAATGCATTTGATAATAAAAAATAT
1006044 TCA
65 TCA
*** * **
1006047 GGAGTGCATCGATGCATGCCTTGTGCATCGGTACACACAAAATGCATTTGA-AATACAATTTATT
1 GGAGTGCATCGATGCATAAATTGTGCATCGGTACACACAAAATGCATTTGATAATAAAAAATATT
1006111 CAA
66 C-A
*
1006114 GG-GTGCATCGATGCATTAAATTGTGCATCAGTACAC
1 GGAGTGCATCGATGCA-TAAATTGTGCATCGGTACAC
1006150 TACTTTGAAA
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
65 28 0.32
66 24 0.27
67 36 0.41
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (67 bp):
GGAGTGCATCGATGCATAAATTGTGCATCGGTACACACAAAATGCATTTGATAATAAAAAATATT
CA
Found at i:1007575 original size:23 final size:22
Alignment explanation
Indices: 1007549--1007595 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
1007539 ATAAAGTACA
*
1007549 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAG-GCTTAT
**
1007572 ATAATGTAATAGGTAGGCTTAT
1 ATAACATAATAGGTAGGCTTAT
1007594 AT
1 AT
1007596 TTACCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (22 bp):
ATAACATAATAGGTAGGCTTAT
Found at i:1008104 original size:23 final size:23
Alignment explanation
Indices: 1008074--1008136 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1008064 ACTTTACAAC
1008074 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1008097 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1008120 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1008137 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1008585 original size:23 final size:23
Alignment explanation
Indices: 1008555--1008617 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1008545 ACTTTACAAC
1008555 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1008578 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1008601 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1008618 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1009064 original size:23 final size:23
Alignment explanation
Indices: 1009034--1009096 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
1009024 ACTTTACAAC
*
1009034 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAACGA
* *
1009057 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1009080 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1009097 TTTTACTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1009543 original size:961 final size:962
Alignment explanation
Indices: 1007672--1009803 Score: 3917
Period size: 961 Copynumber: 2.2 Consensus size: 962
1007662 TAATATGTTG
*
1007672 AAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTTTCA
1 AAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
* *
1007737 ATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCACAA
66 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
*
1007802 AAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAA
131 AAAATTATTTGATTGTTTTGATA-TTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAA
* *
1007867 CCAAAGATAATAATAAATATTTAATATATATTTTTATTATTTTTAATTTAATAATAATATATATC
195 CCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATATATC
1007932 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
260 GTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAA
*
1007997 AAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAATGATAG
325 AAGATAACCTTAAATTAATGTTTTCCACAATAAAAAAAGTATGGACACTTTTATAAAAATGATAG
1008062 ATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTAT
390 ATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTAT
*
1008127 TACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGGCACTTT
455 TACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTT
*
1008192 TTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTTATATTTTCCACCTACAAT
520 TTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATATTTTCCACCTACAAT
1008257 ATAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
585 ATAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
1008322 TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTG
650 TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTG
* *
1008387 TTTTTAATTTAATAATAATATATATCGTAATGCAAAAAATAAATCATTAGACGCCTATAATTACT
715 TTTTTAATATAATAATAATATATATCGTAACGCAAAAAATAAATCATTAGACGCCTATAATTACT
*
1008452 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
780 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAG
1008517 TATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATACC
845 TATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATACC
1008582 TATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTA
910 TATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTA
*
1008635 AAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 AAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
*
1008700 ATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
66 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
1008765 AAAATTATTTGATTGTTTTGATATTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAAC
131 AAAATTATTTGATTGTTTTGATATTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAAC
*
1008830 CAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAATAATATATATCG
196 CAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATATATCG
1008893 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
261 TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
* *
1008958 AGATAACCTTAAATTAATGTTTTCTACAGTAAAAAAAGTATGGACACTTTTATAAAAATGATAGA
326 AGATAACCTTAAATTAATGTTTTCCACAATAAAAAAAGTATGGACACTTTTATAAAAATGATAGA
*
1009023 TACTTTACAACTACCTATTACATTATATAAATGATACCTATTACATTATATAAGCGCTACCTATT
391 TACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
* *
1009088 ACATCATATTTTTACTTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTT
456 ACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTT
*
1009152 TTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAAT
521 TTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATATTTTCCACCTACAAT
* *
1009217 ATTAATTTAATAATTTTATTTAGACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATA
585 A-TAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATA
1009282 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATT
649 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATT
*
1009347 GTTTTTAATATAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
714 GTTTTTAATATAATAATAATATATATCGTAACGCAAAAAATAAATCATTAGACGCCTATAATTAC
1009412 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAA
779 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAA
1009477 GTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATAC
844 GTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATAC
*
1009542 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTG
909 CTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTA
*
1009596 AAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 AAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1009661 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
66 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
*
1009726 AAAATTATTTGA------T-AT-TTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAAC
131 AAAATTATTTGATTGTTTTGATATTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAAC
1009783 CAAAGATAATAATAAATATGT
196 CAAAGATAATAATAAATATGT
1009804 TTTCCACAGT
Statistics
Matches: 1138, Mismatches: 29, Indels: 14
0.96 0.02 0.01
Matches are distributed among these distances:
953 62 0.05
954 2 0.00
955 1 0.00
959 31 0.03
960 323 0.28
961 510 0.45
962 62 0.05
963 147 0.13
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (962 bp):
AAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
AAAATTATTTGATTGTTTTGATATTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAAC
CAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATATATCG
TAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAA
AGATAACCTTAAATTAATGTTTTCCACAATAAAAAAAGTATGGACACTTTTATAAAAATGATAGA
TACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATT
ACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTT
TTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATATTTTCCACCTACAATA
TAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATT
TAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGT
TTTTAATATAATAATAATATATATCGTAACGCAAAAAATAAATCATTAGACGCCTATAATTACTA
AATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGT
ATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGATACCT
ATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTA
Found at i:1009546 original size:23 final size:23
Alignment explanation
Indices: 1009516--1009578 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1009506 ACTTTACAAC
1009516 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1009539 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1009562 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1009579 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1009556 original size:482 final size:482
Alignment explanation
Indices: 1007669--1009803 Score: 3902
Period size: 481 Copynumber: 4.5 Consensus size: 482
1007659 TTATAATATG
*
1007669 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* *
1007734 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
1007799 CAAAAAAATATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* * *
1007864 TAACCAAAGATAATAATAAATATTTAATATATATTTTTATTATTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
1007929 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
1007994 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAATGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
1008059 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
1008124 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
**
1008151 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGGCACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
* *
1008216 TTCAA-TTTTTTTAATAGTGTTTTATATTTTCCACCTACAATA-TAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
1008279 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
1008344 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
* *
1008409 TATCGTAATGCAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
1008474 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGG
1008539 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
1008604 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
* *
1008632 TTAAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
1008697 TCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
1008762 CAAAAAATTATTTGATTGTTTTGATA-TTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1008826 TAACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
1008889 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* * * *
1008954 CAAAAGATAACCTTAAATTAATGTTTTCTACAGTAAAAAAAGTATGGACACTTTTATAAAAATGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
1009019 TAGATACTTTACAACTACCTATTACATTATATAAATGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
*
1009084 TATTACATCATATTTTTACTTATTATA
456 TATTACATCATATTTTTACCTATTATA
1009111 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* *
1009176 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTAGA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
1009241 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
1009306 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATATAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
1009371 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
1009436 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
1009501 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
1009566 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
*
1009593 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1009658 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
1009723 C-AAAAA--A-TT-A----TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
1009779 TAACCAAAGATAATAATAAATATGT
196 TAACCAAAGATAATAATAAATATGT
1009804 TTTCCACAGT
Statistics
Matches: 1606, Mismatches: 41, Indels: 21
0.96 0.02 0.01
Matches are distributed among these distances:
473 70 0.04
477 1 0.00
478 2 0.00
479 404 0.25
480 95 0.06
481 506 0.32
482 497 0.31
483 31 0.02
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (482 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
TATTACATCATATTTTTACCTATTATA
Found at i:1010044 original size:228 final size:228
Alignment explanation
Indices: 1009610--1010311 Score: 1201
Period size: 228 Copynumber: 3.1 Consensus size: 228
1009600 TGTCCATACT
**
1009610 TTTTATAAAAA-GAATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATA
1 TTTTATAAAAATGAATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATA
1009674 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA--A-TT-A--
66 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATTATTTGATT
1009733 TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
131 TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
* *
1009798 ATATGTTTTCCACAGTGAAATAAGTATGGACAC
196 ATATATTTTTCACAGTGAAATAAGTATGGACAC
* *
1009831 TTTTATAAAAATGATATATATATTTTTTTTAAAGTTATGTAATTTATGTTTCAA-ATTTTTTAAT
1 TTTTATAAAAATGA-ATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAAT
*
1009895 AGTGTTTCATGTTTTCCACCTATAATATTAATTTAATAATTTCATTTACACAAAAATTATTTGAT
65 AGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATTATTTGAT
1009960 TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATA
130 TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATA
*
1010025 AATATATTTTTCACAGTGAAATAAGTATAGACAC
195 AATATATTTTTCACAGTGAAATAAGTATGGACAC
1010059 TTTTATAAAAATG-ATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATA
1 TTTTATAAAAATGAATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATA
1010123 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAATTATTTGAT
66 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA-AAAATTATTTGA-
1010188 TGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
129 T-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
1010253 TAAATATA-TTTTCACAGTGAAATAAGTATGGACAC
193 TAAATATATTTTTCACAGTGAAATAAGTATGGACAC
* *
1010288 TTTTATAAAAA-GGATAGATACTTT
1 TTTTATAAAAATGAATATATACTTT
1010312 ACAATATAAC
Statistics
Matches: 455, Mismatches: 13, Indels: 18
0.94 0.03 0.04
Matches are distributed among these distances:
221 11 0.02
222 66 0.15
223 36 0.08
224 1 0.00
225 2 0.00
226 39 0.09
227 60 0.13
228 121 0.27
229 48 0.11
230 71 0.16
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (228 bp):
TTTTATAAAAATGAATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATA
GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATTATTTGATT
TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
ATATATTTTTCACAGTGAAATAAGTATGGACAC
Found at i:1018524 original size:22 final size:23
Alignment explanation
Indices: 1018499--1018541 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1018489 CATATCTCTT
1018499 TCTTTTGTTCT-TCATTTTGTTC
1 TCTTTTGTTCTATCATTTTGTTC
* *
1018521 TCTTTTTTTCTATCTTTTTGT
1 TCTTTTGTTCTATCATTTTGT
1018542 ATCGTTGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.05, C:0.16, G:0.07, T:0.72
Consensus pattern (23 bp):
TCTTTTGTTCTATCATTTTGTTC
Found at i:1019971 original size:17 final size:17
Alignment explanation
Indices: 1019934--1019967 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1019924 ATTCATTACT
1019934 ATTTACGTGAATAGTGA
1 ATTTACGTGAATAGTGA
*
1019951 ATTT-CGTGAATGGTGA
1 ATTTACGTGAATAGTGA
1019967 A
1 A
1019968 ATTTTGTCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.35
Consensus pattern (17 bp):
ATTTACGTGAATAGTGA
Found at i:1025870 original size:30 final size:31
Alignment explanation
Indices: 1025802--1025873 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
1025792 TAAAAAAAAA
*
1025802 GTTATATTTCAATCACTAACATTATTAATTT
1 GTTATATTTTAATCACTAACATTATTAATTT
* * *
1025833 ATTATATTTTAATCACTTACACTT-TTGA-TT
1 GTTATATTTTAATCACTAACA-TTATTAATTT
1025863 GTTATATTTTA
1 GTTATATTTTA
1025874 GTCAATGAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 12 0.34
31 21 0.60
32 2 0.06
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.53
Consensus pattern (31 bp):
GTTATATTTTAATCACTAACATTATTAATTT
Found at i:1034681 original size:16 final size:17
Alignment explanation
Indices: 1034654--1034689 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1034644 TATATGAGAA
1034654 AAATTCAATTTAAATTT
1 AAATTCAATTTAAATTT
*
1034671 AAATT-AATTTAATTTT
1 AAATTCAATTTAAATTT
1034687 AAA
1 AAA
1034690 ATAAAGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTCAATTTAAATTT
Found at i:1034774 original size:2 final size:2
Alignment explanation
Indices: 1034767--1034805 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1034757 ATTATTAATG
*
1034767 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1034806 ATCCAGTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1038250 original size:30 final size:29
Alignment explanation
Indices: 1038209--1038305 Score: 115
Period size: 29 Copynumber: 3.3 Consensus size: 29
1038199 CTTCATCAAC
1038209 CTTTAAATTTTAGATAGAATATTAATTTGA
1 CTTTAAATTTTAGATA-AATATTAATTTGA
* * * *
1038239 CTTTGAATTTTAGATAAATATCATTTTAA
1 CTTTAAATTTTAGATAAATATTAATTTGA
*
1038268 C-ATAAATTTTAGATAAAATATTAATTTGA
1 CTTTAAATTTTAGAT-AAATATTAATTTGA
1038297 CTTATAAAT
1 CTT-TAAAT
1038306 CATATAAAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
28 11 0.20
29 23 0.43
30 15 0.28
31 5 0.09
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (29 bp):
CTTTAAATTTTAGATAAATATTAATTTGA
Found at i:1048601 original size:15 final size:15
Alignment explanation
Indices: 1048581--1048619 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
1048571 TTCTTGTTCC
1048581 TCTTCATCGGAACCT
1 TCTTCATCGGAACCT
1048596 TCTTCATCGGAACCT
1 TCTTCATCGGAACCT
1048611 TCTTCATCG
1 TCTTCATCG
1048620 CTCCATGTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.18, C:0.33, G:0.13, T:0.36
Consensus pattern (15 bp):
TCTTCATCGGAACCT
Found at i:1062455 original size:29 final size:30
Alignment explanation
Indices: 1062404--1062465 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
1062394 AAATTTTGTC
* **
1062404 TAGTGACTAAAGTGTAATTTTTG-AAAGTT
1 TAGTGACTAAAGTATAAACTTTGAAAAGTT
*
1062433 TAGTGGCTAAAGTATAAACTTTGAAAAGTT
1 TAGTGACTAAAGTATAAACTTTGAAAAGTT
1062463 TAG
1 TAG
1062466 GGATTGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (30 bp):
TAGTGACTAAAGTATAAACTTTGAAAAGTT
Found at i:1068647 original size:14 final size:14
Alignment explanation
Indices: 1068628--1068662 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1068618 ACTAACTTTT
1068628 CTAATTTCTAACCG
1 CTAATTTCTAACCG
* *
1068642 CTAATTACTAACCT
1 CTAATTTCTAACCG
1068656 CTAATTT
1 CTAATTT
1068663 TTATTTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.40
Consensus pattern (14 bp):
CTAATTTCTAACCG
Found at i:1068857 original size:15 final size:16
Alignment explanation
Indices: 1068816--1068857 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
1068806 TATCTTTGTT
*
1068816 ATTTAATTTTGTGCAC
1 ATTTAATTTTTTGCAC
*
1068832 ATTTAAATTTTTGC-C
1 ATTTAATTTTTTGCAC
*
1068847 ATTTACTTTTT
1 ATTTAATTTTT
1068858 ATTTATTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.24, C:0.12, G:0.07, T:0.57
Consensus pattern (16 bp):
ATTTAATTTTTTGCAC
Found at i:1070462 original size:12 final size:12
Alignment explanation
Indices: 1070429--1070462 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1070419 GTTCTTGAAA
*
1070429 AACAATGCCCAC
1 AACAATGCCTAC
*
1070441 AGCAATGCCTAC
1 AACAATGCCTAC
1070453 AACAATGCCT
1 AACAATGCCT
1070463 TTCATTGGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.35, G:0.12, T:0.15
Consensus pattern (12 bp):
AACAATGCCTAC
Found at i:1072686 original size:7 final size:6
Alignment explanation
Indices: 1072674--1072759 Score: 60
Period size: 5 Copynumber: 15.0 Consensus size: 6
1072664 AAAATGTGAG
* * *
1072674 AGAAAA GGAAAA AGAAAA GATATAAA AG-AAA GGAAAA A-AAAA A-AAAA
1 AGAAAA AGAAAA AGAAAA -AGA-AAA AGAAAA AGAAAA AGAAAA AGAAAA
*
1072721 A-AAAA A-AAAA AG-AAA A-AAAA GGAAAA AGAAGAA AGAAAA
1 AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AGAA-AA AGAAAA
1072760 CAGATAAAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
5 31 0.48
6 22 0.34
7 9 0.14
8 3 0.05
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.02
Consensus pattern (6 bp):
AGAAAA
Found at i:1072703 original size:26 final size:24
Alignment explanation
Indices: 1072657--1072737 Score: 71
Period size: 25 Copynumber: 3.5 Consensus size: 24
1072647 CAAAAAGGAA
* * *
1072657 AAAAAGAAAAATGTGAGAGAAAAGG
1 AAAAAGAAAAATATAAAAG-AAAGG
1072682 AAAAAGAAAAGATATAAAAGAAAGG
1 AAAAAGAAAA-ATATAAAAGAAAGG
**
1072707 AAAAA-AAAAA-A-AAAA-AAAAA
1 AAAAAGAAAAATATAAAAGAAAGG
1072727 AAAAAGAAAAA
1 AAAAAGAAAAA
1072738 AAAGGAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
20 8 0.16
21 9 0.18
22 1 0.02
23 1 0.02
24 4 0.08
25 20 0.41
26 6 0.12
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (24 bp):
AAAAAGAAAAATATAAAAGAAAGG
Found at i:1072714 original size:14 final size:12
Alignment explanation
Indices: 1072676--1072759 Score: 64
Period size: 12 Copynumber: 6.8 Consensus size: 12
1072666 AATGTGAGAG
* *
1072676 AAAAGGAAAAAG
1 AAAAGAAAAAAA
*
1072688 AAAAGATATAAAAG
1 AAAAGA-A-AAAAA
*
1072702 AAAGGAAAAAAA
1 AAAAGAAAAAAA
1072714 AAAA-AAAAAAA
1 AAAAGAAAAAAA
1072725 AAAA-AAAGAAAA
1 AAAAGAAA-AAAA
1072737 AAAAGGAAAAAGAA
1 AAAA-GAAAAA-AA
*
1072751 GAAAGAAAA
1 AAAAGAAAA
1072760 CAGATAAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
11 14 0.23
12 20 0.33
13 9 0.15
14 18 0.30
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.02
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:1072745 original size:10 final size:9
Alignment explanation
Indices: 1072682--1072759 Score: 68
Period size: 9 Copynumber: 8.4 Consensus size: 9
1072672 AGAGAAAAGG
1072682 AAAAAGAAA
1 AAAAAGAAA
* * *
1072691 AGATATAAA
1 AAAAAGAAA
*
1072700 AGAAAGGAAA
1 A-AAAAGAAA
1072710 AAAAA-AAA
1 AAAAAGAAA
*
1072718 AAAAAAAAA
1 AAAAAGAAA
1072727 AAAAAGAAA
1 AAAAAGAAA
1072736 AAAAAGGAAA
1 AAAAA-GAAA
*
1072746 AAGAAGAAA
1 AAAAAGAAA
1072755 GAAAA
1 -AAAA
1072760 CAGATAAAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
8 8 0.15
9 30 0.56
10 16 0.30
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:1072747 original size:1 final size:1
Alignment explanation
Indices: 1072707--1072740 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
1072697 AAAAGAAAGG
*
1072707 AAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1072741 GGAAAAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Done.