Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
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: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 7 of 33
Found at i:826523 original size:16 final size:17
Alignment explanation
Indices: 826504--826540 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
826494 ATCTAGACCC
826504 TTTTTG-TTG-TTGTTT
1 TTTTTGTTTGTTTGTTT
826519 TTTTTGTTTGTTTGTTT
1 TTTTTGTTTGTTTGTTT
826536 TTTTT
1 TTTTT
826541 TCTTTTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 3 0.15
17 11 0.55
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (17 bp):
TTTTTGTTTGTTTGTTT
Found at i:826575 original size:17 final size:16
Alignment explanation
Indices: 826513--826593 Score: 74
Period size: 17 Copynumber: 4.9 Consensus size: 16
826503 CTTTTTGTTG
*
826513 TTGTTTTTTTTGTTTGT
1 TTGTTTTTTTT-TTTTT
826530 TTGTTTTTTTTTCTTTT
1 TTGTTTTTTTTT-TTTT
* * *
826547 TT-TCTCTCTTTTTTT
1 TTGTTTTTTTTTTTTT
826562 TTGTTTTTTGTTTTTTT
1 TTGTTTTTT-TTTTTTT
*
826579 TTCTTTTTTGTTTTT
1 TTGTTTTTT-TTTTT
826594 GGAGGACGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
15 6 0.11
16 10 0.19
17 37 0.70
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.85
Consensus pattern (16 bp):
TTGTTTTTTTTTTTTT
Found at i:830018 original size:12 final size:12
Alignment explanation
Indices: 829977--830011 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
829967 TACAAAGTTC
829977 TCTTCAGAATCT
1 TCTTCAGAATCT
829989 TCTTCAGAATCT
1 TCTTCAGAATCT
830001 TCTTCAGAATC
1 TCTTCAGAATC
830012 AACTTCACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (12 bp):
TCTTCAGAATCT
Found at i:839543 original size:3 final size:3
Alignment explanation
Indices: 839528--839565 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
839518 AACCATCAAA
* *
839528 GAT GAT GAA GAT GAT GAT GAT GAT GAT GAT AAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
839566 GGTTGAATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:844116 original size:13 final size:13
Alignment explanation
Indices: 844098--844122 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
844088 CAAGGTTCTT
844098 TGTATCGATACAA
1 TGTATCGATACAA
844111 TGTATCGATACA
1 TGTATCGATACA
844123 TGGGTTACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:846033 original size:32 final size:33
Alignment explanation
Indices: 845971--846034 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
845961 CACACCCAGA
845971 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
* * *
846004 TGTATTGATACATGTT-CTTTGTATCGATACA
1 TGTATCGATACATATTGCTTAGTATCGATACA
846035 ACACAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCGATACAT
Found at i:846176 original size:43 final size:43
Alignment explanation
Indices: 846115--846216 Score: 177
Period size: 43 Copynumber: 2.4 Consensus size: 43
846105 TACATGGTAA
846115 ATTGTATCGATACATTGAGCCCAACGGCCAAAATTTCAATTGC
1 ATTGTATCGATACATTGAGCCCAACGGCCAAAATTTCAATTGC
* * *
846158 ATTGTATTGATACATTGAGCCCAACGGCTAGAATTTCAATTGC
1 ATTGTATCGATACATTGAGCCCAACGGCCAAAATTTCAATTGC
846201 ATTGTATCGATACATT
1 ATTGTATCGATACATT
846217 ATGAATTGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (43 bp):
ATTGTATCGATACATTGAGCCCAACGGCCAAAATTTCAATTGC
Found at i:847327 original size:167 final size:166
Alignment explanation
Indices: 847091--847515 Score: 505
Period size: 167 Copynumber: 2.5 Consensus size: 166
847081 TTTTTGGAAT
* * * * * * *
847091 TTCTCGTGTTTTCAAATTACGGAGTTTTCTACTCCGTAAATTTTTCAGGGGGATTTTTCTTTGTT
1 TTCTCATGTTTTGAAAATACGAAGTTTTCTACTCCATAAATTTTTCGGGGGGATTTTTCTTGGTT
* ** * *
847156 TTTAATTTTTATAATTTATCAAATATTATTATTTATTTTATATTAAAACAGTTTTCAAAAATTCA
66 TTTAATTTTTAAAATCCATCAAATATGATTATTTATTTCATATTAAAACAGTTTTCAAAAATTCA
* *
847221 TTCATTTTCATGACTTTTTGAATT-TTTTCCTTAAAA
131 TTAATCTTCATGACTTTTT-AATTATTTTCCTTAAAA
*
847257 TTCTCATGTTTTGAAAATACGAAGTTTTCTACTCCATAAATTTTTGGGGGGGGATTTTTCTTGGT
1 TTCTCATGTTTTGAAAATACGAAGTTTTCTACTCCATAAATTTTT-CGGGGGGATTTTTCTTGGT
* *
847322 TTTTAATTTTTAAAATCCATCAAATATGATTATTTATTTCATATTAAATCAGTTTTTAAAAATTC
65 TTTTAATTTTTAAAATCCATCAAATATGATTATTTATTTCATATTAAAACAGTTTTCAAAAATTC
*
847387 ATTAATCTTCATGAGTTTTTAATTATTTTCCTTAAAA
130 ATTAATCTTCATGACTTTTTAATTATTTTCCTTAAAA
* * ** * * *
847424 TTTTCCT-TTTCTCGAAAA-AATAAATTTTCTATTCCATAAATATTTTCGGGGGGATTTTTTTTG
1 TTCTCATGTTT-T-GAAAATACGAAGTTTTCTACTCCATAAAT-TTTTCGGGGGGATTTTTCTTG
* ** * * *
847487 GTCTAAAATTTTTTAAATGCATCTAATAT
63 GTTTTTAATTTTTAAAATCCATCAAATAT
847516 TGACATTGAA
Statistics
Matches: 222, Mismatches: 32, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
166 47 0.21
167 166 0.75
168 9 0.04
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.49
Consensus pattern (166 bp):
TTCTCATGTTTTGAAAATACGAAGTTTTCTACTCCATAAATTTTTCGGGGGGATTTTTCTTGGTT
TTTAATTTTTAAAATCCATCAAATATGATTATTTATTTCATATTAAAACAGTTTTCAAAAATTCA
TTAATCTTCATGACTTTTTAATTATTTTCCTTAAAA
Found at i:848085 original size:11 final size:11
Alignment explanation
Indices: 848070--848107 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
848060 ACTGAAAAAA
848070 AAAAAGAGAGAG
1 AAAAA-AGAGAG
848082 AAAAAAGAGAG
1 AAAAAAGAGAG
848093 AAAAAA-A-AG
1 AAAAAAGAGAG
848102 AAAAAA
1 AAAAAA
848108 AAAGCAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 8 0.31
10 1 0.04
11 12 0.46
12 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AAAAAAGAGAG
Found at i:848108 original size:11 final size:11
Alignment explanation
Indices: 848065--848129 Score: 51
Period size: 12 Copynumber: 5.5 Consensus size: 11
848055 AAAAAACTGA
848065 AAAAAAAAAAG
1 AAAAAAAAAAG
848076 AGAGAGAAAAAAGAG
1 A-A-A-AAAAAA-AG
*
848091 AGAAAAAAAAG
1 AAAAAAAAAAG
848102 -AAAAAAAAAG
1 AAAAAAAAAAG
* *
848112 CAAGAAAAAATG
1 -AAAAAAAAAAG
848124 AAAAAA
1 AAAAAA
848130 TTTGTTAGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
10 9 0.21
11 8 0.19
12 15 0.35
13 2 0.05
14 6 0.14
15 3 0.07
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:848121 original size:13 final size:13
Alignment explanation
Indices: 848067--848110 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
848057 AAAACTGAAA
848067 AAAAAAAAGAGAG
1 AAAAAAAAGAGAG
*
848080 AGAAAAAAGAGAG
1 AAAAAAAAGAGAG
848093 AAAAAAAAGA-A-
1 AAAAAAAAGAGAG
848104 AAAAAAA
1 AAAAAAA
848111 GCAAGAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 7 0.24
12 1 0.03
13 21 0.72
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAGAG
Found at i:849857 original size:13 final size:13
Alignment explanation
Indices: 849839--849868 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
849829 ACTTTTTACC
849839 ATGTATCAATACA
1 ATGTATCAATACA
*
849852 ATGTATCGATACA
1 ATGTATCAATACA
849865 ATGT
1 ATGT
849869 TCCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (13 bp):
ATGTATCAATACA
Found at i:849874 original size:33 final size:33
Alignment explanation
Indices: 849816--849884 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
849806 GCCATTGAGC
* *
849816 ACAATGTATCGATACTTTTTACCATGTATCAAT
1 ACAATGTATCGATACATGTTACCATGTATCAAT
*
849849 ACAATGTATCGATACAATGTT-CCATGTATCGAT
1 ACAATGTATCGATAC-ATGTTACCATGTATCAAT
849882 ACA
1 ACA
849885 TTTCACTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 29 0.91
34 3 0.09
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (33 bp):
ACAATGTATCGATACATGTTACCATGTATCAAT
Found at i:849938 original size:20 final size:20
Alignment explanation
Indices: 849912--849966 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
849902 ACTGCCATTT
849912 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
*
849932 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGAG
* *
849951 CATATATCAATACAAT
1 CATGTATCGATACAAT
849967 ATATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:852058 original size:19 final size:18
Alignment explanation
Indices: 852033--852100 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
852023 AATTCAACGA
852033 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
852051 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
852067 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
852083 TATTGTATCGATACATAA
1 T-TTGTATCGATACATAA
852101 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
18 1 0.02
19 27 0.63
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:852071 original size:32 final size:32
Alignment explanation
Indices: 852035--852097 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
852025 TTCAACGATT
*
852035 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
852067 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
852098 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:852072 original size:13 final size:13
Alignment explanation
Indices: 852054--852078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
852044 ACATAAGTGT
852054 TGTATCGATACAA
1 TGTATCGATACAA
852067 TGTATCGATACA
1 TGTATCGATACA
852079 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:861207 original size:20 final size:20
Alignment explanation
Indices: 861182--861221 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
861172 CCGTTGGGCT
861182 CAATGTATCGATACAATTTA
1 CAATGTATCGATACAATTTA
861202 CAATGTATCGATACAATTTA
1 CAATGTATCGATACAATTTA
861222 ATTATTAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (20 bp):
CAATGTATCGATACAATTTA
Found at i:862571 original size:13 final size:13
Alignment explanation
Indices: 862531--862583 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
862521 CCGTTACAAG
862531 CAATGTATCGATA
1 CAATGTATCGATA
862544 CAA--T-TC-AT-
1 CAATGTATCGATA
862552 C-ATGTATCGATA
1 CAATGTATCGATA
*
862564 CAATGTATCAATA
1 CAATGTATCGATA
862577 CAATGTA
1 CAATGTA
862584 CCATGTATCG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:862571 original size:33 final size:33
Alignment explanation
Indices: 862531--862599 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
862521 CCGTTACAAG
* *
862531 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCAATACAATGT-ACCATGTATCGATA
862564 CAATGTATCAATACAATGTACCATGTATCGATA
1 CAATGTATCAATACAATGTACCATGTATCGATA
862597 CAA
1 CAA
862600 ATAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (33 bp):
CAATGTATCAATACAATGTACCATGTATCGATA
Found at i:862676 original size:19 final size:18
Alignment explanation
Indices: 862627--862684 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
862617 ACTGCCAGTT
862627 TCATGTATCGATACAATTG
1 TCATGTATCGATACAA-TG
862646 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
*
862665 ATCATGTCTCGATACAATG
1 -TCATGTATCGATACAATG
862684 T
1 T
862685 AACGATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.53
20 16 0.44
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:870563 original size:20 final size:20
Alignment explanation
Indices: 870538--870591 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
870528 GTTACAAGCA
*
870538 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGT-ACC
870558 ATGTATCGATACAATGTACC
1 ATGTATCGATACAATGTACC
870578 ATGTATCGATACAA
1 ATGTATCGATACAA
870592 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATGTACC
Found at i:870639 original size:13 final size:13
Alignment explanation
Indices: 870621--870647 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
870611 TGCCAGTTTC
870621 ATGTATCGATACA
1 ATGTATCGATACA
870634 ATGTATCGATACA
1 ATGTATCGATACA
870647 A
1 A
870648 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:871674 original size:42 final size:42
Alignment explanation
Indices: 871628--872179 Score: 260
Period size: 42 Copynumber: 13.1 Consensus size: 42
871618 GCCAATAGGT
* *
871628 AGACAAAGGATAAAGAAGTCTCCCAGGTTTGAGCTGACGGGC
1 AGACAAAAGATAAAGAAGTCTCCCAGGTCTGAGCTGACGGGC
* * * *
871670 AGACAAAGGATAAAGAAGTCTCCCAAGTCT-ATGCCGAGGGGC
1 AGACAAAAGATAAAGAAGTCTCCCAGGTCTGA-GCTGACGGGC
* * * ** **
871712 AGACAAAAGATAAAGAAGTCTCTCGGGTTTGAGCCAATAGGC
1 AGACAAAAGATAAAGAAGTCTCCCAGGTCTGAGCTGACGGGC
* ** * * * *
871754 AGACAAAGGATAAAGAAAGTCTCCTGGGTTTGAACTGACAGGT
1 AGACAAAAGATAAAG-AAGTCTCCCAGGTCTGAGCTGACGGGC
* * * * * *
871797 AGACAAAATATAAAGAAGTCTCTC-GAGTTTAAGCCGAC-AGC
1 AGACAAAAGATAAAGAAGTCTCCCAG-GTCTGAGCTGACGGGC
* * * * * *
871838 TGGACAAAAGATGAAA-AAGTCTCTCGGGTCTAAG-TCGAGGGGT
1 -AGACAAAAGAT-AAAGAAGTCTCCCAGGTCTGAGCT-GACGGGC
* * * * ** * * *
871881 AGAGAAAGGATAAAAAAATCTATCGGGTCTGAACTAACGGGC
1 AGACAAAAGATAAAGAAGTCTCCCAGGTCTGAGCTGACGGGC
* * * *
871923 AGACAAAGGATAAAGAAGTTTCCCTA-GTCTGAGCTGACTGGT
1 AGACAAAAGATAAAGAAGTCTCCC-AGGTCTGAGCTGACGGGC
* * * * *
871965 AGACAAAATATAAAGAAATCTCCTAGGTCTAAG-TCGAC-GGT
1 AGACAAAAGATAAAGAAGTCTCCCAGGTCTGAGCT-GACGGGC
* * * **
872006 AGATAAAAGATGAAGAAGTCTCCCAGATCTGAG-TCGATAGGC
1 AGACAAAAGATAAAGAAGTCTCCCAGGTCTGAGCT-GACGGGC
* ** * * * *
872048 AGACAAAAAGATGAAGTGGTCTCTC-GAGTATGAGTTGACGGGT
1 AGAC-AAAAGATAAAGAAGTCTCCCAG-GTCTGAGCTGACGGGC
* * * * * *
872091 AGACAAAAAGATGAAGAAGTCTCTCAAGTTTGAGCCGACGGGT
1 AGAC-AAAAGATAAAGAAGTCTCCCAGGTCTGAGCTGACGGGC
* * * * *
872134 ATACAAAAAGATAAAAAAGTCTCCTAGGTTTGAGCTGACAGGC
1 AGAC-AAAAGATAAAGAAGTCTCCCAGGTCTGAGCTGACGGGC
872177 AGA
1 AGA
872180 TAAGGGATCA
Statistics
Matches: 394, Mismatches: 97, Indels: 37
0.75 0.18 0.07
Matches are distributed among these distances:
41 41 0.10
42 214 0.54
43 138 0.35
44 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.20
Consensus pattern (42 bp):
AGACAAAAGATAAAGAAGTCTCCCAGGTCTGAGCTGACGGGC
Found at i:871729 original size:84 final size:84
Alignment explanation
Indices: 871625--872179 Score: 329
Period size: 84 Copynumber: 6.6 Consensus size: 84
871615 TAAGCCAATA
* * *
871625 GGTAGACAAAGGATAAAGAAGTCTCCCAGGTTTGAGCTGACGGGCAGACAAAGGATAAAGAAGTC
1 GGTAGACAAAAGATAAAGAAGTCTCTCAGGTTTGAGCTGACGGGCAGACAAAAGATAAAGAAGTC
*
871690 TCCCAAGTCT-ATGCCGAGG
66 TCCCAAGTCTGA-GCCGACG
* * ** ** *
871709 GGCAGACAAAAGATAAAGAAGTCTCTCGGGTTTGAGCCAATAGGCAGACAAAGGATAAAGAAAGT
1 GGTAGACAAAAGATAAAGAAGTCTCTCAGGTTTGAGCTGACGGGCAGACAAAAGATAAAG-AAGT
*** * * * *
871774 CTCCTGGGTTTGAACTGACA
65 CTCCCAAGTCTGAGCCGACG
* * * * *
871794 GGTAGACAAAATATAAAGAAGTCTCTC-GAGTTTAAGCCGAC-AGCTGGACAAAAGATGAAA-AA
1 GGTAGACAAAAGATAAAGAAGTCTCTCAG-GTTTGAGCTGACGGGC-AGACAAAAGAT-AAAGAA
* ** * * *
871856 GTCTCTCGGGTCTAAGTCGAGG
63 GTCTCCCAAGTCTGAGCCGACG
* * * * * * * * * * *
871878 GGTAGAGAAAGGATAAAAAAATCTATCGGGTCTGAACTAACGGGCAGACAAAGGATAAAGAAGTT
1 GGTAGACAAAAGATAAAGAAGTCTCTCAGGTTTGAGCTGACGGGCAGACAAAAGATAAAGAAGTC
* * *
871943 TCCCTAGTCTGAGCTGACT
66 TCCCAAGTCTGAGCCGACG
* * * * * * *
871962 GGTAGACAAAATATAAAGAAATCTC-CTAGGTCTAAG-TCGAC-GGTAGATAAAAGATGAAGAAG
1 GGTAGACAAAAGATAAAGAAGTCTCTC-AGGTTTGAGCT-GACGGGCAGACAAAAGATAAAGAAG
* **
872024 TCTCCC-AGATCTGAGTCGATA
64 TCTCCCAAG-TCTGAGCCGACG
* * ** * * * *
872045 GGCAGACAAAAAGATGAAGTGGTCTCTC-GAGTATGAGTTGACGGGTAGACAAAAAGATGAAGAA
1 GGTAGAC-AAAAGATAAAGAAGTCTCTCAG-GTTTGAGCTGACGGGCAGAC-AAAAGATAAAGAA
* *
872109 GTCTCTCAAGTTTGAGCCGACG
63 GTCTCCCAAGTCTGAGCCGACG
* * *
872131 GGTATACAAAAAGATAAAAAAGTCTC-CTAGGTTTGAGCTGACAGGCAGA
1 GGTAGAC-AAAAGATAAAGAAGTCTCTC-AGGTTTGAGCTGACGGGCAGA
872180 TAAGGGATCA
Statistics
Matches: 353, Mismatches: 98, Indels: 38
0.72 0.20 0.08
Matches are distributed among these distances:
82 2 0.01
83 42 0.12
84 171 0.48
85 69 0.20
86 66 0.19
87 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.20
Consensus pattern (84 bp):
GGTAGACAAAAGATAAAGAAGTCTCTCAGGTTTGAGCTGACGGGCAGACAAAAGATAAAGAAGTC
TCCCAAGTCTGAGCCGACG
Found at i:871817 original size:127 final size:126
Alignment explanation
Indices: 871617--871972 Score: 329
Period size: 127 Copynumber: 2.8 Consensus size: 126
871607 CCTAGGATTA
* * * *
871617 AGCCAATAGGTAGACAAAGGATAAAGAAGTCTCCCAGGTTTGAGCTGACGGGCAGACAAAGGATA
1 AGCCAATAGGCAGACAAAGGATAAAGAAGTCTCCCAGGTTTGAACTGACAGGCAGACAAAAGATA
* **
871682 AAGAAGTCTCCCAAGTCTATGCCGAGGGGC-AGACAAAAGAT-AAAGAAGTCTCTCGGGTTTG
66 AAGAAGTCTCCCAAGTCTAAGCCGA-CAGCTAGACAAAAGATGAAA-AAGTCTCTCGGGTTTG
** * *
871743 AGCCAATAGGCAGACAAAGGATAAAGAAAGTCTCCTGGGTTTGAACTGACAGGTAGACAAAATAT
1 AGCCAATAGGCAGACAAAGGATAAAG-AAGTCTCCCAGGTTTGAACTGACAGGCAGACAAAAGAT
* * * * * *
871808 AAAGAAGTCTCTCGAGTTTAAGCCGACAGCTGGACAAAAGATGAAAAAGTCTCTCGGGTCTA
65 AAAGAAGTCTCCCAAGTCTAAGCCGACAGCTAGACAAAAGATGAAAAAGTCTCTCGGGTTTG
* * ** * * * * ** * * * * *
871870 AGTCGAGGGGTAGAGAAAGGATAAAAAAATCTATCGGGTCTGAACTAACGGGCAGACAAAGGATA
1 AGCCAATAGGCAGACAAAGGATAAAGAAGTCTCCCAGGTTTGAACTGACAGGCAGACAAAAGATA
* * * * * *
871935 AAGAAGTTTCCCTAGTCTGAGCTGACTGGTAGACAAAA
66 AAGAAGTCTCCCAAGTCTAAGCCGACAGCTAGACAAAA
871973 TATAAAGAAA
Statistics
Matches: 184, Mismatches: 43, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
126 85 0.46
127 96 0.52
128 3 0.02
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.19
Consensus pattern (126 bp):
AGCCAATAGGCAGACAAAGGATAAAGAAGTCTCCCAGGTTTGAACTGACAGGCAGACAAAAGATA
AAGAAGTCTCCCAAGTCTAAGCCGACAGCTAGACAAAAGATGAAAAAGTCTCTCGGGTTTG
Found at i:872007 original size:41 final size:41
Alignment explanation
Indices: 871923--872042 Score: 100
Period size: 41 Copynumber: 2.9 Consensus size: 41
871913 ACTAACGGGC
* * * *
871923 AGACAAAGGATAAAGAAGTTTCCCTAG-TCTGAG-CTGACTGGT
1 AGACAAAAGATAAAGAAATCTCCC-AGATCTAAGTC-GAC-GGT
* * *
871965 AGACAAAATATAAAGAAATCTCCTAGGTCTAAGTCGACGGT
1 AGACAAAAGATAAAGAAATCTCCCAGATCTAAGTCGACGGT
* * * *
872006 AGATAAAAGATGAAGAAGTCTCCCAGATCTGAGTCGA
1 AGACAAAAGATAAAGAAATCTCCCAGATCTAAGTCGA
872043 TAGGCAGACA
Statistics
Matches: 63, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
41 35 0.56
42 27 0.43
43 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (41 bp):
AGACAAAAGATAAAGAAATCTCCCAGATCTAAGTCGACGGT
Found at i:872063 original size:43 final size:43
Alignment explanation
Indices: 872010--872157 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 43
872000 GACGGTAGAT
* *
872010 AAAAGATGAAGAAGTCTCCC-AGATCTGAGTCGATAGGCAGACA
1 AAAAGATGAAGAAGTCTCCCGAG-TATGAGTCGACAGGCAGACA
** * * * *
872053 AAAAGATGAAGTGGTCTCTCGAGTATGAGTTGACGGGTAGACA
1 AAAAGATGAAGAAGTCTCCCGAGTATGAGTCGACAGGCAGACA
* * * * * * *
872096 AAAAGATGAAGAAGTCTCTCAAGTTTGAGCCGACGGGTATACA
1 AAAAGATGAAGAAGTCTCCCGAGTATGAGTCGACAGGCAGACA
* *
872139 AAAAGATAAAAAAGTCTCC
1 AAAAGATGAAGAAGTCTCC
872158 TAGGTTTGAG
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
43 84 0.98
44 2 0.02
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.20
Consensus pattern (43 bp):
AAAAGATGAAGAAGTCTCCCGAGTATGAGTCGACAGGCAGACA
Found at i:872424 original size:42 final size:43
Alignment explanation
Indices: 872350--872440 Score: 130
Period size: 42 Copynumber: 2.1 Consensus size: 43
872340 AGAAGGAGTC
* *
872350 TGAGCCGACGGGTAAACAAAAAGATGATGAAGTCTCTCGGGTT
1 TGAGCCGACGGGTAAACAAAAAGATAAAGAAGTCTCTCGGGTT
* * *
872393 TGAGCCGATGGGTAGA-AAAAAGATAAAGAAGTCTCTTGGGTT
1 TGAGCCGACGGGTAAACAAAAAGATAAAGAAGTCTCTCGGGTT
872435 TGAGCC
1 TGAGCC
872441 AACAGGTAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 29 0.67
43 14 0.33
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (43 bp):
TGAGCCGACGGGTAAACAAAAAGATAAAGAAGTCTCTCGGGTT
Found at i:872449 original size:42 final size:42
Alignment explanation
Indices: 872367--872450 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
872357 ACGGGTAAAC
* * * **
872367 AAAAAGATGATGAAGTCTCTCGGGTTTGAGCCGATGGGTAGA
1 AAAAAGATAAAGAAGTCTCTCGGGTTTGAGCCAACAGGTAGA
*
872409 AAAAAGATAAAGAAGTCTCTTGGGTTTGAGCCAACAGGTAGA
1 AAAAAGATAAAGAAGTCTCTCGGGTTTGAGCCAACAGGTAGA
872451 CAATGGATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.23
Consensus pattern (42 bp):
AAAAAGATAAAGAAGTCTCTCGGGTTTGAGCCAACAGGTAGA
Found at i:872574 original size:271 final size:272
Alignment explanation
Indices: 872084--872607 Score: 802
Period size: 271 Copynumber: 1.9 Consensus size: 272
872074 AGTATGAGTT
* *
872084 GACGGGTAGACAAAAAGATGAAGAAGTCTCTCAAGTTTGAGCCGACGGGTATACAAAAAGATAAA
1 GACGGGTAAACAAAAAGATGAAGAAGTCTCTCAAGTTTGAGCCGACGGGTAGACAAAAAGATAAA
** *
872149 AAAGTCTCCTAGGTTTGAGCTGACAGGCAGATAAGGGATCAAAGGTATCAGATAAGGCCAAATAT
66 AAAGTCTCCTAGGTTTGAGCCAACAGGCAGACAAGGGATCAAAGGTATCAGATAAGGCCAAATAT
*
872214 GGTAAATTTGAGCAAAGCTGAACTGTTACATCAGATAGGAATGCAAATCGTTTAACTAGGGTGGC
131 GGTAAATTTGAGCAAAGCTGAACTGTTACATCAGATAAGAATGCAAATCGTTTAACTAGGGTGGC
* * *
872279 AACTCTACATTAAGCAAGAAGGAGGCAGATTTAACTAGGGTAGTAACCATATGTCAAAACAAGAA
196 AACTCTACATCAAACAAAAAGGAGGCAGATTTAACTAGGGTAGTAACCATATGTCAAAACAAGAA
872344 GGAGTCTGAGCC
261 GGAGTCTGAGCC
* ** *
872356 GACGGGTAAACAAAAAGATGATGAAGTCTCTCGGGTTTGAGCCGATGGGTAGA-AAAAAGATAAA
1 GACGGGTAAACAAAAAGATGAAGAAGTCTCTCAAGTTTGAGCCGACGGGTAGACAAAAAGATAAA
* * * * *
872420 GAAGTCTCTTGGGTTTGAGCCAACAGGTAGACAATGGATCAAAGGTATCAGATAAGGCCAAATAT
66 AAAGTCTCCTAGGTTTGAGCCAACAGGCAGACAAGGGATCAAAGGTATCAGATAAGGCCAAATAT
*
872485 GGTAAATTTGA-CTAAGGCTGAACTGTTACATCAGATAAGAATGCAAATCGTTTAACTAGGGTGG
131 GGTAAATTTGAGC-AAAGCTGAACTGTTACATCAGATAAGAATGCAAATCGTTTAACTAGGGTGG
* * * *
872549 TAAC-CATACGTCAAACAAAAAGGAGGTAGATTTAACTAGGGTGGTAACCATATGTCAAA
195 CAACTC-TACATCAAACAAAAAGGAGGCAGATTTAACTAGGGTAGTAACCATATGTCAAA
872608 TCAAAATGAA
Statistics
Matches: 227, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
270 2 0.01
271 178 0.78
272 47 0.21
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.22
Consensus pattern (272 bp):
GACGGGTAAACAAAAAGATGAAGAAGTCTCTCAAGTTTGAGCCGACGGGTAGACAAAAAGATAAA
AAAGTCTCCTAGGTTTGAGCCAACAGGCAGACAAGGGATCAAAGGTATCAGATAAGGCCAAATAT
GGTAAATTTGAGCAAAGCTGAACTGTTACATCAGATAAGAATGCAAATCGTTTAACTAGGGTGGC
AACTCTACATCAAACAAAAAGGAGGCAGATTTAACTAGGGTAGTAACCATATGTCAAAACAAGAA
GGAGTCTGAGCC
Found at i:872598 original size:44 final size:44
Alignment explanation
Indices: 872535--872745 Score: 192
Period size: 44 Copynumber: 4.8 Consensus size: 44
872525 ATGCAAATCG
* *
872535 TTTAACTAGGGTGGTAACCATACGTCAAACAAAAAGGAGGTAGA
1 TTTAACTAGGGTGGTAACCATACGTCAAACAAAAAGGAAGCAGA
* *
872579 TTTAACTAGGGTGGTAACCATATGTCAAATC-AAAATGAAG-AGAA
1 TTTAACTAGGGTGGTAACCATACGTCAAA-CAAAAAGGAAGCAG-A
* * * * * *
872623 TCTAACTAGGGTGGTAACCATACATCAGATAAGAAGGAGGCAGA
1 TTTAACTAGGGTGGTAACCATACGTCAAACAAAAAGGAAGCAGA
* * * * ** *
872667 TTTGACCATGGTGGTAACCATACGTCAGACAGGAAGGAAACAGA
1 TTTAACTAGGGTGGTAACCATACGTCAAACAAAAAGGAAGCAGA
** * *
872711 TTTGGCCAGGGTGGTAACCATACGACAAATCAAAA
1 TTTAACTAGGGTGGTAACCATACGTCAAA-CAAAA
872746 TGAAAAGAAT
Statistics
Matches: 136, Mismatches: 26, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
43 2 0.01
44 128 0.94
45 6 0.04
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (44 bp):
TTTAACTAGGGTGGTAACCATACGTCAAACAAAAAGGAAGCAGA
Found at i:872748 original size:132 final size:132
Alignment explanation
Indices: 872544--872866 Score: 389
Period size: 132 Copynumber: 2.4 Consensus size: 132
872534 GTTTAACTAG
*** * * *
872544 GGTGGTAACCATACGTCAAACAAAAAGGAGGTAGATTTAACTAGGGTGGTAACCATATGTCAAAT
1 GGTGGTAACCATACGTCAAACAAAAAGGAAACAGATTTAACCAGGGTGGTAACCATACGACAAAT
* * * *
872609 CAAAATGAAGAGAATCTAACTAGGGTGGTAACCATACATCAGATAAGAAGGAGGCAGATTTGACC
66 CAAAATGAAAAGAATCTAACTAGGGTGGTAACCATACATCAGACAAGAAAGAGGCAGACTTGACC
*
872674 AT
131 AA
* ** **
872676 GGTGGTAACCATACGTCAGACAGGAAGGAAACAGATTTGGCCAGGGTGGTAACCATACGACAAAT
1 GGTGGTAACCATACGTCAAACAAAAAGGAAACAGATTTAACCAGGGTGGTAACCATACGACAAAT
* * *
872741 CAAAATGAAAAGAATCTGACTAGGGTGGTAACTATACATCAGACAGGAAAGAGGCAGACTTGACC
66 CAAAATGAAAAGAATCTAACTAGGGTGGTAACCATACATCAGACAAGAAAGAGGCAGACTTGACC
872806 AA
131 AA
* * * * * *
872808 GGTGGGAACCATACGCCAAATC-AGAATGAAA-AGAATCTAACCAAGGTGGTAACCATACG
1 GGTGGTAACCATACGTCAAA-CAAAAAGGAAACAG-ATTTAACCAGGGTGGTAACCATACG
872867 TTAGATAGGA
Statistics
Matches: 161, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
131 2 0.01
132 158 0.98
133 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (132 bp):
GGTGGTAACCATACGTCAAACAAAAAGGAAACAGATTTAACCAGGGTGGTAACCATACGACAAAT
CAAAATGAAAAGAATCTAACTAGGGTGGTAACCATACATCAGACAAGAAAGAGGCAGACTTGACC
AA
Found at i:872766 original size:44 final size:44
Alignment explanation
Indices: 872586--872866 Score: 157
Period size: 44 Copynumber: 6.4 Consensus size: 44
872576 AGATTTAACT
* * * * *
872586 AGGGTGGTAACCATATGTCAAATCAAAATGAAGAGAATCTAACT
1 AGGGTGGTAACCATACGACAAATCAAAATGAAAAGAATCTGACC
* * ** *
872630 AGGGTGGTAACCATAC-ATCAGAT-AAGAAGGAGGCAG-ATTTGACC
1 AGGGTGGTAACCATACGA-CAAATCAA-AATGA-AAAGAATCTGACC
* * * * * * *
872674 ATGGTGGTAACCATACGTCAGA-CAGGAAGGAAACAG-ATTTGGCC
1 AGGGTGGTAACCATACGACAAATCA-AAATGAAA-AGAATCTGACC
*
872718 AGGGTGGTAACCATACGACAAATCAAAATGAAAAGAATCTGACT
1 AGGGTGGTAACCATACGACAAATCAAAATGAAAAGAATCTGACC
* * ** *
872762 AGGGTGGTAACTATAC-ATCAGA-CAGGAAA-GAGGCAGACT-TGACC
1 AGGGTGGTAACCATACGA-CAAATCA--AAATGA-AAAGAATCTGACC
* * * * *
872806 AAGGTGGGAACCATACGCCAAATCAGAATGAAAAGAATCTAACC
1 AGGGTGGTAACCATACGACAAATCAAAATGAAAAGAATCTGACC
*
872850 AAGGTGGTAACCATACG
1 AGGGTGGTAACCATACG
872867 TTAGATAGGA
Statistics
Matches: 180, Mismatches: 40, Indels: 34
0.71 0.16 0.13
Matches are distributed among these distances:
43 13 0.07
44 154 0.86
45 13 0.07
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (44 bp):
AGGGTGGTAACCATACGACAAATCAAAATGAAAAGAATCTGACC
Found at i:872768 original size:88 final size:88
Alignment explanation
Indices: 872671--872957 Score: 301
Period size: 88 Copynumber: 3.3 Consensus size: 88
872661 GGCAGATTTG
* * * * * *
872671 ACCATGGTGGTAACCATACGTCAGACAGGAAGGAAACAGATTTGGCCAGGGTGGTAACCATACGA
1 ACCAAGGTGGTAACCATACGTCAGACAGGAAAGAAACAGACTTGACCAAGGTGGGAACCATACGA
*
872736 CAAATCAAAATGAAAAGAATCTG
66 CAAATCAAAATGAAAAGAATCTA
* * * * ** *
872759 ACTAGGGTGGTAACTATACATCAGACAGGAAAGAGGCAGACTTGACCAAGGTGGGAACCATACGC
1 ACCAAGGTGGTAACCATACGTCAGACAGGAAAGAAACAGACTTGACCAAGGTGGGAACCATACGA
*
872824 CAAATCAGAATGAAAAGAATCTA
66 CAAATCAAAATGAAAAGAATCTA
* * ** * * * *
872847 ACCAAGGTGGTAACCATACGTTAGATAGGAAAGAGGCAGACTTCATC-A-G-GGTAACCATACGT
1 ACCAAGGTGGTAACCATACGTCAGACAGGAAAGAAACAGACTTGACCAAGGTGGGAACCATACGA
**
872909 CAAATTGAAATGAAAAGAATCTA
66 CAAATCAAAATGAAAAGAATCTA
* * *
872932 ATCAAGGTAGTAACCATATGTCAGAC
1 ACCAAGGTGGTAACCATACGTCAGAC
872958 CAAAATAAGA
Statistics
Matches: 167, Mismatches: 32, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
85 52 0.31
86 1 0.01
87 1 0.01
88 113 0.68
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (88 bp):
ACCAAGGTGGTAACCATACGTCAGACAGGAAAGAAACAGACTTGACCAAGGTGGGAACCATACGA
CAAATCAAAATGAAAAGAATCTA
Found at i:873139 original size:60 final size:60
Alignment explanation
Indices: 873045--873777 Score: 443
Period size: 60 Copynumber: 12.2 Consensus size: 60
873035 ACACCAATAT
* ** * * * *
873045 AGTCAAATGAGGAAGGTTTTGGCTGAATACAGTTAAAAGGGGTAAGATTTGACCGAGTAC
1 AGTCAAATGAGGAAAGACTTGACCGAATACAGTCAAAAGGGGTAAGATTTGATCGAGTAC
* * * ** * * *
873105 AGTCAAATGAGGAAAGACTTGACTGAATATAGTTAAGCGAGGGTGAA-ATTTGA-CTAAATAT
1 AGTCAAATGAGGAAAGACTTGACCGAATACAGTCAAAAG-GGGT-AAGATTTGATC-GAGTAC
* ** ** * * * * *
873166 AATCAAATGAGGATTGTTTTGACCAAATATATTCAAGA-GGGTGAGATTTGA-CTGAGTAC
1 AGTCAAATGAGGAAAGACTTGACCGAATACAGTCAAAAGGGGTAAGATTTGATC-GAGTAC
* * * * * *
873225 AGTCAAATAAGGAAAGACTTGATCGAATACAATCAAGCGAAGGTG-AA-ACTTTGATCGAATAT
1 AGTCAAATGAGGAAAGACTTGACCGAATACAGTCAA---AAGGGGTAAGA-TTTGATCGAGTAC
* * * * *
873287 AGTTAAATAAGGTTAA-TCTTGACCGAATACAGTCAAGAGGGGTAAGATTTGATCGAGTAC
1 AGTCAAATGAGG-AAAGACTTGACCGAATACAGTCAAAAGGGGTAAGATTTGATCGAGTAC
* * * *
873347 AGTCAAATAAGGAAAGACTTGACTGAATACAGTCAAGCAA-GGGTGAA-ATTTGATCAAATAC
1 AGTCAAATGAGGAAAGACTTGACCGAATACAGTCAA--AAGGGGT-AAGATTTGATCGAGTAC
* * * * ** * *
873408 AGTCAAAT-ATGGATTA-TCTTAACCGAATACAGTAAAAAAAGGTGAGATTTGA-CTAAGTAC
1 AGTCAAATGA-GGA-AAGACTTGACCGAATACAGTCAAAAGGGGTAAGATTTGATC-GAGTAC
* * * * * *
873468 AATCAAATGAGGAAAAACTTGACCGAA-ACAGTC-AAAGGGATGAAAATTTGATCGAATAT
1 AGTCAAATGAGGAAAGACTTGACCGAATACAGTCAAAAGGGGT-AAGATTTGATCGAGTAC
* * * * * *
873527 AGTCAAATAAGGACAGTCTTGACCAAATACAGTCAAGAGGGGTAAGATTTGATCGAGTAT
1 AGTCAAATGAGGAAAGACTTGACCGAATACAGTCAAAAGGGGTAAGATTTGATCGAGTAC
* ** ** * * * *
873587 AGTCAAATAAGGAAAGACTTGAATGAATACAGTCAAGCGAGGTTCAA-ATTTGACCAAATAC
1 AGTCAAATGAGGAAAGACTTGACCGAATACAGTCAAAAG-GGGT-AAGATTTGATCGAGTAC
** * * * * * *
873648 AGTCAAATGAGGATTGTCTTGATCGAATACAATCAAGAGGGGTGAGATTTGATCGAGTAT
1 AGTCAAATGAGGAAAGACTTGACCGAATACAGTCAAAAGGGGTAAGATTTGATCGAGTAC
* * * * * * *
873708 GGTCAAATTATGAAAGACTTGACCGAATACAGTCAAGAGGGGTAAGATTTGATTGGGTAT
1 AGTCAAATGAGGAAAGACTTGACCGAATACAGTCAAAAGGGGTAAGATTTGATCGAGTAC
873768 AGTCAAATGA
1 AGTCAAATGA
873778 TGATGGAAAA
Statistics
Matches: 518, Mismatches: 124, Indels: 62
0.74 0.18 0.09
Matches are distributed among these distances:
58 6 0.01
59 89 0.17
60 234 0.45
61 137 0.26
62 47 0.09
63 5 0.01
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (60 bp):
AGTCAAATGAGGAAAGACTTGACCGAATACAGTCAAAAGGGGTAAGATTTGATCGAGTAC
Found at i:873378 original size:30 final size:30
Alignment explanation
Indices: 873213--873622 Score: 112
Period size: 30 Copynumber: 13.6 Consensus size: 30
873203 AGGGTGAGAT
*
873213 TTGACTGAGTACAGTCAAATAAGGAAAGAC
1 TTGACTGAATACAGTCAAATAAGGAAAGAC
* ** *
873243 TTGA-TCGAATACAATCAAGCGAAGGTGAA-AC
1 TTGACT-GAATACAGTCAA-ATAAGG-AAAGAC
* * * *
873274 TTTGA-TCGAATATAGTTAAATAAGGTTAA-TC
1 -TTGACT-GAATACAGTCAAATAAGG-AAAGAC
* ** * *
873305 TTGACCGAATACAGTCAAGA-GGGGTAAGAT
1 TTGACTGAATACAGTCAA-ATAAGGAAAGAC
*
873335 TTGA-TCGAGTACAGTCAAATAAGGAAAGAC
1 TTGACT-GAATACAGTCAAATAAGGAAAGAC
** * *
873365 TTGACTGAATACAGTCAAGCAAGGGTGAA-AT
1 TTGACTGAATACAGTCAAATAA-GG-AAAGAC
* * * *
873396 TTGA-TCAAATACAGTCAAATATGGATTA-TC
1 TTGACT-GAATACAGTCAAATAAGGA-AAGAC
* * * * ** *
873426 TTAACCGAATACAGTAAAAAAAGGTGAGAT
1 TTGACTGAATACAGTCAAATAAGGAAAGAC
* * *
873456 TTGACT-AAGTACAATCAAATGAGGAAAAAC
1 TTGACTGAA-TACAGTCAAATAAGGAAAGAC
* ** * *
873486 TTGACCGAA-ACAGTCAAAGGGATGAAA-AT
1 TTGACTGAATACAGTCAAA-TAAGGAAAGAC
* * *
873515 TTGA-TCGAATATAGTCAAATAAGGACAGTC
1 TTGACT-GAATACAGTCAAATAAGGAAAGAC
** ** * *
873545 TTGACCAAATACAGTCAAGA-GGGGTAAGAT
1 TTGACTGAATACAGTCAA-ATAAGGAAAGAC
* *
873575 TTGA-TCGAGTATAGTCAAATAAGGAAAGAC
1 TTGACT-GAATACAGTCAAATAAGGAAAGAC
*
873605 TTGAATGAATACAGTCAA
1 TTGACTGAATACAGTCAA
873623 GCGAGGTTCA
Statistics
Matches: 263, Mismatches: 90, Indels: 54
0.65 0.22 0.13
Matches are distributed among these distances:
29 29 0.11
30 176 0.67
31 39 0.15
32 19 0.07
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.23
Consensus pattern (30 bp):
TTGACTGAATACAGTCAAATAAGGAAAGAC
Found at i:873474 original size:121 final size:120
Alignment explanation
Indices: 873069--873760 Score: 683
Period size: 121 Copynumber: 5.8 Consensus size: 120
873059 GGTTTTGGCT
* * *
873069 GAATACAGTTAAAAGGGGTAAGATTTGACCGAGTACAGTCAAATGAGGAAAGACTTGACTGAATA
1 GAATACAGTCAAAAGGGGTAAGATTTGATCGAGTACAGTCAAATAAGGAAAGACTTGACTGAATA
* * * * * *
873134 TAGTTAAGCGAGGGTGAAATTTGA-CTAAATATAATCAAATGAGGATTGTTTTGACC
66 CAGTCAAGCAAGGGTGAAATTTGATC-AAATATAGTCAAAT-AGGATTATCTTGACC
* * * * *
873190 AAATATATTCAAGA-GGGTGAGATTTGA-CTGAGTACAGTCAAATAAGGAAAGACTTGA-TCGAA
1 GAATACAGTCAAAAGGGGTAAGATTTGATC-GAGTACAGTCAAATAAGGAAAGACTTGACT-GAA
* * *
873252 TACAATCAAGCGAA-GGTGAAACTTTGATCGAATATAGTTAAATAAGG-TTAATCTTGACC
64 TACAGTCAAGC-AAGGGTGAAA-TTTGATCAAATATAGTCAAAT-AGGATT-ATCTTGACC
*
873311 GAATACAGTCAAGAGGGGTAAGATTTGATCGAGTACAGTCAAATAAGGAAAGACTTGACTGAATA
1 GAATACAGTCAAAAGGGGTAAGATTTGATCGAGTACAGTCAAATAAGGAAAGACTTGACTGAATA
* *
873376 CAGTCAAGCAAGGGTGAAATTTGATCAAATACAGTCAAATATGGATTATCTTAACC
66 CAGTCAAGCAAGGGTGAAATTTGATCAAATATAGTCAAATA-GGATTATCTTGACC
* ** * * * * * *
873432 GAATACAGTAAAAAAAGGTGAGATTTGA-CTAAGTACAATCAAATGAGGAAAAACTTGACCGAA-
1 GAATACAGTCAAAAGGGGTAAGATTTGATC-GAGTACAGTCAAATAAGGAAAGACTTGACTGAAT
* *
873495 ACAGTC-A--AAGGGATGAAAATTTGATCGAATATAGTCAAATAAGGA-CAGTCTTGACC
65 ACAGTCAAGCAAGGG-TG-AAATTTGATCAAATATAGTCAAAT-AGGATTA-TCTTGACC
* * * *
873551 AAATACAGTCAAGAGGGGTAAGATTTGATCGAGTATAGTCAAATAAGGAAAGACTTGAATGAATA
1 GAATACAGTCAAAAGGGGTAAGATTTGATCGAGTACAGTCAAATAAGGAAAGACTTGACTGAATA
* * * * * * *
873616 CAGTCAAGCGAGGTTCAAATTTGACCAAATACAGTCAAATGAGGATTGTCTTGATC
66 CAGTCAAGCAAGGGTGAAATTTGATCAAATATAGTCAAAT-AGGATTATCTTGACC
* * * ** * * *
873672 GAATACAATCAAGAGGGGTGAGATTTGATCGAGTATGGTCAAATTATGAAAGACTTGACCGAATA
1 GAATACAGTCAAAAGGGGTAAGATTTGATCGAGTACAGTCAAATAAGGAAAGACTTGACTGAATA
*
873737 CAGTCAAG-AGGGGT-AAGATTTGAT
66 CAGTCAAGCAAGGGTGAA-ATTTGAT
873761 TGGGTATAGT
Statistics
Matches: 472, Mismatches: 75, Indels: 49
0.79 0.13 0.08
Matches are distributed among these distances:
117 5 0.01
118 3 0.01
119 85 0.18
120 84 0.18
121 226 0.48
122 64 0.14
123 5 0.01
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (120 bp):
GAATACAGTCAAAAGGGGTAAGATTTGATCGAGTACAGTCAAATAAGGAAAGACTTGACTGAATA
CAGTCAAGCAAGGGTGAAATTTGATCAAATATAGTCAAATAGGATTATCTTGACC
Found at i:873580 original size:240 final size:239
Alignment explanation
Indices: 873070--873775 Score: 855
Period size: 240 Copynumber: 2.9 Consensus size: 239
873060 GTTTTGGCTG
* * * * *
873070 AATACAGTTAAAAGGGGTAAGATTTGACCGAGTACAGTCAAATGAGGAAAGACTTGACTGAATAT
1 AATACAGTCAAGAGGGGTAAGATTTGATCGAGTACAGTCAAATAAGGAAAGACTTGACTGAATAC
* * * * * * **
873135 AGTTAAGCGAGGGTGAAATTTGACTAAATATAATCAAATGAGGATTGTTTTGACCAAATATATTC
66 AGTCAAGCGAGGGTGAAATTTGAC-AAATACAGTCAAATGAGGATTGTCTTGACCGAATACATAA
* * *
873200 AAGAGGGTGAGATTTGACTGAGTACAGTCAAATAAGGAAAGACTTGATCGAATACAATC-AAGCG
130 AAAAGGGTGAGATTTGACTGAGTACAGTCAAATAAGGAAAGACTTGACCGAATACAGTCAAAG-G
* * ** *
873264 AAGGTGAAACTTTGATCGAATATAGTTAAATAAGGTTAATCTTGACCG
194 --GGTGAAAATTTGATCGAATATAGTCAAATAAGGACAATCTTGACCA
873312 AATACAGTCAAGAGGGGTAAGATTTGATCGAGTACAGTCAAATAAGGAAAGACTTGACTGAATAC
1 AATACAGTCAAGAGGGGTAAGATTTGATCGAGTACAGTCAAATAAGGAAAGACTTGACTGAATAC
* * *
873377 AGTCAAGCAAGGGTGAAATTTGATCAAATACAGTCAAAT-ATGGATTATCTTAACCGAATACAGT
66 AGTCAAGCGAGGGTGAAATTTGA-CAAATACAGTCAAATGA-GGATTGTCTTGACCGAATACA-T
* * * * *
873441 AAAAAAAGGTGAGATTTGACTAAGTACAATCAAATGAGGAAAAACTTGACCGAA-ACAGTCAAAG
128 AAAAAAGGGTGAGATTTGACTGAGTACAGTCAAATAAGGAAAGACTTGACCGAATACAGTCAAAG
* *
873505 GGATGAAAATTTGATCGAATATAGTCAAATAAGGACAGTCTTGACCA
193 GGGTGAAAATTTGATCGAATATAGTCAAATAAGGACAATCTTGACCA
* *
873552 AATACAGTCAAGAGGGGTAAGATTTGATCGAGTATAGTCAAATAAGGAAAGACTTGAATGAATAC
1 AATACAGTCAAGAGGGGTAAGATTTGATCGAGTACAGTCAAATAAGGAAAGACTTGACTGAATAC
* * * *
873617 AGTCAAGCGAGGTTCAAATTTGACCAAATACAGTCAAATGAGGATTGTCTTGATCGAATACAATC
66 AGTCAAGCGAGGGTGAAATTTGA-CAAATACAGTCAAATGAGGATTGTCTTGACCGAATAC-ATA
* * ** * *
873682 AAGAGGGGTGAGATTTGA-TCGAGTATGGTCAAATTATGAAAGACTTGACCGAATACAGTCAAGA
129 AAAAAGGGTGAGATTTGACT-GAGTACAGTCAAATAAGGAAAGACTTGACCGAATACAGTCAA-A
* * **
873746 GGGGT-AAGATTTGATTGGGTATAGTCAAAT
192 GGGGTGAAAATTTGATCGAATATAGTCAAAT
873776 GATGATGGAA
Statistics
Matches: 399, Mismatches: 56, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
239 1 0.00
240 196 0.49
241 32 0.08
242 120 0.30
243 50 0.13
ACGTcount: A:0.40, C:0.12, G:0.23, T:0.25
Consensus pattern (239 bp):
AATACAGTCAAGAGGGGTAAGATTTGATCGAGTACAGTCAAATAAGGAAAGACTTGACTGAATAC
AGTCAAGCGAGGGTGAAATTTGACAAATACAGTCAAATGAGGATTGTCTTGACCGAATACATAAA
AAAGGGTGAGATTTGACTGAGTACAGTCAAATAAGGAAAGACTTGACCGAATACAGTCAAAGGGG
TGAAAATTTGATCGAATATAGTCAAATAAGGACAATCTTGACCA
Found at i:873804 original size:35 final size:35
Alignment explanation
Indices: 873765--873857 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
873755 TTTGATTGGG
873765 TATAGTCAAATGATGATGGAAAAAGTTTGATCAGA
1 TATAGTCAAATGATGATGGAAAAAGTTTGATCAGA
* * * *
873800 TATAGTCAAACGATGATAGAAAGAGTTTGATTAGA
1 TATAGTCAAATGATGATGGAAAAAGTTTGATCAGA
* *
873835 TACAGTC-AATCAATGATGGAAAA
1 TATAGTCAAAT-GATGATGGAAAA
873858 TGCTTAAGAG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
34 2 0.04
35 46 0.96
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.27
Consensus pattern (35 bp):
TATAGTCAAATGATGATGGAAAAAGTTTGATCAGA
Found at i:875822 original size:6 final size:7
Alignment explanation
Indices: 875805--875839 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
875795 TTCCTCATCT
875805 TTTTTCA
1 TTTTTCA
875812 TTTTTCA
1 TTTTTCA
*
875819 TTTTTTCT
1 -TTTTTCA
875827 TTTTTCA
1 TTTTTCA
875834 TTTTTC
1 TTTTTC
875840 TCTTTTTTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:875831 original size:16 final size:16
Alignment explanation
Indices: 875812--875904 Score: 57
Period size: 16 Copynumber: 5.8 Consensus size: 16
875802 TCTTTTTTCA
875812 TTTTTCATTTTTTC-T
1 TTTTTCATTTTTTCTT
875827 TTTTTCATTTTTCTCTT
1 TTTTTCATTTTT-TCTT
** **
875844 TTTTGGACATTTTCTT
1 TTTTTCATTTTTTCTT
** *
875860 CATTGCACTTTTTT-TT
1 TTTTTCA-TTTTTTCTT
875876 TCATTTTCA-TTTTTCTT
1 T--TTTTCATTTTTTCTT
*
875893 TTTTTTATTTTT
1 TTTTTCATTTTT
875905 CTTATTTATG
Statistics
Matches: 58, Mismatches: 13, Indels: 13
0.69 0.15 0.15
Matches are distributed among these distances:
15 17 0.29
16 21 0.36
17 16 0.28
18 4 0.07
ACGTcount: A:0.10, C:0.14, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTTCATTTTTTCTT
Found at i:875845 original size:15 final size:15
Alignment explanation
Indices: 875804--875847 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
875794 TTTCCTCATC
*
875804 TTTTTTCATTTTTCA
1 TTTTTTCTTTTTTCA
875819 TTTTTTCTTTTTTCA
1 TTTTTTCTTTTTTCA
875834 TTTTTCTCTTTTTT
1 TTTTT-TCTTTTTT
875848 GGACATTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 19 0.70
16 8 0.30
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTCTTTTTTCA
Found at i:878433 original size:167 final size:165
Alignment explanation
Indices: 878254--878728 Score: 462
Period size: 167 Copynumber: 2.9 Consensus size: 165
878244 ATGGGTTTAA
* * * * ** *
878254 AATTTTTAAAATTCATAAAATATTATTATTTTATTTATATTAAATCAGTCTTCTGAAATGCATTC
1 AATTTTTAAAATTCATAAAATATTATCATTTGATTCATATTAAATCAGTTTTCAAAAATTCATTC
* *
878319 ATTTTCATGAGTTTTTGAATTTTTTCCTTGAAATCCCATTGTTTTCGAAAAATAGAGTTTTCTAC
66 ATTTTCATAAGTTTTTGAATTTTTT-CTTGAAATCCC-TTATTTTCGAAAAATAGAGTTTTCTAC
* * **
878384 TTCGTAAATGTTTTCAGGAGGATTTTTATTACTTTTT
129 TTCGTAAATGTTTTCAAGAGGATATTTATTACTTTGC
* *
878421 AATTTTTAAAATTCATCAAAA-ATTATCATTTGATTCACATTAAATC-TTTTTGCAAAAATTCAC
1 AATTTTTAAAATTCAT-AAAATATTATCATTTGATTCATATTAAATCAGTTTT-CAAAAATTCA-
* * * * * * *
878484 TT-ATATTAATAAATTTTTCAATTTTTTTCTTGAAATTCCCTTATTTTTGAAATATGGAGTTTTC
63 TTCATTTTCATAAGTTTTTGAA-TTTTTTCTTGAAA-TCCCTTATTTTCGAAAAATAGAGTTTTC
* **
878548 TAC-TC-TAAAAATGTTTTCAAGAGGATATTTCTTGGTTTGC
126 TACTTCGT--AAATGTTTTCAAGAGGATATTTATTACTTTGC
** * * *
878588 AATTTTTAAAACACATAAAATATTGTCATTTGATTCATATTAAATCAGTTTTAAAAAATTAATTC
1 AATTTTTAAAATTCATAAAATATTATCATTTGATTCATATTAAATCAGTTTTCAAAAATTCATTC
* * * * * *
878653 ATTTCCATAAG-TTTTGGATTTTTT-TTGAAATGCCTTTTTTTTTCAAAAAATTGAG-TTTCTAC
66 ATTTTCATAAGTTTTTGAATTTTTTCTTGAAAT-CC-CTTATTTTCGAAAAATAGAGTTTTCTAC
*
878715 TTCGTAAATTTTTT
129 TTCGTAAATGTTTT
878729 GGGGCGATTT
Statistics
Matches: 249, Mismatches: 45, Indels: 31
0.77 0.14 0.10
Matches are distributed among these distances:
163 1 0.00
164 23 0.09
165 23 0.09
166 17 0.07
167 165 0.66
168 20 0.08
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (165 bp):
AATTTTTAAAATTCATAAAATATTATCATTTGATTCATATTAAATCAGTTTTCAAAAATTCATTC
ATTTTCATAAGTTTTTGAATTTTTTCTTGAAATCCCTTATTTTCGAAAAATAGAGTTTTCTACTT
CGTAAATGTTTTCAAGAGGATATTTATTACTTTGC
Found at i:879183 original size:24 final size:24
Alignment explanation
Indices: 879156--879202 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
879146 AAACTTAGCA
*
879156 AAAAAAGGGAGAAAAAA-AAGAAAG
1 AAAAAAGAGA-AAAAAACAAGAAAG
879180 AAAAAAGAGAAAAAAACAAGAAA
1 AAAAAAGAGAAAAAAACAAGAAA
879203 AATAGCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (24 bp):
AAAAAAGAGAAAAAAACAAGAAAG
Found at i:880157 original size:13 final size:13
Alignment explanation
Indices: 880139--880163 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
880129 ATAATGCACA
880139 GTATCGATACATT
1 GTATCGATACATT
880152 GTATCGATACAT
1 GTATCGATACAT
880164 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:880176 original size:20 final size:21
Alignment explanation
Indices: 880151--880203 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
880141 ATCGATACAT
*
880151 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
880171 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
880192 TGTATCGATACA
1 TGTATCGATACA
880204 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:880282 original size:13 final size:13
Alignment explanation
Indices: 880264--880288 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
880254 ACATACAAGA
880264 TGTATCGATACAG
1 TGTATCGATACAG
880277 TGTATCGATACA
1 TGTATCGATACA
880289 TGACCAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:880307 original size:34 final size:32
Alignment explanation
Indices: 880245--880309 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 32
880235 CCTAACTGTT
880245 TGTATCGATACATACAAGATGTATCGATACAG
1 TGTATCGATACATACAAGATGTATCGATACAG
880277 TGTATCGATACATGACCAA-ATTGTATCGATACA
1 TGTATCGATACAT-A-CAAGA-TGTATCGATACA
880310 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 13 0.43
33 2 0.07
34 15 0.50
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (32 bp):
TGTATCGATACATACAAGATGTATCGATACAG
Found at i:880666 original size:20 final size:20
Alignment explanation
Indices: 880641--880696 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
880631 AAAACCCTTA
*
880641 AAAGTATCGATACAT-TATTC
1 AAAGTATCGATACATGT-TGC
880661 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTTGC
*
880681 AATGTATCGATACATG
1 AAAGTATCGATACATG
880697 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
AAAGTATCGATACATGTTGC
Found at i:880791 original size:21 final size:20
Alignment explanation
Indices: 880747--880799 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
880737 GTAGCCAAAC
* *
880747 TTGTATCAATACACAAAATA
1 TTGTATCGATACACAAAAAA
880767 -TGTATCGATACACAAAAAAA
1 TTGTATCGATACAC-AAAAAA
880787 TTGTATCGATACA
1 TTGTATCGATACA
880800 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 12 0.41
20 5 0.17
21 12 0.41
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:887332 original size:8 final size:8
Alignment explanation
Indices: 887319--887349 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
887309 ATTTGATTAA
887319 ATTTTGTG
1 ATTTTGTG
887327 ATTTTGTG
1 ATTTTGTG
887335 ATTTTGTG
1 ATTTTGTG
887343 ATGTTTG
1 AT-TTTG
887350 ATGTTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:887514 original size:27 final size:31
Alignment explanation
Indices: 887463--887520 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 31
887453 AGGGCCAAAT
887463 TCTGGAAAAATTCCTAGAATGTATCGATACA
1 TCTGGAAAAATTCCTAGAATGTATCGATACA
887494 TCTGG-AAAATT-C-AG-ATGTATCGATACA
1 TCTGGAAAAATTCCTAGAATGTATCGATACA
887521 GTGTATCGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 13 0.48
28 2 0.07
29 1 0.04
30 6 0.22
31 5 0.19
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (31 bp):
TCTGGAAAAATTCCTAGAATGTATCGATACA
Found at i:887527 original size:13 final size:13
Alignment explanation
Indices: 887509--887533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
887499 AAAATTCAGA
887509 TGTATCGATACAG
1 TGTATCGATACAG
887522 TGTATCGATACA
1 TGTATCGATACA
887534 AAGGGTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:889988 original size:13 final size:13
Alignment explanation
Indices: 889970--889994 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
889960 ATAATGCACA
889970 GTATCGATACATT
1 GTATCGATACATT
889983 GTATCGATACAT
1 GTATCGATACAT
889995 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:890007 original size:20 final size:21
Alignment explanation
Indices: 889982--890034 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
889972 ATCGATACAT
*
889982 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
890002 TGTATCGATACATGCAAAGAA
1 TGTATCGATACATGCAAAGAA
890023 TGTATCGATACA
1 TGTATCGATACA
890035 GGAGATTGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:891116 original size:17 final size:16
Alignment explanation
Indices: 891083--891126 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
891073 CATTTTTCAG
* *
891083 AAATAAACAAAAGTAA
1 AAATAAAAAAAAATAA
*
891099 AATTAAATAAAAAATAA
1 AAATAAA-AAAAAATAA
891116 AAATAAAAAAA
1 AAATAAAAAAA
891127 TGAATAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (16 bp):
AAATAAAAAAAAATAA
Found at i:891315 original size:20 final size:20
Alignment explanation
Indices: 891278--891315 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
891268 TTTGGAAAGA
*
891278 AAATAATAATAATAATAAGG
1 AAATAATAAAAATAATAAGG
891298 AAATAA-AAAAATAGATAA
1 AAATAATAAAAATA-ATAA
891316 TAATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (20 bp):
AAATAATAAAAATAATAAGG
Found at i:891315 original size:26 final size:25
Alignment explanation
Indices: 891271--891321 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
891261 AATGAATTTT
*
891271 GGAAAGAAAATAATAATAATAATAA
1 GGAAAGAAAAAAATAATAATAATAA
*
891296 GGAAATAAAAAAATAGATAATAATAA
1 GGAAAGAAAAAAATA-ATAATAATAA
891322 TAATAAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.20
Consensus pattern (25 bp):
GGAAAGAAAAAAATAATAATAATAA
Found at i:896257 original size:135 final size:135
Alignment explanation
Indices: 896006--896257 Score: 355
Period size: 135 Copynumber: 1.9 Consensus size: 135
895996 AGAAATTACC
* * * * *
896006 AAAATGCCTCAAGGGGATACCTTCGACGTGAAAATATCCCAGTACCCTAAAGGACTTAAAAAAGA
1 AAAATGCCCCAAGGGGATACCTTCGACATAAAAATAACCCAGTACCCTAAAAGACTTAAAAAAGA
* * *
896071 TATAGATGGATGAACCTATGCTAAATATCCACCTTTCGTATAAAAGTGGACTTGATTTTAAAAAA
66 TATAGATGGATGAACCTATCCTAAATATCCACCTTTCGCATAAAAGCGGACTTGATTTTAAAAAA
896136 TTATG
131 TTATG
* **
896141 AAAATGCCCCTAGGGGATACCTTCGACATAAAAATAACTGA-TACCCCTAAAAGAC-TAAAAAAG
1 AAAATGCCCCAAGGGGATACCTTCGACATAAAAATAACCCAGTA-CCCTAAAAGACTTAAAAAA-
* *
896204 GATATAGATGGATGAACCTATCCTAAATATCCACCTTTGGCATAGAAGCGGACT
64 GATATAGATGGATGAACCTATCCTAAATATCCACCTTTCGCATAAAAGCGGACT
896258 CGGTGATAAC
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
134 9 0.09
135 93 0.91
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (135 bp):
AAAATGCCCCAAGGGGATACCTTCGACATAAAAATAACCCAGTACCCTAAAAGACTTAAAAAAGA
TATAGATGGATGAACCTATCCTAAATATCCACCTTTCGCATAAAAGCGGACTTGATTTTAAAAAA
TTATG
Found at i:897794 original size:11 final size:12
Alignment explanation
Indices: 897761--897814 Score: 62
Period size: 13 Copynumber: 4.7 Consensus size: 12
897751 CAAATTTTCC
897761 CATTTTTTCT-T
1 CATTTTTTCTCT
897772 GC-TTTTTT-TCT
1 -CATTTTTTCTCT
897783 C-TTTTTTCTCT
1 CATTTTTTCTCT
897794 CATTTTTTTCTCT
1 CA-TTTTTTCTCT
897807 CATTTTTT
1 CATTTTTT
897815 TAGAGTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 8 0.21
11 11 0.29
12 7 0.18
13 12 0.32
ACGTcount: A:0.06, C:0.20, G:0.02, T:0.72
Consensus pattern (12 bp):
CATTTTTTCTCT
Found at i:897802 original size:13 final size:13
Alignment explanation
Indices: 897784--897815 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
897774 TTTTTTTCTC
897784 TTTTTTCTCTCAT
1 TTTTTTCTCTCAT
897797 TTTTTTCTCTCAT
1 TTTTTTCTCTCAT
897810 TTTTTT
1 TTTTTT
897816 AGAGTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTTCTCTCAT
Found at i:898310 original size:19 final size:19
Alignment explanation
Indices: 898286--898328 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
898276 TTGGTGTAGT
* *
898286 AAAATCAATATATACAAAA
1 AAAATCAAAATAAACAAAA
898305 AAAATCAAAATAAACAAAA
1 AAAATCAAAATAAACAAAA
*
898324 TAAAT
1 AAAAT
898329 TAAATTTTTC
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:0.72, C:0.09, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATCAAAATAAACAAAA
Found at i:898656 original size:166 final size:165
Alignment explanation
Indices: 898473--898778 Score: 445
Period size: 166 Copynumber: 1.8 Consensus size: 165
898463 AGAAAACATA
* * *
898473 AAAAACTCATGAAAATGAATGAATTTTTGAAAATTGAT-TTAATATGAATTAAATAATAATATTT
1 AAAAACTCATGAAAATGAATGAATTTTTAAAAACT-ATCTTAATATGAAATAAATAATAATATTT
* ** * *
898537 GATGGATTTTAAAAATTAAAAACTAAGAGAAATCC-CCTAAAAAAATTTACAGAGTAAAAAACTT
65 AATAAATTTTAAAAATTAAAAACTAAGAAAAATCCTCCT-AAAAAATTTACAGAGTAAAAAACTC
*
898601 CGTATTTTTGAAATAGGAGAATTTTAAGAAATAAATTT
129 CGTA-ATTTGAAATAGGAGAATTTTAAGAAATAAATTT
*
898639 AAAAACTCATGAAAATGAATGACTTTTTAAAAACTATCTTAATATGAAATAAATAATAATATTTA
1 AAAAACTCATGAAAATGAATGAATTTTTAAAAACTATCTTAATATGAAATAAATAATAATATTTA
* * * *
898704 ATAAATTTTAAAAATTAAAAACTAAGAAAAATCCTTCTGAAAAATTTACGGAGTAGAAAACTCCG
66 ATAAATTTTAAAAATTAAAAACTAAGAAAAATCCTCCTAAAAAATTTACAGAGTAAAAAACTCCG
898769 TAATTTGAAA
131 TAATTTGAAA
898779 ACATGAGGAA
Statistics
Matches: 124, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
165 9 0.07
166 113 0.91
167 2 0.02
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.32
Consensus pattern (165 bp):
AAAAACTCATGAAAATGAATGAATTTTTAAAAACTATCTTAATATGAAATAAATAATAATATTTA
ATAAATTTTAAAAATTAAAAACTAAGAAAAATCCTCCTAAAAAATTTACAGAGTAAAAAACTCCG
TAATTTGAAATAGGAGAATTTTAAGAAATAAATTT
Found at i:904012 original size:103 final size:104
Alignment explanation
Indices: 903903--904106 Score: 306
Period size: 103 Copynumber: 2.0 Consensus size: 104
903893 TTTTAATGTT
*
903903 TTTGAATGAATTATGTTTGATTGATTCGATTTATG-ATTGATAAGGTGTTTTTCTAACTAAAATA
1 TTTGAATGAATTATGTTTGATTGATTCAATTTA-GAATTGATAAGGTGTTTTTCTAACTAAAATA
903967 CAAATTTCT-AGAATTTTCCAAAA-GTATCGATACATTGAA
65 CAAATTTCTGA-AATTTTCCAAAATGTATCGATACATTGAA
* * * *
904006 TTTGAATGAATTATGTTTGATTGATTCAATTTAGAATTGATATGGTGTTTTTCTTACTAGAATAT
1 TTTGAATGAATTATGTTTGATTGATTCAATTTAGAATTGATAAGGTGTTTTTCTAACTAAAATAC
* *
904071 GAATTTCTGAAATTTTTCAAAATGTATCGATACATT
66 AAATTTCTGAAATTTTCCAAAATGTATCGATACATT
904107 AAATAATGTA
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
102 1 0.01
103 76 0.84
104 14 0.15
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (104 bp):
TTTGAATGAATTATGTTTGATTGATTCAATTTAGAATTGATAAGGTGTTTTTCTAACTAAAATAC
AAATTTCTGAAATTTTCCAAAATGTATCGATACATTGAA
Found at i:905792 original size:12 final size:12
Alignment explanation
Indices: 905775--905808 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
905765 CCGAGTGATA
905775 ATTAGTCGTAGG
1 ATTAGTCGTAGG
*
905787 ATTAGTCATAGG
1 ATTAGTCGTAGG
*
905799 AGTAGTCGTA
1 ATTAGTCGTA
905809 TGCTAGTTGT
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:0.29, C:0.09, G:0.29, T:0.32
Consensus pattern (12 bp):
ATTAGTCGTAGG
Found at i:907845 original size:20 final size:21
Alignment explanation
Indices: 907820--907858 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
907810 TCTTAACAGC
907820 CCATGTT-CATGCATTTTATG
1 CCATGTTCCATGCATTTTATG
907840 CCATGTTCCATGCATTTTA
1 CCATGTTCCATGCATTTTA
907859 ACATGTCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.21, C:0.23, G:0.13, T:0.44
Consensus pattern (21 bp):
CCATGTTCCATGCATTTTATG
Found at i:913507 original size:14 final size:14
Alignment explanation
Indices: 913473--913515 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
913463 TCATCCAAGC
913473 TAAACA-AAAAG-G
1 TAAACAGAAAAGTG
* *
913485 GAAAAAGAAAAGTG
1 TAAACAGAAAAGTG
913499 TAAACAGAAAAGTG
1 TAAACAGAAAAGTG
913513 TAA
1 TAA
913516 TAGTCACGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 4 0.16
13 5 0.20
14 16 0.64
ACGTcount: A:0.63, C:0.05, G:0.21, T:0.12
Consensus pattern (14 bp):
TAAACAGAAAAGTG
Found at i:913796 original size:27 final size:27
Alignment explanation
Indices: 913765--913833 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
913755 TTAAAGAACC
* *
913765 GGGTTGGAGTATCCCCTTGG-AAGATCA
1 GGGTTGGAGTATCCCCTCGGAAAAAT-A
*
913792 GGGTTGGAGTATCTCCTCGGAAAAATA
1 GGGTTGGAGTATCCCCTCGGAAAAATA
*
913819 GGGTTGGAGTGTCCC
1 GGGTTGGAGTATCCC
913834 GATGATGACA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 32 0.89
28 4 0.11
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCTCGGAAAAATA
Found at i:913893 original size:124 final size:125
Alignment explanation
Indices: 913667--913919 Score: 409
Period size: 124 Copynumber: 2.0 Consensus size: 125
913657 TTGAAAAATG
* *
913667 GGGTTGGAGTATTTCCTCAGAAGAATAGGGTTGGAGTGTCCCCGATGATGACAATCTAGGTGAAA
1 GGGTTGGAGTATCTCCTCAGAAAAATAGGGTTGGAGTGTCCCCGATGATGACAATCTAGGTGAAA
* **
913732 ATAAGATTTAAATCTTGAAAAGTTTAAAGAACCGGGTTGGAGTATCCCCTTGGAAGATCA
66 ATAAGATTTAAATCTTGAAAAGTTTAAAGAACCGGGTTGAAGTATCCCCTCAGAAGATCA
*
913792 GGGTTGGAGTATCTCCTCGGAAAAATAGGGTTGGAGTGT-CCCGATGATGACAATCTAGGTGAAA
1 GGGTTGGAGTATCTCCTCAGAAAAATAGGGTTGGAGTGTCCCCGATGATGACAATCTAGGTGAAA
* ** *
913856 ATAAGATTTATATCTTGAAAAGTTTAAAGAATGGGGTTGAAGTATCCCCTCAGAAGATCG
66 ATAAGATTTAAATCTTGAAAAGTTTAAAGAACCGGGTTGAAGTATCCCCTCAGAAGATCA
913916 GGGT
1 GGGT
913920 GTAGTATTCC
Statistics
Matches: 118, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
124 82 0.69
125 36 0.31
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (125 bp):
GGGTTGGAGTATCTCCTCAGAAAAATAGGGTTGGAGTGTCCCCGATGATGACAATCTAGGTGAAA
ATAAGATTTAAATCTTGAAAAGTTTAAAGAACCGGGTTGAAGTATCCCCTCAGAAGATCA
Found at i:916055 original size:21 final size:20
Alignment explanation
Indices: 916031--916101 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
916021 TTCTACAAAT
**
916031 TGTATCGATATAATTGGTGCA
1 TGTATCGATA-AATAAGTGCA
*
916052 TGTATCGATACATAAGTGCA
1 TGTATCGATAAATAAGTGCA
* *
916072 TGTATCGATACATAAGTGAA
1 TGTATCGATAAATAAGTGCA
*
916092 TATATCGATA
1 TGTATCGATA
916102 CATGTCTTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 35 0.78
21 10 0.22
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
TGTATCGATAAATAAGTGCA
Found at i:916072 original size:20 final size:20
Alignment explanation
Indices: 916047--916104 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
916037 GATATAATTG
916047 GTGCATGTATCGATACATAA
1 GTGCATGTATCGATACATAA
916067 GTGCATGTATCGATACATAA
1 GTGCATGTATCGATACATAA
* *
916087 GTGAATATATCGATACAT
1 GTGCATGTATCGATACAT
916105 GTCTTAATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (20 bp):
GTGCATGTATCGATACATAA
Found at i:916718 original size:20 final size:23
Alignment explanation
Indices: 916693--916739 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
916683 TTCTGTTGAT
916693 GATTTTG-A-TGAAAAA-TGAAA
1 GATTTTGAAGTGAAAAAGTGAAA
916713 GATTTTGAAGTGAAAAAGTGAAA
1 GATTTTGAAGTGAAAAAGTGAAA
916736 -ATTT
1 GATTT
916740 GCTGAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.29
21 1 0.04
22 11 0.46
23 5 0.21
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (23 bp):
GATTTTGAAGTGAAAAAGTGAAA
Found at i:916729 original size:22 final size:21
Alignment explanation
Indices: 916693--916747 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
916683 TTCTGTTGAT
916693 GATTTTGATGAAAAA-TGAAA
1 GATTTTGATGAAAAAGTGAAA
916713 GATTTTGAAGTGAAAAAGTGAAA
1 GATTTTG-A-TGAAAAAGTGAAA
*
916736 -A-TTTGCTGAAAA
1 GATTTTGATGAAAA
916748 TTTGATGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 6 0.19
20 7 0.23
21 5 0.16
22 8 0.26
23 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.22, T:0.29
Consensus pattern (21 bp):
GATTTTGATGAAAAAGTGAAA
Found at i:921393 original size:3 final size:3
Alignment explanation
Indices: 921380--921415 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
921370 CTTCATCCGG
*
921380 ATC ACC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
921416 TTCCTCTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.31
Consensus pattern (3 bp):
ATC
Found at i:922957 original size:19 final size:20
Alignment explanation
Indices: 922920--922957 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
922910 TCCCATAGCC
922920 ATGTATCAATACAATTCATA
1 ATGTATCAATACAATTCATA
*
922940 ATGTATCGATAC-ATTCAT
1 ATGTATCAATACAATTCAT
922958 TTGAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (20 bp):
ATGTATCAATACAATTCATA
Found at i:923030 original size:13 final size:13
Alignment explanation
Indices: 923012--923042 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
923002 ACATTTCATC
923012 ATGTATCGATACA
1 ATGTATCGATACA
923025 ATGTATCGATACA
1 ATGTATCGATACA
*
923038 TTGTA
1 ATGTA
923043 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:923030 original size:33 final size:33
Alignment explanation
Indices: 922992--923058 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
922982 GTTACAAGCT
*
922992 ATGTATCGATACATT-TCATCATGTATCGATACA
1 ATGTATCGATACATTGT-ACCATGTATCGATACA
923025 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
923058 A
1 A
923059 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:924385 original size:20 final size:21
Alignment explanation
Indices: 924356--924401 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
924346 ACAAGCTCTA
*
924356 GTATCGATACATGCACTTA-T
1 GTATCAATACATGCACTTATT
**
924376 GTATCAATACATTTACTTATT
1 GTATCAATACATGCACTTATT
924397 GTATC
1 GTATC
924402 GATATAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (21 bp):
GTATCAATACATGCACTTATT
Found at i:925474 original size:14 final size:13
Alignment explanation
Indices: 925451--925487 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
925441 GGATTTTCTC
*
925451 AAAAAAAAAAAAG
1 AAAAAGAAAAAAG
925464 AAAAAGGAAAAAAG
1 AAAAA-GAAAAAAG
925478 AAAAAGAAAA
1 AAAAAGAAAA
925488 TTCAGATGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:925879 original size:21 final size:20
Alignment explanation
Indices: 925833--925881 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
925823 ACAAAAAAAG
925833 AAAAAAAGCATGAAATGAAA
1 AAAAAAAGCATGAAATGAAA
* *
925853 ACAAAAAATGCAT-AAATTAAG
1 A-AAAAAA-GCATGAAATGAAA
925874 AAAAAAAG
1 AAAAAAAG
925882 AAAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 7 0.28
21 13 0.52
22 4 0.16
ACGTcount: A:0.69, C:0.06, G:0.12, T:0.12
Consensus pattern (20 bp):
AAAAAAAGCATGAAATGAAA
Found at i:927446 original size:88 final size:87
Alignment explanation
Indices: 927354--927531 Score: 198
Period size: 88 Copynumber: 2.0 Consensus size: 87
927344 TTTATGCGCC
* * * *
927354 TCTACTCATTAGACCAAATTAGCATTTGCATCGCTTCATGTGCATTAGCC-TCTTTATTGATGCT
1 TCTACACATTAGACCAAATCAGCATTTGCATCACTTCATATGCATT-GCCAT-TTTATTGATGCT
* *
927418 TGCATTTGCA-TCGTTTCACATACA
64 TACATTTACACT-GTTTCACATACA
* ** * * *
927442 TCTACACTTTAGATGACATCAGTATTTGCATCATTTCATATGCATTGCCATTTTATTGATGCTTA
1 TCTACACATTAGACCAAATCAGCATTTGCATCACTTCATATGCATTGCCATTTTATTGATGCTTA
*
927507 CATTTACACTGTTTCACATGCA
66 CATTTACACTGTTTCACATACA
927529 TCT
1 TCT
927532 GTACCATTAT
Statistics
Matches: 75, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
87 37 0.49
88 38 0.51
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.40
Consensus pattern (87 bp):
TCTACACATTAGACCAAATCAGCATTTGCATCACTTCATATGCATTGCCATTTTATTGATGCTTA
CATTTACACTGTTTCACATACA
Found at i:928754 original size:21 final size:21
Alignment explanation
Indices: 928728--928778 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
928718 CAATAATTTT
928728 TATCGATACAATAAG-GCAATG
1 TATCGATACAATAAGTG-AATG
928749 TATCGATAC-ATAAGTGAATG
1 TATCGATACAATAAGTGAATG
*
928769 TGTCGATACA
1 TATCGATACA
928779 TGCTTGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (21 bp):
TATCGATACAATAAGTGAATG
Found at i:928768 original size:20 final size:21
Alignment explanation
Indices: 928728--928799 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
928718 CAATAATTTT
*
928728 TATCGATACAATAAG-GCAATG
1 TATCGATAC-ATAAGTGAAATG
928749 TATCGATACATAAGTG-AATG
1 TATCGATACATAAGTGAAATG
* ***
928769 TGTCGATACATGCTTGAAATG
1 TATCGATACATAAGTGAAATG
928790 TATCGATACA
1 TATCGATACA
928800 GGACCAGTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
20 21 0.48
21 23 0.52
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (21 bp):
TATCGATACATAAGTGAAATG
Found at i:928846 original size:20 final size:20
Alignment explanation
Indices: 928821--928858 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
928811 ATTCTGGAAG
928821 GAAATTGTATCGATACATGA
1 GAAATTGTATCGATACATGA
928841 GAAATTGTATCGATACAT
1 GAAATTGTATCGATACAT
928859 TTCTCATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
GAAATTGTATCGATACATGA
Found at i:930997 original size:20 final size:19
Alignment explanation
Indices: 930953--931000 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
930943 ACAATTGAGT
*
930953 ATGTATCGATACAATGAAC
1 ATGTATCGATACAAAGAAC
930972 ATGTATCGATACAAAGCATA-
1 ATGTATCGATACAAAG-A-AC
930992 ATGTATCGA
1 ATGTATCGA
931001 CACATATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.58
20 10 0.38
21 1 0.04
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (19 bp):
ATGTATCGATACAAAGAAC
Found at i:932669 original size:13 final size:13
Alignment explanation
Indices: 932651--932675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
932641 CATTTTAGGG
932651 TGTATCGATACAA
1 TGTATCGATACAA
932664 TGTATCGATACA
1 TGTATCGATACA
932676 TATTGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:932670 original size:33 final size:32
Alignment explanation
Indices: 932628--932695 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
932618 CGTTACAAGC
*
932628 CAATGTATCGATACATTTTAGGGTGTATCGATA
1 CAATGTATCGATACATATT-GGGTGTATCGATA
**
932661 CAATGTATCGATACATATTGTTTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
932693 CAA
1 CAA
932696 ATTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:932773 original size:20 final size:21
Alignment explanation
Indices: 932728--932780 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 21
932718 GCCAATGACC
*
932728 TGTATCGATACATTCTTGTCA
1 TGTATCGATACATTCTGGTCA
*
932749 AGTATCGATACATTC-GGTCA
1 TGTATCGATACATTCTGGTCA
932769 TGTATCGATACA
1 TGTATCGATACA
932781 ATGTATCGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:932786 original size:13 final size:13
Alignment explanation
Indices: 932768--932792 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
932758 ACATTCGGTC
932768 ATGTATCGATACA
1 ATGTATCGATACA
932781 ATGTATCGATAC
1 ATGTATCGATAC
932793 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:934789 original size:21 final size:21
Alignment explanation
Indices: 934758--934809 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 21
934748 GCTGCTAGTG
*
934758 TGGGGGATGCCCGGTTGCGACC
1 TGGGGG-TGCCCGGTCGCGACC
934780 TGGGGGTG-CCGGTCGCGACC
1 TGGGGGTGCCCGGTCGCGACC
934800 TGGTGGGTGC
1 TGG-GGGTGC
934810 TGCCTAGGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 14 0.52
21 7 0.26
22 6 0.22
ACGTcount: A:0.06, C:0.25, G:0.50, T:0.19
Consensus pattern (21 bp):
TGGGGGTGCCCGGTCGCGACC
Found at i:941446 original size:13 final size:13
Alignment explanation
Indices: 941428--941452 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
941418 CATTTTAGGG
941428 TGTATCGATACAA
1 TGTATCGATACAA
941441 TGTATCGATACA
1 TGTATCGATACA
941453 TATTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:941468 original size:32 final size:33
Alignment explanation
Indices: 941405--941472 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
941395 TGTTACAAGC
*
941405 CAATATATCGATACATTTTAGGGTGTATCGATA
1 CAATATATCGATACATATTAGGGTGTATCGATA
* *
941438 CAATGTATCGATACATATT-GTGTGTATCGATA
1 CAATATATCGATACATATTAGGGTGTATCGATA
941470 CAA
1 CAA
941473 ATTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 15 0.47
33 17 0.53
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATATATCGATACATATTAGGGTGTATCGATA
Found at i:941552 original size:20 final size:21
Alignment explanation
Indices: 941505--941557 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
941495 GCCAATGACC
**
941505 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTAGTCA
*
941526 AGTATCGATACATT-TAGTCA
1 TGTATCGATACATTCTAGTCA
941546 TGTATCGATACA
1 TGTATCGATACA
941558 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTAGTCA
Found at i:941563 original size:13 final size:13
Alignment explanation
Indices: 941545--941569 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
941535 ACATTTAGTC
941545 ATGTATCGATACA
1 ATGTATCGATACA
941558 ATGTATCGATAC
1 ATGTATCGATAC
941570 TATGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:944191 original size:107 final size:105
Alignment explanation
Indices: 943948--944319 Score: 318
Period size: 107 Copynumber: 3.5 Consensus size: 105
943938 TGTTGACTTA
* * * * *
943948 TATGGTTTCATCCCTGTTAACCC-TTTAACTTATTGGTTTGTATAGTTTCACCTTGACCAACT-C
1 TATGGTTTCATCCCAGTTAACCCTTTTAACTTATTAG-TTGTATGGTTTTATCTTGACCAACTCC
* *
944011 TTTTTCGATTTAGGTTTTGCCTTAGTCATCCTTCATTGACTTG
65 TTTTT-GACTTAGGTTTTGCCTTAGTCA-CCTTCATTGACTCG
* * * * *** * * * *
944054 TCTGATTTTATCCTAGTTAATTATTCTAACTTATTAGTGTGTATGGTTTTGTCTCGAGCAACTCC
1 TATGGTTTCATCCCAGTTAACCCTTTTAACTTATTAGT-TGTATGGTTTTATCTTGACCAACTCC
944119 TTTTTGACTTAGGTTTTGCCTTAGTCACCTTTCATTGACTCG
65 TTTTTGACTTAGGTTTTGCCTTAGTCACC-TTCATTGACTCG
* * * * *
944161 TATGGTTTCATCCCAATCAACCCTTTTAACTTGTTAGTTCGTATGGTTTTATCTTGTCCAACTCT
1 TATGGTTTCATCCCAGTTAACCCTTTTAACTTATTAGTT-GTATGGTTTTATCTTGACCAACTCC
* ** * * *
944226 TTTTTTACTTAGGTTTCACCTTAATCACCCTTCGTTGACTCA
65 TTTTTGACTTAGGTTTTGCCTTAGTCA-CCTTCATTGACTCG
*** * * * * *
944268 TATGGTTT-ATCTTGGTCAACCCCTTTAACTTGTTAAATCGTATGGTTTTATC
1 TATGGTTTCATCCCAGTTAACCCTTTTAACTTATT-AGTTGTATGGTTTTATC
944320 CTAGCTTACT
Statistics
Matches: 212, Mismatches: 47, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
106 53 0.25
107 151 0.71
108 8 0.04
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (105 bp):
TATGGTTTCATCCCAGTTAACCCTTTTAACTTATTAGTTGTATGGTTTTATCTTGACCAACTCCT
TTTTGACTTAGGTTTTGCCTTAGTCACCTTCATTGACTCG
Found at i:944315 original size:213 final size:212
Alignment explanation
Indices: 944094--944594 Score: 467
Period size: 213 Copynumber: 2.4 Consensus size: 212
944084 TTATTAGTGT
* *
944094 GTATGGTTTTGTCTCGAGC-AACTCCTTTTTGACTTAGGTTTTGCCTTAGTCACCTTTCATTGAC
1 GTATGGTTTTGTC-CCAGCAAACTCCTTTTTGACTTAGGTTTTGCCCTAGTCACCTTTCATTGAC
* * * *
944158 TCGTATGGTTTCATCCCAATCAACCCTTTT-AACTTGTTAGT-TCGTATGGTTTTAT-CTTGTCC
65 TCGTATGGTTTCATCCCAATCAA--CTTTTCAACTTATTAGTCT-GTATGCTTTCATCCTAG-CC
* * * * * * * *
944220 AACTCT-TTTTTTACTTAGGTTTCACCTTAATCACCCTTCGTTGACTCATATG-GTTTATCTTGG
126 AACT-TGTTTTCTACTTAGATTTCACCTTAATCACCCTTAGTTGACTCATACGACTTCATCCTGA
*
944283 TCAACCCCTTTAACTTGTTAAATC
190 TCAA-CCCTTTAACTTGTCAAATC
* * ** * ** * * * **
944307 GTATGGTTTTATCCTAGCTTACTTCTTTTCAACTTA-GTTTTCGCCCTGGCCACTTTTTGTTGAC
1 GTATGGTTTTGTCCCAGCAAACTCCTTTTTGACTTAGGTTTT-GCCCTAGTCACCTTTCATTGAC
* * * * *
944371 TCATATGGTTTTATCTCGATCAACTTTTCCAATTTATTAGTCTGTATGCTTTCATCCTAGCCAAC
65 TCGTATGGTTTCATCCCAATCAACTTTT-CAACTTATTAGTCTGTATGCTTTCATCCTAGCCAAC
* * * *
944436 TTGTTTTCTACTTAGATTTTACCTTAGTTACCCTTAGTTGACTCATACGACTTCATCCTGATTAA
129 TTGTTTTCTACTTAGATTTCACCTTAATCACCCTTAGTTGACTCATACGACTTCATCCTGATCAA
*** * *
944501 TTTTTTAACTTGTCGATTC
194 CCCTTTAACTTGTCAAATC
* * * *
944520 ATATTGTTTTGTCCCAACAAACTCCTTTTTGACTTAGGTTTTGCCCTAGTCATCTTTCATTGACT
1 GTATGGTTTTGTCCCAGCAAACTCCTTTTTGACTTAGGTTTTGCCCTAGTCACCTTTCATTGACT
944585 CGTATGGTTT
66 CGTATGGTTT
944595 TGTCTAAGTT
Statistics
Matches: 223, Mismatches: 56, Indels: 18
0.75 0.19 0.06
Matches are distributed among these distances:
211 5 0.02
212 10 0.04
213 189 0.85
214 19 0.09
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.45
Consensus pattern (212 bp):
GTATGGTTTTGTCCCAGCAAACTCCTTTTTGACTTAGGTTTTGCCCTAGTCACCTTTCATTGACT
CGTATGGTTTCATCCCAATCAACTTTTCAACTTATTAGTCTGTATGCTTTCATCCTAGCCAACTT
GTTTTCTACTTAGATTTCACCTTAATCACCCTTAGTTGACTCATACGACTTCATCCTGATCAACC
CTTTAACTTGTCAAATC
Found at i:947707 original size:20 final size:20
Alignment explanation
Indices: 947663--947715 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
947653 ATTTGCCTGC
947663 ATGTATCGATACAAAGATCA
1 ATGTATCGATACAAAGATCA
* *
947683 GTGTATCGATACAATGAGT-A
1 ATGTATCGATACAAAGA-TCA
*
947703 ATGTATTGATACA
1 ATGTATCGATACA
947716 TTTTCTTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (20 bp):
ATGTATCGATACAAAGATCA
Found at i:948740 original size:49 final size:49
Alignment explanation
Indices: 948599--949313 Score: 697
Period size: 49 Copynumber: 15.0 Consensus size: 49
948589 ATGTTAAAGA
* * * * * *
948599 TGAAGGTGCCAATGTGCTGAATCAAGGCCATCGACATTGGACTTAAAAT
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGT
* * * ** *
948648 ATGACAAAGGCGCCTATATGCTAATTCAAGGCCAGCGATATTGGGTTTCAAGT
1 -TG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGT
* * * * *
948701 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGT
*
948750 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGT
* * * *
948799 TGAAGATGCCAATATGCTGATTCATGGCCAACGATATTGG----G--CT
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGT
* *
948842 TGAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTGAAGG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGT
* * *
948891 TGAAGATACCAATATGCTGATTCACA-GCCAGCGATATTGG----G--CT
1 TGAAGGTGCCAATATGCTGATTCA-AGGCCAGCGATATTGGACTTGAAGT
* * * * * *
948934 TGAAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGT
* *
948983 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTGAAGG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGT
* * * * *
949032 TGAAGATGCCAATATGCTGATTCATGGCCAACGATATTGGGCTTGAAGG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGT
* * *
949081 TGAAGATGCCAATATGCTGATTCACGGCCAACGATATTGGAC------T
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGT
*
949124 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGT
* * ** *
949173 TGAAGATGCCAATATGCTGATTCACGGTTAGCGATATTGG----G--CT
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGT
* * * * *
949216 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGT
* *
949265 TGAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATCGGACTTAGAAG
1 TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-GAAG
949314 AAGACGCCAC
Statistics
Matches: 543, Mismatches: 92, Indels: 60
0.78 0.13 0.09
Matches are distributed among these distances:
42 1 0.00
43 140 0.26
45 3 0.01
47 1 0.00
49 354 0.65
50 6 0.01
52 2 0.00
53 36 0.07
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (49 bp):
TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGT
Found at i:948868 original size:92 final size:92
Alignment explanation
Indices: 948654--949313 Score: 809
Period size: 92 Copynumber: 7.0 Consensus size: 92
948644 AAATATGACA
* * * ** * * * *
948654 AAGGCGCCTATATGCTAATTCAAGGCCAGCGATATTGGGTTTCAAGTTGAAGGTGCCAATGTGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATATGCT
* *
948719 GATTCAAGGCCAGCTACATTGGACTTAAAGATG
66 GATTCAAGGCCAGCGATATTGGAC-T-----TG
948752 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATATGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATATGCT
* * *
948817 GATTCATGGCCAACGATATTGGGCTTG
66 GATTCAAGGCCAGCGATATTGGACTTG
* *
948844 AAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATACCAATATGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATATGCT
*
948909 GATTCACA-GCCAGCGATATTGGGCTTG
66 GATTCA-AGGCCAGCGATATTGGACTTG
* * * * * * *
948936 AAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATATGCT
*
949001 GATTCAAGGCCAGCGATATCGGACTTG
66 GATTCAAGGCCAGCGATATTGGACTTG
* * *
949028 AAGGTGAAGATGCCAATATGCTGATTCATGGCCAACGATATTGGGCTTGAAGGTGAAGATGCCAA
1 AA---G--G-TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAA
* *
949093 TATGCTGATTCACGGCCAACGATATTGGACTTG
60 TATGCTGATTCAAGGCCAGCGATATTGGACTTG
949126 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATATGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATATGCT
* ** *
949191 GATTCACGGTTAGCGATATTGGGCTTG
66 GATTCAAGGCCAGCGATATTGGACTTG
* * * * * *
949218 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATATGCT
* *
949283 GATTTAAGGCCAGCGATATCGGACTTAG
66 GATTCAAGGCCAGCGATATTGGACTT-G
949311 AAG
1 AAG
949314 AAGACGCCAC
Statistics
Matches: 492, Mismatches: 61, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
91 1 0.00
92 330 0.67
93 5 0.01
95 2 0.00
97 2 0.00
98 152 0.31
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (92 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTG
Found at i:948923 original size:141 final size:141
Alignment explanation
Indices: 948700--949313 Score: 741
Period size: 141 Copynumber: 4.3 Consensus size: 141
948690 GGGTTTCAAG
* * * * * *
948700 TTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATAT
1 TTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATAT
* *
948765 GCTGATTCA-AGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATATGCTGATTCATGGCCA
66 GCTGATTCACA-GCCAGCGATATTGGGCTTGAAGGTGAAGATGCCAATATGCTGATTCAAGGCCA
*
948829 ACGATATTGGGC
130 ACGATATTGGAC
* *
948841 TTGAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATACCAATAT
1 TTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATAT
* * *
948906 GCTGATTCACAGCCAGCGATATTGGGCTTGAA---G--G-TGCTAATGTGCTGATTCAAGGCCAG
66 GCTGATTCACAGCCAGCGATATTGGGCTTGAAGGTGAAGATGCCAATATGCTGATTCAAGGCCAA
* *
948965 CTACATTGGAC
131 CGATATTGGAC
*
948976 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGACTTGAAGGTGAAGATGC
1 -T-----TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGC
** * *
949041 CAATATGCTGATTCATGGCCAACGATATTGGGCTTGAAGGTGAAGATGCCAATATGCTGATTCAC
60 CAATATGCTGATTCACAGCCAGCGATATTGGGCTTGAAGGTGAAGATGCCAATATGCTGATTCAA
949106 GGCCAACGATATTGGAC
125 GGCCAACGATATTGGAC
949123 TTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATAT
1 TTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATAT
* ** * *
949188 GCTGATTCACGGTTAGCGATATTGGGCTTGAA---G--G-TGCCAATGTGCTGATTCAAGGCCAG
66 GCTGATTCACAGCCAGCGATATTGGGCTTGAAGGTGAAGATGCCAATATGCTGATTCAAGGCCAA
* *
949247 CTACATTGGAC
131 CGATATTGGAC
* *
949258 TTAAAGATGAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATCGGACTTAGAAG
1 -T-----TGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-GAAG
949314 AAGACGCCAC
Statistics
Matches: 413, Mismatches: 40, Indels: 39
0.84 0.08 0.08
Matches are distributed among these distances:
135 60 0.15
136 4 0.01
138 2 0.00
141 309 0.75
142 5 0.01
144 1 0.00
146 2 0.00
147 30 0.07
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (141 bp):
TTGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATAT
GCTGATTCACAGCCAGCGATATTGGGCTTGAAGGTGAAGATGCCAATATGCTGATTCAAGGCCAA
CGATATTGGAC
Found at i:949175 original size:282 final size:282
Alignment explanation
Indices: 948666--949314 Score: 1055
Period size: 282 Copynumber: 2.3 Consensus size: 282
948656 GGCGCCTATA
* * * ** * * *
948666 TGCTAATTCAAGGCCAGCGATATTGGGTTTCAAGTTGAAGGTGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
* * * * * *
948731 GCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGA
66 GCGATATCGGACTTGAAGATGAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTGA
* * *
948796 AGGTGAAGATGCCAATATGCTGATTCATGGCCAACGATATTGGGCTTGAAGGTGCCAATATGTTG
131 AGGTGAAGATGCCAATATGCTGATTCACGGCCAACGATATTGGACTTGAAGGTGCCAATATGCTG
948861 ATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATACCAATATGCTGATTCACAGCCAGCGAT
196 ATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATACCAATATGCTGATTCACAGCCAGCGAT
*
948926 ATTGGGCTTGAAGGTGCTAATG
261 ATTGGGCTTGAAGGTGCCAATG
948948 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
* * *
949013 GCGATATCGGACTTGAAGGTGAAGATGCCAATATGCTGATTCATGGCCAACGATATTGGGCTTGA
66 GCGATATCGGACTTGAAGATGAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTGA
949078 AGGTGAAGATGCCAATATGCTGATTCACGGCCAACGATATTGGACTTGAAGGTGCCAATATGCTG
131 AGGTGAAGATGCCAATATGCTGATTCACGGCCAACGATATTGGACTTGAAGGTGCCAATATGCTG
* * **
949143 ATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATGCCAATATGCTGATTCACGGTTAGCGAT
196 ATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATACCAATATGCTGATTCACAGCCAGCGAT
949208 ATTGGGCTTGAAGGTGCCAATG
261 ATTGGGCTTGAAGGTGCCAATG
*
949230 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTTAAGGCCA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
949295 GCGATATCGGACTTAGAAGA
66 GCGATATCGGACTT-GAAGA
949315 AGACGCCACC
Statistics
Matches: 339, Mismatches: 27, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
282 335 0.99
283 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (282 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCA
GCGATATCGGACTTGAAGATGAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTGA
AGGTGAAGATGCCAATATGCTGATTCACGGCCAACGATATTGGACTTGAAGGTGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTGAAGGTGAAGATACCAATATGCTGATTCACAGCCAGCGAT
ATTGGGCTTGAAGGTGCCAATG
Found at i:949389 original size:28 final size:28
Alignment explanation
Indices: 949357--949511 Score: 145
Period size: 28 Copynumber: 5.4 Consensus size: 28
949347 GGTTGCATCA
* *
949357 ACTTGTGTGCTTTTAAAGGTTACCACTCG
1 ACTTGTGGGCTTTTAAAGGTTGCCACT-G
*
949386 -CTTGTGGGCTTTTGAAAGGATTG-CA-TCA
1 ACTTGTGGGCTTTT-AAAGG-TTGCCACT-G
* *
949414 ACTTGTGTGCTTTTGAAGGTTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
*
949442 ACTTGTGGGCTTTTGAAGGTTGCCACTG
1 ACTTGTGGGCTTTTAAAGGTTGCCACTG
* * *
949470 ACTTGTGGGTTTTTGAAAAGGGTGCCACTA
1 ACTTGTGGGCTTTT--AAAGGTTGCCACTG
*
949500 ACTTATGGGCTT
1 ACTTGTGGGCTT
949512 CGGAAAAGGG
Statistics
Matches: 106, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
27 3 0.03
28 60 0.57
29 20 0.19
30 23 0.22
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.37
Consensus pattern (28 bp):
ACTTGTGGGCTTTTAAAGGTTGCCACTG
Found at i:949417 original size:57 final size:57
Alignment explanation
Indices: 949337--949458 Score: 201
Period size: 57 Copynumber: 2.1 Consensus size: 57
949327 CTTGTGTCTA
*
949337 CTTTTGAAAGGGTTGCATCAACTTGTGTGCTTTTAAAGGTTACCACTCG-CTTGTGGG
1 CTTTTGAAAGGATTGCATCAACTTGTGTGCTTTTAAAGGTTACCACT-GACTTGTGGG
* *
949394 CTTTTGAAAGGATTGCATCAACTTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGG
1 CTTTTGAAAGGATTGCATCAACTTGTGTGCTTTTAAAGGTTACCACTGACTTGTGGG
949451 CTTTTGAA
1 CTTTTGAA
949459 GGTTGCCACT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 1 0.02
57 60 0.98
ACGTcount: A:0.20, C:0.16, G:0.26, T:0.38
Consensus pattern (57 bp):
CTTTTGAAAGGATTGCATCAACTTGTGTGCTTTTAAAGGTTACCACTGACTTGTGGG
Found at i:949498 original size:30 final size:30
Alignment explanation
Indices: 949357--949542 Score: 140
Period size: 28 Copynumber: 6.4 Consensus size: 30
949347 GGTTGCATCA
* * *
949357 ACTTGTGTGCTTTT--AAAGGTTACCACTCG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACT-G
* *
949386 -CTTGTGGGCTTTTG-AAAGGATTG-CA-TCA
1 ACTTGTGGGCTTTTGAAAAGG-GTGCCACT-G
* *
949414 ACTTGTGTGCTTTTG--AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
*
949442 ACTTGTGGGCTTTTG--AAGGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* *
949470 ACTTGTGGGTTTTTGAAAAGGGTGCCACTA
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
* **
949500 ACTTATGGGCTTCGGAAAAGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
**
949530 GTTTGTGGGCTTT
1 ACTTGTGGGCTTT
949543 GAAGGTTGAA
Statistics
Matches: 132, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
27 3 0.02
28 61 0.46
29 21 0.16
30 47 0.36
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.35
Consensus pattern (30 bp):
ACTTGTGGGCTTTTGAAAAGGGTGCCACTG
Found at i:949570 original size:34 final size:33
Alignment explanation
Indices: 949532--949609 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
949522 TGCCACTGGT
* *
949532 TTGTGGGCTTTGAAGGTTGAAAG-GTGCAACGGAG
1 TTGTGGGCTTTGAAGG--AAAAGAGTGCAACAGAG
* * *
949566 TTGTGGACTTAGAAGGAAAAGAGTGCCACAGAG
1 TTGTGGGCTTTGAAGGAAAAGAGTGCAACAGAG
949599 TTGTGGGCTTT
1 TTGTGGGCTTT
949610 AAAAAAAAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
32 4 0.11
33 18 0.50
34 14 0.39
ACGTcount: A:0.26, C:0.10, G:0.37, T:0.27
Consensus pattern (33 bp):
TTGTGGGCTTTGAAGGAAAAGAGTGCAACAGAG
Found at i:949631 original size:31 final size:32
Alignment explanation
Indices: 949551--949644 Score: 111
Period size: 31 Copynumber: 2.9 Consensus size: 32
949541 TTGAAGGTTG
* *
949551 AAAGGTGCAACGGAGTTGTGGACTTAGAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAGAAGAA
* *
949583 AAAGAGTGCCACAGAGTTGTGGGCTTTA-AA-AA
1 AAAG-GTGCCACGGAGTTGTGGAC-TTAGAAGAA
*
949615 AAAGGTGCCATGGAGTTGTGGACTTAGAAG
1 AAAGGTGCCACGGAGTTGTGGACTTAGAAG
949645 GTTGCCACAG
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
30 3 0.06
31 18 0.35
32 9 0.18
33 18 0.35
34 3 0.06
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.21
Consensus pattern (32 bp):
AAAGGTGCCACGGAGTTGTGGACTTAGAAGAA
Found at i:951147 original size:1 final size:1
Alignment explanation
Indices: 951143--951262 Score: 87
Period size: 1 Copynumber: 120.0 Consensus size: 1
951133 GTTTTTGTTG
* * * * * * *
951143 TTTTTTTGTTTTGTTTTGTTTTTTTTTTGTTTTTTTTTGTTTTTTTTTGTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * **
951208 TTTTGTTCTTTTTTTTGTTTGTGTTTTTTTTTCTTCTTTCTTCCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
951263 ACAGAGGACG
Statistics
Matches: 87, Mismatches: 32, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 87 1.00
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (1 bp):
T
Found at i:951159 original size:21 final size:20
Alignment explanation
Indices: 951125--951227 Score: 129
Period size: 21 Copynumber: 5.0 Consensus size: 20
951115 ATCCGGACCC
*
951125 TTTTTGTTGTTTTTGTTGTT
1 TTTTTGTTTTTTTTGTTGTT
*
951145 TTTTTGTTTTGTTTTGTTTTT
1 TTTTTGTTTT-TTTTGTTGTT
951166 TTTTTGTTTTTTTTTGTT-TT
1 TTTTTG-TTTTTTTTGTTGTT
*
951186 TTTTTGTTTTTTTTGTTTTTT
1 TTTTTGTTTTTTTTG-TTGTT
951207 TTTTTGTTCTTTTTT-TTGTT
1 TTTTTGTT-TTTTTTGTTGTT
951227 T
1 T
951228 GTGTTTTTTT
Statistics
Matches: 75, Mismatches: 3, Indels: 10
0.85 0.03 0.11
Matches are distributed among these distances:
19 9 0.12
20 24 0.32
21 32 0.43
22 10 0.13
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (20 bp):
TTTTTGTTTTTTTTGTTGTT
Found at i:951170 original size:41 final size:41
Alignment explanation
Indices: 951125--951227 Score: 147
Period size: 41 Copynumber: 2.5 Consensus size: 41
951115 ATCCGGACCC
*
951125 TTTTTGTTGTTTTTGTTGTTTTTTTGTTTTGTTTTG-TTTTT
1 TTTTTGTTCTTTTTGTTGTTTTTTTGTTTT-TTTTGTTTTTT
*
951166 TTTTTGTTTTTTTTTGTT-TTTTTTTGTTTTTTTTGTTTTTT
1 TTTTTG-TTCTTTTTGTTGTTTTTTTGTTTTTTTTGTTTTTT
*
951207 TTTTTGTTCTTTTTTTTGTTT
1 TTTTTGTTCTTTTTGTTGTTT
951228 GTGTTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
40 14 0.25
41 32 0.57
42 10 0.18
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (41 bp):
TTTTTGTTCTTTTTGTTGTTTTTTTGTTTTTTTTGTTTTTT
Found at i:951178 original size:31 final size:29
Alignment explanation
Indices: 951125--951262 Score: 134
Period size: 30 Copynumber: 4.5 Consensus size: 29
951115 ATCCGGACCC
* *
951125 TTTTTGTTGTTTTTGTTGTTTTTTTGTTTT
1 TTTTTTTTTTTTTTGTT-TTTTTTTGTTTT
951155 GTTTTGTTTTTTTTTTGTTTTTTTTTGTTTT
1 -TTTT-TTTTTTTTTTGTTTTTTTTTGTTTT
*
951186 TTTTTGTTTTTTTTGTTTTTTTTT-TTGTT
1 TTTTTTTTTTTTTTGTTTTTTTTTGTT-TT
* * *
951215 CTTTTTTTTGTTTGTGTTTTTTTTTCTTCTT
1 -TTTTTTTTTTTTTTGTTTTTTTTTGTT-TT
951246 TCTTCCTTTTTTTTTTT
1 T-TT--TTTTTTTTTTT
951263 ACAGAGGACG
Statistics
Matches: 91, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
28 2 0.02
29 21 0.23
30 26 0.29
31 22 0.24
32 11 0.12
33 9 0.10
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (29 bp):
TTTTTTTTTTTTTTGTTTTTTTTTGTTTT
Found at i:951237 original size:41 final size:37
Alignment explanation
Indices: 951125--951239 Score: 113
Period size: 41 Copynumber: 2.8 Consensus size: 37
951115 ATCCGGACCC
*
951125 TTTTTGTTGTTTTTGTTGTTTTTTTGTTTTGTTTTGTTTTT
1 TTTTTGTT-TTTTTTTTG-TTTTTT-TTTT-TTTTGTTTTT
*
951166 TTTTTGTTTTTTTTTGTTTTTTTTTGTTTTTTTTGTTTTTT
1 TTTTTG-TTTTTTTT-TTGTTTTTT-TTTTTTTTG-TTTTT
*
951207 TTTTTGTTCTTTTTTTTGTTTGTGTTTTTTTTT
1 TTTTTGTT-TTTTTTTTGTTT-TTTTTTTTTTT
951240 CTTCTTTCTT
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
40 20 0.31
41 41 0.63
42 4 0.06
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (37 bp):
TTTTTGTTTTTTTTTTGTTTTTTTTTTTTTTGTTTTT
Found at i:951256 original size:70 final size:70
Alignment explanation
Indices: 951125--951260 Score: 177
Period size: 70 Copynumber: 1.9 Consensus size: 70
951115 ATCCGGACCC
* * * **
951125 TTTTTGTTGTTTTTGTTGTTTTTTTGTTTTGTTTTGTTTTTTTTTTGTTTTTTTTTGTTTTTTTT
1 TTTTTGTTGTTTTTGTTGTTCTTTTGTTTTGTTTTGTTTTTTTTTTCTTCTTTTTCCTTTTTTTT
951190 TGTTT
66 TGTTT
* *
951195 TTTTTGTTTTTTTTTTTGTTCTTTT-TTTTG-TTTGTGTTTTTTTTTCTTCTTTCTTCCTTTTTT
1 TTTTTGTTGTTTTTGTTGTTCTTTTGTTTTGTTTTGT-TTTTTTTTTCTTCTTT-TTCCTTTTTT
951258 TTT
64 TTT
951261 TTACAGAGGA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 5 0.09
69 19 0.33
70 33 0.58
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (70 bp):
TTTTTGTTGTTTTTGTTGTTCTTTTGTTTTGTTTTGTTTTTTTTTTCTTCTTTTTCCTTTTTTTT
TGTTT
Found at i:953870 original size:13 final size:13
Alignment explanation
Indices: 953852--953879 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
953842 CAAAGATCAG
953852 TGTATCGATACAA
1 TGTATCGATACAA
953865 TGTATCGATACAA
1 TGTATCGATACAA
953878 TG
1 TG
953880 ACTAATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:953873 original size:33 final size:33
Alignment explanation
Indices: 953831--953896 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
953821 ATTTGCCTGC
*
953831 ATGTATCGATACAAAGA-TCAGTGTATCGATACA
1 ATGTATCGATACAAAGACT-AATGTATCGATACA
*
953864 ATGTATCGATACAATGACTAATGTATCGATACA
1 ATGTATCGATACAAAGACTAATGTATCGATACA
953897 TTTTCTTGGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGACTAATGTATCGATACA
Found at i:953940 original size:19 final size:19
Alignment explanation
Indices: 953916--953982 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
953906 CAGTAGCTAA
953916 TTATGTATCGATACAACAC
1 TTATGTATCGATACAACAC
953935 TTATGTATCGAT---ACA-
1 TTATGTATCGATACAACAC
953950 -T-TGTATCGATACAACAC
1 TTATGTATCGATACAACAC
953967 TTATGTATCGATACAA
1 TTATGTATCGATACAA
953983 ATAGTTGAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 9 0.21
14 1 0.02
16 6 0.14
18 1 0.02
19 25 0.60
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (19 bp):
TTATGTATCGATACAACAC
Found at i:953956 original size:13 final size:13
Alignment explanation
Indices: 953938--953962 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
953928 ACAACACTTA
953938 TGTATCGATACAT
1 TGTATCGATACAT
953951 TGTATCGATACA
1 TGTATCGATACA
953963 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:953960 original size:32 final size:32
Alignment explanation
Indices: 953919--953981 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
953909 TAGCTAATTA
953919 TGTATCGATACAACACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
953951 TGTATCGATACAACACTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
953982 AATAGTTGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:954449 original size:106 final size:107
Alignment explanation
Indices: 954324--955056 Score: 465
Period size: 107 Copynumber: 6.9 Consensus size: 107
954314 TTATTGATCG
* * * * * *
954324 TATGATTTCATCTTAGCCAACTCTTTTTTGACTTAGCTTTT-TCCTTGTCACTCTTTGTTGACTC
1 TATGGTTTCATCCTGGCCAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACTCTTTGTTGACTC
***
954388 ATATGGTTTCATTTTGGTCAACCCCTCTAACTTGTTGGTTCA
66 ATATGGTTTCATCCCGGTCAACCCCTCTAACTTGTTGGTTCA
* ** * * * *
954430 TATAGTTTCATCCTGGCCAACTCTTTTTCAACTTAAGTTTCACCTTAGTCAC-CTTTCATTGACT
1 TATGGTTTCATCCTGGCCAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACTCTTT-GTTGACT
*** * * * * * *
954494 TGCATGGTTTCATCCCAGCCAATCCCTTTAATTTGTT--TT-G
65 CATATGGTTTCATCCCGGTCAACCCCTCTAACTTGTTGGTTCA
* * * * * *
954534 TATGGTTTCATCCCGACCAACT-TCTTTTGAATTAGGTTTTACCCTGGTTACTCTTTGTTGACTC
1 TATGGTTTCATCCTGGCCAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACTCTTTGTTGACTC
* * ** ** *
954598 GTATGGTTTTATCCCGGTTGACCTTTCTAACTTGTTGGCTCA
66 ATATGGTTTCATCCCGGTCAACCCCTCTAACTTGTTGGTTCA
** *** * * **
954640 TATGGTTTTGT-CTCGAAAAACTCCTTTTTGATTTAGGTTTTACCCTAGTCACTCTTCATTGACT
1 TATGGTTTCATCCT-GGCCAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACTCTTTGTTGACT
* * * *
954704 CATATGGTTTCATCCCGGTTAACCCCTTTAACTTGTTAGCTT-G
65 CATATGGTTTCATCCCGGTCAACCCCTCTAACTTGTT-GGTTCA
* * * * * *
954747 TATGGTTTCATCCTGGCTAACTCCTTTTTGACTTGGGTTTCACCCTAGTCA-TCATTTCTTCACT
1 TATGGTTTCATCCTGGCCAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACTC-TTTGTTGACT
** * * * * * *
954811 TGTATGGTTTCATCCTGGTCAACTCTTTTAACTTATTGGTTCG
65 CATATGGTTTCATCCCGGTCAACCCCTCTAACTTGTTGGTTCA
* ** * * * * *
954854 TATGGTTTCAT-CTAGTTAACTTTTTTTTTACTTAGATTTTGCCCTACTCAC-CTTTCGTTGACT
1 TATGGTTTCATCCTGGCCAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACTCTTT-GTTGACT
** * * *
954917 CATATGGTTTTGT-CCGCGTCAACCCTTCTAACTTATTGGTTTA
65 CATATGGTTTCATCCCG-GTCAACCCCTCTAACTTGTTGGTTCA
* * * * * * **
954960 TATGGTTTCATCCCGACTAACCCTTTTTTGACTAAAGGTTTTGCCC---TCAC-C-TCATTGACT
1 TATGGTTTCATCCTGGCCAACTCTTTTTTGACT-TAGGTTTTACCCTAGTCACTCTTTGTTGACT
**** *
955020 CATATGGTTTCATCATAATCAACCCCTGTAACTTGTT
65 CATATGGTTTCATCCCGGTCAACCCCTCTAACTTGTT
955057 AACTCAAATG
Statistics
Matches: 476, Mismatches: 133, Indels: 39
0.73 0.21 0.06
Matches are distributed among these distances:
103 84 0.18
104 24 0.05
105 14 0.03
106 133 0.28
107 207 0.43
108 14 0.03
ACGTcount: A:0.18, C:0.24, G:0.14, T:0.44
Consensus pattern (107 bp):
TATGGTTTCATCCTGGCCAACTCTTTTTTGACTTAGGTTTTACCCTAGTCACTCTTTGTTGACTC
ATATGGTTTCATCCCGGTCAACCCCTCTAACTTGTTGGTTCA
Found at i:955082 original size:41 final size:41
Alignment explanation
Indices: 955017--955124 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 41
955007 CACCTCATTG
* * * **
955017 ACTCATATGGTTTCATCATAATCAACCCCTGTAACTTGTTA
1 ACTCATATGGTTTTATCCTGATCAACCCCTCCAACTTGTTA
* * *
955058 ACTCAAATGGTTTTATCCTGATCAACTCTTCCAACTTGTTA
1 ACTCATATGGTTTTATCCTGATCAACCCCTCCAACTTGTTA
* *
955099 ACTCGTATGGTTTTATCCCGATCAAC
1 ACTCATATGGTTTTATCCTGATCAAC
955125 TTTTCTAACT
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (41 bp):
ACTCATATGGTTTTATCCTGATCAACCCCTCCAACTTGTTA
Done.