Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold3
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: 6198200
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 200361 characters in sequence are not A, C, G, or T
File 6 of 32
Found at i:661403 original size:26 final size:26
Alignment explanation
Indices: 661352--661408 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
661342 TCTAACAGTA
* *
661352 AATTTAATTTATATTATATTAAATTT
1 AATTTAATTAATATTATAATAAATTT
*
661378 AATTTAATTAATAATTA-AATATATTT
1 AATTTAATTAAT-ATTATAATAAATTT
661404 AATTT
1 AATTT
661409 GATTTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
AATTTAATTAATATTATAATAAATTT
Found at i:661459 original size:14 final size:15
Alignment explanation
Indices: 661435--661463 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
661425 TATAAGTTAA
661435 AAATAATAATTATTT
1 AAATAATAATTATTT
661450 AAATAA-AATTATTT
1 AAATAATAATTATTT
661464 TTTAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATAATAATTATTT
Found at i:664063 original size:18 final size:18
Alignment explanation
Indices: 664025--664092 Score: 60
Period size: 17 Copynumber: 4.1 Consensus size: 18
664015 TAAGTCATAA
664025 TTATATTT-TA-AAATATT
1 TTATATTTATATAAAT-TT
664042 TTATATTTATATAAATTT
1 TTATATTTATATAAATTT
664060 TTATATATTA-AT-AA--T
1 TTATAT-TTATATAAATTT
*
664075 TCATA-TTATATAAATTT
1 TTATATTTATATAAATTT
664092 T
1 T
664093 AAAATATTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
13 3 0.07
14 2 0.05
15 7 0.16
17 12 0.28
18 12 0.28
19 7 0.16
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATATTTATATAAATTT
Found at i:664065 original size:58 final size:59
Alignment explanation
Indices: 663999--664131 Score: 146
Period size: 56 Copynumber: 2.2 Consensus size: 59
663989 TATTAATTTT
* * * *
663999 ATTTTATATATTTTATTAAGTCATA-AT-TATATTTTAAAATATTT-TATATTTATATAA
1 ATTTT-TATATATTAATAAGTCATATATATAAATTTTAAAATATTTATAAATTTATATAA
* *
664056 ATTTTTATATATTAATAATTCATATTATATAAATTTTAAAATATTTATAAATTTATATTTTA
1 ATTTTTATATATTAATAAGTCATA-TATATAAATTTTAAAATATTTATAAATTTATA--TAA
*
664118 ATTTTTTTATATTA
1 ATTTTTATATATTA
664132 TATTTATATA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
56 16 0.25
57 5 0.08
58 2 0.03
59 16 0.25
60 9 0.14
62 15 0.24
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.57
Consensus pattern (59 bp):
ATTTTTATATATTAATAAGTCATATATATAAATTTTAAAATATTTATAAATTTATATAA
Found at i:664085 original size:32 final size:33
Alignment explanation
Indices: 664048--664131 Score: 95
Period size: 32 Copynumber: 2.7 Consensus size: 33
664038 TATTTTATAT
664048 TTATATAAATTTTTATATATTAAT-AATTCATA
1 TTATATAAATTTTTATATATTAATAAATTCATA
* * * *
664080 TTATATAAATTTTAAAATATTTATAAATTTATA
1 TTATATAAATTTTTATATATTAATAAATTCATA
*
664113 TT-T-T-AATTTTTTTATATTA
1 TTATATAAATTTTTATATATTA
664132 TATTTATATA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
30 11 0.26
31 1 0.02
32 22 0.51
33 9 0.21
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (33 bp):
TTATATAAATTTTTATATATTAATAAATTCATA
Found at i:671044 original size:2 final size:2
Alignment explanation
Indices: 671037--671062 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
671027 AATTATTGAG
671037 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
671063 CTCCTTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:671183 original size:2 final size:2
Alignment explanation
Indices: 671176--671217 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
671166 CTTGCATGTG
671176 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
671218 ATGTATAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:672029 original size:23 final size:24
Alignment explanation
Indices: 671999--672062 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 24
671989 TTAATAATAT
671999 TTAAATATATCATATTATATT-TA
1 TTAAATATATCATATTATATTATA
**
672022 TTAAATATATTTTATTTATATTATA
1 TTAAATATATCATA-TTATATTATA
**
672047 TT-TTTATATCATATTA
1 TTAAATATATCATATTA
672063 AAAATTATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 15 0.45
24 14 0.42
25 4 0.12
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (24 bp):
TTAAATATATCATATTATATTATA
Found at i:672060 original size:18 final size:16
Alignment explanation
Indices: 672008--672062 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 16
671998 TTTAAATATA
672008 TCATATTATA-TTTAT
1 TCATATTATATTTTAT
*
672023 T-A-AATATATTTTAT
1 TCATATTATATTTTAT
*
672037 TTATATTATATTTTTAT
1 TCATATTATA-TTTTAT
672054 ATCATATTA
1 -TCATATTA
672063 AAAATTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 5 0.16
14 7 0.22
15 2 0.06
16 5 0.16
17 6 0.19
18 7 0.22
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
TCATATTATATTTTAT
Found at i:674482 original size:21 final size:21
Alignment explanation
Indices: 674458--674505 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
674448 ATATCACTTA
*
674458 TTATATAAT-ATATAATTAATT
1 TTATATAATAATATAAAT-ATT
*
674479 TTATGTAATAATATAAATATT
1 TTATATAATAATATAAATATT
674500 TTATAT
1 TTATAT
674506 TTTAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TTATATAATAATATAAATATT
Found at i:677751 original size:11 final size:11
Alignment explanation
Indices: 677735--677864 Score: 50
Period size: 11 Copynumber: 12.4 Consensus size: 11
677725 TCATATTTAA
677735 ATTTATATTAT
1 ATTTATATTAT
677746 ATTTATA-TAT
1 ATTTATATTAT
677756 -TTT-TA-TAT
1 ATTTATATTAT
677764 A-TTATAATTAT
1 ATTTAT-ATTAT
677775 ATTTAAAATATTATAT
1 ATTT---ATA-T-TAT
*
677791 ATTTATATAAT
1 ATTTATATTAT
*
677802 ATTT-TAATAT
1 ATTTATATTAT
*
677812 A-TTA-A--AA
1 ATTTATATTAT
677819 ATTTATATTAT
1 ATTTATATTAT
** *
677830 ATAAATTTTA-
1 ATTTATATTAT
*
677840 ATATAT-TTAT
1 ATTTATATTAT
*
677850 ATTTATATCAT
1 ATTTATATTAT
677861 ATTT
1 ATTT
677865 GATTTTTTTT
Statistics
Matches: 91, Mismatches: 11, Indels: 34
0.67 0.08 0.25
Matches are distributed among these distances:
7 2 0.02
8 10 0.11
9 11 0.12
10 19 0.21
11 32 0.35
12 3 0.03
13 3 0.03
14 1 0.01
15 3 0.03
16 7 0.08
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:677756 original size:8 final size:8
Alignment explanation
Indices: 677743--677799 Score: 50
Period size: 8 Copynumber: 7.5 Consensus size: 8
677733 AAATTTATAT
677743 TATATTTA
1 TATATTTA
*
677751 TATATTTT
1 TATATTTA
677759 TATATATTA
1 TATAT-TTA
677768 TA-A-TTA
1 TATATTTA
*
677774 TAT-TTAA
1 TATATTTA
*
677781 AATA-TTA
1 TATATTTA
677788 TATATTTA
1 TATATTTA
677796 TATA
1 TATA
677800 ATATTTTAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
6 5 0.13
7 9 0.24
8 20 0.53
9 4 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (8 bp):
TATATTTA
Found at i:677787 original size:20 final size:18
Alignment explanation
Indices: 677748--677848 Score: 61
Period size: 18 Copynumber: 5.7 Consensus size: 18
677738 TATATTATAT
* *
677748 TTATATAT-TTTTATATA
1 TTATATATATTTAAAATA
677765 TTATAATTATATTTAAAATA
1 TTAT-A-TATATTTAAAATA
*
677785 TTATATAT-TTATATAATA
1 TTATATATATT-TAAAATA
* *
677803 TTTTAATATATTAAAAAT-
1 TTAT-ATATATTTAAAATA
* *
677821 TTATAT-TATAT-AAATT
1 TTATATATATTTAAAATA
677837 TTA-ATATATTTA
1 TTATATATATTTA
677849 TATTTATATC
Statistics
Matches: 65, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
15 6 0.09
16 10 0.15
17 8 0.12
18 16 0.25
19 12 0.18
20 13 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATATATATTTAAAATA
Found at i:677793 original size:16 final size:17
Alignment explanation
Indices: 677772--677850 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 17
677762 ATATTATAAT
677772 TATATTTA-AAATATTA
1 TATATTTATAAATATTA
*
677788 TATATTTATATAATATTT
1 TATATTTATA-AATATTA
677806 TAATATATTA-AAA-ATT-
1 T-ATAT-TTATAAATATTA
*
677822 TATATTATATAAATTTTAA
1 TATATT-TATAAATATT-A
677841 TATATTTATA
1 TATATTTATA
677851 TTTATATCAT
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.02
15 6 0.12
16 12 0.23
17 6 0.12
18 13 0.25
19 11 0.21
20 3 0.06
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTTATAAATATTA
Found at i:677794 original size:37 final size:36
Alignment explanation
Indices: 677746--677846 Score: 113
Period size: 37 Copynumber: 2.9 Consensus size: 36
677736 TTTATATTAT
* *
677746 ATTTATATATTTTTAT-ATATTATAATTATATTTAAA
1 ATTTATATATTTATATAATATTATAA-TATATTAAAA
*
677782 ATATTATATATTTATATAATATTTTAATATATTAAAA
1 AT-TTATATATTTATATAATATTATAATATATTAAAA
*
677819 A-TT-TATA-TTATATAA-ATTTTAATATATT
1 ATTTATATATTTATATAATATTATAATATATT
677847 TATATTTATA
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
32 13 0.22
33 8 0.13
34 4 0.07
35 2 0.03
36 2 0.03
37 23 0.38
38 8 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (36 bp):
ATTTATATATTTATATAATATTATAATATATTAAAA
Found at i:677852 original size:48 final size:46
Alignment explanation
Indices: 677732--677853 Score: 113
Period size: 48 Copynumber: 2.5 Consensus size: 46
677722 CTATCATATT
* * *
677732 TAAATTTATATTATATTTATATATTTTTATATATTATAATTATATTTA
1 TAAATTTATAATATA-TT-TATATTTTAATATATTAAAATTATATTTA
* *
677780 -AAATATTATATATTTATATAATATTTTAATATATTAAAAATTTATATTATA
1 TAAAT-TTATA-ATATAT-TTATATTTTAATATATT-AAAA-TTATATT-TA
677831 TAAATTT-TAATATATTTATATTT
1 TAAATTTATAATATATTTATATTT
677854 ATATCATATT
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
47 4 0.07
48 27 0.45
49 12 0.20
50 9 0.15
51 4 0.07
52 4 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (46 bp):
TAAATTTATAATATATTTATATTTTAATATATTAAAATTATATTTA
Found at i:677870 original size:32 final size:32
Alignment explanation
Indices: 677772--677862 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 32
677762 ATATTATAAT
*
677772 TATATTTAAAATATTATATATTTATATAATATTTTAA
1 TATA-TTAAAA-ATT-TATA-TCATATAA-ATTTTAA
*
677809 TATATTAAAAATTTATATTATATAAATTTTAA
1 TATATTAAAAATTTATATCATATAAATTTTAA
* *
677841 TATATT-TATATTTATATCATAT
1 TATATTAAAAATTTATATCATAT
677863 TTGATTTTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
31 13 0.25
32 13 0.25
33 8 0.16
34 4 0.08
35 3 0.06
36 6 0.12
37 4 0.08
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (32 bp):
TATATTAAAAATTTATATCATATAAATTTTAA
Found at i:680513 original size:31 final size:30
Alignment explanation
Indices: 680450--680513 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
680440 TTAAATTTAA
* * *
680450 AATATTAAATATTTATAAATTAAATATATT
1 AATATAAAAAATTAATAAATTAAATATATT
* *
680480 AATATAAAAAATTAATATAATTATATATTTT
1 AATATAAAAAATTAATA-AATTAAATATATT
680511 AAT
1 AAT
680514 TATTTTATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
AATATAAAAAATTAATAAATTAAATATATT
Found at i:681215 original size:22 final size:22
Alignment explanation
Indices: 681165--681224 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
681155 TCTTCAAACG
*
681165 TAAAAAAAAAAAAATAACATTT
1 TAAAGAAAAAAAAATAACATTT
* * *
681187 TATAGAAGAGAAAATAA-ATTT
1 TAAAGAAAAAAAAATAACATTT
681208 TAAAAGAAAAAAAAATA
1 T-AAAGAAAAAAAAATA
681225 TGCTTAAATT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (22 bp):
TAAAGAAAAAAAAATAACATTT
Found at i:681633 original size:18 final size:17
Alignment explanation
Indices: 681608--681661 Score: 60
Period size: 18 Copynumber: 3.3 Consensus size: 17
681598 ATGACGTATT
*
681608 TAATAAATATAAAATAA
1 TAATAAATAAAAAATAA
681625 TAATAAAATAAAAAATAA
1 TAAT-AAATAAAAAATAA
*
681643 T--T-ATTAAAAAATAA
1 TAATAAATAAAAAATAA
681657 TAATA
1 TAATA
681662 TACAAATGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
14 12 0.39
16 2 0.06
17 4 0.13
18 13 0.42
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAATAAATAAAAAATAA
Found at i:681700 original size:14 final size:14
Alignment explanation
Indices: 681676--681773 Score: 64
Period size: 14 Copynumber: 7.1 Consensus size: 14
681666 AATGTTATTC
681676 ATATA-TTAATATA
1 ATATATTTAATATA
681689 ATATATTTAATATA
1 ATATATTTAATATA
* *
681703 TTATATTTAAGTTTA
1 ATATATTTAA-TATA
*
681718 AAAT-TTTAATATA
1 ATATATTTAATATA
*
681731 TTTAATAATTT-ATAT-
1 -AT-AT-ATTTAATATA
681746 -TATATTT-ATATTA
1 ATATATTTAATA-TA
*
681759 ACATATTTAATATA
1 ATATATTTAATATA
681773 A
1 A
681774 AAATATAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
11 7 0.10
12 3 0.04
13 9 0.13
14 31 0.46
15 10 0.15
16 4 0.06
17 3 0.04
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (14 bp):
ATATATTTAATATA
Found at i:682224 original size:2 final size:2
Alignment explanation
Indices: 682217--682257 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
682207 CAAAGCATAG
682217 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
682258 CACTCAGCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:682662 original size:16 final size:16
Alignment explanation
Indices: 682620--682662 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
682610 AATTTAAAGC
682620 TATTTAAATAAGTTAT
1 TATTTAAATAAGTTAT
**
682636 TATTTGTATAA-TTAT
1 TATTTAAATAAGTTAT
682651 TATTCTAAATAA
1 TATT-TAAATAA
682663 AATTATTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (16 bp):
TATTTAAATAAGTTAT
Found at i:683397 original size:31 final size:31
Alignment explanation
Indices: 683339--683397 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
683329 TATTTAACTT
* *
683339 ATTATTAATTTAATATTTGTTTAATATTAAA
1 ATTATTAATTTAATATATGTTAAATATTAAA
*
683370 ATTATTTATTTAATATAT-TTAACATATT
1 ATTATTAATTTAATATATGTTAA-ATATT
683398 TTTAATTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 3 0.12
31 21 0.88
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (31 bp):
ATTATTAATTTAATATATGTTAAATATTAAA
Found at i:688871 original size:42 final size:42
Alignment explanation
Indices: 688812--688896 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
688802 AGATGCTCTC
688812 ACATTCTCACTTCCTTGGCAAGTTCGTCAAATTTTCAGTCTG
1 ACATTCTCACTTCCTTGGCAAGTTCGTCAAATTTTCAGTCTG
* *
688854 ACATTCTCACTTCCTTGGCAAGTTTGTCAAATTTTCATTCTG
1 ACATTCTCACTTCCTTGGCAAGTTCGTCAAATTTTCAGTCTG
688896 A
1 A
688897 AAATCTGGAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (42 bp):
ACATTCTCACTTCCTTGGCAAGTTCGTCAAATTTTCAGTCTG
Found at i:691846 original size:4 final size:4
Alignment explanation
Indices: 691837--691917 Score: 83
Period size: 4 Copynumber: 20.2 Consensus size: 4
691827 AAATTCTTAC
* * * * * *
691837 TATA TATA TATA TATG TATA CAT- TCATA CATA CATA TATA TACA TACA
1 TATA TATA TATA TATA TATA TATA T-ATA TATA TATA TATA TATA TATA
*
691885 TACA TATA TATA TATA TATA TATA TATA TATA T
1 TATA TATA TATA TATA TATA TATA TATA TATA T
691918 TGTAACTTCC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
4 67 1.00
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (4 bp):
TATA
Found at i:691878 original size:22 final size:22
Alignment explanation
Indices: 691848--691900 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
691838 ATATATATAT
* *
691848 ATATGTATACATTCATACATAC
1 ATATATATACATACATACATAC
*
691870 ATATATATACATACATACATAT
1 ATATATATACATACATACATAC
691892 ATATATATA
1 ATATATATA
691901 TATATATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (22 bp):
ATATATATACATACATACATAC
Found at i:691881 original size:14 final size:14
Alignment explanation
Indices: 691862--691917 Score: 67
Period size: 14 Copynumber: 4.0 Consensus size: 14
691852 GTATACATTC
691862 ATACATACATATAT
1 ATACATACATATAT
*
691876 ATACATACATACAT
1 ATACATACATATAT
* *
691890 ATATATATATATAT
1 ATACATACATATAT
* *
691904 ATATATATATATAT
1 ATACATACATATAT
691918 TGTAACTTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (14 bp):
ATACATACATATAT
Found at i:691915 original size:18 final size:18
Alignment explanation
Indices: 691862--691917 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
691852 GTATACATTC
*
691862 ATACATACATATATATAC
1 ATACATACATATATATAT
691880 ATACATACATATATATAT
1 ATACATACATATATATAT
* *
691898 ATATATATATATATATAT
1 ATACATACATATATATAT
691916 AT
1 AT
691918 TGTAACTTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (18 bp):
ATACATACATATATATAT
Found at i:692219 original size:12 final size:12
Alignment explanation
Indices: 692204--692255 Score: 56
Period size: 12 Copynumber: 4.4 Consensus size: 12
692194 AATTTTAATA
692204 TATATTTTTATT
1 TATATTTTTATT
692216 TATATTATTT-TT
1 TATATT-TTTATT
692228 TATA-TTTTATT
1 TATATTTTTATT
*
692239 T-TATTTATTTTT
1 TATATTT-TTATT
692251 TATAT
1 TATAT
692256 CCTATCAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
10 5 0.15
11 6 0.18
12 17 0.50
13 6 0.18
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (12 bp):
TATATTTTTATT
Found at i:692220 original size:28 final size:28
Alignment explanation
Indices: 692188--692246 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
692178 TATATATATA
692188 TATATAAATTTTAATA-TATATTTTTATT
1 TATATAAATTTTAATATTATA-TTTTATT
* * * *
692216 TATATTATTTTTTATATTTTATTTTATT
1 TATATAAATTTTAATATTATATTTTATT
692244 TAT
1 TAT
692247 TTTTTATATC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (28 bp):
TATATAAATTTTAATATTATATTTTATT
Found at i:692231 original size:24 final size:24
Alignment explanation
Indices: 692204--692255 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
692194 AATTTTAATA
692204 TATATTTTTA-TTTATATTATTTTT
1 TATATTTTTATTTTAT-TTATTTTT
692228 TATA-TTTTATTTTATTTATTTTT
1 TATATTTTTATTTTATTTATTTTT
692251 TATAT
1 TATAT
692256 CCTATCAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 17 0.65
24 9 0.35
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (24 bp):
TATATTTTTATTTTATTTATTTTT
Found at i:692714 original size:7 final size:7
Alignment explanation
Indices: 692702--692726 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
692692 CTTAAAAGCA
692702 GCAACGG
1 GCAACGG
692709 GCAACGG
1 GCAACGG
692716 GCAACGG
1 GCAACGG
692723 GCAA
1 GCAA
692727 AGGCCAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.28, G:0.40, T:0.00
Consensus pattern (7 bp):
GCAACGG
Found at i:693581 original size:2 final size:2
Alignment explanation
Indices: 693576--693600 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
693566 TACCTGTCTT
693576 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
693601 TTAAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:694719 original size:6 final size:7
Alignment explanation
Indices: 694706--694732 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
694696 TATATTTAAA
694706 TAATTTT
1 TAATTTT
694713 TAATTTT
1 TAATTTT
694720 TAATTTT
1 TAATTTT
694727 TAATTT
1 TAATTT
694733 ATATCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TAATTTT
Found at i:695652 original size:12 final size:12
Alignment explanation
Indices: 695637--695673 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
695627 AAACGTTATA
695637 TAAAAATTAAAT
1 TAAAAATTAAAT
*
695649 TAAAAATTATA-
1 TAAAAATTAAAT
695660 T-AAAATTAAAT
1 TAAAAATTAAAT
695671 TAA
1 TAA
695674 TTTGAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
10 8 0.38
11 2 0.10
12 11 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAAAATTAAAT
Found at i:696086 original size:24 final size:24
Alignment explanation
Indices: 696055--696105 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
696045 TTCCAGCTAA
*
696055 AAAAGAAAGAAAAAAA-AAAGAGAA
1 AAAAGAAA-AAAAAAAGAAAGAAAA
*
696079 AAAGGAAAAAAAAAAGAAAGAAAA
1 AAAAGAAAAAAAAAAGAAAGAAAA
696103 AAA
1 AAA
696106 TTTATATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAAGAAAAAAAAAAGAAAGAAAA
Found at i:696089 original size:8 final size:8
Alignment explanation
Indices: 696053--696105 Score: 56
Period size: 8 Copynumber: 6.8 Consensus size: 8
696043 GATTCCAGCT
696053 AAAAAAGA
1 AAAAAAGA
*
696061 AAGAAA-A
1 AAAAAAGA
696068 AAAAAAGA
1 AAAAAAGA
*
696076 GAAAAAGGA
1 -AAAAAAGA
696085 AAAAAA-A
1 AAAAAAGA
*
696092 AAGAAAGA
1 AAAAAAGA
696100 AAAAAA
1 AAAAAA
696106 TTTATATATT
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
7 12 0.33
8 17 0.47
9 7 0.19
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:697221 original size:15 final size:16
Alignment explanation
Indices: 697197--697231 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
697187 AAAGAGATAT
697197 AAAAATAAAACAAAAG
1 AAAAATAAAACAAAAG
*
697213 AAAAA-AAAAGAAAAG
1 AAAAATAAAACAAAAG
697228 AAAA
1 AAAA
697232 GTGAGAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (16 bp):
AAAAATAAAACAAAAG
Found at i:697855 original size:26 final size:26
Alignment explanation
Indices: 697816--697870 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
697806 TATTTAATAT
* * *
697816 AATTTAATTTAAA-TTATATAATTTTA
1 AATTTAACTAAAATTTATA-AATATTA
697842 AATTTAACTAAAATTTATAAATATTA
1 AATTTAACTAAAATTTATAAATATTA
697868 AAT
1 AAT
697871 ATCTTCCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
AATTTAACTAAAATTTATAAATATTA
Found at i:698373 original size:28 final size:28
Alignment explanation
Indices: 698301--698380 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 28
698291 AAAATATTTT
* * * *
698301 TTTTAATTTTAATTTTTATTTGAAGTAAT
1 TTTTATTTTTAAATTTTATTT-AAATAAG
* *
698330 TTTTATATTTT-TATTTTATTTAAATCAG
1 TTTTAT-TTTTAAATTTTATTTAAATAAG
698358 TTTTATTTTTAAATTTTATTTAA
1 TTTTATTTTTAAATTTTATTTAA
698381 TATATTTTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
27 4 0.10
28 21 0.50
29 13 0.31
30 4 0.10
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (28 bp):
TTTTATTTTTAAATTTTATTTAAATAAG
Found at i:698424 original size:27 final size:28
Alignment explanation
Indices: 698394--698448 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
698384 ATTTTGTTTC
698394 AAATT-ATATTATAAA-TTATTCAAATAT
1 AAATTAATATTA-AAATTTATTCAAATAT
*
698421 AAATTAAATATTAAAATTTATTTAAATA
1 AAATT-AATATTAAAATTTATTCAAATA
698449 CAAGGTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 5 0.21
28 3 0.12
29 16 0.67
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (28 bp):
AAATTAATATTAAAATTTATTCAAATAT
Found at i:698491 original size:28 final size:28
Alignment explanation
Indices: 698405--698492 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 28
698395 AATTATATTA
* * *
698405 TAAA-TTATTCAAATATAAATTAAATAT
1 TAAATTTATTTAAATAAAAATTAAATGT
* ** *
698432 TAAAATTTATTTAAATACAAGGTGAATG-
1 T-AAATTTATTTAAATAAAAATTAAATGT
698460 ---ATTTATTTAAATAAAAATTAAATGT
1 TAAATTTATTTAAATAAAAATTAAATGT
698485 TAAATTTA
1 TAAATTTA
698493 AATAATTTAT
Statistics
Matches: 45, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
24 20 0.44
27 1 0.02
28 8 0.18
29 16 0.36
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (28 bp):
TAAATTTATTTAAATAAAAATTAAATGT
Found at i:699321 original size:19 final size:19
Alignment explanation
Indices: 699277--699315 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
699267 GGTCAACTTT
*
699277 AAATAGTATTTTTATATTA
1 AAATAATATTTTTATATTA
699296 AAATAATATTTTTAT-TTA
1 AAATAATATTTTTATATTA
699314 AA
1 AA
699316 TTTAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
AAATAATATTTTTATATTA
Found at i:700484 original size:24 final size:24
Alignment explanation
Indices: 700452--700504 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
700442 GAATTTAATC
*
700452 ATAAAATTTAATAAATTTAAATAA
1 ATAATATTTAATAAATTTAAATAA
* *
700476 ATAATATTTTATAAATTTATATAA
1 ATAATATTTAATAAATTTAAATAA
700500 ATAAT
1 ATAAT
700505 GATATTTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATAATATTTAATAAATTTAAATAA
Found at i:706389 original size:42 final size:42
Alignment explanation
Indices: 706321--706409 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
706311 ATTTGCTCAA
* *
706321 AAACAAGAAAAGGTAAAAGTAGGATAAGCTATCCAACCTGAT
1 AAACCAGAAAAGGTAAAAGTAGGATAAGCTACCCAACCTGAT
*
706363 AAACCAGATAAGGTAAAAGTAGGATAAGCTACCCAACCTGAT
1 AAACCAGAAAAGGTAAAAGTAGGATAAGCTACCCAACCTGAT
706405 AAACC
1 AAACC
706410 TGACCCATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (42 bp):
AAACCAGAAAAGGTAAAAGTAGGATAAGCTACCCAACCTGAT
Found at i:706586 original size:21 final size:21
Alignment explanation
Indices: 706562--706626 Score: 67
Period size: 27 Copynumber: 2.8 Consensus size: 21
706552 TCATGAACAA
706562 TATTAAATTAAAATTTTTCAC
1 TATTAAATTAAAATTTTTCAC
*
706583 TATTAAAGTTACTAGTAAATTTCTCAC
1 TATTAAA--T--TA--AAATTTTTCAC
706610 TATTAAATTAAAATTTT
1 TATTAAATTAAAATTTT
706627 CATATTTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
21 13 0.36
23 3 0.08
25 3 0.08
27 17 0.47
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.46
Consensus pattern (21 bp):
TATTAAATTAAAATTTTTCAC
Found at i:707408 original size:2 final size:2
Alignment explanation
Indices: 707401--707439 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
707391 AAATAAATAA
707401 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
707440 ACTTAGTCAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:710467 original size:13 final size:13
Alignment explanation
Indices: 710449--710475 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
710439 ACGACAGAGT
710449 AGTTAAAAGATTA
1 AGTTAAAAGATTA
710462 AGTTAAAAGATTA
1 AGTTAAAAGATTA
710475 A
1 A
710476 ACATGACAAT
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:0.56, C:0.00, G:0.15, T:0.30
Consensus pattern (13 bp):
AGTTAAAAGATTA
Found at i:711565 original size:21 final size:20
Alignment explanation
Indices: 711523--711573 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
711513 GATAAATTTT
* *
711523 TAATTTTTTTATTATAATAA
1 TAATTTTTTAATTATAAAAA
*
711543 TAATATTTTTAATTTTAAAAA
1 TAAT-TTTTTAATTATAAAAA
711564 TAAGTTTTTT
1 TAA-TTTTTT
711574 GAAAAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 21 0.81
22 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
TAATTTTTTAATTATAAAAA
Found at i:711580 original size:16 final size:14
Alignment explanation
Indices: 711555--711591 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
711545 ATATTTTTAA
711555 TTTTAAAAATAAGTT
1 TTTTAAAAATAA-TT
711570 TTTTGAAAAATAATT
1 TTTT-AAAAATAATT
711585 TTTTAAA
1 TTTTAAA
711592 TATGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 3 0.14
15 10 0.48
16 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (14 bp):
TTTTAAAAATAATT
Found at i:711967 original size:39 final size:37
Alignment explanation
Indices: 711919--712028 Score: 105
Period size: 39 Copynumber: 2.9 Consensus size: 37
711909 AAAGGTATAA
* * *
711919 TTAAAGTATAAATTTTTTATTAAAATTTAAAAGATAT-
1 TTAATGTATAAATTTTTTATTGAAATTCAAAA-ATATG
* * *
711956 TAGTAATGTATAGATTATTTATTGAAATCTGAAAAATATG
1 T--TAATGTATAAATTTTTTATTGAAAT-TCAAAAATATG
**
711996 TTAATACATAAATTTTTTATTGAAATTCAAAAA
1 TTAATGTATAAATTTTTTATTGAAATTCAAAAA
712029 ATAAGACTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
37 7 0.12
38 21 0.36
39 25 0.42
40 6 0.10
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (37 bp):
TTAATGTATAAATTTTTTATTGAAATTCAAAAATATG
Found at i:712029 original size:38 final size:38
Alignment explanation
Indices: 711926--712031 Score: 99
Period size: 38 Copynumber: 2.8 Consensus size: 38
711916 TAATTAAAGT
* * * **
711926 ATAAATTTTTTATTAAAATTTAAAAGATATTAGTAATGT
1 ATAAATTTTTTATTGAAATTCAAAAAATATTA-TAATAC
* * *
711965 ATAGATTATTTATTGAAA-TCTGAAAAATATGT-TAATAC
1 ATAAATTTTTTATTGAAATTC-AAAAAATAT-TATAATAC
712003 ATAAATTTTTTATTGAAATTCAAAAAATA
1 ATAAATTTTTTATTGAAATTCAAAAAATA
712032 AGACTAATGC
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
38 28 0.53
39 24 0.45
40 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (38 bp):
ATAAATTTTTTATTGAAATTCAAAAAATATTATAATAC
Found at i:714402 original size:7 final size:8
Alignment explanation
Indices: 714385--714410 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
714375 CATGTTATAG
714385 TTTTTATT
1 TTTTTATT
714393 TTTTTATT
1 TTTTTATT
714401 TTTTTATT
1 TTTTTATT
714409 TT
1 TT
714411 AACGAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTATT
Found at i:716279 original size:78 final size:75
Alignment explanation
Indices: 716153--716343 Score: 189
Period size: 78 Copynumber: 2.5 Consensus size: 75
716143 TGACCGTTAT
* * *
716153 TTTTTAAATTT-TTTAATTTAAAATTT-TT--ATTTTATTAAAAAATTAATAATTAATA-ATTTG
1 TTTTTAAATTTAATTAATTT-ATATTTCTTCAATTTTATT-AAAAATCAATAATTAATACA-TTG
* **
716213 AGTTTTTAATATAATT
63 A--TTTTAACA-AAAC
* *
716229 TTTTTAAAATTTAATTATTTTTTATTTCTT-AATTTTATTAAAAATCAATAATTAATACATTGAT
1 TTTTT-AAATTTAATTAATTTATATTTCTTCAATTTTATTAAAAATCAATAATTAATACATTGAT
716293 TTTAACAAAAC
65 TTTAACAAAAC
*
716304 TTTTTAAATTTAATTAATTTATATTTTTTCAATTTT-TTAA
1 TTTTTAAATTTAATTAATTTATATTTCTTCAATTTTATTAA
716344 TTAACTTTTA
Statistics
Matches: 98, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
74 25 0.26
75 13 0.13
76 12 0.12
77 10 0.10
78 29 0.30
79 9 0.09
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (75 bp):
TTTTTAAATTTAATTAATTTATATTTCTTCAATTTTATTAAAAATCAATAATTAATACATTGATT
TTAACAAAAC
Found at i:716516 original size:22 final size:22
Alignment explanation
Indices: 716489--716537 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
716479 AATGTCTCTC
*
716489 AAAAAAC-TTATTTTTAGAATTA
1 AAAAAACTTTATTATTAGAA-TA
716511 AAAAAACTTTATTATTAGAATA
1 AAAAAACTTTATTATTAGAATA
716533 AAAAA
1 AAAAA
716538 TCAAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (22 bp):
AAAAAACTTTATTATTAGAATA
Found at i:716631 original size:29 final size:29
Alignment explanation
Indices: 716599--716659 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
716589 AATATAAATA
*
716599 ATATTAATAGTTTTTAATTATTACTTAAT
1 ATATTAATAATTTTTAATTATTACTTAAT
*
716628 ATATTAATAATTTTTTATTATTACTTAAT
1 ATATTAATAATTTTTAATTATTACTTAAT
716657 ATA
1 ATA
716660 AATATAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (29 bp):
ATATTAATAATTTTTAATTATTACTTAAT
Found at i:716674 original size:29 final size:29
Alignment explanation
Indices: 716615--716675 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
716605 ATAGTTTTTA
* * **
716615 ATTATTACTTAATATATTAATAATTTTTT
1 ATTATTACTTAATATAATAATAAATAATT
716644 ATTATTACTTAATATAA-ATATAAATAATT
1 ATTATTACTTAATATAATA-ATAAATAATT
716673 ATT
1 ATT
716676 TTTAATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 26 0.96
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (29 bp):
ATTATTACTTAATATAATAATAAATAATT
Found at i:716723 original size:28 final size:28
Alignment explanation
Indices: 716688--716751 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
716678 TAATATATGT
* *
716688 TTATTATTTGAGATAAATATAATTCTTA-
1 TTATTATTTAACATAAATATAATT-TTAG
*
716716 TTATTATTCAACATAAATATAATTTTAG
1 TTATTATTTAACATAAATATAATTTTAG
716744 TTA-TATTT
1 TTATTATTT
716752 CATTATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 7 0.23
28 24 0.77
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (28 bp):
TTATTATTTAACATAAATATAATTTTAG
Found at i:717089 original size:20 final size:20
Alignment explanation
Indices: 717051--717089 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
717041 TATTTTTATT
*
717051 TATTATAATTTAATTTAAAA
1 TATTATAATTTAATATAAAA
717071 TATTATATATTT-ATATAAA
1 TATTATA-ATTTAATATAAA
717090 TTTTAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTATAATTTAATATAAAA
Found at i:717161 original size:18 final size:20
Alignment explanation
Indices: 717124--717161 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
717114 CCTTATTGTA
*
717124 GTTATAATTTTATGTTATTT
1 GTTATAATTTTATATTATTT
717144 GTTAT-ATTTTA-ATTATTT
1 GTTATAATTTTATATTATTT
717162 TTTAATACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (20 bp):
GTTATAATTTTATATTATTT
Found at i:718696 original size:2 final size:2
Alignment explanation
Indices: 718689--718740 Score: 86
Period size: 2 Copynumber: 25.5 Consensus size: 2
718679 TGAACATTTC
*
718689 AT AT AT AT AT AT AT AT AT AT AT TT CAT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT
718732 AT AT AT AT A
1 AT AT AT AT A
718741 CTTTTGTTAG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 46 0.98
3 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:718712 original size:25 final size:25
Alignment explanation
Indices: 718684--718735 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
718674 TAATATGAAC
718684 ATTTCATATATATATATATATATAT
1 ATTTCATATATATATATATATATAT
718709 ATTTCATATATATATATATATATAT
1 ATTTCATATATATATATATATATAT
718734 AT
1 AT
718736 ATATACTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTTCATATATATATATATATATAT
Found at i:723342 original size:15 final size:16
Alignment explanation
Indices: 723301--723334 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
723291 TTGATATTTA
723301 TAAAATTAATAAATAAT
1 TAAAATT-ATAAATAAT
723318 TAAAATTATAAA-AAT
1 TAAAATTATAAATAAT
723333 TA
1 TA
723335 TATTTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 5 0.29
17 7 0.41
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAATTATAAATAAT
Found at i:723347 original size:18 final size:18
Alignment explanation
Indices: 723325--723370 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
723315 AATTAAAATT
723325 ATAAA-AATTATATTTATA
1 ATAAATAATTAT-TTTATA
* *
723343 TTAAATAATAATTTTATA
1 ATAAATAATTATTTTATA
723361 ATAAATAATT
1 ATAAATAATT
723371 TAAATTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAAATAATTATTTTATA
Found at i:723380 original size:18 final size:18
Alignment explanation
Indices: 723301--723380 Score: 53
Period size: 18 Copynumber: 4.6 Consensus size: 18
723291 TTGATATTTA
*
723301 TAAAATTAATAAATAATT
1 TAAATTTAATAAATAATT
*
723319 AAAATTATAA-AAATTATATT
1 TAAATT-TAATAAA-TA-ATT
* *
723339 TATATTAAAT-AATAATT
1 TAAATTTAATAAATAATT
*
723356 T---TATAATAAATAATT
1 TAAATTTAATAAATAATT
723371 TAAATTTAAT
1 TAAATTTAAT
723381 GAATTTAATT
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
14 4 0.09
15 8 0.17
17 4 0.09
18 14 0.30
19 9 0.20
20 7 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAATTTAATAAATAATT
Found at i:723582 original size:2 final size:2
Alignment explanation
Indices: 723575--723603 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
723565 AATGCAAATT
723575 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
723604 CTTAAATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:724411 original size:20 final size:20
Alignment explanation
Indices: 724380--724428 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
724370 TCAATTAATT
724380 ATATTAAAATATAAAATTTAA
1 ATATT-AAATATAAAATTTAA
* *
724401 ATATTAAATATATAATTTTA
1 ATATTAAATATAAAATTTAA
*
724421 ATAGTAAA
1 ATATTAAA
724429 AAGTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
ATATTAAATATAAAATTTAA
Found at i:724454 original size:17 final size:18
Alignment explanation
Indices: 724434--724471 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
724424 GTAAAAAGTA
724434 TTAAAT-AAAATAAATAT
1 TTAAATAAAAATAAATAT
*
724451 TT-AATAAAAATATATAT
1 TTAAATAAAAATAAATAT
724468 TTAA
1 TTAA
724472 TTAAGTCGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 3 0.17
17 14 0.78
18 1 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
TTAAATAAAAATAAATAT
Found at i:724472 original size:17 final size:17
Alignment explanation
Indices: 724440--724472 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
724430 AGTATTAAAT
724440 AAAATAAATATTTAATA
1 AAAATAAATATTTAATA
*
724457 AAAATATATATTTAAT
1 AAAATAAATATTTAAT
724473 TAAGTCGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATAAATATTTAATA
Found at i:724810 original size:16 final size:17
Alignment explanation
Indices: 724791--724825 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
724781 AATTATAAAT
724791 AAATTAAATTTTT-TAA
1 AAATTAAATTTTTATAA
*
724807 AAATTATATTTTTATAA
1 AAATTAAATTTTTATAA
724824 AA
1 AA
724826 TTGGTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATTAAATTTTTATAA
Found at i:725252 original size:26 final size:24
Alignment explanation
Indices: 725209--725277 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
725199 ATATCATTTT
* * *
725209 AAATTTATTAATATTTTATTTTTAAA
1 AAATTTAATAA-AATTTATTTCT-AA
725235 ATAATTATAA-AAAATTTATTTCTAA
1 A-AATT-TAATAAAATTTATTTCTAA
725260 AAATTTAATAAAATTTAT
1 AAATTTAATAAAATTTAT
725278 ATTAAATATG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
23 3 0.08
24 13 0.35
25 3 0.08
26 10 0.27
27 6 0.16
28 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATTTAATAAAATTTATTTCTAA
Found at i:725280 original size:26 final size:26
Alignment explanation
Indices: 725209--725280 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
725199 ATATCATTTT
* * *
725209 AAATTTATTAATATTTTATTTTTAAA
1 AAATTTAATAAAATTTTATTTCTAAA
725235 ATAATTATAA-AAAA-TTTATTTCT-AA
1 A-AATT-TAATAAAATTTTATTTCTAAA
725260 AAATTTAATAAAATTTATATT
1 AAATTTAATAAAATTT-TATT
725281 AAATATGTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
23 3 0.08
24 8 0.21
25 5 0.13
26 13 0.34
27 7 0.18
28 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (26 bp):
AAATTTAATAAAATTTTATTTCTAAA
Found at i:725295 original size:24 final size:24
Alignment explanation
Indices: 725245--725295 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
725235 ATAATTATAA
* *
725245 AAAATTTATTTCTAAAAATTTAAT
1 AAAATTTATATCTAAAAATGTAAT
*
725269 AAAATTTATAT-TAAATATGTAAGT
1 AAAATTTATATCTAAAAATGTAA-T
725293 AAA
1 AAA
725296 TATATCTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
AAAATTTATATCTAAAAATGTAAT
Found at i:725383 original size:14 final size:14
Alignment explanation
Indices: 725322--725383 Score: 54
Period size: 15 Copynumber: 4.2 Consensus size: 14
725312 TTTATGTATT
725322 TATTTATAAATATAA
1 TATTT-TAAATATAA
*
725337 AATTTTAAATAATACA
1 TATTTTAAAT-ATA-A
*
725353 TA-TTTAATATAAAA
1 TATTTTAA-ATATAA
*
725367 TATTTTAAATATCA
1 TATTTTAAATATAA
725381 TAT
1 TAT
725384 AAAATGTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
14 15 0.39
15 19 0.50
16 4 0.11
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
TATTTTAAATATAA
Found at i:725396 original size:28 final size:30
Alignment explanation
Indices: 725331--725396 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 30
725321 TTATTTATAA
* **
725331 ATATAAAATTTTAAATAATACATATTTAAT
1 ATATAATATTTTAAATAATACATATAAAAT
*
725361 ATAAAATATTTTAAAT-AT-CATATAAAAT
1 ATATAATATTTTAAATAATACATATAAAAT
*
725389 GTATAATA
1 ATATAATA
725397 AATTATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 14 0.47
29 2 0.07
30 14 0.47
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (30 bp):
ATATAATATTTTAAATAATACATATAAAAT
Found at i:726546 original size:16 final size:16
Alignment explanation
Indices: 726528--726557 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
726518 ATGTATTTAA
726528 AAAAAT-ATTAAAAAT
1 AAAAATGATTAAAAAT
726543 AAAAATGATTAAAAA
1 AAAAATGATTAAAAA
726558 ATTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAAATGATTAAAAAT
Found at i:727474 original size:11 final size:11
Alignment explanation
Indices: 727423--727491 Score: 56
Period size: 11 Copynumber: 6.3 Consensus size: 11
727413 CCTCTATAAG
727423 ATAAAA-AAAT
1 ATAAAATAAAT
727433 -TAATAATAAAGT
1 ATAA-AATAAA-T
727445 ATAAATATAAA-
1 ATAAA-ATAAAT
*
727456 ATTTAAATAAAT
1 A-TAAAATAAAT
727468 ATAAAAT-AAT
1 ATAAAATAAAT
*
727478 ATAAAATAATT
1 ATAAAATAAAT
727489 ATA
1 ATA
727492 TTATTACAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
9 3 0.06
10 12 0.25
11 19 0.40
12 6 0.12
13 8 0.17
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (11 bp):
ATAAAATAAAT
Found at i:727484 original size:17 final size:16
Alignment explanation
Indices: 727445--727486 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
727435 ATAATAAAGT
727445 ATAAATATAAAATTTAA
1 ATAAATATAAAA-TTAA
727462 ATAAATATAAAA-TAA
1 ATAAATATAAAATTAA
727477 TATAAA-ATAA
1 -ATAAATATAA
727487 TTATATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.29
16 5 0.21
17 12 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAATATAAAATTAA
Found at i:730193 original size:22 final size:21
Alignment explanation
Indices: 730145--730195 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
730135 TATTCAAAAT
*
730145 TATATTAT-TTTTTAATATTA
1 TATATTATATTTTAAATATTA
730165 TA-ATTATATTTTAAATATTA
1 TATATTATATTTTAAATATTA
730185 TATATTTATAT
1 TATA-TTATAT
730196 AAATTTTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 5 0.19
20 15 0.56
21 1 0.04
22 6 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATTATATTTTAAATATTA
Found at i:730765 original size:3 final size:3
Alignment explanation
Indices: 730757--730824 Score: 56
Period size: 3 Copynumber: 23.3 Consensus size: 3
730747 AAATATAAAT
* *
730757 TAA TAA TAA TAA -AA T-A TAA T-A TAAA TATA TGAA TTA T-A TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TA-A T-AA TAA TAA TAA TAA
730801 T-A TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
730825 GAAAAAAAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
2 10 0.19
3 37 0.69
4 6 0.11
5 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:732047 original size:18 final size:18
Alignment explanation
Indices: 732003--732039 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
731993 ATATTATATT
*
732003 TTTATTTAAAATATAATA
1 TTTATATAAAATATAATA
*
732021 TTTATATAAAATTTAATA
1 TTTATATAAAATATAATA
732039 T
1 T
732040 ATTAATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATAAAATATAATA
Found at i:732058 original size:50 final size:51
Alignment explanation
Indices: 732004--732105 Score: 120
Period size: 50 Copynumber: 2.0 Consensus size: 51
731994 TATTATATTT
*
732004 TTATTTAAAATATAATATTTATATAAA-ATTTA-A-TATATTAATAATTTTTA
1 TTATTTAAAATATAATA-TAAT-TAAATATTTATACTATATTAATAATTTTTA
* * * *
732054 TTATTTAAATTTTAATATAATTAAATATTTATACTATATTACTATTTTTTA
1 TTATTTAAAATATAATATAATTAAATATTTATACTATATTAATAATTTTTA
732105 T
1 T
732106 CATACTTTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
48 4 0.09
49 8 0.18
50 16 0.36
51 16 0.36
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (51 bp):
TTATTTAAAATATAATATAATTAAATATTTATACTATATTAATAATTTTTA
Found at i:732494 original size:28 final size:24
Alignment explanation
Indices: 732438--732486 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
732428 TAATTTAAAA
*
732438 TTAATTAATAATAAATTAAAAATT
1 TTAATTAAAAATAAATTAAAAATT
732462 TTAATTAAAATATAAAATTAAAAAT
1 TTAATTAAAA-AT-AAATTAAAAAT
732487 AATTTAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 2 0.09
26 11 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
TTAATTAAAAATAAATTAAAAATT
Found at i:732736 original size:12 final size:12
Alignment explanation
Indices: 732714--732748 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
732704 TCGTAAAATT
*
732714 AATAATTTAAAA
1 AATAATATAAAA
*
732726 TATAATATAAAA
1 AATAATATAAAA
732738 AATAATATAAA
1 AATAATATAAA
732749 TAATTTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATAATATAAAA
Found at i:732831 original size:17 final size:17
Alignment explanation
Indices: 732807--732844 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
732797 TAAATATACT
732807 TATG-ATATAAAAAATA
1 TATGAATATAAAAAATA
**
732823 TATGAATATTGAAAATA
1 TATGAATATAAAAAATA
732840 TATGA
1 TATGA
732845 GTTACTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (17 bp):
TATGAATATAAAAAATA
Found at i:733290 original size:21 final size:21
Alignment explanation
Indices: 733264--733316 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
733254 ATTATTTTTA
*
733264 AAAATATTTAAAT-TTAATTAT
1 AAAATATATAAATATTAA-TAT
733285 AAAATATATAAATATTAATAT
1 AAAATATATAAATATTAATAT
733306 AAAA-ATA-AAAT
1 AAAATATATAAAT
733317 TTTTATAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 4 0.13
20 3 0.10
21 19 0.63
22 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATATATAAATATTAATAT
Found at i:738726 original size:20 final size:20
Alignment explanation
Indices: 738689--738727 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
738679 AATTTAATTT
* * *
738689 ATAAAATAATTTTTTAAATA
1 ATAAAATAAATGTCTAAATA
738709 ATAAAATAAATGTCTAAAT
1 ATAAAATAAATGTCTAAAT
738728 TAATCCGATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (20 bp):
ATAAAATAAATGTCTAAATA
Found at i:739400 original size:20 final size:20
Alignment explanation
Indices: 739375--739421 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
739365 AAAAAATATA
*
739375 TTTAAATA-ATACTAGTGAAG
1 TTTAAATATATA-TACTGAAG
*
739395 TTTAAATATTTATACTGAAG
1 TTTAAATATATATACTGAAG
739415 TTTAAAT
1 TTTAAAT
739422 TTTTAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (20 bp):
TTTAAATATATATACTGAAG
Found at i:740422 original size:209 final size:209
Alignment explanation
Indices: 740176--740594 Score: 820
Period size: 209 Copynumber: 2.0 Consensus size: 209
740166 AAATAATAAA
* *
740176 TATCAGTATAATTTATGAATTAAATTTTAATATATTTTTATATAAAATAAATTAAATTTATATAT
1 TATCAGTATAATTTATGAATTAAATTTTAATATATTTTTATATAAAATAAATTAAATCTATATAC
740241 TCATATTATATTTATATTATTTTATATATGCTATTTTAAAAATTATCCCAGATAAGTAATAAAAC
66 TCATATTATATTTATATTATTTTATATATGCTATTTTAAAAATTATCCCAGATAAGTAATAAAAC
740306 TGAAACAATCTGTTGGATCAAAATACTAGTAATATATGAAGAAAACTCATCATCTCAATACTAAA
131 TGAAACAATCTGTTGGATCAAAATACTAGTAATATATGAAGAAAACTCATCATCTCAATACTAAA
740371 AATTTAACTCAAGT
196 AATTTAACTCAAGT
740385 TATCAGTATAATTTATGAATTAAATTTTAATATATTTTTATATAAAATAAATTAAATCTATATAC
1 TATCAGTATAATTTATGAATTAAATTTTAATATATTTTTATATAAAATAAATTAAATCTATATAC
740450 TCATATTATATTTATATTATTTTATATATGCTATTTTAAAAATTATCCCAGATAAGTAATAAAAC
66 TCATATTATATTTATATTATTTTATATATGCTATTTTAAAAATTATCCCAGATAAGTAATAAAAC
740515 TGAAACAATCTGTTGGATCAAAATACTAGTAATATATGAAGAAAACTCATCATCTCAATACTAAA
131 TGAAACAATCTGTTGGATCAAAATACTAGTAATATATGAAGAAAACTCATCATCTCAATACTAAA
740580 AATTTAACTCAAGT
196 AATTTAACTCAAGT
740594 T
1 T
740595 GTTCCAAAAG
Statistics
Matches: 208, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
209 208 1.00
ACGTcount: A:0.44, C:0.10, G:0.06, T:0.40
Consensus pattern (209 bp):
TATCAGTATAATTTATGAATTAAATTTTAATATATTTTTATATAAAATAAATTAAATCTATATAC
TCATATTATATTTATATTATTTTATATATGCTATTTTAAAAATTATCCCAGATAAGTAATAAAAC
TGAAACAATCTGTTGGATCAAAATACTAGTAATATATGAAGAAAACTCATCATCTCAATACTAAA
AATTTAACTCAAGT
Found at i:740791 original size:17 final size:17
Alignment explanation
Indices: 740769--740802 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
740759 TGTATCACTG
740769 GAATTTGAAGAACACAT
1 GAATTTGAAGAACACAT
740786 GAATTTGAAGAACACAT
1 GAATTTGAAGAACACAT
740803 AAATCCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.24
Consensus pattern (17 bp):
GAATTTGAAGAACACAT
Found at i:743511 original size:27 final size:29
Alignment explanation
Indices: 743467--743520 Score: 69
Period size: 27 Copynumber: 1.9 Consensus size: 29
743457 ATTTTTAGTA
743467 TTTTGATAATAAATATTT-TAAGTTTAATT
1 TTTTGATAATAAATATTTATAA-TTTAATT
*
743496 TTTTTATAA-AAA-ATTTATAATTTAA
1 TTTTGATAATAAATATTTATAATTTAA
743521 AAATAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 9 0.39
28 6 0.26
29 8 0.35
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (29 bp):
TTTTGATAATAAATATTTATAATTTAATT
Found at i:743537 original size:21 final size:22
Alignment explanation
Indices: 743501--743545 Score: 83
Period size: 21 Copynumber: 2.1 Consensus size: 22
743491 TAATTTTTTT
743501 ATAAAAAATTTATAATTTAAAA
1 ATAAAAAATTTATAATTTAAAA
743523 ATAAAAAATTT-TAATTTAAAA
1 ATAAAAAATTTATAATTTAAAA
743544 AT
1 AT
743546 TATATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAAAAAATTTATAATTTAAAA
Found at i:745612 original size:28 final size:27
Alignment explanation
Indices: 745581--745687 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
745571 ATTTTTTATA
*
745581 TTATATTTATATTAATTTTTTAAATAAT
1 TTATATTTATATAAATTTTTTAAAT-AT
*
745609 TTATA-TTATATAAAATTTTTAAATAT
1 TTATATTTATATAAATTTTTTAAATAT
* * *
745635 TTATATATTTTATAAATTTTTTATATTT
1 TTATAT-TTATATAAATTTTTTAAATAT
*
745663 ATTATATTT-TA-ATTATTTTTTAAAT
1 -TTATATTTATATA-AATTTTTTAAAT
745688 TAATGATTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
26 8 0.12
27 29 0.43
28 24 0.36
29 6 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
TTATATTTATATAAATTTTTTAAATAT
Found at i:745627 original size:27 final size:27
Alignment explanation
Indices: 745581--745657 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 27
745571 ATTTTTTATA
*
745581 TTATATTTATATTAATTTTTTAAATAAT
1 TTATA-TTATATAAATTTTTTAAATAAT
* *
745609 TTATATTATATAAAATTTTTAAATATT
1 TTATATTATATAAATTTTTTAAATAAT
*
745636 TATATATTTTATAAATTTTTTA
1 T-TATATTATATAAATTTTTTA
745658 TATTTATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 20 0.47
28 23 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTATATTATATAAATTTTTTAAATAAT
Found at i:745644 original size:18 final size:18
Alignment explanation
Indices: 745623--745688 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 18
745613 ATTATATAAA
745623 ATTTT-TAAATATTTATAT
1 ATTTTATAAAT-TTTATAT
*
745641 ATTTTATAAATTTTTTAT
1 ATTTTATAAATTTTATAT
*
745659 A-TTTATTATATTTTA-ATT
1 ATTTTA-TAAATTTTATA-T
*
745677 ATTTTTTAAATT
1 ATTTTATAAATT
745689 AATGATTAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
17 5 0.13
18 26 0.67
19 8 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTTATAAATTTTATAT
Found at i:745668 original size:27 final size:27
Alignment explanation
Indices: 745579--745673 Score: 95
Period size: 28 Copynumber: 3.4 Consensus size: 27
745569 ATATTTTTTA
* *
745579 TATTATATTTATATTAATTTTTTA-AAT
1 TATTATATTT-TATAAATTTTTTATATT
* * *
745606 AATTTATATTATATAAAATTTTTAAATATT
1 TA-TTATATTTTAT-AAATTTTT-TATATT
745636 TA-TATATTTTATAAATTTTTTATATT
1 TATTATATTTTATAAATTTTTTATATT
745662 TATTATATTTTA
1 TATTATATTTTA
745674 ATTATTTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
26 7 0.13
27 21 0.38
28 23 0.42
29 1 0.02
30 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TATTATATTTTATAAATTTTTTATATT
Found at i:746651 original size:26 final size:27
Alignment explanation
Indices: 746622--746691 Score: 65
Period size: 26 Copynumber: 2.7 Consensus size: 27
746612 GAAAATTTTG
*
746622 TAATATTTATAAATATTTAA-TTAAAT
1 TAATATTAATAAATATTTAAGTTAAAT
* * *
746648 TAATAATCATGTAA-ATTTAAGTTAAAT
1 TAATATTAAT-AAATATTTAAGTTAAAT
*
746675 T-ATATTAATAATTATTT
1 TAATATTAATAAATATTT
746692 TTTTTTTGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
25 1 0.03
26 24 0.71
27 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (27 bp):
TAATATTAATAAATATTTAAGTTAAAT
Found at i:747375 original size:30 final size:30
Alignment explanation
Indices: 747283--747381 Score: 85
Period size: 30 Copynumber: 3.2 Consensus size: 30
747273 TAATATGTAA
* * *
747283 AAAATAATATAAATATGACATAAAAATAATTT
1 AAAAT-ATAAAAATAT-ACATAAATATAATAT
*
747315 AAAA-ATAAATAA-ATAAATAAAATATGAATAT
1 AAAATATAAA-AATATACAT-AAATAT-AATAT
*
747346 AAAATATAAAAATATACATATATATAATAT
1 AAAATATAAAAATATACATAAATATAATAT
*
747376 TAAATA
1 AAAATA
747382 AATTTTTGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
29 3 0.05
30 21 0.38
31 17 0.31
32 14 0.25
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (30 bp):
AAAATATAAAAATATACATAAATATAATAT
Found at i:748383 original size:2 final size:2
Alignment explanation
Indices: 748320--748370 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
748310 AATTCTAGTG
748320 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
748362 TA TA CA TA T
1 TA TA TA TA T
748371 GCACGAATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:759703 original size:23 final size:23
Alignment explanation
Indices: 759673--759741 Score: 97
Period size: 23 Copynumber: 3.0 Consensus size: 23
759663 TTTTTAAAAA
759673 AAATATAAATATAATATATTATT
1 AAATATAAATATAATATATTATT
759696 AAATATAAATATAATATA-TATT
1 AAATATAAATATAATATATTATT
* *
759718 AAATATATTATATCATAT-TTATT
1 AAATATA-AATATAATATATTATT
759741 A
1 A
759742 TATTATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.26
23 31 0.74
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATATAAATATAATATATTATT
Found at i:759729 original size:5 final size:5
Alignment explanation
Indices: 759712--759779 Score: 61
Period size: 5 Copynumber: 13.8 Consensus size: 5
759702 AAATATAATA
* * *
759712 TATAT TA-AA TATAT TATAT CATAT T-TAT TATAT TATTTT TATAT T-TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT
*
759760 TAAATT TATAT TATAT TATA
1 TATA-T TATAT TATAT TATA
759780 ATATTACATT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
4 11 0.22
5 31 0.62
6 8 0.16
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:760010 original size:20 final size:20
Alignment explanation
Indices: 759974--760011 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
759964 TATTATTTAA
*
759974 AAAATAATGATATATTAAAT
1 AAAATAATAATATATTAAAT
759994 AAAATAATTAATA-ATTAA
1 AAAATAA-TAATATATTAA
760012 TTTATGTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATAATAATATATTAAAT
Found at i:760534 original size:30 final size:29
Alignment explanation
Indices: 760500--760557 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
760490 TATAAATCAA
*
760500 ATAATAATATTATAAAGATATTTATTTTTT
1 ATAATAATATTATAAA-ATATATATTTTTT
* *
760530 ATAATTATTTTATAAAATATATATTTTT
1 ATAATAATATTATAAAATATATATTTTT
760558 AAAAAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
ATAATAATATTATAAAATATATATTTTTT
Found at i:760671 original size:2 final size:2
Alignment explanation
Indices: 760666--760701 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
760656 ATTCACACAC
760666 AT AT AT AT AT AT AT -T AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
760702 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:760685 original size:11 final size:11
Alignment explanation
Indices: 760669--760701 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
760659 CACACACATA
760669 TATATATATAT
1 TATATATATAT
760680 TATATATATAT
1 TATATATATAT
*
760691 AATATATATAT
1 TATATATATAT
760702 GTGTGTGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TATATATATAT
Found at i:760685 original size:13 final size:13
Alignment explanation
Indices: 760666--760701 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
760656 ATTCACACAC
760666 ATATATATATATA
1 ATATATATATATA
*
760679 TTATATATATATA
1 ATATATATATATA
760692 ATATATATAT
1 ATATATATAT
760702 GTGTGTGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATATATATATA
Found at i:768036 original size:12 final size:12
Alignment explanation
Indices: 768021--768079 Score: 61
Period size: 12 Copynumber: 5.0 Consensus size: 12
768011 AAGTAATATA
768021 ATAATATAAAAT
1 ATAATATAAAAT
768033 ATAAT-TAAAA-
1 ATAATATAAAAT
768043 ATAATATAAATAT
1 ATAATATAAA-AT
**
768056 ATAAGTAT-TTAT
1 ATAA-TATAAAAT
768068 ATAATATAAAAT
1 ATAATATAAAAT
768080 TTTTATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
10 5 0.13
11 12 0.32
12 14 0.37
13 4 0.11
14 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:768046 original size:10 final size:11
Alignment explanation
Indices: 768020--768052 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
768010 AAAGTAATAT
768020 AATAATATAAA
1 AATAATATAAA
768031 ATATAAT-TAAA
1 A-ATAATATAAA
768042 AATAATATAAA
1 AATAATATAAA
768053 TATATAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.25
11 10 0.50
12 5 0.25
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAATATAAA
Found at i:768103 original size:23 final size:25
Alignment explanation
Indices: 768065--768119 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 25
768055 TATAAGTATT
* *
768065 TATATAATATAAAATTTTTAT-ATA
1 TATAAAATATAAAATTATTATGATA
*
768089 T-TAAAATATATAATTATTATGATA
1 TATAAAATATAAAATTATTATGATA
768113 TATAAAA
1 TATAAAA
768120 AAATAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 16 0.62
24 5 0.19
25 5 0.19
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (25 bp):
TATAAAATATAAAATTATTATGATA
Found at i:769189 original size:24 final size:25
Alignment explanation
Indices: 769153--769203 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
769143 TTAAAATAAA
** *
769153 AATAAAATTATTA-TTTTTAATATT
1 AATAAAACAATTACTTTTGAATATT
*
769177 AATAAAACAATTACTTTTGCATATT
1 AATAAAACAATTACTTTTGAATATT
769202 AA
1 AA
769204 CCAAAAGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (25 bp):
AATAAAACAATTACTTTTGAATATT
Found at i:769276 original size:20 final size:21
Alignment explanation
Indices: 769251--769303 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 21
769241 ATTTGATATA
769251 ATTTATTAATAATA-AAAAAT
1 ATTTATTAATAATACAAAAAT
769271 ATTTA-TAATAA-ACTAAAAAT
1 ATTTATTAATAATAC-AAAAAT
769291 -TTTAATTAATAAT
1 ATTT-ATTAATAAT
769304 TATGATAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 1 0.04
19 9 0.32
20 12 0.43
21 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTATTAATAATACAAAAAT
Found at i:775153 original size:15 final size:16
Alignment explanation
Indices: 775133--775165 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
775123 ATTATTATAA
*
775133 TTATTTT-ATTTTATT
1 TTATTTTAATTTAATT
775148 TTATTTTAATTTAATT
1 TTATTTTAATTTAATT
775164 TT
1 TT
775166 TGTAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTAATTTAATT
Found at i:775515 original size:20 final size:20
Alignment explanation
Indices: 775492--775540 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
775482 AAATATAATT
*
775492 AAAATATTATATAAAATTA-A
1 AAAATATTAT-TAAAATGATA
* *
775512 AAAATAATATTAATATGATA
1 AAAATATTATTAAAATGATA
775532 AAAATATTA
1 AAAATATTA
775541 ACGTACATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAATATTATTAAAATGATA
Found at i:776822 original size:16 final size:18
Alignment explanation
Indices: 776801--776833 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
776791 TTCAAATAAT
776801 ATCAA-TAAACA-AAAAA
1 ATCAATTAAACATAAAAA
776817 ATCAATTAAACATAAAA
1 ATCAATTAAACATAAAA
776834 TACAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (18 bp):
ATCAATTAAACATAAAAA
Found at i:777105 original size:8 final size:9
Alignment explanation
Indices: 777091--777160 Score: 51
Period size: 9 Copynumber: 8.2 Consensus size: 9
777081 TTTTAATGTT
777091 TATATTATA
1 TATATTATA
777100 -ATATTATA
1 TATATTATA
777108 TATATT-T-
1 TATATTATA
*
777115 TATATCATA
1 TATATTATA
* *
777124 AAAATTATA
1 TATATTATA
*
777133 TA-A-AATA
1 TATATTATA
*
777140 TAAATTAATA
1 TATATT-ATA
777150 TATATTATA
1 TATATTATA
777159 TA
1 TA
777161 CTAATAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
7 10 0.21
8 12 0.26
9 17 0.36
10 8 0.17
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (9 bp):
TATATTATA
Found at i:788844 original size:39 final size:39
Alignment explanation
Indices: 788800--788878 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
788790 ATTATAAGAA
788800 AGATTTTGTAATAATTTTTTATTGAAAATTAATTAAAAT
1 AGATTTTGTAATAATTTTTTATTGAAAATTAATTAAAAT
788839 AGATTTTGTAATAATTTTTTATTGAAAATTAATTAAAAT
1 AGATTTTGTAATAATTTTTTATTGAAAATTAATTAAAAT
788878 A
1 A
788879 TTTGTATAAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (39 bp):
AGATTTTGTAATAATTTTTTATTGAAAATTAATTAAAAT
Found at i:789594 original size:275 final size:267
Alignment explanation
Indices: 789128--789763 Score: 641
Period size: 275 Copynumber: 2.3 Consensus size: 267
789118 TATACATTGC
*
789128 AGATAAGTCAATTAAAAGTAT-AAAAGAAAATAAATATAATTAATTATATAAAATATTTTAATAT
1 AGATAAGTCAATTAAAATTATAAAAAG-AAATAAATATAATTAATTATAT-AAATATTTTAATAT
* ** * ** *
789192 TAAATTAAATCAAGTTAAAATAAATAAATATATGACACGTGACTGCTTTTATGATCGCTTACATG
64 TAAATTAAATCAAGTTAAAATAATTAAATATAAAACACATGACTGCTTTTACAACCGCTTACATG
* ** *
789257 TCAATAATATAAGATATTCGTATTAAATAATTATCTTTTTTGCAAAAGGCTTTTGTTTTTATATA
129 TCAATAATATAAGATATTCGTATTAAATAATTATCTTTTTTACAAAAGAATTTTGCTTTTATATA
*
789322 TTTACCTAAG-AATGGAA-A-GAACTATGAAATAGGAAAAGAAAATCAAAATTTTATTT-ATTTA
194 TTTA--TAAGAAATGGAATATGAACTACGAAATAGGAAAAGAAAATCAAAATTTTATTTGATTT-
789383 CATACATGTAAAA
256 CATACATG-AAAA
789396 ATGTAAAAGGTAAGTCAATTAAAATTATAAAAAGAAATAAATATAATTAAATTATATGAAATATT
1 A-G----A--TAAGTCAATTAAAATTATAAAAAGAAATAAATATAATT-AATTATAT-AAATATT
* *
789461 TTAATATTAAA-TAAATTAAGTTAAAATAATTAAATCTAAAACACATGA-TGACTTTGTACAACC
57 TTAATATTAAATTAAATCAAGTTAAAATAATTAAATATAAAACACATGACTG-CTTT-TACAACC
* * * **
789524 G-TTACATGAT-AATAATAT-GGGTTTTC-TACATTGGATAATTA-CTTTTTTTACAAAA-AATT
120 GCTTACATG-TCAATAATATAAGATATTCGT--ATTAAATAATTATC-TTTTTTACAAAAGAATT
* ** **** * * *
789583 TTGGCTTTTATATATTTATATGAAATTTAATATTTTTTACGAGATATGAAAAGAAAATTAAAATT
181 TT-GCTTTTATATATTTATAAGAAATGGAATATGAACTACGAAATAGGAAAAGAAAATCAAAATT
* *
789648 TTATTTGCTTTCATACATGCAAA
245 TTATTTGATTTCATACATGAAAA
* * *
789671 AGATAAATCAATTAAAATTATAAAAGGAAATAAATATAATTAATTATATAATACATTTTAATATT
1 AGATAAGTCAATTAAAATTATAAAAAGAAATAAATATAATTAATTATATAA-ATATTTTAATATT
* *
789736 AAATTAAATCAAATCAAAATAATTAAAT
65 AAATTAAATCAAGTTAAAATAATTAAAT
789764 GTGTGACATA
Statistics
Matches: 307, Mismatches: 39, Indels: 44
0.79 0.10 0.11
Matches are distributed among these distances:
266 2 0.01
267 23 0.07
268 58 0.19
269 1 0.00
270 1 0.00
273 5 0.02
274 18 0.06
275 121 0.39
276 75 0.24
277 3 0.01
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (267 bp):
AGATAAGTCAATTAAAATTATAAAAAGAAATAAATATAATTAATTATATAAATATTTTAATATTA
AATTAAATCAAGTTAAAATAATTAAATATAAAACACATGACTGCTTTTACAACCGCTTACATGTC
AATAATATAAGATATTCGTATTAAATAATTATCTTTTTTACAAAAGAATTTTGCTTTTATATATT
TATAAGAAATGGAATATGAACTACGAAATAGGAAAAGAAAATCAAAATTTTATTTGATTTCATAC
ATGAAAA
Found at i:790051 original size:2 final size:2
Alignment explanation
Indices: 790044--790068 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
790034 ATTTGTTTAC
790044 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
790069 AAGGTAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:792343 original size:17 final size:18
Alignment explanation
Indices: 792318--792358 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
792308 ATTTAAATTA
*
792318 ATTTGATAA-AAATTATT
1 ATTTAATAATAAATTATT
*
792335 ATTTAATAATAAATTTTT
1 ATTTAATAATAAATTATT
792353 ATTTAA
1 ATTTAA
792359 ATTTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTTAATAATAAATTATT
Done.