Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold214
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: 304316
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
File 1 of 4
Found at i:2156 original size:46 final size:46
Alignment explanation
Indices: 2073--2164 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
2063 CAGGGTGCAC
2073 TCTGGGTGTTTGGTAGGTGCGAGCCTTAACCACCCCTACCTGGGGT
1 TCTGGGTGTTTGGTAGGTGCGAGCCTTAACCACCCCTACCTGGGGT
**
2119 TCTGGGTGTTTGGTAGGGTGCGAGCCTTGGCCA-CCCTACCTGGGGT
1 TCTGGGTGTTTGGTA-GGTGCGAGCCTTAACCACCCCTACCTGGGGT
2165 GAGGCAGGCG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
46 28 0.65
47 15 0.35
ACGTcount: A:0.11, C:0.25, G:0.36, T:0.28
Consensus pattern (46 bp):
TCTGGGTGTTTGGTAGGTGCGAGCCTTAACCACCCCTACCTGGGGT
Found at i:2554 original size:19 final size:21
Alignment explanation
Indices: 2526--2575 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
2516 TTTAAAATAG
*
2526 TATTATTTTAA-AT-TTTATA
1 TATTAATTTAATATATTTATA
*
2545 TATTAATTTAATTTATTTATA
1 TATTAATTTAATATATTTATA
2566 TATTTAATTT
1 TA-TTAATTT
2576 TTTATACTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 10 0.38
20 1 0.04
21 8 0.31
22 7 0.27
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TATTAATTTAATATATTTATA
Found at i:2570 original size:17 final size:16
Alignment explanation
Indices: 2536--2581 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
2526 TATTATTTTA
*
2536 AATTTTATATATTAATTT
1 AATTTTTTATA-T-ATTT
2554 AATTTATTTATATATTT
1 AATTT-TTTATATATTT
2571 AATTTTTTATA
1 AATTTTTTATA
2582 CTGACATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 6 0.23
17 9 0.35
18 6 0.23
19 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
AATTTTTTATATATTT
Found at i:3011 original size:21 final size:19
Alignment explanation
Indices: 2964--3019 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 19
2954 CACCTCGGAT
2964 TATAATTTAAAATTTTTTA
1 TATAATTTAAAATTTTTTA
* *
2983 TTTAAATTTAAATTTTATTTAA
1 TAT-AATTTAAAATTT-TTT-A
3005 TATAATTTATAAATT
1 TATAATTTA-AAATT
3020 AAATAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 2 0.07
20 11 0.38
21 9 0.31
22 7 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATAATTTAAAATTTTTTA
Found at i:3044 original size:24 final size:24
Alignment explanation
Indices: 3017--3085 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 24
3007 TAATTTATAA
3017 ATTAAATAATTTTTTATTAAAAAT
1 ATTAAATAATTTTTTATTAAAAAT
* **
3041 ATTAAAATTATTTTTTATATTTAAAT
1 ATT-AAATAATTTTTTAT-TAAAAAT
3067 -TTAAATAATTTTTTATTAA
1 ATTAAATAATTTTTTATTAA
3086 TTAAATAATA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
23 1 0.03
24 16 0.43
25 15 0.41
26 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTAAATAATTTTTTATTAAAAAT
Found at i:3071 original size:49 final size:51
Alignment explanation
Indices: 2963--3085 Score: 150
Period size: 49 Copynumber: 2.5 Consensus size: 51
2953 TCACCTCGGA
* *
2963 TTATAATTT-AA-AATTTTTTATT-TAAATTTAAATTTTATTTAATATAAT
1 TTATAATTTAAATAATTTTTTATTAAAAATTTAAATATTATTTAATATAAT
* **
3011 TTATAAATTAAATAATTTTTTATTAAAAATATTAAA-ATTATTTTTTAT-AT
1 TTATAATTTAAATAATTTTTTATTAAAAAT-TTAAATATTATTTAATATAAT
3061 TTA-AATTTAAATAATTTTTTATTAA
1 TTATAATTTAAATAATTTTTTATTAA
3086 TTAAATAATA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
48 8 0.12
49 23 0.35
50 16 0.25
51 13 0.20
52 5 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (51 bp):
TTATAATTTAAATAATTTTTTATTAAAAATTTAAATATTATTTAATATAAT
Found at i:3089 original size:25 final size:25
Alignment explanation
Indices: 3014--3091 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
3004 ATATAATTTA
3014 TAAA-TTAAATAATTTTTTATTAA-
1 TAAATTTAAATAATTTTTTATTAAT
* *
3037 -AAATATTAAAATTATTTTTTA-TATT
1 TAAAT-TT-AAATAATTTTTTATTAAT
3062 TAAATTTAAATAATTTTTTATTAAT
1 TAAATTTAAATAATTTTTTATTAAT
3087 TAAAT
1 TAAAT
3092 AATAATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
22 3 0.07
24 16 0.36
25 22 0.49
26 4 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TAAATTTAAATAATTTTTTATTAAT
Found at i:3100 original size:19 final size:17
Alignment explanation
Indices: 3059--3108 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
3049 TATTTTTTAT
*
3059 ATTTAAATTTAAATAATT
1 ATTTAAA-TTAAATAATA
*
3077 TTTTATTAATTAAATAATA
1 ATTTA--AATTAAATAATA
3096 ATTTAAATTAAAT
1 ATTTAAATTAAAT
3109 TAATCTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 8 0.30
18 4 0.15
19 13 0.48
20 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAAATTAAATAATA
Found at i:3246 original size:25 final size:25
Alignment explanation
Indices: 3212--3304 Score: 84
Period size: 28 Copynumber: 3.6 Consensus size: 25
3202 TTATTATTTT
*
3212 TAATAT-AATTATATAAATATAATA
1 TAATATAAATTATATAAAAATAATA
3236 TACATA-AAATTATA-AAAAATAATA
1 TA-ATATAAATTATATAAAAATAATA
* * *
3260 TAATATAAATATATTTTTAAAATTTATA
1 TAATATAAAT-TA--TATAAAAATAATA
3288 TAATATAAATTAATATA
1 TAATATAAATT-ATATA
3305 TTATAATTGA
Statistics
Matches: 56, Mismatches: 5, Indels: 14
0.75 0.07 0.19
Matches are distributed among these distances:
23 3 0.05
24 17 0.30
25 12 0.21
26 3 0.05
27 2 0.04
28 19 0.34
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (25 bp):
TAATATAAATTATATAAAAATAATA
Found at i:3297 original size:15 final size:15
Alignment explanation
Indices: 3257--3326 Score: 56
Period size: 15 Copynumber: 4.8 Consensus size: 15
3247 ATAAAAAATA
*
3257 ATATAATATAAATAT
1 ATATAATATAAATTT
**
3272 AT-TTTTA-AAATTT
1 ATATAATATAAATTT
*
3285 ATATAATATAAATTA
1 ATATAATATAAATTT
* *
3300 ATATATTAT-AATTG
1 ATATAATATAAATTT
3314 ATATAAATATAAA
1 ATAT-AATATAAA
3327 ATATTTTAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
13 7 0.17
14 14 0.33
15 19 0.45
16 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.44
Consensus pattern (15 bp):
ATATAATATAAATTT
Found at i:3322 original size:20 final size:19
Alignment explanation
Indices: 3299--3360 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
3289 AATATAAATT
3299 AATATATTATAATTGATATA
1 AATATATTATAATT-ATATA
**
3319 AATATAAAAT-ATT-T-TA
1 AATATATTATAATTATATA
*
3335 AATATTATTATAATAATATA
1 AATA-TATTATAATTATATA
3355 AATATA
1 AATATA
3361 CGAAGATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
16 6 0.18
17 5 0.15
18 2 0.06
19 6 0.18
20 14 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (19 bp):
AATATATTATAATTATATA
Found at i:3431 original size:1 final size:1
Alignment explanation
Indices: 3425--3449 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
3415 AAAGAACAGG
3425 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
3450 GGGGATAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:4087 original size:18 final size:19
Alignment explanation
Indices: 4059--4094 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
4049 TGAAATTGGT
4059 TAAAGAAAAAATAAAAAAA
1 TAAAGAAAAAATAAAAAAA
4078 TAAA-AAAAAATAAAAAA
1 TAAAGAAAAAATAAAAAA
4095 TATATTGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (19 bp):
TAAAGAAAAAATAAAAAAA
Found at i:4820 original size:38 final size:38
Alignment explanation
Indices: 4766--4846 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
4756 CCCGTGAGTT
*
4766 TCATTGTTATTCCTTCTGCATATTGTTCAAACTTTTTC
1 TCATTGTCATTCCTTCTGCATATTGTTCAAACTTTTTC
*
4804 TCATTGTCATTGCTTCTGCATATTGTTCAAACTTTTTC
1 TCATTGTCATTCCTTCTGCATATTGTTCAAACTTTTTC
*
4842 CCATT
1 TCATT
4847 ATACGCAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.19, C:0.22, G:0.09, T:0.51
Consensus pattern (38 bp):
TCATTGTCATTCCTTCTGCATATTGTTCAAACTTTTTC
Found at i:6628 original size:15 final size:16
Alignment explanation
Indices: 6603--6635 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6593 TCCAATTGCG
6603 TAAATTAATAAATAAT
1 TAAATTAATAAATAAT
*
6619 TAAA-TAATAAATTAT
1 TAAATTAATAAATAAT
6634 TA
1 TA
6636 CAAATGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATTAATAAATAAT
Found at i:6746 original size:16 final size:16
Alignment explanation
Indices: 6725--6756 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6715 AAATTTAAAT
*
6725 AAAATTATAATATTTA
1 AAAATTAAAATATTTA
6741 AAAATTAAAATATTTA
1 AAAATTAAAATATTTA
6757 TATTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATTAAAATATTTA
Found at i:7453 original size:24 final size:23
Alignment explanation
Indices: 7407--7464 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
7397 TATAATATTA
* *
7407 TATATACATTTATATAATAAAAAT
1 TATATA-ATATATAAAATAAAAAT
7431 TATATAATATATAAAATATAAAAT
1 TATATAATATATAAAATA-AAAAT
7455 TA-AT-ATATAT
1 TATATAATATAT
7465 TATATCATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 6 0.19
23 12 0.39
24 13 0.42
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TATATAATATATAAAATAAAAAT
Found at i:7542 original size:16 final size:17
Alignment explanation
Indices: 7523--7578 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
7513 ATTAAAGTTA
7523 AATTTAA-TTATTTTTT
1 AATTTAACTTATTTTTT
* *
7539 AA-TTAATTTAATTTTT
1 AATTTAACTTATTTTTT
*
7555 -ATTTAAACTTATTTTTA
1 AATTT-AACTTATTTTTT
7572 AATTTAA
1 AATTTAA
7579 TAGTTTTACC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 5 0.16
16 12 0.38
17 11 0.34
18 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
AATTTAACTTATTTTTT
Found at i:7546 original size:20 final size:20
Alignment explanation
Indices: 7523--7560 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7513 ATTAAAGTTA
7523 AATTTAATTATTT-TTTAATT
1 AATTTAATT-TTTATTTAATT
7543 AATTTAATTTTTATTTAA
1 AATTTAATTTTTATTTAA
7561 ACTTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
AATTTAATTTTTATTTAATT
Found at i:7649 original size:20 final size:19
Alignment explanation
Indices: 7598--7652 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
7588 CAAAATTTGA
* *
7598 TTAAATATTTATTAAA-ATT
1 TTAAAT-TTTAATAAATAAT
7617 TTAAATTTTAATAAATAAT
1 TTAAATTTTAATAAATAAT
*
7636 TTAATTTTTAAATAAAT
1 TTAAATTTT-AATAAAT
7653 TTATTTCAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 8 0.26
19 16 0.52
20 7 0.23
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAATTTTAATAAATAAT
Found at i:7855 original size:12 final size:12
Alignment explanation
Indices: 7838--7862 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7828 AGCATTATTG
7838 TCTTGAACTTTT
1 TCTTGAACTTTT
7850 TCTTGAACTTTT
1 TCTTGAACTTTT
7862 T
1 T
7863 TTTATTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.08, T:0.60
Consensus pattern (12 bp):
TCTTGAACTTTT
Found at i:7979 original size:14 final size:14
Alignment explanation
Indices: 7942--7973 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7932 TATTTTAAAA
7942 TATTTAAAAAATAT
1 TATTTAAAAAATAT
7956 TATTTAAAAAAT-T
1 TATTTAAAAAATAT
7969 TATTT
1 TATTT
7974 TTAAAAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTTAAAAAATAT
Found at i:8590 original size:24 final size:26
Alignment explanation
Indices: 8531--8591 Score: 74
Period size: 24 Copynumber: 2.4 Consensus size: 26
8521 AATTTTAAAA
8531 TATTTATATATTTACATTTATTATTTT
1 TATTTATATA-TTACATTTATTATTTT
* *
8558 TATGT-TATATTATATTT-TTATTTT
1 TATTTATATATTACATTTATTATTTT
8582 T-TTTATATAT
1 TATTTATATAT
8592 AATGTTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 2 0.07
24 13 0.43
25 7 0.23
26 4 0.13
27 4 0.13
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (26 bp):
TATTTATATATTACATTTATTATTTT
Found at i:8599 original size:22 final size:22
Alignment explanation
Indices: 8551--8606 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
8541 TTTACATTTA
*
8551 TTATTTTTATGTTATATTATATTT
1 TTATTTTT-T-TTATATTATATGT
8575 TTATTTTTTTTATA-TATAATGT
1 TTATTTTTTTTATATTAT-ATGT
*
8597 TTAATTTTTT
1 TTATTTTTTT
8607 GATCTGCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 3 0.10
22 17 0.59
23 1 0.03
24 8 0.28
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (22 bp):
TTATTTTTTTTATATTATATGT
Found at i:12601 original size:166 final size:163
Alignment explanation
Indices: 12247--12768 Score: 568
Period size: 165 Copynumber: 3.2 Consensus size: 163
12237 GTGCTAAACA
* * * *
12247 TTAAAATTCTTTAAATATTATTATTTACTTCATATTAAATCAGTTTTGAAAAATTAATTTATCTT
1 TTAAAATTCATCAAATATTATTATTTACTTCATATTAAATCAATTTTAAAAAATTAATTTATCTT
* * *
12312 TATGAGTTTTGAATTTTTCTTTGAAATTCTCCTATTTCTAAAATACAGAGTTTTCTT-CTCCATA
66 CATGAGTTTTGATTTTTTCTTTGAAATTCTCCTATTTCTGAAATACAGAGTTTT-TTACTCCATA
* * *
12376 AATTTTTTTGAGAGAATTTTCATTGATTTAAAATTT
130 AA-TATTTTGAGGGATTTTTC-TTGATTTAAAATTT
* * * * * * * * * *
12412 TTACAATTTATCAAATATTATTATTTAATTCATGTTAAATTATTTTTCAAAAATTCACTCATCTT
1 TTAAAATTCATCAAATATTATTATTTACTTCATATTAAATCAATTTTAAAAAATTAATTTATCTT
* * * *
12477 CATG-GTTTTTTCATTTTTTTCCTTGAAACTCTCATATTT-TCGAAATACAGAGTTTTTTACTCC
66 CATGAG--TTTTGA-TTTTTTCTTTGAAATTCTCCTATTTCT-GAAATACAGAGTTTTTTACTCC
* **
12540 GTAAATATTGTTGAAGGGATTTTTCTTGATTT-TTATTT
127 ATAAATATT-TTG-AGGGATTTTTCTTGATTTAAAATTT
12578 TTAAAATTCATCAAATATTATTATTTACTTCATATTAAATCAATTTTAAAAAATTAATTTATCTT
1 TTAAAATTCATCAAATATTATTATTTACTTCATATTAAATCAATTTTAAAAAATTAATTTATCTT
* ** * *
12643 CATGAGTTTTGAATTTTTTCTTTGAAATTCTCCTATTTCTGAAAAATTGAGTTTTCTACTCTATA
66 CATGAGTTTTG-ATTTTTTCTTTGAAATTCTCCTATTTCTGAAATACAGAGTTTTTTACTCCATA
* *
12708 AATATTTTCGGGGGGATTTTTCTT-AGTTTAAGATTT
130 AATATTTT--GAGGGATTTTTCTTGA-TTTAAAATTT
* *
12744 TTAAAATTCATCTAATATTGTTATT
1 TTAAAATTCATCAAATATTATTATT
12769 AAACTCTCAT
Statistics
Matches: 293, Mismatches: 50, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
164 4 0.01
165 122 0.42
166 104 0.35
167 54 0.18
168 9 0.03
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (163 bp):
TTAAAATTCATCAAATATTATTATTTACTTCATATTAAATCAATTTTAAAAAATTAATTTATCTT
CATGAGTTTTGATTTTTTCTTTGAAATTCTCCTATTTCTGAAATACAGAGTTTTTTACTCCATAA
ATATTTTGAGGGATTTTTCTTGATTTAAAATTT
Found at i:12783 original size:166 final size:163
Alignment explanation
Indices: 12247--12827 Score: 559
Period size: 166 Copynumber: 3.5 Consensus size: 163
12237 GTGCTAAACA
* * *
12247 TTAAAATTCTTTAAATATTATTATTTACTTCATATTAAATCAGTTTTGAAAAATTAATTTATCTT
1 TTAAAATTCATCAAATATTATTATTAACTTC--ATTAAATCAGTTTTGAAAAATTAATTTATCTT
* *
12312 TATGAGTTTTGAA-TTTTTCTTTGAAATTCTCCTATTTCT-AAAATACAGAGTTTTCTTCTCCAT
64 CATGAGTTTTGAATTTTTTCTTTGAAATTCTCCTATTTCTGAAAA-ACAGAGTTTTCTACTCCAT
* * * *
12375 AAATTTTTTTGAGAGAATTTTCATTGATTTAAAATTT
128 AAATATTTTGGAGGGATTTTTC-TTGATTTAAAATTT
* * * * * * * *
12412 TTACAATTTATCAAATATTATTATTTAA-TTCATGTTAAATTATTTTTCAAAAATTCACTCATCT
1 TTAAAATTCATCAAATATTATTA-TTAACTTCA--TTAAATCAGTTTTGAAAAATTAATTTATCT
* * * * * * *
12476 TCATG-GTTTTTTCATTTTTTTCCTTGAAACTCTCATATTT-TCGAAATACAGAGTTTTTTACTC
63 TCATGAG--TTTTGAATTTTTTCTTTGAAATTCTCCTATTTCT-GAAAAACAGAGTTTTCTACTC
* * **
12539 CGTAAATATTGTTGAAGGGATTTTTCTTGATTT-TTATTT
125 CATAAATATT-TTGGAGGGATTTTTCTTGATTTAAAATTT
* * *
12578 TTAAAATTCATCAAATATTATTATTTACTTCATATTAAATCAATTTTAAAAAATTAATTTATCTT
1 TTAAAATTCATCAAATATTATTATTAACTTC--ATTAAATCAGTTTTGAAAAATTAATTTATCTT
** *
12643 CATGAGTTTTGAATTTTTTCTTTGAAATTCTCCTATTTCTGAAAAATTGAGTTTTCTACTCTATA
64 CATGAGTTTTGAATTTTTTCTTTGAAATTCTCCTATTTCTGAAAAACAGAGTTTTCTACTCCATA
* *
12708 AATATTTTCGGGGGGATTTTTCTT-AGTTTAAGATTT
129 AATATTTT-GGAGGGATTTTTCTTGA-TTTAAAATTT
* * *
12744 TTAAAATTCATCTAATATTGTTATTAAACTCTCATTAAATCAGTTTTGCAAAATTCAATTTAT-T
1 TTAAAATTCATCAAATATTATTATT-AACT-TCATTAAATCAGTTTTGAAAAATT-AATTTATCT
* *
12808 TC-TTATTTTTTGAATTTTTT
63 TCATGA-GTTTTGAATTTTTT
12828 ACATATAATA
Statistics
Matches: 335, Mismatches: 60, Indels: 41
0.77 0.14 0.09
Matches are distributed among these distances:
163 1 0.00
164 4 0.01
165 123 0.37
166 129 0.39
167 61 0.18
168 17 0.05
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (163 bp):
TTAAAATTCATCAAATATTATTATTAACTTCATTAAATCAGTTTTGAAAAATTAATTTATCTTCA
TGAGTTTTGAATTTTTTCTTTGAAATTCTCCTATTTCTGAAAAACAGAGTTTTCTACTCCATAAA
TATTTTGGAGGGATTTTTCTTGATTTAAAATTT
Found at i:15123 original size:155 final size:151
Alignment explanation
Indices: 14790--15455 Score: 537
Period size: 155 Copynumber: 4.4 Consensus size: 151
14780 ACCTGGTTCA
* * * * * * *
14790 CTTTTACTCTGAAGGTGTGCATTTAAGATAGGTTCAT-CC-T-TTTAATCTTTTTAAGTCCTTTA
1 CTTTTACACTGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTAAAGTCTTTTA
** * * * *
14852 GGGGTACCGGGATACTTTCACGTCGAAGGTATCCCCTAGGAGTATTTTTGTAATTTTTTAAAA-C
66 -GGGTATTGGG-TACTTT-ACGTCGAAGGTATCTCTTAAG-GTATTTTCGTAATTTTTTAAAATC
* * ** *
14916 TAAG-TTTAGGTTGTCACCAAGTCCA
127 -GAGTTTTAGGTTGTCATCGGGTCCT
* ** * * * *
14941 CTTATATGCCGAAGGTGTGTATTTAGGATAGGTTCATCCCCTCTTTAATCTTTTAAAGTCTTTTA
1 CTTTTACACTGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTAAAGTCTTTTA
* * * * * * *
15006 GAGGTATTGGGCACTTATACGTTGAAGATATCTCTAAAGGCATTTTGGTAATGTTTTTTAGAATC
66 G-GGTATTGGGTACTT-TACGTCGAAGGTATCTCTTAAGGTATTTTCGTAA--TTTTTTAAAATC
*
15071 GAGTTTTAGGTTGTCATTGGGTCCT
127 GAGTTTTAGGTTGTCATCGGGTCCT
* * * * ** *
15096 CTTTTACACTAAAGGTGGGTATTTAGGATAGATTCATCCTATCTACAATCTTTTATGGTCCTTTA
1 CTTTTACACTGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTAAAGTCTTTTA
** * * *
15161 GGGATATCAGATACTTTCATGTCGAAGGTAT-TCCTTAGGGATATTTTCGTAATTTTTTAAAATC
66 GGG-TATTGGGTACTTT-ACGTCGAAGGTATCT-CTTAAGG-TATTTTCGTAATTTTTTAAAATC
*
15225 GAGTTTTAGGTTGTTATCGGGTCCGT
127 GAGTTTTAGGTTGTCATCGGGTCC-T
* * * * *
15251 -TTTTATA-TCGAAGGTGAGTATTTAGGATAGGCTCATCCCATTTATAATTCTTTTTAAGTCTTT
1 CTTTTACACT-GAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAA-TCTTTTAAAGTCTTT
15314 TAGGGGTATTGGGTACTTTTACGTCGAAGGTATC-CTTTAAGGTATTTTCGTAA-TTTTTAAAAT
64 TA-GGGTATTGGGTAC-TTTACGTCGAAGGTATCTC-TTAAGGTATTTTCGTAATTTTTTAAAAT
* * * * * *
15377 TGAGCTTTAGGCTGTCACCAGGTCCA
126 CGAGTTTTAGGTTGTCATCGGGTCCT
*
15403 CTTATGTAC-C-GAAGGTGGGCATTTAGGATAGGTTCATCCCATCTATAATCTTT
1 CTT-T-TACACTGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTT
15456 CAGTGTTCAT
Statistics
Matches: 408, Mismatches: 83, Indels: 47
0.76 0.15 0.09
Matches are distributed among these distances:
151 31 0.08
152 17 0.04
153 87 0.21
154 126 0.31
155 132 0.32
156 15 0.04
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.40
Consensus pattern (151 bp):
CTTTTACACTGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTAAAGTCTTTTA
GGGTATTGGGTACTTTACGTCGAAGGTATCTCTTAAGGTATTTTCGTAATTTTTTAAAATCGAGT
TTTAGGTTGTCATCGGGTCCT
Found at i:15272 original size:154 final size:152
Alignment explanation
Indices: 14800--15761 Score: 518
Period size: 155 Copynumber: 6.3 Consensus size: 152
14790 CTTTTACTCT
* * * * * * *
14800 GAAGGTGTGCATTTAAGATAGGTTCAT-CC-T-TTTAATCTTTT-TAAGTCCTTTAGGGGTACCG
1 GAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTAT-GGTCCTTTAGGGATATC-
* ** * * *
14861 GGATACTTTCACGTCGAAGGTA-TCCCCTAGGAGTATTTTTGTAATTTTTTAAAA-CTAAG-TTT
64 AGATACTTTCACGTCGAAGGTATTCCTTTAAG-GTATTTTCGTAATTTTTTAAAATC-GAGTTTT
* ** * * *
14923 AGGTTGTCACCAAGTCCACTTATATGCC
127 AGGTTGTCATCGGGTCC-TTTTTAT-AC
* * * ** * **
14951 GAAGGTGTGTATTTAGGATAGGTTCATCCCCTCTTTAATCTTTTAAAGTCTTTTAGAGG-TATTG
1 GAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTATGGTCCTTTAG-GGATATCA
** * * * * * *
15015 GGCACTTAT-ACGTTGAAGATA-T-CTCTAAAGGCATTTTGGTAATGTTTTTTAGAATCGAGTTT
65 GATACTT-TCACGTCGAAGGTATTCCT-TTAAGGTATTTTCGTAA--TTTTTTAAAATCGAGTTT
* *
15077 TAGGTTGTCATTGGGTCCTCTTTTACAC
126 TAGGTTGTCATCGGGTCCT-TTTTATAC
* * * *
15105 TAAAGGTGGGTATTTAGGATAGATTCATCCTATCTACAATCTTTTATGGTCCTTTAGGGATATCA
1 -GAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTATGGTCCTTTAGGGATATCA
* *
15170 GATACTTTCATGTCGAAGGTATTCC-TTAGGGATATTTTCGTAATTTTTTAAAATCGAGTTTTAG
65 GATACTTTCACGTCGAAGGTATTCCTTTAAGG-TATTTTCGTAATTTTTTAAAATCGAGTTTTAG
*
15234 GTTGTTATCGGGTCCGTTTTTATATC
129 GTTGTCATCGGGTCC-TTTTTATA-C
* * * * * * *
15260 GAAGGTGAGTATTTAGGATAGGCTCATCCCATTTATAATTCTTTT-TAAGTCTTTTAGGGGTATT
1 GAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAA-TCTTTTAT-GGTCCTTTAGGGATATC
* * * * *
15324 GGGTACTTTTACGTCGAAGGTA-TCCTTTAAGGTATTTTCGTAA-TTTTTAAAATTGAGCTTTAG
64 AGATACTTTCACGTCGAAGGTATTCCTTTAAGGTATTTTCGTAATTTTTTAAAATCGAGTTTTAG
* * * * * *
15387 GCTGTCACCAGGTCCACTTATGTACC
129 GTTGTCATCGGGTCC-TTTTTATA-C
* * * * * *
15413 GAAGGTGGGCATTTAGGATAGGTTCATCCCATCTATAATCTTTCA-GTGTTCATTAGAGTTACTC
1 GAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTATG-GTCCTTTAGGGATA-TC
* * * * * *
15477 AGATACTTTCACGTCAAAGGTATACCTATAAAGGCATTTTAGTAA--TTTT--ACTC--G---TA
64 AGATACTTTCACGTCGAAGGTATTCCT-TTAAGGTATTTTCGTAATTTTTTAAAATCGAGTTTTA
* * * *
15533 GGTTGTCACCAGGTCCGCTTTTATGCC
128 GGTTGTCATCGGGTCC-TTTTTAT-AC
* * * * * * *
15560 AAAGGTGAGCATTTAGGATAGGTTCA-CCCATCTCTAATCTTTTTTAAGTCCTTTAGGGTTATCG
1 GAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTAT-GGTCCTTTAGGGATATC-
* * * ** * * * * * * *
15624 AGATACTTTCACGTCGAAAGTATACCCATATGGGGCATTTTAGTAATTTTACTAAAACCAACTCT
64 AGATACTTTCACGTCGAAGGTAT-TCC-TTTAAGGTATTTTCGTAATTTT-TTAAAATCGAGTTT
* * *
15689 TAGGTTGTCACCGGGTCCGCTTTTATGCC
126 TAGGTTGTCATCGGGTCC-TTTTTAT-AC
* * * *
15718 AAAGGTGGGCATTTAGGATAGGTTCACCCCATCTTTAATCTTTT
1 GAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTT
15762 TTAAGTTCTT
Statistics
Matches: 638, Mismatches: 128, Indels: 82
0.75 0.15 0.10
Matches are distributed among these distances:
146 17 0.03
147 79 0.12
148 15 0.02
149 1 0.00
150 3 0.00
151 26 0.04
152 29 0.05
153 110 0.17
154 130 0.20
155 148 0.23
156 10 0.02
157 1 0.00
158 53 0.08
159 16 0.03
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (152 bp):
GAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTTTTATGGTCCTTTAGGGATATCAG
ATACTTTCACGTCGAAGGTATTCCTTTAAGGTATTTTCGTAATTTTTTAAAATCGAGTTTTAGGT
TGTCATCGGGTCCTTTTTATAC
Found at i:15433 original size:153 final size:153
Alignment explanation
Indices: 14741--15776 Score: 664
Period size: 154 Copynumber: 6.8 Consensus size: 153
14731 TCCCCTAGGA
* * * * * * * * *
14741 GTATTTTCGTAATTTTTCAAAACCAACTCTTAAGTCGTCACCTGGTTCACTT-T-TACTCTGAAG
1 GTATTTTCGTAATTTTTTAAAATCGAGTTTTAGGTTGTCACCAGGTCCACTTATATAC-C-GAAG
* * * *
14804 GTGTGCATTTAAGATAGGTTCAT-CC-TTT-TAATCTTTTTAAGTCCTTTAGGGGTACCGGGATA
64 GTGGGTATTTAGGATAGGTTCATCCCATTTATAATCTTTTTAAGTCCTTTAGGGGTATCGGG-TA
** *
14866 CTTTCACGTCGAAGGTATCCCCTAGG
128 CTTTCACGTCGAAGGTATCCTTTAAG
* * * *
14892 AGTATTTTTGTAATTTTTTAAAA-CTAAG-TTTAGGTTGTCACCAAGTCCACTTATATGCCGAAG
1 -GTATTTTCGTAATTTTTTAAAATC-GAGTTTTAGGTTGTCACCAGGTCCACTTATATACCGAAG
* * * * * * *
14955 GTGTGTATTTAGGATAGGTTCATCCCCTCTT-TAATCTTTTAAAGTCTTTTAGAGGTATTGGGCA
64 GTGGGTATTTAGGATAGGTTCATCCCAT-TTATAATCTTTTTAAGTCCTTTAGGGGTATCGGGTA
* * *
15019 CTTAT-ACGTTGAAGATAT-CTCTAAAG
128 CTT-TCACGTCGAAGGTATCCT-TTAAG
* * * *** * * * **
15045 GCATTTTGGTAATGTTTTTTAGAATCGAGTTTTAGGTTGTCATTGGGTCCTCTTTTACACTAAAG
1 GTATTTTCGTAA--TTTTTTAAAATCGAGTTTTAGGTTGTCACCAGGTCCACTTATATACCGAAG
* * * * * * * *
15110 GTGGGTATTTAGGATAGATTCATCCTATCTACAATC-TTTTATGGTCCTTTAGGGATATCAGATA
64 GTGGGTATTTAGGATAGGTTCATCCCATTTATAATCTTTTTA-AGTCCTTTAGGGGTATCGGGTA
* *
15174 CTTTCATGTCGAAGGTATTCC-TTAGG
128 CTTTCACGTCGAAGGTA-TCCTTTAAG
* * * ** * *
15200 GATATTTTCGTAATTTTTTAAAATCGAGTTTTAGGTTGTTATCGGGTCCGTTTTTATATCGAAGG
1 G-TATTTTCGTAATTTTTTAAAATCGAGTTTTAGGTTGTCACCAGGTCCACTTATATACCGAAGG
* * * *
15265 TGAGTATTTAGGATAGGCTCATCCCATTTATAATTCTTTTTAAGTCTTTTAGGGGTATTGGGTAC
65 TGGGTATTTAGGATAGGTTCATCCCATTTATAA-TCTTTTTAAGTCCTTTAGGGGTATCGGGTAC
*
15330 TTTTACGTCGAAGGTATCCTTTAAG
129 TTTCACGTCGAAGGTATCCTTTAAG
* * * *
15355 GTATTTTCGTAA-TTTTTAAAATTGAGCTTTAGGCTGTCACCAGGTCCACTTATGTACCGAAGGT
1 GTATTTTCGTAATTTTTTAAAATCGAGTTTTAGGTTGTCACCAGGTCCACTTATATACCGAAGGT
* * * * * * * * * *
15419 GGGCATTTAGGATAGGTTCATCCCATCTATAATC-TTTCAGTGTTCATTAGAGTTACTCAGATAC
66 GGGTATTTAGGATAGGTTCATCCCATTTATAATCTTTTTA-AGTCCTTTAGGGGTA-TCGGGTAC
* *
15483 TTTCACGTCAAAGGTATACCTATAAAG
129 TTTCACGTCGAAGGTAT-CCT-TTAAG
* * * * * * *
15510 GCATTTTAGTAA--TTTT--ACTC--G---TAGGTTGTCACCAGGTCCGCTTTTATGCCAAAGGT
1 GTATTTTCGTAATTTTTTAAAATCGAGTTTTAGGTTGTCACCAGGTCCACTTATATACCGAAGGT
* * * * * *
15566 GAGCATTTAGGATAGGTTCA-CCCATCTCTAATCTTTTTTAAGTCCTTTAGGGTTATCGAGATAC
66 GGGTATTTAGGATAGGTTCATCCCATTTATAATC-TTTTTAAGTCCTTTAGGGGTATCG-GGTAC
* * **
15630 TTTCACGTCGAAAGTATACCCATATGGG
129 TTTCACGTCGAAGGTAT--CC-TTTAAG
* * * * * * * * * * * *
15658 GCATTTTAGTAATTTTACTAAAACCAACTCTTAGGTTGTCACCGGGTCCGCTTTTATGCCAAAGG
1 GTATTTTCGTAATTTT-TTAAAATCGAGTTTTAGGTTGTCACCAGGTCCACTTATATACCGAAGG
* * *
15723 TGGGCATTTAGGATAGGTTCACCCCATCTT-TAATCTTTTTTAAGTTCTTTAGGG
65 TGGGTATTTAGGATAGGTTCATCCCAT-TTATAATC-TTTTTAAGTCCTTTAGGG
15777 TTACCGAGAT
Statistics
Matches: 697, Mismatches: 145, Indels: 77
0.76 0.16 0.08
Matches are distributed among these distances:
146 14 0.02
147 79 0.11
148 19 0.03
149 1 0.00
150 3 0.00
151 49 0.07
152 50 0.07
153 111 0.16
154 137 0.20
155 136 0.20
156 15 0.02
157 1 0.00
158 53 0.08
159 28 0.04
160 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (153 bp):
GTATTTTCGTAATTTTTTAAAATCGAGTTTTAGGTTGTCACCAGGTCCACTTATATACCGAAGGT
GGGTATTTAGGATAGGTTCATCCCATTTATAATCTTTTTAAGTCCTTTAGGGGTATCGGGTACTT
TCACGTCGAAGGTATCCTTTAAG
Found at i:15628 original size:147 final size:152
Alignment explanation
Indices: 15384--15820 Score: 480
Period size: 147 Copynumber: 2.9 Consensus size: 152
15374 AATTGAGCTT
* * * * * * *
15384 TAGGCTGTCACCAGGTCCACTTATGTACCGAAGGTGGGCATTTAGGATAGGTTCATCCCATCTAT
1 TAGGTTGTCACCAGGTCCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCACCCCATCTAT
* * * * *
15449 AATC--TTTCAGTGTTCATTAGAGTTACTC-AGATACTTTCACGTC-AAAGGTATACCTATA-AA
66 AATCTTTTTTA-AGTTCTTTAGGGTTA-TCGAGATACTTTCACGTCGAAA-GTATACCCATATAA
15509 GGCATTTTAGTAA-TTT-T-ACTCG
128 GGCATTTTAGTAATTTTATAACTCG
* *
15531 TAGGTTGTCACCAGGTCCGCTTTTATGCCAAAGGTGAGCATTTAGGATAGGTTCA-CCCATCTCT
1 TAGGTTGTCACCAGGTCCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCACCCCATCTAT
* **
15595 AATCTTTTTTAAGTCCTTTAGGGTTATCGAGATACTTTCACGTCGAAAGTATACCCATATGGGGC
66 AATCTTTTTTAAGTTCTTTAGGGTTATCGAGATACTTTCACGTCGAAAGTATACCCATATAAGGC
*
15660 ATTTTAGTAATTTTACTAAAACCAACTCT
131 ATTTTAGTAATTTTA-T------AACTCG
* *
15689 TAGGTTGTCACCGGGTCCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCACCCCATCTTT
1 TAGGTTGTCACCAGGTCCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCACCCCATCTAT
* * * * * *
15754 AATCTTTTTTAAGTTCTTTAGGGTTACCGAGATAATTTCACATTGAAAGCATACCCATA-AGGGC
66 AATCTTTTTTAAGTTCTTTAGGGTTATCGAGATACTTTCACGTCGAAAGTATACCCATATAAGGC
15818 ATT
131 ATT
15821 CTAATAAATT
Statistics
Matches: 247, Mismatches: 27, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
146 14 0.06
147 84 0.34
148 20 0.08
149 3 0.01
151 1 0.00
158 64 0.26
159 61 0.25
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (152 bp):
TAGGTTGTCACCAGGTCCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCACCCCATCTAT
AATCTTTTTTAAGTTCTTTAGGGTTATCGAGATACTTTCACGTCGAAAGTATACCCATATAAGGC
ATTTTAGTAATTTTATAACTCG
Found at i:15819 original size:158 final size:158
Alignment explanation
Indices: 15526--15820 Score: 475
Period size: 158 Copynumber: 1.9 Consensus size: 158
15516 TAGTAATTTT
15526 ACTCGTAGGTTGTCACCAGGTCCGCTTTTATGCCAAAGGTGAGCATTTAGGATAGGTTCACCCAT
1 ACTCGTAGGTTGTCACCAGGTCCGCTTTTATGCCAAAGGTGAGCATTTAGGATAGGTTCACCCAT
* * * * *
15591 CTCTAATCTTTTTTAAGTCCTTTAGGGTTATCGAGATACTTTCACGTCGAAAGTATACCCATATG
66 CTCTAATCTTTTTTAAGTCCTTTAGGGTTACCGAGATAATTTCACATCGAAAGCATACCCATATA
15656 GGGCATTTTAGTAATTTTACTAAAACCA
131 GGGCATTTTAGTAATTTTACTAAAACCA
* * *
15684 ACTCTTAGGTTGTCACCGGGTCCGCTTTTATGCCAAAGGTGGGCATTTAGGATAGGTTCACCCCA
1 ACTCGTAGGTTGTCACCAGGTCCGCTTTTATGCCAAAGGTGAGCATTTAGGATAGGTTCA-CCCA
* * *
15749 TCTTTAATCTTTTTTAAGTTCTTTAGGGTTACCGAGATAATTTCACATTGAAAGCATACCCATA-
65 TCTCTAATCTTTTTTAAGTCCTTTAGGGTTACCGAGATAATTTCACATCGAAAGCATACCCATAT
15813 AGGGCATT
130 AGGGCATT
15821 CTAATAAATT
Statistics
Matches: 125, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
158 64 0.51
159 61 0.49
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (158 bp):
ACTCGTAGGTTGTCACCAGGTCCGCTTTTATGCCAAAGGTGAGCATTTAGGATAGGTTCACCCAT
CTCTAATCTTTTTTAAGTCCTTTAGGGTTACCGAGATAATTTCACATCGAAAGCATACCCATATA
GGGCATTTTAGTAATTTTACTAAAACCA
Found at i:18561 original size:75 final size:75
Alignment explanation
Indices: 18427--18764 Score: 568
Period size: 75 Copynumber: 4.5 Consensus size: 75
18417 GATGAAACGA
* * * * *
18427 TAATTCGAGATAATCTGGACGATAAATACAATCAACAACTATTTCTGTATATTTCACATTACTAC
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATATTTCTGCATATTTCACATTACTAC
*
18492 TATCAACAAT
66 TATCAACAAC
* *
18502 TAATCCGGGATAATCTGCACGATAACTACAATCAACAAATATTTCTGCATATTTTACATTACTAC
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATATTTCTGCATATTTCACATTACTAC
18567 TATCAACAAC
66 TATCAACAAC
* *
18577 TAATCCGAGATAATTTGCACGATAACTACAATCAACAAATATTTCTGCATATTTCGCATTACTAC
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATATTTCTGCATATTTCACATTACTAC
18642 TATCAACAAC
66 TATCAACAAC
*
18652 TAATCCGAGATAATCTGCACGATAACTATAATCAACAAATATTTCTGCATATTTCACATTACTAC
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATATTTCTGCATATTTCACATTACTAC
18717 TATCAACAAC
66 TATCAACAAC
*
18727 TAATCCGAGATAATCTGCACGATAACTATAATCAACAA
1 TAATCCGAGATAATCTGCACGATAACTACAATCAACAA
18765 CTTTGTGCAC
Statistics
Matches: 248, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
75 248 1.00
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (75 bp):
TAATCCGAGATAATCTGCACGATAACTACAATCAACAAATATTTCTGCATATTTCACATTACTAC
TATCAACAAC
Found at i:18572 original size:36 final size:36
Alignment explanation
Indices: 18457--18725 Score: 193
Period size: 36 Copynumber: 7.2 Consensus size: 36
18447 GATAAATACA
* *
18457 ATCAACAACTATTTCTGTATATTTCACATTACTACT
1 ATCAACAAATATTTCTGCATATTTCACATTACTACT
* * * * * * * *
18493 ATCAACAATTAATCCGGGATAATCTGCACGATAACTACA
1 ATCAACAAATATTTCTGCAT-AT-TTCAC-ATTACTACT
*
18532 ATCAACAAATATTTCTGCATATTTTACATTACTACT
1 ATCAACAAATATTTCTGCATATTTCACATTACTACT
* * * * * *
18568 ATCAACAACTA-ATCCGAGATAATTTGCACGATAACTACA
1 ATCAACAAATATTTCTG-CAT-ATTT-CAC-ATTACTACT
*
18607 ATCAACAAATATTTCTGCATATTTCGCATTACTACT
1 ATCAACAAATATTTCTGCATATTTCACATTACTACT
* * * * * *
18643 ATCAACAACTA-ATCCGAGATAATCTGCACGATAACTA-T
1 ATCAACAAATATTTCTG-CAT-AT-TTCAC-ATTACTACT
18681 AATCAACAAATATTTCTGCATATTTCACATTACTACT
1 -ATCAACAAATATTTCTGCATATTTCACATTACTACT
18718 ATCAACAA
1 ATCAACAA
18726 CTAATCCGAG
Statistics
Matches: 174, Mismatches: 44, Indels: 30
0.70 0.18 0.12
Matches are distributed among these distances:
35 6 0.03
36 67 0.39
37 18 0.10
38 18 0.10
39 59 0.34
40 6 0.03
ACGTcount: A:0.39, C:0.22, G:0.07, T:0.32
Consensus pattern (36 bp):
ATCAACAAATATTTCTGCATATTTCACATTACTACT
Found at i:18755 original size:36 final size:36
Alignment explanation
Indices: 18565--18755 Score: 99
Period size: 36 Copynumber: 5.1 Consensus size: 36
18555 TTACATTACT
*
18565 ACTATCAACAACTAATCCGAGATAATTTGCACGATA
1 ACTATCAACAACTAATCCGAGATAATCTGCACGATA
* * * * * **
18601 ACTACAATCAACAAATATTTCTG-CAT-ATTTCGCATTACT-
1 ACT---ATCAACAACTA-ATCCGAGATAATCT-GCACGA-TA
18640 ACTATCAACAACTAATCCGAGATAATCTGCACGATA
1 ACTATCAACAACTAATCCGAGATAATCTGCACGATA
* * * * *
18676 ACTATAATCAACAAATATTTCTG-CAT-AT-TTCAC-ATTA
1 AC--T-ATCAACAACTA-ATCCGAGATAATCTGCACGA-TA
18713 CTACTATCAACAACTAATCCGAGATAATCTGCACGATA
1 --ACTATCAACAACTAATCCGAGATAATCTGCACGATA
18751 ACTAT
1 ACTAT
18756 AATCAACAAC
Statistics
Matches: 112, Mismatches: 23, Indels: 40
0.64 0.13 0.23
Matches are distributed among these distances:
35 7 0.06
36 39 0.35
37 12 0.11
38 13 0.12
39 34 0.30
40 7 0.06
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (36 bp):
ACTATCAACAACTAATCCGAGATAATCTGCACGATA
Found at i:18766 original size:39 final size:37
Alignment explanation
Indices: 18493--18766 Score: 152
Period size: 39 Copynumber: 7.3 Consensus size: 37
18483 CATTACTACT
* *
18493 ATCAACAATTAATCCGGGATAATCTGCACGATAACTACA
1 ATCAACAACTAATCC-GGATAAT-TGCACGATAACTATA
* * * * ** *
18532 ATCAACAAATATTTCTGCAT-ATTTTAC-ATTACTACT-
1 ATCAACAACTA-ATCCGGATAATTGCACGATAACTA-TA
*
18568 ATCAACAACTAATCCGAGATAATTTGCACGATAACTACA
1 ATCAACAACTAATCCG-GATAA-TTGCACGATAACTATA
* * * * * * *
18607 ATCAACAAATATTTCTGCAT-ATTTCGC-ATTACTACT-
1 ATCAACAACTA-ATCCGGATAATTGCACGATAACTA-TA
18643 ATCAACAACTAATCCGAGATAATCTGCACGATAACTATA
1 ATCAACAACTAATCCG-GATAAT-TGCACGATAACTATA
* * * * * *
18682 ATCAACAAATATTTCTGCAT-ATTTCAC-ATTACTACT-
1 ATCAACAACTA-ATCCGGATAATTGCACGATAACTA-TA
18718 ATCAACAACTAATCCGAGATAATCTGCACGATAACTATA
1 ATCAACAACTAATCCG-GATAAT-TGCACGATAACTATA
18757 ATCAACAACT
1 ATCAACAACT
18767 TTGTGCACCA
Statistics
Matches: 171, Mismatches: 43, Indels: 42
0.67 0.17 0.16
Matches are distributed among these distances:
35 9 0.05
36 54 0.32
37 17 0.10
38 18 0.11
39 65 0.38
40 8 0.05
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.30
Consensus pattern (37 bp):
ATCAACAACTAATCCGGATAATTGCACGATAACTATA
Found at i:19099 original size:30 final size:27
Alignment explanation
Indices: 19028--19085 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
19018 AGGTCGTAGC
*
19028 AGGATATGATGGGTATGGAGATTGAGT
1 AGGATATGATGGGTATGGAGATTGAGG
*
19055 AGGATATGATGGGTATGGAGGTTGAGG
1 AGGATATGATGGGTATGGAGATTGAGG
19082 AGGA
1 AGGA
19086 AAATATGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.45, T:0.26
Consensus pattern (27 bp):
AGGATATGATGGGTATGGAGATTGAGG
Found at i:20778 original size:15 final size:15
Alignment explanation
Indices: 20738--20780 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
20728 ATTTTATAGG
20738 CTTTAAACTAATTAC
1 CTTTAAACTAATTAC
**
20753 CCCTAAACTAATTA-
1 CTTTAAACTAATTAC
20767 CTTTAAACCTAATT
1 CTTTAAA-CTAATT
20781 CTACATAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (15 bp):
CTTTAAACTAATTAC
Found at i:21029 original size:21 final size:21
Alignment explanation
Indices: 21005--21045 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
20995 AATTGGTAAA
*
21005 ATTTTAGAGAGAAGTGAGAGG
1 ATTTTAGAGAGAAGAGAGAGG
*
21026 ATTTTAGAGAGTAGAGAGAG
1 ATTTTAGAGAGAAGAGAGAG
21046 TGAAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.37, T:0.24
Consensus pattern (21 bp):
ATTTTAGAGAGAAGAGAGAGG
Found at i:22628 original size:20 final size:21
Alignment explanation
Indices: 22589--22647 Score: 93
Period size: 21 Copynumber: 2.8 Consensus size: 21
22579 CGAAATTTAT
22589 ATATTTTATAATTAAATTAAA
1 ATATTTTATAATTAAATTAAA
22610 ATATTTTATAATT-AATTAAA
1 ATATTTTATAATTAAATTAAA
*
22630 ATATTTTATTATTTAAAT
1 ATATTTTA-TAATTAAAT
22648 AATAATTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 15 0.43
21 17 0.49
22 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATATTTTATAATTAAATTAAA
Found at i:24908 original size:9 final size:9
Alignment explanation
Indices: 24896--24944 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
24886 TTTATTTTAA
24896 TTTTTAA-T
1 TTTTTAATT
24904 TTTTTAATT
1 TTTTTAATT
*
24913 TTTATAATT
1 TTTTTAATT
*
24922 TTTTAATTATT
1 TTTT--TAATT
24933 TTTTTAATT
1 TTTTTAATT
24942 TTT
1 TTT
24945 GAATTTTATC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
8 7 0.21
9 19 0.56
11 8 0.24
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTAATT
Found at i:24920 original size:17 final size:16
Alignment explanation
Indices: 24890--24934 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
24880 ATTCTATTTA
24890 TTTTAA-TTTTTAATT
1 TTTTAATTTTTTAATT
24905 TTTTAATTTTTATAATT
1 TTTTAATTTTT-TAATT
24922 TTTTAATTATTTT
1 TTTTAATT-TTTT
24935 TTTAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.22
16 4 0.15
17 14 0.52
18 3 0.11
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTAATTTTTTAATT
Found at i:24935 original size:20 final size:20
Alignment explanation
Indices: 24910--24949 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24900 TAATTTTTTA
*
24910 ATTTTTATAATTTTTTAATT
1 ATTTTTATAATTTTTGAATT
*
24930 ATTTTTTTAATTTTTGAATT
1 ATTTTTATAATTTTTGAATT
24950 TTATCATGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (20 bp):
ATTTTTATAATTTTTGAATT
Found at i:24944 original size:8 final size:8
Alignment explanation
Indices: 24890--24934 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
24880 ATTCTATTTA
24890 TTTTAA-T
1 TTTTAATT
24897 TTTTAATT
1 TTTTAATT
24905 TTTTAATT
1 TTTTAATT
24913 TTTATAATT
1 TTT-TAATT
24922 TTTTAATT
1 TTTTAATT
24930 ATTTT
1 -TTTT
24935 TTTAATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 6 0.17
8 17 0.49
9 12 0.34
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
TTTTAATT
Found at i:24949 original size:8 final size:7
Alignment explanation
Indices: 24890--24951 Score: 56
Period size: 8 Copynumber: 8.4 Consensus size: 7
24880 ATTCTATTTA
24890 TTTTAAT
1 TTTTAAT
24897 TTTTAATT
1 TTTTAA-T
24905 TTTTAATT
1 TTTTAA-T
24913 TTTATAATT
1 TTT-TAA-T
24922 TTTTAAT
1 TTTTAAT
*
24929 TATT--T
1 TTTTAAT
24934 TTTTAAT
1 TTTTAAT
24941 TTTTGAAT
1 TTTT-AAT
24949 TTT
1 TTT
24952 ATCATGATTT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
5 4 0.08
7 15 0.31
8 21 0.44
9 8 0.17
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.73
Consensus pattern (7 bp):
TTTTAAT
Found at i:24961 original size:28 final size:29
Alignment explanation
Indices: 24903--24963 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
24893 TAATTTTTAA
* * *
24903 TTTTTTAATTTTTATAATTTTTTAATTAT
1 TTTTTTAATTTTTAGAATTTTATAATGAT
*
24932 TTTTTTAATTTTT-GAATTTTATCATGAT
1 TTTTTTAATTTTTAGAATTTTATAATGAT
24960 TTTT
1 TTTT
24964 GAAAGATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (29 bp):
TTTTTTAATTTTTAGAATTTTATAATGAT
Found at i:25191 original size:12 final size:12
Alignment explanation
Indices: 25170--25204 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
25160 TGACTGTATC
*
25170 ATTGTGATTATT
1 ATTGTTATTATT
25182 ATTGTTATTATT
1 ATTGTTATTATT
*
25194 ATTATTATTAT
1 ATTGTTATTAT
25205 CGTCATGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.63
Consensus pattern (12 bp):
ATTGTTATTATT
Found at i:27109 original size:3 final size:3
Alignment explanation
Indices: 27094--27133 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
27084 TCCTAGCTAT
*
27094 GAA GAA GAT GAA GAA GAA GAA GAA GAA GAA GAA GAA -AA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
27134 GGATCGATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:27725 original size:17 final size:17
Alignment explanation
Indices: 27705--27758 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 17
27695 ATCAGAGTTA
27705 TTATTAAATATAAATAGTT
1 TTATTAAATATAAATA--T
27724 ATTATTAAATATAAATAT
1 -TTATTAAATATAAATAT
* *
27742 GTATTGAATATAAATAT
1 TTATTAAATATAAATAT
27759 ATTTAATCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
17 15 0.47
18 1 0.03
20 16 0.50
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
TTATTAAATATAAATAT
Found at i:27746 original size:20 final size:20
Alignment explanation
Indices: 27700--27740 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
27690 CTCAAATCAG
27700 AGTTATTATTAAATATAAAT
1 AGTTATTATTAAATATAAAT
27720 AGTTATTATTAAATATAAAT
1 AGTTATTATTAAATATAAAT
27740 A
1 A
27741 TGTATTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AGTTATTATTAAATATAAAT
Found at i:30935 original size:30 final size:30
Alignment explanation
Indices: 30901--30971 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
30891 GTATTTTTAA
*
30901 TATATTATTAAATATATAAT-ATTTAATTAT
1 TATATTATTAAATATA-AATAATTTAAATAT
**
30931 TATATTATTACTTATAAATAATTTAAATAT
1 TATATTATTAAATATAAATAATTTAAATAT
*
30961 AATA-TATTAAA
1 TATATTATTAAA
30972 ATTTTTTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 8 0.24
30 26 0.76
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
TATATTATTAAATATAAATAATTTAAATAT
Found at i:31011 original size:16 final size:16
Alignment explanation
Indices: 30963--31012 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
30953 TTAAATATAA
30963 TATATTAAA-ATTTTT
1 TATATTAAATATTTTT
30978 T-TA-TAAATATTATGTTT
1 TATATTAAATA-T-T-TTT
30995 TATATTAAATATTTTT
1 TATATTAAATATTTTT
31011 TA
1 TA
31013 ATTTTTGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 11
0.73 0.00 0.28
Matches are distributed among these distances:
13 4 0.14
14 3 0.10
15 2 0.07
16 6 0.21
17 5 0.17
18 3 0.10
19 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATATTAAATATTTTT
Found at i:31420 original size:18 final size:19
Alignment explanation
Indices: 31387--31422 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
31377 CTCGTATTAT
31387 AATTTATGAGTTAATTTAA
1 AATTTATGAGTTAATTTAA
*
31406 AATTTAT-ATTTAATTTA
1 AATTTATGAGTTAATTTA
31423 CTCAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (19 bp):
AATTTATGAGTTAATTTAA
Found at i:36811 original size:102 final size:102
Alignment explanation
Indices: 36693--36898 Score: 412
Period size: 102 Copynumber: 2.0 Consensus size: 102
36683 GGATTTGGCA
36693 GCCCAGGCATGCTATTATATATGACACATTCCAAGATTTCAGGAAAAGGAAGATGATTTCAAAAC
1 GCCCAGGCATGCTATTATATATGACACATTCCAAGATTTCAGGAAAAGGAAGATGATTTCAAAAC
36758 AAATTTAAAGAGGCTGCAACAAACAGGTATATGGGCT
66 AAATTTAAAGAGGCTGCAACAAACAGGTATATGGGCT
36795 GCCCAGGCATGCTATTATATATGACACATTCCAAGATTTCAGGAAAAGGAAGATGATTTCAAAAC
1 GCCCAGGCATGCTATTATATATGACACATTCCAAGATTTCAGGAAAAGGAAGATGATTTCAAAAC
36860 AAATTTAAAGAGGCTGCAACAAACAGGTATATGGGCT
66 AAATTTAAAGAGGCTGCAACAAACAGGTATATGGGCT
36897 GC
1 GC
36899 TTAAGATAAT
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 104 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (102 bp):
GCCCAGGCATGCTATTATATATGACACATTCCAAGATTTCAGGAAAAGGAAGATGATTTCAAAAC
AAATTTAAAGAGGCTGCAACAAACAGGTATATGGGCT
Found at i:37040 original size:2 final size:2
Alignment explanation
Indices: 37033--37061 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
37023 TGTATGTATG
37033 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
37062 TAAACAGATT
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:38294 original size:19 final size:18
Alignment explanation
Indices: 38270--38310 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
38260 CTCCACTTTG
*
38270 TTAAAAGAAATCATTTTAC
1 TTAAAA-AAATCAGTTTAC
*
38289 TTAAAATAATCAGTTTAC
1 TTAAAAAAATCAGTTTAC
38307 TTAA
1 TTAA
38311 TTTTACACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (18 bp):
TTAAAAAAATCAGTTTAC
Found at i:38394 original size:2 final size:2
Alignment explanation
Indices: 38381--38427 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
38371 CACAGTGTAA
*
38381 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
38423 AT AT A
1 AT AT A
38428 AAATAGCAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:38957 original size:23 final size:23
Alignment explanation
Indices: 38898--38958 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
38888 GTCAATGAAG
* *
38898 CATGATCATGACAAGGCAAAATA
1 CATGAACATGACACGGCAAAATA
38921 CATGAACATGACACGGCAAAATA
1 CATGAACATGACACGGCAAAATA
38944 CATGAACATGACACG
1 CATGAACATGACACG
38959 ACTACACGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.15
Consensus pattern (23 bp):
CATGAACATGACACGGCAAAATA
Found at i:42763 original size:2 final size:2
Alignment explanation
Indices: 42756--42782 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42746 TGCGACGAAA
42756 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
42783 GATAATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44217 original size:16 final size:16
Alignment explanation
Indices: 44198--44298 Score: 73
Period size: 16 Copynumber: 6.3 Consensus size: 16
44188 CTGAACTGAT
44198 TCGAACTCGAAATGAC
1 TCGAACTCGAAATGAC
* *
44214 TCGAA-TCCAGAATAAC
1 TCGAACTCGA-AATGAC
*
44230 TCGAACCCGAAATGAC
1 TCGAACTCGAAATGAC
*
44246 -CTGAA-TCTGAAATAAC
1 TC-GAACTC-GAAATGAC
* * *
44262 TCGAACCCAAAATGAT
1 TCGAACTCGAAATGAC
*
44278 TCGAATTCGAAATGAC
1 TCGAACTCGAAATGAC
*
44294 CCGAA
1 TCGAA
44299 TAATTAACCC
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
15 5 0.08
16 54 0.86
17 4 0.06
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.19
Consensus pattern (16 bp):
TCGAACTCGAAATGAC
Found at i:44234 original size:32 final size:32
Alignment explanation
Indices: 44198--44283 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 32
44188 CTGAACTGAT
*
44198 TCGAACTCGAAATGACTCGAATCCAG-AATAAC
1 TCGAACCCGAAATGACTCGAAT-CAGAAATAAC
*
44230 TCGAACCCGAAATGAC-CTGAATCTGAAATAAC
1 TCGAACCCGAAATGACTC-GAATCAGAAATAAC
* *
44262 TCGAACCCAAAATGATTCGAAT
1 TCGAACCCGAAATGACTCGAAT
44284 TCGAAATGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
31 3 0.06
32 43 0.91
33 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.15, T:0.20
Consensus pattern (32 bp):
TCGAACCCGAAATGACTCGAATCAGAAATAAC
Found at i:44264 original size:48 final size:48
Alignment explanation
Indices: 44206--44299 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 48
44196 ATTCGAACTC
* * * *
44206 GAAATGACTCGAATCCAGAATAACTCGAACCCGAAATGACCTGAATCT
1 GAAATAACTCGAACCCAAAATAACTCGAACCCGAAATGACCCGAATCT
* * **
44254 GAAATAACTCGAACCCAAAATGATTCGAATTCGAAATGACCCGAAT
1 GAAATAACTCGAACCCAAAATAACTCGAACCCGAAATGACCCGAAT
44300 AATTAACCCA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.19
Consensus pattern (48 bp):
GAAATAACTCGAACCCAAAATAACTCGAACCCGAAATGACCCGAATCT
Found at i:44391 original size:21 final size:20
Alignment explanation
Indices: 44356--44415 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
44346 AAAAAATATC
*
44356 AAGTTAATAAAATAATATTTAT
1 AAGTT-ATAATATAATATTT-T
*
44378 AAGTTATAATATAAAATTTT
1 AAGTTATAATATAATATTTT
* *
44398 AAATTAGTTATATAATAT
1 AAGTTA-TAATATAATAT
44416 GTGATTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 21 0.66
22 5 0.16
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (20 bp):
AAGTTATAATATAATATTTT
Found at i:45329 original size:15 final size:16
Alignment explanation
Indices: 45289--45331 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
45279 GTTAAATCTG
45289 ATTAACCCGAATCCAA
1 ATTAACCCGAATCCAA
* * *
45305 AATGACCCGAA-CCCA
1 ATTAACCCGAATCCAA
45320 ATTAACCCGAAT
1 ATTAACCCGAAT
45332 GTTAAACCTA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.42, C:0.33, G:0.09, T:0.16
Consensus pattern (16 bp):
ATTAACCCGAATCCAA
Found at i:45332 original size:53 final size:54
Alignment explanation
Indices: 45259--45371 Score: 140
Period size: 53 Copynumber: 2.1 Consensus size: 54
45249 AAAATGGCTT
* * * *
45259 GAACCTAATTTAACTCGAATGTTAAATCTGATTAACCCGAATCC-AAAATGACCC
1 GAACCCAATTTAACCCGAATGTTAAACCTAATTAACCCGAA-CCTAAAATGACCC
* *
45313 GAACCCAA-TTAACCCGAATGTTAAACCTAATTGACCCGAACCTGAAATGACCC
1 GAACCCAATTTAACCCGAATGTTAAACCTAATTAACCCGAACCTAAAATGACCC
*
45366 AAACCC
1 GAACCC
45372 GAAACAACTC
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.04
53 42 0.82
54 7 0.14
ACGTcount: A:0.39, C:0.28, G:0.12, T:0.21
Consensus pattern (54 bp):
GAACCCAATTTAACCCGAATGTTAAACCTAATTAACCCGAACCTAAAATGACCC
Found at i:45365 original size:16 final size:16
Alignment explanation
Indices: 45344--45455 Score: 118
Period size: 16 Copynumber: 7.0 Consensus size: 16
45334 TAAACCTAAT
*
45344 TGACCCGAACCTGAAA
1 TGACCCGAACCCGAAA
*
45360 TGACCCAAACCCGAAA
1 TGACCCGAACCCGAAA
** *
45376 CAACTCGAACCCGAAA
1 TGACCCGAACCCGAAA
*
45392 TGACCCGAATCC-AAA
1 TGACCCGAACCCGAAA
*
45407 GTGACCCAAACCCGAAA
1 -TGACCCGAACCCGAAA
*
45424 TGACCCGAACCCAAAA
1 TGACCCGAACCCGAAA
* *
45440 TGACCTGAAGCCGAAA
1 TGACCCGAACCCGAAA
45456 ATAAATTAAA
Statistics
Matches: 77, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
15 3 0.04
16 71 0.92
17 3 0.04
ACGTcount: A:0.41, C:0.34, G:0.16, T:0.09
Consensus pattern (16 bp):
TGACCCGAACCCGAAA
Found at i:45412 original size:48 final size:47
Alignment explanation
Indices: 45344--45455 Score: 136
Period size: 48 Copynumber: 2.3 Consensus size: 47
45334 TAAACCTAAT
* *
45344 TGACCCGAACCTGAAATGACCCAAACCCGAAACAACTCGAACCCGAAA
1 TGACCCGAACC-GAAATGACCCAAACCCGAAACAACCCGAACCCAAAA
**
45392 TGACCCGAATCC-AAAGTGACCCAAACCCGAAATGACCCGAACCCAAAA
1 TGACCCGAA-CCGAAA-TGACCCAAACCCGAAACAACCCGAACCCAAAA
*
45440 TGACCTGAAGCCGAAA
1 TGACCCGAA-CCGAAA
45456 ATAAATTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
47 3 0.05
48 47 0.85
49 5 0.09
ACGTcount: A:0.41, C:0.34, G:0.16, T:0.09
Consensus pattern (47 bp):
TGACCCGAACCGAAATGACCCAAACCCGAAACAACCCGAACCCAAAA
Found at i:45507 original size:15 final size:15
Alignment explanation
Indices: 45473--45512 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
45463 AAAAATTTTA
*
45473 TAACCCGAAATAACC
1 TAACCCAAAATAACC
* *
45488 CAACCCAAAATAATC
1 TAACCCAAAATAACC
45503 TAACCCAAAA
1 TAACCCAAAA
45513 CCAACTCGAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.53, C:0.33, G:0.03, T:0.12
Consensus pattern (15 bp):
TAACCCAAAATAACC
Found at i:47179 original size:13 final size:13
Alignment explanation
Indices: 47161--47187 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47151 ACATTATGCT
47161 TTGTATCGATACA
1 TTGTATCGATACA
47174 TTGTATCGATACA
1 TTGTATCGATACA
47187 T
1 T
47188 GCTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:47196 original size:19 final size:19
Alignment explanation
Indices: 47172--47228 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
47162 TGTATCGATA
*
47172 CATTGTATCGATACATGCT
1 CATTGTATCGATACATGAT
*
47191 CATTGTATCGATGCATGGAT
1 CATTGTATCGATACAT-GAT
* *
47211 AATTGTATTGATACATGA
1 CATTGTATCGATACATGA
47229 GATTAGCAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:47227 original size:20 final size:20
Alignment explanation
Indices: 47168--47227 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
47158 GCTTTGTATC
47168 GATACATTGTATCGATACAT-
1 GATA-ATTGTATCGATACATG
* * *
47188 GCTCATTGTATCGATGCATG
1 GATAATTGTATCGATACATG
*
47208 GATAATTGTATTGATACATG
1 GATAATTGTATCGATACATG
47228 AGATTAGCAG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (20 bp):
GATAATTGTATCGATACATG
Found at i:47295 original size:13 final size:13
Alignment explanation
Indices: 47277--47325 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
47267 TATGGGACAA
47277 TGTATCGATACAT
1 TGTATCGATACAT
47290 TGTATCGATACA-
1 TGTATCGATACAT
*
47302 TG-A-GGA-A-AT
1 TGTATCGATACAT
47311 TGTATCGATACAT
1 TGTATCGATACAT
47324 TG
1 TG
47326 CTTGTAATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
8 1 0.03
9 3 0.10
10 3 0.10
11 3 0.10
12 3 0.10
13 16 0.55
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:47320 original size:34 final size:33
Alignment explanation
Indices: 47256--47325 Score: 106
Period size: 34 Copynumber: 2.1 Consensus size: 33
47246 CTATCACTAT
*
47256 TTGTATCGATATATGGGACAATGTATCGATACA
1 TTGTATCGATACATGGGACAATGTATCGATACA
47289 TTGTATCGATACATGAGGA-AATTGTATCGATACA
1 TTGTATCGATACATG-GGACAA-TGTATCGATACA
47323 TTG
1 TTG
47326 CTTGTAATGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
33 16 0.47
34 18 0.53
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATGGGACAATGTATCGATACA
Found at i:48917 original size:3 final size:3
Alignment explanation
Indices: 48909--48937 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
48899 AAGAGGAAGC
48909 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
48938 GTGACTCAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:55401 original size:21 final size:19
Alignment explanation
Indices: 55377--55423 Score: 67
Period size: 21 Copynumber: 2.4 Consensus size: 19
55367 GTAATTTGAA
55377 TTTATGAAATGCAATGTTTGT
1 TTTATGAAATGC-AT-TTTGT
55398 TTTATGAAATGCATTTTGT
1 TTTATGAAATGCATTTTGT
*
55417 GTTATGA
1 TTTATGA
55424 TTGTTTATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 11 0.44
20 2 0.08
21 12 0.48
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.49
Consensus pattern (19 bp):
TTTATGAAATGCATTTTGT
Found at i:55421 original size:19 final size:21
Alignment explanation
Indices: 55378--55423 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
55368 TAATTTGAAT
*
55378 TTATGAAATGCAATGTTTGTT
1 TTATGAAATGCAATGTTTGTG
55399 TTATGAAATGC-AT-TTTGTG
1 TTATGAAATGCAATGTTTGTG
55418 TTATGA
1 TTATGA
55424 TTGTTTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 11 0.46
20 2 0.08
21 11 0.46
ACGTcount: A:0.28, C:0.04, G:0.20, T:0.48
Consensus pattern (21 bp):
TTATGAAATGCAATGTTTGTG
Found at i:56236 original size:20 final size:20
Alignment explanation
Indices: 56187--56246 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
56177 GCTTTTTATC
56187 GATATATTGTATCGATACAT-
1 GATA-ATTGTATCGATACATG
* *
56207 GCTCATTGTATCGATACATG
1 GATAATTGTATCGATACATG
*
56227 GATAATTGTATTGATACATG
1 GATAATTGTATCGATACATG
56247 AGATTGGCAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (20 bp):
GATAATTGTATCGATACATG
Found at i:56314 original size:13 final size:13
Alignment explanation
Indices: 56296--56321 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56286 TATGGGACAA
56296 TGTATCGATACAT
1 TGTATCGATACAT
56309 TGTATCGATACAT
1 TGTATCGATACAT
56322 GAGGAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:56341 original size:34 final size:33
Alignment explanation
Indices: 56275--56344 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
56265 CTATCACTAT
* *
56275 TTGTATCGATATATGGGACAATGTATCGATACA
1 TTGTATCGATACATGGGACAATGTATCAATACA
56308 TTGTATCGATACATGAGGA-AATTGTATCAATACA
1 TTGTATCGATACATG-GGACAA-TGTATCAATACA
56342 TTG
1 TTG
56345 CTTGTAACAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 16 0.48
34 17 0.52
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACATGGGACAATGTATCAATACA
Found at i:59958 original size:20 final size:19
Alignment explanation
Indices: 59929--60003 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
59919 AAAAAGACAT
59929 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
59948 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
59969 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
59989 AATGTATCGATACAT
1 AATGTATCGATACAT
60004 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:59986 original size:40 final size:39
Alignment explanation
Indices: 59926--60003 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
59916 GGTAAAAAGA
*
59926 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
59965 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
60004 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:60664 original size:28 final size:28
Alignment explanation
Indices: 60565--61742 Score: 773
Period size: 28 Copynumber: 41.0 Consensus size: 28
60555 AAAAAAAAAT
*
60565 GGTGCCACTAACTTGTGTGGGCTTTGAAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTG-AAAG
* **
60596 AGTTGCCACCAACTCGTGTGGGCTTTGAAAAG
1 -GGTGCCACTGACT--TGTGGGCTTTG-AAAG
*
60628 AGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
60656 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
60684 TGTTGCCACCT-ACTCGTGGGCTTTGAAAG
1 -GGTGCCA-CTGACTTGTGGGCTTTGAAAG
* * *
60713 GATACCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * *
60742 AGTTACCACCGACTCGTGTGGGCTTTGAAAG
1 -GGTGCCACTGACT--TGTGGGCTTTGAAAG
*
60773 GATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
60801 GGTGCCACTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * *
60830 TGTTGCCACCGACTCGTGGGCTTTGAAAG
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
60859 GATGCCACTGACTTATGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
60888 GGTTGCCA-TCGACTCGTGTGGGCTTTGAAAAG
1 GG-TGCCACT-GACT--TGTGGGCTTTG-AAAG
* *
60920 AGTGCCATTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
60948 GGTGCCACTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
*
60977 TGTTGCCACTGACTTGTGGGCTTTGAAAG
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
61006 GATGCCACTAACTTGTGGGCTTTGAAAATG
1 GGTGCCACTGACTTGTGGGCTTTG-AAA-G
* *
61036 GTTGCCACCGACTCGTGTGGGCTTTGAAAAG
1 GGTGCCACTGACT--TGTGGGCTTTG-AAAG
*
61067 AGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
61095 GGTGCCACTGATTTGTGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
61123 GGTACCACTGATTTATGGGCTTTGAAATG
1 GGTGCCACTGACTTGTGGGCTTTGAAA-G
*
61152 GGTTGCCA-TCGACTTGTGTGGGCTTTTAAATG
1 GG-TGCCACT-GAC-T-TGTGGGCTTTGAAA-G
*
61184 GGTTGCCACCGACTTGTGTGGGCTTTGAAATAG
1 GG-TGCCACTGAC-T-TGTGGGCTTTG-AA-AG
* ** *
61217 GTTGCCACCAACTTGTGTGGGCTTTAAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTGAAAG
**
61247 GGTGCCACTGACTTGTGGGCTTAAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * ** *
61275 GATGCCAC-GAAGTTGTGAAC-TTAAAAG
1 GGTGCCACTG-ACTTGTGGGCTTTGAAAG
* * * *
61302 GGTGCCACAGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
61330 GGTGCCACAGAGTTATGGACTTT-AAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
61357 GGTGCCACGGAGTTGTGGAC-TTAAAAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
61384 GATGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
61412 GGTGCCACGGAGTTGTGGACTTT-AAAT
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
61439 GGTACCACGGAGTTGTGGAC-TTAAAAT
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
61466 GATGCCAC-GAAGTTATGGACTTTAAAAG
1 GGTGCCACTG-ACTTGTGGGCTTTGAAAG
* * ** *
61494 GGTGCCACGGAGTTGTGAACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
61522 GGTGCCACGGAGTTGTGGACTTT-AAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
61549 GGTACCACGGAGTTGT--GCATTTAAAAC
1 GGTGCCACTGACTTGTGGGC-TTTGAAAG
* * * * *
61576 GATGCCACGGAATTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
61604 GGTGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
61632 GATGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
61660 GATGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
** * * * *
61688 AATGCCACGGAGTTGTGGAC-TTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
61715 GATGCCACAGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
61743 AAAATGCCAC
Statistics
Matches: 1005, Mismatches: 97, Indels: 92
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.00
26 8 0.01
27 170 0.17
28 459 0.46
29 92 0.09
30 103 0.10
31 37 0.04
32 130 0.13
33 4 0.00
34 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:60855 original size:58 final size:58
Alignment explanation
Indices: 60560--61742 Score: 814
Period size: 55 Copynumber: 20.6 Consensus size: 58
60550 TTTTAAAAAA
* * * **
60560 AAAATGGTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTG
1 AAAAGGGTGCCACTGAC-T-TGTGGGCTTTGAAAAG-GGTGCCACTGACT--TGTGGGCTTTG
*
60623 AAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * *
60680 -AAAGTGTTGCCACCT-ACTCGTGGGCTTTG-AAAGGATACCACTAACTTGTGGGCTTTG
1 AAAAG-GGTGCCA-CTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * *
60737 AAAAGAGTTACCACCGACTCGTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAAG-GGTGCCACTGACT--TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
60797 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGTGTTGCCACCGACTCGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GGTGCCACTGACTTGTGGGCTTTG
* *
60855 -AAAGGATGCCACTGACTTATGGGCTTTGAAAAGGGTTGCCA-TCGACTCGTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGG-TGCCACT-GACT--TGTGGGCTTTG
* *
60915 AAAAGAGTGCCATTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
60972 AAAAGTGTTGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAAG-GGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * *
61030 AAAATGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAA-GGGTGCCACTGACT--TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * *
61091 -AAAGGGTGCCACTGATTTGTGGGCTTT-AAAAGGGTACCACTGATTTATGGGCTTTG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * *
61147 AAATGGGTTGCCA-TCGACTTGTGTGGGCTTTTAAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAGGG-TGCCACT-GAC-T-TGTGGGCTTTGAAAAGGG-TGCCACTGAC-T-TGTGGGCTTTG
* ** *
61211 AAATAGGTTGCCACCAACTTGTGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGGGC-TTA
1 AAA-AGGGTGCCACTGAC-T-TGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * ** * * *
61270 AAAAGGATGCCAC-GAAGTTGTGAAC-TT-AAAAGGGTGCCACAGAGTTGTGGACTTT-
1 AAAAGGGTGCCACTG-ACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * * * *
61325 AAAAGGGTGCCACAGAGTTATGGACTTT--AAAGGGTGCCACGGAGTTGTGGAC-TT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * * * * *
61379 AAAACGATGCCACGGAGTTGTGGACTTT-AAAAGGGTGCCACGGAGTTGTGGACTTT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * * * * * * *
61435 -AAATGGTACCACGGAGTTGTGGAC-TT-AAAATGATGCCAC-GAAGTTATGGACTTT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTG-ACTTGTGGGCTTTG
* * ** * * *
61489 AAAAGGGTGCCACGGAGTTGTGAACTTT-AAAAGGGTGCCACGGAGTTGTGGACTTT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * * * * *
61545 -AAAGGGTACCACGGAGTTGT--GCATTT-AAAACGATGCCACGGAATTGTGGACTTT-
1 AAAAGGGTGCCACTGACTTGTGGGC-TTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * * * *
61599 AAAAGGGTGCCACGGAGTTGTGGACTTT-AAAAGGATGCCACGGAGTTGTGGACTTT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * * ** * * *
61655 AAAAGGATGCCACGGAGTTGTGGACTTT-AAAAGAATGCCACGGAGTTGTGGAC-TT-
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
* * * *
61710 AAAAGGATGCCACAGAGTTGTGGACTTT-AAAAG
1 AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG
61743 AAAATGCCAC
Statistics
Matches: 973, Mismatches: 103, Indels: 96
0.83 0.09 0.08
Matches are distributed among these distances:
53 2 0.00
54 79 0.08
55 205 0.21
56 157 0.16
57 95 0.10
58 166 0.17
59 41 0.04
60 88 0.09
61 67 0.07
62 17 0.02
63 21 0.02
64 33 0.03
65 2 0.00
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.28
Consensus pattern (58 bp):
AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG
Found at i:60985 original size:147 final size:147
Alignment explanation
Indices: 60567--61268 Score: 1002
Period size: 147 Copynumber: 4.7 Consensus size: 147
60557 AAAAAAATGG
* *
60567 TGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAAAGAGTG
1 TGCCACTAAC-T-TGTGGGCTTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTG
*
60632 CCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGTGTTGCCACCTA
64 CCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGTGTTGCCACCGA
60696 CTCGTGGGCTTTGAAAGGA
129 CTCGTGGGCTTTGAAAGGA
* * * *
60715 TACCACTAACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAAGGA-TGCC
1 TGCCACTAACTTGTGGGCTTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCC
60779 ACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGTGTTGCCACCGACT
66 ACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGTGTTGCCACCGACT
60844 CGTGGGCTTTGAAAGGA
131 CGTGGGCTTTGAAAGGA
* * *
60861 TGCCACTGACTTATGGGCTTTGAAAAGGGTTGCCATCGACTCGTGTGGGCTTTGAAAAGAGTGCC
1 TGCCACTAACTTGTGGGCTTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCC
* *
60926 ATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGTGTTGCCACTGACT
66 ACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGTGTTGCCACCGACT
*
60991 TGTGGGCTTTGAAAGGA
131 CGTGGGCTTTGAAAGGA
*
61008 TGCCACTAACTTGTGGGCTTTGAAAATGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCC
1 TGCCACTAACTTGTGGGCTTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCC
* * * * *
61073 ACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTT-AAAAG-GGTACCACTGATT
66 ACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGTGTTGCCACCGACT
** *
61136 TATGGGCTTTGAAATGGGT
131 CGTGGGCTTTGAAA--GGA
* * * *
61155 TGCCA-TCGACTTGTGTGGGCTTTTAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATAG-G
1 TGCCACT-AAC-T-TGTGGGCTTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAA-AGAG
** *
61218 TTGCCACCAACTTGTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTT
62 -TGCCACTGAC-T-TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
61269 AAAAAGGATG
Statistics
Matches: 508, Mismatches: 35, Indels: 18
0.91 0.06 0.03
Matches are distributed among these distances:
145 73 0.14
146 139 0.27
147 197 0.39
148 10 0.02
149 43 0.08
150 10 0.02
151 1 0.00
152 35 0.07
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.30
Consensus pattern (147 bp):
TGCCACTAACTTGTGGGCTTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCC
ACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGTGTTGCCACCGACT
CGTGGGCTTTGAAAGGA
Found at i:70093 original size:20 final size:19
Alignment explanation
Indices: 70067--70138 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 19
70057 AAGACATAAC
70067 GTATCGATACATTGAAGAAT
1 GTATCGATACATTGAA-AAT
* * *
70087 ATATCGATACATTCATACAT
1 GTATCGATACATTGA-AAAT
*
70107 GTATCGATATATTGAAAAAT
1 GTATCGATACATTG-AAAAT
70127 GTATCGATACAT
1 GTATCGATACAT
70139 CTGGGTAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 40 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.33
Consensus pattern (19 bp):
GTATCGATACATTGAAAAT
Found at i:71578 original size:3 final size:3
Alignment explanation
Indices: 71570--71600 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
71560 TGAAGAGGAA
71570 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
71601 GTGACTCAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:73533 original size:22 final size:21
Alignment explanation
Indices: 73440--73538 Score: 69
Period size: 22 Copynumber: 4.5 Consensus size: 21
73430 TCTATAAAGT
*
73440 TTTTTATTTAAAATTTTTAAA
1 TTTTTATTTAAAAATTTTAAA
73461 TTATTT-TTTAAAAAATTTT--A
1 TT-TTTATTT-AAAAATTTTAAA
* * *
73481 TTTTTTTGTTAATTTACTTTTGAAA
1 TTTTTAT-TTAA--AAATTTT-AAA
*
73506 ATTTTATTTAAAAATTTTAAA
1 TTTTTATTTAAAAATTTTAAA
73527 TTATTTATTTAA
1 TT-TTTATTTAA
73539 TATAATAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
19 3 0.05
20 6 0.10
21 11 0.18
22 30 0.50
24 4 0.07
25 6 0.10
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTATTTAAAAATTTTAAA
Found at i:73568 original size:22 final size:21
Alignment explanation
Indices: 73529--73572 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
73519 ATTTTAAATT
*
73529 ATTTATTTAATATAATAAATAA
1 ATTTATGTAATATAAT-AATAA
* *
73551 ATTTATGTAATTTTATAATAA
1 ATTTATGTAATATAATAATAA
73572 A
1 A
73573 ATTACATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
ATTTATGTAATATAATAATAA
Found at i:74412 original size:3 final size:3
Alignment explanation
Indices: 74404--74435 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
74394 AATGTTGCCC
74404 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
74436 GTTGTTGTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:74440 original size:3 final size:3
Alignment explanation
Indices: 74434--74482 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
74424 ATTATTATTA
74434 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
74482 T
1 T
74483 GGATTGCAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:74854 original size:24 final size:25
Alignment explanation
Indices: 74824--74871 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
74814 AAGATATCAC
74824 CATCTAAA-ACATAAAAAAACTAAT
1 CATCTAAATACATAAAAAAACTAAT
*
74848 CATCTAAATACATAGAAAAACTAA
1 CATCTAAATACATAAAAAAACTAA
74872 AAATAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.60, C:0.17, G:0.02, T:0.21
Consensus pattern (25 bp):
CATCTAAATACATAAAAAAACTAAT
Found at i:84575 original size:3 final size:3
Alignment explanation
Indices: 84567--84601 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
84557 GGGTTTGGTC
84567 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
84602 TAGATTTGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:86799 original size:36 final size:32
Alignment explanation
Indices: 86717--86813 Score: 92
Period size: 36 Copynumber: 3.0 Consensus size: 32
86707 CTTACAATAC
86717 TATC-TTTC-AAGGCTAAGATAGAAACCTC-CT
1 TATCTTTTCAAAGGCTAAGATAG-AACCTCTCT
**
86747 TATCTTTTCACGGGCTAAGATAGAACCTCTCT
1 TATCTTTTCAAAGGCTAAGATAGAACCTCTCT
* *
86779 CCCTATCTTTTTCAAAGGCTAAAATAGAACTTCTC
1 ---TATC-TTTTCAAAGGCTAAGATAGAACCTCTC
86814 AATCACTTAG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
30 4 0.07
31 10 0.19
32 13 0.24
35 4 0.07
36 23 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (32 bp):
TATCTTTTCAAAGGCTAAGATAGAACCTCTCT
Found at i:87401 original size:19 final size:20
Alignment explanation
Indices: 87356--87426 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
87346 CTGCCAGTTT
*
87356 TATGTATCGATA-CAATTC-A
1 TATGTATCGATACCAA-GCAA
87375 TGATGTATCGATACCAAG-AA
1 T-ATGTATCGATACCAAGCAA
*
87395 TATGTATCGATACTAAGCAA
1 TATGTATCGATACCAAGCAA
87415 TATGTATCGATA
1 TATGTATCGATA
87427 TATCTGGGTG
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
19 16 0.35
20 27 0.59
21 3 0.07
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (20 bp):
TATGTATCGATACCAAGCAA
Found at i:88414 original size:20 final size:20
Alignment explanation
Indices: 88368--88416 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
88358 TCAACCAAGC
*
88368 ATCGATACATGAGGAATTAT
1 ATCGATACATGAGGAAATAT
* *
88388 ATTGATACATG-GGACAATGT
1 ATCGATACATGAGGA-AATAT
88408 ATCGATACA
1 ATCGATACA
88417 ATTCCTCATG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (20 bp):
ATCGATACATGAGGAAATAT
Found at i:89005 original size:13 final size:13
Alignment explanation
Indices: 88981--89018 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
88971 ATACTAAAGT
88981 AATGTATTGATAC
1 AATGTATTGATAC
* *
88994 ATTGTATCGATAC
1 AATGTATTGATAC
89007 AATGTATTGATA
1 AATGTATTGATA
89019 TAAATTTCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (13 bp):
AATGTATTGATAC
Found at i:90546 original size:21 final size:21
Alignment explanation
Indices: 90522--90561 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
90512 CTTATTTCTT
90522 TTCTCCTCTAATTCATTTATG
1 TTCTCCTCTAATTCATTTATG
**
90543 TTCTTTTCTAATTCATTTA
1 TTCTCCTCTAATTCATTTA
90562 ATTTCTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (21 bp):
TTCTCCTCTAATTCATTTATG
Found at i:90567 original size:21 final size:21
Alignment explanation
Indices: 90528--90571 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
90518 TCTTTTCTCC
90528 TCTAATTCATTTATGTTCTTT
1 TCTAATTCATTTATGTTCTTT
90549 TCTAATTCATTTAAT-TTCTTT
1 TCTAATTCATTT-ATGTTCTTT
90570 TC
1 TC
90572 AAGAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.20, C:0.16, G:0.02, T:0.61
Consensus pattern (21 bp):
TCTAATTCATTTATGTTCTTT
Found at i:92708 original size:26 final size:26
Alignment explanation
Indices: 92672--92725 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
92662 ATGTATCGAT
*
92672 ACTATTCATAGTGTATCGATACATGA
1 ACTATTAATAGTGTATCGATACATGA
*
92698 ACTATTAATAGTGTATTGATACATGA
1 ACTATTAATAGTGTATCGATACATGA
92724 AC
1 AC
92726 AGTGATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (26 bp):
ACTATTAATAGTGTATCGATACATGA
Found at i:92905 original size:17 final size:18
Alignment explanation
Indices: 92883--92920 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
92873 TACTATCAAT
92883 TTTATG-TATCGATACAA
1 TTTATGATATCGATACAA
92900 TTTATGATATATCGATACAA
1 TTTATG--ATATCGATACAA
92920 T
1 T
92921 CTATCGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.33
20 12 0.67
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (18 bp):
TTTATGATATCGATACAA
Found at i:93998 original size:2 final size:2
Alignment explanation
Indices: 93991--94023 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
93981 ATAAATCTTA
93991 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94024 GCACTACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:95347 original size:21 final size:21
Alignment explanation
Indices: 95303--95347 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
95293 ATAAATTAAA
* * **
95303 AAATTTATTTTATTTAAATTT
1 AAATTTAATATATTTAAAAGT
95324 AAATTTAATATATTTAAAAGT
1 AAATTTAATATATTTAAAAGT
95345 AAA
1 AAA
95348 ACAAGCTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
AAATTTAATATATTTAAAAGT
Found at i:95842 original size:36 final size:35
Alignment explanation
Indices: 95787--95887 Score: 107
Period size: 36 Copynumber: 2.9 Consensus size: 35
95777 AGATCAGCAT
* * *
95787 AAATCACAGATTTTCTAAGAATCTTAGATTTTTTAA
1 AAATCATAAATTTT-TAAGAATCTTAGATTTTCTAA
* **
95823 GAATCATTAAATTTTTAAGAATCACAGATTTTCTAA
1 AAATCA-TAAATTTTTAAGAATCTTAGATTTTCTAA
95859 AAATCATAAATTTTT--GTAATCTTAGATTT
1 AAATCATAAATTTTTAAG-AATCTTAGATTT
95888 CCAACCCTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
33 1 0.02
34 10 0.19
35 9 0.17
36 28 0.52
37 6 0.11
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.43
Consensus pattern (35 bp):
AAATCATAAATTTTTAAGAATCTTAGATTTTCTAA
Found at i:95864 original size:18 final size:18
Alignment explanation
Indices: 95788--95864 Score: 84
Period size: 18 Copynumber: 4.3 Consensus size: 18
95778 GATCAGCATA
95788 AATCACAGATTTTCTAAG
1 AATCACAGATTTTCTAAG
** *
95806 AATCTTAGATTTTTTAAG
1 AATCACAGATTTTCTAAG
* *
95824 AATCATTAAATTTT-TAAG
1 AATCA-CAGATTTTCTAAG
*
95842 AATCACAGATTTTCTAAA
1 AATCACAGATTTTCTAAG
95860 AATCA
1 AATCA
95865 TAAATTTTTG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
17 6 0.12
18 36 0.73
19 7 0.14
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.39
Consensus pattern (18 bp):
AATCACAGATTTTCTAAG
Found at i:95871 original size:18 final size:18
Alignment explanation
Indices: 95796--95872 Score: 84
Period size: 18 Copynumber: 4.3 Consensus size: 18
95786 TAAATCACAG
* *
95796 ATTTTCTAAGAATCTTAG
1 ATTTTCTAAGAATCATAA
*
95814 ATTTTTTAAGAATCATTAA
1 ATTTTCTAAGAATCA-TAA
* *
95833 ATTTT-TAAGAATCACAG
1 ATTTTCTAAGAATCATAA
*
95850 ATTTTCTAAAAATCATAA
1 ATTTTCTAAGAATCATAA
95868 ATTTT
1 ATTTT
95873 TGTAATCTTA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
17 6 0.12
18 36 0.73
19 7 0.14
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.44
Consensus pattern (18 bp):
ATTTTCTAAGAATCATAA
Found at i:98722 original size:36 final size:36
Alignment explanation
Indices: 98680--98786 Score: 126
Period size: 36 Copynumber: 3.0 Consensus size: 36
98670 TCACAGATTT
* * *
98680 TAAGAATTACAAATTTTCTAAGAATCTTAGATTTTC
1 TAAGAATCACAGATTTTTTAAGAATCTTAGATTTTC
**
98716 TAAGAATCACAGATTTTTTAAGAATCATTTTA-TTTC
1 TAAGAATCACAGATTTTTTAAGAATC-TTAGATTTTC
* * *
98752 TAAGAATCATAGATTTTTTAAAAATCATAGATTTT
1 TAAGAATCACAGATTTTTTAAGAATCTTAGATTTT
98787 TGTAATTTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
35 2 0.03
36 54 0.92
37 3 0.05
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.43
Consensus pattern (36 bp):
TAAGAATCACAGATTTTTTAAGAATCTTAGATTTTC
Found at i:98741 original size:18 final size:18
Alignment explanation
Indices: 98668--98787 Score: 95
Period size: 18 Copynumber: 6.8 Consensus size: 18
98658 AATCAGCATA
98668 AATCACAGA--TTTTAAG
1 AATCACAGATTTTTTAAG
* * *
98684 AATTACAAATTTTCTAAG
1 AATCACAGATTTTTTAAG
** *
98702 AATCTTAGATTTTCTAAG
1 AATCACAGATTTTTTAAG
98720 AATCACAGATTTTTTAAG
1 AATCACAGATTTTTTAAG
**
98738 AAT--CATTTTATTTCTAAG
1 AATCACAGATT-TTT-TAAG
* *
98756 AATCATAGATTTTTTAAA
1 AATCACAGATTTTTTAAG
*
98774 AATCATAGATTTTT
1 AATCACAGATTTTT
98788 GTAATTTTAG
Statistics
Matches: 82, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
16 11 0.13
17 3 0.04
18 62 0.76
19 3 0.04
20 3 0.04
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.42
Consensus pattern (18 bp):
AATCACAGATTTTTTAAG
Found at i:100630 original size:3 final size:3
Alignment explanation
Indices: 100562--100615 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
100552 GTTGTTGTTG
100562 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
100610 TTA TTA
1 TTA TTA
100616 AATTTATTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:100635 original size:17 final size:17
Alignment explanation
Indices: 100607--100666 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 17
100597 ATTATTATTA
100607 TTATTA-TTAAATTTAT
1 TTATTATTTAAATTTAT
100623 TTATTATTTAAA--TA-
1 TTATTATTTAAATTTAT
*
100637 TTATTATCTAAATTTAT
1 TTATTATTTAAATTTAT
* *
100654 ATATGATTTAAAT
1 TTATTATTTAAAT
100667 AATAATGTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 11 0.31
15 2 0.06
16 8 0.22
17 15 0.42
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
TTATTATTTAAATTTAT
Found at i:100663 original size:31 final size:30
Alignment explanation
Indices: 100605--100667 Score: 99
Period size: 31 Copynumber: 2.1 Consensus size: 30
100595 TTATTATTAT
* *
100605 TATTATTATTAAATTTATTTATTATTTAAA
1 TATTATTATTAAATTTATATATGATTTAAA
100635 TATTATTATCTAAATTTATATATGATTTAAA
1 TATTATTAT-TAAATTTATATATGATTTAAA
100666 TA
1 TA
100668 ATAATGTTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (30 bp):
TATTATTATTAAATTTATATATGATTTAAA
Found at i:100742 original size:14 final size:15
Alignment explanation
Indices: 100725--100753 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
100715 ATTTTATTTT
100725 TAAAATTAAA-AATA
1 TAAAATTAAATAATA
100739 TAAAATTAAATAATA
1 TAAAATTAAATAATA
100754 ATTAAATTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAATTAAATAATA
Found at i:101625 original size:18 final size:19
Alignment explanation
Indices: 101591--101630 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
101581 GTTTATAATC
*
101591 TTTTAAATATATAAAAAAA
1 TTTTAAAAATATAAAAAAA
*
101610 TTTTAAAAAT-TAAAAATA
1 TTTTAAAAATATAAAAAAA
101628 TTT
1 TTT
101631 ATATTATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTTAAAAATATAAAAAAA
Found at i:102165 original size:16 final size:16
Alignment explanation
Indices: 102141--102194 Score: 67
Period size: 16 Copynumber: 3.3 Consensus size: 16
102131 TTTAAAATAC
102141 TTTATATTTATATAAAA
1 TTTA-ATTTATATAAAA
102158 TTTAATTTAT-TAATAA
1 TTTAATTTATATAA-AA
102174 TTT-ATATTATATAAAA
1 TTTAAT-TTATATAAAA
102190 TTTAA
1 TTTAA
102195 AATATTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.15
16 20 0.61
17 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTAATTTATATAAAA
Found at i:102166 original size:32 final size:32
Alignment explanation
Indices: 102121--102194 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 32
102111 TTTTTAATAT
*
102121 TAAAA-TTATATTTA-AAATACTTTATATTTATA
1 TAAAATTTA-ATTTATAAATAATTTATA-TTATA
*
102153 TAAAATTTAATTTATTAATAATTTATATTATA
1 TAAAATTTAATTTATAAATAATTTATATTATA
102185 TAAAATTTAA
1 TAAAATTTAA
102195 AATATTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
32 25 0.66
33 13 0.34
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (32 bp):
TAAAATTTAATTTATAAATAATTTATATTATA
Found at i:109032 original size:2 final size:2
Alignment explanation
Indices: 109025--109068 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
109015 GCCAGGTTAT
*
109025 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GG GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
109067 GA
1 GA
109069 AATCCTCTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:117433 original size:44 final size:45
Alignment explanation
Indices: 117369--117454 Score: 122
Period size: 44 Copynumber: 1.9 Consensus size: 45
117359 ATTTAACATA
*
117369 ATAAGAGTATCACAAATACAAATAGAAA-AGAATTTAAAATTCAAC
1 ATAAGAGTACCACAAATACAAATAGAAATA-AATTTAAAATTCAAC
* *
117414 ATAA-AGTACCACGAATACAAATAGAAATAAATTTGAAATTC
1 ATAAGAGTACCACAAATACAAATAGAAATAAATTTAAAATTC
117455 TGAATTTGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 32 0.86
45 5 0.14
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.23
Consensus pattern (45 bp):
ATAAGAGTACCACAAATACAAATAGAAATAAATTTAAAATTCAAC
Found at i:120149 original size:99 final size:100
Alignment explanation
Indices: 120034--120224 Score: 321
Period size: 99 Copynumber: 1.9 Consensus size: 100
120024 TGACATGTGA
* * *
120034 TAGTTTTTTAATTCAACTTGTGAAGTTAAAAAACTCAACCGTTGATGTACCAAATAATTATTTAT
1 TAGTTTTTTAACTCAACTTGTGAAGTTAAAAAACTCAACCGTCGATGTACCAAATAATTATCTAT
*
120099 TATATTAATACTTCATCTTTT-ATTTGATATATGG
66 TATATAAATACTTCATCTTTTAATTTGATATATGG
*
120133 TAGTTTTTTAACTCAACTTGTGAAGTTAAAAAACTCAACCGTCGGTGTACCAAATAATTATCTAT
1 TAGTTTTTTAACTCAACTTGTGAAGTTAAAAAACTCAACCGTCGATGTACCAAATAATTATCTAT
*
120198 TATATAAATACTTTATCTTTTAATTTG
66 TATATAAATACTTCATCTTTTAATTTG
120225 TTTCTAAAAT
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 80 0.94
100 5 0.06
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.43
Consensus pattern (100 bp):
TAGTTTTTTAACTCAACTTGTGAAGTTAAAAAACTCAACCGTCGATGTACCAAATAATTATCTAT
TATATAAATACTTCATCTTTTAATTTGATATATGG
Found at i:121073 original size:32 final size:31
Alignment explanation
Indices: 121031--121094 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
121021 AATAAGTCAC
**
121031 CTCGACATAAATTCACTTTCGCATAATTTTA
1 CTCGACATAAATTCACTTTAACATAATTTTA
121062 CTCGACAATAAATTCACTTTAACATAATTTTA
1 CTCGAC-ATAAATTCACTTTAACATAATTTTA
121094 C
1 C
121095 ACCTCTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 6 0.20
32 24 0.80
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.38
Consensus pattern (31 bp):
CTCGACATAAATTCACTTTAACATAATTTTA
Found at i:122124 original size:20 final size:20
Alignment explanation
Indices: 122075--122131 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
122065 TTTTTTAAAT
* *
122075 ATAATTATAATA-TAAA-AG
1 ATAATTTTAATATTAAATAA
* *
122093 ATAATATAAATATTAAATAA
1 ATAATTTTAATATTAAATAA
122113 ATAATTTTAATATTAAATA
1 ATAATTTTAATATTAAATA
122132 TATACCTAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 9 0.29
19 4 0.13
20 18 0.58
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
ATAATTTTAATATTAAATAA
Found at i:122252 original size:19 final size:18
Alignment explanation
Indices: 122227--122279 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
122217 AAGAAAATAA
122227 AACTAATTTTTTATAGTTT
1 AACTAATTTTTTATA-TTT
*
122246 TACTAATTTTTAATATATTT
1 AACTAATTTTT--TATATTT
*
122266 AATTAATTTTTTAT
1 AACTAATTTTTTAT
122280 TAATTAGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 3 0.10
19 10 0.34
20 12 0.41
21 4 0.14
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (18 bp):
AACTAATTTTTTATATTT
Found at i:123379 original size:34 final size:32
Alignment explanation
Indices: 123329--123391 Score: 90
Period size: 34 Copynumber: 1.9 Consensus size: 32
123319 TTTAAATTTT
123329 ATTTTATTATTTATAATAATATTAAAATATTA
1 ATTTTATTATTTATAATAATATTAAAATATTA
* *
123361 ATTTTATATATTTTATAATTATATTTAAATA
1 ATTTTAT-TA-TTTATAATAATATTAAAATA
123392 AAAATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 7 0.26
33 2 0.07
34 18 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
ATTTTATTATTTATAATAATATTAAAATATTA
Done.