Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1373
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: 199800
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
File 1 of 2
Found at i:2766 original size:22 final size:22
Alignment explanation
Indices: 2741--2792 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
2731 GATGGTTACT
*
2741 GAGCTGCTGGAGGCTGCTGTTG
1 GAGCTGCTGGAGGCTGCTGTGG
* *
2763 GAGCTACTGGAGGTTGCTGTGG
1 GAGCTGCTGGAGGCTGCTGTGG
2785 GAGCTGCT
1 GAGCTGCT
2793 AAAGCTGTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.12, C:0.17, G:0.44, T:0.27
Consensus pattern (22 bp):
GAGCTGCTGGAGGCTGCTGTGG
Found at i:2871 original size:40 final size:40
Alignment explanation
Indices: 2825--2946 Score: 138
Period size: 40 Copynumber: 3.0 Consensus size: 40
2815 GCTGCAGAGT
* *
2825 TGCTCGTGGTTGCTGACCTGCTGGA-AGCTGCTGTGGGAGC
1 TGCTCGTGGTTGCTGAGCTGCTGGAGA-CTGCCGTGGGAGC
**
2865 TGCTCGTGGTTGCTGAGCTATTGGAGACTGCCGTGGGAGC
1 TGCTCGTGGTTGCTGAGCTGCTGGAGACTGCCGTGGGAGC
* * * * **
2905 TACTGGTGGTTGCTGAGCTGCTAGAGGCTATCGTGGGAGC
1 TGCTCGTGGTTGCTGAGCTGCTGGAGACTGCCGTGGGAGC
2945 TG
1 TG
2947 TTGGAAGTTA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 67 0.99
41 1 0.01
ACGTcount: A:0.12, C:0.20, G:0.40, T:0.28
Consensus pattern (40 bp):
TGCTCGTGGTTGCTGAGCTGCTGGAGACTGCCGTGGGAGC
Found at i:3167 original size:45 final size:45
Alignment explanation
Indices: 3118--3242 Score: 189
Period size: 45 Copynumber: 2.8 Consensus size: 45
3108 CCCCCTTTAA
* *
3118 CTTGTTGCTTTGTTGTTCCACTTTACTTTGTCTTCCACTTTTTTC
1 CTTGTTGCTTTGTTGTTCCACTTTGCTTTGTCTTCCACTTTCTTC
*
3163 CTTGTTGCTTTGTTGTTCCACTTTGCTTTTTCTTCCACTTTCTTC
1 CTTGTTGCTTTGTTGTTCCACTTTGCTTTGTCTTCCACTTTCTTC
* *
3208 ATTGTTGCTTTGCTGTTCCA-TGTTGCTTTGTCTTC
1 CTTGTTGCTTTGTTGTTCCACT-TTGCTTTGTCTTC
3243 ATCATTGCTG
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
44 1 0.01
45 72 0.99
ACGTcount: A:0.06, C:0.24, G:0.14, T:0.57
Consensus pattern (45 bp):
CTTGTTGCTTTGTTGTTCCACTTTGCTTTGTCTTCCACTTTCTTC
Found at i:3200 original size:17 final size:18
Alignment explanation
Indices: 3167--3203 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
3157 TTTTTCCTTG
*
3167 TTGCTTTGTTGTTCCACT
1 TTGCTTTGTTCTTCCACT
3185 TTGCTTT-TTCTTCCACT
1 TTGCTTTGTTCTTCCACT
3202 TT
1 TT
3204 CTTCATTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.05, C:0.24, G:0.11, T:0.59
Consensus pattern (18 bp):
TTGCTTTGTTCTTCCACT
Found at i:3557 original size:55 final size:57
Alignment explanation
Indices: 3478--3584 Score: 164
Period size: 55 Copynumber: 1.9 Consensus size: 57
3468 AGATAAACAT
* *
3478 ATGAAATGCGTGTTTGCATAAAATGAACATATGCATGCATGAAACAAGAAAGTGAGC
1 ATGAAATGCGTGTATGCATAAAATGAACATACGCATGCATGAAACAAGAAAGTGAGC
* *
3535 ATGAAATGC-T-TATGCATGAAATGAACATACGCATGCATGAAACATGAAAG
1 ATGAAATGCGTGTATGCATAAAATGAACATACGCATGCATGAAACAAGAAAG
3585 AAAAAAAAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
55 36 0.78
56 1 0.02
57 9 0.20
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.22
Consensus pattern (57 bp):
ATGAAATGCGTGTATGCATAAAATGAACATACGCATGCATGAAACAAGAAAGTGAGC
Found at i:3705 original size:23 final size:23
Alignment explanation
Indices: 3655--3707 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
3645 ATGCTTTCAC
*
3655 ATTTTTTTGAATTTTTTATTTTC
1 ATTTTTTTGAATTTTTTATTTTA
* *
3678 TTTTTTTTGGATTTTATT-TTTTA
1 ATTTTTTTGAATTTT-TTATTTTA
3701 ATTTTTT
1 ATTTTTT
3708 AAATATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (23 bp):
ATTTTTTTGAATTTTTTATTTTA
Found at i:4470 original size:48 final size:48
Alignment explanation
Indices: 4414--4506 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
4404 CAAAGTTATT
*
4414 TAGGAAAGACCTTCTTATTGGATTACCTAAGGTCAAATTTAATTGTGA
1 TAGGAAAGACCTTCTTATTAGATTACCTAAGGTCAAATTTAATTGTGA
* *
4462 TAGGAAAGACCTTGTTATTAGATTACCTAAGGTCAAATTTGATTG
1 TAGGAAAGACCTTCTTATTAGATTACCTAAGGTCAAATTTAATTG
4507 CTATAAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (48 bp):
TAGGAAAGACCTTCTTATTAGATTACCTAAGGTCAAATTTAATTGTGA
Found at i:10983 original size:13 final size:14
Alignment explanation
Indices: 10965--11002 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
10955 CAATGTTTTA
*
10965 AGTATCAATACA-T
1 AGTATCGATACACT
10978 AGTATCGATACACT
1 AGTATCGATACACT
10992 -GTATCGATACA
1 AGTATCGATACA
11003 AGGTTACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 22 0.96
14 1 0.04
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (14 bp):
AGTATCGATACACT
Found at i:13969 original size:13 final size:13
Alignment explanation
Indices: 13948--13978 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13938 CGATACATGG
*
13948 TACAATGTATCGA
1 TACATTGTATCGA
13961 TACATTGTATCGA
1 TACATTGTATCGA
13974 TACAT
1 TACAT
13979 GAAGAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:13992 original size:33 final size:33
Alignment explanation
Indices: 13932--13998 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
13922 CTATCACTAT
*
13932 TTGTATCGATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGGTACAATATATCGATACA
13965 TTGTATCGATACATGAAG-A-AATATATCGATACA
1 TTGTATCGATACATG--GTACAATATATCGATACA
13998 T
1 T
13999 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATGGTACAATATATCGATACA
Found at i:20176 original size:13 final size:13
Alignment explanation
Indices: 20158--20186 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
20148 ACAACATTTC
20158 TTGTATCGATACA
1 TTGTATCGATACA
20171 TTGTATCGATACA
1 TTGTATCGATACA
20184 TTG
1 TTG
20187 GGTACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:21589 original size:13 final size:13
Alignment explanation
Indices: 21571--21596 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21561 TATAGCAAGT
21571 ATGTATCGATACA
1 ATGTATCGATACA
21584 ATGTATCGATACA
1 ATGTATCGATACA
21597 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:25683 original size:15 final size:15
Alignment explanation
Indices: 25663--25693 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25653 TAAAAATGTC
*
25663 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
25678 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
25693 C
1 C
25694 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:27789 original size:13 final size:13
Alignment explanation
Indices: 27771--27796 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27761 ACATTTTTCT
27771 TTGTATCGATACA
1 TTGTATCGATACA
27784 TTGTATCGATACA
1 TTGTATCGATACA
27797 GGGTGATTAT
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):
TTGTATCGATACA
Found at i:27960 original size:20 final size:20
Alignment explanation
Indices: 27917--27962 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
27907 AAATATTTTG
27917 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
27938 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
27958 CAAAA
1 CAAAA
27963 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:30365 original size:13 final size:13
Alignment explanation
Indices: 30347--30372 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30337 TACAGCAAGT
30347 ATGTATCGATACA
1 ATGTATCGATACA
30360 ATGTATCGATACA
1 ATGTATCGATACA
30373 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:31754 original size:13 final size:13
Alignment explanation
Indices: 31736--31760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31726 CATAAAGTGT
31736 TGTATCGATACAA
1 TGTATCGATACAA
31749 TGTATCGATACA
1 TGTATCGATACA
31761 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:31841 original size:13 final size:13
Alignment explanation
Indices: 31823--31847 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31813 ATTACTCAAA
31823 TGTATCGATACAT
1 TGTATCGATACAT
31836 TGTATCGATACA
1 TGTATCGATACA
31848 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:31912 original size:52 final size:52
Alignment explanation
Indices: 31856--31984 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
31846 CACTGATCTT
*
31856 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* * *
31908 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTGTTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
*
31960 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
31985 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:35663 original size:15 final size:17
Alignment explanation
Indices: 35632--35665 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
35622 GGGAGAAGAT
35632 AATTGTTTAAGGGGGAG
1 AATTGTTTAAGGGGGAG
35649 AATT-TTTAA-GGGGAG
1 AATTGTTTAAGGGGGAG
35664 AA
1 AA
35666 AAATGAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 5 0.29
17 4 0.24
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (17 bp):
AATTGTTTAAGGGGGAG
Found at i:36306 original size:13 final size:13
Alignment explanation
Indices: 36285--36315 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
36275 CGATACATGG
*
36285 TACAATGTATCGA
1 TACATTGTATCGA
36298 TACATTGTATCGA
1 TACATTGTATCGA
36311 TACAT
1 TACAT
36316 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:36311 original size:33 final size:32
Alignment explanation
Indices: 36269--36335 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 32
36259 CTACCACTAT
36269 TTGTATCGATACATG-GTACAATGTATCGATACA
1 TTGTATCGATACATGAG-A-AATGTATCGATACA
36302 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATG-AGAAATGTATCGATACA
36335 T
1 T
36336 AGCTTGTAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (32 bp):
TTGTATCGATACATGAGAAATGTATCGATACA
Found at i:47907 original size:21 final size:21
Alignment explanation
Indices: 47883--47931 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
47873 TTGCAAGTTG
*
47883 AAATAAAGAATTGGCTAATG-A
1 AAATAAAGAATTAGCTAA-GAA
* *
47904 AAATAATGAGTTAGCTAAGAA
1 AAATAAAGAATTAGCTAAGAA
47925 AAATAAA
1 AAATAAA
47932 AACTTGCATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.57, C:0.04, G:0.16, T:0.22
Consensus pattern (21 bp):
AAATAAAGAATTAGCTAAGAA
Found at i:48544 original size:13 final size:13
Alignment explanation
Indices: 48526--48552 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48516 CTCTTCATTT
48526 TGTATTGAAAATG
1 TGTATTGAAAATG
48539 TGTATTGAAAATG
1 TGTATTGAAAATG
48552 T
1 T
48553 CTTATATGTC
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:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (13 bp):
TGTATTGAAAATG
Found at i:49761 original size:15 final size:15
Alignment explanation
Indices: 49741--49771 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49731 TAAAAATGTC
*
49741 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
49756 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
49771 C
1 C
49772 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:51871 original size:13 final size:13
Alignment explanation
Indices: 51853--51877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51843 CATTTTTCTT
51853 TGTATCGATACAA
1 TGTATCGATACAA
51866 TGTATCGATACA
1 TGTATCGATACA
51878 GGGGGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:52032 original size:20 final size:20
Alignment explanation
Indices: 51989--52034 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
51979 AAATCTTTTG
51989 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
52010 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
52030 CAAAA
1 CAAAA
52035 ACAAGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:54390 original size:13 final size:13
Alignment explanation
Indices: 54372--54397 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54362 TACATCAAAT
54372 ATGTATCGATACA
1 ATGTATCGATACA
54385 ATGTATCGATACA
1 ATGTATCGATACA
54398 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:54395 original size:32 final size:33
Alignment explanation
Indices: 54354--54417 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
54344 TAGCCAAACT
*
54354 TGTATCGATACATC-AAATA-TGTATCGATACAA
1 TGTATCGATACA-CAAAAAATTGTATCGATACAA
54386 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
54418 TTGGCTAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 16 0.55
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:54435 original size:10 final size:10
Alignment explanation
Indices: 54420--54444 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
54410 TCGATACATT
54420 GGCTAGTAAC
1 GGCTAGTAAC
54430 GGCTAGTAAC
1 GGCTAGTAAC
54440 GGCTA
1 GGCTA
54445 TATTTTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.20, G:0.32, T:0.20
Consensus pattern (10 bp):
GGCTAGTAAC
Found at i:60273 original size:11 final size:11
Alignment explanation
Indices: 60257--60296 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
60247 TTACACCCAT
60257 AAAAAAACAAA
1 AAAAAAACAAA
60268 AAAAAAACAAGA
1 AAAAAAACAA-A
60280 TAAAAATAACAAA
1 -AAAAA-AACAAA
60293 AAAA
1 AAAA
60297 TAGAAAGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.38
12 5 0.19
13 6 0.23
14 5 0.19
ACGTcount: A:0.85, C:0.07, G:0.03, T:0.05
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:61548 original size:28 final size:29
Alignment explanation
Indices: 61512--62038 Score: 727
Period size: 28 Copynumber: 18.4 Consensus size: 29
61502 CGCTCATCTC
61512 TTCAAAGCCCACAAGTCAGTGGCACTC-T
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
61540 TTCAAAGCCTACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
61569 TTCAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
61597 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
61626 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
61654 TTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
61683 TTCAAAGCCCACAAGTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
61711 TTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
61739 TTCAAAGCCCACAAGTCAGTGACAC-CTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * *
61767 TTCAAAGCCTATGCAATTTAGTGGCAC-CCT
1 TTCAAAGCCCA--CAAGTCAGTGGCACTCTT
* * *
61797 TTCAAAGCCCACAAATCAGTGACAATCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
61826 TTCAATGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
61854 TTCAAAGCCCACAAGTTAGTGGCACTATT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
61883 TTCAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
61911 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
61939 TTCAAAGCCCACAAGTCAGTGGCAC-CTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
61967 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTCTT
*
61996 TTCAAAGCCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTC-AGTGG-CACTCTT
62026 TTCAAAGCCCACA
1 TTCAAAGCCCACA
62039 CAAGTTAATG
Statistics
Matches: 448, Mismatches: 38, Indels: 24
0.88 0.07 0.05
Matches are distributed among these distances:
28 257 0.57
29 149 0.33
30 42 0.09
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (29 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:61600 original size:57 final size:57
Alignment explanation
Indices: 61512--62038 Score: 685
Period size: 57 Copynumber: 9.2 Consensus size: 57
61502 CGCTCATCTC
*
61512 TTCAAAGCCCACAAGTCAGTGGCA-CTCTTTCAAAGCCTACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCACTCTT
*
61569 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
61626 TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * *
61683 TTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* * * * *
61739 TTCAAAGCCCACAAGTCAGTGACA-CCTTTTCAAAGCCTATGCAATTTAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCA--CAAGTCAGTGGCACTCTT
* * * * *
61797 TTCAAAGCCCACAAATCAGTGACAATCTTTTCAATGCCCACAAGTCAGTGGCAC-CCT
1 TTCAAAGCCCACAAGTCAGTGGC-ATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
* ** * *
61854 TTCAAAGCCCACAAGTTAGTGGCACTATTTTCAAAGCCCACAAGTTAGTGGCA-TCCT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
61911 TTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCAC-CTT
1 TTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCACTCTT
* *
61967 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAG-CTAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTC-AGTGG-CACTCTT
62026 TTCAAAGCCCACA
1 TTCAAAGCCCACA
62039 CAAGTTAATG
Statistics
Matches: 422, Mismatches: 32, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
55 2 0.00
56 88 0.21
57 264 0.63
58 40 0.09
59 27 0.06
60 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCACTCTT
Found at i:61657 original size:85 final size:84
Alignment explanation
Indices: 61512--62038 Score: 666
Period size: 85 Copynumber: 6.2 Consensus size: 84
61502 CGCTCATCTC
* *
61512 TTCAAAGCCCACAAGTCAGTGGCA-CTCTTTCAAAGCCTACAAGTCAGTGGCACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAG
*
61576 CCCACAAGTTAGTGGCATCCT
64 CCCACAAGTCAGTGGCATCCT
61597 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
* *
61662 CCACAAGTTAGTGGCACTCTT
65 CCACAAGTCAGTGGCA-TCCT
* * *
61683 TTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
*
61748 CACAAGTCAGTGACA-CCTT
66 CACAAGTCAGTGGCATCC-T
* * * * * * * * *
61767 TTCAAAGCCTATGCAATTTAGTGGCACCCTTTCAAAGCCCACAAATCAGTGACAATCTTTTCAAT
1 TTCAAAGCCCA--CAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGC-ACCCTTTCAAA
*
61832 GCCCACAAGTCAGTGGCACCCT
63 GCCCACAAGTCAGTGGCATCCT
* * * *
61854 TTCAAAGCCCACAAGTTAGTGGCACTATTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGC
61919 CCACAAGTCAGTGGCA-CCTT
65 CCACAAGTCAGTGGCATCC-T
*
61939 TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGC
* *
62004 CCACAAG-CTAGTGGTAACTCTT
65 CCACAAGTC-AGTGG-CA-TCCT
62026 TTCAAAGCCCACA
1 TTCAAAGCCCACA
62039 CAAGTTAATG
Statistics
Matches: 395, Mismatches: 32, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
83 1 0.00
84 39 0.10
85 188 0.48
86 111 0.28
87 53 0.13
88 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (84 bp):
TTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCC
CACAAGTCAGTGGCATCCT
Found at i:62789 original size:20 final size:20
Alignment explanation
Indices: 62766--62913 Score: 129
Period size: 20 Copynumber: 6.8 Consensus size: 20
62756 AAGTACCCAG
62766 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
62786 ATGTATCGATACATTCTGTCTTTTTACCCA
1 ATGTATCGATACA---T-TC---TT---CA
62816 GATGTATCGATACATTCTTCA
1 -ATGTATCGATACATTCTTCA
* *
62837 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
62857 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* *
62877 ATGTATCGATACATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
62897 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
62914 GTCTTTTTAC
Statistics
Matches: 106, Mismatches: 7, Indels: 30
0.74 0.05 0.21
Matches are distributed among these distances:
19 2 0.02
20 75 0.71
21 4 0.04
23 1 0.01
24 4 0.04
27 4 0.04
28 1 0.01
30 2 0.02
31 13 0.12
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:62872 original size:40 final size:40
Alignment explanation
Indices: 62817--62913 Score: 194
Period size: 40 Copynumber: 2.4 Consensus size: 40
62807 TTTTACCCAG
62817 ATGTATCGATACATTCTTCAATGTATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATGTATCGATACATGTATGA
62857 ATGTATCGATACATTCTTCAATGTATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATGTATCGATACATGTATGA
62897 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
62914 GTCTTTTTAC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (40 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATGTATGA
Found at i:68351 original size:176 final size:176
Alignment explanation
Indices: 68057--68412 Score: 685
Period size: 176 Copynumber: 2.0 Consensus size: 176
68047 CAAGTAGTAC
68057 AGAGTTTTCTTCAAAATCTTCTTCAGAATCAACTTCATCGATGCAAATTAACTATTCGATGTCAA
1 AGAGTTTTCTTCAAAATCTTCTTCAGAATCAACTTCATCGATGCAAATTAACTATTCGATGTCAA
68122 TCTTTAAAAGATCTTTGGAATCATCCATATCACTATTGTCAAGACACTTGAAAGGGGTGAAGAAA
66 TCTTTAAAAGATCTTTGGAATCATCCATATCACTATTGTCAAGACACTTGAAAGGGGTGAAGAAA
*
68187 TAGATATTGCAAAAGGCACATACAACCAAGGGGTTTGGATAGGAAT
131 TAGATATTGCAAAAGGCACATACAACCAAGGGATTTGGATAGGAAT
*
68233 AGAGTTTTCTTTAAAATCTTCTTCAGAATCAACTTCATCGATGCAAATTAACTATTCGATGTCAA
1 AGAGTTTTCTTCAAAATCTTCTTCAGAATCAACTTCATCGATGCAAATTAACTATTCGATGTCAA
*
68298 TCTTTAAAAGATCTTTGGAATCATCCATGTCACTATTGTCAAGACACTTGAAAGGGGTGAAGAAA
66 TCTTTAAAAGATCTTTGGAATCATCCATATCACTATTGTCAAGACACTTGAAAGGGGTGAAGAAA
68363 TAGATATTGCAAAAGGCACATACAACCAAGGGATTTGGATAGGAAT
131 TAGATATTGCAAAAGGCACATACAACCAAGGGATTTGGATAGGAAT
68409 AGAG
1 AGAG
68413 GCAAAAGATA
Statistics
Matches: 177, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
176 177 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (176 bp):
AGAGTTTTCTTCAAAATCTTCTTCAGAATCAACTTCATCGATGCAAATTAACTATTCGATGTCAA
TCTTTAAAAGATCTTTGGAATCATCCATATCACTATTGTCAAGACACTTGAAAGGGGTGAAGAAA
TAGATATTGCAAAAGGCACATACAACCAAGGGATTTGGATAGGAAT
Found at i:70200 original size:20 final size:20
Alignment explanation
Indices: 70175--70249 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
70165 AAAAAGATAG
*
70175 AATGTATCAATACATTGAAA
1 AATGTATCGATACATTGAAA
* *
70195 AATGTATCGATACATTCATA
1 AATGTATCGATACATTGAAA
*
70215 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
70235 AATGTATCGATACAT
1 AATGTATCGATACAT
70250 CTGGATAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:70229 original size:91 final size:90
Alignment explanation
Indices: 70125--70321 Score: 232
Period size: 91 Copynumber: 2.2 Consensus size: 90
70115 TTTTAACTAG
** * * *
70125 ATGTATCGATACATCATTCAATATATCGATATATCTGGGTAAAAAGATAGAATGTATCAATACAT
1 ATGTATCGATACATCA-AAAATATATCGATACATCTGGATAAAAAGACAGAATGTATCAATACAT
* *
70190 TGAAAAATGTATCGATACATTCATAC
65 TGAAAAATGTATCGATACATTCAAAA
* * **
70216 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGATAAAAAGACAGAATGTATGGATACAT
1 ATGTATCGATACA-TCAAAAATATATCGATACATCTGGATAAAAAGACAGAATGTATCAATACAT
* * * *
70281 TTATACATGTATCGATACATTGAAAA
65 TGAAAAATGTATCGATACATTCAAAA
*
70307 ATGTATCGATGCATC
1 ATGTATCGATACATC
70322 TAGGTAAAAA
Statistics
Matches: 88, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
90 1 0.01
91 85 0.97
92 2 0.02
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (90 bp):
ATGTATCGATACATCAAAAATATATCGATACATCTGGATAAAAAGACAGAATGTATCAATACATT
GAAAAATGTATCGATACATTCAAAA
Found at i:70310 original size:20 final size:20
Alignment explanation
Indices: 70266--70316 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
70256 AAAAAGACAG
* * *
70266 AATGTATGGATACATTTATA
1 AATGTATCGATACATTGAAA
*
70286 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
70306 AATGTATCGAT
1 AATGTATCGAT
70317 GCATCTAGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:70364 original size:20 final size:20
Alignment explanation
Indices: 70338--70393 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
70328 AAAAAGACAG
*
70338 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
70358 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
70378 AATGTATCGATGCATT
1 AATGTATCGATACATT
70394 TGGGTAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:70373 original size:72 final size:71
Alignment explanation
Indices: 70195--70403 Score: 348
Period size: 72 Copynumber: 2.9 Consensus size: 71
70185 TACATTGAAA
*
70195 AATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACATCTGG-ATAAA
1 AATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATGCATCTGGTA-AAA
70259 AAGACAG
65 AAGACAG
* *
70266 AATGTATGGATACATTTATACATGTATCGATACATTGAAAAATGTATCGATGCATCTAGGTAAAA
1 AATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATGCATCT-GGTAAAA
70331 AAGACAG
65 AAGACAG
*
70338 AATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATGCATTTGGGTAAAA
1 AATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATGCATCT-GGTAAAA
70403 A
65 A
70404 TGTGACTTTT
Statistics
Matches: 129, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
71 54 0.42
72 74 0.57
73 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (71 bp):
AATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATGCATCTGGTAAAAA
AGACAG
Found at i:71694 original size:113 final size:112
Alignment explanation
Indices: 71302--72082 Score: 904
Period size: 113 Copynumber: 6.9 Consensus size: 112
71292 TTTTAAAAAA
* * **
71302 AAAGG-TGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCAACTTGTGTGGGCTTTGAAA
1 AAAGGATGCCACTGAC-T-TGTGGGCTTTG-AAAG-GATGCCACTGAC-T-TGTGGGCTTTGAAA
** * * * *
71366 GGGTGCCACCGACTGGTGGGCTTTGAAAAGGTGCCACCGACTTATGGGCTTTG
60 GGGTGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTG
* * *
71419 AAA-GAGTGCCACCGACTTGTGGGCTCTGAAAAGG-TGCCACTAACTTGTGGGCTTTGAAAGGGT
1 AAAGGA-TGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGT
* * * *
71482 GCCACTGACTTGTGGGCTTTGAAAGGATGCCACCGATTTGTGTGGGCTTTG
64 GCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGA-CT-TGTGGGCTTTG
71533 AAAGGGTATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGT
1 AAA-GG-ATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGT
* * * *
71598 GCCACTAACTTGTGGTCTTTTGAAGAGATGCCACTGACTTCTAGGCTTTG
64 GCCACTAACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGCTTTG
* *
71648 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAGGGTGC
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGC
* * *
71713 CACTAACTTGTGGTCTTTTGAAGAGATGCCACTGACTTATGGGCTTTG
66 CACTAACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGCTTTG
* * * *
71761 AAAGGATGCCACTAACTCGTGGGCTTTGAAAGGATGCCACTGACTTATGGGCTTTGAAAGGATGC
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGC
* * * *
71826 CACTAACTTGTGGGCTTTGAAAAGGTACTACTAACTTGTGGGCTTTG
66 CACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTG
* * * *
71873 AAAGGGTGCCATTGACTTATGGGCTTTGAAAGGATGCCACTGACTTGTGGTCTTTTG-AAGAGGT
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGC-TTTGAAAG-GGT
* * *
71937 GCCACTGACTTGCGGGCTTTGAAAAGATGCCACTAACTTGTGGGCTTTG
64 GCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTG
* * * * * * * *
71986 AAAGGATGCCACTAATTTATGGGCTTTGAAAGGGTGCAACTGACTTGTGGGCTTCGAAAAGATGC
1 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGC
* * ** *
72051 CATTGACTTACGGGCTTTGAAAGGATGCCACT
66 CACTAACTTGTGGGCTTTGAAAAGATGCCACT
72083 AACCTGGAGG
Statistics
Matches: 588, Mismatches: 64, Indels: 29
0.86 0.09 0.04
Matches are distributed among these distances:
112 160 0.27
113 276 0.47
114 24 0.04
115 18 0.03
116 81 0.14
117 21 0.04
118 8 0.01
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (112 bp):
AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGC
CACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTG
Found at i:72096 original size:28 final size:28
Alignment explanation
Indices: 71302--72082 Score: 876
Period size: 28 Copynumber: 27.5 Consensus size: 28
71292 TTTTAAAAAA
*
71302 AAAGG-TGCCACTAACTTGTGTGGGCTTTG
1 AAAGGATGCCACTGAC-T-TGTGGGCTTTG
* **
71331 AAAAGAGTTGCCACCAACTTGTGTGGGCTTTG
1 -AAAG-GATGCCACTGAC-T-TGTGGGCTTTG
* * *
71363 AAAGGGTGCCACCGACTGGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
71391 AAAAGG-TGCCACCGACTTATGGGCTTTG
1 -AAAGGATGCCACTGACTTGTGGGCTTTG
* *
71419 AAA-GAGTGCCACCGACTTGTGGGCTCTG
1 AAAGGA-TGCCACTGACTTGTGGGCTTTG
*
71447 AAAAGG-TGCCACTAACTTGTGGGCTTTG
1 -AAAGGATGCCACTGACTTGTGGGCTTTG
*
71475 AAAGGGTGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
71503 AAAGGATGCCACCGATTTGTGTGGGCTTTG
1 AAAGGATGCCACTGA-CT-TGTGGGCTTTG
71533 AAAGGGTATGCCACTGACTTGTGGGCTTTG
1 AAA-GG-ATGCCACTGACTTGTGGGCTTTG
71563 AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
71591 AAAGGGTGCCACTAACTTGTGGTCTTTTG
1 AAAGGATGCCACTGACTTGTGGGC-TTTG
* *
71620 -AAGAGATGCCACTGACTTCTAGGCTTTG
1 AAAG-GATGCCACTGACTTGTGGGCTTTG
71648 AAAGGATGCCACTGACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* *
71676 AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
71704 AAAGGGTGCCACTAACTTGTGGTCTTTTG
1 AAAGGATGCCACTGACTTGTGGGC-TTTG
*
71733 -AAGAGATGCCACTGACTTATGGGCTTTG
1 AAAG-GATGCCACTGACTTGTGGGCTTTG
* *
71761 AAAGGATGCCACTAACTCGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
71789 AAAGGATGCCACTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
71817 AAAGGATGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
71845 AAAAGG-TACTACTAACTTGTGGGCTTTG
1 -AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
71873 AAAGGGTGCCATTGACTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
*
71901 AAAGGATGCCACTGACTTGTGGTCTTTTG
1 AAAGGATGCCACTGACTTGTGGGC-TTTG
*
71930 AAGAGG-TGCCACTGACTTGCGGGCTTTG
1 AA-AGGATGCCACTGACTTGTGGGCTTTG
* *
71958 AAAAGATGCCACTAACTTGTGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
71986 AAAGGATGCCACTAATTTATGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * *
72014 AAAGGGTGCAACTGACTTGTGGGCTTCG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
* * **
72042 AAAAGATGCCATTGACTTACGGGCTTTG
1 AAAGGATGCCACTGACTTGTGGGCTTTG
72070 AAAGGATGCCACT
1 AAAGGATGCCACT
72083 AACCTGGAGG
Statistics
Matches: 652, Mismatches: 76, Indels: 48
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.00
27 15 0.02
28 466 0.71
29 84 0.13
30 46 0.07
31 8 0.01
32 32 0.05
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (28 bp):
AAAGGATGCCACTGACTTGTGGGCTTTG
Found at i:73384 original size:10 final size:10
Alignment explanation
Indices: 73361--73471 Score: 84
Period size: 10 Copynumber: 10.5 Consensus size: 10
73351 TTTTTGTTTA
73361 TTTGTTTGTTT
1 TTTGTTT-TTT
73372 TTTGTTTTTT
1 TTTGTTTTTT
*
73382 TTT-ATTTTT
1 TTTGTTTTTT
73391 TTTGCTTTTGGTT
1 TTTG-TTTT--TT
73404 TTT-TCTATTTT
1 TTTGT-T-TTTT
73415 TTTGTTTTTTT
1 TTTG-TTTTTT
*
73426 TCTTGGGTTTTT
1 T-TT-GTTTTTT
73438 TTTG-TTTTT
1 TTTGTTTTTT
*
73447 TTTATTTTTT
1 TTTGTTTTTT
*
73457 TTGGTTTTTT
1 TTTGTTTTTT
73467 TTTGT
1 TTTGT
73472 ACGAAGGATG
Statistics
Matches: 82, Mismatches: 7, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
9 16 0.20
10 24 0.29
11 23 0.28
12 10 0.12
13 9 0.11
ACGTcount: A:0.03, C:0.03, G:0.13, T:0.82
Consensus pattern (10 bp):
TTTGTTTTTT
Found at i:73392 original size:19 final size:19
Alignment explanation
Indices: 73350--73469 Score: 91
Period size: 19 Copynumber: 5.8 Consensus size: 19
73340 TCTGGGCCCC
* *
73350 TTTTTTGTTTATTTGTT-TG
1 TTTTTTGTTT-TTTTTTATT
73369 TTTTTTGTTTTTTTTTATT
1 TTTTTTGTTTTTTTTTATT
*
73388 TTTTTTGCTTTTGGTTTTTTCTAT
1 TTTTTTG--TTT--TTTTTTAT-T
*
73412 TTTTTTGTTTTTTTTCTTGGGTT
1 TTTTTTG-TTTTTTT-TT--ATT
73435 TTTTTTG-TTTTTTTTATT
1 TTTTTTGTTTTTTTTTATT
73453 TTTTTTGGTTTTTTTTT
1 TTTTTT-GTTTTTTTTT
73470 GTACGAAGGA
Statistics
Matches: 85, Mismatches: 5, Indels: 21
0.77 0.05 0.19
Matches are distributed among these distances:
18 13 0.15
19 19 0.22
20 10 0.12
21 13 0.15
22 2 0.02
23 19 0.22
24 9 0.11
ACGTcount: A:0.03, C:0.03, G:0.12, T:0.82
Consensus pattern (19 bp):
TTTTTTGTTTTTTTTTATT
Found at i:73488 original size:1 final size:1
Alignment explanation
Indices: 73350--73469 Score: 51
Period size: 1 Copynumber: 120.0 Consensus size: 1
73340 TCTGGGCCCC
* * * * * * ** ** * *
73350 TTTTTTGTTTATTTGTTTGTTTTTTGTTTTTTTTTATTTTTTTTGCTTTTGGTTTTTTCTATTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *** * * **
73415 TTTGTTTTTTTTCTTGGGTTTTTTTTGTTTTTTTTATTTTTTTTGGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
73470 GTACGAAGGA
Statistics
Matches: 86, Mismatches: 33, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 86 1.00
ACGTcount: A:0.03, C:0.03, G:0.12, T:0.82
Consensus pattern (1 bp):
T
Found at i:80191 original size:52 final size:52
Alignment explanation
Indices: 80113--80240 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
80103 CAAAATATGA
*
80113 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
80165 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
80217 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
80241 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:80267 original size:13 final size:13
Alignment explanation
Indices: 80249--80273 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80239 CAAAGATCAG
80249 TGTATCGATACAA
1 TGTATCGATACAA
80262 TGTATCGATACA
1 TGTATCGATACA
80274 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:80351 original size:33 final size:33
Alignment explanation
Indices: 80314--80380 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
80304 AGTAGCTTAA
80314 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
80347 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
80380 A
1 A
80381 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:80354 original size:13 final size:13
Alignment explanation
Indices: 80336--80360 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80326 CAAAAAAATA
80336 TGTATCGATACAT
1 TGTATCGATACAT
80349 TGTATCGATACA
1 TGTATCGATACA
80361 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:81067 original size:49 final size:49
Alignment explanation
Indices: 80859--81565 Score: 962
Period size: 49 Copynumber: 14.9 Consensus size: 49
80849 AAAGGATGTG
*
80859 AATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCC
* * *
80911 GATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
* *
80954 AATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGGTG-AGGTGCC
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
81002 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
* * *
81051 GATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
* *
81094 AATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGGTG-AGGTGCC
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
81142 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
*
81191 AATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
* * *
81240 AATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCC
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
* * * *
81289 AATATGCTGATTCAAGGCCAACGATATTGGACTT----A--AAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
*
81332 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCC
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
* * * *
81381 AATATGCTGATTCAAGGCCAGCGATATTGGTCTT----A--AAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
*
81424 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
*
81473 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCC
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
*
81522 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
1 AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAG
81566 ATGAGAAAAG
Statistics
Matches: 582, Mismatches: 47, Indels: 55
0.85 0.07 0.08
Matches are distributed among these distances:
43 149 0.26
45 3 0.01
47 2 0.00
48 93 0.16
49 305 0.52
52 30 0.05
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
AATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCC
Found at i:81130 original size:92 final size:92
Alignment explanation
Indices: 80901--81558 Score: 772
Period size: 92 Copynumber: 7.0 Consensus size: 92
80891 TTAAAGATGG
* * *
80901 AAAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A-AAGGTGCCAATGTGC
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGCCAATGTGC
*
80961 TGATTCAAGGCCAGCTACATTGGGCTT
66 TGATTCAAGGCCAGCTACATTGGACTT
*
80988 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCGA
1 AAA----AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGCCAA
* *
81053 TATGCTGATTCAAGGCCAGCTATATTGGACTT
61 TGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * *
81085 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGGTGAGGTGCCAATGTGC
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGCCAATGTGC
81149 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTACATTGGACTT
*
81176 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
1 --A-A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGCCA
*
81241 ATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
60 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
81274 AAAGATGATGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT----A-AAGGTGCCAA
1 AAA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGCCAA
81334 TGTGCTGATTCAAGGCCAGCTACATTGGACTT
61 TGTGCTGATTCAAGGCCAGCTACATTGGACTT
* * * *
81366 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT----A-AAGGTGCCAA
1 AAA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGCCAA
81426 TGTGCTGATTCAAGGCCAGCTACATTGGACTT
61 TGTGCTGATTCAAGGCCAGCTACATTGGACTT
81458 AAAGATAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
1 ----A-AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-AAGGTGCCA
*
81523 ATGTGCTGATTCAAGGCCAGCGACATTGGACTT
60 ATGTGCTGATTCAAGGCCAGCTACATTGGACTT
81556 AAA
1 AAA
81559 GATGAAGATG
Statistics
Matches: 506, Mismatches: 32, Indels: 60
0.85 0.05 0.10
Matches are distributed among these distances:
87 3 0.01
91 76 0.15
92 209 0.41
93 4 0.01
94 3 0.01
95 5 0.01
96 6 0.01
97 86 0.17
98 114 0.23
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAGGTGCCAATGTGC
TGATTCAAGGCCAGCTACATTGGACTT
Found at i:81664 original size:56 final size:52
Alignment explanation
Indices: 81580--81731 Score: 169
Period size: 56 Copynumber: 2.8 Consensus size: 52
81570 GAAAAGTGAT
* * * * *
81580 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGATGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATG--G-A
* * * **
81635 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATGGA
*
81688 AAAGGTGCCGATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
81732 GAAGGGTTGC
Statistics
Matches: 80, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
52 33 0.41
53 6 0.08
54 1 0.01
55 4 0.05
56 36 0.45
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.26
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAAGATGGA
Found at i:81775 original size:33 final size:35
Alignment explanation
Indices: 81731--81800 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
81721 TATTGGGCTT
81731 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
81765 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
81799 AG
1 AG
81801 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:81843 original size:34 final size:36
Alignment explanation
Indices: 81785--82299 Score: 386
Period size: 34 Copynumber: 14.5 Consensus size: 36
81775 CACCGACTTG
* *
81785 TGTGGGCTTTAGGAAGGGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA-AAAGGGAAAAAGAGTGCCACGGAGT
* *
81821 TGTGGAC-TTAAAAGGGAAAAAGAGAGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
*
81856 TGTGGGCTTTAAAA--GAAAAA-AGTGCCACGGCGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
81889 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
81926 TGTGGGCTTTAAACA--GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGGAAAAAGAGTGCCACGGAGT
* **
81960 TGTGGGCTTTAAAAAGGGAAAGAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*** ** *
81997 TGTAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGT
1 TGT-GG-GCTTTA-A---AAGGG------AA-AAAGA-GTGCCACGGAGT
* ** *
82047 TGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGA
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
82084 TGTGGGCTTTAAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
*
82117 TGTGGGCTTTGAAAA--GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
*
82151 TGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGT
82188 TGTGGGCTTTAAACA--GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGGAAAAAGAGTGCCACGGAGT
*
82222 TGTGGGC-TT-AAA-CG-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
* * * *
82249 TGTGGAC-TT-AAAGATGAAAAA-AGTGCCACAGAAT
1 TGTGGGCTTTAAAAG-GGAAAAAGAGTGCCACGGAGT
82283 TGTGGGCTTTAAAAGGG
1 TGTGGGCTTTAAAAGGG
82300 TGCCACGGAG
Statistics
Matches: 395, Mismatches: 42, Indels: 85
0.76 0.08 0.16
Matches are distributed among these distances:
27 24 0.06
29 1 0.00
31 1 0.00
32 3 0.01
33 42 0.11
34 122 0.31
35 39 0.10
36 44 0.11
37 78 0.20
38 7 0.02
39 5 0.01
42 3 0.01
45 2 0.01
48 5 0.01
49 6 0.02
50 13 0.03
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (36 bp):
TGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGT
Found at i:81914 original size:70 final size:70
Alignment explanation
Indices: 81805--81991 Score: 288
Period size: 71 Copynumber: 2.7 Consensus size: 70
81795 AGGAAGGGAG
* *
81805 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGAGCCACGGAGTTGTGGGCTTTAAA
1 AAAG-TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
81869 -AGAAA
65 CAGAAA
*
81874 AAAGTGCCACGGCGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA
81939 CAGAAA
65 CAGAAA
* *
81945 AAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCAC
1 AAAGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCAC
81992 AAAGTTGTAG
Statistics
Matches: 108, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
68 16 0.15
69 6 0.06
70 38 0.35
71 48 0.44
ACGTcount: A:0.35, C:0.13, G:0.34, T:0.18
Consensus pattern (70 bp):
AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAC
AGAAA
Found at i:82062 original size:87 final size:88
Alignment explanation
Indices: 81914--82082 Score: 295
Period size: 87 Copynumber: 1.9 Consensus size: 88
81904 GGGAAAAAGA
* *
81914 GTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
*
81979 AAGAGAGTGCCACAAAGTTGTAG
66 AAAAGAGTGCCACAAAGTTGTAG
*
82002 GTGCCACAGAGTTGTGGGCTTTAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
1 GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
82066 AAAAGAGTGCCACAAAG
66 AAAAGAGTGCCACAAAG
82083 ATGTGGGCTT
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
87 53 0.69
88 24 0.31
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.20
Consensus pattern (88 bp):
GTGCCACAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
AAAAGAGTGCCACAAAGTTGTAG
Found at i:82115 original size:70 final size:67
Alignment explanation
Indices: 82000--82411 Score: 338
Period size: 58 Copynumber: 6.4 Consensus size: 67
81990 ACAAAGTTGT
*
82000 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA-AGG
1 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAACA-G
82064 AAAAA
64 -AAAA
* *
82069 AGAGTGCCACAAAGATGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAA-AG
1 AG-GTGCCACAGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-AAACAG
*
82133 AAGA
64 AAAA
* *
82137 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAC
1 AGGTGCCACAGAGTTGTGGGCTTT--AAA-AGAAGAAG-GTGCCACGGAGTTGTGGGCTTTAAAC
82202 AGAAAA
62 AGAAAA
* * * *
82208 AGGTGCCACGGAGTTGTGGGC-TT--AA-ACG--GGTGCCACGGAGTTGTGGAC-TTAAAGATGA
1 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAACA-GA
82266 AAA
65 AAA
* * *
82269 AAGTGCCACAGAATTGTGGGCTTT--AA-AAG--GGTGCCACGGAGTTGTGGAC-TT-AA-AG-A
1 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAACAGAA
**
82325 TG
66 AA
* * * *
82327 AGGTGCCACGGAATTGTGGGCTGT--AA-AAG--GGTGCCACGGAGTTGTGGAC-TT-AA-AG-A
1 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAACAGAA
**
82383 TG
66 AA
* *
82385 AGGTGCCACGGAATTGTGGGCTTTAAA
1 AGGTGCCACAGAGTTGTGGGCTTTAAA
82412 GAAAAAATGC
Statistics
Matches: 310, Mismatches: 23, Indels: 29
0.86 0.06 0.08
Matches are distributed among these distances:
58 79 0.25
59 1 0.00
60 8 0.03
61 43 0.14
62 29 0.09
64 1 0.00
65 1 0.00
66 1 0.00
67 19 0.06
68 5 0.02
69 6 0.02
70 69 0.22
71 48 0.15
ACGTcount: A:0.31, C:0.13, G:0.34, T:0.21
Consensus pattern (67 bp):
AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAACAGAA
AA
Found at i:82143 original size:191 final size:191
Alignment explanation
Indices: 81810--82182 Score: 524
Period size: 191 Copynumber: 1.9 Consensus size: 191
81800 GGGAGAAAGA
*
81810 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGAGCCACGGAGTTGTGGGCTTTAAAAGAAAA
1 TGCCACAGAGTTGTGGACTTAAAA-GGAAAAAGAGAGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*** *
81875 AAGTGCCACGGCGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAC
65 AAGTGCCACAAAGATGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAC
* *
81940 AGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAGAGAGTGCCACAAAGTTGTAGG
129 AGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAGAAAAAGAGTGCCACAAAGTTGTAGG
* *
82003 TGCCACAGAGTTGTGGGCTTTAAAA-GAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
1 TGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAGAGAGCCACGGAGTTGTGGGCTTT-AAAA-G-A
*
82066 AAAAGAGTGCCACAAAGATGTGGGCTTT-AAAA-GAAGAAG-GTGCCACGGAGTTGTGGGCTTTG
62 AAAA-AGTGCCACAAAGATGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-
* *
82128 AAA-AGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAGAAAAAGAGTGCCAC
125 AAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAGAAAAAGAGTGCCAC
82183 GGAGTTGTGG
Statistics
Matches: 162, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
191 91 0.56
192 20 0.12
193 17 0.10
194 15 0.09
195 19 0.12
ACGTcount: A:0.34, C:0.13, G:0.34, T:0.19
Consensus pattern (191 bp):
TGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGAGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
AGTGCCACAAAGATGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAG
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAGAAAAAGAGTGCCACAAAGTTGTAGG
Found at i:82305 original size:28 final size:31
Alignment explanation
Indices: 82084--82413 Score: 229
Period size: 34 Copynumber: 10.5 Consensus size: 31
82074 GCCACAAAGA
* *
82084 TGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTT-AAAGATG-AGGTGCCACGGAAT
* *
82117 TGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGT
1 TGTGGGCTTT--AAAGATG-AGGTGCCACGGAAT
*
82151 TGTGGGCTTTGAAAAGA-GAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT--AAAGATG----AG-GTGCCACGGAAT
** *
82188 TGTGGGCTTTAAACAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTT-AA-AG-ATGAGGTGCCACGGAAT
* *
82222 TGTGGGC-TT-AA-ACG-GGTGCCACGGAGT
1 TGTGGGCTTTAAAGATGAGGTGCCACGGAAT
* * *
82249 TGTGGAC-TTAAAGATGAAAAAAGTGCCACAGAAT
1 TGTGGGCTTTAAAGATG----AGGTGCCACGGAAT
*
82283 TGTGGGCTTTAAA-A-G-GGTGCCACGGAGT
1 TGTGGGCTTTAAAGATGAGGTGCCACGGAAT
*
82311 TGTGGAC-TTAAAGATGAGGTGCCACGGAAT
1 TGTGGGCTTTAAAGATGAGGTGCCACGGAAT
* *
82341 TGTGGGCTGTAAA-A-G-GGTGCCACGGAGT
1 TGTGGGCTTTAAAGATGAGGTGCCACGGAAT
*
82369 TGTGGAC-TTAAAGATGAGGTGCCACGGAAT
1 TGTGGGCTTTAAAGATGAGGTGCCACGGAAT
82399 TGTGGGCTTTAAAGA
1 TGTGGGCTTTAAAGA
82414 AAAAATGCCA
Statistics
Matches: 252, Mismatches: 21, Indels: 50
0.78 0.07 0.15
Matches are distributed among these distances:
27 30 0.12
28 39 0.15
29 5 0.02
30 38 0.15
31 12 0.05
33 14 0.06
34 76 0.30
35 7 0.03
36 6 0.02
37 24 0.10
38 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.22
Consensus pattern (31 bp):
TGTGGGCTTTAAAGATGAGGTGCCACGGAAT
Found at i:83459 original size:16 final size:16
Alignment explanation
Indices: 83438--83479 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
83428 CTCACCGAGA
*
83438 TTTTCTGTTTTGTTTT
1 TTTTCTGTTTTCTTTT
*
83454 TTTTCTTTTTTCTTTT
1 TTTTCTGTTTTCTTTT
*
83470 TTTTGTGTTT
1 TTTTCTGTTT
83480 GGAAAAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (16 bp):
TTTTCTGTTTTCTTTT
Found at i:90737 original size:52 final size:52
Alignment explanation
Indices: 90659--90786 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
90649 CGAAATATGA
*
90659 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
90711 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
90763 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
90787 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:90813 original size:13 final size:13
Alignment explanation
Indices: 90795--90819 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90785 CAAAGATCAG
90795 TGTATCGATACAA
1 TGTATCGATACAA
90808 TGTATCGATACA
1 TGTATCGATACA
90820 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:90897 original size:33 final size:33
Alignment explanation
Indices: 90860--90926 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
90850 AGTAGCTTAA
90860 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
90893 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
90926 A
1 A
90927 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:90900 original size:13 final size:13
Alignment explanation
Indices: 90882--90906 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90872 CAAAAAAATA
90882 TGTATCGATACAT
1 TGTATCGATACAT
90895 TGTATCGATACA
1 TGTATCGATACA
90907 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:92065 original size:33 final size:32
Alignment explanation
Indices: 92005--92071 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 32
91995 GTTACAAGCT
92005 ATGTATCGATACATTTCTTCATATATCGATACA
1 ATGTATCGATACATTTC-TCATATATCGATACA
*
92038 ATGTATCGATACATTGTAC-CATGTATCGATACA
1 ATGTATCGATACATT-T-CTCATATATCGATACA
92071 A
1 A
92072 ATAGTGATAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 29 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (32 bp):
ATGTATCGATACATTTCTCATATATCGATACA
Found at i:92124 original size:21 final size:20
Alignment explanation
Indices: 92098--92153 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
92088 TACTGCCAAT
92098 TTCATGTATCGATACAATTTG
1 TTCATGTATCGATACAA-TTG
92119 TTCATGTATCGATAC-ATTG
1 TTCATGTATCGATACAATTG
**
92138 AACATGTATCGATACA
1 TTCATGTATCGATACA
92154 GTGTATCGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 16 0.50
20 1 0.03
21 15 0.47
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (20 bp):
TTCATGTATCGATACAATTG
Found at i:92160 original size:13 final size:13
Alignment explanation
Indices: 92142--92166 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92132 ACATTGAACA
92142 TGTATCGATACAG
1 TGTATCGATACAG
92155 TGTATCGATACA
1 TGTATCGATACA
92167 AAGCAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:92183 original size:33 final size:32
Alignment explanation
Indices: 92123--92184 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
92113 AATTTGTTCA
** *
92123 TGTATCGATACATTGAACATGTATCGATACAG
1 TGTATCGATACAAAGAAAATGTATCGATACAG
92155 TGTATCGATACAAAGCAAAATGTATCGATA
1 TGTATCGATACAAAG-AAAATGTATCGATA
92185 TATCTGGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.29
Consensus pattern (32 bp):
TGTATCGATACAAAGAAAATGTATCGATACAG
Found at i:92752 original size:34 final size:35
Alignment explanation
Indices: 92708--92780 Score: 121
Period size: 36 Copynumber: 2.1 Consensus size: 35
92698 TTTTCATTTT
92708 TCTCCCCTT-AAAAATTCTCCCCCTTAAACGATTA
1 TCTCCCCTTAAAAAATTCTCCCCCTTAAACGATTA
*
92742 TCTCCTCTTAAAAAAATTCTCCCCCTTAAACGATTA
1 TCTCCCCTT-AAAAAATTCTCCCCCTTAAACGATTA
92778 TCT
1 TCT
92781 TCTCCCCTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 8 0.22
36 28 0.78
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.34
Consensus pattern (35 bp):
TCTCCCCTTAAAAAATTCTCCCCCTTAAACGATTA
Found at i:92753 original size:18 final size:19
Alignment explanation
Indices: 92723--92780 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 19
92713 CCTTAAAAAT
92723 TCTCCCCCTTAAACGATTA
1 TCTCCCCCTTAAACGATTA
* ** *
92742 TCT-CCTCTTAAAAAAAT-
1 TCTCCCCCTTAAACGATTA
92759 TCTCCCCCTTAAACGATTA
1 TCTCCCCCTTAAACGATTA
92778 TCT
1 TCT
92781 TCTCCCCTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
17 3 0.10
18 20 0.69
19 6 0.21
ACGTcount: A:0.29, C:0.33, G:0.03, T:0.34
Consensus pattern (19 bp):
TCTCCCCCTTAAACGATTA
Found at i:94663 original size:13 final size:13
Alignment explanation
Indices: 94645--94670 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94635 TAGTACCCAT
94645 TGTATCGATACAA
1 TGTATCGATACAA
94658 TGTATCGATACAA
1 TGTATCGATACAA
94671 GGAATGTTGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:99695 original size:52 final size:52
Alignment explanation
Indices: 99625--99745 Score: 206
Period size: 52 Copynumber: 2.3 Consensus size: 52
99615 GAAAATTTAT
* *
99625 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGC
* *
99677 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGC
99729 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
99746 AAGATCAGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGC
Found at i:99758 original size:52 final size:51
Alignment explanation
Indices: 99625--99765 Score: 194
Period size: 52 Copynumber: 2.7 Consensus size: 51
99615 GAAAATTTAT
*
99625 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGCAAATTTGC
* * *
99677 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTAGGCAAATTTGC
*
99729 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
99766 ATGTATCGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.03
52 77 0.97
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTAGGCAAATTTGC
Found at i:99772 original size:13 final size:13
Alignment explanation
Indices: 99754--99778 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99744 CAAAGATCAG
99754 TGTATCGATACAA
1 TGTATCGATACAA
99767 TGTATCGATACA
1 TGTATCGATACA
99779 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:99861 original size:13 final size:13
Alignment explanation
Indices: 99843--99867 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99833 CAAAAAAATA
99843 TGTATCGATACAT
1 TGTATCGATACAT
99856 TGTATCGATACA
1 TGTATCGATACA
99868 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:99863 original size:33 final size:33
Alignment explanation
Indices: 99821--99887 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
99811 AGTAGCTTAA
99821 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
99854 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
99887 A
1 A
99888 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:104544 original size:21 final size:20
Alignment explanation
Indices: 104518--104574 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
104508 TACTGCCAAT
104518 TTCATGTATCGATACAATTTG
1 TTCATGTATCGATACAA-TTG
104539 TTCATGTATCGATAC-ATTG
1 TTCATGTATCGATACAATTG
**
104558 AACATGTATCGATACAA
1 TTCATGTATCGATACAA
104575 AGCAGAATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 16 0.48
20 2 0.06
21 15 0.45
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (20 bp):
TTCATGTATCGATACAATTG
Found at i:110653 original size:52 final size:52
Alignment explanation
Indices: 110575--110702 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
110565 CAAAATATGA
*
110575 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
110627 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
110679 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
110703 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:110729 original size:13 final size:13
Alignment explanation
Indices: 110711--110735 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110701 CAAAGATCAG
110711 TGTATCGATACAA
1 TGTATCGATACAA
110724 TGTATCGATACA
1 TGTATCGATACA
110736 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:110813 original size:33 final size:33
Alignment explanation
Indices: 110776--110842 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
110766 AGTAGCTTAA
110776 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
110809 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
110842 A
1 A
110843 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:110816 original size:13 final size:13
Alignment explanation
Indices: 110798--110822 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110788 CAAAAAAATA
110798 TGTATCGATACAT
1 TGTATCGATACAT
110811 TGTATCGATACA
1 TGTATCGATACA
110823 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:111911 original size:49 final size:49
Alignment explanation
Indices: 111702--112490 Score: 950
Period size: 49 Copynumber: 16.7 Consensus size: 49
111692 AAAAGGATGT
*
111702 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
** * *
111754 TGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
111797 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
111845 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
111894 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
111943 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
111986 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
112035 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
112078 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
112127 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
112170 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
112219 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
112262 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
112311 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
112363 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
112406 CAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
112455 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
112491 GAAGGGTTGC
Statistics
Matches: 633, Mismatches: 64, Indels: 83
0.81 0.08 0.11
Matches are distributed among these distances:
43 226 0.36
45 4 0.01
47 5 0.01
48 49 0.08
49 281 0.44
52 68 0.11
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:112017 original size:92 final size:92
Alignment explanation
Indices: 111693--112490 Score: 1052
Period size: 92 Copynumber: 8.5 Consensus size: 92
111683 AGATGATGAA
* * * **
111693 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCTGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAAT
*
111758 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
111789 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
* *
111853 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* *
111880 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCA
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCA
111945 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCGATATTGGACTT
111978 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
112043 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
112070 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
112135 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
112162 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
112227 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
112254 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
* * *
112319 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
66 TGATTCAAGGCCAGCGATATTGGAC-T-----T
* * * *
112352 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
112411 TGCTGAGTCAAGGCTAGCTACATTGGACTT
63 TGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
112441 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
112491 GAAGGGTTGC
Statistics
Matches: 651, Mismatches: 29, Indels: 47
0.90 0.04 0.06
Matches are distributed among these distances:
87 3 0.00
88 1 0.00
89 2 0.00
91 38 0.06
92 393 0.60
93 1 0.00
94 3 0.00
95 77 0.12
96 6 0.01
97 47 0.07
98 37 0.06
99 1 0.00
100 2 0.00
101 40 0.06
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:112534 original size:33 final size:35
Alignment explanation
Indices: 112490--112559 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
112480 TATTGGGCTT
112490 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
112524 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
112558 AG
1 AG
112560 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:112602 original size:34 final size:32
Alignment explanation
Indices: 112564--113332 Score: 551
Period size: 34 Copynumber: 23.6 Consensus size: 32
112554 AGGAAGGGAG
*
112564 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAA
1 AAAG-TGCCACGGAGTTGTGGGCTTAAAA-GG-AA
*
112599 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAAAG--GAA
* *
112635 AAAGGTGCCACGGAGTTGTGGACTTAAAGATGAGA
1 AAA-GTGCCACGGAGTTGTGGGCTTAAA-AGGA-A
*
112670 AAAGTGCCACGGAGTTATGGGCTTAAAAGG--
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
112700 ---GTGCCACGGAGTTGTGGGCTTAGAAGGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGG-AA
* *
112730 AAGAGTGCCACAGAGTTGTGGGCTTAGAAGGAAA
1 AA-AGTGCCACGGAGTTGTGGGCTTAAAAGG-AA
*
112764 AAGAGTGCCACGGAGTTGTGGGCTT-TAA--AA
1 AA-AGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
112794 AGAGTGCCACGGAGTCGTGGGCTTTGAAAA-GAA
1 AAAGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* *
112827 GAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-GAA
1 -AAAGTGCCACGGAGTTGTGGGC-TT-AAAAGGAA
* * * *
112861 GAAGGTGCCATGGAGCTGTGGGCTTTAAAAAGAA
1 -AAAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
112895 GAAGATGCCACGGAGTTGTGGGCTTTAAA-G--
1 AAAG-TGCCACGGAGTTGTGGGCTTAAAAGGAA
*
112925 --AGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAA
1 AAAGTGCCACGGAGTTGTGGGC-TT-AAAAG-G-AA
112959 AAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAA-AGGAA
112993 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAA
1 AAA-GTGCCACGGAGTTGTGGGC-TT-AAAA-GG-AA
*
113030 AAGAGTGCCACAGAGTTGTGGGCTTTAAAA-GAA
1 AA-AGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
113063 AAAGGTGCCACGGAGTTATGGGCTTTAAAAAGAA
1 AAA-GTGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
113097 AAAGGTGCCACGGAGTTGTGGGCTTAAACGG--
1 AAA-GTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
113128 ---GTGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAA-A-GGAA
* *
113159 AAAGTGCCACAGAATTGTGGGCTTTAAAAGG--
1 AAAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* *
113190 ---GTGCCACGGAGTTGTGGACTTAAAGATGAAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAA-A-GGAA
*
113221 AAAGTGCCACGGAATTGTGGGCTTTAAAAGG--
1 AAAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
*
113252 ---GTGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
113281 CAAGGTGCCATGGAGTTGTGGGCTTTAAA-GAA
1 -AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
113313 AAAATGCCACTGAGTCGTGG
1 AAAGTGCCACGGAGTTGTGG
113333 ACTTTGAGAC
Statistics
Matches: 611, Mismatches: 61, Indels: 128
0.76 0.08 0.16
Matches are distributed among these distances:
27 78 0.13
28 38 0.06
29 24 0.04
30 5 0.01
31 16 0.03
32 7 0.01
33 76 0.12
34 235 0.38
35 44 0.07
36 39 0.06
37 48 0.08
38 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.21
Consensus pattern (32 bp):
AAAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:112619 original size:71 final size:68
Alignment explanation
Indices: 112544--113337 Score: 589
Period size: 61 Copynumber: 12.1 Consensus size: 68
112534 CACCGACTTG
* * *
112544 TGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCA
1 TGTGGGCTTTA-AAAGGGAAAAAGATGCCACGGAGTTGTGGGCTTAAAA--GAAAAAGAGTGCCA
112609 CGGAGT
63 CGGAGT
** * * *
112615 TGTGGGCTTTAAAAGAAAAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAGAAA-AGTGCCA
1 TGTGGGCTTTAAAAG-GGAAAAAGATGCCACGGAGTTGTGGGCTTAAA-A-GAAAAAGAGTGCCA
112679 CGGAGT
63 CGGAGT
* * *
112685 TATGGGC-TTAAAA-GG-----G-TGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACA
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGTTGTGGGCTTA-AAAGAAAAAGAGTGCCACG
112742 GAGT
65 GAGT
* *
112746 TGTGGGC-TTAGAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTT----TAAAAAGAGTGCCACG
1 TGTGGGCTTTAAAAGGGAAAAAGA-TGCCACGGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACG
112805 GAGT
65 GAGT
* * * * *
112809 CGTGGGCTTTGAAAA--GAAGAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAG-GTGCCA
1 TGTGGGCTTT-AAAAGGGAAAAAGATGCCACGGAGTTGTGGGC-TT-AAAAGAAAAAGAGTGCCA
* *
112871 TGGAGC
63 CGGAGT
* * *
112877 TGTGGGCTTTAAAA-AGAAGAAGATGCCACGGAGTTGTGGGCTT------TAAAGAGTGCCACGG
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGG
112935 AGT
66 AGT
* *
112938 CGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAG-GTGCC
1 TGTGGGCTTT-AAAAGGGAAAAAGA-TGCCACGGAGTTGTGGGC-TTAAA-AGAAAAAGAGTGCC
113002 ACGGAGT
62 ACGGAGT
*
113009 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAG-GTGCCA
1 TGTGGGCTTT-AAAAGGGAAAAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGAAAAAGAGTGCCA
113073 CGGAGT
63 CGGAGT
* * * *
113079 TATGGGCTTTAAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTAAACG-----G-GTGCCACGG
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGG
113137 AGT
66 AGT
* * * * *
113140 TGTGGAC-TTAAAGATGAAAAAAG-TGCCACAGAATTGTGGGCTTTAAAAG-----G-GTGCCAC
1 TGTGGGCTTTAAA-AGGGAAAAAGATGCCACGGAGTTGTGGGC-TTAAAAGAAAAAGAGTGCCAC
113197 GGAGT
64 GGAGT
* * * *
113202 TGTGGAC-TTAAAGATGAAAAAAG-TGCCACGGAATTGTGGGCTTTAAAAG-----G-GTGCCAC
1 TGTGGGCTTTAAA-AGGGAAAAAGATGCCACGGAGTTGTGGGC-TTAAAAGAAAAAGAGTGCCAC
113259 GGAGT
64 GGAGT
* * * * * *
113264 TGTGGAC-TTAAAA-GGAACAAGGTGCCATGGAGTTGTGGGCTTTAAAGAAAAA-A-TGCCACTG
1 TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGG
113325 AGT
66 AGT
* *
113328 CGTGGACTTT
1 TGTGGGCTTT
113338 GAGACAAAAT
Statistics
Matches: 620, Mismatches: 60, Indels: 92
0.80 0.08 0.12
Matches are distributed among these distances:
60 25 0.04
61 116 0.19
62 105 0.17
63 49 0.08
64 44 0.07
65 7 0.01
66 7 0.01
67 23 0.04
68 70 0.11
69 15 0.02
70 51 0.08
71 103 0.17
72 5 0.01
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (68 bp):
TGTGGGCTTTAAAAGGGAAAAAGATGCCACGGAGTTGTGGGCTTAAAAGAAAAAGAGTGCCACGG
AGT
Found at i:112705 original size:27 final size:27
Alignment explanation
Indices: 112673--112726 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
112663 GATGAGAAAA
112673 GTGCCACGGAGTTATGGGCTTAAAAGG
1 GTGCCACGGAGTTATGGGCTTAAAAGG
* *
112700 GTGCCACGGAGTTGTGGGCTTAGAAGG
1 GTGCCACGGAGTTATGGGCTTAAAAGG
112727 AAAAAGAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.15, G:0.41, T:0.22
Consensus pattern (27 bp):
GTGCCACGGAGTTATGGGCTTAAAAGG
Found at i:112746 original size:131 final size:131
Alignment explanation
Indices: 112569--113337 Score: 522
Period size: 131 Copynumber: 5.9 Consensus size: 131
112559 GGGAGAAAGA
* * **
112569 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
1 TGCCACGGAGTTGTGGGCTTAGAACAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* *
112634 AAAAGGTGCCACGGAGTTGTGGAC-TTAAAGATGAGAAAAGTGCCACGGAGTTATGGGC-TT-AA
65 AAAAGGTGCCACGGAGTTGTGGGCTTTAAA-A--A-AAAAGTGCCACGGAGTCATGGGCTTTAAA
112696 AAG-GG
126 AAGAGG
* * * *
112701 TGCCACGGAGTTGTGGGCTTAGAA-GGAAAAAGAGTGCCACAGAGTTGTGGGC-TTAGAAGGAAA
1 TGCCACGGAGTTGTGGGCTTAGAACAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* * *
112764 AAGA-GTGCCACGGAGTTGTGGGCTTT--AAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGA
65 AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAAAAGTGCCACGGAGTCATGGGCTTT--AAA-A
112826 AGAAGG
127 AG-AGG
* * * * * * *
112832 TGCCACAGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCATGGAGCTGTGGGCTTT-AAA-AAGAA
1 TGCCACGGAGTTGTGGGCTTAGAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
* * * *
112895 GAAGATGCCACGGAGTTGTGGGCTTT----AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAG
66 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAAAAGTGCCACGGAGTCATGGGCTTT-AAAA-AG
112956 AAAAAGAG
129 ----AG-G
**
112964 TGCCACGGAGTTGTGGGCTTTA-AACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG-GG
1 TGCCACGGAGTTGTGGGC-TTAGAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAA
* *
113027 AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTATGGGCTTTAAA
64 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAA-AAAAA-GTGCCACGGAGTCATGGGCTTTAAA
113092 AAGAAAAAGG
126 AAG----AGG
* *
113102 TGCCACGGAGTTGTGGGCTTA-AAC-G-----GGTGCCACGGAGTTGTGGAC-TT-AAAGATGAA
1 TGCCACGGAGTTGTGGGCTTAGAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGA-AAA
* * ** ** * *
113158 AAAA-GTGCCACAGAATTGTGGGCTTT---AAAAGGGTGCCACGGAGTTGTGGACTTAAAGATGA
65 AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAAAAGTGCCACGGAGTCATGGGCTT-TA-A--A
* *
113219 AAAAAG
126 AAGAGG
* * *
113225 TGCCACGGAATTGTGGGCTTTA-AA-AG-----GGTGCCACGGAGTTGTGGAC-TTAAAAG--GA
1 TGCCACGGAGTTGTGGGC-TTAGAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* * * * *
113280 ACAAGGTGCCATGGAGTTGTGGGCTTTAAAGAAAAAA-TGCCACTGAGTCGTGGACTTT
65 AAAAGGTGCCACGGAGTTGTGGGCTTTAAA-AAAAAAGTGCCACGGAGTCATGGGCTTT
113338 GAGACAAAAT
Statistics
Matches: 538, Mismatches: 58, Indels: 89
0.79 0.08 0.13
Matches are distributed among these distances:
122 4 0.01
123 57 0.11
124 52 0.10
125 9 0.02
126 18 0.03
127 9 0.02
128 33 0.06
129 48 0.09
130 26 0.05
131 112 0.21
132 77 0.14
133 2 0.00
134 9 0.02
135 20 0.04
136 1 0.00
137 6 0.01
138 19 0.04
139 8 0.01
140 8 0.01
141 20 0.04
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (131 bp):
TGCCACGGAGTTGTGGGCTTAGAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAA
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAAAAGTGCCACGGAGTCATGGGCTTTAAAAAGAG
G
Found at i:112870 original size:165 final size:159
Alignment explanation
Indices: 112544--113251 Score: 601
Period size: 165 Copynumber: 4.3 Consensus size: 159
112534 CACCGACTTG
* *
112544 TGTGGGCTTTAGGAAGGGAGAAAGA-TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCC
1 TGTGGGCTTTA--AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA-GGAAAAAGAGTGCC
* * *
112608 ACGGAGTTGTGGGCTTTAAAAGAAAAAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAGAAAA
62 ACGGAGTTGTGGGCTTT-----AAAAAAGA-GTGCCACGGAGTTGTGGACTTAAACA-GAAAAAA
* *
112673 GTGCCACGGAGTTATGGGC-TTAAAAGGGTGCCACGGAGT
120 GTGCCACAGAGTTGTGGGCTTTAAAAGGGTGCCACGGAGT
* *
112712 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACG
1 TGTGGGCTTTA-AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACG
* * * *
112776 GAGTTGTGGGCTTT-AAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAA-AGAAGAAGGTGCCACA
65 GAGTTGTGGGCTTTAAAAAAGAGTGCCACGGAGTTGTGGAC-TT-AAACAGAAAAAAGTGCCACA
* *
112839 GAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCATGGAGC
128 GAGTTGTGGGCTTT---AA-AAG--GGTGCCACGGAGT
* * *
112877 TGTGGGCTTTAAAAAGAAGAAGA-TGCCACGGAGTTGTGGGCTT-------TAAAGAGTGCCACG
1 TGTGGGCTTT-AAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACG
* * *
112934 GAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAAAAAGGT
65 GAGTTGTGGGCTTT------A-AAAAAGAGTGCCACGGAGTTGTGGAC-TTAAACAGAAAAAAGT
* *
112999 GCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
122 GCCACAGAGTTGTGGGCTTT-AAAA--G-----G-GTGCCACGGAGT
* * *
113046 TGTGGGCTTTAAAAGAAAAAG-GTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAG-GTGCCACG
1 TGTGGGCTTTAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGAAAAAGAGTGCCACG
* * *
113109 GAGTTGTGGGC-TT--AAACGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACAG
65 GAGTTGTGGGCTTTAAAAAAGAGTGCCACGGAGTTGTGGACTTAAACA-GAAAAAAGTGCCACAG
*
113171 AATTGTGGGCTTTAAAAGGGTGCCACGGAGT
129 AGTTGTGGGCTTTAAAAGGGTGCCACGGAGT
* *
113202 TGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTTAAAAGG
1 TGTGGGCTTTAAAG--GAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGG
113252 GTGCCACGGA
Statistics
Matches: 457, Mismatches: 43, Indels: 91
0.77 0.07 0.15
Matches are distributed among these distances:
155 5 0.01
156 17 0.04
157 32 0.07
158 64 0.14
159 11 0.02
160 3 0.01
162 3 0.01
163 5 0.01
164 12 0.03
165 128 0.28
166 91 0.20
167 4 0.01
168 37 0.08
169 21 0.05
174 2 0.00
175 18 0.04
176 4 0.01
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (159 bp):
TGTGGGCTTTAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGG
AGTTGTGGGCTTTAAAAAAGAGTGCCACGGAGTTGTGGACTTAAACAGAAAAAAGTGCCACAGAG
TTGTGGGCTTTAAAAGGGTGCCACGGAGT
Found at i:112933 original size:27 final size:26
Alignment explanation
Indices: 112896--112947 Score: 86
Period size: 27 Copynumber: 2.0 Consensus size: 26
112886 TAAAAAGAAG
*
112896 AAGATGCCACGGAGTTGTGGGCTTTA
1 AAGATGCCACGGAGTCGTGGGCTTTA
112922 AAGAGTGCCACGGAGTCGTGGGCTTT
1 AAGA-TGCCACGGAGTCGTGGGCTTT
112948 GAAAAGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.21, C:0.17, G:0.37, T:0.25
Consensus pattern (26 bp):
AAGATGCCACGGAGTCGTGGGCTTTA
Found at i:112943 original size:61 final size:63
Alignment explanation
Indices: 112728--113309 Score: 603
Period size: 62 Copynumber: 9.0 Consensus size: 63
112718 CTTAGAAGGA
* * *
112728 AAAAGAGTGCCACAGAGTTGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * * *
112790 AAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAG-GTGCCACAGAGTTGTGGGCTTT
1 -AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * *
112853 GAAAAGAAGAAGGTGCCATGGAGCTGTGGGCTTTAAAAAGAAGAAGA-TGCCACGGAGTTGTGGG
1 ---AA-AAG-A-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGG
112917 CTTT
60 CTTT
*
112921 -AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* *
112985 AAACAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTG
1 AAA-AG----A-GTGCCACGGAGTTGTGGGCTTT-AAAA-AGAAAAAGAGTGCCACGGAGTTGTG
113050 GGCTTT
58 GGCTTT
*
113056 AAAAGAAAAAGGTGCCACGGAGTTATGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGC
1 AAAAG----A-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGC
113120 -TT
61 TTT
* * * * * *
113122 AAACGGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAA-AGTGCCACAGAATTGTGGGCTTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * * *
113184 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * * * *
113246 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGAACAAG-GTGCCATGGAGTTGTGGGCTTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
113307 AAA
1 AAA
113310 GAAAAAATGC
Statistics
Matches: 463, Mismatches: 35, Indels: 44
0.85 0.06 0.08
Matches are distributed among these distances:
60 5 0.01
61 89 0.19
62 97 0.21
63 55 0.12
64 32 0.07
65 5 0.01
66 11 0.02
67 19 0.04
68 57 0.12
69 4 0.01
70 30 0.06
71 59 0.13
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.21
Consensus pattern (63 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
Found at i:113138 original size:27 final size:26
Alignment explanation
Indices: 113100--113275 Score: 109
Period size: 28 Copynumber: 6.0 Consensus size: 26
113090 AAAAGAAAAA
*
113100 GGTGCCACGGAGTTGTGGGCTTAAACG
1 GGTGCCACGGAGTTGTGGACTTAAA-G
113127 GGTGCCACGGAGTTGTGGACTTAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAG
* * *
113153 ATGAAAAAAGTGCCACAGAATTGTGGGCTTTAAAAG
1 --G------GTGCCACGGAGTTGTGGAC-TT-AAAG
113189 GGTGCCACGGAGTTGTGGACTTAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAG
* *
113215 ATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAG
1 --G------GTGCCACGGAGTTGTGGAC-TT-AAAG
113251 GGTGCCACGGAGTTGTGGACTTAAA
1 GGTGCCACGGAGTTGTGGACTTAAA
113276 AGGAACAAGG
Statistics
Matches: 118, Mismatches: 11, Indels: 41
0.69 0.06 0.24
Matches are distributed among these distances:
26 8 0.07
27 28 0.24
28 35 0.30
34 35 0.30
35 4 0.03
36 8 0.07
ACGTcount: A:0.30, C:0.14, G:0.34, T:0.23
Consensus pattern (26 bp):
GGTGCCACGGAGTTGTGGACTTAAAG
Found at i:121729 original size:124 final size:124
Alignment explanation
Indices: 121508--121757 Score: 437
Period size: 124 Copynumber: 2.0 Consensus size: 124
121498 TTTTTGGCAG
* * * *
121508 TGTCCTTGTTGATCGTATAGCATTTATTTAACTGACTCCATCATATCAATGCCATGCCCTATATA
1 TGTCCTGGTTGATAGTATAGCATTTATTTAACTGACTCCATCATACCAATACCATGCCCTATATA
*
121573 TTTTGTTCCAATTCTTCAATGTTGATAAGAAATTGAGAATCACATACTGCTTCTTTTTT
66 TTATGTTCCAATTCTTCAATGTTGATAAGAAATTGAGAATCACATACTGCTTCTTTTTT
121632 TGTCCTGGTTGATAGTATAGCATTTATTTAACTGACTCCATCATACCAATACCATGCCCTATATA
1 TGTCCTGGTTGATAGTATAGCATTTATTTAACTGACTCCATCATACCAATACCATGCCCTATATA
* *
121697 TTATGTTCCAATTCTTCAATGTTGGTATGAAATTGAGAATCACATACTGCTTCTTTTTT
66 TTATGTTCCAATTCTTCAATGTTGATAAGAAATTGAGAATCACATACTGCTTCTTTTTT
121756 TG
1 TG
121758 CTTCTTCATT
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
124 119 1.00
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (124 bp):
TGTCCTGGTTGATAGTATAGCATTTATTTAACTGACTCCATCATACCAATACCATGCCCTATATA
TTATGTTCCAATTCTTCAATGTTGATAAGAAATTGAGAATCACATACTGCTTCTTTTTT
Found at i:124959 original size:115 final size:113
Alignment explanation
Indices: 124722--124953 Score: 412
Period size: 112 Copynumber: 2.0 Consensus size: 113
124712 TATGTTGAAA
*
124722 AGTTTCAGAAGAGCTAAAAGAAACAGGAGGATCATCGTGTCTTCTTGTGTTATTATTTTTACAGT
1 AGTTTCAGAAGAGCTAAAAGAAACAGGAGGATCATCATG--TTCTTGTGTTATTATTTTTACAGT
*
124787 TACATATCAAACTATCTTATCTTTCGTTTTTTGCCCCCCTTTCTTAATCT
64 TACATATCAAACTATCTTATCTTTCATTTTTTGCCCCCCTTTCTTAATCT
124837 AGTTTCAGAAGAGCTAAAAGAAACAGGAGGATCATCATG-TCTTGTGTTATTATTTTTACAGTTA
1 AGTTTCAGAAGAGCTAAAAGAAACAGGAGGATCATCATGTTCTTGTGTTATTATTTTTACAGTTA
*
124901 CATATCAAACTATCTTATCTTTCATTTTTTGCCCCCCTTTCTTTATCT
66 CATATCAAACTATCTTATCTTTCATTTTTTGCCCCCCTTTCTTAATCT
124949 AGTTT
1 AGTTT
124954 TTTCAGCTTC
Statistics
Matches: 114, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
112 76 0.67
115 38 0.33
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (113 bp):
AGTTTCAGAAGAGCTAAAAGAAACAGGAGGATCATCATGTTCTTGTGTTATTATTTTTACAGTTA
CATATCAAACTATCTTATCTTTCATTTTTTGCCCCCCTTTCTTAATCT
Found at i:130390 original size:21 final size:21
Alignment explanation
Indices: 130366--130409 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
130356 TGCTAGCAAA
130366 TTTCCTTATTTTT-TTTCTATT
1 TTTCCTTATTTTTCTTTCT-TT
* *
130387 TTTCTTTCTTTTTCTTTCTTT
1 TTTCCTTATTTTTCTTTCTTT
130408 TT
1 TT
130410 CTCTCTCTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTCCTTATTTTTCTTTCTTT
Found at i:130398 original size:10 final size:10
Alignment explanation
Indices: 130385--130411 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
130375 TTTTTTTCTA
130385 TTTTTCTTTC
1 TTTTTCTTTC
130395 TTTTTCTTTC
1 TTTTTCTTTC
130405 TTTTTCT
1 TTTTTCT
130412 CTCTCTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:131088 original size:167 final size:167
Alignment explanation
Indices: 130715--131255 Score: 793
Period size: 167 Copynumber: 3.3 Consensus size: 167
130705 TAATATATAA
* * * * *
130715 GAAAAAAATTTAAAACTCATGAATATAAATTAATTTTTCAAAACTGATTTAATATGAATTAAATA
1 GAAAAAAATTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATGAATTAAATA
* * * *
130780 ATAATTTTTGATAAATTTTAAAAATTAAAAACCAA-AAAAATCCTTCC-AAAACATTTACGGAAT
66 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCCAAAAACATTTACGGAGT
* * *
130843 AGAAAACTCTGTATTTTGGTAACATGGAAATTTCAAG
131 AGAAAACTCTGTATTTTAGAAACATGAAAATTTCAAG
*
130880 G-AAAAAATTCAAAACTCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATGAATTAAATA
1 GAAAAAAATTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATGAATTAAATA
* *
130944 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCCAAAAATATTTACAGAGT
66 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCCAAAAACATTTACGGAGT
* * * *
131009 GGAAAACTCCGTATTTCAAAAACATGAAAATTTCAAG
131 AGAAAACTCTGTATTTTAGAAACATGAAAATTTCAAG
* * * * *
131046 GAAAAAAATGAAAAACTCATGAAAATGAATGAAATTTTGAAAAATAATTTAATATGAAATAAATA
1 GAAAAAAATTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATGAATTAAATA
* * *
131111 ATAATATATGATGAATTTTAAAAATTAAAAATCAAGAAAAATCTCTCCAAAAACATTTACGGAGT
66 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCCAAAAACATTTACGGAGT
*
131176 AGAAAACTTTGTATTTTAGAAACATGAAAATTTCAAG
131 AGAAAACTCTGTATTTTAGAAACATGAAAATTTCAAG
131213 G-AAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAA
1 GAAAAAAATT-AAAAACTCATGAAAATGAATGAATTTTTGAAAA
131256 TCGATTTGAT
Statistics
Matches: 336, Mismatches: 36, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
164 91 0.27
165 12 0.04
166 51 0.15
167 182 0.54
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.30
Consensus pattern (167 bp):
GAAAAAAATTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATGAATTAAATA
ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCCAAAAACATTTACGGAGT
AGAAAACTCTGTATTTTAGAAACATGAAAATTTCAAG
Found at i:131315 original size:167 final size:166
Alignment explanation
Indices: 130717--131329 Score: 756
Period size: 167 Copynumber: 3.7 Consensus size: 166
130707 ATATATAAGA
* * * * *
130717 AAAAAATT-TAAAACTCATGAATATAAATTAATTTTTCAAAA-CTGATTTAATATGAATTAAATA
1 AAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAATC-GATTTAATATGAATTAAATA
* * * *
130780 ATAATTTTTGATAAATTTTAAAAATTAAAAACCAA-AAAAATCCTTCC-AAAACATTTACGGAAT
65 ATAATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCC-TCCAAAAACATTTACGGAGT
* * *
130843 AGAAAACTCTGTATTTTGGTAACATGGAAATTTCAAGG
129 AGAAAACTCTGTATTTTAGAAACATGAAAATTTCAAGG
130881 AAAAAATTC-AAAACTCATGAAAATGAATGAATTTTTGAAAA-CTGATTTAATATGAATTAAATA
1 AAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAATC-GATTTAATATGAATTAAATA
* * *
130944 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCCAAAAATATTTACAGAGT
65 ATAATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAAT-CCTCCAAAAACATTTACGGAGT
* * * *
131009 GGAAAACTCCGTATTTCAAAAACATGAAAATTTCAAGG
129 AGAAAACTCTGTATTTTAGAAACATGAAAATTTCAAGG
* * * * *
131047 AAAAAAATGAAAAACTCATGAAAATGAATGAAATTTTGAAAAAT-AATTTAATATGAAATAAATA
1 AAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTG-AAAATCGATTTAATATGAATTAAATA
*
131111 ATAATATATGATGAATTTTAAAAATTAAAAATCAAGAAAAATCTCTCCAAAAACATTTACGGAGT
65 ATAATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATC-CTCCAAAAACATTTACGGAGT
*
131176 AGAAAACTTTGTATTTTAGAAACATGAAAATTTCAAGG
129 AGAAAACTCTGTATTTTAGAAACATGAAAATTTCAAGG
* * *
131214 AAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAATCGATTTGAT-GGTAATTAAATG
1 AAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAATCGATTTAATATG-AATTAAATA
* * * * *** * * *
131278 ATGATATTTAAAGAATTTTGATGCTTGAAATTCAAGAAAATTCCTCCAAAAA
65 ATAATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCCTCCAAAAA
131330 TTTTACGAGT
Statistics
Matches: 390, Mismatches: 49, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
164 91 0.23
165 9 0.02
166 69 0.18
167 217 0.56
168 4 0.01
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (166 bp):
AAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAATCGATTTAATATGAATTAAATAA
TAATATTTGATGAATTTTAAAAATTAAAAATCAAGAAAAATCCTCCAAAAACATTTACGGAGTAG
AAAACTCTGTATTTTAGAAACATGAAAATTTCAAGG
Found at i:133333 original size:20 final size:20
Alignment explanation
Indices: 133308--133345 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
133298 TTTTGACCCA
*
133308 AATGTATTGATACATTCTTC
1 AATGTATCGATACATTCTTC
133328 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
133346 GGGTTTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:133334 original size:52 final size:52
Alignment explanation
Indices: 133255--133394 Score: 199
Period size: 52 Copynumber: 2.7 Consensus size: 52
133245 TCTGGAAAGA
* *** *
133255 AAATGTATCGATACATTTTTTTTTGTATCGATGCATTCTAGGTTTTTGACCC
1 AAATGTATCGATACATTCTTCAATGTATCGATACATTCTAGGTTTTTGACCC
* * * *
133307 AAATGTATTGATACATTCTTCAATGTATCGATACATTCTGGGTTTTTGAGCT
1 AAATGTATCGATACATTCTTCAATGTATCGATACATTCTAGGTTTTTGACCC
133359 AAATGTATCGATACATTCTTCAATGTATCGATACAT
1 AAATGTATCGATACATTCTTCAATGTATCGATACAT
133395 GCAGGCTATT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 78 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (52 bp):
AAATGTATCGATACATTCTTCAATGTATCGATACATTCTAGGTTTTTGACCC
Found at i:136176 original size:79 final size:79
Alignment explanation
Indices: 135791--136222 Score: 350
Period size: 80 Copynumber: 5.4 Consensus size: 79
135781 TTTCACCATC
* * * * * * * * * *
135791 GGGATACTCCAACCCCGTTTTTATTTCCAAAATTTAAAATTATCCATCATCGAGGATGCTCAAAC
1 GGGATACTCCAACCCCATTTTTACTTCCAAAATAT-CAATTTTTCACCATCGGGGATACTCCAAC
* * *
135856 CCTATCATTCCTGAT
65 CCCATCATTTCTGAA
* * ** ** * *
135871 GGGATACTCCAACCCCATTTTTACTTTCAGAATATTGATTTTTCACCATTAGGGATACTCTAAAC
1 GGGATACTCCAACCCCATTTTTACTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACC
* * *
135936 CTATCATTTTTGAG
66 CCATCATTTCTGAA
* ** ** * *
135950 GGGATACTCCAACCCTATCCTTAC-TCCTAAAAATATCAAATTTTTCATTATTGAGGATACTCCA
1 GGGATACTCCAACCCCATTTTTACTTCC--AAAATATC-AATTTTTCACCATCGGGGATACTCCA
** *
136014 ACCTGATCATTT-TCAAA
63 ACCCCATCATTTCT-GAA
* * * * * *
136031 GGGATACTCTAACCCCAATTTTATTTCCAAAATATCAAAATTTTCTCCATCGGGGATACTCTAAC
1 GGGATACTCCAACCCCATTTTTACTTCCAAAATATC-AATTTTTCACCATCGGGGATACTCCAAC
* *
136096 CCCATTATTTCTGAG
65 CCCATCATTTCTGAA
**
136111 GGGATACTCCAACCTTATTTTTACTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAA-C
1 GGGATACTCCAACCCCATTTTTACTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACC
136175 CCATCATTTC-GAA
66 CCATCATTTCTGAA
* * * *
136188 GGGACACTCCAACCTCGTTTTCACTTCCAAAATAT
1 GGGATACTCCAACCCCATTTTTACTTCCAAAATAT
136223 TAAAATTTTC
Statistics
Matches: 278, Mismatches: 68, Indels: 15
0.77 0.19 0.04
Matches are distributed among these distances:
77 33 0.12
78 12 0.04
79 75 0.27
80 106 0.38
81 49 0.18
82 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (79 bp):
GGGATACTCCAACCCCATTTTTACTTCCAAAATATCAATTTTTCACCATCGGGGATACTCCAACC
CCATCATTTCTGAA
Found at i:139155 original size:13 final size:13
Alignment explanation
Indices: 139137--139162 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
139127 CAATTTTTTG
139137 TGTATCGATACAT
1 TGTATCGATACAT
139150 TGTATCGATACAT
1 TGTATCGATACAT
139163 ACTTGCTGTA
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:139227 original size:21 final size:21
Alignment explanation
Indices: 139201--139276 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
139191 CTGCCAAGAA
*
139201 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
139222 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
139242 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
139263 ATGTATCGATACAT
1 ATGTATCGATACAT
139277 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:139247 original size:20 final size:20
Alignment explanation
Indices: 139222--139294 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
139212 CATCTTTTTT
139222 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
139242 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
139263 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
139283 ATGTATCGATAC
1 ATGTATCGATAC
139295 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:139258 original size:41 final size:41
Alignment explanation
Indices: 139201--139294 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
139191 CTGCCAAGAA
*
139201 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
139242 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
139283 ATGTATCGATAC
1 ATGTATCGATAC
139295 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:139947 original size:36 final size:36
Alignment explanation
Indices: 139898--139968 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
139888 TCTCTCCTTT
*
139898 ATCTCCCCCTTAATCAAGTAATTCATATCAAAATTA
1 ATCTCCCCATTAATCAAGTAATTCATATCAAAATTA
139934 ATCTCCCCATTAATCAAGTAATTCATATCAAAATT
1 ATCTCCCCATTAATCAAGTAATTCATATCAAAATT
139969 TATTTGCACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.34
Consensus pattern (36 bp):
ATCTCCCCATTAATCAAGTAATTCATATCAAAATTA
Found at i:141774 original size:13 final size:13
Alignment explanation
Indices: 141756--141794 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
141746 ATAATCACCC
*
141756 TGTATCGATACAG
1 TGTATCGATACAA
141769 TGTATCGATACAA
1 TGTATCGATACAA
141782 TGTATCGATACAA
1 TGTATCGATACAA
141795 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:141805 original size:20 final size:20
Alignment explanation
Indices: 141780--141858 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
141770 GTATCGATAC
141780 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
141800 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
141825 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
141845 CATGTATCGATACA
1 AATGTATCGATACA
141859 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:143894 original size:15 final size:15
Alignment explanation
Indices: 143874--143904 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
143864 ATTTCGTTTG
*
143874 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
143889 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
143904 G
1 G
143905 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:147987 original size:13 final size:13
Alignment explanation
Indices: 147969--147994 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
147959 CAATTTTTTG
147969 TGTATCGATACAT
1 TGTATCGATACAT
147982 TGTATCGATACAT
1 TGTATCGATACAT
147995 ACTTGCTGTA
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:148059 original size:21 final size:21
Alignment explanation
Indices: 148033--148108 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
148023 CTGCCAAGAA
*
148033 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
148054 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
148074 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
148095 ATGTATCGATACAT
1 ATGTATCGATACAT
148109 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:148079 original size:20 final size:20
Alignment explanation
Indices: 148054--148126 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
148044 CATCTTTTTT
148054 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
148074 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
148095 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
148115 ATGTATCGATAC
1 ATGTATCGATAC
148127 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:148090 original size:41 final size:41
Alignment explanation
Indices: 148033--148126 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
148023 CTGCCAAGAA
*
148033 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
148074 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
148115 ATGTATCGATAC
1 ATGTATCGATAC
148127 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:149069 original size:79 final size:78
Alignment explanation
Indices: 148983--149249 Score: 338
Period size: 79 Copynumber: 3.4 Consensus size: 78
148973 TACCTTTGAT
*
148983 GATGAAAAATTTAATATTTTGAAAATAAAAACGGGATTAGAGTATCTCCTCAGAAATAACAGGGT
1 GATGAAAAATTTAATATTTCGAAAATAAAAACGGG-TTAGAGTATCTCCTCAGAAATAACAGGGT
149048 TGGAGTATCCCCGA
65 TGGAGTATCCCCGA
* * * * * * * *
149062 GTTGAAAATTTTAATATTTCAAAAATAAATACAGGTTGGAGTATCCCCTCAGAAATAACGGGGTT
1 GATGAAAAATTTAATATTTCGAAAATAAAAACGGGTTAGAGTATCTCCTCAGAAATAACAGGGTT
*
149127 GGAGTATCCCCAA
66 GGAGTATCCCCGA
* * * * *
149140 GATGAAAAATTTAATATTT-TAGAAATAAAAATGAGGTTAGAGTATCTCTTCAAAAATAATAGGG
1 GATGAAAAATTTAATATTTCGA-AAATAAAAACG-GGTTAGAGTATCTCCTCAGAAATAACAGGG
* *
149204 TTAGAGTATCCCTGA
64 TTGGAGTATCCCCGA
*
149219 GATAAAAAATTTAATATTTCGAAAATAAAAA
1 GATGAAAAATTTAATATTTCGAAAATAAAAA
149250 AGGGGTTGGA
Statistics
Matches: 158, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
77 1 0.01
78 64 0.41
79 92 0.58
80 1 0.01
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.29
Consensus pattern (78 bp):
GATGAAAAATTTAATATTTCGAAAATAAAAACGGGTTAGAGTATCTCCTCAGAAATAACAGGGTT
GGAGTATCCCCGA
Found at i:149262 original size:51 final size:51
Alignment explanation
Indices: 149201--149318 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
149191 AAAAATAATA
* * *
149201 GGGTTAGAGTATCCCTGAGATAAAAAATTTAATATTTCGAAAATAAAAAAG
1 GGGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTCAAAAATAAAAAAG
* * * *
149252 GGGTTGGAGTACCCCCGAGATGAAAAATTTAATATTTCAAAAATAACAATG
1 GGGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTCAAAAATAAAAAAG
*
149303 TGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
149319 TTGGAAATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGAGATAAAAAATTTAATATTTCAAAAATAAAAAAG
Found at i:149279 original size:130 final size:129
Alignment explanation
Indices: 149121--149391 Score: 352
Period size: 130 Copynumber: 2.1 Consensus size: 129
149111 CAGAAATAAC
* * *
149121 GGGGTTGGAGTATCCCCAAGATGAAAAATTTAATATTTTAGAAATAAAAATGAGGTTAGAGTAT-
1 GGGGTTGGAGTACCCCCAAGATGAAAAATTTAATATTTCAAAAATAAAAATGAGGTTAGAGTATC
* *
149185 CTCTTCAAAAATAATAGGG-TTAGAGTATCC-CTGAGATAAAAAATTTAATATTTCGAAAA-TAA
66 CCCTT-AAAAATAAT-GGGATTAGAGTA-CCTCCGAGATAAAAAATTTAATATTT--AAAATTAA
149247 AAAA
126 AAAA
* * * *
149251 GGGGTTGGAGTACCCCCGAGATGAAAAATTTAATATTTCAAAAATAACAATGTGGTTGGAGTATC
1 GGGGTTGGAGTACCCCCAAGATGAAAAATTTAATATTTCAAAAATAAAAATGAGGTTAGAGTATC
** * *
149316 CCCTTGGAAATAATGGGATTAGAGTACCTCCGAGATGAAAAATTTAATATTTAAAATTAAAAAT
66 CCCTTAAAAATAATGGGATTAGAGTACCTCCGAGATAAAAAATTTAATATTTAAAATTAAAAAA
149380 GGGGTTGGAGTA
1 GGGGTTGGAGTA
149392 TCCCTTCAGA
Statistics
Matches: 124, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
128 4 0.03
129 23 0.19
130 93 0.75
131 4 0.03
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.29
Consensus pattern (129 bp):
GGGGTTGGAGTACCCCCAAGATGAAAAATTTAATATTTCAAAAATAAAAATGAGGTTAGAGTATC
CCCTTAAAAATAATGGGATTAGAGTACCTCCGAGATAAAAAATTTAATATTTAAAATTAAAAAA
Found at i:149349 original size:79 final size:78
Alignment explanation
Indices: 149258--149408 Score: 232
Period size: 78 Copynumber: 1.9 Consensus size: 78
149248 AAAGGGGTTG
* * *
149258 GAGTACCCCCGAGATGAAAAATTTAATATTTCAAAAATAACAATGTGGTTGGAGTATCCCCTT-G
1 GAGTACCCCCGAGATGAAAAATTTAATATTT-AAAAATAAAAATGGGGTTGGAGTAT-CCCTTCA
149322 GAAATAATGGGATTA
64 GAAATAATGGGATTA
* *
149337 GAGTACCTCCGAGATGAAAAATTTAATATTTAAAATTAAAAATGGGGTTGGAGTATCCCTTCAGA
1 GAGTACCCCCGAGATGAAAAATTTAATATTTAAAAATAAAAATGGGGTTGGAGTATCCCTTCAGA
149402 AATAATG
66 AATAATG
149409 AGGTTGGAGT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
77 5 0.08
78 31 0.47
79 30 0.45
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (78 bp):
GAGTACCCCCGAGATGAAAAATTTAATATTTAAAAATAAAAATGGGGTTGGAGTATCCCTTCAGA
AATAATGGGATTA
Found at i:151384 original size:35 final size:33
Alignment explanation
Indices: 151338--151412 Score: 123
Period size: 35 Copynumber: 2.2 Consensus size: 33
151328 TCCGATGATG
151338 ATGAAGAAGTCACAAATCTATGTCTTATGGCGCTC
1 ATGAAGAAGTCACAAATCTATGTCTTAT-G-GCTC
*
151373 ATGAATAAGTCACAAATCTATGTCTTATGGCTC
1 ATGAAGAAGTCACAAATCTATGTCTTATGGCTC
151406 ATGAAGA
1 ATGAAGA
151413 GTCGGAGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 10 0.26
34 1 0.03
35 27 0.71
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (33 bp):
ATGAAGAAGTCACAAATCTATGTCTTATGGCTC
Done.