Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01003300.1 Kokia drynarioides strain JFW-HI SEQ_115979, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60283
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Warning! 66 characters in sequence are not A, C, G, or T
Found at i:200 original size:62 final size:59
Alignment explanation
Indices: 87--203 Score: 171
Period size: 62 Copynumber: 1.9 Consensus size: 59
77 ATCACTTTAA
* * *
87 TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAAATTTAATATTAAATTT
1 TATTAAATTAATAGAATATTTATCAAGATAAACATTAAATTAAATTCAATATTAAATTT
*
146 TATTAGATTAATAGAATATTTATCTATAAGATAAACATTAAATTAAATTCAATATTAA
1 TATTAAATTAATAGAATATTTATC---AAGATAAACATTAAATTAAATTCAATATTAA
204 GATAATCATT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.43
62 29 0.57
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (59 bp):
TATTAAATTAATAGAATATTTATCAAGATAAACATTAAATTAAATTCAATATTAAATTT
Found at i:205 original size:29 final size:30
Alignment explanation
Indices: 172--230 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
162 TATTTATCTA
172 TAAGATAAACA-TTAA-ATTAAATTCAATAT
1 TAAGATAAACATTTAATATTAAATT-AATAT
*
201 TAAGATAATCATTTTAATATTAAATTAATA
1 TAAGATAAACA-TTTAATATTAAATTAATA
231 AAATACTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 10 0.38
31 8 0.31
32 8 0.31
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (30 bp):
TAAGATAAACATTTAATATTAAATTAATAT
Found at i:7825 original size:17 final size:17
Alignment explanation
Indices: 7803--7835 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7793 CTCAAGCATT
*
7803 AAAAAAGAAAAAAAACC
1 AAAAAAAAAAAAAAACC
7820 AAAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAC
7836 ATATTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAACC
Found at i:10835 original size:97 final size:92
Alignment explanation
Indices: 10722--10915 Score: 291
Period size: 97 Copynumber: 2.1 Consensus size: 92
10712 TTTTTATCTC
10722 AAAATTGAGGCATTAACTTACTAGGTGCGGTTTTTCTCTTCAAA-CAGAAATAACCGAACATTCT
1 AAAATTGAGGCATTAACTTACTAGGTGCGGTTTTTCTCTTCAAACCA-AAATAACCGAACATT-T
10786 TTTTTTTTAAAAAAAAATTTAAAGTTTGGAATA
64 TTTTTTTT----AAAAATTTAAAGTTTGGAATA
* *
10819 AAAATTGAGGCCTTAACTTACTAGGTGCGGTTTTTCTCTTCAAACCAAAATAATCGAACATTTTT
1 AAAATTGAGGCATTAACTTACTAGGTGCGGTTTTTCTCTTCAAACCAAAATAACCGAACATTTTT
* *
10884 TTTTTTAAATATTTCAAGTTTGGAATA
66 TTTTTTAAAAATTTAAAGTTTGGAATA
10911 AAAAT
1 AAAAT
10916 CAAGAGTGCT
Statistics
Matches: 92, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
92 24 0.26
96 9 0.10
97 57 0.62
98 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (92 bp):
AAAATTGAGGCATTAACTTACTAGGTGCGGTTTTTCTCTTCAAACCAAAATAACCGAACATTTTT
TTTTTTAAAAATTTAAAGTTTGGAATA
Found at i:11584 original size:58 final size:58
Alignment explanation
Indices: 11514--11633 Score: 154
Period size: 58 Copynumber: 2.1 Consensus size: 58
11504 ACATTAGTCG
*
11514 CATTAATCACATGAGT-TCTT-AAGCATTTAACACAACACATATTAATCACATTTAATCA
1 CATTAATCACATGAATAT-TTCAA-CATTTAACACAACACATATTAATCACATTTAATCA
* * ** *
11572 CATTAGTCACATGAATATTTCAACATTTATCACATTACATATTAATCACATTTAGTCA
1 CATTAATCACATGAATATTTCAACATTTAACACAACACATATTAATCACATTTAATCA
11630 CATT
1 CATT
11634 TGATCAAATT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
58 51 0.94
59 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (58 bp):
CATTAATCACATGAATATTTCAACATTTAACACAACACATATTAATCACATTTAATCA
Found at i:11645 original size:68 final size:68
Alignment explanation
Indices: 11549--11695 Score: 231
Period size: 68 Copynumber: 2.1 Consensus size: 68
11539 TTTAACACAA
* *
11549 CACATATTAATCACATTTAATCACATTAGTCACATGAATATTTCAACATTTATCACATTACATAT
1 CACAT-TTAATCACATTTAATCAAATTAGTCACATGAATATTTCAACATTTATCACATCACATAT
11614 TAAT
65 TAAT
* * *
11618 CACATTTAGTCACATTTGATCAAATTAGTCACATGAATATTTCAACATTTATCATATCACATATT
1 CACATTTAATCACATTTAATCAAATTAGTCACATGAATATTTCAACATTTATCACATCACATATT
11683 AAT
66 AAT
*
11686 TACATTTAAT
1 CACATTTAAT
11696 AATAGTTTGG
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
68 66 0.93
69 5 0.07
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (68 bp):
CACATTTAATCACATTTAATCAAATTAGTCACATGAATATTTCAACATTTATCACATCACATATT
AAT
Found at i:16546 original size:18 final size:19
Alignment explanation
Indices: 16523--16571 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
16513 AAAATTAAGT
16523 GAATAAAAGCA-AGGTGAG-
1 GAATAAAAGCATAGG-GAGA
* *
16541 GGATAAAATCATAGGGAGA
1 GAATAAAAGCATAGGGAGA
16560 GAATAAAAGCAT
1 GAATAAAAGCAT
16572 TGAATGAGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.51, C:0.06, G:0.29, T:0.14
Consensus pattern (19 bp):
GAATAAAAGCATAGGGAGA
Found at i:16599 original size:16 final size:17
Alignment explanation
Indices: 16560--16600 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
16550 CATAGGGAGA
16560 GAAT-AAAAGCATTGAAT
1 GAATGAAAAGCATT-AAT
*
16577 GAGTGAAAAGCATT-AT
1 GAATGAAAAGCATTAAT
16593 GAATGAAA
1 GAATGAAA
16601 GAGTGACTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 9 0.43
17 3 0.14
18 9 0.43
ACGTcount: A:0.51, C:0.05, G:0.22, T:0.22
Consensus pattern (17 bp):
GAATGAAAAGCATTAAT
Found at i:21783 original size:56 final size:57
Alignment explanation
Indices: 21713--21834 Score: 169
Period size: 56 Copynumber: 2.2 Consensus size: 57
21703 TTCCCTTCTA
* * *
21713 ATTA-TTTTCTCAAATTTTCTCAGA-TGTTCTCTCTTTCCAAACACCCATTTTCTCTT
1 ATTATTTTTCTCAAATTTTCTCAAACT-TTCTCTCTTTCCAAACACCCATTTTCCCTC
*
21769 ATTATTTTTC-CAAATTTTCTCAAACTTTCTCTCTTTCCAAACATCCATTTTCCCTC
1 ATTATTTTTCTCAAATTTTCTCAAACTTTCTCTCTTTCCAAACACCCATTTTCCCTC
21825 ATTAATTTTT
1 ATT-ATTTTT
21835 TTTTTAGATT
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
56 47 0.80
57 12 0.20
ACGTcount: A:0.23, C:0.26, G:0.02, T:0.49
Consensus pattern (57 bp):
ATTATTTTTCTCAAATTTTCTCAAACTTTCTCTCTTTCCAAACACCCATTTTCCCTC
Found at i:24019 original size:24 final size:23
Alignment explanation
Indices: 23971--24035 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
23961 TATATTAATT
23971 TATTTTTAAAATATTAATATAAA
1 TATTTTTAAAATATTAATATAAA
* *
23994 TATTTTTCAATAATA-TATTATGAA
1 TATTTTT-AA-AATATTAATATAAA
*
24018 TATTATTTAAAATTTTAA
1 TATT-TTTAAAATATTAA
24036 AACTATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
23 10 0.29
24 17 0.50
25 7 0.21
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TATTTTTAAAATATTAATATAAA
Found at i:24090 original size:34 final size:31
Alignment explanation
Indices: 24052--24125 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 31
24042 TATTGTTAAG
*
24052 ATTTATTATTAA-AATAAAATTATAAAATTAAATA
1 ATTTATTATAAATAAT-AAATT-T-AAATT-AATA
*
24086 ATTTATTA-AAATAATAAATTTATATTAATA
1 ATTTATTATAAATAATAAATTTAAATTAATA
24116 ATTTATTATA
1 ATTTATTATA
24126 TTATTAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
30 12 0.33
31 5 0.14
32 1 0.03
33 7 0.19
34 11 0.31
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (31 bp):
ATTTATTATAAATAATAAATTTAAATTAATA
Found at i:28798 original size:22 final size:22
Alignment explanation
Indices: 28755--28798 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
28745 TCGTACTTTA
* *
28755 TTTTCAATCTTCTTTTGAAAAT
1 TTTTCAATCTTCATTTAAAAAT
28777 TTTTCAA-CTTCATTTAATAAAT
1 TTTTCAATCTTCATTTAA-AAAT
28799 AAATTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.32, C:0.14, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTTCAATCTTCATTTAAAAAT
Found at i:30017 original size:5 final size:5
Alignment explanation
Indices: 30007--30031 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
29997 ATGTTGAAGG
30007 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
30032 TGTTTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:36620 original size:17 final size:17
Alignment explanation
Indices: 36598--36636 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
36588 AGATGGAGAA
* *
36598 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
36615 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
36632 CTTGT
1 CTTGT
36637 CAAGGTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:38265 original size:19 final size:18
Alignment explanation
Indices: 38217--38272 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 18
38207 ATGCAAAAAT
38217 ACAATAAATACATGAATAATA
1 ACAATAAATA-AT-AAT-ATA
38238 A-AATGAAATAATAATATA
1 ACAAT-AAATAATAATATA
38256 ACAATAAAATAATAATA
1 ACAAT-AAATAATAATA
38273 AGAATAGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 4 0.12
19 17 0.53
20 5 0.16
21 6 0.19
ACGTcount: A:0.66, C:0.05, G:0.04, T:0.25
Consensus pattern (18 bp):
ACAATAAATAATAATATA
Found at i:38325 original size:20 final size:19
Alignment explanation
Indices: 38298--38335 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
38288 ACAATGGTAA
38298 TAACATAATAATAATAATT
1 TAACATAATAATAATAATT
*
38317 TAACTATAATAATATTAAT
1 TAAC-ATAATAATAATAAT
38336 AACATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
TAACATAATAATAATAATT
Found at i:38503 original size:11 final size:11
Alignment explanation
Indices: 38481--38524 Score: 54
Period size: 13 Copynumber: 3.8 Consensus size: 11
38471 TCAAAATTAT
38481 AAAAATAAATA
1 AAAAATAAATA
38492 ACAAAA-AAATA
1 A-AAAATAAATA
38503 AAAAATAAAGATA
1 AAAAAT-AA-ATA
38516 AAAAATAAA
1 AAAAATAAA
38525 CAAATACGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
10 4 0.14
11 8 0.28
12 8 0.28
13 9 0.31
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:38507 original size:7 final size:7
Alignment explanation
Indices: 38481--38530 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
38471 TCAAAATTAT
38481 AAAAATA
1 AAAAATA
38488 AATAACA-A
1 AA-AA-ATA
38496 AAAAATA
1 AAAAATA
38503 AAAAAT-
1 AAAAATA
*
38509 AAAGATA
1 AAAAATA
38516 AAAAATA
1 AAAAATA
38523 AACAAATA
1 AA-AAATA
38531 CGCAAAGGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
6 6 0.17
7 19 0.53
8 10 0.28
9 1 0.03
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:38516 original size:13 final size:12
Alignment explanation
Indices: 38481--38524 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
38471 TCAAAATTAT
38481 AAAAAT-AAATA
1 AAAAATAAAATA
*
38492 ACAAA-AAAATA
1 AAAAATAAAATA
38503 AAAAATAAAGATA
1 AAAAATAAA-ATA
38516 AAAAATAAA
1 AAAAATAAA
38525 CAAATACGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 13 0.46
12 3 0.11
13 12 0.43
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:40462 original size:50 final size:50
Alignment explanation
Indices: 40406--40666 Score: 152
Period size: 50 Copynumber: 5.2 Consensus size: 50
40396 AATCTGATCC
* * *
40406 CTGCAACTTCAAGGATATAGGATTTAGTGTTGTAGCTTCACTCTATTACA
1 CTGCAACTTCAAGGATATAGGATTTAGTGTTGTAGCTTTAATCTATTCCA
* * * ** * *
40456 CTGCAACTTCAGTAAGAT-TAAGATTTACTACTGTAGTTTTAATATGA-TCCA
1 CTGCAACTTCA--AGGATATAGGATTTAGTGTTGTAGCTTTAATCT-ATTCCA
* * * *
40507 CTGCAACTTC-AGTGATATAGGATTTGGTGTGGTAGCTTTATTCCATTCCA
1 CTGCAACTTCAAG-GATATAGGATTTAGTGTTGTAGCTTTAATCTATTCCA
* * * ** * * * *
40557 CTGCAAATTCAAGGAGATTGAGATTT-GCTACTGTAGTTTTAATCCAATCTA
1 CTGCAACTTCAAGGATATAG-GATTTAG-TGTTGTAGCTTTAATCTATTCCA
* ** * * * * *
40608 CTGTAACTTCGGGGAAATAGGATTTGGTGATGTAGCTTCACTCTATTCCA
1 CTGCAACTTCAAGGATATAGGATTTAGTGTTGTAGCTTTAATCTATTCCA
*
40658 CTGTAACTT
1 CTGCAACTT
40667 TAGGGAGATT
Statistics
Matches: 156, Mismatches: 45, Indels: 20
0.71 0.20 0.09
Matches are distributed among these distances:
48 1 0.01
49 4 0.03
50 76 0.49
51 70 0.45
52 5 0.03
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (50 bp):
CTGCAACTTCAAGGATATAGGATTTAGTGTTGTAGCTTTAATCTATTCCA
Found at i:40529 original size:101 final size:100
Alignment explanation
Indices: 40388--42399 Score: 1167
Period size: 101 Copynumber: 19.8 Consensus size: 100
40378 TTGCCACTTT
* * * *
40388 TAGTTTTAAATCTGATCC-CTGCAACTTCAAGGATATAGGATTTAGTGTTGTAGCTTCACTCTAT
1 TAGTTTT-AATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCAT
* * * * * *
40452 TACACTGCAACTTCAGTAAGATTAAGATTTACTACTG
65 TCCACTACAACTTCAG-GAGATTGAGATATGCTACTG
* * * * * *
40489 TAGTTTTAATATGATCCACTGCAACTTCAGTGATATAGGATTTGGTGTGGTAGCTTTATTCCATT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* * *
40554 CCACTGCAAATTCAAGGAGATTGAGATTTGCTACTG
66 CCACTACAACTTC-AGGAGATTGAGATATGCTACTG
** * * * * * * *
40590 TAGTTTTAATCCAATCTACTGTAACTTCGGGGAAATAGGATTTGGTGATGTAGCTTCACTCTATT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
** * * *
40655 CCACTGTAACTTTAGGGAGATTGAGATCTGCTATTG
66 CCACTACAACTTCA-GGAGATTGAGATATGCTACTG
* * ** * ** * * * *
40691 TAGTCTTAATCTAATTTATTATAATTTTAGGGTTATAAGATTTGGTGTTGTAAC-T---T-CATT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* * * * *
40751 CCACTATAACTTTAAGGAGATTGAGATCTACTATTG
66 CCACTACAAC-TTCAGGAGATTGAGATATGCTACTG
* * * * * *
40787 TAGTTTTACTCCGATTCGCTGTAACTTTAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
**
40852 CCACTACAACTTCAGGGAGATTGAGATCCGCTACTG
66 CCACTACAACTTCA-GGAGATTGAGATATGCTACTG
* * *
40888 TAGTTTTAAT-TCGATCCACTACAACTTCAGGGATATAGGATTTAGTGTTGTAACTTTACTCCAT
1 TAGTTTTAATCT-GATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCAT
*
40952 TCCACTACTACTTCAGGGAGATTGAGATATGCTACTG
65 TCCACTACAACTTCA-GGAGATTGAGATATGCTACTG
** * * * *
40989 TAGTTTTAATCCAATCCACTGGAACTTTAAGGATATAGGATTAGGTGTTGTAACTTCACTCCATT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* * * *
41054 CCTCTATAATTTCAGGCAAATTGAGAT-TAGCTACTG
66 CCACTACAACTTCAGG-AGATTGAGATAT-GCTACTG
* * * *
41090 TAGTTTTAATATGATCCACTGCAACTTCAAGGATATAGGACTTGGTGTTGTAACTT-ACTCTATT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* * * *
41154 CTATTACAACTTCAAGAAGATTGAGATATGTTACTG
66 CCACTACAACTTC-AGGAGATTGAGATATGCTACTG
** * * ** * *
41190 TAGTTTTAATCCAATCCATTGTAACTTTGGGGATATAGGATTTGGTGTTGTAATTTCACTCCGTT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* ** * *
41255 TCACTTTAACTTCAGGGAGATTGAGATATGTTACTA
66 CCACTACAACTTCA-GGAGATTGAGATATGCTACTG
* * * * * *
41291 TAG--CTATTC-GATCTACTACAACTTCAAGGATATAGGATTTAGTGTTGTAACTTCACTCCATT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* * *
41353 CCACTACAAGTTCAAGGAGATTTAGATATGCTACTA
66 CCACTACAACTTC-AGGAGATTGAGATATGCTACTG
* * * * * * * * ** * * *
41389 TAGTTTTAATCCGATCCACTACAACTTTAGAGAGATTGAGATTTGCTATTGTAGTTTTAATTC-T
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAG-GATTTGGTGTTGTAACTTCACTCCAT
** * * * * **
41453 ATCCACTGTAACTTTAGG-GATAT-AGGGTTTGGTGTTG
65 -TCCACTACAACTTCAGGAGAT-TGA-GATATGCTACTG
* * * * * * * * * *
41490 TAATTTCACT-TCATTCTACTACAACTTCAAGGATATATGATTTGGTGTTATAGCTTCACTCCAT
1 TAGTTTTAATCTGA-TCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCAT
* * ** * * * *
41554 TCAATTGTAACTTTAGGGAGATTGAGGTCTGTTACTG
65 TCCACTACAACTTCA-GGAGATTGAGATATGCTACTG
* * ** * ** * * **
41591 CAGTTTTAATCCGATCCACTATAACTTCAAGTTTAAAGGATTTGGTGTTCG-AGCTTCTTTCCAT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTT-GTAACTTCACTCCAT
* *
41655 TCCACTAAAACTTCAAAGAGATTGAGAT-TAGCTACTG
65 TCCACTACAACTTC-AGGAGATTGAGATAT-GCTACTG
* * * * * * * *
41692 TTGTTTTAATTTGATCCATTACAACTTCAGGGTTATAGGATTTGGTGTTCTAGCTTCACTCTATT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* * *
41757 CCACTATAACTTTAGGGAGATTGAGATCCT-CTACTG
66 CCACTACAACTTCA-GGAGATTGAGAT-ATGCTACTG
** ** * *
41793 TAGTTTTAATCCAATCCACTGCAACTTCAACGATATTGGATTTGGTGTTGTAACTTCACTCCAGT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* ** *** ** * * *
41858 CTACTGTAACTTCACTCCTG-TCCAG-TATAACTTCGGG
66 CCACTACAACTTCA--GGAGATTGAGATAT-GCTAC-TG
* * * * * ** * ** **
41895 GAGATTGAGATCTG-T-TACTGTAGTTTTAACTCGATCCACTACAACTTCATGGATATAGGATTT
1 TAGTTTTA-ATCTGATCCACTGCA-ACTTCA-GGGAT--A-TAGGA-TT--TGG---T--G--TT
** * * * * * *
41958 GT-TGTAGTAACTTCATTTCATTCCATTGCAAC-TCTAGGGAGATAGAGATATGCTACTA
50 GTAACT--TCACTCCATT-----CCACTACAACTTC-A-GGAGATTGAGATATGCTACTG
* ** * * * *
42016 TAGTTTTAATCCGATCCACTATAACTTTAGGGATATAGGATTAGGTGTTGTAACTTTACTCTATT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* ** * * *
42081 ACACTGTAACTTCAGGGAGATTGAGATTTACTACTA
66 CCACTACAACTTCA-GGAGATTGAGATATGCTACTG
* ** * * * * *
42117 TAATTTTAATCCAATCCACTGCAACTTGAAGGATATAGAATTTGGTGTGGTAGCTTCACTCCATT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* * * *
42182 CCACTGCAACTTTAGGGAGATTGAGATCTGCTATTG
66 CCACTACAACTTCA-GGAGATTGAGATATGCTACTG
* * * * * * *
42218 TAGTTTTAATCCGATCCACTACAACTTCAGAGATATAAGATTTGGTATTGTAGCTTCACTTCATT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
* *
42283 CCACTACAAGTTCTGGGAGATTGAGATATGCTACTG
66 CCACTACAACTTC-AGGAGATTGAGATATGCTACTG
* * * ** * *
42319 TAGTTTTAATCTAATCCATTGTAACTTCAGGGATATAATATTTGGTGTTGTAAGTTCACTCTATT
1 TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
42384 CCACTACAACTTCAGG
66 CCACTACAACTTCAGG
42400 GATATAGGAC
Statistics
Matches: 1470, Mismatches: 367, Indels: 149
0.74 0.18 0.08
Matches are distributed among these distances:
96 75 0.05
97 5 0.00
98 73 0.05
99 6 0.00
100 139 0.09
101 1032 0.70
102 47 0.03
103 8 0.01
105 1 0.00
106 9 0.01
107 6 0.00
108 1 0.00
109 4 0.00
111 1 0.00
112 1 0.00
114 3 0.00
115 1 0.00
116 6 0.00
117 10 0.01
118 1 0.00
120 7 0.00
121 12 0.01
122 19 0.01
123 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (100 bp):
TAGTTTTAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT
CCACTACAACTTCAGGAGATTGAGATATGCTACTG
Found at i:40651 original size:202 final size:200
Alignment explanation
Indices: 40418--42397 Score: 1329
Period size: 202 Copynumber: 9.7 Consensus size: 200
40408 GCAACTTCAA
* * * * ** ** * * *
40418 GGATATAGGATTTAGTGTTGTAGCTTCACTCTATTACACTGCAACTTCAGTAAGATTAAGATTTA
1 GGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCACTATAACTTCAGGGAGATTGAGATCTG
* * * *
40483 CTACTGTAGTTTTAATATGATCCACTGCAACTTCAGTGATATAGGATTTGGTGTGGTAGCTTTAT
66 CTACTGTAGTTTTAAT-TGATCCACTACAACTTCAG-GATATAGGATTTGGTGTTGTAACTTTAC
* * * *
40548 TCCATTCCACTGCAAATTCAAGGAGATTGAGATTTGCTACTGTAGTTTTAATCCAATCTACTGTA
129 TCCATTCCACTACAACTTCAAGGAGATTGAGATATGCTACTGTAGTTTTAATCCAATCCACTGTA
**
40613 ACTTCGG
194 ACTTTAG
* * * * * *
40620 GGAAATAGGATTTGGTGATGTAGCTTCACTCTATTCCACTGTAACTTTAGGGAGATTGAGATCTG
1 GGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCACTATAACTTCAGGGAGATTGAGATCTG
* * * ** * * * * * *
40685 CTATTGTAGTCTTAATCTAATTTATTATAATTTTAGGGTTATAAGATTTGGTGTTGTAAC--T--
66 CTACTGTAGTTTTAAT-TGATCCACTACAACTTCA-GGATATAGGATTTGGTGTTGTAACTTTAC
* * * * * * * * *
40746 T-CATTCCACTATAACTTTAAGGAGATTGAGATCTACTATTGTAGTTTTACTCCGATTCGCTGTA
129 TCCATTCCACTACAACTTCAAGGAGATTGAGATATGCTACTGTAGTTTTAATCCAATCCACTGTA
40810 ACTTTAG
194 ACTTTAG
* *
40817 GGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCACTACAACTTCAGGGAGATTGAGATCCG
1 GGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCACTATAACTTCAGGGAGATTGAGATCTG
*
40882 CTACTGTAGTTTTAATTCGATCCACTACAACTTCAGGGATATAGGATTTAGTGTTGTAACTTTAC
66 CTACTGTAGTTTTAATT-GATCCACTACAACTTCA-GGATATAGGATTTGGTGTTGTAACTTTAC
* * *
40947 TCCATTCCACTACTACTTCAGGGAGATTGAGATATGCTACTGTAGTTTTAATCCAATCCACTGGA
129 TCCATTCCACTACAACTTCAAGGAGATTGAGATATGCTACTGTAGTTTTAATCCAATCCACTGTA
*
41012 ACTTTAA
194 ACTTTAG
* * * * *
41019 GGATATAGGATTAGGTGTTGTAACTTCACTCCATTCCTCTATAATTTCAGGCAAATTGAGAT-TA
1 GGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCACTATAACTTCAGGGAGATTGAGATCT-
* *
41083 GCTACTGTAGTTTTAATATGATCCACTGCAACTTCAAGGATATAGGACTTGGTGTTGTAAC-TTA
65 GCTACTGTAGTTTTAAT-TGATCCACTACAACTTC-AGGATATAGGATTTGGTGTTGTAACTTTA
* * * * * *
41147 CTCTATTCTATTACAACTTCAAGAAGATTGAGATATGTTACTGTAGTTTTAATCCAATCCATTGT
128 CTCCATTCCACTACAACTTCAAGGAGATTGAGATATGCTACTGTAGTTTTAATCCAATCCACTGT
*
41212 AACTTTGG
193 AACTTTAG
* * * * *
41220 GGATATAGGATTTGGTGTTGTAATTTCACTCCGTTTCACTTTAACTTCAGGGAGATTGAGATATG
1 GGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCACTATAACTTCAGGGAGATTGAGATCTG
* * * * * *
41285 TTACTATAG--CT-ATTCGATCTACTACAACTTCAAGGATATAGGATTTAGTGTTGTAACTTCAC
66 CTACTGTAGTTTTAATT-GATCCACTACAACTTC-AGGATATAGGATTTGGTGTTGTAACTTTAC
* * * * **
41347 TCCATTCCACTACAAGTTCAAGGAGATTTAGATATGCTACTATAGTTTTAATCCGATCCACTACA
129 TCCATTCCACTACAACTTCAAGGAGATTGAGATATGCTACTGTAGTTTTAATCCAATCCACTGTA
41412 ACTTTAG
194 ACTTTAG
* * * * * ** * * * * * * * * *
41419 AGAGATTGAGATTTGCTATTGTAGTTTTAATTC-TATCCACTGTAACTTTAGGGATATAG-GGTT
1 GGATATAG-GATTTGGTGTTGTAACTTCACTCCAT-TCCACTATAACTTCAGGGAGATTGAGATC
* ** * * * * * * * * *
41482 TGGTGTTGTAATTTCACTTCATTCTACTACAACTTCAAGGATATATGATTTGGTGTTATAGCTTC
64 TGCTACTGTAGTTTTAATTGA-TCCACTACAACTTC-AGGATATAGGATTTGGTGTTGTAACTTT
* * ** * * * * * * * *
41547 ACTCCATTCAATTGTAACTTTAGGGAGATTGAGGTCTGTTACTGCAGTTTTAATCCGATCCACTA
127 ACTCCATTCCACTACAACTTCAAGGAGATTGAGATATGCTACTGTAGTTTTAATCCAATCCACTG
* *
41612 TAACTTCAA
192 TAACTTTAG
** * * ** * **
41621 GTTTAAAGGATTTGGTGTTCG-AGCTTCTTTCCATTCCACTAAAACTTCAAAGAGATTGAGAT-T
1 GGATATAGGATTTGGTGTT-GTAACTTCACTCCATTCCACTATAACTTCAGGGAGATTGAGATCT
* * * * * *
41684 AGCTACTGTTGTTTTAATTTGATCCATTACAACTTCAGGGTTATAGGATTTGGTGTTCTAGCTTC
65 -GCTACTGTAGTTTTAA-TTGATCCACTACAACTTCA-GGATATAGGATTTGGTGTTGTAACTTT
* * * * *
41749 ACTCTATTCCACTATAACTTTAGGGAGATTGAGATCCT-CTACTGTAGTTTTAATCCAATCCACT
127 ACTCCATTCCACTACAACTTCAAGGAGATTGAGAT-ATGCTACTGTAGTTTTAATCCAATCCACT
* * *
41813 GCAACTTCAA
191 GTAACTTTAG
* * * * * * *
41823 CGATATTGGATTTGGTGTTGTAACTTCACTCCAGTCTACTGTAACTTCACTCCTGTCCAGTATAA
1 GGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCACTATAACTTCA-----G----GGA-GA
** * * * * * ***
41888 CTTCGGGGAGAT-TGAGATCTGTTACTGTAGTT--TTAACTCGA-T-CCACTACAACTTCATGGA
56 -TT----GAGATCTGCTA-CTG-TA--GT-TTTAATTGA-TCCACTACAACTTCAGGAT-AT--A
* * * * * * * * *
41948 TATAGGATTTGTTGTAGTAACTTCATTTCATTCCATTGCAAC-TCTAGGGAGATAGAGATATGCT
107 ----GGATTTGGTGTTGTAACTTTACTCCATTCCACTACAACTTC-AAGGAGATTGAGATATGCT
* * *
42012 ACTATAGTTTTAATCCGATCCACTATAACTTTAG
167 ACTGTAGTTTTAATCCAATCCACTGTAACTTTAG
* * * * * * *
42046 GGATATAGGATTAGGTGTTGTAACTTTACTCTATTACACTGTAACTTCAGGGAGATTGAGATTTA
1 GGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCACTATAACTTCAGGGAGATTGAGATCTG
* * ** * * * * * *
42111 CTACTATAATTTTAATCCAATCCACTGCAACTTGAAGGATATAGAATTTGGTGTGGTAGCTTCAC
66 CTACTGTAGTTTTAAT-TGATCCACTACAACTT-CAGGATATAGGATTTGGTGTTGTAACTTTAC
* * * * * * **
42176 TCCATTCCACTGCAACTTTAGGGAGATTGAGATCTGCTATTGTAGTTTTAATCCGATCCACTACA
129 TCCATTCCACTACAACTTCAAGGAGATTGAGATATGCTACTGTAGTTTTAATCCAATCCACTGTA
*
42241 ACTTCAG
194 ACTTTAG
* * * * * * * * *
42248 AGATATAAGATTTGGTATTGTAGCTTCACTTCATTCCACTACAAGTTCTGGGAGATTGAGATATG
1 GGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCACTATAACTTCAGGGAGATTGAGATCTG
* * ** ** * *
42313 CTACTGTAGTTTTAATCTAATCCATTGTAACTTCAGGGATATAATATTTGGTGTTGTAAGTTCAC
66 CTACTGTAGTTTTAAT-TGATCCACTACAACTTCA-GGATATAGGATTTGGTGTTGTAACTTTAC
*
42378 TCTATTCCACTACAACTTCA
129 TCCATTCCACTACAACTTCA
42398 GGGATATAGG
Statistics
Matches: 1387, Mismatches: 325, Indels: 132
0.75 0.18 0.07
Matches are distributed among these distances:
196 1 0.00
197 160 0.12
198 41 0.03
199 78 0.06
200 38 0.03
201 164 0.12
202 708 0.51
203 9 0.01
204 2 0.00
205 1 0.00
206 5 0.00
207 5 0.00
208 13 0.01
209 4 0.00
211 1 0.00
212 3 0.00
213 3 0.00
214 2 0.00
216 4 0.00
217 17 0.01
218 6 0.00
219 4 0.00
220 2 0.00
221 2 0.00
222 2 0.00
223 112 0.08
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (200 bp):
GGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCACTATAACTTCAGGGAGATTGAGATCTG
CTACTGTAGTTTTAATTGATCCACTACAACTTCAGGATATAGGATTTGGTGTTGTAACTTTACTC
CATTCCACTACAACTTCAAGGAGATTGAGATATGCTACTGTAGTTTTAATCCAATCCACTGTAAC
TTTAG
Found at i:40911 original size:51 final size:51
Alignment explanation
Indices: 40851--41008 Score: 149
Period size: 51 Copynumber: 3.1 Consensus size: 51
40841 TTCACTCCAT
** *
40851 TCCACTACAACTTCAGGGAGATTGAGATCCGCTACTGTAGTTTTAATTCGA
1 TCCACTACAACTTCAGGGAGATTGAGATAAGCTACTGTAGTTTTAATTCAA
* * * ** ** * * *
40902 TCCACTACAACTTCAGGGATATAG-GATTTAG-TGTTGTAACTTTACTCCAT
1 TCCACTACAACTTCAGGGAGATTGAGA-TAAGCTACTGTAGTTTTAATTCAA
* * *
40952 TCCACTACTACTTCAGGGAGATTGAGATATGCTACTGTAGTTTTAATCCAA
1 TCCACTACAACTTCAGGGAGATTGAGATAAGCTACTGTAGTTTTAATTCAA
41003 TCCACT
1 TCCACT
41009 GGAACTTTAA
Statistics
Matches: 81, Mismatches: 23, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
50 36 0.44
51 45 0.56
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (51 bp):
TCCACTACAACTTCAGGGAGATTGAGATAAGCTACTGTAGTTTTAATTCAA
Found at i:41436 original size:51 final size:52
Alignment explanation
Indices: 41352--41469 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 52
41342 TTCACTCCAT
* * *
41352 TCCACTACAAGTTCA-AGGAGATTTAGATATGCTACTATAGTTTTAATCCGA
1 TCCACTACAACTTTAGAGGAGATTGAGATATGCTACTATAGTTTTAATCCGA
* * * * *
41403 TCCACTACAACTTTAGA-GAGATTGAGATTTGCTATTGTAGTTTTAATTCTA
1 TCCACTACAACTTTAGAGGAGATTGAGATATGCTACTATAGTTTTAATCCGA
**
41454 TCCACTGTAACTTTAG
1 TCCACTACAACTTTAG
41470 GGATATAGGG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 55 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (52 bp):
TCCACTACAACTTTAGAGGAGATTGAGATATGCTACTATAGTTTTAATCCGA
Found at i:41820 original size:303 final size:302
Alignment explanation
Indices: 40388--42401 Score: 1600
Period size: 303 Copynumber: 6.6 Consensus size: 302
40378 TTGCCACTTT
* * * * * *
40388 TAGTTTTAAATCTGATCC-CTGCAACTTCAAGGATATAGGATTTAGTGTTGTAGCTTCACTCTAT
1 TAGTTTT-AATCCGATCCACTACAACTTCAAGGATAAAGGATTTGGTGTTGTAACTTCATTC-AT
* * * * *
40452 TACACTGCAACTTC-AGTAAGATTAAGATTTA-CTACTGTAGTTTTAATATGATCCACTGCAACT
64 TCCACTACAACTTCAAG-GAGATTGAGA-TTAGCTACTGTAGTTTTAATCTGATCCACTGCAACT
* * * * * * * *
40515 TCAGTGATATAGGATTTGGTGTGGTAGCTTTATTCCATTCCACTGCAAATTCAAGGAGATTGAGA
127 TCAGGGATATAGGATTTGGTGTTGTAGCTTCACTCTATTCCACTACAACTTCAGGGAGATTGAGA
* * ** * * *
40580 TTTGCTACTGTAGTTTTAATCCAATCTACTGTAACTTCGGGGAAATAGGATTTGGTGATGTAGCT
192 TTTGCTACTGTAGTTTTAATCCAATCCACTGCAACTTCAAGGATATAGGATTTGGTGTTGTAACT
* * * * *
40645 TCACTCTATTCCACTGTAACTTTAGGGAGATTGAGATCTGCTATTG
257 TCACTCCATTCAATTGTAACTTCAGGGAGATTGAGATCTGCTACTG
* ** ** * * * * * *
40691 TAGTCTTAATCTAATTTATTATAATTTTAGGGTTATAA-GATTTGGTGTTGTAA---C-TTCATT
1 TAGTTTTAATCCGATCCACTACAACTTCAAGGATA-AAGGATTTGGTGTTGTAACTTCATTCATT
* * * * * * * * *
40751 CCACTATAACTTTAAGGAGATTGAGATCTA-CTATTGTAGTTTTACTCCGATTCGCTGTAACTTT
65 CCACTACAACTTCAAGGAGATTGAGAT-TAGCTACTGTAGTTTTAATCTGATCCACTGCAACTTC
* * *
40815 AGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCACTACAACTTCAGGGAGATTGAGATC
129 AGGGATATAGGATTTGGTGTTGTAGCTTCACTCTATTCCACTACAACTTCAGGGAGATTGAGATT
* * * * * * *
40880 CGCTACTGTAGTTTTAATTCGATCCACTACAACTTCAGGGATATAGGATTTAGTGTTGTAACTTT
194 TGCTACTGTAGTTTTAATCCAATCCACTGCAACTTCAAGGATATAGGATTTGGTGTTGTAACTTC
* ** *
40945 ACTCCATTCCACTACT-ACTTCAGGGAGATTGAGATATGCTACTG
259 ACTCCATT-CAATTGTAACTTCAGGGAGATTGAGATCTGCTACTG
* ** * * * *
40989 TAGTTTTAATCCAATCCACTGGAACTTTAAGGATATAGGATTAGGTGTTGTAACTTCACTCCATT
1 TAGTTTTAATCCGATCCACTACAACTTCAAGGATAAAGGATTTGGTGTTGTAACTTCA-TTCATT
* * * * *
41054 CCTCTATAATTTC-AGGCAAATTGAGATTAGCTACTGTAGTTTTAATATGATCCACTGCAACTTC
65 CCACTACAACTTCAAGG-AGATTGAGATTAGCTACTGTAGTTTTAATCTGATCCACTGCAACTTC
* * * * * * * *
41118 AAGGATATAGGACTTGGTGTTGTAACTT-ACTCTATTCTATTACAACTTCAAGAAGATTGAGATA
129 AGGGATATAGGATTTGGTGTTGTAGCTTCACTCTATTCCACTACAACTTCAGGGAGATTGAGATT
* * * *** *
41182 TGTTACTGTAGTTTTAATCCAATCCATTGTAACTTTGGGGATATAGGATTTGGTGTTGTAATTTC
194 TGCTACTGTAGTTTTAATCCAATCCACTGCAACTTCAAGGATATAGGATTTGGTGTTGTAACTTC
* * * * *
41247 ACTCCGTTTCACTT-TAACTTCAGGGAGATTGAGATATGTTACTA
259 ACTCC-ATTCAATTGTAACTTCAGGGAGATTGAGATCTGCTACTG
* * * * * *
41291 TAG--CT-ATTCGATCTACTACAACTTCAAGGATATAGGATTTAGTGTTGTAACTTCACTCCATT
1 TAGTTTTAATCCGATCCACTACAACTTCAAGGATAAAGGATTTGGTGTTGTAACTTCA-TTCATT
* * * * * *
41353 CCACTACAAGTTCAAGGAGATTTAGA-TATGCTACTATAGTTTTAATCCGATCCACTACAACTTT
65 CCACTACAACTTCAAGGAGATTGAGATTA-GCTACTGTAGTTTTAATCTGATCCACTGCAACTTC
* * * * * * * * ** * * * *
41417 AGAGAGATTGAGATTTGCTATTGTAGTTTTAATTCTA-TCCACTGTAACTTTAGGGATATAG-GG
129 AGGGATATAG-GATTTGGTGTTGTAG-CTTCACTCTATTCCACTACAACTTCAGGGAGATTGAGA
* ** * * * * * * * * * *
41480 TTTGGTGTTGTAATTTCACTTCATTCTACTACAACTTCAAGGATATATGATTTGGTGTTATAGCT
192 TTTGCTACTGTAGTTTTAATCCAATCCACTGCAACTTCAAGGATATAGGATTTGGTGTTGTAACT
* * *
41545 TCACTCCATTCAATTGTAACTTTAGGGAGATTGAGGTCTGTTACTG
257 TCACTCCATTCAATTGTAACTTCAGGGAGATTGAGATCTGCTACTG
* * ** * *
41591 CAGTTTTAATCCGATCCACTATAACTTCAAGTTTAAAGGATTTGGTGTTCG-AGCTTCTTTCCAT
1 TAGTTTTAATCCGATCCACTACAACTTCAAGGATAAAGGATTTGGTGTT-GTAACTTCATT-CAT
* * * * * *
41655 TCCACTAAAACTTCAAAGAGATTGAGATTAGCTACTGTTGTTTTAATTTGATCCATTACAACTTC
64 TCCACTACAACTTCAAGGAGATTGAGATTAGCTACTGTAGTTTTAATCTGATCCACTGCAACTTC
* * * *
41720 AGGGTTATAGGATTTGGTGTTCTAGCTTCACTCTATTCCACTATAACTTTAGGGAGATTGAGATC
129 AGGGATATAGGATTTGGTGTTGTAGCTTCACTCTATTCCACTACAACTTCAGGGAGATTGAGAT-
* * *
41785 CT-CTACTGTAGTTTTAATCCAATCCACTGCAACTTCAACGATATTGGATTTGGTGTTGTAACTT
193 TTGCTACTGTAGTTTTAATCCAATCCACTGCAACTTCAAGGATATAGGATTTGGTGTTGTAACTT
* *
41849 CACTCCAGTCTACTGTAACTTCACTCCTGTCCAGTATAACTTCGGGGAGATTGAGATCTGTTACT
258 CACTCCA-T-T-C----A----A----T-T---G--TAACTTCAGGGAGATTGAGATCTGCTACT
41914 G
302 G
* * * *
41915 TAGTTTTAA-CTCGATCCACTACAACTTCATGGATATAGGATTTGTTGTAGTAACTTCATTTCAT
1 TAGTTTTAATC-CGATCCACTACAACTTCAAGGATAAAGGATTTGGTGTTGTAACTTCA-TTCAT
* * * * * * **
41979 TCCATTGCAAC-TCTAGGGAGATAGAGA-TATGCTACTATAGTTTTAATCCGATCCACTATAACT
64 TCCACTACAACTTC-AAGGAGATTGAGATTA-GCTACTGTAGTTTTAATCTGATCCACTGCAACT
* * * * * **
42042 TTAGGGATATAGGATTAGGTGTTGTAACTTTACTCTATTACACTGTAACTTCAGGGAGATTGAGA
127 TCAGGGATATAGGATTTGGTGTTGTAGCTTCACTCTATTCCACTACAACTTCAGGGAGATTGAGA
* * * * * * *
42107 TTTACTACTATAATTTTAATCCAATCCACTGCAACTTGAAGGATATAGAATTTGGTGTGGTAGCT
192 TTTGCTACTGTAGTTTTAATCCAATCCACTGCAACTTCAAGGATATAGGATTTGGTGTTGTAACT
* * * * *
42172 TCACTCCATTCCACTGCAACTTTAGGGAGATTGAGATCTGCTATTG
257 TCACTCCATTCAATTGTAACTTCAGGGAGATTGAGATCTGCTACTG
* *
42218 TAGTTTTAATCCGATCCACTACAACTTC-AGAGATATAA-GATTTGGTATTGTAGCTTCACTTCA
1 TAGTTTTAATCCGATCCACTACAACTTCAAG-GATA-AAGGATTTGGTGTTGTAACTTCA-TTCA
* ** * * *
42281 TTCCACTACAAGTTCTGGGAGATTGAGA-TATGCTACTGTAGTTTTAATCTAATCCATTGTAACT
63 TTCCACTACAACTTCAAGGAGATTGAGATTA-GCTACTGTAGTTTTAATCTGATCCACTGCAACT
**
42345 TCAGGGATATAATATTTGGTGTTGTAAG-TTCACTCTATTCCACTACAACTTCAGGGA
127 TCAGGGATATAGGATTTGGTGTTGT-AGCTTCACTCTATTCCACTACAACTTCAGGGA
42402 TATAGGACTT
Statistics
Matches: 1348, Mismatches: 301, Indels: 124
0.76 0.17 0.07
Matches are distributed among these distances:
297 2 0.00
298 230 0.17
299 114 0.08
300 97 0.07
301 26 0.02
302 174 0.13
303 435 0.32
304 11 0.01
305 2 0.00
306 1 0.00
308 1 0.00
310 1 0.00
313 1 0.00
314 1 0.00
318 1 0.00
319 1 0.00
321 1 0.00
322 2 0.00
323 8 0.01
324 237 0.18
325 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (302 bp):
TAGTTTTAATCCGATCCACTACAACTTCAAGGATAAAGGATTTGGTGTTGTAACTTCATTCATTC
CACTACAACTTCAAGGAGATTGAGATTAGCTACTGTAGTTTTAATCTGATCCACTGCAACTTCAG
GGATATAGGATTTGGTGTTGTAGCTTCACTCTATTCCACTACAACTTCAGGGAGATTGAGATTTG
CTACTGTAGTTTTAATCCAATCCACTGCAACTTCAAGGATATAGGATTTGGTGTTGTAACTTCAC
TCCATTCAATTGTAACTTCAGGGAGATTGAGATCTGCTACTG
Found at i:41888 original size:21 final size:21
Alignment explanation
Indices: 41843--41891 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
41833 TTTGGTGTTG
* *
41843 TAACTTCACTCCAGTCTACTG
1 TAACTTCACTCCAGTCCACTA
* *
41864 TAACTTCACTCCTGTCCAGTA
1 TAACTTCACTCCAGTCCACTA
41885 TAACTTC
1 TAACTTC
41892 GGGGAGATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.24, C:0.33, G:0.08, T:0.35
Consensus pattern (21 bp):
TAACTTCACTCCAGTCCACTA
Found at i:42065 original size:223 final size:223
Alignment explanation
Indices: 41672--42094 Score: 512
Period size: 223 Copynumber: 1.9 Consensus size: 223
41662 AAACTTCAAA
* * * * *
41672 GAGATTGAGATTAGCTACTGTTGTTTTAATTTGATCCATTACAACTTCAGGGTTATAGGATTTGG
1 GAGATTGAGATTAGCTACTGTAGTTTTAACTCGATCCACTACAACTTCAGGGATATAGGATTTGG
* * * * * * *
41737 TGTTCTAGCTTCACTCTATTCCACTATAACTTTAGGGAGATTGAGATCCTCTACTGTAGTTTTAA
66 TGTACTAACTTCACTCTATTCCACTACAACTCTAGGGAGATAGAGATCATCTACTATAGTTTTAA
* * *
41802 TCCAATCCACTGCAACTTCAACGATATTGGATTTGGTGTTGTAACTTCACTCCAGT-CTACTGTA
131 TCCAATCCACTACAACTTCAACGATATAGGATTAGGTGTTGTAACTTCACTCCAGTAC-ACTGTA
41866 ACTTCACTCCTGTCCAGTATAACTTCGGG
195 ACTTCACTCCTGTCCAGTATAACTTCGGG
* *
41895 GAGATTGAGATCT-GTTACTGTAGTTTTAACTCGATCCACTACAACTTCATGGATATAGGATTTG
1 GAGATTGAGAT-TAGCTACTGTAGTTTTAACTCGATCCACTACAACTTCAGGGATATAGGATTTG
* * * * *
41959 TTGTAGTAACTTCA-TTTCATTCCATTGCAACTCTAGGGAGATAGAGAT-ATGCTACTATAGTTT
65 GTGTACTAACTTCACTCT-ATTCCACTACAACTCTAGGGAGATAGAGATCAT-CTACTATAGTTT
* * * ** * * *
42022 TAATCCGATCCACTATAACTTTAGGGATATAGGATTAGGTGTTGTAACTTTACTCTATTACACTG
128 TAATCCAATCCACTACAACTTCAACGATATAGGATTAGGTGTTGTAACTTCACTCCAGTACACTG
42087 TAACTTCA
193 TAACTTCA
42095 GGGAGATTGA
Statistics
Matches: 166, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
222 3 0.02
223 161 0.97
224 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (223 bp):
GAGATTGAGATTAGCTACTGTAGTTTTAACTCGATCCACTACAACTTCAGGGATATAGGATTTGG
TGTACTAACTTCACTCTATTCCACTACAACTCTAGGGAGATAGAGATCATCTACTATAGTTTTAA
TCCAATCCACTACAACTTCAACGATATAGGATTAGGTGTTGTAACTTCACTCCAGTACACTGTAA
CTTCACTCCTGTCCAGTATAACTTCGGG
Found at i:42471 original size:101 final size:101
Alignment explanation
Indices: 42383--42619 Score: 273
Period size: 101 Copynumber: 2.3 Consensus size: 101
42373 TTCACTCTAT
* *
42383 TCCACTACAACTTCAGGGATATAGGACTTGGTGTTGTAACTTCACTCTATTCCA-TTACAACTTC
1 TCCACTACAACTTCAGGGATATAGGACTTGGTGTTGTAACTTCACTCCATTCCACTGAC-ACTTC
*
42447 AGGGAGATTATAATATGCTATTGTAGTTTTAATCCGA
65 AGGGAGATTATAATATGCTATTGTAGTTTCAATCCGA
* * * * *
42484 TCCATTGCAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCATTCCATTCTACTGACACTTCA
1 TCCACTACAACTTCAGGGATATAGGACTTGGTGTTGTAACTTCACTCCATTCCACTGACACTTCA
* * * * *
42549 GGGAGATTGA-GATTTGCTACTGTAATTTTAATCCGA
66 GGGAGATT-ATAATATGCTATTGTAGTTTCAATCCGA
* * * *
42585 TCCACTGCAACTTTCA-AGATATAGGATTTAGTGTT
1 TCCACTACAAC-TTCAGGGATATAGGACTTGGTGTT
42620 ATACAGATCT
Statistics
Matches: 119, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
101 111 0.93
102 8 0.07
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (101 bp):
TCCACTACAACTTCAGGGATATAGGACTTGGTGTTGTAACTTCACTCCATTCCACTGACACTTCA
GGGAGATTATAATATGCTATTGTAGTTTCAATCCGA
Found at i:42495 original size:303 final size:303
Alignment explanation
Indices: 41886--42502 Score: 659
Period size: 303 Copynumber: 2.0 Consensus size: 303
41876 TGTCCAGTAT
* *
41886 AACTTCGGGGAGATTGAGATCTGTTACTGTAGTTTTAACTCGATCCACTACAACTTCATGGATAT
1 AACTTCAGGGAGATTGAGATCTGCTACTGTAGTTTTAACTCGATCCACTACAACTTCATGGATAT
* * * * * *
41951 AGGATTTGTTGTAGTAACTTCATTTCATTCCATTGCAACTCTAGGGAGATAGAGATATGCTACTA
66 AAGATTTGGTATAGTAACTTCACTTCATTCCACTACAACTCTAGGGAGATAGAGATATGCTACTA
* * * *
42016 TAGTTTTAATCCGATCCACTATAACTTTAGGGATATAGGATTAGGTGTTGTAACTTTACTCTATT
131 TAGTTTTAATCCAATCCACTATAACTTCAGGGATATAAGATTAGGTGTTGTAACTTCACTCTATT
** * * * * * *
42081 ACACTGTAACTTCAGGGAGATTGAGATTTACTACTATAATTTTAATCCAATCCACTGCAACTTGA
196 ACACTACAACTTCAGGGAGATAGAGACTTACTACTATAACTTCAATCCAATCCACTACAACTTCA
* * * * *
42146 AGGATATAGAATTTGGTGTGGTAGCTTCACTCCATTCCACTGC
261 AGGAGATAGAATATGCTATGGTAGCTTCAATCCATTCCACTGC
* *
42189 AACTTTAGGGAGATTGAGATCTGCTATTGTAGTTTTAA-TCCGATCCACTACAACTTCA-GAGAT
1 AACTTCAGGGAGATTGAGATCTGCTACTGTAGTTTTAACT-CGATCCACTACAACTTCATG-GAT
* * * *
42252 ATAAGATTTGGTATTGTAGCTTCACTTCATTCCACTACAAGTTCT-GGGAGATTGAGATATGCTA
64 ATAAGATTTGGTATAGTAACTTCACTTCATTCCACTACAA-CTCTAGGGAGATAGAGATATGCTA
* * * * * * *
42316 CTGTAGTTTTAATCTAATCCATTGTAACTTCAGGGATATAATATTTGGTGTTGTAAGTTCACTCT
128 CTATAGTTTTAATCCAATCCACTATAACTTCAGGGATATAAGATTAGGTGTTGTAACTTCACTCT
* * ** ** * * * * *
42381 ATTCCACTACAACTTCAGGGATATAG-GACTTGGTGTTGTAACTTCACTCTATTCCATTACAACT
193 ATTACACTACAACTTCAGGGAGATAGAGACTTACTACTATAACTTCAATCCAATCCACTACAACT
* * * * * *
42445 TCAGGGAGATTATAATATGCTATTGTAGTTTTAATCCGA-TCCATTGC
258 TCAAGGAGA-TAGAATATGCTATGGTAGCTTCAATCC-ATTCCACTGC
42492 AACTTCAGGGA
1 AACTTCAGGGA
42503 TATAGGATTT
Statistics
Matches: 253, Mismatches: 56, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
302 33 0.13
303 216 0.85
304 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (303 bp):
AACTTCAGGGAGATTGAGATCTGCTACTGTAGTTTTAACTCGATCCACTACAACTTCATGGATAT
AAGATTTGGTATAGTAACTTCACTTCATTCCACTACAACTCTAGGGAGATAGAGATATGCTACTA
TAGTTTTAATCCAATCCACTATAACTTCAGGGATATAAGATTAGGTGTTGTAACTTCACTCTATT
ACACTACAACTTCAGGGAGATAGAGACTTACTACTATAACTTCAATCCAATCCACTACAACTTCA
AGGAGATAGAATATGCTATGGTAGCTTCAATCCATTCCACTGC
Found at i:42549 original size:50 final size:51
Alignment explanation
Indices: 41929--42552 Score: 238
Period size: 50 Copynumber: 12.4 Consensus size: 51
41919 TTTAACTCGA
* * * * *
41929 TCCACT-ACAACTTCATGGATATAGGATTTGTTGTAGTAACTTCATTTCAT
1 TCCACTGACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCAT
* * * * ** * ** * *
41979 TCCATTG-CAAC-TCTAGGGAGATAGAGATATGCTACTATAGTTTTAATCCGA-
1 TCCACTGACAACTTC-AGGGATATAG-GATTTGGTGTTGTAACTTCACTCC-AT
* * * * *
42030 TCCACT-ATAACTTTAGGGATATAGGATTAGGTGTTGTAACTTTACTCTAT
1 TCCACTGACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCAT
* * * * ** ** * * * * *
42080 TACACTG-TAACTTCAGGGAGATTGAGATTTACTACTATAATTTTAATCCAA
1 TCCACTGACAACTTCAGGGATATAG-GATTTGGTGTTGTAACTTCACTCCAT
* * * * *
42131 TCCACTG-CAACTTGAAGGATATAGAATTTGGTGTGGTAGCTTCACTCCAT
1 TCCACTGACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCAT
* * * * * * ** * *
42181 TCCACTG-CAACTTTAGGGAGATTGAGATCTGCTATTGTAGTTTTAATCCGA-
1 TCCACTGACAACTTCAGGGATATAG-GATTTGGTGTTGTAACTTCACTCC-AT
* * * * *
42232 TCCACT-ACAACTTCAGAGATATAAGATTTGGTATTGTAGCTTCACTTCAT
1 TCCACTGACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCAT
* * * * * * ** ** * * * *
42282 TCCACT-ACAAGTTCTGGGAGATTGAGATATGCTACTGTAGTTTTAATCTAA
1 TCCACTGACAACTTCAGGGATATAG-GATTTGGTGTTGTAACTTCACTCCAT
* * ** * *
42333 TCCATTG-TAACTTCAGGGATATAATATTTGGTGTTGTAAGTTCACTCTAT
1 TCCACTGACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCAT
* *
42383 TCCACT-ACAACTTCAGGGATATAGGACTTGGTGTTGTAACTTCACTCTAT
1 TCCACTGACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCAT
* * ** * * * ** * *
42433 TCCA-TTACAACTTCAGGGAGATTATAATATGCTATTGTAGTTTTAATCCGA-
1 TCCACTGACAACTTCAGGGATA-TAGGATTTGGTGTTGTAACTTCACTCC-AT
* *
42484 TCCATTG-CAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCATTCCAT
1 TCCACTGACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCAT
*
42534 TCTACTGAC-ACTTCAGGGA
1 TCCACTGACAACTTCAGGGA
42553 GATTGAGATT
Statistics
Matches: 406, Mismatches: 146, Indels: 44
0.68 0.24 0.07
Matches are distributed among these distances:
49 6 0.01
50 230 0.57
51 165 0.41
52 5 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (51 bp):
TCCACTGACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCAT
Found at i:42550 original size:151 final size:151
Alignment explanation
Indices: 41929--42552 Score: 425
Period size: 151 Copynumber: 4.1 Consensus size: 151
41919 TTTAACTCGA
* * * * * * * * *
41929 TCCACTACAACTTCATGGATATAGGATTTGTTGTAGTAACTTCATTTCATTCCATTGCAAC-TCT
1 TCCACTACAACTTCAGGGATATAAGACTTGGTATTGTAACTTCACTTCATTCCACTACAACTTC-
* * * * * ** * *
41993 AGGGAGATAGAGATATGCTACTATAGTTTTAATCCGATCCACTATAACTTTAGGGATATAGGATT
65 AGGGAGATTGAAATATGCTACTGTAGTTTTAATCCAATCCATTGCAACTTCAGGGATATAAGATT
* * *
42058 AGGTGTTGTAACTTTACTCTAT
130 TGGTGTTGTAACTTCACTCCAT
* ** * * * ** * * * * * * * * *
42080 TACACTGTAACTTCAGGGAGATTGAGATTTACTACTATAATTTTAATCCAATCCACTGCAACTTG
1 TCCACTACAACTTCAGGGATA-TAAGACTTGGTATTGTAACTTCACTTCATTCCACTACAACTTC
* * * * * * * * * * * * * *
42145 AAGGATATAG-AATTTGGT-GTGGTAGCTTCACTCCATTCCACTGCAACTTTAGGGAGATTGAGA
65 AGGGAGATTGAAATATGCTACT-GTAGTTTTAATCCAATCCATTGCAACTTCAGGGATA-TAAGA
* * * ** * *
42208 TCTGCTATTGTAGTTTTAATCCGA-
128 TTTGGTGTTGTAACTTCACTCC-AT
* * * * *
42232 TCCACTACAACTTCAGAGATATAAGATTTGGTATTGTAGCTTCACTTCATTCCACTACAAGTTCT
1 TCCACTACAACTTCAGGGATATAAGACTTGGTATTGTAACTTCACTTCATTCCACTACAACTTCA
* * * *
42297 GGGAGATTGAGATATGCTACTGTAGTTTTAATCTAATCCATTGTAACTTCAGGGATATAATATTT
66 GGGAGATTGAAATATGCTACTGTAGTTTTAATCCAATCCATTGCAACTTCAGGGATATAAGATTT
* *
42362 GGTGTTGTAAGTTCACTCTAT
131 GGTGTTGTAACTTCACTCCAT
* * *
42383 TCCACTACAACTTCAGGGATATAGGACTTGGTGTTGTAACTTCAC-TCTATTCCATTACAACTTC
1 TCCACTACAACTTCAGGGATATAAGACTTGGTATTGTAACTTCACTTC-ATTCCACTACAACTTC
* * *
42447 AGGGAGATT-ATAATATGCTATTGTAGTTTTAATCCGATCCATTGCAACTTCAGGGATATAGGAT
65 AGGGAGATTGA-AATATGCTACTGTAGTTTTAATCCAATCCATTGCAACTTCAGGGATATAAGAT
*
42511 TTGGTGTTGTAACTTCATTCCAT
129 TTGGTGTTGTAACTTCACTCCAT
*
42534 TCTACTGAC-ACTTCAGGGA
1 TCCACT-ACAACTTCAGGGA
42553 GATTGAGATT
Statistics
Matches: 352, Mismatches: 110, Indels: 22
0.73 0.23 0.05
Matches are distributed among these distances:
150 5 0.01
151 243 0.69
152 101 0.29
153 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (151 bp):
TCCACTACAACTTCAGGGATATAAGACTTGGTATTGTAACTTCACTTCATTCCACTACAACTTCA
GGGAGATTGAAATATGCTACTGTAGTTTTAATCCAATCCATTGCAACTTCAGGGATATAAGATTT
GGTGTTGTAACTTCACTCCAT
Found at i:43174 original size:28 final size:28
Alignment explanation
Indices: 43131--43185 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
43121 TTTAAATTGG
* * *
43131 GAAGACTTGAAGAAATTGATAATGATCA
1 GAAGACTTAAACAAATTAATAATGATCA
43159 GAAGACTTAAACAAATTAATAATGATC
1 GAAGACTTAAACAAATTAATAATGATC
43186 TCTCGTCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.49, C:0.09, G:0.16, T:0.25
Consensus pattern (28 bp):
GAAGACTTAAACAAATTAATAATGATCA
Found at i:43253 original size:88 final size:86
Alignment explanation
Indices: 43102--43333 Score: 293
Period size: 88 Copynumber: 2.6 Consensus size: 86
43092 AAGCCTTCTT
43102 ACCTCAATATGGAATCTCATTTAAATTGGGAAGACTTGAAGAAATTGATAATGATCAGAAGACTT
1 ACCTCAATATGGAAT-TCATTTAAA-TGGGAAGACTTGAAGAAATTGATAATGATCAGAAGACTT
43167 AAACAAATTAATAATGATCTCTC
64 AAACAAATTAATAATGATCTCTC
** * * * *
43190 GTCTCAATATGGAATTCGGTTTAATATGGGAAGAGTTGAAGAAATTGATAGTGATGAGAAGACTT
1 ACCTCAATATGGAATTC-ATTTAA-ATGGGAAGACTTGAAGAAATTGATAATGATCAGAAGACTT
* * * *
43255 GAAGAAATTGATAATGGTCTCTC
64 AAACAAATTAATAATGATCTCTC
* * *
43278 ACCTCAATATGGAATCCCATTTAAGATGGAAAGACTTGAAGAAATTGATCATGATC
1 ACCTCAATATGGAAT-TCATTTAA-ATGGGAAGACTTGAAGAAATTGATAATGATC
43334 TCTCGCCTCA
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
87 2 0.02
88 117 0.97
89 2 0.02
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (86 bp):
ACCTCAATATGGAATTCATTTAAATGGGAAGACTTGAAGAAATTGATAATGATCAGAAGACTTAA
ACAAATTAATAATGATCTCTC
Found at i:43343 original size:60 final size:60
Alignment explanation
Indices: 43248--43463 Score: 220
Period size: 60 Copynumber: 3.5 Consensus size: 60
43238 TAGTGATGAG
* *
43248 AAGACTTGAAGAAATTGATAATGGTCTCTCACCTCAATATGGAATCCCATTTAAGATGGA
1 AAGACTTGAAGAAATTGATAATGATCTCTCACCTCAATATGAAATCCCATTTAAGATGGA
* * ** *
43308 AAGACTTGAAGAAATTGATCATGATCTCTCGCCTCAATATGAAATCTGATTTAAGATGGG
1 AAGACTTGAAGAAATTGATAATGATCTCTCACCTCAATATGAAATCCCATTTAAGATGGA
* * ** *
43368 AAGTCTTGAAGAAATTGATAATGATGAGAAGACT-TGAAGTCAATATGGAATCCCATTTAAGATG
1 AAGACTTGAAGAAATTGATAATGAT-------CTCTCACCTCAATATGAAATCCCATTTAAGATG
*
43432 GG
59 GA
* *
43434 AAGATTTGAAG-AATTGATAATTATCTCTCA
1 AAGACTTGAAGAAATTGATAATGATCTCTCA
43464 GATTCTATAG
Statistics
Matches: 128, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
58 2 0.02
59 2 0.02
60 76 0.59
65 12 0.09
66 34 0.27
67 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.30
Consensus pattern (60 bp):
AAGACTTGAAGAAATTGATAATGATCTCTCACCTCAATATGAAATCCCATTTAAGATGGA
Found at i:43809 original size:80 final size:80
Alignment explanation
Indices: 43676--43835 Score: 320
Period size: 80 Copynumber: 2.0 Consensus size: 80
43666 CAAATAAAGA
43676 AAAAATTTATTGATATTTTCCATTATGGAAAATTGTTCTCAATGTGCTCTATTATTGAACAAGTA
1 AAAAATTTATTGATATTTTCCATTATGGAAAATTGTTCTCAATGTGCTCTATTATTGAACAAGTA
43741 TTTTTTTACTTCTAT
66 TTTTTTTACTTCTAT
43756 AAAAATTTATTGATATTTTCCATTATGGAAAATTGTTCTCAATGTGCTCTATTATTGAACAAGTA
1 AAAAATTTATTGATATTTTCCATTATGGAAAATTGTTCTCAATGTGCTCTATTATTGAACAAGTA
43821 TTTTTTTACTTCTAT
66 TTTTTTTACTTCTAT
43836 TGTGGCAAAT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.31, C:0.11, G:0.10, T:0.47
Consensus pattern (80 bp):
AAAAATTTATTGATATTTTCCATTATGGAAAATTGTTCTCAATGTGCTCTATTATTGAACAAGTA
TTTTTTTACTTCTAT
Found at i:47154 original size:26 final size:26
Alignment explanation
Indices: 47124--47386 Score: 198
Period size: 26 Copynumber: 10.3 Consensus size: 26
47114 AAATCTTGAA
* *
47124 TAAACGTATAATTAAGCTGACGAGCG
1 TAAACGCATAAATAAGCTGACGAGCG
* * * *
47150 TAAACGCATAATTAAACTGACAAGCA
1 TAAACGCATAAATAAGCTGACGAGCG
**** *
47176 TAAACG--TGTGCAAGCT-AGTGAGCG
1 TAAACGCATAAATAAGCTGA-CGAGCG
47200 TAAACGCATAAATAAGCTGACGAGCG
1 TAAACGCATAAATAAGCTGACGAGCG
* **** * *
47226 TAAA--TATGTGCAAGCTGGCTAGCG
1 TAAACGCATAAATAAGCTGACGAGCG
* * *
47250 TAAACGCATAATTAAGCTAACGAGTG
1 TAAACGCATAAATAAGCTGACGAGCG
**** *
47276 TAAACG--TGTGCAAGTTGACGAGCG
1 TAAACGCATAAATAAGCTGACGAGCG
47300 TAAACGCATAAATAAGCTGACGAGCG
1 TAAACGCATAAATAAGCTGACGAGCG
*
47326 TAAACGCATAAATAAGCTGATGAGCG
1 TAAACGCATAAATAAGCTGACGAGCG
* * *
47352 TAAACGCATAAATAAGTTGGCGAGTG
1 TAAACGCATAAATAAGCTGACGAGCG
47378 TAAACGCAT
1 TAAACGCAT
47387 TGTTATGATT
Statistics
Matches: 179, Mismatches: 50, Indels: 16
0.73 0.20 0.07
Matches are distributed among these distances:
23 1 0.01
24 48 0.27
26 129 0.72
27 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.24, T:0.21
Consensus pattern (26 bp):
TAAACGCATAAATAAGCTGACGAGCG
Found at i:47199 original size:50 final size:51
Alignment explanation
Indices: 47137--47383 Score: 252
Period size: 50 Copynumber: 4.9 Consensus size: 51
47127 ACGTATAATT
* * * * *
47137 AAGCT-GACGAGCGTAAACGCATAATTAAACTGACAAGCATAAACGTGTGC
1 AAGCTAGATGAGCGTAAACGCATAAATAAGCTGACGAGCGTAAACGTGTGC
**
47187 AAGCTAG-TGAGCGTAAACGCATAAATAAGCTGACGAGCGTAAATATGTGC
1 AAGCTAGATGAGCGTAAACGCATAAATAAGCTGACGAGCGTAAACGTGTGC
* * * * *
47237 AAGCTGGCT-AGCGTAAACGCATAATTAAGCTAACGAGTGTAAACGTGTGC
1 AAGCTAGATGAGCGTAAACGCATAAATAAGCTGACGAGCGTAAACGTGTGC
* * ****
47287 AAG-TTGACGAGCGTAAACGCATAAATAAGCTGACGAGCGTAAACGCATAAAT
1 AAGCTAGATGAGCGTAAACGCATAAATAAGCTGACGAGCGTAAACG--TGTGC
* * *
47339 AAGCT-GATGAGCGTAAACGCATAAATAAGTTGGCGAGTGTAAACG
1 AAGCTAGATGAGCGTAAACGCATAAATAAGCTGACGAGCGTAAACG
47384 CATTGTTATG
Statistics
Matches: 164, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
49 2 0.01
50 119 0.73
51 2 0.01
52 40 0.24
53 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (51 bp):
AAGCTAGATGAGCGTAAACGCATAAATAAGCTGACGAGCGTAAACGTGTGC
Found at i:47267 original size:76 final size:77
Alignment explanation
Indices: 47187--47382 Score: 184
Period size: 76 Copynumber: 2.6 Consensus size: 77
47177 AAACGTGTGC
* * *** * *
47187 AAGCTAGTGAGCGTAAACGCATAAATAAGCTGACGAGCGTAAA-TATGTGCAAGCTGGCTAGCGT
1 AAGCTAGTGAGCGTAAACGCATAAATAAGTTGACGAGCGTAAACCATAAACAAGCTGACGAGCGT
*
47251 AAACGCATAATT
66 AAACGCATAAAT
** * **** *
47263 AAGCTAACGAGTGTAAACG--TGTGCAAGTTGACGAGCGTAAACGCATAAATAAGCTGACGAGCG
1 AAGCTAGTGAGCGTAAACGCATAAATAAGTTGACGAGCGTAAAC-CATAAACAAGCTGACGAGCG
47326 TAAACGCATAAAT
65 TAAACGCATAAAT
* *
47339 AAGCT-GATGAGCGTAAACGCATAAATAAGTTGGCGAGTGTAAAC
1 AAGCTAG-TGAGCGTAAACGCATAAATAAGTTGACGAGCGTAAAC
47383 GCATTGTTAT
Statistics
Matches: 90, Mismatches: 25, Indels: 8
0.73 0.20 0.07
Matches are distributed among these distances:
74 17 0.19
76 56 0.62
78 17 0.19
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.20
Consensus pattern (77 bp):
AAGCTAGTGAGCGTAAACGCATAAATAAGTTGACGAGCGTAAACCATAAACAAGCTGACGAGCGT
AAACGCATAAAT
Found at i:47310 original size:100 final size:100
Alignment explanation
Indices: 47137--47329 Score: 289
Period size: 100 Copynumber: 1.9 Consensus size: 100
47127 ACGTATAATT
* *
47137 AAGCTGACGAGCGTAAACGCATAATTAAACTGACAAGCATAAACGTGTGCAAGCTAGTGAGCGTA
1 AAGCTGACGAGCGTAAACGCATAATTAAACTAACAAGCATAAACGTGTGCAAGCTAGCGAGCGTA
47202 AACGCATAAATAAGCTGACGAGCGTAAATATGTGC
66 AACGCATAAATAAGCTGACGAGCGTAAATATGTGC
* * * * ** *
47237 AAGCTGGCTAGCGTAAACGCATAATTAAGCTAACGAGTGTAAACGTGTGCAAG-TTGACGAGCGT
1 AAGCTGACGAGCGTAAACGCATAATTAAACTAACAAGCATAAACGTGTGCAAGCTAG-CGAGCGT
47301 AAACGCATAAATAAGCTGACGAGCGTAAA
65 AAACGCATAAATAAGCTGACGAGCGTAAA
47330 CGCATAAATA
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
99 2 0.02
100 81 0.98
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.19
Consensus pattern (100 bp):
AAGCTGACGAGCGTAAACGCATAATTAAACTAACAAGCATAAACGTGTGCAAGCTAGCGAGCGTA
AACGCATAAATAAGCTGACGAGCGTAAATATGTGC
Found at i:54418 original size:26 final size:26
Alignment explanation
Indices: 54389--54494 Score: 112
Period size: 26 Copynumber: 4.2 Consensus size: 26
54379 AAATCTTGAA
54389 TAAACGCATAATTAAGCTGGCGAGCG
1 TAAACGCATAATTAAGCTGGCGAGCG
54415 TAAACGCATAATTAAGCTGAG-GAGCG
1 TAAACGCATAATTAAGCTG-GCGAGCG
* *
54441 TAAA--CAT-GTGCAAGCTGGCGAGCG
1 TAAACGCATAAT-TAAGCTGGCGAGCG
* * **
54465 TAAACACATAAATAAGCTGATGAGCG
1 TAAACGCATAATTAAGCTGGCGAGCG
54491 TAAA
1 TAAA
54495 AGTGTGCAAG
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.03
24 18 0.27
26 46 0.69
27 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (26 bp):
TAAACGCATAATTAAGCTGGCGAGCG
Found at i:54564 original size:50 final size:50
Alignment explanation
Indices: 54402--54573 Score: 211
Period size: 50 Copynumber: 3.4 Consensus size: 50
54392 ACGCATAATT
* * *
54402 AAGCTGGCGAGCGTAAACGCATAATTAAGCTGAGGAGCGTAAACA-TGTGC
1 AAGCTGGCGAGCATAAACGCATAAATAAGCTGAAGAGCGTAAA-AGTGTGC
* * *
54452 AAGCTGGCGAGCGTAAACACATAAATAAGCTGATGAGCGTAAAAGTGTGC
1 AAGCTGGCGAGCATAAACGCATAAATAAGCTGAAGAGCGTAAAAGTGTGC
* * * *
54502 AAGTTGGCGAGCATAAACGCATAAATAAGTTGAAGAGCGTGAATGTGTGC
1 AAGCTGGCGAGCATAAACGCATAAATAAGCTGAAGAGCGTAAAAGTGTGC
* * *
54552 AAGCTAGCGAGCAAAAATGCAT
1 AAGCTGGCGAGCATAAACGCAT
54574 TATTATGAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
49 1 0.01
50 106 0.99
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (50 bp):
AAGCTGGCGAGCATAAACGCATAAATAAGCTGAAGAGCGTAAAAGTGTGC
Found at i:54682 original size:15 final size:16
Alignment explanation
Indices: 54651--54683 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
54641 AATCTAAATG
54651 TGCTTGTAAATGATTA
1 TGCTTGTAAATGATTA
*
54667 TGCTTG-AAATGTTTA
1 TGCTTGTAAATGATTA
54682 TG
1 TG
54684 GGAGCTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.45
Consensus pattern (16 bp):
TGCTTGTAAATGATTA
Done.