Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01007589.1 Kokia drynarioides strain JFW-HI SEQ_122219, 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: 40248
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:4037 original size:34 final size:35
Alignment explanation
Indices: 3958--4047 Score: 146
Period size: 35 Copynumber: 2.6 Consensus size: 35
3948 GGACAAGGTT
3958 TATCCCAACCTTTTTAAGGTTTCCTTAGACGGGTC
1 TATCCCAACCTTTTTAAGGTTTCCTTAGACGGGTC
* *
3993 TATCCCAACCTTTTTAAGGTTTCTTTAGATGGGTC
1 TATCCCAACCTTTTTAAGGTTTCCTTAGACGGGTC
*
4028 -ATCCCAACCTTTTCAAGGTT
1 TATCCCAACCTTTTTAAGGTT
4048 GGCATAGAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 19 0.37
35 33 0.63
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (35 bp):
TATCCCAACCTTTTTAAGGTTTCCTTAGACGGGTC
Found at i:5100 original size:8 final size:8
Alignment explanation
Indices: 5089--5132 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
5079 CTTTTATTAA
5089 TTTAAAAT
1 TTTAAAAT
5097 TTTAAAAAT
1 TTT-AAAAT
5106 TTTAAAAGT
1 TTTAAAA-T
*
5115 CTTAAAAT
1 TTTAAAAT
*
5123 TTAAAAAT
1 TTTAAAAT
5131 TT
1 TT
5133 GGTTCAGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
8 16 0.52
9 15 0.48
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (8 bp):
TTTAAAAT
Found at i:5106 original size:9 final size:9
Alignment explanation
Indices: 5092--5132 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
5082 TTATTAATTT
5092 AAAATTTTA
1 AAAATTTTA
5101 AAAATTTTA
1 AAAATTTTA
* *
5110 AAAGTCTT-
1 AAAATTTTA
5118 AAAA-TTTA
1 AAAATTTTA
5126 AAAATTT
1 AAAATTT
5133 GGTTCAGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
7 2 0.08
8 7 0.27
9 17 0.65
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (9 bp):
AAAATTTTA
Found at i:5106 original size:16 final size:16
Alignment explanation
Indices: 5087--5128 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
5077 TACTTTTATT
*
5087 AATTTAAAA-TTTTAAA
1 AATTTAAAAGTCTT-AA
5103 AATTTTAAAAGTCTTAA
1 AA-TTTAAAAGTCTTAA
5120 AATTTAAAA
1 AATTTAAAA
5129 ATTTGGTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 9 0.39
17 11 0.48
18 3 0.13
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (16 bp):
AATTTAAAAGTCTTAA
Found at i:10829 original size:57 final size:57
Alignment explanation
Indices: 10677--10845 Score: 194
Period size: 57 Copynumber: 2.9 Consensus size: 57
10667 AATTGAATTT
* * * ** * *
10677 TAAAAAAACTTAAGTATCAAATTAGAAAAAAATACCAAGTTCAGGTACCAAATTGGG
1 TAAAAAAATTTAAGTACCAAATTAGGAAAAAATGTCAAGTTCAAGTACCAAATTGAG
* * * * * * *
10734 TCGAAAAAAGTTTAAGGACTATATTAGGAGAAAGTGTCAAGTTCATGTACCAAATTGAG
1 T--AAAAAAATTTAAGTACCAAATTAGGAAAAAATGTCAAGTTCAAGTACCAAATTGAG
10793 TAAAAAAATTTAAGTACCAAATTAGGAAAAAATGTCAAGTTCAAGTACCAAAT
1 TAAAAAAATTTAAGTACCAAATTAGGAAAAAATGTCAAGTTCAAGTACCAAAT
10846 ATTATATAAA
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
57 46 0.51
59 44 0.49
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (57 bp):
TAAAAAAATTTAAGTACCAAATTAGGAAAAAATGTCAAGTTCAAGTACCAAATTGAG
Found at i:10832 original size:25 final size:26
Alignment explanation
Indices: 10775--10832 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
10765 AAGTGTCAAG
*
10775 TTCATGTACCAAATTGAGTAAAAAAA
1 TTCAAGTACCAAATTGAGTAAAAAAA
* *
10801 TTTAAGTACCAAATT-AG-GAAAAAA
1 TTCAAGTACCAAATTGAGTAAAAAAA
10825 TGTCAAGT
1 T-TCAAGT
10833 TCAAGTACCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 7 0.26
25 7 0.26
26 13 0.48
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.28
Consensus pattern (26 bp):
TTCAAGTACCAAATTGAGTAAAAAAA
Found at i:10839 original size:31 final size:31
Alignment explanation
Indices: 10756--10845 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 31
10746 TAAGGACTAT
* * *
10756 ATTAGGAGAAAGTGTCAAGTTCATGTACCAA
1 ATTAGGAAAAAATGTCAAGTTCAAGTACCAA
* *
10787 ATT-GAGTAAAAA----AA-TTTAAGTACCAA
1 ATTAG-GAAAAAATGTCAAGTTCAAGTACCAA
10813 ATTAGGAAAAAATGTCAAGTTCAAGTACCAA
1 ATTAGGAAAAAATGTCAAGTTCAAGTACCAA
10844 AT
1 AT
10846 ATTATATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
26 19 0.42
27 3 0.07
30 3 0.07
31 20 0.44
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.26
Consensus pattern (31 bp):
ATTAGGAAAAAATGTCAAGTTCAAGTACCAA
Found at i:12477 original size:3 final size:3
Alignment explanation
Indices: 12469--12500 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
12459 ATAGGAAGAA
*
12469 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
12501 AGAAAATTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:15838 original size:24 final size:25
Alignment explanation
Indices: 15793--15839 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
15783 TTTTAATCAC
* **
15793 TTTTTCTTTTTTAGAATTAATTTTA
1 TTTTTCTTTTTCAGAAAAAATTTTA
15818 TTTTT-TTTTTCAGAAAAAATTT
1 TTTTTCTTTTTCAGAAAAAATTT
15840 GAGTTTTTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (25 bp):
TTTTTCTTTTTCAGAAAAAATTTTA
Found at i:16956 original size:31 final size:31
Alignment explanation
Indices: 16892--16988 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 31
16882 TACTATCGAT
**
16892 TTTTATTTT-TAT--TTTTCAAAAGTTATGGA
1 TTTTATTTTATATACTTTTCAAAA-TTATAAA
*
16921 -TTTATTTTATGTACTTTTC-AAATTGATAAA
1 TTTTATTTTATATACTTTTCAAAATT-ATAAA
* * *
16951 TTTTATTTTTTATATTTTTCAAAATTTTAAA
1 TTTTATTTTATATACTTTTCAAAATTATAAA
16982 TTTTATT
1 TTTTATT
16989 CTCTGCCAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
28 8 0.15
29 4 0.07
30 6 0.11
31 32 0.58
32 5 0.09
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (31 bp):
TTTTATTTTATATACTTTTCAAAATTATAAA
Found at i:19883 original size:16 final size:16
Alignment explanation
Indices: 19864--19894 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19854 TTGATTATAG
*
19864 CTCTATTCCATTACAA
1 CTCTATTCCACTACAA
19880 CTCTATTCCACTACA
1 CTCTATTCCACTACA
19895 GTGAACCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (16 bp):
CTCTATTCCACTACAA
Found at i:19998 original size:5 final size:5
Alignment explanation
Indices: 19983--20012 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
19973 ATAAAATTAT
19983 TAAATA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAA-A TAAAA TAAAA TAAAA TAAAA TAAA
20013 TATATTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:22979 original size:29 final size:30
Alignment explanation
Indices: 22947--23061 Score: 112
Period size: 30 Copynumber: 3.9 Consensus size: 30
22937 GAAGCTTCGG
* *
22947 AGAATTCGGGGTGAAAA-CGTAATTTTTGA
1 AGAATTTGGGGTGAAAATTGTAATTTTTGA
* *
22976 AGAATTTGGGGTCAAAATTGAAATTTTTGA
1 AGAATTTGGGGTGAAAATTGTAATTTTTGA
* * * *
23006 AAAATTTGAGGTTGAAAA-TGTGATTTTTGG
1 AGAATTTG-GGGTGAAAATTGTAATTTTTGA
*
23036 AG-ATTTGGGGT-AAAATAGTAATTTTT
1 AGAATTTGGGGTGAAAATTGTAATTTTT
23062 AGATGTTCGG
Statistics
Matches: 69, Mismatches: 14, Indels: 7
0.77 0.16 0.08
Matches are distributed among these distances:
27 4 0.06
28 11 0.16
29 20 0.29
30 27 0.39
31 7 0.10
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (30 bp):
AGAATTTGGGGTGAAAATTGTAATTTTTGA
Found at i:23060 original size:27 final size:29
Alignment explanation
Indices: 23030--23093 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
23020 AAAATGTGAT
*
23030 TTTTGGAGAT-TT-GGGGTAAAAT-AGTAA
1 TTTTGGAGATGTTCGGGGCAAAATCA-TAA
*
23057 TTTT-TAGATGTTCGGGGCAAAATCATAA
1 TTTTGGAGATGTTCGGGGCAAAATCATAA
23085 TTTTGGAGA
1 TTTTGGAGA
23094 AGTTTGGGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 4 0.13
27 6 0.20
28 16 0.53
29 4 0.13
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.38
Consensus pattern (29 bp):
TTTTGGAGATGTTCGGGGCAAAATCATAA
Found at i:23156 original size:30 final size:30
Alignment explanation
Indices: 23122--23266 Score: 161
Period size: 30 Copynumber: 4.9 Consensus size: 30
23112 GAGTTTTAAG
23122 AAGTTTAAGGGTAAAAATGTAATTTTAGAA
1 AAGTTTAAGGGTAAAAATGTAATTTTAGAA
* * *
23152 AAGTTT-AGGATGAAAATGTGATTTTAGAA
1 AAGTTTAAGGGTAAAAATGTAATTTTAGAA
* * *
23181 AAGTTTGAA-GATTAAAATGTAATTTTGGAA
1 AAGTTT-AAGGGTAAAAATGTAATTTTAGAA
* * * *
23211 AAATTTAGGGGTCAAAATGTAATTTT-GGA
1 AAGTTTAAGGGTAAAAATGTAATTTTAGAA
23240 AAGTTTAAGGGTTAAAAATGTAATTTT
1 AAGTTTAAGGG-TAAAAATGTAATTTT
23267 TAATAGGGGC
Statistics
Matches: 97, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
29 38 0.39
30 58 0.60
31 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.21, T:0.36
Consensus pattern (30 bp):
AAGTTTAAGGGTAAAAATGTAATTTTAGAA
Found at i:23156 original size:59 final size:58
Alignment explanation
Indices: 23082--23266 Score: 185
Period size: 59 Copynumber: 3.1 Consensus size: 58
23072 GGCAAAATCA
*
23082 TAATTTTGGAGAAGTTTGGGATCAAAATGGGAGTTTTAAGAAGTTTAAGGGTAAAAATG
1 TAATTTTGGAAAAGTTTGGGATCAAAATGGGA-TTTTAAGAAGTTTAAGGGTAAAAATG
* * * * * * *
23141 TAATTTTAGAAAAGTTTAGGATGAAAATGTGATTTTAGAAAAGTTTGAA-GATTAAAATG
1 TAATTTTGGAAAAGTTTGGGATCAAAATGGGATTTTA-AGAAGTTT-AAGGGTAAAAATG
* * ** *
23200 TAATTTTGGAAAAATTTAGGGGTCAAAATGTAATTTT-GGAAAGTTTAAGGGTTAAAAATG
1 TAATTTTGGAAAAGTTT-GGGATCAAAATGGGATTTTAAG-AAGTTTAAGGG-TAAAAATG
23260 TAATTTT
1 TAATTTT
23267 TAATAGGGGC
Statistics
Matches: 102, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
58 7 0.07
59 64 0.63
60 31 0.30
ACGTcount: A:0.40, C:0.01, G:0.23, T:0.36
Consensus pattern (58 bp):
TAATTTTGGAAAAGTTTGGGATCAAAATGGGATTTTAAGAAGTTTAAGGGTAAAAATG
Found at i:23507 original size:59 final size:59
Alignment explanation
Indices: 23443--23628 Score: 205
Period size: 59 Copynumber: 3.1 Consensus size: 59
23433 GGCAAAATTA
* * *
23443 TAATTTTGGAGAAGTTTGGGATCAAAATGAGAGTTTGGAGAAGTTCAAGGGTAAAAATG
1 TAATTTTGGAAAAGTTTGGGATCAAAATGAGATTTTGGAGAAGTTTAAGGGTAAAAATG
* * * * * * *
23502 TAATTTTAGAAAAGTTTAGGATGAAAATGTGATTTTAGAAAAGTTTAAGGGTTAAAATG
1 TAATTTTGGAAAAGTTTGGGATCAAAATGAGATTTTGGAGAAGTTTAAGGGTAAAAATG
* * *
23561 TAAATTTGGAAAAAATTTAGGGGTCAAAATGTA-ATTTTGG-GAAGTTTAAGGGTTAAAAATG
1 TAATTTTGG-AAAAGTTT-GGGATCAAAATG-AGATTTTGGAGAAGTTTAAGGG-TAAAAATG
23622 TAATTTT
1 TAATTTT
23629 TAATAGGGGC
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
59 56 0.55
60 18 0.18
61 28 0.27
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.34
Consensus pattern (59 bp):
TAATTTTGGAAAAGTTTGGGATCAAAATGAGATTTTGGAGAAGTTTAAGGGTAAAAATG
Found at i:23517 original size:30 final size:30
Alignment explanation
Indices: 23483--23628 Score: 152
Period size: 30 Copynumber: 4.9 Consensus size: 30
23473 GAGTTTGGAG
*
23483 AAGTTCAAGGGTAAAAATGTAATTTTAGAA
1 AAGTTTAAGGGTAAAAATGTAATTTTAGAA
* * *
23513 AAGTTT-AGGATGAAAATGTGATTTTAGAA
1 AAGTTTAAGGGTAAAAATGTAATTTTAGAA
* * *
23542 AAGTTTAAGGGTTAAAATGTAAATTTGGAAA
1 AAGTTTAAGGGTAAAAATGTAATTTTAG-AA
* * * **
23573 AAATTTAGGGGTCAAAATGTAATTTT-GGG
1 AAGTTTAAGGGTAAAAATGTAATTTTAGAA
23602 AAGTTTAAGGGTTAAAAATGTAATTTT
1 AAGTTTAAGGG-TAAAAATGTAATTTT
23629 TAATAGGGGC
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
29 35 0.37
30 36 0.38
31 24 0.25
ACGTcount: A:0.42, C:0.01, G:0.23, T:0.34
Consensus pattern (30 bp):
AAGTTTAAGGGTAAAAATGTAATTTTAGAA
Found at i:23531 original size:29 final size:29
Alignment explanation
Indices: 23490--23628 Score: 127
Period size: 29 Copynumber: 4.7 Consensus size: 29
23480 GAGAAGTTCA
*
23490 AGGGTAAAAATGTAATTTTAGAAAAGTTT
1 AGGGTCAAAATGTAATTTTAGAAAAGTTT
* * *
23519 AGGATGAAAATGTGATTTTAGAAAAGTTT
1 AGGGTCAAAATGTAATTTTAGAAAAGTTT
* * * *
23548 AAGGGTTAAAATGTAAATTTGGAAAAAATTT
1 -AGGGTCAAAATGTAATTTTAG-AAAAGTTT
**
23579 AGGGGTCAAAATGTAATTTT-GGGAAGTTT
1 A-GGGTCAAAATGTAATTTTAGAAAAGTTT
*
23608 AAGGGTTAAAAATGTAATTTT
1 -AGGG-TCAAAATGTAATTTT
23629 TAATAGGGGC
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
29 34 0.38
30 33 0.37
31 23 0.26
ACGTcount: A:0.42, C:0.01, G:0.23, T:0.35
Consensus pattern (29 bp):
AGGGTCAAAATGTAATTTTAGAAAAGTTT
Found at i:23627 original size:60 final size:59
Alignment explanation
Indices: 23461--23627 Score: 171
Period size: 60 Copynumber: 2.8 Consensus size: 59
23451 GAGAAGTTTG
* * * *
23461 GGATCAAAATG-AGAGTTTGGAGAAGTTCAAGGG-TAAAAATGTAATTTTAGAAAAGTTTA
1 GGATCAAAATGTA-ATTTTGG-GAAGTTTAAGGGTTAAAAATGTAATTTGAGAAAAATTTA
* * **
23520 GGATGAAAATGTGATTTTAGAAAAGTTTAAGGGTT-AAAATGTAAATTTG-GAAAAAATTTA
1 GGATCAAAATGTAATTTT-GGGAAGTTTAAGGGTTAAAAATGT-AATTTGAG-AAAAATTTA
*
23580 GGGGTCAAAATGTAATTTTGGGAAGTTTAAGGGTTAAAAATGTAATTT
1 -GGATCAAAATGTAATTTTGGGAAGTTTAAGGGTTAAAAATGTAATTT
23628 TTAATAGGGG
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
59 32 0.36
60 34 0.39
61 22 0.25
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.32
Consensus pattern (59 bp):
GGATCAAAATGTAATTTTGGGAAGTTTAAGGGTTAAAAATGTAATTTGAGAAAAATTTA
Found at i:25835 original size:39 final size:39
Alignment explanation
Indices: 25792--26591 Score: 340
Period size: 39 Copynumber: 20.5 Consensus size: 39
25782 CAATCTACCT
* *
25792 CAAGCTCGAGGTAAAAGATTGACTTATGGTGATCTGCCC
1 CAAGCTCGGGGTAAAAGATTGACTGATGGTGATCTGCCC
* * * *
25831 CAAGCTCGAGGTAAAAGATCAGA-TGACT-GTGATTTGCCT
1 CAAGCTCGGGGTAAAAGAT-TGACTGA-TGGTGATCTGCCC
* * * * * **
25870 CATGATTGGGGTAAGAGA-T--CAGATGGCTGCAATCTATCC
1 CAAGCTCGGGGTAAAAGATTGACTGATGG-TG--ATCTGCCC
* * * * ** * *
25909 CAAGCTTGAGATAAGAGATTGGTTGATGGTGATTTGCCT
1 CAAGCTCGGGGTAAAAGATTGACTGATGGTGATCTGCCC
* * * *
25948 CAGGCTCGGGGTAAAATATTG---GATGGCTGCAATCTGGCT
1 CAAGCTCGGGGTAAAAGATTGACTGATGG-TG--ATCTGCCC
* * *
25987 CAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCC
1 CAAGCTCGGGGTAAAAGATTGACTGATGGTGATCTGCCC
* * * * * * *
26026 CAGGCTCGAGATAAAAGATCGGA-TGACT-GTAATCT-ACT
1 CAAGCTCGGGGTAAAAGAT-TGACTGA-TGGTGATCTGCCC
* * **
26064 CAGGCTCGGGGTAAGAGATTGGTTGATGGTGATCTGCCC
1 CAAGCTCGGGGTAAAAGATTGACTGATGGTGATCTGCCC
* * * *
26103 CAAGCTCGAGGTAAAAGATCGGA-TGACT-GTAATCTGACC
1 CAAGCTCGGGGTAAAAGAT-TGACTGA-TGGTGATCTGCCC
* * * *
26142 CAAGCTCGGGGTAAGAGATTGACTGATAGTAATCTGCCT
1 CAAGCTCGGGGTAAAAGATTGACTGATGGTGATCTGCCC
* * *
26181 CAAGCTCGGGGTAAAAGA-T--CGGATGGCTGCAATTTGGCC
1 CAAGCTCGGGGTAAAAGATTGACTGATGG-TG--ATCTGCCC
* *
26220 CAAGCTCGGGGTAACAGATTGACTGATGGTGATTTGCCC
1 CAAGCTCGGGGTAAAAGATTGACTGATGGTGATCTGCCC
* * *
26259 CAAGCTCGAGGTAAAAGATTAGA-TGATTGTGATTTGCCC
1 CAAGCTCGGGGTAAAAGATT-GACTGATGGTGATCTGCCC
** * * * *
26298 CTTGATCGGGGTAAGAGATTG---GATGGCTGCAATCCGTCC
1 CAAGCTCGGGGTAAAAGATTGACTGATGG-TG--ATCTGCCC
* * * * **
26337 GAGGCTCGAGGTAAGAGATTGGTTGATGGTGATCTGCCC
1 CAAGCTCGGGGTAAAAGATTGACTGATGGTGATCTGCCC
* * * ** *
26376 TAGGCTCGGGGTAAAAGATCGGA-TGACT-GCAATCTAG-CT
1 CAAGCTCGGGGTAAAAGAT-TGACTGA-TGGTGATCT-GCCC
* * * *
26415 CAAGCTCGGGGTAAGAGATTGATTGATGGTTACCTGCCC
1 CAAGCTCGGGGTAAAAGATTGACTGATGGTGATCTGCCC
* * * *
26454 TACGCTCGGGGTAAAAGA-T--CGGATGGGTGCAATCTGGCC
1 CAAGCTCGGGGTAAAAGATTGACTGAT-GGTG--ATCTGCCC
* * *
26493 CAAGCTCGGGGTAACAGATTGGCTGATGGTGATTTGCCC
1 CAAGCTCGGGGTAAAAGATTGACTGATGGTGATCTGCCC
* * * * **
26532 TAAACTCGGGGTAAAAGATCGAATGACT-GTGATCTATCC
1 CAAGCTCGGGGTAAAAGATTGACTGA-TGGTGATCTGCCC
* * *
26571 CATGATCGGGGTAAGAGATTG
1 CAAGCTCGGGGTAAAAGATTG
26592 GATGACTACA
Statistics
Matches: 571, Mismatches: 139, Indels: 102
0.70 0.17 0.13
Matches are distributed among these distances:
35 1 0.00
36 20 0.04
37 12 0.02
38 36 0.06
39 449 0.79
40 16 0.03
41 12 0.02
42 25 0.04
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (39 bp):
CAAGCTCGGGGTAAAAGATTGACTGATGGTGATCTGCCC
Found at i:26127 original size:155 final size:156
Alignment explanation
Indices: 25885--26277 Score: 475
Period size: 155 Copynumber: 2.5 Consensus size: 156
25875 TTGGGGTAAG
* * * * * *
25885 AGATCAGATGGCTGCAATCT-ATCCCAAGCTTGAGATAAGAGATTGGTTGATGGTGATTTGCCTC
1 AGATCGGATGACTGCAATCTGA-CCCAAGCTCGGGGTAAGAGATTGGTTGATGGTGATTTGCCCC
* * * * * * * * *
25949 AGGCTCGGGGTAAAATATTGGATGGCTGCAATCTGGCTCAGGCTCGGGGTAAGAGATTGGCTGAT
65 AAGCTCGAGGTAAAAGATCGGATGACTGCAATCTGACCCAAGCTCGGGGTAAGAGATTGACTGAT
* * *
26014 GGTGATCTGCCCCAGGCTCGAGATAAA
130 AGTAATCTGCCCCAAGCTCGAGATAAA
* * * *
26041 AGATCGGATGACTGTAATCT-ACTCAGGCTCGGGGTAAGAGATTGGTTGATGGTGATCTGCCCCA
1 AGATCGGATGACTGCAATCTGACCCAAGCTCGGGGTAAGAGATTGGTTGATGGTGATTTGCCCCA
*
26105 AGCTCGAGGTAAAAGATCGGATGACTGTAATCTGACCCAAGCTCGGGGTAAGAGATTGACTGATA
66 AGCTCGAGGTAAAAGATCGGATGACTGCAATCTGACCCAAGCTCGGGGTAAGAGATTGACTGATA
* * *
26170 GTAATCTGCCTCAAGCTCGGGGTAAA
131 GTAATCTGCCCCAAGCTCGAGATAAA
* * * * **
26196 AGATCGGATGGCTGCAATTTGGCCCAAGCTCGGGGTAACAGATTGACTGATGGTGATTTGCCCCA
1 AGATCGGATGACTGCAATCTGACCCAAGCTCGGGGTAAGAGATTGGTTGATGGTGATTTGCCCCA
26261 AGCTCGAGGTAAAAGAT
66 AGCTCGAGGTAAAAGAT
26278 TAGATGATTG
Statistics
Matches: 200, Mismatches: 36, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
155 128 0.64
156 72 0.36
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (156 bp):
AGATCGGATGACTGCAATCTGACCCAAGCTCGGGGTAAGAGATTGGTTGATGGTGATTTGCCCCA
AGCTCGAGGTAAAAGATCGGATGACTGCAATCTGACCCAAGCTCGGGGTAAGAGATTGACTGATA
GTAATCTGCCCCAAGCTCGAGATAAA
Found at i:26261 original size:117 final size:115
Alignment explanation
Indices: 25907--26435 Score: 433
Period size: 117 Copynumber: 4.5 Consensus size: 115
25897 TGCAATCTAT
* * * * * * * * *
25907 CCCAAGCTTGAGATAAGAGATTGGTTGATGGTGATTTGCCTCAGGCTCGGGGTAAAATATTGGAT
1 CCCAAGCTCGAGGTAAAAGATT-GATGAT-GTAATCTGCCTCAAGCTCGGGGTAAGAGATTGGAT
* * * *
25972 GGCTGCAATCTGGCTCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGC
64 GGCTGCAATCTGGCCCAAGCTCGAGGTAAGAGATTGACTGATGGTGATCTGC
* * * * *
26024 CCCAGGCTCGAGATAAAAGATCGGATGACTGTAATCT-ACTCAGGCTCGGGGTAAGAGATTGGTT
1 CCCAAGCTCGAGGTAAAAGAT-TGATGA-TGTAATCTGCCTCAAGCTCGGGGTAAGAGATT-G--
* * * * *
26088 GATGG-TG--ATCTGCCCCAAGCTCGAGGTAAAAGATCGGA-TGACT-GTAATCTGA
61 GATGGCTGCAATCTGGCCCAAGCTCGAGGTAAGAGAT-TGACTGA-TGGTGATCTGC
* * * *
26140 CCCAAGCTCGGGGTAAGAGATTGACTGATAGTAATCTGCCTCAAGCTCGGGGTAAAAGATCGGAT
1 CCCAAGCTCGAGGTAAAAGATTGA-TGAT-GTAATCTGCCTCAAGCTCGGGGTAAGAGATTGGAT
* * * *
26205 GGCTGCAATTTGGCCCAAGCTCGGGGTAACAGATTGACTGATGGTGATTTGC
64 GGCTGCAATCTGGCCCAAGCTCGAGGTAAGAGATTGACTGATGGTGATCTGC
* * * ** *
26257 CCCAAGCTCGAGGTAAAAGATTAGATGATTGTGATTTGCCCCTTGATCGGGGTAAGAGATTGGAT
1 CCCAAGCTCGAGGTAAAAGATT-GATGA-TGTAATCTGCCTCAAGCTCGGGGTAAGAGATTGGAT
* * * * **
26322 GGCTGCAATCCGTCCGAGGCTCGAGGTAAGAGATTGGTTGATGGTGATCTGC
64 GGCTGCAATCTGGCCCAAGCTCGAGGTAAGAGATTGACTGATGGTGATCTGC
* * * * *
26374 CCTAGGCTCGGGGTAAAAGATCGGATGACTGCAATCTAG-CTCAAGCTCGGGGTAAGAGATTG
1 CCCAAGCTCGAGGTAAAAGAT-TGATGA-TGTAATCT-GCCTCAAGCTCGGGGTAAGAGATTG
26436 ATTGATGGTT
Statistics
Matches: 325, Mismatches: 68, Indels: 38
0.75 0.16 0.09
Matches are distributed among these distances:
114 5 0.02
115 5 0.02
116 83 0.26
117 220 0.68
118 7 0.02
119 5 0.02
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (115 bp):
CCCAAGCTCGAGGTAAAAGATTGATGATGTAATCTGCCTCAAGCTCGGGGTAAGAGATTGGATGG
CTGCAATCTGGCCCAAGCTCGAGGTAAGAGATTGACTGATGGTGATCTGC
Found at i:26461 original size:117 final size:116
Alignment explanation
Indices: 25944--26511 Score: 375
Period size: 117 Copynumber: 4.9 Consensus size: 116
25934 ATGGTGATTT
* * * * * * * *
25944 GCCTCAGGCTCGGGGTAAAATATTGGATGGCTGCAATCTGGCTCAGGCTCGGGGTAAGAGATTGG
1 GCCTCAAGCTCGGGGTAAGAGATT-GATGGATGCAACCT-GCCCAAGCTCGGGGTAAAAGATTGG
* *
26009 CTGATGGTGATCTGCCCCAGGCTCGAGATAAAAGATCGGATGACTGTAATCTA
64 CTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCGGATGACTGTAATCTA
* * * ** * * *
26062 --CTCAGGCTCGGGGTAAGAGATTGGTTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCGG
1 GCCTCAAGCTCGGGGTAAGAGATTGATGGAT-GCAACCTG-CCCAAGCTCGGGGTAAAAGATTGG
* * * * * *
26125 ATGACT-GTAATCTGACCCAAGCTCGGGGTAAGAGAT-TGACTGA-TAGTAATCT-
64 CTGA-TGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCGGA-TGACT-GTAATCTA
* * * ** * *
26177 GCCTCAAGCTCGGGGTAAAAGATCGGATGGCTGCAATTTGGCCCAAGCTCGGGGTAACAGATTGA
1 GCCTCAAGCTCGGGGTAAGAGAT-TGATGGATGCAACCT-GCCCAAGCTCGGGGTAAAAGATTGG
* ** * * *
26242 CTGATGGTGATTTGCCCCAAGCTCGAGGTAAAAGATTAGATGATTGTGAT-TT
64 CTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCGGATGACTGTAATCTA
* ** * * * * * *
26294 GCCCCTTGATCGGGGTAAGAGATTGGATGGCTGCAATCC-GTCCGAGGCTCGAGGTAAGAGATTG
1 GCCTCAAGCTCGGGGTAAGAGATT-GATGGATGCAA-CCTG-CCCAAGCTCGGGGTAAAAGATTG
* * * * *
26358 GTTGATGGTGATCTGCCCTAGGCTCGGGGTAAAAGATCGGATGACTGCAATCTA
63 GCTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCGGATGACTGTAATCTA
* ** * *
26412 G-CTCAAGCTCGGGGTAAGAGATTGATTGATGGTTACCTGCCCTACGCTCGGGGTAAAAGATCGG
1 GCCTCAAGCTCGGGGTAAGAGATTGATGGAT-GCAACCTGCCC-AAGCTCGGGGTAAAAGATTGG
* * * *
26476 ATG--GGTGCAATCTGGCCCAAGCTCGGGGTAACAGAT
64 CTGATGGTG--ATCTGCCCCAAGCTCGAGGTAAAAGAT
26512 TGGCTGATGG
Statistics
Matches: 345, Mismatches: 83, Indels: 45
0.73 0.18 0.10
Matches are distributed among these distances:
115 12 0.03
116 93 0.27
117 230 0.67
118 10 0.03
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (116 bp):
GCCTCAAGCTCGGGGTAAGAGATTGATGGATGCAACCTGCCCAAGCTCGGGGTAAAAGATTGGCT
GATGGTGATCTGCCCCAAGCTCGAGGTAAAAGATCGGATGACTGTAATCTA
Found at i:26660 original size:39 final size:39
Alignment explanation
Indices: 26617--26701 Score: 62
Period size: 39 Copynumber: 2.2 Consensus size: 39
26607 TCCCAGACTG
* * * ** *
26617 GGGGTAAGAGATTGGTTGATGGTGATCTGTCTTAGGCTC
1 GGGGTAAAAGATTGGATGATGGTGATCTGCCCCAAGCTC
** * * **
26656 GGGGTAAAAGATCAGATGGTTGCAATCTGCCCCAAGCTC
1 GGGGTAAAAGATTGGATGATGGTGATCTGCCCCAAGCTC
26695 GGGGTAA
1 GGGGTAA
26702 GAGANCCCCA
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (39 bp):
GGGGTAAAAGATTGGATGATGGTGATCTGCCCCAAGCTC
Found at i:26699 original size:78 final size:78
Alignment explanation
Indices: 25823--26705 Score: 481
Period size: 78 Copynumber: 11.3 Consensus size: 78
25813 ACTTATGGTG
* * ** * * * * * *
25823 ATCTGCCCCAAGCTCGAGGTAAAAGATCAGATGACT-GTGATTTGCCTCATGATTGGGGTAAGAG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGA-TGGTGATCTGCCCCAAGCTCGGGGTAAAAG
*
25887 ATCAGATGGCTGCA
65 ATCGGATGGCTGCA
** * * * * * * * *
25901 ATCTATCCCAAGCTTGAGATAAGAGATTGGTTGATGGTGATTTGCCTCAGGCTCGGGGTAAAATA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
*
25966 TTGGATGGCTGCA
66 TCGGATGGCTGCA
* * * * * * *
25979 ATCTGGCTCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTCGAGATAAAAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
* *
26044 TCGGATGACTGTA
66 TCGGATGGCTGCA
* * * * *
26057 ATCT-ACTCAGGCTCGGGGTAAGAGATTGGTTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
* *
26121 TCGGATGACTGTA
66 TCGGATGGCTGCA
* * * *
26134 ATCTGACCCAAGCTCGGGGTAAGAGATT-GACTGATAGTAATCTGCCTCAAGCTCGGGGTAAAAG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGA-TGATGGTGATCTGCCCCAAGCTCGGGGTAAAAG
26198 ATCGGATGGCTGCA
65 ATCGGATGGCTGCA
* * * * *
26212 ATTTGGCCCAAGCTCGGGGTAACAGATT-GACTGATGGTGATTTGCCCCAAGCTCGAGGTAAAAG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGA-TGATGGTGATCTGCCCCAAGCTCGGGGTAAAAG
** ** **
26276 ATTAGATGATTGTG
65 ATCGGATGGCTGCA
* ** * * * * * * * *
26290 ATTTGCCCCTTGATCGGGGTAAGAGATTGGATG--GCTGCAATCCGTCCGAGGCTCGAGGTAAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG--ATCTGCCCCAAGCTCGGGGTAAAA
*
26353 GATTGGTTGATGG-TG--
64 GA-TCG--GATGGCTGCA
* * * * ** * *
26368 ATCTGCCCTAGGCTCGGGGTAAAAGATCGGATGACT-GCAATCTAG-CTCAAGCTCGGGGTAAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGA-TGGTGATCT-GCCCCAAGCTCGGGGTAAAA
* * * **
26431 GAT-TGATTGATGGTT
64 GATCGGATGGCT-GCA
* * * * * * *
26446 ACCTGCCCTACGCTCGGGGTAAAAGATCGGATG--GGTGCAATCTGGCCCAAGCTCGGGGTAACA
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTG--ATCTGCCCCAAGCTCGGGGTAAAA
*
26509 GATTGGCTGATGG-TG--
64 GA-T--CGGATGGCTGCA
* * * * * * ** * * *
26524 ATTTGCCCTAAACTCGGGGTAAAAGATCGAATGACT-GTGATCTATCCCATGATCGGGGTAAGAG
1 ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGA-TGGTGATCTGCCCCAAGCTCGGGGTAAAAG
* * *
26588 ATTGGATGACTACA
65 ATCGGATGGCTGCA
* * * * * ** *
26602 ATTTGTCCC-AGACTGGGGGTAAGAGATTGGTTGATGGTGATCTGTCTTAGGCTCGGGGTAAAAG
1 ATCTGCCCCAAG-CTCGGGGTAAGAGATTGGATGATGGTGATCTGCCCCAAGCTCGGGGTAAAAG
* *
26666 ATCAGATGGTTGCA
65 ATCGGATGGCTGCA
26680 ATCTGCCCCAAGCTCGGGGTAAGAGA
1 ATCTGCCCCAAGCTCGGGGTAAGAGA
26706 NCCCCAAGCT
Statistics
Matches: 638, Mismatches: 133, Indels: 68
0.76 0.16 0.08
Matches are distributed among these distances:
74 4 0.01
75 5 0.01
76 6 0.01
77 80 0.13
78 520 0.82
79 7 0.01
80 6 0.01
81 5 0.01
82 5 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (78 bp):
ATCTGCCCCAAGCTCGGGGTAAGAGATTGGATGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGA
TCGGATGGCTGCA
Found at i:26839 original size:39 final size:39
Alignment explanation
Indices: 26707--27817 Score: 353
Period size: 39 Copynumber: 28.6 Consensus size: 39
26697 GGTAAGAGAN
* * *
26707 CCCCAAGCTCGGGGTAAAAGATTGGCTGATGGTAATTTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
* * * * *
26746 -TCCAGGCTCGAGGTAAGACA-T--CAGATGGCTGCAATCTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGG-TG--ATCTG
*
26784 -CCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
** * * * * ***
26822 CCTTAGGCTTGGGGTAAGAGATCGGATGACT-ACAATCTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTG
* *
26861 CCCCAAGCTCGGGGTAAGAGATTGGCTGGTGGTGATCTA
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
* * * * ** *
26900 CCCCAAGCTTGGGGTAAAAGATCGGATGACT-GCAATCTA
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTG
* * ** *
26939 CCCTAAGCTCGAGGTAAGAGATTTACTGATGGTGATCTT
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
* * * * * **** * *
26978 CCCTAAGGTTGGGGTAAAATATCAAATAACT-GTGATTTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTG
* * * * *
27017 CCCCATGATCGGGGTAAGAGA-T--CAGATGGTTGCAATTTA
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGG-TG--ATCTG
* * * * * * *
27056 TCCCAATCTCGGGATAAGAGATTGGTTGATGGTAACCTA
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
** * * * * *
27095 CCTTAAGCTCGGGGTAAAAGATCGGATGACT-GTAATTTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTG
* * * *
27134 -GCCAGGCTCGGGGTAAGAGATTGGCTGATGGTAATTTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
* * * * *
27172 GCCTAGGCTCGGGGTAAAAGA-T--CTGATGGCTGCAAACTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGG-TG--ATCTG
* * * * *
27211 CCTCAGGCTC-AGGTAAGAGATTAGTTGATGGTGATCTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
* * * *
27249 CCCTAGGCTCGGGGTAAAAGATTGGATG--GGTGCAATCTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG--ATCTG
* * *
27288 GCCCAGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
* * ** *
27327 CCCC-AGACTCTGGGTAAAAGATCAGATGACT-GTGATCTG
1 CCCCAAG-CTCGGGGTAAGAGATTGGCTGA-TGGTGATCTG
* * * * * * * *
27366 TCTCATGATCGGGGTAAGAGATTGGAT-A-GTTTCAATTTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATG-GT-GATCTG
* * * * *
27405 -TCCTAGACTCGGGGTAAGAGATTAGTTAATGGTGATCTG
1 CCCCAAG-CTCGGGGTAAGAGATTGGCTGATGGTGATCTG
*** * * * * * * * *
27444 TTTCAGGCTCGAGGTAAAAGATCGGATGGTTGTAATCTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
* *
27483 ACCC-AGACTCGGGGTAAGAGATTGGCTGATGGTGATATG
1 CCCCAAG-CTCGGGGTAAGAGATTGGCTGATGGTGATCTG
* * *
27522 CCCCAAGCTAGGGGTAAAAGATTGACTGATGGTGATCTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
* * * * *
27561 CCTCAAGCTTGAGGTAAGATA-T--CAGATGGTTGCAATCTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGG-TG--ATCTG
* * *
27600 -CCTAGGCTCGGGGTAAGAGATTGGCTGATGGTTATCTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
* * * * * * ** *
27638 TCTCAGGCTCAGGGTAAGAGATCGGATGACT-GCAATCTA
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGA-TGGTGATCTG
* * * ** * *
27677 CCCTAACCTCGGGGTGAGAGATTAACTGGTGATGATCTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
* ** * * * * * *
27716 TCTTAGGCTTGAGGTAAAAGA-T--CGGATGGCTGCAATCTA
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGG-TG--ATCTG
* *
27755 CCCCAAGCTCGGGGTAAGAGATTCGCTGATTGTGATCTG
1 CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
* *
27794 CCCCAGGCTCGGGGTAAAAGATTG
1 CCCCAAGCTCGGGGTAAGAGATTG
27818 AAATCTTCAT
Statistics
Matches: 768, Mismatches: 244, Indels: 120
0.68 0.22 0.11
Matches are distributed among these distances:
35 7 0.01
36 20 0.03
37 13 0.02
38 121 0.16
39 550 0.72
40 21 0.03
41 26 0.03
42 10 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (39 bp):
CCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGATCTG
Found at i:27347 original size:78 final size:78
Alignment explanation
Indices: 27009--27815 Score: 461
Period size: 78 Copynumber: 10.4 Consensus size: 78
26999 TCAAATAACT
* * * * * * * ** ** *
27009 GTGATTTGCCCCATGATCGGGGTAAGAGATCAGATGGTTGCAATTTATCCCAATCTCGGGATAAG
1 GTGATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGGCCCAGGCTCGGGGTAAG
*
27074 AGATTGGTTGATG
66 AGATTGGCTGATG
* * * ** * * * *
27087 GTAACCTACCTTAAGCTCGGGGTAAAAGATCGGATGACTGTAATTTGG-CCAGGCTCGGGGTAAG
1 GTGATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGGCCCAGGCTCGGGGTAAG
27151 AGATTGGCTGATG
66 AGATTGGCTGATG
* * * * * * *
27164 GTAATTTGGCCTAGGCTCGGGGTAAAAGATCTGATGGCTGCAAACT-GCCTCAGGCTC-AGGTAA
1 GTGATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGGCC-CAGGCTCGGGGTAA
* *
27227 GAGATTAGTTGATG
65 GAGATTGGCTGATG
* * * *
27241 GTGATCTGCCCTAGGCTCGGGGTAAAAGATTGGATGGGTGCAATCTGGCCCAGGCTCGAGGTAAG
1 GTGATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGGCCCAGGCTCGGGGTAAG
27306 AGATTGGCTGATG
66 AGATTGGCTGATG
* * * * ** * * * *
27319 GTGATCTGCCCCAGACTCTGGGTAAAAGATCAGATGACTGTGATCTGTCTCATGATCGGGGTAAG
1 GTGATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGGCCCAGGCTCGGGGTAAG
*
27384 AGATTGGAT-A-G
66 AGATTGGCTGATG
* * * * * * * * * *** *
27395 TTTCAATTTGTCCTAGACTCGGGGTAAGAGATTAGTTAATGG-TG--ATCTGTTTCAGGCTCGAG
1 -GT-GATCTGCCCCAGGCTCGGGGTAAAAGA-TCG--GATGGCTGCAATCTGGCCCAGGCTCGGG
* * * * *
27457 GTAAAAGATCGGATGGTT
61 GTAAGAGATTGGCTGATG
* * * * * * * * *
27475 GTAATCTGACCCAGACTCGGGGTAAGAGATTGGCTGATGG-TG--ATATGCCCCAAGCTAGGGGT
1 GTGATCTGCCCCAGGCTCGGGGTAAAAGA-T--CGGATGGCTGCAATCTGGCCCAGGCTCGGGGT
* *
27537 AAAAGATTGACTGATG
63 AAGAGATTGGCTGATG
* * * * * * * * *
27553 GTGATCTGCCTCAAGCTTGAGGTAAGATATCAGATGGTTGCAATCT-GCCTAGGCTCGGGGTAAG
1 GTGATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGGCCCAGGCTCGGGGTAAG
27617 AGATTGGCTGATG
66 AGATTGGCTGATG
* * * * * * * ** *
27630 GTTATCTGTCTCAGGCTCAGGGTAAGAGATCGGATGACTGCAATCT-ACCCTAACCTCGGGGTGA
1 GTGATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGGCCC-AGGCTCGGGGTAA
** *
27694 GAGATTAACTGGTG
65 GAGATTGGCTGATG
* * ** * * ** *
27708 ATGATCTGTCTTAGGCTTGAGGTAAAAGATCGGATGGCTGCAATCTACCCCAAGCTCGGGGTAAG
1 GTGATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGGCCCAGGCTCGGGGTAAG
* *
27773 AGATTCGCTGATT
66 AGATTGGCTGATG
27786 GTGATCTGCCCCAGGCTCGGGGTAAAAGAT
1 GTGATCTGCCCCAGGCTCGGGGTAAAAGAT
27816 TGAAATCTTC
Statistics
Matches: 561, Mismatches: 150, Indels: 36
0.75 0.20 0.05
Matches are distributed among these distances:
75 6 0.01
76 4 0.01
77 190 0.34
78 351 0.63
79 5 0.01
80 2 0.00
81 3 0.01
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (78 bp):
GTGATCTGCCCCAGGCTCGGGGTAAAAGATCGGATGGCTGCAATCTGGCCCAGGCTCGGGGTAAG
AGATTGGCTGATG
Found at i:27850 original size:41 final size:41
Alignment explanation
Indices: 27805--27901 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 41
27795 CCCAGGCTCG
* *
27805 GGGTAAAAGATTGAAATCTTCATTCTACCATTCTTGATTAA
1 GGGTAAAAGATTGAAATCTTCAATCTACCATTCTTAATTAA
* * * *
27846 GGGTAAAAGATTGGAATCTTTAATCTGCCCTTCTTAATTAA
1 GGGTAAAAGATTGAAATCTTCAATCTACCATTCTTAATTAA
*
27887 GGGTAAAAGACTGAA
1 GGGTAAAAGATTGAA
27902 TGATGATGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (41 bp):
GGGTAAAAGATTGAAATCTTCAATCTACCATTCTTAATTAA
Found at i:28371 original size:50 final size:50
Alignment explanation
Indices: 28259--28739 Score: 270
Period size: 50 Copynumber: 9.7 Consensus size: 50
28249 TTCGTAATTG
* * * * * **
28259 CGACCTCAACCTTTCCCATCACA--TTTCATGGTATCGGATTTGTCGTTA
1 CGACCTCAACCTTTCCCATCACATCTTTTAAGGTATCGGGTTCGCCACTA
* * * *
28307 CGATCTCAATCTTTCCCATCACATCTTTTGAGGTATCGGGTTCGCTACTA
1 CGACCTCAACCTTTCCCATCACATCTTTTAAGGTATCGGGTTCGCCACTA
* * * * * * * **
28357 TGACCTCAACCTTTCCCGTTATATATTTTAAGGTA-CTGGATTCACCGTTA
1 CGACCTCAACCTTTCCCATCACATCTTTTAAGGTATC-GGGTTCGCCACTA
* ** * * * *
28407 CAACCTCAACCTTTCCTTTCAAATCTTTTGAGGTATCGGGTTTGCCATTA
1 CGACCTCAACCTTTCCCATCACATCTTTTAAGGTATCGGGTTCGCCACTA
* * * * ** ***
28457 CGACCTTAACCTTTCCTATCACA--TTTCATGGTATCGAATTCGCTGTTA
1 CGACCTCAACCTTTCCCATCACATCTTTTAAGGTATCGGGTTCGCCACTA
* * * * * ** *
28505 CGGCCTCAATCTTTCCCATCATATCTTCTAAGGTATCGGGTTCGTCGTTG
1 CGACCTCAACCTTTCCCATCACATCTTTTAAGGTATCGGGTTCGCCACTA
* * * * * * ** * *
28555 CGTCCTCAACCTTTCCCGTCACATCTCTTAAGATTTTGGGTTTACCGCTG
1 CGACCTCAACCTTTCCCATCACATCTTTTAAGGTATCGGGTTCGCCACTA
* * * * * * * **
28605 CGACCTCAACCTTTCCCTTTAAATCTTATGAGGTATCGGGTTAGTCGTTA
1 CGACCTCAACCTTTCCCATCACATCTTTTAAGGTATCGGGTTCGCCACTA
* * * * *
28655 CGACCTCAATCTTTTCCGTCACATCTTTTAAGGTACCGGGTTCGCCATTA
1 CGACCTCAACCTTTCCCATCACATCTTTTAAGGTATCGGGTTCGCCACTA
* * * *
28705 CGGCCTCAACCTTTCCCTTTAAATCTTTTAAGGTA
1 CGACCTCAACCTTTCCCATCACATCTTTTAAGGTA
28740 GCGAATTCAT
Statistics
Matches: 321, Mismatches: 106, Indels: 10
0.73 0.24 0.02
Matches are distributed among these distances:
48 56 0.17
49 1 0.00
50 263 0.82
51 1 0.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (50 bp):
CGACCTCAACCTTTCCCATCACATCTTTTAAGGTATCGGGTTCGCCACTA
Found at i:28517 original size:198 final size:197
Alignment explanation
Indices: 28259--28678 Score: 497
Period size: 198 Copynumber: 2.1 Consensus size: 197
28249 TTCGTAATTG
* * *
28259 CGACCTCAACCTTTCCCATCACATTTCATGGTATCGGATTTGTCGTTACGATCTCAATCTTTCCC
1 CGACCTCAACCTTTCCCATCACATTTCATGGTATCGAATTCGTCGTTACGACCTCAATCTTTCCC
* * * * *
28324 ATCACATCTTTTGAGGTATCGGGTTCGCTAC-TAT-GACCTCAACCTTTCCCGTTATATATTTTA
66 ATCACATCTTCTAAGGTATCGGGTTCG-T-CGT-TCGACCTCAACCTTTCCCGTCACATATCTTA
* * * *
28387 AGGTACTGGATTCACCGTTACAACCTCAACCTTT-CCTTTCAAATCTTTTGAGGTATCGGGTTTG
128 AGATACTGGATTCACCGCTACAACCTCAACCTTTCCCTTT-AAATCTTATGAGGTATCGGGTTAG
28451 CCATTA
192 CCATTA
* * *
28457 CGACCTTAACCTTTCCTATCACATTTCATGGTATCGAATTCG-CTGTTACGGCCTCAATCTTTCC
1 CGACCTCAACCTTTCCCATCACATTTCATGGTATCGAATTCGTC-GTTACGACCTCAATCTTTCC
* * *
28521 CATCATATCTTCTAAGGTATCGGGTTCGTCGTTGCGTCCTCAACCTTTCCCGTCACATCTCTTAA
65 CATCACATCTTCTAAGGTATCGGGTTCGTCGTT-CGACCTCAACCTTTCCCGTCACATATCTTAA
** * * * * *
28586 GATTTTGGGTTTACCGCTGCGACCTCAACCTTTCCCTTTAAATCTTATGAGGTATCGGGTTAGTC
129 GATACTGGATTCACCGCTACAACCTCAACCTTTCCCTTTAAATCTTATGAGGTATCGGGTTAGCC
*
28651 GTTA
194 ATTA
* * *
28655 CGACCTCAATCTTTTCCGTCACAT
1 CGACCTCAACCTTTCCCATCACAT
28679 CTTTTAAGGT
Statistics
Matches: 186, Mismatches: 31, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
196 2 0.01
197 3 0.02
198 176 0.95
199 5 0.03
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.36
Consensus pattern (197 bp):
CGACCTCAACCTTTCCCATCACATTTCATGGTATCGAATTCGTCGTTACGACCTCAATCTTTCCC
ATCACATCTTCTAAGGTATCGGGTTCGTCGTTCGACCTCAACCTTTCCCGTCACATATCTTAAGA
TACTGGATTCACCGCTACAACCTCAACCTTTCCCTTTAAATCTTATGAGGTATCGGGTTAGCCAT
TA
Found at i:35468 original size:30 final size:29
Alignment explanation
Indices: 35415--35482 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
35405 AAATTAATTT
* *
35415 TTTTGGAAAATTTTAGATTAAAAT-TGAAC
1 TTTTGGAAAATTTAAGATGAAAATGTG-AC
* *
35444 TTTTGGAAAATTTAAGGTCGAAAATGTGAT
1 TTTTGGAAAATTTAAGAT-GAAAATGTGAC
35474 TTTTGGAAA
1 TTTTGGAAA
35483 TTTGGGGGCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 16 0.48
30 15 0.45
31 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.40
Consensus pattern (29 bp):
TTTTGGAAAATTTAAGATGAAAATGTGAC
Found at i:35504 original size:29 final size:28
Alignment explanation
Indices: 35464--35535 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
35454 TTTAAGGTCG
*
35464 AAAATGTGATTTTTGGAA-ATTTGGGGGC
1 AAAATGTAATTTTT-GAATATTTGGGGGC
* *
35492 AAAATAGTAATTTTTGAATGTTTGGGGGT
1 AAAAT-GTAATTTTTGAATATTTGGGGGC
35521 AAAATGGTAATTTTT
1 AAAAT-GTAATTTTT
35536 TGATGTTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 8 0.21
29 30 0.79
ACGTcount: A:0.32, C:0.01, G:0.26, T:0.40
Consensus pattern (28 bp):
AAAATGTAATTTTTGAATATTTGGGGGC
Found at i:35541 original size:29 final size:29
Alignment explanation
Indices: 35483--35562 Score: 94
Period size: 29 Copynumber: 2.8 Consensus size: 29
35473 TTTTTGGAAA
35483 TTTGGGGGCAAAATAGTAA-TTTTTGAATG
1 TTTGGGGG-AAAATAGTAATTTTTTGAATG
*
35512 TTTGGGGGTAAAATGGTAATTTTTTG-ATG
1 TTTGGGGG-AAAATAGTAATTTTTTGAATG
*
35541 TTCGGGGGAAAATCA-TAATTTT
1 TTTGGGGGAAAAT-AGTAATTTT
35563 GGAGAAGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 12 0.27
29 27 0.60
30 6 0.13
ACGTcount: A:0.29, C:0.04, G:0.28, T:0.40
Consensus pattern (29 bp):
TTTGGGGGAAAATAGTAATTTTTTGAATG
Found at i:35621 original size:29 final size:29
Alignment explanation
Indices: 35589--35656 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
35579 AAAATGGGAG
*
35589 TTTAGAAAGCTCGAGGG-TAAAAATATAAT
1 TTTAGAAAACTC-AGGGTTAAAAATATAAT
* *
35618 TTTAGAAAAATTCAGGGTTCAAAATATAAT
1 TTTAG-AAAACTCAGGGTTAAAAATATAAT
35648 TTTAGAAAA
1 TTTAGAAAA
35657 GTTTAAGGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 13 0.38
30 21 0.62
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (29 bp):
TTTAGAAAACTCAGGGTTAAAAATATAAT
Found at i:35644 original size:30 final size:29
Alignment explanation
Indices: 35602--35701 Score: 119
Period size: 30 Copynumber: 3.3 Consensus size: 29
35592 AGAAAGCTCG
* *
35602 AGGGTAAAAATATAATTTTAGAAAAATTC
1 AGGGTTAAAATATAATTTTAGAAAAATTA
*
35631 AGGGTTCAAAATATAATTTTAGAAAAGTTTA
1 AGGGTT-AAAATATAATTTTAGAAAA-ATTA
* *
35662 AGGGTTAAAATGTAATTTTGAAAAAAATTA
1 AGGGTTAAAATATAATTTT-AGAAAAATTA
*
35692 GGGGTTAAAA
1 AGGGTTAAAA
35702 AGTAAATTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
29 5 0.08
30 43 0.70
31 13 0.21
ACGTcount: A:0.48, C:0.02, G:0.18, T:0.32
Consensus pattern (29 bp):
AGGGTTAAAATATAATTTTAGAAAAATTA
Found at i:35678 original size:60 final size:59
Alignment explanation
Indices: 35602--35748 Score: 156
Period size: 60 Copynumber: 2.5 Consensus size: 59
35592 AGAAAGCTCG
* * *
35602 AGGGTAAAAATATAATTTT-AGAAAAATTCA-GGGTTCAAAATA-TAATTTTAGAAAAGTTTA
1 AGGGTAAAAATGTAATTTTGAAAAAAATT-AGGGGTT-AAAA-AGTAAATTTAG-AAAGTTTA
* * *
35662 AGGGTTAAAATGTAATTTTGAAAAAAATTAGGGGTTAAAAAGTAAATTTAGGAATTTTA
1 AGGGTAAAAATGTAATTTTGAAAAAAATTAGGGGTTAAAAAGTAAATTTAGAAAGTTTA
* *
35721 GGGGTAAAAATGTAATTTTTAAACAAAA
1 AGGGTAAAAATGTAATTTTGAAA-AAAA
35749 ACAGGGGCTT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
59 27 0.36
60 34 0.46
61 13 0.18
ACGTcount: A:0.48, C:0.02, G:0.18, T:0.33
Consensus pattern (59 bp):
AGGGTAAAAATGTAATTTTGAAAAAAATTAGGGGTTAAAAAGTAAATTTAGAAAGTTTA
Found at i:36710 original size:13 final size:13
Alignment explanation
Indices: 36674--36703 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
36664 GTGTCAAATG
*
36674 GTGGCAGAGGCAA
1 GTGGCAAAGGCAA
36687 GTGGCAAAGGCAA
1 GTGGCAAAGGCAA
36700 GTGG
1 GTGG
36704 GTAAGGCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.47, T:0.10
Consensus pattern (13 bp):
GTGGCAAAGGCAA
Found at i:37398 original size:5 final size:5
Alignment explanation
Indices: 37388--37417 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
37378 CTTGAGTGTC
*
37388 TTTTA TTTTA TTTTA TGTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
37418 ATTATGTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTA
Done.