Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006845.1 Hibiscus syriacus cultivar Beakdansim tig00017404_pilon, 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: 169584
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:5245 original size:20 final size:20
Alignment explanation
Indices: 5216--5260 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
5206 TTCGAACATA
5216 TGTT-AGTATCTAACCAACT
1 TGTTAAGTATCTAACCAACT
5235 TGTTAAGTATCTAACCAACT
1 TGTTAAGTATCTAACCAACT
5255 TGTTAA
1 TGTTAA
5261 ACACGCATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (20 bp):
TGTTAAGTATCTAACCAACT
Found at i:10263 original size:2 final size:2
Alignment explanation
Indices: 10258--10286 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10248 ACACACACAC
10258 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10287 CTTGTCTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16440 original size:31 final size:31
Alignment explanation
Indices: 16404--16462 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
16394 AACTTAAAAG
* *
16404 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
16435 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
16463 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:16521 original size:18 final size:18
Alignment explanation
Indices: 16495--16575 Score: 55
Period size: 18 Copynumber: 4.5 Consensus size: 18
16485 TATTTAAAAT
*
16495 AAATCAATCCATATTTTA
1 AAATAAATCCATATTTTA
*
16513 AAATAAAT-CA-ATTCGTA
1 AAATAAATCCATATT-TTA
*
16530 ATAATAAAT---TATTTAAAA
1 A-AATAAATCCATATTT--TA
16548 TAAATAAATCCATATTTTA
1 -AAATAAATCCATATTTTA
16567 AAATAAATC
1 AAATAAATC
16576 AATCTATACT
Statistics
Matches: 49, Mismatches: 5, Indels: 18
0.68 0.07 0.25
Matches are distributed among these distances:
16 3 0.06
17 8 0.16
18 31 0.63
19 2 0.04
21 5 0.10
ACGTcount: A:0.53, C:0.10, G:0.01, T:0.36
Consensus pattern (18 bp):
AAATAAATCCATATTTTA
Found at i:16539 original size:54 final size:54
Alignment explanation
Indices: 16477--17109 Score: 556
Period size: 54 Copynumber: 11.8 Consensus size: 54
16467 ACAACTACAA
16477 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATTCGTA-A-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAA-TC-TATAC
*
16531 TAATAAATTATTTAAAATAAATAAATCCATATTTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
*
16585 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATAAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
*** * *
16639 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AAT-AATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCTATAC
*
16691 -CAT--A-T-TTTAAAATAAATCAATCCGTACTAATAAATTATTTAAAATAAATCAAT-TCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCT-ATAC
16750 TAATAAATTATTT-AAATAAATCAATCCGTACTAATAAATTATTTAAAATAAATCAAT-TCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCT-ATAC
*
16813 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
*
16867 TAATAAATTATTTAAAATAAATCAATTCATATTTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
*** * * *
16921 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCTATAC
* * *
16974 T-AT--A-T-TTTAAAATAAATCAATTCATA--CT--AATAAAT-TAT-T-TA-
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
* * *
17015 AAATAAATTATTTTAAAATAAATCAATCCATATTTTATTAATAAATTAAT-TA-A-
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTA-AAATAAATCAATCTATAC
* * *
17068 -AATAATTTATTTTAAAATAAATCAATTCATATTTTATAATAA
1 TAATAAATTA-TTTAAAATAAATCAATCCATATTTTAAAATAA
17110 TTTATTTTAA
Statistics
Matches: 505, Mismatches: 35, Indels: 81
0.81 0.06 0.13
Matches are distributed among these distances:
41 1 0.00
42 2 0.00
43 5 0.01
44 4 0.01
45 3 0.01
47 36 0.07
48 22 0.04
49 3 0.01
50 1 0.00
51 9 0.02
52 46 0.09
53 17 0.03
54 243 0.48
55 12 0.02
56 6 0.01
57 3 0.01
58 7 0.01
59 1 0.00
60 3 0.01
62 1 0.00
63 65 0.13
64 15 0.03
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.37
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
Found at i:16604 original size:32 final size:32
Alignment explanation
Indices: 16563--16670 Score: 128
Period size: 32 Copynumber: 3.7 Consensus size: 32
16553 AAATCCATAT
16563 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCTATACTAATAAATTA
16595 TTTAAAATAAATCAATC----C--AT--A-T-
1 TTTAAAATAAATCAATCTATACTAATAAATTA
*
16617 TTTAAAATAAATAAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCTATACTAATAAATTA
*
16649 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCTATAC
16671 AACTACAATA
Statistics
Matches: 63, Mismatches: 3, Indels: 20
0.73 0.03 0.23
Matches are distributed among these distances:
22 16 0.25
23 1 0.02
24 1 0.02
26 3 0.05
28 3 0.05
30 1 0.02
31 1 0.02
32 37 0.59
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCTATACTAATAAATTA
Found at i:16699 original size:79 final size:79
Alignment explanation
Indices: 16604--16749 Score: 256
Period size: 79 Copynumber: 1.8 Consensus size: 79
16594 ATTTAAAATA
*
16604 AATCAATCCATATTTTAAAATAAATAAATCTATACTAATAAATTATTTAAAATAAATCAATCCAT
1 AATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
16669 ACAACTACAATAAT
66 ACAACTACAATAAT
* * *
16683 AATCAATCCATATTTTAAAATAAATCAATCCGTACTAATAAATTATTTAAAATAAATCAATTCAT
1 AATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
16748 AC
66 AC
16750 TAATAAATTA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 63 1.00
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.34
Consensus pattern (79 bp):
AATCAATCCATATTTTAAAATAAATAAATCCATACTAATAAATTATTTAAAATAAATCAATCCAT
ACAACTACAATAAT
Found at i:16735 original size:32 final size:32
Alignment explanation
Indices: 16696--16952 Score: 322
Period size: 32 Copynumber: 8.7 Consensus size: 32
16686 CAATCCATAT
*
16696 TTTAAAATAAATCAATCCGTACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
16728 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
16760 TTT-AAATAAATCAATCCGTACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
16791 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
16823 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
16845 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
16877 TTTAAAATAAATCAAT---T-C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
16899 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
16931 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCCATAC
16953 AACTACAATA
Statistics
Matches: 197, Mismatches: 7, Indels: 42
0.80 0.03 0.17
Matches are distributed among these distances:
22 32 0.16
23 3 0.02
24 2 0.01
25 1 0.01
26 6 0.03
28 6 0.03
29 1 0.01
30 2 0.01
31 32 0.16
32 112 0.57
ACGTcount: A:0.51, C:0.12, G:0.01, T:0.36
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:16849 original size:22 final size:22
Alignment explanation
Indices: 16823--16865 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
16813 TAATAAATTA
16823 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
16845 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
16866 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:16874 original size:22 final size:22
Alignment explanation
Indices: 16825--16873 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
16815 ATAAATTATT
**
16825 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
16847 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
16870 TAAA
1 TAAA
16874 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:17031 original size:15 final size:15
Alignment explanation
Indices: 17002--17156 Score: 107
Period size: 15 Copynumber: 9.5 Consensus size: 15
16992 AATTCATACT
17002 AATAAATTA-TTTAA
1 AATAAATTATTTTAA
17016 AATAAATTATTTTAA
1 AATAAATTATTTTAA
*
17031 AATAAATCAATCCATATTTTATT
1 AAT--A--AAT---TATTTTA-A
*
17054 AATAAATTA-ATTAA
1 AATAAATTATTTTAA
*
17068 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
17083 AATAAATCAATTCATATTTTAT
1 AAT--A--AA-T--TATTTTAA
*
17105 AATAATTTATTTTAA
1 AATAAATTATTTTAA
*
17120 AATAAATTATTTTAT
1 AATAAATTATTTTAA
17135 AATAAATTATTTTAA
1 AATAAATTATTTTAA
17150 AATAAAT
1 AATAAAT
17157 AACCTTATTA
Statistics
Matches: 112, Mismatches: 12, Indels: 33
0.71 0.08 0.21
Matches are distributed among these distances:
14 17 0.15
15 59 0.53
16 2 0.02
17 3 0.03
18 1 0.01
19 7 0.06
20 2 0.02
21 1 0.01
22 17 0.15
23 3 0.03
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
AATAAATTATTTTAA
Found at i:19712 original size:23 final size:24
Alignment explanation
Indices: 19677--19722 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
19667 TTGTAAATAT
*
19677 GATAATAGAGATG-TGATTGAGAG
1 GATAATAGAGATGATGATAGAGAG
19700 GATAAT-GAGGATGATGATAGAGA
1 GATAATAGA-GATGATGATAGAGA
19723 AGCAACTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 10 0.50
24 8 0.40
ACGTcount: A:0.41, C:0.00, G:0.35, T:0.24
Consensus pattern (24 bp):
GATAATAGAGATGATGATAGAGAG
Found at i:26085 original size:34 final size:34
Alignment explanation
Indices: 26042--26109 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
26032 TCGTCGATGG
26042 ATCCACAACCTTCAATTCAGCCACCATTGGTAAA
1 ATCCACAACCTTCAATTCAGCCACCATTGGTAAA
26076 ATCCACAACCTTCAATTCAGCCACCATTGGTAAA
1 ATCCACAACCTTCAATTCAGCCACCATTGGTAAA
26110 GATTTGTTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.35, C:0.32, G:0.09, T:0.24
Consensus pattern (34 bp):
ATCCACAACCTTCAATTCAGCCACCATTGGTAAA
Found at i:26929 original size:23 final size:22
Alignment explanation
Indices: 26903--26949 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
26893 ATAAAGTACA
*
26903 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAG-GCTTAT
**
26926 ATAATGTAATAGGTAGGCTTAT
1 ATAACATAATAGGTAGGCTTAT
26948 AT
1 AT
26950 TTACCTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (22 bp):
ATAACATAATAGGTAGGCTTAT
Found at i:27458 original size:23 final size:23
Alignment explanation
Indices: 27428--27490 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
27418 ACTTTACAAC
27428 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
27451 TACCTATTACATTATATAAGCGT
1 TACCTATTACATTATATAAACGA
*
27474 TACCTATTACATCATAT
1 TACCTATTACATTATAT
27491 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:27941 original size:23 final size:23
Alignment explanation
Indices: 27911--27973 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
27901 ACTTTACAAC
27911 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
27934 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
27957 TACCTATTACATCATAT
1 TACCTATTACATTATAT
27974 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:28424 original size:23 final size:23
Alignment explanation
Indices: 28394--28456 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
28384 ACTTTACAAC
28394 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
28417 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
28440 TACCTATTACATCATAT
1 TACCTATTACATTATAT
28457 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:28905 original size:23 final size:23
Alignment explanation
Indices: 28875--28937 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
28865 ACTTTACAAC
28875 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
28898 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
* *
28921 TACCTACTAGATTATAT
1 TACCTATTACATTATAT
28938 TTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:29385 original size:23 final size:23
Alignment explanation
Indices: 29355--29417 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
29345 ACTTTACAAC
29355 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
29378 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
29401 TACCTATTACATCATAT
1 TACCTATTACATTATAT
29418 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:29898 original size:23 final size:23
Alignment explanation
Indices: 29835--29890 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
29825 TACTTTACAA
29835 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
* *
29858 ATACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
29881 CTACCTATTA
1 CTACCTATTA
29891 TATCATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:30348 original size:23 final size:23
Alignment explanation
Indices: 30318--30380 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
30308 ACTTTACAAC
30318 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
30341 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
30364 TACCTATTACATCATAT
1 TACCTATTACATTATAT
30381 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:30371 original size:482 final size:482
Alignment explanation
Indices: 27023--32057 Score: 9390
Period size: 481 Copynumber: 10.5 Consensus size: 482
27013 TTATAATATG
* *
27023 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATAATTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
* *
27088 TCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
27153 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
27218 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
27283 ATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
27348 TAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
*
27413 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGTTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
27478 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
* *
27505 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
*
27570 TTCAATATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
27635 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
* *
27700 TTAACCAAAGATAATAATAAATATGTAATATATATATTTATTGTTTTTAATATAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
27765 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
27830 TCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
27895 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
27960 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
27988 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
*
28053 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
*
28118 ACAAAAAATTATTTGATTTTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
28183 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
*
28248 TATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* *
28313 TCAAAAGATAACCTTAAATTAATATTTTCTACAGTGAAAAAAATATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
28378 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
28443 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
28471 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
28535 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
28600 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
*
28665 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTATTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
28730 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* * *
28795 CAAAAGATAACCTTAAATTAATATTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
28860 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
* * *
28925 TACTAGATTATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
*
28952 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTTAAAGTTATGTAATTTATG
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC--TTTTTTTAAAGTTATGTAATTTATG
*
29017 TTTCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTA
64 TTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTA
29081 CACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAAT
129 CACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAAT
29146 ATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-A-AT
194 ATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATAT
*
29209 ATATCGTAATGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCA
259 ATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCA
29273 CTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAG
324 CTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAG
29338 GATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTA
389 GATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTA
29403 CCTATTACATCATATTTTTACCTATTATA
454 CCTATTACATCATATTTTTACCTATTATA
*
29432 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
29497 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
29562 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
29627 TTAACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
29690 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
29755 TCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
29820 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
*
29885 CTATTATATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
29913 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
*
29978 TTCAA-TTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
30042 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
30107 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
*
30172 TATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* *
30237 TCAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
30302 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
30367 CTATTACATCATATTTTTACCTATTATA
455 CTATTACATCATATTTTTACCTATTATA
30395 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
30460 GCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
30525 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
30590 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* *
30655 ATCGTAATGTAAAAAATAAATTATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
*
30720 CAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
* * *
30785 TAAATACTTTACAACTACCTATTACATTATATAAATGATACCTATTACATTATATAAGTGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
30850 TATTACATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
30877 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
30942 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
31006 AAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* * *
31071 TAACCAAAGATAATAATAAATATGTAATATATATATTTTTTGTTTTTAATATAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
31136 ATCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
31201 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
31266 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
*
31331 TATTATATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
* *
31358 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAATGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
*
31423 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
31488 AAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* *
31553 TAACCAAAGATAATAATAAATATGTAATATATATATTTATTGTTTTTAATATAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
*
31618 ATCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
31683 CAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
31748 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
*
31813 TATTATATCATATTTTTACCTATTATA
456 TATTACATCATATTTTTACCTATTATA
*
31840 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
31905 TCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
31969 CAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
32033 TAACCAAAGATAATAATAAATATGT
196 TAACCAAAGATAATAATAAATATGT
32058 TTTCCACAGT
Statistics
Matches: 4459, Mismatches: 82, Indels: 26
0.98 0.02 0.01
Matches are distributed among these distances:
478 30 0.01
479 34 0.01
480 624 0.14
481 1333 0.30
482 1280 0.29
483 1128 0.25
484 30 0.01
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (482 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTT
TCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
TATTACATCATATTTTTACCTATTATA
Found at i:30375 original size:963 final size:964
Alignment explanation
Indices: 27023--32057 Score: 9433
Period size: 963 Copynumber: 5.2 Consensus size: 964
27013 TTATAATATG
* *
27023 TTGAAAGTGTCCATACTTTTTATAAAAATGATCGATA-ATTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
* *
27087 TTCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGC
66 TTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
27152 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
27217 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
27282 TATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
*
27347 TTAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
*
27412 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGTTAC
390 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
* *
27477 CTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGACA
455 CTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATA
*
27542 CTTTTTTTTAAAGTTATGTAATTTATGTTTCAATATTTTTTAATAGTGTTTCATGTTTTCCACCT
520 C-TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCT
27607 ACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAA
584 ACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAA
*
27672 TAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATAT
649 TAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGT
*
27737 TTATTGTTTTTAATATAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATA
714 TTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATA
27802 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGA
779 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGA
27867 AAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAAC
844 AAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAAC
27932 GATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
909 GATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
27988 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
*
28053 TTCAATTTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
66 TTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
*
28118 ACAAAAAATTATTTGATTTTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
28183 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
28248 TATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
* *
28313 TCAAAAGATAACCTTAAATTAATATTTTCTACAGTGAAAAAAATATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
28378 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
28443 CTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATA
455 CTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATA
28508 C-TTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTA
520 CTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTA
28572 CAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAAT
585 CAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAAT
28637 AATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
650 AATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTT
*
28702 TATTATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
715 TATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAA
* * *
28767 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATATTTTCCACAATGAA
780 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAA
28832 AAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACG
845 AAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACG
* * *
28897 ATACCTATTACATTATATAAGCGCTACCTACTAGATTATATTTTTACCTATTATA
910 ATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
*
28952 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACACTTTTTTTTTAAAGTTATGTAATTTATG
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTTAAAGTTATGTAATTTATG
*
29017 TTTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
65 TTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTAC
29082 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
130 ACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATA
29147 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-A-ATA
195 TTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATA
29210 TATCGTAATGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
260 TATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
29274 TCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
325 TCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
29339 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
390 ATAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTAC
*
29404 CTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGACA
455 CTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATA
29469 CTTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCT
520 C-TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCT
29534 ACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAA
584 ACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAA
29599 TAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT-A-ATATATGT
649 TAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGT
29662 TTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATA
714 TTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATA
29727 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGA
779 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGA
29792 AAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAAC
844 AAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAAC
*
29857 GATACCTATTACATTATATAAGCGCTACCTATTATATCATATTTTTACCTATTATA
909 GATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
29913 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
*
29978 TTCAATTTTTTTAATAGTGTTTTATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
30043 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
30108 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
30173 ATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
30238 CAAAAGATAACCTTAAATTAATATTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
30303 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
30368 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
456 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
*
30433 TTTTTTTAAAGTTATGTAATTTATGTTGCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAC
521 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAC
30498 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
586 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
*
30563 TTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTT
651 ATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTT
* *
30628 ATTGTTTTTAATTTAATAATAATATATATCGTAATGTAAAAAATAAATTATTAGACGCCTATAAT
716 ATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAAT
*
30693 TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAA
781 TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAA
* *
30758 AAAGTATGGACACTTTTATAAAAAGGATAAATACTTTACAACTACCTATTACATTATATAAATGA
846 AAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGA
*
30823 TACCTATTACATTATATAAGTGCTACCTATTACATCATATTTTTACCTATTATA
911 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
30877 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
*
30941 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTTATTTACA
66 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
*
31006 AAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
* * *
31071 TAACCAAAGATAATAATAAATATGTAATATATATATTTTTTGTTTTTAATATAATAATAATATAT
196 TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
* *
31136 ATCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
261 ATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
* *
31201 CAAAAGATAACCTTAAATTAATGTTTTCCACAATGAAAAAAGTATGGACACTTTTATAAAAAGGA
326 CAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
31266 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
391 TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
* *
31331 TATTATATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATAC
456 TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
*
31396 TTTTTTTAATGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAC
521 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAC
* *
31461 AATATTAATTTAATAATTTTATTTACAAAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
586 AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
*
31526 ATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATATTT
651 ATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTT
* *
31591 ATTGTTTTTAATATAATAATAATATATATCGTAACGTAAAAAATAAATCATTAAACGCCTATAAT
716 ATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAAT
31656 TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAA
781 TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAA
31721 AAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGA
846 AAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGA
*
31786 TACCTATTACATTATATAAGCGCTACCTATTATATCATATTTTTACCTATTATA
911 TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
*
31840 TTGAAAGTGTCCATACTTTTTATAAAAAGAATCGATAC-TTTTTTTAAAGTTATGTAATTTATGT
1 TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
31904 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
66 TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
* *
31969 CAAAAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATAT
131 CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
32033 TAACCAAAGATAATAATAAATATGT
196 TAACCAAAGATAATAATAAATATGT
32058 TTTCCACAGT
Statistics
Matches: 3982, Mismatches: 79, Indels: 21
0.98 0.02 0.01
Matches are distributed among these distances:
960 215 0.05
961 536 0.13
962 279 0.07
963 1470 0.37
964 942 0.24
965 68 0.02
966 472 0.12
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (964 bp):
TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTTAAAGTTATGTAATTTATGT
TTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACA
CAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATAT
TAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATAT
ATCGTAATGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACT
CAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGA
TAGATACTTTACAACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACC
TATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC
TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAC
AATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATA
ATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTT
ATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAAT
TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCTACAGTGAAA
AAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAACTACCTATTACATTATATAAACGA
TACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATA
Found at i:30830 original size:23 final size:23
Alignment explanation
Indices: 30800--30862 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
30790 ACTTTACAAC
30800 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAATGA
* *
30823 TACCTATTACATTATATAAGTGC
1 TACCTATTACATTATATAAATGA
*
30846 TACCTATTACATCATAT
1 TACCTATTACATTATAT
30863 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (23 bp):
TACCTATTACATTATATAAATGA
Found at i:31343 original size:23 final size:23
Alignment explanation
Indices: 31280--31335 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
31270 TACTTTACAA
31280 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
* *
31303 ATACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
31326 CTACCTATTA
1 CTACCTATTA
31336 TATCATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:31825 original size:23 final size:23
Alignment explanation
Indices: 31762--31817 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
31752 TACTTTACAA
31762 CTACCTATTACATTATATAAACG
1 CTACCTATTACATTATATAAACG
* *
31785 ATACCTATTACATTATATAAGCG
1 CTACCTATTACATTATATAAACG
31808 CTACCTATTA
1 CTACCTATTA
31818 TATCATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
CTACCTATTACATTATATAAACG
Found at i:32534 original size:229 final size:228
Alignment explanation
Indices: 31857--32565 Score: 1282
Period size: 228 Copynumber: 3.1 Consensus size: 228
31847 TGTCCATACT
31857 TTTTATAAAAA-GA-ATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
1 TTTTATAAAAATGATAT--ATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
31920 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGAT
64 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGAT
*
31985 TATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
129 TTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
32050 AAATATGTTTTCCACAGTGAAATAAGTATGGACAC
194 AAATATGTTTTCCACAGTGAAATAAGTATGGACAC
*
32085 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAAATTTTTTAATAGT
1 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
*
32150 GTTTGATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTT
66 GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTT
32215 TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
131 TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
**
32280 ATATGTTTTCCACAGTGAAATAAGTATAAACAC
196 ATATGTTTTCCACAGTGAAATAAGTATGGACAC
32313 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAG
1 TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAG
32378 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATT
65 TGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATT
32443 GTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
130 -TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
*
32508 AAATATATTTT-CACAGTGAAATAAGTATGGACAC
194 AAATATGTTTTCCACAGTGAAATAAGTATGGACAC
* *
32542 TTTTATAAAAAGGATAGATA-TTTT
1 TTTTATAAAAATGATATATACTTTT
32566 ACAATATAAC
Statistics
Matches: 465, Mismatches: 12, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
228 273 0.59
229 116 0.25
230 76 0.16
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.45
Consensus pattern (228 bp):
TTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGT
GTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTT
TTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAA
ATATGTTTTCCACAGTGAAATAAGTATGGACAC
Found at i:34368 original size:228 final size:230
Alignment explanation
Indices: 33971--34427 Score: 828
Period size: 228 Copynumber: 2.0 Consensus size: 230
33961 CACCCATATC
*
33971 GTTTCGCCCTTTGGCTTTGGGAGGTTCTTATTAGTTCCATTTCAGGGCTCTCCTCCACCATCTCT
1 GTTTCGCCCTTTGGCTTAGGGAGGTTCTTATTAGTTCCATTTCAGGGCTCTCCTCCACCATCTCT
34036 TCCATTCCCTTTAGAACCATCTTATCTTCATTCTCTCCTCTCCATCTGCATTTTCTTTGCCTTTT
66 TCCATTCCCTTTAGAACCATCTTATCTTCATTCTCTCCTCTCCATCTGCATTTTCTTTGCCTTTT
34101 CTCTTCCTTATTTACTAAAAAAGGGTTGCTGAATCTCTGTTGAG-T-TTTTTTAAACTCTTATTT
131 CTCTTCCTTATTTACTAAAAAAGGGTTGCTGAATCTCTGTTGAGTTCTTTTTTAAACTCTTATTT
34164 TCCATGTTTCTCCATTTCTGAAAAAGAGATATCAA
196 TCCATGTTTCTCCATTTCTGAAAAAGAGATATCAA
34199 GTTTCGCCCTTTGGCTTAGGGAGGTTCTTATTAGTTCCATTTCAGGGCTCTCCTCCACCATCTCT
1 GTTTCGCCCTTTGGCTTAGGGAGGTTCTTATTAGTTCCATTTCAGGGCTCTCCTCCACCATCTCT
* * *
34264 TCCATTCCCTTTAGAACCCTCTTATCTTCATTCTCTCTTCTCCGTCTGCATTTTCTTTGCCTTTT
66 TCCATTCCCTTTAGAACCATCTTATCTTCATTCTCTCCTCTCCATCTGCATTTTCTTTGCCTTTT
34329 CTCTTCCTTATTTACTAAAAAAGGGTTGCTGAATCTCTGTTGAGTTTTTCTTTTTTAAACTCTTA
131 CTCTTCCTTATTTACTAAAAAAGGGTTGCTGAATCTCTGTTGAG---TTCTTTTTTAAACTCTTA
*
34394 TTTTCCATGTTTCTCCATTTCTGAAAAAGTGATA
193 TTTTCCATGTTTCTCCATTTCTGAAAAAGAGATA
34428 GCAAACAAGA
Statistics
Matches: 219, Mismatches: 5, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
228 170 0.78
232 1 0.00
233 48 0.22
ACGTcount: A:0.18, C:0.25, G:0.12, T:0.44
Consensus pattern (230 bp):
GTTTCGCCCTTTGGCTTAGGGAGGTTCTTATTAGTTCCATTTCAGGGCTCTCCTCCACCATCTCT
TCCATTCCCTTTAGAACCATCTTATCTTCATTCTCTCCTCTCCATCTGCATTTTCTTTGCCTTTT
CTCTTCCTTATTTACTAAAAAAGGGTTGCTGAATCTCTGTTGAGTTCTTTTTTAAACTCTTATTT
TCCATGTTTCTCCATTTCTGAAAAAGAGATATCAA
Found at i:34683 original size:2 final size:2
Alignment explanation
Indices: 34676--34719 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
34666 TTTTGGTGAT
34676 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34718 TA
1 TA
34720 AGGGGGGTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48257 original size:16 final size:16
Alignment explanation
Indices: 48226--48293 Score: 73
Period size: 16 Copynumber: 4.2 Consensus size: 16
48216 ATTACCCTAT
* *
48226 CTGTTTTCAACCTGAC
1 CTGTTTTTAAACTGAC
* *
48242 CTATTTTTAAATTGAC
1 CTGTTTTTAAACTGAC
* *
48258 ATGTTTTTAACCTGAC
1 CTGTTTTTAAACTGAC
*
48274 CTGTTTTTAATCTGAC
1 CTGTTTTTAAACTGAC
48290 CTGT
1 CTGT
48294 AAATGATCCG
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.46
Consensus pattern (16 bp):
CTGTTTTTAAACTGAC
Found at i:48592 original size:23 final size:23
Alignment explanation
Indices: 48566--48609 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
48556 AGGAACATTA
48566 ATATAGTTTAATTTATATAAATT
1 ATATAGTTTAATTTATATAAATT
48589 ATATAGTTTAATTTATATAAA
1 ATATAGTTTAATTTATATAAA
48610 GAAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (23 bp):
ATATAGTTTAATTTATATAAATT
Found at i:48795 original size:7 final size:7
Alignment explanation
Indices: 48779--48830 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
48769 TACATTAGGA
48779 TTTATGG
1 TTTATGG
*
48786 TTTATTG
1 TTTATGG
*
48793 TTTATTG
1 TTTATGG
48800 TTTATGG
1 TTTATGG
**
48807 TTTAAAG
1 TTTATGG
*
48814 TTTAGGG
1 TTTATGG
*
48821 TTTAGGG
1 TTTATGG
48828 TTT
1 TTT
48831 CTATAAACTA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.17, C:0.00, G:0.25, T:0.58
Consensus pattern (7 bp):
TTTATGG
Found at i:48823 original size:21 final size:21
Alignment explanation
Indices: 48773--48830 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
48763 TCCATTTACA
* **
48773 TTAGGATTTATGGTTTATTGT
1 TTAGGGTTTATGGTTTAAAGT
**
48794 TTATTGTTTATGGTTTAAAGT
1 TTAGGGTTTATGGTTTAAAGT
*
48815 TTAGGGTTTAGGGTTT
1 TTAGGGTTTATGGTTT
48831 CTATAAACTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (21 bp):
TTAGGGTTTATGGTTTAAAGT
Found at i:48932 original size:49 final size:48
Alignment explanation
Indices: 48831--48932 Score: 107
Period size: 49 Copynumber: 2.1 Consensus size: 48
48821 TTTAGGGTTT
** * * * * *
48831 CTATAAACTATATACTTTATTCCTTTATATAGTTTATGCATGGTATTT
1 CTATAAACTATATAAGTAATTACTTTATATAGTTTATACATGATATTA
*
48879 CTATAAACTATATAAGTAATTTACTTTATATAGTTTATATAT-ATATATA
1 CTATAAACTATATAAGTAA-TTACTTTATATAGTTTATACATGATAT-TA
48928 CTATA
1 CTATA
48933 CATGGTTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
48 19 0.43
49 25 0.57
ACGTcount: A:0.36, C:0.10, G:0.06, T:0.48
Consensus pattern (48 bp):
CTATAAACTATATAAGTAATTACTTTATATAGTTTATACATGATATTA
Found at i:49320 original size:21 final size:21
Alignment explanation
Indices: 49292--49370 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
49282 TCTATTTATA
*
49292 TTAGGGTTTAGTGTTTA-GTGT
1 TTAGGGTTTAGAGTTTATG-GT
* *
49313 TTATGGTTTAAAGTTTATGGT
1 TTAGGGTTTAGAGTTTATGGT
* *
49334 TTAGGGTTTAGAGTCTATGAT
1 TTAGGGTTTAGAGTTTATGGT
* * *
49355 ATAAGGTTTAGGGTTT
1 TTAGGGTTTAGAGTTT
49371 CTATAAAACT
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
21 45 0.98
22 1 0.02
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (21 bp):
TTAGGGTTTAGAGTTTATGGT
Found at i:49344 original size:7 final size:7
Alignment explanation
Indices: 49292--49344 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
49282 TCTATTTATA
49292 TTAGGGT
1 TTAGGGT
*
49299 TTAGTGT
1 TTAGGGT
*
49306 TTAGTGT
1 TTAGGGT
*
49313 TTATGGT
1 TTAGGGT
**
49320 TTAAAGT
1 TTAGGGT
*
49327 TTATGGT
1 TTAGGGT
49334 TTAGGGT
1 TTAGGGT
49341 TTAG
1 TTAG
49345 AGTCTATGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (7 bp):
TTAGGGT
Found at i:50491 original size:35 final size:36
Alignment explanation
Indices: 50423--50491 Score: 113
Period size: 35 Copynumber: 1.9 Consensus size: 36
50413 AACCTGGGGG
* *
50423 GGAATCGGTACCCCCTAGGGGGGAATCTGTTCCCAA
1 GGAATCAGTACCCCCTAGGGGAGAATCTGTTCCCAA
50459 GGAATCAGTACCCCCT-GGGGAGAATCTGTTCCC
1 GGAATCAGTACCCCCTAGGGGAGAATCTGTTCCC
50492 TCTGGGCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 16 0.52
36 15 0.48
ACGTcount: A:0.22, C:0.29, G:0.29, T:0.20
Consensus pattern (36 bp):
GGAATCAGTACCCCCTAGGGGAGAATCTGTTCCCAA
Found at i:50889 original size:7 final size:7
Alignment explanation
Indices: 50877--50944 Score: 70
Period size: 7 Copynumber: 9.7 Consensus size: 7
50867 TTTATATTAG
50877 GGTTTAA
1 GGTTTAA
50884 GGTTT-A
1 GGTTTAA
50890 GGATTTAA
1 GG-TTTAA
* *
50898 TGTTTAT
1 GGTTTAA
50905 GGTTTAA
1 GGTTTAA
50912 GGTTT-A
1 GGTTTAA
50918 GGATTTAA
1 GG-TTTAA
50926 GGTTT-A
1 GGTTTAA
50932 GGATTTAA
1 GG-TTTAA
50940 GGTTT
1 GGTTT
50945 CTATAAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
6 9 0.18
7 34 0.67
8 8 0.16
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:50890 original size:14 final size:14
Alignment explanation
Indices: 50873--50944 Score: 110
Period size: 14 Copynumber: 5.1 Consensus size: 14
50863 TCTATTTATA
*
50873 TTAGGGTTTAAGGT
1 TTAGGATTTAAGGT
*
50887 TTAGGATTTAATGT
1 TTAGGATTTAAGGT
50901 TTATGG-TTTAAGGT
1 TTA-GGATTTAAGGT
50915 TTAGGATTTAAGGT
1 TTAGGATTTAAGGT
50929 TTAGGATTTAAGGT
1 TTAGGATTTAAGGT
50943 TT
1 TT
50945 CTATAAAATT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
13 2 0.04
14 49 0.92
15 2 0.04
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (14 bp):
TTAGGATTTAAGGT
Found at i:51184 original size:2 final size:2
Alignment explanation
Indices: 51173--51332 Score: 81
Period size: 2 Copynumber: 82.0 Consensus size: 2
51163 ATAGTATTTC
*
51173 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
51213 CT- TA TA T- TA GT- TA TA CA TA CA TA TA TA TA CTA TA T- TA -A
1 -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * *
51251 TA TA -A GT- TA TA -A TT TA TA TA CTA TA TA T- TT TA TA TA GTT
1 TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA
* * * * *
51290 TA TA CA TA TA TA GTT TT TA TA CA TA CA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51333 GAAAATTAAA
Statistics
Matches: 121, Mismatches: 19, Indels: 36
0.69 0.11 0.20
Matches are distributed among these distances:
1 11 0.09
2 102 0.84
3 8 0.07
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:51286 original size:25 final size:23
Alignment explanation
Indices: 51257--51327 Score: 70
Period size: 25 Copynumber: 2.9 Consensus size: 23
51247 TTAATATAAG
51257 TTATAATTTATATACTATATATTT
1 TTATAATTTATATA-TATATATTT
* *
51281 TATATAGTTTATACATATATAGTTT
1 T-TATAATTTATATATATATA-TTT
**
51306 TTATACATACATATATATATAT
1 TTATA-ATTTATATATATATAT
51328 ATATAGAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 12 0.32
25 26 0.68
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (23 bp):
TTATAATTTATATATATATATTT
Found at i:51484 original size:104 final size:104
Alignment explanation
Indices: 51362--51569 Score: 416
Period size: 104 Copynumber: 2.0 Consensus size: 104
51352 AATGTATACA
51362 AGATTAAATTGCATTGAATTGAAAATTCAAGAAGATATTTACAATTATACCATGACTAAAATGAA
1 AGATTAAATTGCATTGAATTGAAAATTCAAGAAGATATTTACAATTATACCATGACTAAAATGAA
51427 AGAAATAAAAAATCAAATACAAGTGGAAAAATAATGATT
66 AGAAATAAAAAATCAAATACAAGTGGAAAAATAATGATT
51466 AGATTAAATTGCATTGAATTGAAAATTCAAGAAGATATTTACAATTATACCATGACTAAAATGAA
1 AGATTAAATTGCATTGAATTGAAAATTCAAGAAGATATTTACAATTATACCATGACTAAAATGAA
51531 AGAAATAAAAAATCAAATACAAGTGGAAAAATAATGATT
66 AGAAATAAAAAATCAAATACAAGTGGAAAAATAATGATT
51570 GTTGGAGGAG
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 104 1.00
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (104 bp):
AGATTAAATTGCATTGAATTGAAAATTCAAGAAGATATTTACAATTATACCATGACTAAAATGAA
AGAAATAAAAAATCAAATACAAGTGGAAAAATAATGATT
Found at i:51659 original size:19 final size:20
Alignment explanation
Indices: 51628--51684 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
51618 ATCTCAATTC
*
51628 TCAATTTCTCTCTAAATTTT
1 TCAATTTCCCTCTAAATTTT
* *
51648 TCTA-TTCCCTCTAAAATTT
1 TCAATTTCCCTCTAAATTTT
51667 TCAATTTCCCTCTAAATT
1 TCAATTTCCCTCTAAATT
51685 CCCAAATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.26, C:0.25, G:0.00, T:0.49
Consensus pattern (20 bp):
TCAATTTCCCTCTAAATTTT
Found at i:51666 original size:20 final size:20
Alignment explanation
Indices: 51623--51682 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
51613 ATAAAATCTC
* *
51623 AATTCTCAATTTCTCTCTAA
1 AATTTTCAATTTCCCTCTAA
* *
51643 ATTTTTCTA-TTCCCTCTAA
1 AATTTTCAATTTCCCTCTAA
51662 AATTTTCAATTTCCCTCTAA
1 AATTTTCAATTTCCCTCTAA
51682 A
1 A
51683 TTCCCAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTTTCAATTTCCCTCTAA
Found at i:51851 original size:15 final size:15
Alignment explanation
Indices: 51811--51855 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
51801 ATATAATTTT
51811 TATAGTTTATACATA
1 TATAGTTTATACATA
* *
51826 TACA-ATT-TACATA
1 TATAGTTTATACATA
51839 TATAGTTTATACATA
1 TATAGTTTATACATA
51854 TA
1 TA
51856 GTTCATATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (15 bp):
TATAGTTTATACATA
Found at i:51918 original size:18 final size:17
Alignment explanation
Indices: 51897--51932 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
51887 TATAATAATT
51897 ATATAGTTTATAATATAA
1 ATATAGTTTAT-ATATAA
51915 ATATAGTTTATATATAA
1 ATATAGTTTATATATAA
51932 A
1 A
51933 CTTATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATAGTTTATATATAA
Found at i:53638 original size:17 final size:18
Alignment explanation
Indices: 53616--53652 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
53606 GCAAATGCAG
*
53616 TTGTGC-TTTAGATTATT
1 TTGTGCATTTAGATAATT
53633 TTGTGCATTTAGATAATT
1 TTGTGCATTTAGATAATT
53651 TT
1 TT
53653 TTTAAAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.22, C:0.05, G:0.16, T:0.57
Consensus pattern (18 bp):
TTGTGCATTTAGATAATT
Found at i:61918 original size:189 final size:186
Alignment explanation
Indices: 61252--62099 Score: 1202
Period size: 188 Copynumber: 4.5 Consensus size: 186
61242 GCTGGCCAAT
* * * * *
61252 TAGCAGTAAATGCTGCAAACACAGGCTCAGATGCATTAAGTGTCTCTACGTTGAT-TGTTGGTCC
1 TAGCAGTAAATGTTGCAGACACTGGCTCAGATGCATTAAGTGCCTCTACGTTAATGT-TTGGTCC
* *
61316 TTTCATCAGCTCGGAGGCTTCAAATCCCGTATCATCATTAAACAATTCCTGTGGCTTAAGATCAG
65 TTTCATCAGCTTGGAGGCTTCAAATCCCATATCATCATTAAACAATTCCTGTGGCTTAAGATCAG
61381 AACATACGGCCCCGTCTTCAACTTGAGACTCATGATTTAGAGTTCCAGTTGCAGGCAAAG
130 AACATA--GCCCCGTCTTCAACTTGAGACTCA-GATTTAGAGTTCCAGTTGCAGGCAAAG
* * **
61441 TAGCAGTAAATGTTGCAGACACTTGCTCAGATGCATTAAGTGACTCTACGCCAATGTTT-GTCCT
1 TAGCAGTAAATGTTGCAGACACTGGCTCAGATGCATTAAGTGCCTCTACGTTAATGTTTGGTCCT
61505 TTCATCAGCTTGGAGGCTTCAAATCCCATATCATCATTAAACAATTCCTGTGGCTTAAGATCAGA
66 TTCATCAGCTTGGAGGCTTCAAATCCCATATCATCATTAAACAATTCCTGTGGCTTAAGATCAGA
61570 ACATACGGCCCCGTCTTCAACTTGAGACTCAAGATTTAGAGTTCCAGTTGCAGGCAAAG
131 ACATA--GCCCCGTCTTCAACTTGAGACTC-AGATTTAGAGTTCCAGTTGCAGGCAAAG
*
61629 TAGCAGTAAATGTTGCAGACACTGGCTCAGATGCATTAAGTGCCTCTACGTCAATGTTTGGTCCT
1 TAGCAGTAAATGTTGCAGACACTGGCTCAGATGCATTAAGTGCCTCTACGTTAATGTTTGGTCCT
*
61694 TTCATCAGCTTGGAGGCTTCAAATCCCATATCATCATTAAACGATTCCTGTGGCTTAAGATCAGA
66 TTCATCAGCTTGGAGGCTTCAAATCCCATATCATCATTAAACAATTCCTGTGGCTTAAGATCAGA
61759 ACATA-CCCCGTCTTCAACTTGAGACTCAGGATTTAGAGTTCCAGTTGCAGGCAAAG
131 ACATAGCCCCGTCTTCAACTTGAGACTCA-GATTTAGAGTTCCAGTTGCAGGCAAAG
61815 TAGCAGTAAATGTTGCAGACACTGGCTCAGATGCATTAAGTGCCTCTACGTTAATGTTTGGTCCT
1 TAGCAGTAAATGTTGCAGACACTGGCTCAGATGCATTAAGTGCCTCTACGTTAATGTTTGGTCCT
** ** *
61880 TTCATCAGCTTGGAGGCTTCAAATCCCGTATAATCATCACAAAACAATTCCTGTGTTTTAAGATT
66 TTCATCAGCTTGGAGGCTTCAAATCCC--AT-ATCATCATTAAACAATTCCTGTGGCTTAAGATC
* * * ** ** * *
61945 AGAATA-AACAACCCTGGCTTCAACTTGAGGGTTCAGATTTA-CTTTCTCAGATGCTGGCAAAG
128 AGAACATAGC--CCC-GTCTTCAACTTGA-GACTCAGATTTAGAGTTC-CAGTTGCAGGCAAAG
* ** * * * *
62007 TAGCAGTAAATGTTGCAGACACTGGCTCATATGCATTAAGAACCTCTATGTTATTATTCGGTCCT
1 TAGCAGTAAATGTTGCAGACACTGGCTCAGATGCATTAAGTGCCTCTACGTTAATGTTTGGTCCT
*
62072 TTCATTAGCTTGGAGGCTTCAAATCCCA
66 TTCATCAGCTTGGAGGCTTCAAATCCCA
62100 GAAGAGACTG
Statistics
Matches: 609, Mismatches: 37, Indels: 25
0.91 0.06 0.04
Matches are distributed among these distances:
185 1 0.00
186 140 0.23
188 184 0.30
189 157 0.26
190 2 0.00
191 6 0.01
192 115 0.19
193 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (186 bp):
TAGCAGTAAATGTTGCAGACACTGGCTCAGATGCATTAAGTGCCTCTACGTTAATGTTTGGTCCT
TTCATCAGCTTGGAGGCTTCAAATCCCATATCATCATTAAACAATTCCTGTGGCTTAAGATCAGA
ACATAGCCCCGTCTTCAACTTGAGACTCAGATTTAGAGTTCCAGTTGCAGGCAAAG
Found at i:70373 original size:29 final size:30
Alignment explanation
Indices: 70340--70426 Score: 88
Period size: 30 Copynumber: 2.9 Consensus size: 30
70330 ATTTTATCTA
* *
70340 GTGACTAAAATATAAGTTTTAAAAGTTT-G
1 GTGACTAAAATGTAACTTTTAAAAGTTTAG
* *
70369 GTGACTAAAGTGTAAACTTTAAAAAGTTTAG
1 GTGACTAAAATGT-AACTTTTAAAAGTTTAG
* *
70400 G-GATTAAAAATGTAATTTTTAAAAGTT
1 GTGACT-AAAATGTAACTTTTAAAAGTT
70427 GTATATTTTA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
29 11 0.23
30 28 0.60
31 8 0.17
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.37
Consensus pattern (30 bp):
GTGACTAAAATGTAACTTTTAAAAGTTTAG
Found at i:78938 original size:2 final size:2
Alignment explanation
Indices: 78931--78964 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
78921 TTAATAATGG
78931 AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
78965 CTAATATGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:83692 original size:20 final size:20
Alignment explanation
Indices: 83667--83708 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
83657 TATCTCGAGT
* *
83667 CTATCCTAAGAGTATTGATA
1 CTATCCCAAGAGTATCGATA
83687 CTATCCCAAGAGTATCGATA
1 CTATCCCAAGAGTATCGATA
83707 CT
1 CT
83709 CTTACAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (20 bp):
CTATCCCAAGAGTATCGATA
Found at i:85103 original size:32 final size:32
Alignment explanation
Indices: 85062--85158 Score: 176
Period size: 32 Copynumber: 3.0 Consensus size: 32
85052 AACAAAGAAA
85062 AGAAAGAATTATCAGTCATATATCTAAGATAT
1 AGAAAGAATTATCAGTCATATATCTAAGATAT
85094 AGAAAGAATTATCAGTCATATATCTAAGATAT
1 AGAAAGAATTATCAGTCATATATCTAAGATAT
*
85126 AGAAAGAATTATCATTCAATATATCTAAGATAT
1 AGAAAGAATTATCAGTC-ATATATCTAAGATAT
85159 TTCATCCATA
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 48 0.76
33 15 0.24
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.32
Consensus pattern (32 bp):
AGAAAGAATTATCAGTCATATATCTAAGATAT
Found at i:85163 original size:23 final size:22
Alignment explanation
Indices: 85129--85174 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
85119 AAGATATAGA
85129 AAGAATTATCATTCAATATATCT
1 AAGAATTATCA-TCAATATATCT
*
85152 AAGATATT-TCATCCATATATCT
1 AAGA-ATTATCATCAATATATCT
85174 A
1 A
85175 CGTAAAAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 11 0.52
23 7 0.33
24 3 0.14
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.39
Consensus pattern (22 bp):
AAGAATTATCATCAATATATCT
Found at i:91670 original size:22 final size:21
Alignment explanation
Indices: 91625--91670 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
91615 CATTTTGGAA
*
91625 AAAAAGTATCGACACATATTT
1 AAAAAGTATCGACACATATGT
* *
91646 AAAAAGTGTCGATACATAATGT
1 AAAAAGTATCGACACAT-ATGT
91668 AAA
1 AAA
91671 CCTATTTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (21 bp):
AAAAAGTATCGACACATATGT
Found at i:92588 original size:112 final size:111
Alignment explanation
Indices: 92230--92691 Score: 672
Period size: 111 Copynumber: 4.1 Consensus size: 111
92220 GATACTTATA
* * * * * * *
92230 ATAAAGTATCGTCACTATCAACATATCTGGTAGTGTTTTACCTGTTTTGTTATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * **
92295 TTTGTCAATTTTTATCTGTTTTATTGTTATGGATTGATACATTTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
* ** ** *
92341 ATAAAATATTAACACTTTCAATATATATGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
92406 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
66 TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
*
92452 ATAAAGTATTGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
92517 TTTGTCATTTTTTTACCTGTTATATTATTATGGATAAATACATTTTT
66 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
*
92564 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
92629 TTTGTCATTTTTTTTACTTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCA--TTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
*
92677 ATAAAATATCGACAC
1 ATAAAGTATCGACAC
92692 AAACCGACAA
Statistics
Matches: 319, Mismatches: 30, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
111 162 0.51
112 107 0.34
113 50 0.16
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (111 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTACCTGTTATATTGTTATGGATCAATACATTTTT
Found at i:92617 original size:223 final size:223
Alignment explanation
Indices: 92230--92691 Score: 683
Period size: 223 Copynumber: 2.1 Consensus size: 223
92220 GATACTTATA
* * * * *
92230 ATAAAGTATCGTCACTATCAACATATCTGGTAGTGTTTTACCTGTTTTGTTATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * * ** *
92295 TTTGTCAATTTTTATCTGTTTTATTGTTATGGATTGATACATTTTTATAAAATATTAACACTTTC
66 TTTGTCAATTTTTACCTGTTATATTATTATGGATAAATACATTTTTATAAAATATCAACACTTTC
* *
92360 AATATATATGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGATTTTGTCA-TTTTTTACCTG
131 AATATATACGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACCTG
92424 TTATATTGTTATGGATCAATACATTTTT
196 TTATATTGTTATGGATCAATACATTTTT
* * *
92452 ATAAAGTATTGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
92517 TTTGTCATTTTTTTACCTGTTATATTATTATGGATAAATACATTTTTATAAAGTATCGACACTTT
66 TTTGTCA-ATTTTTACCTGTTATATTATTATGGATAAATACATTTTTATAAAATATCAACACTTT
* * *
92582 CAATATATCCGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTTACT
130 CAATATATACGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGATTTTGTCA-TTTTTTTACC
*
92647 TGTTATATTGTTATGGATCAATATATTTTT
194 TGTTATATTGTTATGGATCAATACATTTTT
*
92677 ATAAAATATCGACAC
1 ATAAAGTATCGACAC
92692 AAACCGACAA
Statistics
Matches: 212, Mismatches: 25, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
222 64 0.30
223 98 0.46
225 50 0.24
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (223 bp):
ATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCAATTTTTACCTGTTATATTATTATGGATAAATACATTTTTATAAAATATCAACACTTTC
AATATATACGGTAGCGATTTACCTGTTTTGTCATTTATAGACCGATTTTGTCATTTTTTTACCTG
TTATATTGTTATGGATCAATACATTTTT
Found at i:94563 original size:45 final size:45
Alignment explanation
Indices: 94480--94565 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
94470 AGAGAAGGAT
* * *
94480 TTGGATGGTATGATAACTGATGACACTGTTATTAAAGGAAATCAG
1 TTGGATGGTATGATAACTGAGGACACTGTGACTAAAGGAAATCAG
*
94525 TTGGATGGTATGATAACTGAGGACACTGTGACTGAAGGAAA
1 TTGGATGGTATGATAACTGAGGACACTGTGACTAAAGGAAA
94566 GCATATTGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (45 bp):
TTGGATGGTATGATAACTGAGGACACTGTGACTAAAGGAAATCAG
Found at i:97429 original size:90 final size:90
Alignment explanation
Indices: 97276--97458 Score: 348
Period size: 90 Copynumber: 2.0 Consensus size: 90
97266 ATTAGATATA
97276 TTTTGGATGGCTAGGATTATAAGTTACCTTAACCCTAAGTTGTTCTTGAGTTTCTTCTTCTTTTC
1 TTTTGGATGGCTAGGATTATAAGTTACCTTAACCCTAAGTTGTTCTTGAGTTTCTTCTTCTTTTC
* *
97341 TACTTTTTTGTTCAGTCTTATTTCT
66 TACTTGTTTGTTCAGCCTTATTTCT
97366 TTTTGGATGGCTAGGATTATAAGTTACCTTAACCCTAAGTTGTTCTTGAGTTTCTTCTTCTTTTC
1 TTTTGGATGGCTAGGATTATAAGTTACCTTAACCCTAAGTTGTTCTTGAGTTTCTTCTTCTTTTC
97431 TACTTGTTTGTTCAGCCTTATTTCT
66 TACTTGTTTGTTCAGCCTTATTTCT
97456 TTT
1 TTT
97459 GATTATTTTG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.16, C:0.17, G:0.15, T:0.52
Consensus pattern (90 bp):
TTTTGGATGGCTAGGATTATAAGTTACCTTAACCCTAAGTTGTTCTTGAGTTTCTTCTTCTTTTC
TACTTGTTTGTTCAGCCTTATTTCT
Found at i:109976 original size:30 final size:30
Alignment explanation
Indices: 109940--110010 Score: 133
Period size: 30 Copynumber: 2.4 Consensus size: 30
109930 CCATCAGAAT
109940 CAAGGGCCACCTATACCAAAAGAGTAGGGC
1 CAAGGGCCACCTATACCAAAAGAGTAGGGC
*
109970 CAAGGGCCACCTATATCAAAAGAGTAGGGC
1 CAAGGGCCACCTATACCAAAAGAGTAGGGC
110000 CAAGGGCCACC
1 CAAGGGCCACC
110011 AACTACTTGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.35, C:0.28, G:0.27, T:0.10
Consensus pattern (30 bp):
CAAGGGCCACCTATACCAAAAGAGTAGGGC
Found at i:110202 original size:18 final size:18
Alignment explanation
Indices: 110179--110228 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
110169 TATTTATAAG
*
110179 GGAATTAGAATCTGTGAA
1 GGAATTAGAATCTATGAA
110197 GGAATTAGAATCTATGAA
1 GGAATTAGAATCTATGAA
110215 GGAATTAGAATCTA
1 GGAATTAGAATCTA
110229 ATTTCATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.28
Consensus pattern (18 bp):
GGAATTAGAATCTATGAA
Found at i:110881 original size:37 final size:36
Alignment explanation
Indices: 110796--110913 Score: 172
Period size: 37 Copynumber: 3.3 Consensus size: 36
110786 CTAAACCAGA
*
110796 ACCCGACCCGACCTGAATATCACACTTTAAAAAA-T-
1 ACCCGACCCGACCCGAATATCACAC-TTAAAAAACTG
110831 --CCGACCCGACCCGAATATCACACTTAAAAAACCTG
1 ACCCGACCCGACCCGAATATCACACTTAAAAAA-CTG
110866 ACCCGACCCGACCCGAATATCACACTTAAAAAATCTG
1 ACCCGACCCGACCCGAATATCACACTTAAAAAA-CTG
110903 ACCCGACCCGA
1 ACCCGACCCGA
110914 ACAAATAAAG
Statistics
Matches: 76, Mismatches: 2, Indels: 8
0.88 0.02 0.09
Matches are distributed among these distances:
32 8 0.11
33 22 0.29
34 1 0.01
37 45 0.59
ACGTcount: A:0.37, C:0.36, G:0.11, T:0.15
Consensus pattern (36 bp):
ACCCGACCCGACCCGAATATCACACTTAAAAAACTG
Found at i:110982 original size:61 final size:62
Alignment explanation
Indices: 110866--110983 Score: 161
Period size: 61 Copynumber: 1.9 Consensus size: 62
110856 AAAAAACCTG
* *
110866 ACCCGACCCGACCCGAATATCACACTTAAAAAATCTGACCCGACCCGAACAAATAAAGTTTC
1 ACCCGACCCGACCCGAATATCACAATTAAAAAATCCGACCCGACCCGAACAAATAAAGTTTC
* *
110928 ACCCGACCCGACCCGAATAT-ATGAATT-AGAAATCCGACCCGACCCGAA-ATAATAAA
1 ACCCGACCCGACCCGAATATCA-CAATTAAAAAATCCGACCCGACCCGAACA-AATAAA
110984 AAAATATTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
60 1 0.02
61 26 0.52
62 23 0.46
ACGTcount: A:0.40, C:0.32, G:0.13, T:0.15
Consensus pattern (62 bp):
ACCCGACCCGACCCGAATATCACAATTAAAAAATCCGACCCGACCCGAACAAATAAAGTTTC
Found at i:117926 original size:13 final size:13
Alignment explanation
Indices: 117897--117931 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
117887 ATAACTAATA
*
117897 ATATTAAAT-ATT
1 ATATTAAATAAAT
117909 ATATTAAATAAAT
1 ATATTAAATAAAT
117922 ATATTAAATA
1 ATATTAAATA
117932 TATTTATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAAATAAAT
Found at i:120678 original size:34 final size:31
Alignment explanation
Indices: 120633--120721 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 31
120623 TTAATAATTC
*
120633 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
120667 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* *
120698 TATAAAAAATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
120722 AAATACTAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 6 0.13
32 17 0.36
33 2 0.04
34 22 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:120698 original size:31 final size:33
Alignment explanation
Indices: 120633--120712 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 33
120623 TTAATAATTC
* *
120633 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATATTA-TTTAA
*
120667 TAAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAAATAATAATTACATAAATATTATTTAA
120698 TATAAAAAATAATAA
1 TA-AAAAAATAATAA
120713 CTATTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 6 0.15
32 11 0.27
33 2 0.05
34 22 0.54
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (33 bp):
TAAAAAAATAATAATTACATAAATATTATTTAA
Found at i:120736 original size:33 final size:34
Alignment explanation
Indices: 120668--120742 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 34
120658 TTATTTTAAT
* *
120668 AAAAAAATAATATTTACATAAATATATTAATATA
1 AAAAAAATAATATTTACATAAATATACTAACATA
120702 AAAAATAATAACTATTTA-A-AAA-ATACTAACATA
1 AAAAA-AATAA-TATTTACATAAATATACTAACATA
*
120735 AAATAAAT
1 AAAAAAAT
120743 TTCTTACCAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
32 3 0.08
33 13 0.36
34 8 0.22
35 6 0.17
36 6 0.17
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (34 bp):
AAAAAAATAATATTTACATAAATATACTAACATA
Found at i:123294 original size:35 final size:34
Alignment explanation
Indices: 123247--123313 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 34
123237 CTATTATCAT
123247 TTTTCAACAAACATTTACCAAACTTTGAAAACCA
1 TTTTCAACAAACATTTACCAAACTTTGAAAACCA
*
123281 TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 TTTTC-AACAAACATTTACCAAACTTTGAAAAC
123314 TTTTTTTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 5 0.16
35 26 0.84
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (34 bp):
TTTTCAACAAACATTTACCAAACTTTGAAAACCA
Found at i:123346 original size:36 final size:37
Alignment explanation
Indices: 123299--123385 Score: 160
Period size: 37 Copynumber: 2.4 Consensus size: 37
123289 GAAACATTTA
123299 CCAAACTTTGAAAAC-TTTTTTTTTCAAAGTTGGTTG
1 CCAAACTTTGAAAACTTTTTTTTTTCAAAGTTGGTTG
123335 CCAAACTTTGAAAACTTTTTTTTTTCAAAGTTGGTTG
1 CCAAACTTTGAAAACTTTTTTTTTTCAAAGTTGGTTG
123372 CCAAAC-TTGAAAAC
1 CCAAACTTTGAAAAC
123386 CATTTTAACA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
36 23 0.46
37 27 0.54
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (37 bp):
CCAAACTTTGAAAACTTTTTTTTTTCAAAGTTGGTTG
Found at i:126906 original size:12 final size:13
Alignment explanation
Indices: 126889--126923 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
126879 ATATATGTTC
126889 ATGTGATATGA-T
1 ATGTGATATGACT
126901 ATGTGATATGACT
1 ATGTGATATGACT
126914 -TGTGATATGA
1 ATGTGATATGA
126924 GAACATGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 21 0.95
13 1 0.05
ACGTcount: A:0.31, C:0.03, G:0.26, T:0.40
Consensus pattern (13 bp):
ATGTGATATGACT
Found at i:127086 original size:15 final size:15
Alignment explanation
Indices: 127068--127100 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
127058 GAGGGTATAA
127068 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
127083 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
127098 TAG
1 TAG
127101 GAGTCCTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.30
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:133804 original size:12 final size:12
Alignment explanation
Indices: 133786--133821 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
133776 TATATATGTT
133786 CATGTGATATGA
1 CATGTGATATGA
*
133798 TATGTGATATGA
1 CATGTGATATGA
*
133810 CCTGTGATATGA
1 CATGTGATATGA
133822 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:136937 original size:37 final size:36
Alignment explanation
Indices: 136879--136948 Score: 113
Period size: 37 Copynumber: 1.9 Consensus size: 36
136869 TCCAATTATC
136879 ATTTTTCAACAAACATCTACCAAACTTTGAAAAACT
1 ATTTTTCAACAAACATCTACCAAACTTTGAAAAACT
* *
136915 ATTTTTCAAGGAAACATTTACCAAACTTTGAAAA
1 ATTTTTCAA-CAAACATCTACCAAACTTTGAAAA
136949 CCATTTTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 9 0.29
37 22 0.71
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (36 bp):
ATTTTTCAACAAACATCTACCAAACTTTGAAAAACT
Found at i:136949 original size:36 final size:36
Alignment explanation
Indices: 136878--136955 Score: 113
Period size: 36 Copynumber: 2.2 Consensus size: 36
136868 ATCCAATTAT
136878 CATTTTTCAACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAACAAACATCTACCAAACTTTGAAAAAC
* * *
136914 TATTTTTCAAGGAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAA-CAAACATCTACCAAACTTTGAAAAAC
136950 CATTTT
1 CATTTT
136956 CAAAAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 19 0.51
37 18 0.49
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (36 bp):
CATTTTTCAACAAACATCTACCAAACTTTGAAAAAC
Found at i:136969 original size:35 final size:35
Alignment explanation
Indices: 136881--136990 Score: 105
Period size: 35 Copynumber: 3.1 Consensus size: 35
136871 CAATTATCAT
* * *
136881 TTTTC-AACAAACATCTACCAAACTTTGAAAAACTA
1 TTTTCAAAAAAACATTTACCAAACTTTG-AAAACCA
**
136916 TTTTTCAAGGAAACATTTACCAAACTTTGAAAACCA
1 -TTTTCAAAAAAACATTTACCAAACTTTGAAAACCA
* * * * *
136952 TTTTCAAAAAAATATTTATCAAATTTTAAAAATCA
1 TTTTCAAAAAAACATTTACCAAACTTTGAAAACCA
136987 TTTT
1 TTTT
136991 TTCAAAATTG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
35 32 0.52
36 11 0.18
37 19 0.31
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (35 bp):
TTTTCAAAAAAACATTTACCAAACTTTGAAAACCA
Found at i:147054 original size:21 final size:21
Alignment explanation
Indices: 147030--147074 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
147020 ATCCGAAAAA
* *
147030 ATCGGATATCCGAAAT-TTCGG
1 ATCGAATATCC-AAATATCCGG
147051 ATCGAATATCCAAATATCCGG
1 ATCGAATATCCAAATATCCGG
147072 ATC
1 ATC
147075 TGATCCGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (21 bp):
ATCGAATATCCAAATATCCGG
Found at i:149278 original size:42 final size:42
Alignment explanation
Indices: 149231--149338 Score: 216
Period size: 42 Copynumber: 2.6 Consensus size: 42
149221 CGCAGTACAT
149231 ATTTAGGTATGTACAATAACTACAAGTATATATTATCATTAA
1 ATTTAGGTATGTACAATAACTACAAGTATATATTATCATTAA
149273 ATTTAGGTATGTACAATAACTACAAGTATATATTATCATTAA
1 ATTTAGGTATGTACAATAACTACAAGTATATATTATCATTAA
149315 ATTTAGGTATGTACAATAACTACA
1 ATTTAGGTATGTACAATAACTACA
149339 TATTTATGTA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (42 bp):
ATTTAGGTATGTACAATAACTACAAGTATATATTATCATTAA
Found at i:149726 original size:23 final size:23
Alignment explanation
Indices: 149695--149767 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
149685 ATAGGTAAAA
*
149695 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
149718 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
149741 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
149764 ATAT
1 ATAT
149768 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:150215 original size:23 final size:23
Alignment explanation
Indices: 150184--150256 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
150174 ATAGGTAAAA
*
150184 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
150207 ATATAATGTAATAGTTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
150230 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
150253 ATAT
1 ATAT
150257 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:150286 original size:489 final size:485
Alignment explanation
Indices: 149354--151138 Score: 3169
Period size: 489 Copynumber: 3.7 Consensus size: 485
149344 ATGTATGTAC
149354 ATCTTTTGAGTGAGTTTT-AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
* *
149418 GTTACGGTATATATTATTATT-AATTAAAACAATAAACATATATTACATATTTAGTATTATCTTT
66 GTTAC-GAATATATTATTATTAAATTAAAACAATAAACATATATTACATATTTATTATTATCTTT
* * *
149482 GGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATAATT
130 GGTTAATATTATTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
149547 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
195 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
149612 TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTT
260 TTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTT
149677 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTA
325 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTA
149742 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATATTT
390 TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATATTT
149807 TTTTCACTGTGGAAAACATTAATTTAAGGTT
455 TTTTCACTGTGGAAAACATTAATTTAAGGTT
*
149838 ATCTTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
149903 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGA-ATATATTATTATTAAATT-AAAACAATAAAC--ATATATTACATATTTATTATTATC
149968 TTTGGTTAATATTATTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
127 TTTGGTTAATATTATTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
150033 A-TTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
192 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
150097 AATATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
257 AA-ATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
*
150162 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGTTAGCG
321 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
*
150227 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTCCAT
386 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
*
150292 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
451 ATTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
*
150327 ATC-TTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGTGTCTAATGATTTA-TTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
150390 ATTA--AA-ATA-TATTATTAAATTAAAACAATAAACATATATTACATATTTATTATTATCTTTG
66 GTTACGAATATATTATTATTAAATTAAAACAATAAACATATATTACATATTTATTATTATCTTTG
*
150451 GTTAGTATTATTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
131 GTTAATATTATTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
*
150516 TTTGTGCAAATGAAATTGTTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
196 TTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
*
150581 TGAAACATAAATTACATAACTTTAAAAAATGTATCGATCCTTTTTATAAAAAGTATAGACACTTT
261 TGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTT
*
150646 CAATATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATAGGTAGCGTTTAT
326 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTAT
* * *
150711 ATAATGTAATAGGTAGTGCTTATAATGTAAAATATCTATTCTTTTTATAAAAGTGTCCATACTTT
391 ATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA-TTT
150776 TTTT-ACTGTGGAAAACATTAATTTAAGGTT
455 TTTTCACTGTGGAAAACATTAATTTAAGGTT
150806 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
150871 GTTACG-ATATATTATTATTAAATTAAAAATAATAAACATATATATTACATATTTATTATTATCT
66 GTTACGAATATATTATTATTAAATT-AAAACAATAAAC--ATATATTACATATTTATTATTATCT
*
150935 TTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA
128 TTGGTTAATATTATTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA
* *
151000 TTTTTTGTGCAAATGATATTATTAAATTAATATTGCAGGTGGAAAACATGAAACACTATTAAAAA
193 TTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT--AAA
*
151065 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAAGTATAGA
256 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT-AAAAAGTATAGA
151130 CACTTTCAA
320 CACTTTCAA
151139 CATATTATAA
Statistics
Matches: 1248, Mismatches: 32, Indels: 36
0.95 0.02 0.03
Matches are distributed among these distances:
479 304 0.24
480 122 0.10
481 22 0.02
482 13 0.01
483 6 0.00
484 31 0.02
485 76 0.06
486 4 0.00
487 167 0.13
488 116 0.09
489 366 0.29
490 21 0.02
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (485 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGAATATATTATTATTAAATTAAAACAATAAACATATATTACATATTTATTATTATCTTTG
GTTAATATTATTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
TTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAT
TGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACACTTT
CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTAT
ATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATATTTT
TTTCACTGTGGAAAACATTAATTTAAGGTT
Found at i:150694 original size:23 final size:23
Alignment explanation
Indices: 150663--150734 Score: 108
Period size: 23 Copynumber: 3.1 Consensus size: 23
150653 ATAGGTAAAA
* *
150663 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
150686 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
150709 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
150732 ATA
1 ATA
150735 ATGTAAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:162905 original size:12 final size:12
Alignment explanation
Indices: 162883--162916 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
162873 CGTTATGCGG
162883 TATACATTTTTTT
1 TATA-ATTTTTTT
162896 TATAATTTTTTT
1 TATAATTTTTTT
*
162908 TAAAATTTT
1 TATAATTTT
162917 AAACTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 16 0.80
13 4 0.20
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (12 bp):
TATAATTTTTTT
Done.