Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007840.1 Hibiscus syriacus cultivar Beakdansim tig00110194_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: 1104544
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:11708 original size:16 final size:16
Alignment explanation
Indices: 11687--11718 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11677 AAAAATCCAG
11687 AGTGTTGTCCTGCTGT
1 AGTGTTGTCCTGCTGT
11703 AGTGTTGTCCTGCTGT
1 AGTGTTGTCCTGCTGT
11719 TCTGCTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.19, G:0.31, T:0.44
Consensus pattern (16 bp):
AGTGTTGTCCTGCTGT
Found at i:32815 original size:17 final size:17
Alignment explanation
Indices: 32793--32825 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32783 CGAGTTTTAC
32793 GAACCAGATATCAAGTA
1 GAACCAGATATCAAGTA
*
32810 GAACCATATATCAAGT
1 GAACCAGATATCAAGT
32826 GGTTCGTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.21
Consensus pattern (17 bp):
GAACCAGATATCAAGTA
Found at i:41532 original size:40 final size:40
Alignment explanation
Indices: 41483--41619 Score: 247
Period size: 40 Copynumber: 3.4 Consensus size: 40
41473 CCAAATGAAT
* *
41483 AAACAAACAAGCTGAAGCCACCCTCTTTTTCCCAAGAAAC
1 AAACAAACAAACTGAAGCCACCCTCTTTTTCCCAGGAAAC
41523 AAACAAACAAACTGAAGCCACCCTCTTTTTCCCAGGAAAC
1 AAACAAACAAACTGAAGCCACCCTCTTTTTCCCAGGAAAC
41563 AAACAAACAAACTGAAGCCACCCTCTTTTTCCCAGGAAAC
1 AAACAAACAAACTGAAGCCACCCTCTTTTTCCCAGGAAAC
*
41603 AAACAAACAAACAGAAG
1 AAACAAACAAACTGAAG
41620 AAACCTTCGA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 94 1.00
ACGTcount: A:0.44, C:0.31, G:0.10, T:0.15
Consensus pattern (40 bp):
AAACAAACAAACTGAAGCCACCCTCTTTTTCCCAGGAAAC
Found at i:43997 original size:30 final size:30
Alignment explanation
Indices: 43961--44020 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
43951 GATATATTAG
*
43961 TGACAGAATCGGAAGTATTTGTAGTTTGAT
1 TGACAGAATCGGAAGTATTTATAGTTTGAT
43991 TGACAGAATCGGAAGTATTTATAGTTTGAT
1 TGACAGAATCGGAAGTATTTATAGTTTGAT
44021 GACCAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.37
Consensus pattern (30 bp):
TGACAGAATCGGAAGTATTTATAGTTTGAT
Found at i:44744 original size:10 final size:10
Alignment explanation
Indices: 44729--44757 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
44719 ATTTAAATGA
44729 TAAACGAACT
1 TAAACGAACT
44739 TAAACGAACT
1 TAAACGAACT
44749 TAAACGAAC
1 TAAACGAAC
44758 AAACATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.21, G:0.10, T:0.17
Consensus pattern (10 bp):
TAAACGAACT
Found at i:44775 original size:10 final size:10
Alignment explanation
Indices: 44728--44805 Score: 57
Period size: 10 Copynumber: 7.1 Consensus size: 10
44718 CATTTAAATG
44728 ATAAACGAAC
1 ATAAACGAAC
*
44738 TTAAACGAAC
1 ATAAACGAAC
*
44748 TTAAACGAACAAAC
1 ATAAACG----AAC
*
44762 ATAAACGAAA
1 ATAAACGAAC
*
44772 ATAACAAATGAAC
1 AT---AAACGAAC
44785 ATAAACGAAC
1 ATAAACGAAC
44795 ATAAACGAAC
1 ATAAACGAAC
44805 A
1 A
44806 CAATAAATGA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
10 38 0.69
13 8 0.15
14 9 0.16
ACGTcount: A:0.60, C:0.18, G:0.09, T:0.13
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:44801 original size:33 final size:33
Alignment explanation
Indices: 44755--44828 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
44745 AACTTAAACG
*
44755 AACAAACATAAACGAAAATAACAAATGAACATA
1 AACAAACATAAACGAAAACAACAAATGAACATA
* * * *
44788 AACGAACATAAACGAACACAATAAATGAACATG
1 AACAAACATAAACGAAAACAACAAATGAACATA
44821 AACAAACA
1 AACAAACA
44829 ACACAAACAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.64, C:0.18, G:0.08, T:0.11
Consensus pattern (33 bp):
AACAAACATAAACGAAAACAACAAATGAACATA
Found at i:44811 original size:23 final size:23
Alignment explanation
Indices: 44730--44836 Score: 83
Period size: 23 Copynumber: 4.6 Consensus size: 23
44720 TTTAAATGAT
* *
44730 AAACGAACTTAAACGAACTTAAAC
1 AAAC-AACATAAACGAACATAAAC
* *
44754 GAACAAACATAAACGAAAAT-AAC
1 AAAC-AACATAAACGAACATAAAC
*
44777 AAATGAACATAAACGAACATAAAC
1 AAA-CAACATAAACGAACATAAAC
* * *
44801 GAAC-ACAATAAATGAACATGAAC
1 AAACAAC-ATAAACGAACATAAAC
*
44824 AAACAACACAAAC
1 AAACAACATAAAC
44837 ACAAAAAACA
Statistics
Matches: 64, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
22 2 0.03
23 40 0.62
24 22 0.34
ACGTcount: A:0.61, C:0.20, G:0.08, T:0.11
Consensus pattern (23 bp):
AAACAACATAAACGAACATAAAC
Found at i:46618 original size:35 final size:35
Alignment explanation
Indices: 46573--46666 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 35
46563 AAAAAATGTT
*
46573 AAATTCTAAAAGTAATAAAATAAAATAAAAATAATA
1 AAATGCTAAAA-TAATAAAATAAAATAAAAATAATA
* *
46609 AGAA-G-TAAAAAACATAAAAT-AAATAATAATAATA
1 A-AATGCTAAAATA-ATAAAATAAAATAAAAATAATA
46643 AAATGCTAAAATTAA-AAAATAAAA
1 AAATGCTAAAA-TAATAAAATAAAA
46667 CCAACTTTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
33 2 0.04
34 21 0.44
35 21 0.44
36 2 0.04
37 2 0.04
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.22
Consensus pattern (35 bp):
AAATGCTAAAATAATAAAATAAAATAAAAATAATA
Found at i:46645 original size:25 final size:23
Alignment explanation
Indices: 46585--46645 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
46575 ATTCTAAAAG
*
46585 TAATAA-AATAAAATAAAAATAA
1 TAATAATAATAAAACAAAAATAA
*
46607 TAAGAAGTAA-AAAACATAAAATAAA
1 TAATAA-TAATAAAACA-AAAAT-AA
46632 TAATAATAATAAAA
1 TAATAATAATAAAA
46646 TGCTAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 5 0.16
23 5 0.16
24 10 0.32
25 11 0.35
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (23 bp):
TAATAATAATAAAACAAAAATAA
Found at i:47306 original size:3 final size:3
Alignment explanation
Indices: 47292--47348 Score: 73
Period size: 3 Copynumber: 18.7 Consensus size: 3
47282 GGCCTGCAAA
47292 AAT AAT AA- AAT AAT AATT AAT AAT AAT AAT AAT AAT AAT AAAT AAAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT -AAT -AAT
47339 AAT -AT AAT AA
1 AAT AAT AAT AA
47349 AATGTTTTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 8
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.08
3 36 0.72
4 10 0.20
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47328 original size:22 final size:23
Alignment explanation
Indices: 47291--47348 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 23
47281 GGGCCTGCAA
*
47291 AAATAATAA-AATAATAATTAAT
1 AAATAATAATAATAATAATAAAT
47313 -AATAATAATAATAATAATAAAT
1 AAATAATAATAATAATAATAAAT
47335 AAATAAT-ATAATAA
1 AAATAATAATAATAA
47349 AATGTTTTTG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 8 0.24
22 19 0.58
23 6 0.18
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
AAATAATAATAATAATAATAAAT
Found at i:47349 original size:16 final size:17
Alignment explanation
Indices: 47293--47349 Score: 68
Period size: 16 Copynumber: 3.5 Consensus size: 17
47283 GCCTGCAAAA
47293 ATAATAAA-ATAATAAT
1 ATAATAAATATAATAAT
47309 -TAAT-AATAATAATAAT
1 ATAATAAAT-ATAATAAT
47325 AATAATAAATA-AATAAT
1 -ATAATAAATATAATAAT
47342 ATAATAAA
1 ATAATAAA
47350 ATGTTTTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 2 0.06
15 4 0.11
16 16 0.44
17 6 0.17
18 5 0.14
19 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAATAAATATAATAAT
Found at i:49250 original size:27 final size:26
Alignment explanation
Indices: 49194--49253 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
49184 ACGTCTAACC
* * *
49194 CTACATATATAGCACATTCATCACTA
1 CTACGTATATAGCACACTCATCAATA
*
49220 -TACGTATATAGCACACTCATTATATA
1 CTACGTATATAGCACACTCATCA-ATA
49246 CTACGTAT
1 CTACGTAT
49254 GCTTTGCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 19 0.68
26 2 0.07
27 7 0.25
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
CTACGTATATAGCACACTCATCAATA
Found at i:54593 original size:32 final size:33
Alignment explanation
Indices: 54556--54625 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
54546 TTTGGGTCGA
54556 TCGGG-TTTTTTAAGTGTGATATTCGGGTCGGG
1 TCGGGTTTTTTTAAGTGTGATATTCGGGTCGGG
*
54588 TCGGGTTTTTTTAAGTGTGATATTGGGGTCGGG
1 TCGGGTTTTTTTAAGTGTGATATTCGGGTCGGG
54621 TCGGG
1 TCGGG
54626 GTCGGGTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 5 0.14
33 31 0.86
ACGTcount: A:0.11, C:0.09, G:0.40, T:0.40
Consensus pattern (33 bp):
TCGGGTTTTTTTAAGTGTGATATTCGGGTCGGG
Found at i:55186 original size:17 final size:18
Alignment explanation
Indices: 55164--55208 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
55154 TATGGAATTG
*
55164 GATTCCAATTTC-TGACA
1 GATTCCAATTTCTTCACA
55181 GATTCCAATTTCTTCACA
1 GATTCCAATTTCTTCACA
55199 GATTCCAATT
1 GATTCCAATT
55209 CCCTCATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (18 bp):
GATTCCAATTTCTTCACA
Found at i:63917 original size:20 final size:20
Alignment explanation
Indices: 63869--63918 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
63859 CAGGATTATT
*
63869 ACTAGAAACGATAGGAAATA
1 ACTAGAAATGATAGGAAATA
63889 ACTAGAAATGATAGGAAATA
1 ACTAGAAATGATAGGAAATA
*
63909 TCTAGAAATG
1 ACTAGAAATG
63919 GTTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.52, C:0.08, G:0.20, T:0.20
Consensus pattern (20 bp):
ACTAGAAATGATAGGAAATA
Found at i:65828 original size:20 final size:20
Alignment explanation
Indices: 65734--66102 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
65724 GATTTTCCAT
* ** *
65734 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
65754 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
65774 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
65794 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
65814 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
65834 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
65854 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
65874 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
65894 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
65914 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
65934 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
65954 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
65974 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
65994 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
66014 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
66034 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
66054 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
66074 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
66094 AATCACAAC
1 AATCGCAAC
66103 ACTGAATCAA
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:67228 original size:33 final size:34
Alignment explanation
Indices: 67141--67464 Score: 254
Period size: 33 Copynumber: 9.5 Consensus size: 34
67131 CGGAAAATAC
* *
67141 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
67174 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
67208 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
67246 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
* *
67279 AATCGCAATGCGAAATGAAAATCGCAACGA-CAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
67312 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
67350 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
67383 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
67416 AATCGCAATGCGAAATGAAAATCGCAACGA-GAT
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
67449 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
67465 TATAAACGCA
Statistics
Matches: 256, Mismatches: 13, Indels: 44
0.82 0.04 0.14
Matches are distributed among these distances:
33 160 0.62
34 32 0.12
35 12 0.05
36 12 0.05
37 3 0.01
38 37 0.14
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:67256 original size:52 final size:52
Alignment explanation
Indices: 67169--67442 Score: 423
Period size: 52 Copynumber: 5.2 Consensus size: 52
67159 AAATCCCAAC
67169 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
67222 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
67274 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
67326 ATTAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
67378 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
67430 ATGAAAATCGCAA
1 ATGAAAATCGCAA
67443 CGAGATAATC
Statistics
Matches: 210, Mismatches: 6, Indels: 11
0.93 0.03 0.05
Matches are distributed among these distances:
47 8 0.04
49 3 0.01
50 5 0.02
51 1 0.00
52 177 0.84
53 16 0.08
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:67424 original size:85 final size:85
Alignment explanation
Indices: 67227--67464 Score: 351
Period size: 85 Copynumber: 2.8 Consensus size: 85
67217 GCGAAATGAA
*
67227 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAA
*
67287 TGCGAAATGAAAATCGCAACGACAG
61 TGCGAAATGAAAATCGCAACGAAAG
*
67312 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
67377 AATGAAAATCGCAACGAAAG
66 AATGAAAATCGCAACGAAAG
* *
67397 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
67462 AAT
66 AAT
67465 TATAAACGCA
Statistics
Matches: 142, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
85 123 0.87
87 3 0.02
88 5 0.04
89 1 0.01
90 10 0.07
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (85 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAAAATCGCAACGAAAG
Found at i:67580 original size:19 final size:19
Alignment explanation
Indices: 67471--67572 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
67461 AAATTATAAA
67471 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
67490 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
67510 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
67526 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
67543 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
67562 CGCATTGCGAT
1 CGCATTGCGAT
67573 AGTCATTTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:67697 original size:14 final size:14
Alignment explanation
Indices: 67678--67714 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
67668 CATCAATTAC
67678 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
67692 ACAAATCATCTTTT
1 ACAAATCAACTTTT
67706 ACAAATCAA
1 ACAAATCAA
67715 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:69664 original size:20 final size:20
Alignment explanation
Indices: 69639--69704 Score: 91
Period size: 19 Copynumber: 3.4 Consensus size: 20
69629 TAGTTTACTT
* *
69639 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAACTCAAAA
69659 TCGCAACGCGAAAC-CAAAA
1 TCGCAACGCGAAACTCAAAA
*
69678 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACTCAAAA
69697 TCGCAACG
1 TCGCAACG
69705 ACAGAATCGC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.45, C:0.27, G:0.17, T:0.11
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:69714 original size:14 final size:14
Alignment explanation
Indices: 69695--69749 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
69685 GCGAAATGAA
*
69695 AATCGCAACGACAG
1 AATCGCAACGAAAG
69709 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
69726 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
69742 AATCGCAA
1 AATCGCAA
69750 TGCGAAATGA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 16 0.46
16 5 0.14
17 6 0.17
19 8 0.23
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:69722 original size:33 final size:33
Alignment explanation
Indices: 69676--69768 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
69666 GCGAAACCAA
* *
69676 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
69709 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
69742 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAA
69769 TGCGATTTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.12
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAAAG
Found at i:69733 original size:19 final size:19
Alignment explanation
Indices: 69655--69773 Score: 123
Period size: 19 Copynumber: 6.8 Consensus size: 19
69645 CACGAAACTT
* **
69655 AAAATCGCAACGCGAAACC
1 AAAATCGCAATGCGAAATG
*
69674 AAAATCGCAACGCGAAATG
1 AAAATCGCAATGCGAAATG
*
69693 AAAATCGCAA--CGACA-G
1 AAAATCGCAATGCGAAATG
69709 --AATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
69726 AAAATCGCAA--CGAAA-G
1 AAAATCGCAATGCGAAATG
69742 --AATCGCAATGCGAAATG
1 AAAATCGCAATGCGAAATG
69759 AAAATCGCAATGCGA
1 AAAATCGCAATGCGA
69774 TTTTGGTTTC
Statistics
Matches: 86, Mismatches: 4, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
14 16 0.19
16 11 0.13
17 11 0.13
19 48 0.56
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (19 bp):
AAAATCGCAATGCGAAATG
Found at i:69791 original size:19 final size:19
Alignment explanation
Indices: 69769--69897 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
69759 AAAATCGCAA
69769 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
69788 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
69802 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
69821 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
69835 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
69854 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
69873 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
69893 TGCGA
1 TGCGA
69898 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:69811 original size:33 final size:33
Alignment explanation
Indices: 69769--69860 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
69759 AAAATCGCAA
69769 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
69802 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
69835 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
69861 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:70088 original size:93 final size:93
Alignment explanation
Indices: 69929--70395 Score: 909
Period size: 93 Copynumber: 5.0 Consensus size: 93
69919 GCAAATTGAA
69929 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
69994 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
70022 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
70087 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
70115 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
70180 GCAGAATTGGCAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
70208 ACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
*
70272 GCAGAATTGACAGCAACCGAACAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
70300 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
*
70365 GCAGAATTGGCAGCAACCGAATAAATTT
66 GCAGAATTGGCAGCAACCGAACAAATTT
70393 ACT
1 ACT
70396 AAGCAATCTA
Statistics
Matches: 370, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
92 91 0.25
93 279 0.75
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
GCAGAATTGGCAGCAACCGAACAAATTT
Found at i:70367 original size:185 final size:186
Alignment explanation
Indices: 69929--70395 Score: 909
Period size: 185 Copynumber: 2.5 Consensus size: 186
69919 GCAAATTGAA
69929 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
69994 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAT
66 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAT
*
70059 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTT
131 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGACAGCAACCGAACAAATTT
70115 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
70180 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TAT
66 GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAT
70244 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGACAGCAACCGAACAAATTT
131 TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGACAGCAACCGAACAAATTT
70300 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
*
70365 GCAGAATTGGCAGCAACCGAATAAATTTACT
66 GCAGAATTGGCAGCAACCGAACAAATTTACT
70396 AAGCAATCTA
Statistics
Matches: 279, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
185 153 0.55
186 126 0.45
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
ACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTA
GCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAT
TTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGACAGCAACCGAACAAATTT
Found at i:72120 original size:14 final size:14
Alignment explanation
Indices: 72101--72190 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
72091 TTGAAATGAA
72101 AATCGCAACGAGAG
1 AATCGCAACGAGAG
72115 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
72132 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
72148 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
72167 AATCGCAACGAGAG
1 AATCGCAACGAGAG
72181 AATCGCAACG
1 AATCGCAACG
72191 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:72138 original size:33 final size:33
Alignment explanation
Indices: 72093--72207 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
72083 TCTTTTGGTT
72093 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
72126 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
72159 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
72192 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
72208 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:72139 original size:19 final size:18
Alignment explanation
Indices: 72100--72212 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
72090 GTTGAAATGA
72100 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
72115 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
72132 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
72148 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
72165 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
72181 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
72198 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
72213 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:72243 original size:14 final size:14
Alignment explanation
Indices: 72224--72278 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
72214 TTTGGTTTCG
72224 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
72238 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
72257 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
72271 CGTTGCGA
1 CGTTGCGA
72279 CAGTCATCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:72256 original size:33 final size:33
Alignment explanation
Indices: 72208--72278 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
72198 AAAATCGCAA
**
72208 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
72241 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
72274 TGCGA
1 TGCGA
72279 CAGTCATCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:72294 original size:33 final size:33
Alignment explanation
Indices: 72221--72299 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
72211 GATTTTGGTT
*** *
72221 TCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTCTCTCGTTGCGACAGTCATC
72254 TCGCGTTGCGATTCTCTCGTTGCGACAGTCATC
1 TCGCGTTGCGATTCTCTCGTTGCGACAGTCATC
*
72287 TCTCGTTGCGATT
1 TCGCGTTGCGATT
72300 TTCATTTATC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.10, C:0.27, G:0.23, T:0.41
Consensus pattern (33 bp):
TCGCGTTGCGATTCTCTCGTTGCGACAGTCATC
Found at i:72304 original size:19 final size:19
Alignment explanation
Indices: 72233--72318 Score: 65
Period size: 19 Copynumber: 4.7 Consensus size: 19
72223 GCGTTGCGAT
72233 TCTCTCGTTGCGATTTTCA
1 TCTCTCGTTGCGATTTTCA
* *
72252 TTTCGCGTTGCGA---T--
1 TCTCTCGTTGCGATTTTCA
***
72266 TCTCTCGTTGCGACAGTCA
1 TCTCTCGTTGCGATTTTCA
72285 TCTCTCGTTGCGATTTTCA
1 TCTCTCGTTGCGATTTTCA
*
72304 TTTATCTCGTTGCGA
1 --TCTCTCGTTGCGA
72319 CTCTTCTGCA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
14 11 0.21
16 1 0.02
17 1 0.02
19 27 0.52
21 12 0.23
ACGTcount: A:0.12, C:0.26, G:0.20, T:0.43
Consensus pattern (19 bp):
TCTCTCGTTGCGATTTTCA
Found at i:72440 original size:33 final size:33
Alignment explanation
Indices: 72398--72468 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
72388 AATACTAACT
*
72398 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
72431 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
72464 TGAAA
1 TGAAA
72469 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:72702 original size:22 final size:22
Alignment explanation
Indices: 72650--72704 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
72640 TGGTTGTGAG
** *
72650 GGATTTCGCCGGAGATGGGGAT
1 GGATTTCTTCGGAGATGGGGAC
**
72672 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
72694 GGATTTCTTCG
1 GGATTTCTTCG
72705 CCGTAGAGAG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.15, G:0.40, T:0.25
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:72875 original size:20 final size:20
Alignment explanation
Indices: 72850--73042 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
72840 CTTTAAATAT
72850 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
72870 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
72892 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
72911 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
72931 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
72951 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
72971 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
72991 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
73011 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
73031 CGCGTTGCGATT
1 CGCGTTGCGATT
73043 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:73037 original size:60 final size:60
Alignment explanation
Indices: 72850--73042 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
72840 CTTTAAATAT
**
72850 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
72911 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
72971 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
73031 CGCGTTGCGATT
1 CGCGTTGCGATT
73043 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:73123 original size:20 final size:20
Alignment explanation
Indices: 73098--73149 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
73088 AAGAATCGCG
*
73098 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
73118 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
73138 TTGCGATTCTGG
1 TTGCGATTCTGG
73150 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:73541 original size:21 final size:21
Alignment explanation
Indices: 73511--73551 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
73501 AAATATTAAA
*
73511 AAATATTAATATTTTAAATAT
1 AAATAATAATATTTTAAATAT
*
73532 AAATAATAATTTTTTAAATA
1 AAATAATAATATTTTAAATA
73552 ACTTTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATAATAATATTTTAAATAT
Found at i:75678 original size:2 final size:2
Alignment explanation
Indices: 75673--75705 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
75663 CCTCCCCCCC
*
75673 AT AT AT TT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75706 TTTTTAAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:82889 original size:44 final size:44
Alignment explanation
Indices: 82821--82910 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
82811 TTAAAATTTT
**
82821 ATAATTTCATCTCTTTAATGTACATCTTGACCCATATATGTTGC
1 ATAATTTCATCTCTTTAACATACATCTTGACCCATATATGTTGC
*
82865 ATAATTTTATCTCTTTAACATACATCTTGACCCATATATGTTGC
1 ATAATTTCATCTCTTTAACATACATCTTGACCCATATATGTTGC
82909 AT
1 AT
82911 GATGTAAATG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (44 bp):
ATAATTTCATCTCTTTAACATACATCTTGACCCATATATGTTGC
Found at i:83404 original size:3 final size:3
Alignment explanation
Indices: 83398--83424 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
83388 TTGTTGTTGT
83398 TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA
83425 GAAGCATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:85615 original size:21 final size:20
Alignment explanation
Indices: 85569--85615 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
85559 CTAGGCCGTC
*
85569 ACTTCTCTTTTGTTTATTTT
1 ACTTTTCTTTTGTTTATTTT
*
85589 ATTTTTCTTTTCGTTTAATTTT
1 ACTTTTCTTTT-GTTT-ATTTT
85611 -CTTTT
1 ACTTTT
85616 GATTTATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 9 0.41
21 8 0.36
22 5 0.23
ACGTcount: A:0.11, C:0.13, G:0.04, T:0.72
Consensus pattern (20 bp):
ACTTTTCTTTTGTTTATTTT
Found at i:90026 original size:2 final size:2
Alignment explanation
Indices: 90019--90045 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
90009 AATTTAATAC
90019 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
90046 TATCTTTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90884 original size:58 final size:58
Alignment explanation
Indices: 90756--90935 Score: 182
Period size: 58 Copynumber: 3.1 Consensus size: 58
90746 TTGAGTGACA
* * * * * * * *
90756 ATTTTGTAACTTTTAATAGTCAAGGGACTCAATAAAATAATGCCATGTAGTCATGGATC
1 ATTTTATAACTTTTAATAGTC-AGGGAATCAACAAAACAATACCATATAATCATAGATC
* * *
90815 ATTTTATAACTTTTAATAGTCGGGGAATCAACAAAACAATACCCTATAATCATATATC
1 ATTTTATAACTTTTAATAGTCAGGGAATCAACAAAACAATACCATATAATCATAGATC
* * * * *
90873 ATTTTATAACTTTTAATAGTCAGAGAGTCAACAAAAAAAATACCTTATAGTCGA-AGATC
1 ATTTTATAACTTTTAATAGTCAGGGAATCAAC-AAAACAATACCATATAATC-ATAGATC
90932 ATTT
1 ATTT
90936 ATGCAATTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
58 56 0.55
59 44 0.44
60 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (58 bp):
ATTTTATAACTTTTAATAGTCAGGGAATCAACAAAACAATACCATATAATCATAGATC
Found at i:100757 original size:25 final size:25
Alignment explanation
Indices: 100726--100800 Score: 150
Period size: 25 Copynumber: 3.0 Consensus size: 25
100716 ATTTAGGGGA
100726 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
100751 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
100776 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
100801 GGGTTGATTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGAT
Found at i:100876 original size:3 final size:3
Alignment explanation
Indices: 100868--100910 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
100858 ATTAATAAAC
100868 ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
100911 CGAAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:101300 original size:89 final size:89
Alignment explanation
Indices: 101196--101404 Score: 391
Period size: 89 Copynumber: 2.3 Consensus size: 89
101186 GTCGGAGAAA
* *
101196 GACACGGCTCATACGTGATGAAGAGATCTGGCCATCTAAAGGTGATAATACGGTTCCTACGTGAT
1 GACACGGCTCCTACGTGATGAGGAGATCTGGCCATCTAAAGGTGATAATACGGTTCCTACGTGAT
101261 GAGGACGGCTGGTTATCTAAGGGT
66 GAGGACGGCTGGTTATCTAAGGGT
*
101285 GACACGGCTCCTACGTGATGAGGAGATCTGGCCATCTAAAGGTGATAATATGGTTCCTACGTGAT
1 GACACGGCTCCTACGTGATGAGGAGATCTGGCCATCTAAAGGTGATAATACGGTTCCTACGTGAT
101350 GAGGACGGCTGGTTATCTAAGGGT
66 GAGGACGGCTGGTTATCTAAGGGT
101374 GACACGGCTCCTACGTGATGAGGAGATCTGG
1 GACACGGCTCCTACGTGATGAGGAGATCTGG
101405 TCAGCTGATG
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
89 117 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (89 bp):
GACACGGCTCCTACGTGATGAGGAGATCTGGCCATCTAAAGGTGATAATACGGTTCCTACGTGAT
GAGGACGGCTGGTTATCTAAGGGT
Found at i:101417 original size:129 final size:128
Alignment explanation
Indices: 101284--101579 Score: 430
Period size: 129 Copynumber: 2.3 Consensus size: 128
101274 TATCTAAGGG
* *
101284 TGACACGGCTCCTACGTGATGAGGAGATCTGGCCATCTAAAGGTGATAATATGGTTCCTACGTGA
1 TGACACGGCTCCTACGTGATGAGGAG-TCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
* *
101349 TGAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
65 TGAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCAGCGGA
* *
101413 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
1 TGACACGGCTCCTACGTGATGAGGAG-TCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGA
* * * * * *
101478 TGAGGACGGTTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGCTCTGGTCTGGGGA
65 TGAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCAGCGGA
* * *
101542 TGACACGGTTCCTACATGATGAGGACGGCTGGCCATCT
1 TGACACGGCTCCTACGTGATGAGGA-GTCTGGCCATCT
101580 TTAGGATTTA
Statistics
Matches: 148, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
129 147 0.99
130 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (128 bp):
TGACACGGCTCCTACGTGATGAGGAGTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGAT
GAGGACGGCTGGTTATCTAAGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCAGCGGA
Found at i:101429 original size:40 final size:40
Alignment explanation
Indices: 101155--101566 Score: 148
Period size: 43 Copynumber: 9.6 Consensus size: 40
101145 TTATCTAGGG
* * **
101155 TGACACGGCTCATACGTGATGAAGAGATCTGGTC-GGAGAA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTG-A
* * * *
101195 AGACACGGCTCATACGTGATGAAGAGATCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG---TC---AGCTGA
* * * * * * *
101241 TAATACGGTTCCTACGTGATGAGGACG-GCTGGTTATCTAAGGG
1 TGACACGGCTCCTACGTGATGAGGA-GATCTGGTCAGCT---GA
*
101284 TGACACGGCTCCTACGTGATGAGGAGATCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG---TC---AGCTGA
* * * * * * * *
101330 TAATATGGTTCCTACGTGATGAGGACG-GCTGGTTATCTAAGGG
1 TGACACGGCTCCTACGTGATGAGGA-GATCTGGTCAGCT---GA
101373 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
* * * *
101413 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG---TC---AGCTGA
* * * * * *
101459 TAACACGGTTCCTACGTGATGAGGACGGT-TGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAGGA-GATCTGGTCAGC--T-GA
* * * **
101502 TGACACGGCTCCTACGTGATGAAGAGCTCTGGTCTGGGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
* *
101542 TGACACGGTTCCTACATGATGAGGA
1 TGACACGGCTCCTACGTGATGAGGA
101567 CGGCTGGCCA
Statistics
Matches: 274, Mismatches: 64, Indels: 68
0.67 0.16 0.17
Matches are distributed among these distances:
40 89 0.32
42 5 0.02
43 91 0.33
46 80 0.29
47 7 0.03
49 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (40 bp):
TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTGA
Found at i:101456 original size:218 final size:217
Alignment explanation
Indices: 101079--101573 Score: 743
Period size: 218 Copynumber: 2.3 Consensus size: 217
101069 ACATTGTTCA
*
101079 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGATTCCTACGTGATGAGGACGGCTG
1 TACGTGATGAAGAGATCTGGCCATCTAAAGGTGATAACACGATTCCTACGTGATGAGGACGGCTG
*
101144 GTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGAGAAAGACACGGCTCATA
66 GTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGCAGAAAGACACGGCTCATA
*
101209 CGTGATGAAGAGATCTGGCCATCTAAAGGTGATAATACGGTTCCTACGTGATGAGGACGGCTGGT
131 CGTGATGAAGAGATCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGT
101274 TATCTAAGGGTGACACGGCTCC
196 TATCTAAGGGTGACACGGCTCC
* * * *
101296 TACGTGATGAGGAGATCTGGCCATCTAAAGGTGATAATATGGTTCCTACGTGATGAGGACGGCTG
1 TACGTGATGAAGAGATCTGGCCATCTAAAGGTGATAACACGATTCCTACGTGATGAGGACGGCTG
* * * *
101361 GTTATCTAAGGGTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGCTG-ATGACACGGCTCA
66 GTTATCT-AGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTC-GCAGAAAGACACGGCTCA
* *
101425 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGTTG
129 TACGTGATGAAGAGATCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTG
* *
101490 GTTATCTATGGTTGACACGGCTCC
194 GTTATCTAAGGGTGACACGGCTCC
* * * * *
101514 TACGTGATGAAGAGCTCTGG---TCT---GGGGATGACACGGTTCCTACATGATGAGGACGGCTG
1 TACGTGATGAAGAGATCTGGCCATCTAAAGGTGATAACACGATTCCTACGTGATGAGGACGGCTG
101573 G
66 G
101574 CCATCTTTAG
Statistics
Matches: 254, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
212 32 0.13
215 3 0.01
217 67 0.26
218 150 0.59
219 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (217 bp):
TACGTGATGAAGAGATCTGGCCATCTAAAGGTGATAACACGATTCCTACGTGATGAGGACGGCTG
GTTATCTAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGCAGAAAGACACGGCTCATA
CGTGATGAAGAGATCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGT
TATCTAAGGGTGACACGGCTCC
Found at i:101524 original size:89 final size:84
Alignment explanation
Indices: 101079--101566 Score: 311
Period size: 89 Copynumber: 5.6 Consensus size: 84
101069 ACATTGTTCA
** *
101079 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGATTCCTACGTGATGAGGACG-GCT
1 TACGTGATGAAGAG-TCTGG--ATCT-AAGG-GATAACACGGCTCCTACGTGATGAGGA-GATCT
* * *
101143 GGTTATCT-AGGGTGACACGGCTCA
60 GGTCATCTAAGGTTGACACGGCTCC
* * * *
101167 TACGTGATGAAGAGATCTGG-TC---GGAGAAAGACACGGCTCATACGTGATGAAGAGATCTGGC
1 TACGTGATGAAGAG-TCTGGATCTAAGG-GATA-ACACGGCTCCTACGTGATGAGGAGATCTGGT
* * *
101228 CATCTAAAGGTGATAATACGGTTCC
63 CATCT-AAGGT--TGACACGGCTCC
* * * *
101253 TACGTGATGAGGACGGCTGGTTATCTAAGGG-TGACACGGCTCCTACGTGATGAGGAGATCTGGC
1 TACGTGATGAAGA-GTCTGG--ATCTAAGGGATAACACGGCTCCTACGTGATGAGGAGATCTGGT
* * * *
101317 CATCTAAAGGTGATAATATGGTTCC
63 CATCT-AAGGT--TGACACGGCTCC
* * *
101342 TACGTGATGAGGACGGCTGGTTATCTAAGGG-TGACACGGCTCCTACGTGATGAGGAGATCTGGT
1 TACGTGATGAAGA-GTCTGG--ATCTAAGGGATAACACGGCTCCTACGTGATGAGGAGATCTGGT
* * *
101406 CAGCT---GATGACACGGCTCA
63 CATCTAAGGTTGACACGGCTCC
* *
101425 TACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGT-T
1 TACGTGATGAAGAG-TCTGG--ATCT-AAGG-GATAACACGGCTCCTACGTGATGAGGA-GATCT
* *
101489 GGTTATCTATGGTTGACACGGCTCC
60 GGTCATCTAAGGTTGACACGGCTCC
* * * *
101514 TACGTGATGAAGAGCTCTGG-TCT-GGGGATGACACGGTTCCTACATGATGAGGA
1 TACGTGATGAAGAG-TCTGGATCTAAGGGATAACACGGCTCCTACGTGATGAGGA
101567 CGGCTGGCCA
Statistics
Matches: 334, Mismatches: 45, Indels: 47
0.78 0.11 0.11
Matches are distributed among these distances:
81 6 0.02
82 28 0.08
83 52 0.16
84 9 0.03
85 4 0.01
86 57 0.17
87 3 0.01
88 19 0.06
89 153 0.46
91 1 0.00
92 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.25
Consensus pattern (84 bp):
TACGTGATGAAGAGTCTGGATCTAAGGGATAACACGGCTCCTACGTGATGAGGAGATCTGGTCAT
CTAAGGTTGACACGGCTCC
Found at i:101642 original size:28 final size:28
Alignment explanation
Indices: 101592--101645 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
101582 AGGATTTATG
* *
101592 GTTTCAAGAGAAACCAAATCAAAGATTT
1 GTTTCAAAAGAAACCAAACCAAAGATTT
101620 GTTTCAAAAGAAA-CAAACCCAAAGAT
1 GTTTCAAAAGAAACCAAA-CCAAAGAT
101646 GATATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.50, C:0.17, G:0.13, T:0.20
Consensus pattern (28 bp):
GTTTCAAAAGAAACCAAACCAAAGATTT
Found at i:101923 original size:65 final size:64
Alignment explanation
Indices: 101829--102058 Score: 279
Period size: 63 Copynumber: 3.6 Consensus size: 64
101819 TTTGTTTTCC
* * * *
101829 AAACAAACTCAAAGATTTTTCTC-AAAGAAACTGTCTCGAGAGACACAAAATTTTGTTTCCAAAG
1 AAACAAACTCAAAGATTTTTTTCAAAAGAAACTATCT-AAGAGAGACAAAATTTTGTTTCCAAAG
* * * * * * *
101893 AAAGAGATTCAATGATTTTTTTCAAAAGAAATTATCTTA-AGAGATAAAATTTTGTTTCCAAAG
1 AAACAAACTCAAAGATTTTTTTCAAAAGAAACTATCTAAGAGAGACAAAATTTTGTTTCCAAAG
101956 AAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAA
1 AAACAAACTCAAAGA-TTTT-TTTCAAAAGAAACTATC-TAAGAGAGACAAAATTTTGTTTCCAA
102021 AG
63 AG
*
102023 AAACAAACTCAAAGA--TTTTTCGAAAAGAAACAATCT
1 AAACAAACTCAAAGATTTTTTTC-AAAAGAAACTATCT
102059 CAAAAATTTT
Statistics
Matches: 142, Mismatches: 18, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
63 38 0.27
64 37 0.26
65 27 0.19
66 2 0.01
67 38 0.27
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.30
Consensus pattern (64 bp):
AAACAAACTCAAAGATTTTTTTCAAAAGAAACTATCTAAGAGAGACAAAATTTTGTTTCCAAAG
Found at i:101954 original size:63 final size:67
Alignment explanation
Indices: 101829--102042 Score: 280
Period size: 67 Copynumber: 3.3 Consensus size: 67
101819 TTTGTTTTCC
* * ** *
101829 AAACAAACTCAAAGA-TTTT-TCTC-AAAGAAACTGTCTCGAGAGACACAAAATTTTGTTTCCAA
1 AAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAA
101891 AG
66 AG
* * * * * *
101893 AAAGAGATTCAATGA-TTTT-TTTCAAAAGAAATTATCTT-A-AGAGATAAAATTTTGTTTCCAA
1 AAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAA
101954 AG
66 AG
101956 AAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAA
1 AAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAA
102021 AG
66 AG
102023 AAACAAACTCAAAGATTTTT
1 AAACAAACTCAAAGATTTTT
102043 CGAAAAGAAA
Statistics
Matches: 129, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
63 33 0.26
64 23 0.18
65 29 0.22
66 1 0.01
67 43 0.33
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.31
Consensus pattern (67 bp):
AAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAA
AG
Found at i:101976 original size:30 final size:30
Alignment explanation
Indices: 101942--102042 Score: 94
Period size: 30 Copynumber: 3.1 Consensus size: 30
101932 AGAGATAAAA
101942 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
* * * * *
101972 TTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAA
1 TTTTGTTTCCAAAGAAACAAAC-TCA-A-AG----AT
102009 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
1 TTTTGTTTCCAAAGAAACAAACTCAAAGAT
102039 TTTT
1 TTTT
102043 CGAAAAGAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
30 24 0.44
31 2 0.04
32 1 0.02
33 2 0.04
34 2 0.04
35 1 0.02
36 2 0.04
37 20 0.37
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.33
Consensus pattern (30 bp):
TTTTGTTTCCAAAGAAACAAACTCAAAGAT
Found at i:102023 original size:67 final size:64
Alignment explanation
Indices: 101829--102058 Score: 288
Period size: 64 Copynumber: 3.6 Consensus size: 64
101819 TTTGTTTTCC
* * * *
101829 AAACAAACTCAAAGATTTTTCTC-AAAGAAACTGTCTCGAGAGACACAAAATTTTGTTTCCAAAG
1 AAACAAACTCAAAGATTTTTTTCAAAAGAAACTATCT-TAGAGAGACAAAATTTTGTTTCCAAAG
* * * * * *
101893 AAAGAGATTCAATGATTTTTTTCAAAAGAAATTATCTTA-AGAGATAAAATTTTGTTTCCAAAG
1 AAACAAACTCAAAGATTTTTTTCAAAAGAAACTATCTTAGAGAGACAAAATTTTGTTTCCAAAG
101956 AAACAAACTCAAAGATTTTTGTTTCAAAAGAAACTATCTTAAGAGAGACAAAATTTTGTTTCCAA
1 AAACAAACTCAAAGA-TTTT-TTTCAAAAGAAACTATCTT-AGAGAGACAAAATTTTGTTTCCAA
102021 AG
63 AG
*
102023 AAACAAACTCAAAGA--TTTTTCGAAAAGAAACAATCT
1 AAACAAACTCAAAGATTTTTTTC-AAAAGAAACTATCT
102059 CAAAAATTTT
Statistics
Matches: 143, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
63 37 0.26
64 38 0.27
65 29 0.20
66 1 0.01
67 38 0.27
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.30
Consensus pattern (64 bp):
AAACAAACTCAAAGATTTTTTTCAAAAGAAACTATCTTAGAGAGACAAAATTTTGTTTCCAAAG
Found at i:102231 original size:29 final size:29
Alignment explanation
Indices: 102151--102239 Score: 110
Period size: 29 Copynumber: 3.1 Consensus size: 29
102141 GAGACAAAAC
* * *
102151 TTTGTTTCAAAATAAATAGACTGAAAGAT
1 TTTGTTTCAAAAGAAACAGACTCAAAGAT
102180 ATTTGTTTCAAAAGAAACA-ACTCAAAGAT
1 -TTTGTTTCAAAAGAAACAGACTCAAAGAT
*
102209 TTT-TATTCAAAAGGAACAGACTCAAAGAT
1 TTTGT-TTCAAAAGAAACAGACTCAAAGAT
102238 TT
1 TT
102240 ATCTCAAGAG
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
27 1 0.02
28 15 0.28
29 21 0.40
30 16 0.30
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.31
Consensus pattern (29 bp):
TTTGTTTCAAAAGAAACAGACTCAAAGAT
Found at i:102246 original size:28 final size:27
Alignment explanation
Indices: 102186--102253 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
102176 AGATATTTGT
102186 TTCAAAAGAAACAACTCAAAGATTTTTA
1 TTCAAAAGAAACAACTCAAAGA-TTTTA
*
102214 TTCAAAAGGAACAGACTCAAAGA-TTTA
1 TTCAAAAGAAACA-ACTCAAAGATTTTA
*
102241 TCTCAAGAGAAAC
1 T-TCAAAAGAAAC
102254 TGTCTCCAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.14
28 21 0.60
29 9 0.26
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.24
Consensus pattern (27 bp):
TTCAAAAGAAACAACTCAAAGATTTTA
Found at i:102573 original size:36 final size:35
Alignment explanation
Indices: 102533--102627 Score: 136
Period size: 36 Copynumber: 2.7 Consensus size: 35
102523 TTAAGATATA
* **
102533 GTCTCAAATGAGACAAAGTTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAGTTTGTTTTT-GAGAAAAC
*
102569 GTCTCAAGCGAGACAAAGTTTGTTTTTGAGAAAAC
1 GTCTCAAGTGAGACAAAGTTTGTTTTTGAGAAAAC
102604 GATCTCAAGTGAGACAAAGTTTGT
1 G-TCTCAAGTGAGACAAAGTTTGT
102628 GAAAACGATC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
35 7 0.13
36 46 0.87
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (35 bp):
GTCTCAAGTGAGACAAAGTTTGTTTTTGAGAAAAC
Found at i:102634 original size:30 final size:30
Alignment explanation
Indices: 102593--102651 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
102583 AAAGTTTGTT
102593 TTTGAGAAAACGATCTCAAGTGAGACAAAG
1 TTTGAGAAAACGATCTCAAGTGAGACAAAG
*
102623 TTTGTGAAAACGATCTCAAGTGAGACAAA
1 TTTGAGAAAACGATCTCAAGTGAGACAAA
102652 AATTTTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (30 bp):
TTTGAGAAAACGATCTCAAGTGAGACAAAG
Found at i:102738 original size:106 final size:103
Alignment explanation
Indices: 102628--102961 Score: 298
Period size: 104 Copynumber: 3.2 Consensus size: 103
102618 CAAAGTTTGT
* * * * *
102628 GAAAACGATCTCAAGTGAGACAAAAATTTTGTTTTGAAATAGATACGATCTCAAATGAGATCAAC
1 GAAAA-GATCTCAAGCGAGAC-GAAATTTTGTTTTGAAAAACA-ACAATCTCAAATGAGATCAAC
102693 TTTGTTT-AATGTGAAAAAAATTCAAAATTTGGATCTCAAAG
63 TTTGTTTCAA-GTGAAAAAAATTCAAAATTTGGATCTCAAAG
* * * * * * *
102734 GAAAAAATGTCCCAAGCGAGACGAAATTTGTTTTTTTAAAAACAACAATCTCAAGTGAGATTAAT
1 GAAAAGA--TCTCAAGCGAGACGAAATTT-TGTTTTGAAAAACAACAATCTCAAATGAGATCAAC
** *
102799 TTTGTTTCAAGTGAAGCAAATTCAAAATTTGTATCTCAAAG
63 TTTGTTTCAAGTGAAAAAAATTCAAAATTTGGATCTCAAAG
* * * * *
102840 GAAAAGGTCTCAAGCGAGACGAAA-TTTGTTTTGAAAGAAACAAGAATCT-AAGGTGAGATTAAT
1 GAAAAGATCTCAAGCGAGACGAAATTTTGTTTTG-AA-AAACAACAATCTCAA-ATGAGATCAAC
** ** * *
102903 TTTGTTTTTAGTGAATCAAATTCAAAATTTGTATCTAAAAG
63 TTTGTTTCAAGTGAAAAAAATTCAAAATTTGGATCTCAAAG
102944 GAAAA-ATGTCTCAAGCGA
1 GAAAAGA--TCTCAAGCGA
102962 ACACAATTTG
Statistics
Matches: 193, Mismatches: 26, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
102 5 0.03
103 6 0.03
104 80 0.41
105 11 0.06
106 68 0.35
107 23 0.12
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (103 bp):
GAAAAGATCTCAAGCGAGACGAAATTTTGTTTTGAAAAACAACAATCTCAAATGAGATCAACTTT
GTTTCAAGTGAAAAAAATTCAAAATTTGGATCTCAAAG
Found at i:102900 original size:104 final size:103
Alignment explanation
Indices: 102675--102979 Score: 377
Period size: 104 Copynumber: 2.9 Consensus size: 103
102665 AATAGATACG
* * * * *
102675 ATCTCAAATGAGATCAACTTTGTTTAATGTGAAAAAAATTCAAAATTTGGATCTCAAAGGAAAAA
1 ATCTCAAGTGAGATTAATTTTGTTTAA-GTGAAACAAATTCAAAATTTGTATCTCAAAGG-AAAA
* **
102740 ATGTCCCAAGCGAGACGAAATTTGTTTTTTTAAAAACAACA
64 ATGTCTCAAGCGAGACGAAATTTG-TTTTGAAAAAACAACA
*
102781 ATCTCAAGTGAGATTAATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTATCTCAAAGG-AAAA
1 ATCTCAAGTGAGATTAATTTTGTTT-AAGTGAAACAAATTCAAAATTTGTATCTCAAAGGAAAAA
* *
102845 GGTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAAGA
65 TGTCTCAAGCGAGACGAAATTTGTTTTGAAA-AAACAACA
* * *
102885 ATCT-AAGGTGAGATTAATTTTGTTTTTAGTGAATCAAATTCAAAATTTGTATCTAAAAGGAAAA
1 ATCTCAA-GTGAGATTAATTTTG-TTTAAGTGAAACAAATTCAAAATTTGTATCTCAAAGGAAAA
102949 ATGTCTCAAGCGA-AC-ACAATTTGTTTT-AAAA
64 ATGTCTCAAGCGAGACGA-AATTTGTTTTGAAAA
102980 TTCTCAAAAT
Statistics
Matches: 178, Mismatches: 15, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
102 1 0.01
103 12 0.07
104 94 0.53
105 18 0.10
106 51 0.29
107 2 0.01
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (103 bp):
ATCTCAAGTGAGATTAATTTTGTTTAAGTGAAACAAATTCAAAATTTGTATCTCAAAGGAAAAAT
GTCTCAAGCGAGACGAAATTTGTTTTGAAAAAACAACA
Found at i:103079 original size:36 final size:36
Alignment explanation
Indices: 102995--103103 Score: 110
Period size: 38 Copynumber: 2.9 Consensus size: 36
102985 AAAATTTGTG
* * *
102995 GAAAAATGTTTCAAGCGAGACATAATTTGTTTTAAA
1 GAAAAATGTCTCAAGCGAGACAAAATTTGTTTTTAA
* *
103031 GAGAAAGTTGTCTCAAGCGAGATAAAATTTGTTTTTAA
1 GA-AAA-ATGTCTCAAGCGAGACAAAATTTGTTTTTAA
* * * *
103069 GAAAACTGTCTCTAGTGAGACGAAACTTTGTTTTT
1 GAAAAATGTCTCAAGCGAGAC-AAAATTTGTTTTT
103104 TTTTTTTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
36 14 0.23
37 18 0.30
38 28 0.47
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (36 bp):
GAAAAATGTCTCAAGCGAGACAAAATTTGTTTTTAA
Found at i:103430 original size:4 final size:4
Alignment explanation
Indices: 103421--103454 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
103411 TTTATGTATC
103421 ATGT ATGT ATG- -TGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
103455 GTGTGTATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
4 26 0.93
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:103449 original size:22 final size:22
Alignment explanation
Indices: 103421--103462 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
103411 TTTATGTATC
* *
103421 ATGTATGTATGTGTATGTATGT
1 ATGTATGTATGTATGTGTATGT
*
103443 ATGTATGTATGTGTGTGTAT
1 ATGTATGTATGTATGTGTAT
103463 ACTTTCCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (22 bp):
ATGTATGTATGTATGTGTATGT
Found at i:103461 original size:18 final size:18
Alignment explanation
Indices: 103421--103462 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
103411 TTTATGTATC
*
103421 ATGTATGTATGTGTATGT
1 ATGTATGTATGTATATGT
*
103439 ATGTATGTATGTATGTGT
1 ATGTATGTATGTATATGT
*
103457 GTGTAT
1 ATGTAT
103463 ACTTTCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (18 bp):
ATGTATGTATGTATATGT
Found at i:105372 original size:26 final size:26
Alignment explanation
Indices: 105294--105375 Score: 86
Period size: 26 Copynumber: 3.4 Consensus size: 26
105284 TTTCAAGGTG
105294 GAAAGAATGTTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
**
105320 GAGGGAATGTTTCAAGGT-T----GA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
105341 -AAAGAATATTTCAAGGTCTCAAAGA
1 GAAAGAATGTTTCAAGGTCTCAAAGA
*
105366 GATAGAATGT
1 GAAAGAATGT
105376 CAAAAATTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
20 14 0.33
21 3 0.07
25 3 0.07
26 23 0.53
ACGTcount: A:0.40, C:0.09, G:0.26, T:0.26
Consensus pattern (26 bp):
GAAAGAATGTTTCAAGGTCTCAAAGA
Found at i:105374 original size:46 final size:45
Alignment explanation
Indices: 105282--105375 Score: 143
Period size: 46 Copynumber: 2.1 Consensus size: 45
105272 ATAAATACAG
* * *
105282 TGTTTCAAGGTGGAAAGAATGTTTCAAGGTCTCAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
*
105327 TGTTTCAAGGTTGAAAAGAATATTTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGG-TGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
105373 TGT
1 TGT
105376 CAAAAATTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 10 0.23
46 34 0.77
ACGTcount: A:0.37, C:0.09, G:0.27, T:0.28
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATTTCAAGGTCTCAAAGAGAGAGAA
Found at i:106836 original size:31 final size:32
Alignment explanation
Indices: 106780--106841 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
106770 TGACAAAATG
106780 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
106812 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
106842 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:110444 original size:25 final size:25
Alignment explanation
Indices: 110413--110487 Score: 150
Period size: 25 Copynumber: 3.0 Consensus size: 25
110403 ATTTAGGGGA
110413 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
110438 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
110463 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
110488 GGGTTGATTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGAT
Found at i:110563 original size:3 final size:3
Alignment explanation
Indices: 110555--110597 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
110545 ATTAATAAAC
110555 ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
110598 CGAAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:110570 original size:19 final size:19
Alignment explanation
Indices: 110555--110597 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
110545 ATTAATAAAC
110555 ATAATAATAATAAATAATA
1 ATAATAATAATAAATAATA
110574 ATAATAATAAT-AATAATA
1 ATAATAATAATAAATAATA
110592 A-AATAA
1 ATAATAA
110598 CGAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 5 0.21
18 8 0.33
19 11 0.46
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
ATAATAATAATAAATAATA
Found at i:120488 original size:78 final size:76
Alignment explanation
Indices: 120404--120559 Score: 199
Period size: 78 Copynumber: 2.0 Consensus size: 76
120394 TAGAAAAAAT
* **
120404 AATATTTTA-GATAGCACCAAATATTAATATTTCTGATAAAAAAATAGTATTTTAGGTAATATTT
1 AATATTTTATG-TAACACCAAATATTAATATTTCTGAT-AAAAAATA-TATTTTAAATAATATTT
120468 TA-TCAAAAATATTA
63 TACT-AAAAATATTA
** * *
120482 AATATTTTATGTAACGTCTAATATTAATATTTTTGATAAAAAATATATTTTAAATAATATTTTAC
1 AATATTTTATGTAACACCAAATATTAATATTTCTGATAAAAAATATATTTTAAATAATATTTTAC
120547 TAAAAATATTA
66 TAAAAATATTA
120558 AA
1 AA
120560 AAATATTAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
76 29 0.42
77 9 0.13
78 30 0.43
79 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (76 bp):
AATATTTTATGTAACACCAAATATTAATATTTCTGATAAAAAATATATTTTAAATAATATTTTAC
TAAAAATATTA
Found at i:120583 original size:78 final size:78
Alignment explanation
Indices: 120423--120567 Score: 197
Period size: 76 Copynumber: 1.9 Consensus size: 78
120413 GATAGCACCA
** * *
120423 AATATTAATATTTCTGATAAAAAAATAGTATTTTAGGTAATATTTTATCAAAAATATTAAATATT
1 AATATTAATATTTCTGATAAAAAAATAGTATTTTAAATAATATTTTATCAAAAATATTAAAAATA
*
120488 TTATGTAACGTCT
66 TTATATAACGTCT
*
120501 AATATTAATATTTTTGAT-AAAAAATA-TATTTTAAATAATATTTTA-CTAAAAATATTAAAAAA
1 AATATTAATATTTCTGATAAAAAAATAGTATTTTAAATAATATTTTATC-AAAAATATT-AAAAA
120563 TATTA
64 TATTA
120568 ATATTTTCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
75 1 0.02
76 26 0.43
77 16 0.27
78 17 0.28
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (78 bp):
AATATTAATATTTCTGATAAAAAAATAGTATTTTAAATAATATTTTATCAAAAATATTAAAAATA
TTATATAACGTCT
Found at i:121929 original size:20 final size:20
Alignment explanation
Indices: 121898--121953 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
121888 ATCGCATTGC
121898 AATTTCGCAACGCGAAAGTCA
1 AATTT-GCAACGCGAAAGTCA
*
121919 AATTTGCAACGTGAAAGTCA
1 AATTTGCAACGCGAAAGTCA
* *
121939 AATTCGCAACTCGAA
1 AATTTGCAACGCGAA
121954 TTTGTAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 26 0.84
21 5 0.16
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (20 bp):
AATTTGCAACGCGAAAGTCA
Found at i:121984 original size:19 final size:19
Alignment explanation
Indices: 121916--121987 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
121906 AACGCGAAAG
* **
121916 TCAAATTTGCAACGTGAAAG
1 TCAAATTCGCAAC-TGAATT
121936 TCAAATTCGCAACTCGAATT
1 TCAAATTCGCAACT-GAATT
*
121956 TGTAAA-TCGCAACTGAATT
1 T-CAAATTCGCAACTGAATT
121975 TCAAATTCGCAAC
1 TCAAATTCGCAAC
121988 ATGTTTTAGT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
18 3 0.07
19 14 0.32
20 24 0.55
21 3 0.07
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:122906 original size:24 final size:24
Alignment explanation
Indices: 122879--122932 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
122869 GTATTCGAAA
122879 TTTGATCTTGGTCAATACTCAGAC
1 TTTGATCTTGGTCAATACTCAGAC
* *
122903 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACTCAGAC
122927 TTTGAT
1 TTTGAT
122933 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCAGAC
Found at i:125225 original size:18 final size:18
Alignment explanation
Indices: 125191--125226 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
125181 AAGCAAAAGG
**
125191 AAATCAAAATCGTAATCA
1 AAATCAAAATCCCAATCA
125209 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
125227 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:125570 original size:20 final size:20
Alignment explanation
Indices: 125545--125666 Score: 190
Period size: 20 Copynumber: 6.1 Consensus size: 20
125535 CGTGAAATAA
* *
125545 GCGTTGCGAATTTGACTTTT
1 GCGTTGCAAATTTGACTTTC
125565 GCGTTGCAAATTTGACTTTC
1 GCGTTGCAAATTTGACTTTC
125585 GCGTTGCAAATTTGACTTTC
1 GCGTTGCAAATTTGACTTTC
*
125605 GCGTTGCAAATTTGACTTCC
1 GCGTTGCAAATTTGACTTTC
*
125625 GCGTTACAAATTTGACTTTC
1 GCGTTGCAAATTTGACTTTC
* *
125645 GCGTTGCGAATTTGACTATC
1 GCGTTGCAAATTTGACTTTC
125665 GC
1 GC
125667 AACGCTTATT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 94 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (20 bp):
GCGTTGCAAATTTGACTTTC
Found at i:125795 original size:25 final size:25
Alignment explanation
Indices: 125757--125806 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
125747 AAATCAATTA
*
125757 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
125782 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
125807 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:126214 original size:18 final size:18
Alignment explanation
Indices: 126193--126229 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
126183 GTAATTGGAG
126193 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
126211 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
126229 T
1 T
126230 ATAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:126236 original size:24 final size:24
Alignment explanation
Indices: 126185--126237 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
126175 TTTCATATGT
* * *
126185 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
126209 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
126233 AATTT
1 AATTT
126238 TGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:126576 original size:39 final size:39
Alignment explanation
Indices: 126529--126615 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
126519 TCCGATGCTC
126529 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
* *
126568 ATCCAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
126607 ATCAAAATC
1 ATCAAAATC
126616 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:126837 original size:20 final size:20
Alignment explanation
Indices: 126805--126879 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
126795 AAACCGAAAA
* *
126805 TCGCGTTGTGAATTTGACTT
1 TCGCGTTGCGAATTTAACTT
*
126825 TCACGTTGCGAATTTAACTT
1 TCGCGTTGCGAATTTAACTT
****
126845 TCGCAACACGAATTTAACTT
1 TCGCGTTGCGAATTTAACTT
126865 TCGCGTTGCGAATTT
1 TCGCGTTGCGAATTT
126880 GTACCTTCAA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGAATTTAACTT
Found at i:127015 original size:33 final size:33
Alignment explanation
Indices: 126951--127042 Score: 94
Period size: 33 Copynumber: 2.6 Consensus size: 33
126941 CAAATCAACT
*
126951 TTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTA
1 TTTACAAATCAATT--A-AA-C-AAAAAATAAATCTTA
*
126989 TTTACAAATCAATTAATCAAAAAATAAATCTTA
1 TTTACAAATCAATTAAACAAAAAATAAATCTTA
* **
127022 TTTCCTCATCAATTAAACAAA
1 TTTACAAATCAATTAAACAAA
127043 TCAACTTTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
33 31 0.65
34 1 0.02
35 1 0.02
36 1 0.02
38 14 0.29
ACGTcount: A:0.52, C:0.15, G:0.01, T:0.32
Consensus pattern (33 bp):
TTTACAAATCAATTAAACAAAAAATAAATCTTA
Found at i:130990 original size:22 final size:22
Alignment explanation
Indices: 130962--131008 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
130952 GATGGAGATA
130962 GACGGATTTCGTCGGAAATGGG
1 GACGGATTTCGTCGGAAATGGG
*
130984 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAAATGGG
131006 GAC
1 GAC
131009 AGATGTCGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.21, C:0.15, G:0.43, T:0.21
Consensus pattern (22 bp):
GACGGATTTCGTCGGAAATGGG
Found at i:133422 original size:14 final size:14
Alignment explanation
Indices: 133403--133450 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
133393 TTAAATTTTA
*
133403 CATAAATGAAAACT
1 CATAAATCAAAACT
* *
133417 CATAAAACACAACT
1 CATAAATCAAAACT
133431 -ATAAACTCAAAACT
1 CATAAA-TCAAAACT
133445 CATAAA
1 CATAAA
133451 ACCCTAAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
13 5 0.19
14 17 0.63
15 5 0.19
ACGTcount: A:0.58, C:0.21, G:0.02, T:0.19
Consensus pattern (14 bp):
CATAAATCAAAACT
Found at i:141378 original size:27 final size:28
Alignment explanation
Indices: 141321--141378 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
141311 AGAGGTGCAC
141321 AAAAAATCCGAATATCCGATTTTGAGTAA
1 AAAAAATCCGAATATCCGATTTTGAG-AA
*
141350 AAAATATCCGAA-A-CCGGATTTTG-GAA
1 AAAAAATCCGAATATCC-GATTTTGAGAA
141376 AAA
1 AAA
141379 CCGGTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
26 5 0.19
27 3 0.11
28 8 0.30
29 11 0.41
ACGTcount: A:0.47, C:0.14, G:0.16, T:0.24
Consensus pattern (28 bp):
AAAAAATCCGAATATCCGATTTTGAGAA
Found at i:141477 original size:24 final size:24
Alignment explanation
Indices: 141450--141542 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 24
141440 AAATTGAATG
141450 ACCGGTTTTTTTACCGGATTAAAA
1 ACCGGTTTTTTTACCGGATTAAAA
141474 ACCGGTTTTTTTCAAACCGGATAAAAATAAAAA
1 ACCGGTTTTTTT---ACCGGAT-----T-AAAA
*
141507 ACCGG-TTTTTTATCCGGATAAAAA
1 ACCGGTTTTTTTA-CCGGATTAAAA
141531 ACC-GTTTTTTTA
1 ACCGGTTTTTTTA
141543 AAAAAACTGT
Statistics
Matches: 57, Mismatches: 1, Indels: 22
0.71 0.01 0.28
Matches are distributed among these distances:
23 1 0.02
24 26 0.46
27 7 0.12
29 1 0.02
30 6 0.11
32 7 0.12
33 9 0.16
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (24 bp):
ACCGGTTTTTTTACCGGATTAAAA
Found at i:141526 original size:30 final size:32
Alignment explanation
Indices: 141470--141530 Score: 90
Period size: 30 Copynumber: 1.9 Consensus size: 32
141460 TTACCGGATT
141470 AAAAACCGGTTTTTTTCAAACCGGATAAAAATA
1 AAAAACCGGTTTTTTT-AAACCGGATAAAAATA
*
141503 AAAAACCGG-TTTTTT-ATCCGGATAAAAA
1 AAAAACCGGTTTTTTTAAACCGGATAAAAA
141531 ACCGTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 12 0.44
32 6 0.22
33 9 0.33
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (32 bp):
AAAAACCGGTTTTTTTAAACCGGATAAAAATA
Found at i:141546 original size:40 final size:39
Alignment explanation
Indices: 141501--141598 Score: 101
Period size: 41 Copynumber: 2.4 Consensus size: 39
141491 CGGATAAAAA
141501 TAAAAAACCGGTTTTTTATCCGGATAAAAAACC-G-TTTTTT
1 TAAAAAACCGGTTTTTTATCC-G--AAAAAACCGGTTTTTTT
* * *
141541 TAAAAAAACTGTATTTTTATCCGAAAAATCCGGTTTTTTTT
1 TAAAAAACCGGT-TTTTTATCCGAAAAAACCGG-TTTTTTT
*
141582 TTAAAAACCGGTTTTTT
1 TAAAAAACCGGTTTTTT
141599 GCAAACCGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
38 7 0.15
39 1 0.02
40 16 0.33
41 24 0.50
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (39 bp):
TAAAAAACCGGTTTTTTATCCGAAAAAACCGGTTTTTTT
Found at i:141548 original size:17 final size:17
Alignment explanation
Indices: 141526--141559 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
141516 TTATCCGGAT
*
141526 AAAAAACCGTTTTTTTA
1 AAAAAACCGTATTTTTA
*
141543 AAAAAACTGTATTTTTA
1 AAAAAACCGTATTTTTA
141560 TCCGAAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (17 bp):
AAAAAACCGTATTTTTA
Found at i:142029 original size:12 final size:12
Alignment explanation
Indices: 142012--142049 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
142002 CATTAAGTAA
142012 GAAGATGGATTT
1 GAAGATGGATTT
*
142024 GAAGATGTATTT
1 GAAGATGGATTT
142036 GAAGATGGAATTT
1 GAAGATGG-ATTT
142049 G
1 G
142050 CAAGCTCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (12 bp):
GAAGATGGATTT
Found at i:142532 original size:29 final size:29
Alignment explanation
Indices: 142490--142548 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
142480 CTTTTCTGGA
142490 AATCTGTCAACCCCTTCCCACTTCCTGTC
1 AATCTGTCAACCCCTTCCCACTTCCTGTC
142519 AATCTGTCAACCCCTTCCCACTTCCTGTC
1 AATCTGTCAACCCCTTCCCACTTCCTGTC
142548 A
1 A
142549 CACCAACCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.19, C:0.44, G:0.07, T:0.31
Consensus pattern (29 bp):
AATCTGTCAACCCCTTCCCACTTCCTGTC
Found at i:147715 original size:64 final size:59
Alignment explanation
Indices: 147642--147757 Score: 169
Period size: 64 Copynumber: 1.9 Consensus size: 59
147632 AGGTTTTACA
*
147642 AAAGAAAAATTGTTAGATTTGTATAATGTTTGATTTTATTGAATTTTTCTGTTTGAAAAAAACC
1 AAAGAAAAATTGTTAGATTTG-AT-ATG-TTGA-CTTATTGAA-TTTTCTGTTTGAAAAAAACC
*
147706 AAAGAAAAATTGTTAGATTTGATATGTTGACTTGTTGAATTTTCTGTTTGAA
1 AAAGAAAAATTGTTAGATTTGATATGTTGACTTATTGAATTTTCTGTTTGAA
147758 TTTATGCTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
59 13 0.26
60 7 0.14
61 4 0.08
62 3 0.06
63 2 0.04
64 21 0.42
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.44
Consensus pattern (59 bp):
AAAGAAAAATTGTTAGATTTGATATGTTGACTTATTGAATTTTCTGTTTGAAAAAAACC
Found at i:147908 original size:2 final size:2
Alignment explanation
Indices: 147901--147954 Score: 92
Period size: 2 Copynumber: 27.5 Consensus size: 2
147891 AATTATATCG
147901 TA TA TA TA T- 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
*
147942 TA TA TA TC TA TA T
1 TA TA TA TA TA TA T
147955 TATTAATGAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:148257 original size:15 final size:15
Alignment explanation
Indices: 148213--148251 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
148203 TTGCGGGCTT
*
148213 TTTAAA-CCGCTCCG
1 TTTAAACCCGCTACG
*
148227 TTTAAGCCCGCTACG
1 TTTAAACCCGCTACG
148242 TTTAAACCCG
1 TTTAAACCCG
148252 TAACGTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.23, C:0.33, G:0.15, T:0.28
Consensus pattern (15 bp):
TTTAAACCCGCTACG
Found at i:148540 original size:2 final size:2
Alignment explanation
Indices: 148533--148579 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
148523 TTACTATTTG
* *
148533 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T TT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
148574 AT AT AT
1 AT AT AT
148580 TTTTTAAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:149140 original size:2 final size:2
Alignment explanation
Indices: 149133--149174 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
149123 GATTTTATTC
149133 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
149175 TCCTAGTTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:156679 original size:257 final size:246
Alignment explanation
Indices: 156228--156801 Score: 784
Period size: 257 Copynumber: 2.3 Consensus size: 246
156218 CTTATTCGTA
*
156228 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGATC-GG--GTTTCTAATTCATATATTCG
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTCGTTTCTAATTCATATATTC-
*
156290 GGTTGGGTCGGGTGAAACTTTATTTTGGTCGGGTCGGTTTTTTTAAGTGTAATATTCGGGTCAGG
65 -G--GGGTCGGGTGAAACTTTATTTTGGTCGGATCGGTTTTTTTAAGTGTAATATTCGGGTCAGG
*
156355 TTAAGTTCGGGTTTAGGGTGAAAAATACTCGACCCGAAAATATATATAATTTTACCTTATATATT
127 ---AGTTCGGGTTTAGGGTGAAAAATACTCGACCCGAAAAAATATATAATTTTACCTTATATATT
* *
156420 TAGGAATAATTACAATAATACCCCTCTCTATATATATTTTTTCAATTAAGTCACTGTTTT
189 TAGGAATAATTACAATAATA-CCCTCTATATATA-ATTTTTTCAATTAAGTCAATGTTTT
156480 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTCAGATTTCTAATTCATATATT
1 TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTC-G-TTTCTAATTCATATATT
*
156545 C-GGGTCGGGTGAAACTTTATTTTGTTCTGGTCGGATCGGGTTTTTTTAAGTGTGATATTCGGGT
64 CGGGGTCGGGTGAAACTTTA---T-TT-TGGTCGGATC-GGTTTTTTTAAGTGTAATATTCGGGT
156609 C-GG-GTTCGGGTTTAGGGTGAAAAA-ACCGGATCGACCCGAAAAAAATATATAATTTTACCTTA
123 CAGGAGTTCGGGTTTAGGGTGAAAAATA-C---TCGACCCG-AAAAAATATATAATTTTACCTTA
156671 TATATTTAGGAATAATTACAATAATACCCTCTATATATAATTTTTTCAATTAAGTCAATGTTTT
183 TATATTTAGGAATAATTACAATAATACCCTCTATATATAATTTTTTCAATTAAGTCAATGTTTT
* * *
156735 TATTGAATAAAAATAATTTTTTTTATTATTTTGTGTCGTGTCGGGTCGGGTTTCTAATTCATATA
1 TATTGAATAAAAAT-A-TTTTTTTATTATTTCGGGTCGGGTCGGGTC--GTTTCTAATTCATATA
156800 TT
62 TT
156802 GAATAAAAAT
Statistics
Matches: 293, Mismatches: 10, Indels: 33
0.87 0.03 0.10
Matches are distributed among these distances:
252 58 0.20
253 24 0.08
255 39 0.13
256 24 0.08
257 121 0.41
258 27 0.09
ACGTcount: A:0.28, C:0.11, G:0.19, T:0.42
Consensus pattern (246 bp):
TATTGAATAAAAATATTTTTTTATTATTTCGGGTCGGGTCGGGTCGTTTCTAATTCATATATTCG
GGGTCGGGTGAAACTTTATTTTGGTCGGATCGGTTTTTTTAAGTGTAATATTCGGGTCAGGAGTT
CGGGTTTAGGGTGAAAAATACTCGACCCGAAAAAATATATAATTTTACCTTATATATTTAGGAAT
AATTACAATAATACCCTCTATATATAATTTTTTCAATTAAGTCAATGTTTT
Found at i:157556 original size:2 final size:2
Alignment explanation
Indices: 157549--157605 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
157539 GGCAGGTGCT
157549 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
157591 TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC T
157606 GTGTGTGTGT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:164707 original size:27 final size:27
Alignment explanation
Indices: 164669--164723 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
164659 AAAATTCCAC
*
164669 TTTCTTGAACTCTAATATACCCCAAGT
1 TTTCTTGAACTCTAATACACCCCAAGT
164696 TTTCTTGAACTCTAATACACCCCAAGT
1 TTTCTTGAACTCTAATACACCCCAAGT
164723 T
1 T
164724 GATGGTGGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.36
Consensus pattern (27 bp):
TTTCTTGAACTCTAATACACCCCAAGT
Found at i:166456 original size:243 final size:241
Alignment explanation
Indices: 165965--166469 Score: 568
Period size: 243 Copynumber: 2.1 Consensus size: 241
165955 TTATCACATG
* * *
165965 AAAGATTGTCACTTGGGAT--AAAAGATTTGAAACATTGCTAGCAGGAACTAAGGTTGTACCTGC
1 AAAGATTGTCACTTGGGATAAAAAAAATTTAAAACATCGCTAGCAGGAACTAAGGTTGTACCTGC
* * * * *
166028 ATTCTTCCAACTCCATGAGAGTGTACTCCCTGATCATATTTATTGAAGCAACTCTCCTATTTAAA
66 ATTATTCCAACTCCATGAGAGTGTACCCCCTGATCATATATATTGAAGCAACTCTCCGATGTAAA
* * *
166093 GAATCCTCTAAGAAAAAAAATAAAAAACGATTTAAAACAATAATATATGCAATTAAAATAAAATC
131 GAATCCTATAAGAAAAAAAACAAAAAACGATTTAAAACAATAATATATACAATTAAAATAAAATC
* * *
166158 CACTGAGAGGAGTGAACAGCAGTTCCCAACTATCCAAAATACTGAT
196 CACTGAGAGGAGTGAACAACAATTCCCAACTATCCAAAATACTAAT
* * *
166204 AAGGATTGTCACTTGGGATAAAAAAAATATTAAAAAACATCGCTAGCCGGAACTAAGGTTGTGCC
1 AAAGATTGTCACTTGGGATAAAAAAAAT-TT--AAAACATCGCTAGCAGGAACTAAGGTTGTACC
** * * * * *
166269 TGCATTATTCCAACTTGATGAGAGTGTTCCCCCTGTTCATATATGTTGTAGGAACTCTCCGATGT
63 TGCATTATTCCAACTCCATGAGAGTGTACCCCCTGATCATATATATTGAAGCAACTCTCCGATGT
* * * * ** * * *
166334 AAAGTATCCTATGAG-ATAGAGGCAAACAATGATTTAAAAC-ATAACTATATACAATTTAAATAA
128 AAAGAATCCTATAAGAAAAAAAACAAAAAACGATTTAAAACAATAA-TATATACAATTAAAATAA
** * *** **
166397 AATGTACTGAGAGGAGTGAGCAACAATTCCTTGCTATCCAACGTACTAAT
192 AATCCACTGAGAGGAGTGAACAACAATTCCCAACTATCCAAAATACTAAT
*
166447 AAAGATTGTCACATGGGATAAAA
1 AAAGATTGTCACTTGGGATAAAA
166470 GTTTTAAAAC
Statistics
Matches: 217, Mismatches: 43, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
239 18 0.08
241 6 0.03
242 6 0.03
243 94 0.43
244 93 0.43
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (241 bp):
AAAGATTGTCACTTGGGATAAAAAAAATTTAAAACATCGCTAGCAGGAACTAAGGTTGTACCTGC
ATTATTCCAACTCCATGAGAGTGTACCCCCTGATCATATATATTGAAGCAACTCTCCGATGTAAA
GAATCCTATAAGAAAAAAAACAAAAAACGATTTAAAACAATAATATATACAATTAAAATAAAATC
CACTGAGAGGAGTGAACAACAATTCCCAACTATCCAAAATACTAAT
Found at i:168895 original size:32 final size:33
Alignment explanation
Indices: 168861--168991 Score: 162
Period size: 32 Copynumber: 4.1 Consensus size: 33
168851 CCAATGAGAA
* * *
168861 AAAAATAAAGAATG-ATTTATAGGAGTGAGCAAA
1 AAAAATAAA-AATGTATTGAGAGGAGTGAGCAAC
168894 AAAAAT-AAAATGTATTGAGAGGAGTGAGCAAC
1 AAAAATAAAAATGTATTGAGAGGAGTGAGCAAC
*
168926 AAAAAT-AAAATGTATTGAGAGGAGTGAACAAC
1 AAAAATAAAAATGTATTGAGAGGAGTGAGCAAC
* * *
168958 AAAAAT-AAAACGGACTGAGAGGAGTGAGCAAC
1 AAAAATAAAAATGTATTGAGAGGAGTGAGCAAC
168990 AA
1 AA
168992 TTCCCTTCTA
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
31 4 0.04
32 79 0.89
33 6 0.07
ACGTcount: A:0.53, C:0.07, G:0.24, T:0.17
Consensus pattern (33 bp):
AAAAATAAAAATGTATTGAGAGGAGTGAGCAAC
Found at i:173766 original size:237 final size:236
Alignment explanation
Indices: 173191--173881 Score: 985
Period size: 238 Copynumber: 2.9 Consensus size: 236
173181 ATGAGAGTGA
* * * * * *
173191 AACTCTCATATTTAAAGAACCCTATGAGAAAAAAGTAAAGAATGATTTAAAACAAGAATATT-TA
1 AACTCTCCTATTTGAAGAACCCTATGAGAAAAAAATGAACAATGATTTAAAACAAGAAT-TTATG
* * * *
173255 CAATTTAAA-AAAATGTACTAAGAGGAGTGAGCAGCAATTCCATGCTATCCAAAGCACGGATAAA
65 CAATTTAAATAAAATTTACTAAGAGGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACGGATAAA
* * * * *
173319 GCTTGTTACTTGGGATAAAAGTTTTAAAACATCACCAGTAGGAACTAAGGTTGTGCATGTATTCT
130 GATTGTCACTTGGGATAAAA-TTTTAAAACATCGCTAGCAGGAACTAAGGTTGTGCATGTATTCT
* *
173384 TCCAACTCGATGAGAGTGTTCT--CGATCATAACTGTTGTAGC
194 TCCAACTCGATGAGAGTGTTCTCCCGATCATAACTGTTGCAAC
*
173425 AACTCTCCTATTTGAAGAACCCTATGAGAAAAAAAGTGAACAATGATTTAAAACAAGAATATATG
1 AACTCTCCTATTTGAAGAACCCTATGAGAAAAAAA-TGAACAATGATTTAAAACAAGAATTTATG
* * * *
173490 CAATTTAAATAAAATTTACTGAGAGGAATGAGCAGCAGTTCCCTGCTATTCAACGTACGGATAAA
65 CAATTTAAATAAAATTTACTAAGAGGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACGGATAAA
* *
173555 GATTGTCACTTGGGATAAAATTTTTAAACATCGCTAGCAGGAACTAAGGTTGTGCTTGTATTCTT
130 GATTGTCACTTGGGATAAAATTTTAAAACATCGCTAGCAGGAACTAAGGTTGTGCATGTATTCTT
* * *
173620 CCAACTCGATGAGAGTGTTCTCCCTGGTCATATCTGTTGCAAT
195 CCAACTCGATGAGAGTGTTCTCCC-GATCATAACTGTTGCAAC
*
173663 AACTCTCCTATTTGAAGAACCCTATGAGAAAAAAATGAATAATGATTTAAAACAAGAATTTATGC
1 AACTCTCCTATTTGAAGAACCCTATGAGAAAAAAATGAACAATGATTTAAAACAAGAATTTATGC
* *
173728 AATTTAAATAAAATTTACTAAGAGGAGTGAGCAGCAGTTCTCTGCTATCCAAAATACGGATAAAG
66 AATTTAAATAAAATTTACTAAGAGGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACGGATAAAG
* * **
173793 ATTGTCACTTGGGATAAAAAATTTAAAACATCGCTAGCAGGAACTAAGGTTGTGCCTACATTCTT
131 ATTGTCACTTGGGAT-AAAATTTTAAAACATCGCTAGCAGGAACTAAGGTTGTGCATGTATTCTT
* *
173858 CTAACTTGATGAGAGTGTTCTCCC
195 CCAACTCGATGAGAGTGTTCTCCC
173882 ATTTAAAGAA
Statistics
Matches: 408, Mismatches: 42, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
234 33 0.08
235 93 0.23
236 65 0.16
237 103 0.25
238 114 0.28
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (236 bp):
AACTCTCCTATTTGAAGAACCCTATGAGAAAAAAATGAACAATGATTTAAAACAAGAATTTATGC
AATTTAAATAAAATTTACTAAGAGGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACGGATAAAG
ATTGTCACTTGGGATAAAATTTTAAAACATCGCTAGCAGGAACTAAGGTTGTGCATGTATTCTTC
CAACTCGATGAGAGTGTTCTCCCGATCATAACTGTTGCAAC
Found at i:174305 original size:234 final size:235
Alignment explanation
Indices: 173882--174654 Score: 874
Period size: 234 Copynumber: 3.3 Consensus size: 235
173872 GTGTTCTCCC
** * * *
173882 ATTTAAAGAACCCTATGAGAAAAATTTTAATAATGATTTAAAACAAGCATATA-AACAATTTAAA
1 ATTTAAAGAACCCTATGA-AAAAAAGTAAATAATGATTTAAAACAAGAATATATGA-AATTTAAA
* * ** *
173946 TAAAA-AGTATTGAGAAGAGTAAGCAGCAGTTCCCTGTTATCCAAAGTACAAATAAAG-ATTTCA
64 TAAAATA-TA-TGAGAAGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACTGATAAAGAATGTCA
* *
174009 CTTAGG------GTTTAAAACATCGCTAGCAAGAACTAAGGTTGTGCATGTATTCTTCCAAATCG
127 CTTAGGATAAAAGTTTAAAACATCGCTAGCAAGAACTAAGGTTGTGCCTGTATTCTTCCAACTCG
* * *
174068 ATGAGAGTGTTCTCCCTGTTCATATCTACTGCAGCGACTATCCT
192 ATGAGAGTGTTCTCCCTGTTCATATCTGCTGCAGCGACTCTCAT
* *
174112 ATTTAAAGAATCCTATGAAAAAAAGTAAATAATGATTTAAACCAAGAATATATGAAATTTAAATA
1 ATTTAAAGAACCCTATGAAAAAAAGTAAATAATGATTTAAAACAAGAATATATGAAATTTAAATA
* * * * *
174177 AAATATACGAGATGAGTGAGCAGCAGTT-CCTACCATCCAAAGTACTGATAAAGAATGTCACTTC
66 AAATATATGAGAAGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACTGATAAAGAATGTCACTTA
**
174241 GGATAAAAGTTTTAAAACATTC-CTAGCGGGAACTAA-GTTGTGCCTGTATTCTTCCAACTCGAT
131 GGATAAAAG-TTTAAAACA-TCGCTAGCAAGAACTAAGGTTGTGCCTGTATTCTTCCAACTCGAT
* *
174304 GAGAGTGTTCTCCCTATTCATATCTGCTGCAGCGACTCTCTT
194 GAGAGTGTTCTCCCTGTTCATATCTGCTGCAGCGACTCTCAT
* * * *
174346 ATTTAAAGAAACCTATGGGAAAAAAA-TAAACAATGATTTAAAACAATAATATATGCAATTTAAA
1 ATTTAAAGAACCCTAT--GAAAAAAAGTAAATAATGATTTAAAACAAGAATATATGAAATTTAAA
* * * ** * *
174410 TAAATTGTAATGAGAGGAGTGATAAGCAGTTCCCTGCTATCCAAAGTACTGATAAAGATTGTCAG
64 TAAAATAT-ATGAGAAGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACTGATAAAGAATGTCAC
* * * *
174475 TTGGGATAAAAAATTTAAAACATCGCTAGCAAGAACTAAGGTTGTGTGTGGCAGTATTCTTCCAA
128 TTAGGAT-AAAAGTTTAAAACATCGCTAGCAAGAACTAA-G--GT-TGTGCCTGTATTCTTCCAA
* * * *
174540 CTCGAT--GAGTGTTCTCCCTGATCATATTTGTTGCAGCAACTCTCAT
188 CTCGATGAGAGTGTTCTCCCTGTTCATATCTGCTGCAGCGACTCTCAT
* * * *
174586 ATTTAATGAACCCTATGAGAAAAAGTAAAAAATGATTTAAAACAAGAATATATGCAATTTAAATA
1 ATTTAAAGAACCCTATGAAAAAAAGTAAATAATGATTTAAAACAAGAATATATGAAATTTAAATA
174651 AAAT
66 AAAT
174655 GTACTTAGAG
Statistics
Matches: 462, Mismatches: 58, Indels: 37
0.83 0.10 0.07
Matches are distributed among these distances:
227 20 0.04
228 28 0.06
229 44 0.10
230 19 0.04
234 79 0.17
235 61 0.13
236 30 0.06
237 56 0.12
238 11 0.02
239 41 0.09
240 48 0.10
241 2 0.00
242 23 0.05
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.29
Consensus pattern (235 bp):
ATTTAAAGAACCCTATGAAAAAAAGTAAATAATGATTTAAAACAAGAATATATGAAATTTAAATA
AAATATATGAGAAGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACTGATAAAGAATGTCACTTA
GGATAAAAGTTTAAAACATCGCTAGCAAGAACTAAGGTTGTGCCTGTATTCTTCCAACTCGATGA
GAGTGTTCTCCCTGTTCATATCTGCTGCAGCGACTCTCAT
Found at i:174383 original size:674 final size:676
Alignment explanation
Indices: 172853--174520 Score: 2084
Period size: 674 Copynumber: 2.5 Consensus size: 676
172843 AATATATGTT
* * ** *
172853 ATCCAAAGTACTGACAAAGATTGCCACTTGGGATAAAAGCCTTAAAACATCGCTAGCAGGAACGA
1 ATCCAAAGTACTGATAAAGATTGTCACTTGGGATAAAAGTTTTAAAACATCGCTAGCAGGAACTA
* * * * * * * * *
172918 GGGTTGTGTCTGCATTCTACCAACTCGATGAGATTGTTCTCCTTGTTTATATTTGTTGC-GGGAA
66 -AGTTGTGCCTGTATTCTTCCAACTCGATGAGAGTGTTCTCCCTGTTCATATCTGTTGCAGCG-A
* * * * *
172982 CGCTCCTATGTAAAGAACCCTGTGAGAAAAAAGTAAACAATAATTTAAAACAAAAATATATGCAA
129 CTCTCCTATTTAAAGAACCCTATGAGAAAAAAATAAACAATGATTTAAAACAAAAATATATGCAA
* * * * *
173047 TTTAAATAAAATGTA-ATGAGTAGTGAGCAGCAGTTCCCCGCTATTCAAAGTACCGATAAAGATT
194 TTTAAATAAAATTTATAAGAGGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACCGATAAAGATT
* * * *
173111 GTCACTTGGGAT-AAAAGTCCTAAAACATCTCTAGCAGGAACTAAGGTTGTGCCTTCATTCTTCC
259 GTCACTTGGGATAAAAAAT-TTAAAACATCGCTAGCAGGAACTAAGGTTGTGCCTACATTCTTCC
*
173175 AACTCGATGAGAGTGAAACTCTCATATTTAAAGAACCCTATGAGAAAAAAGTAAAGAATGATTTA
323 AACTCGATGAGAGTG--ACTCTCACATTTAAAGAACCCTATGAGAAAAAAGTAAAGAATGATTTA
** * * *
173240 AAACAAGAATATTTACAATTTAAAAAAATGTACTAAGAGGAGTGAGCAGCAATTCCATGCTATCC
386 AAACAAGAATATAAACAATTTAAAAAAAAGTACTAAGAAGAGTAAGCAGCAATTCCATGCTATCC
** * * * * *
173305 AAAGCACGGATAAAGCTTGTTACTTGGGATAAAAGTTTTAAAACATCACCAGTAGGAACTAAGGT
451 AAAGCACAAATAAAGATTGTCACTTAGG-----AGTTTTAAAACATCACCAGCAAGAACTAAGGT
* ** * *
173370 TGTGCATGTATTCTTCCAACTCGATGAGAGTGTTCTCGATCATAACTGTTGTAGCAACTCTCCTA
511 TGTGCATGTATTCTTCCAAATCGATGAGAGTGTTCTCGATCATAACTACTGCAGCAACTATCCTA
* * *
173435 TTTGAAGAACCCTATGAGAAAAAAAGTGAACAATGATTTAAAACAAGAATATATGCAATTTAAAT
576 TTTAAAGAACCCTAT-AGAAAAAAAGTAAACAATGATTTAAAACAAGAATATATGAAATTTAAAT
* * *
173500 AAAATTTACTGAGAGGAATGAGCAGCAGTTCCCTGCT
640 AAAATATACTGAGAGGAATGAGCAGCAGTTCCCTACC
* * * *
173537 ATTCAACGTACGGATAAAGATTGTCACTTGGGATAAAA-TTTTTAAACATCGCTAGCAGGAACTA
1 ATCCAAAGTACTGATAAAGATTGTCACTTGGGATAAAAGTTTTAAAACATCGCTAGCAGGAACTA
* * ***
173601 AGGTTGTGCTTGTATTCTTCCAACTCGATGAGAGTGTTCTCCCTGGTCATATCTGTTGCAATAAC
66 A-GTTGTGCCTGTATTCTTCCAACTCGATGAGAGTGTTCTCCCTGTTCATATCTGTTGCAGCGAC
* * * * *
173666 TCTCCTATTTGAAGAACCCTATGAGAAAAAAATGAATAATGATTTAAAACAAGAATTTATGCAAT
130 TCTCCTATTTAAAGAACCCTATGAGAAAAAAATAAACAATGATTTAAAACAAAAATATATGCAAT
* * *
173731 TTAAATAAAATTTACTAAGAGGAGTGAGCAGCAGTTCTCTGCTATCCAAAATACGGATAAAGATT
195 TTAAATAAAATTTA-TAAGAGGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACCGATAAAGATT
*
173796 GTCACTTGGGATAAAAAATTTAAAACATCGCTAGCAGGAACTAAGGTTGTGCCTACATTCTTCTA
259 GTCACTTGGGATAAAAAATTTAAAACATCGCTAGCAGGAACTAAGGTTGTGCCTACATTCTTCCA
* * * ** * *
173861 ACTTGATGAGAGTG-TTCTCCCATTTAAAGAACCCTATGAGAAAAATTTTAATAATGATTTAAAA
324 ACTCGATGAGAGTGACTCTCACATTTAAAGAACCCTATGAGAAAAAAGTAAAGAATGATTTAAAA
* * * * * *
173925 CAAGCATATAAACAATTTAAATAAAAAGTATTGAGAAGAGTAAGCAGCAGTTCCCTGTTATCCAA
389 CAAGAATATAAACAATTTAAA-AAAAAGTACTAAGAAGAGTAAGCAGCAATTCCATGCTATCCAA
* * *
173990 AGTACAAATAAAGATT-TCACTTAGG-G-TTTAAAACATCGCTAGCAAGAACTAAGGTTGTGCAT
453 AGCACAAATAAAGATTGTCACTTAGGAGTTTTAAAACATCACCAGCAAGAACTAAGGTTGTGCAT
* * *
174052 GTATTCTTCCAAATCGATGAGAGTGTTCTCCCTGTTCATATCTACTGCAGCGACTATCCTATTTA
518 GTATTCTTCCAAATCGATGAGAGTGTTCT--C-GATCATAACTACTGCAGCAACTATCCTATTTA
* * *
174117 AAGAATCCTAT-GAAAAAAAGTAAATAATGATTTAAACCAAGAATATATGAAATTTAAATAAAAT
580 AAGAACCCTATAGAAAAAAAGTAAACAATGATTTAAAACAAGAATATATGAAATTTAAATAAAAT
* *
174181 ATAC-GAGATGAGTGAGCAGCAGTT-CCTACC
645 ATACTGAGAGGAATGAGCAGCAGTTCCCTACC
* * *
174211 ATCCAAAGTACTGATAAAGAATGTCACTTCGGATAAAAGTTTTAAAACATTC-CTAGCGGGAACT
1 ATCCAAAGTACTGATAAAGATTGTCACTTGGGATAAAAGTTTTAAAACA-TCGCTAGCAGGAACT
* *
174275 AAGTTGTGCCTGTATTCTTCCAACTCGATGAGAGTGTTCTCCCTATTCATATCTGCTGCAGCGAC
65 AAGTTGTGCCTGTATTCTTCCAACTCGATGAGAGTGTTCTCCCTGTTCATATCTGTTGCAGCGAC
* * * *
174340 TCTCTTATTTAAAGAAACCTATGGGAAAAAAATAAACAATGATTTAAAACAATAATATATGCAAT
130 TCTCCTATTTAAAGAACCCTATGAGAAAAAAATAAACAATGATTTAAAACAAAAATATATGCAAT
* ** *
174405 TTAAAT-AAATTGTAATGAGAGGAGTGATAAGCAGTTCCCTGCTATCCAAAGTACTGATAAAGAT
195 TTAAATAAAATT-T-ATAAGAGGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACCGATAAAGAT
* *
174469 TGTCAGTTGGGATAAAAAATTTAAAACATCGCTAGCAAGAACTAAGGTTGTG
258 TGTCACTTGGGATAAAAAATTTAAAACATCGCTAGCAGGAACTAAGGTTGTG
174521 TGTGGCAGTA
Statistics
Matches: 848, Mismatches: 123, Indels: 36
0.84 0.12 0.04
Matches are distributed among these distances:
673 5 0.01
674 250 0.29
675 101 0.12
676 55 0.06
677 1 0.00
678 34 0.04
682 68 0.08
683 187 0.22
684 33 0.04
685 109 0.13
686 5 0.01
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (676 bp):
ATCCAAAGTACTGATAAAGATTGTCACTTGGGATAAAAGTTTTAAAACATCGCTAGCAGGAACTA
AGTTGTGCCTGTATTCTTCCAACTCGATGAGAGTGTTCTCCCTGTTCATATCTGTTGCAGCGACT
CTCCTATTTAAAGAACCCTATGAGAAAAAAATAAACAATGATTTAAAACAAAAATATATGCAATT
TAAATAAAATTTATAAGAGGAGTGAGCAGCAGTTCCCTGCTATCCAAAGTACCGATAAAGATTGT
CACTTGGGATAAAAAATTTAAAACATCGCTAGCAGGAACTAAGGTTGTGCCTACATTCTTCCAAC
TCGATGAGAGTGACTCTCACATTTAAAGAACCCTATGAGAAAAAAGTAAAGAATGATTTAAAACA
AGAATATAAACAATTTAAAAAAAAGTACTAAGAAGAGTAAGCAGCAATTCCATGCTATCCAAAGC
ACAAATAAAGATTGTCACTTAGGAGTTTTAAAACATCACCAGCAAGAACTAAGGTTGTGCATGTA
TTCTTCCAAATCGATGAGAGTGTTCTCGATCATAACTACTGCAGCAACTATCCTATTTAAAGAAC
CCTATAGAAAAAAAGTAAACAATGATTTAAAACAAGAATATATGAAATTTAAATAAAATATACTG
AGAGGAATGAGCAGCAGTTCCCTACC
Found at i:174735 original size:86 final size:86
Alignment explanation
Indices: 174585--174750 Score: 305
Period size: 86 Copynumber: 1.9 Consensus size: 86
174575 GCAACTCTCA
*
174585 TATTTAATGAACCCTATGAGAAAAAGTAAAAAATGATTTAAAACAAGAATATATGCAATTTAAAT
1 TATTCAATGAACCCTATGAGAAAAAGTAAAAAATGATTTAAAACAAGAATATATGCAATTTAAAT
*
174650 AAAATGTACTTAGAGTCATCC
66 AAAATGTACTGAGAGTCATCC
*
174671 TATTCAATGAACCCTATGAGAAAAAGTAAAAAATGATTTAAAACAAGAATATATGTAATTTAAAT
1 TATTCAATGAACCCTATGAGAAAAAGTAAAAAATGATTTAAAACAAGAATATATGCAATTTAAAT
174736 AAAATGTACTGAGAG
66 AAAATGTACTGAGAG
174751 GAGTCAGCCG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
86 77 1.00
ACGTcount: A:0.50, C:0.09, G:0.13, T:0.28
Consensus pattern (86 bp):
TATTCAATGAACCCTATGAGAAAAAGTAAAAAATGATTTAAAACAAGAATATATGCAATTTAAAT
AAAATGTACTGAGAGTCATCC
Found at i:180471 original size:46 final size:46
Alignment explanation
Indices: 180404--180494 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
180394 TACGACAAAT
*
180404 TATTTACTTAATCAGACATTGTTGACAAAAGTTTCTATCTTATGAG
1 TATTTACTTAATCAGACATTGTTGACAAAAGTTTATATCTTATGAG
** *
180450 TATTTACTTAATCAGACATTGTTGATGAAATTTTATATCTTATGA
1 TATTTACTTAATCAGACATTGTTGACAAAAGTTTATATCTTATGA
180495 AAGAACATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (46 bp):
TATTTACTTAATCAGACATTGTTGACAAAAGTTTATATCTTATGAG
Found at i:181332 original size:284 final size:284
Alignment explanation
Indices: 180822--181390 Score: 1102
Period size: 284 Copynumber: 2.0 Consensus size: 284
180812 ACTAGCATAA
180822 ACATCATACTTTAAAAATCATTTCTTTCATCTTACAAAGAAAAGGTTAGGATCTCAGAAAAACTG
1 ACATCATACTTTAAAAATCATTTCTTTCATCTTACAAAGAAAAGGTTAGGATCTCAGAAAAACTG
*
180887 TCATATGAGCAATGTTTTGCTTGGACTCGTCCGAATTATGACCATCCTGAAAGAAAGTATAACAG
66 TCATATGAGCAATGTTTTGCTTGGACTCGTACGAATTATGACCATCCTGAAAGAAAGTATAACAG
180952 TCAAAACCATCAAATATTGCTAAGATTGTTCCGACAAGGGTTACAGATTGACCACCTCGAGCCAC
131 TCAAAACCATCAAATATTGCTAAGATTGTTCCGACAAGGGTTACAGATTGACCACCTCGAGCCAC
*
181017 CTACAATACACTCAAATTAGGGTGAAAACTCATTAGTCTTGGGAAAGAATTTTCAAAAAAAATAC
196 CTACAATACACTCAAATTAGGGTGAAAACTCATTACTCTTGGGAAAGAATTTTCAAAAAAAATAC
181082 TACCTTAAAGGGGCAGAAAACTAT
261 TACCTTAAAGGGGCAGAAAACTAT
181106 ACATCATACTTTAAAAATCATTTCTTTCATCTTACAAAGAAAAGGTTAGGATCTCAGAAAAACTG
1 ACATCATACTTTAAAAATCATTTCTTTCATCTTACAAAGAAAAGGTTAGGATCTCAGAAAAACTG
*
181171 TCATATGAGCAATGTTTTGCTTGGATTCGTACGAATTATGACCATCCTGAAAGAAAGTATAACAG
66 TCATATGAGCAATGTTTTGCTTGGACTCGTACGAATTATGACCATCCTGAAAGAAAGTATAACAG
181236 TCAAAACCATCAAATATTGCTAAGATTGTTCCGACAAGGGTTACAGATTGACCACCTCGAGCCAC
131 TCAAAACCATCAAATATTGCTAAGATTGTTCCGACAAGGGTTACAGATTGACCACCTCGAGCCAC
*
181301 CTACAATACACTCAAATTAGGGTGAAAACTCATTACTCTTGGGAAAGAATTTTCAGAAAAAATAC
196 CTACAATACACTCAAATTAGGGTGAAAACTCATTACTCTTGGGAAAGAATTTTCAAAAAAAATAC
181366 TACCTTAAAGGGGCAGAAAACTAT
261 TACCTTAAAGGGGCAGAAAACTAT
181390 A
1 A
181391 TAAACATACA
Statistics
Matches: 281, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
284 281 1.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (284 bp):
ACATCATACTTTAAAAATCATTTCTTTCATCTTACAAAGAAAAGGTTAGGATCTCAGAAAAACTG
TCATATGAGCAATGTTTTGCTTGGACTCGTACGAATTATGACCATCCTGAAAGAAAGTATAACAG
TCAAAACCATCAAATATTGCTAAGATTGTTCCGACAAGGGTTACAGATTGACCACCTCGAGCCAC
CTACAATACACTCAAATTAGGGTGAAAACTCATTACTCTTGGGAAAGAATTTTCAAAAAAAATAC
TACCTTAAAGGGGCAGAAAACTAT
Found at i:192117 original size:20 final size:20
Alignment explanation
Indices: 192092--192130 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
192082 TTTTAATTAT
192092 ATATTAATAA-AATAATAAAA
1 ATATTAATAATAA-AATAAAA
*
192112 ATATTATTAATAAAATAAA
1 ATATTAATAATAAAATAAA
192131 TTAGAGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATATTAATAATAAAATAAAA
Found at i:193153 original size:27 final size:25
Alignment explanation
Indices: 193106--193158 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 25
193096 ATTTTATATA
*
193106 TATTAACTTATTAAATATATTTTAT
1 TATTAACTTATTAAAAATATTTTAT
193131 TATTAACTTAATTTAAAAATATTTTAT
1 TATTAACTT-A-TTAAAAATATTTTAT
193158 T
1 T
193159 TTTATTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.36
26 1 0.04
27 15 0.60
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (25 bp):
TATTAACTTATTAAAAATATTTTAT
Found at i:193174 original size:27 final size:26
Alignment explanation
Indices: 193106--193179 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
193096 ATTTTATATA
*
193106 TATTAAC-TTATTAAATATATTTTAT
1 TATTAACTTTATTAAAAATATTTTAT
*
193131 TATTAACTTAATTTAAAAATATTTTAT
1 TATTAACTTTA-TTAAAAATATTTTAT
* **
193158 TTTTATTTTTATGTAAAAATAT
1 TATTAACTTTAT-TAAAAATAT
193180 ATATTTTATG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 7 0.17
26 3 0.08
27 30 0.75
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (26 bp):
TATTAACTTTATTAAAAATATTTTAT
Found at i:202932 original size:14 final size:14
Alignment explanation
Indices: 202908--202942 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
202898 AATATGAATA
*
202908 GTCTCTAGGGAACC
1 GTCTTTAGGGAACC
*
202922 TTCTTTAGGGAACC
1 GTCTTTAGGGAACC
202936 GTCTTTA
1 GTCTTTA
202943 TTCAATAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (14 bp):
GTCTTTAGGGAACC
Done.