Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001855.1 Hibiscus syriacus cultivar Beakdansim tig00003755_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: 162707
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:714 original size:21 final size:22
Alignment explanation
Indices: 675--715 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
665 CCCTCCCACC
* *
675 ATTTATTTTCCTTTTAATTATT
1 ATTTATTTTACTTTAAATTATT
697 ATTTA-TTTACTTTAAATTA
1 ATTTATTTTACTTTAAATTA
716 AAAACTGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTTATTTTACTTTAAATTATT
Found at i:1505 original size:30 final size:29
Alignment explanation
Indices: 1467--1535 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
1457 AGTAATAAAT
1467 TGATATTAATTTTATCGATTTCTAACAAA
1 TGATATTAATTTTATCGATTTCTAACAAA
* *
1496 TGATCATTAA-CTTATCGATTTGTAACAAA
1 TGAT-ATTAATTTTATCGATTTCTAACAAA
1525 --ATATTAATTTT
1 TGATATTAATTTT
1536 TTTGTTAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 5 0.14
27 4 0.11
29 21 0.60
30 5 0.14
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (29 bp):
TGATATTAATTTTATCGATTTCTAACAAA
Found at i:2583 original size:18 final size:19
Alignment explanation
Indices: 2552--2590 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
2542 TATATTTTTT
*
2552 ATAAAATATATATTTAAAA
1 ATAAAATATATATTGAAAA
*
2571 ATAAAAT-TTTATTGAAAA
1 ATAAAATATATATTGAAAA
2589 AT
1 AT
2591 TAATCATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
ATAAAATATATATTGAAAA
Found at i:6026 original size:16 final size:17
Alignment explanation
Indices: 6005--6037 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
5995 TGTTTGATAG
6005 TTGGAAAAC-ATTTTTT
1 TTGGAAAACAATTTTTT
6021 TTGGAAAACAATTTTTT
1 TTGGAAAACAATTTTTT
6038 GATTATTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (17 bp):
TTGGAAAACAATTTTTT
Found at i:6310 original size:22 final size:22
Alignment explanation
Indices: 6264--6310 Score: 53
Period size: 22 Copynumber: 2.1 Consensus size: 22
6254 TTTAATAAAT
*
6264 ATATTAATTATTAAAAAATTTA
1 ATATTAATTATTAAAAAATTGA
6286 ATATT-ATTA-TAATAAAATCTGA
1 ATATTAATTATTAA-AAAAT-TGA
6308 ATA
1 ATA
6311 ATATATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 3 0.14
21 9 0.41
22 10 0.45
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
ATATTAATTATTAAAAAATTGA
Found at i:10507 original size:21 final size:21
Alignment explanation
Indices: 10483--10540 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
10473 AAGAAACAGA
10483 TGTGGTGTCATCTGAAATGGT
1 TGTGGTGTCATCTGAAATGGT
* *
10504 TGTGATGTCATATGAAATGGT
1 TGTGGTGTCATCTGAAATGGT
* *
10525 TCTGGTGCCATCTGAA
1 TGTGGTGTCATCTGAA
10541 CTGGCGATGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.36
Consensus pattern (21 bp):
TGTGGTGTCATCTGAAATGGT
Found at i:13213 original size:3 final size:3
Alignment explanation
Indices: 13205--13231 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13195 CTAAATGGAT
13205 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
13232 TATATTAAAA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14939 original size:128 final size:128
Alignment explanation
Indices: 14562--15180 Score: 1096
Period size: 128 Copynumber: 4.8 Consensus size: 128
14552 TTCGTTTCCT
* *
14562 ATGAAGGCGCATTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCAT
1 ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
*
14627 ATTATGTCACTCATGTCCCTCAGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
66 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
*
14690 ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCA-AGAATATGTTATTATTGCCCT
1 ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
14754 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
66 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
* * *
14817 ATGAAGGCGCGTTTCCGGGGGTGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
1 ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
14882 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
66 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
* *
14945 ATGAAGGCGCGTTCCCGGGCGCGCGTCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
1 ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
* *
15010 ATTATGTCACTTATTTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
66 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
** * *
15073 ATGAAGGCGCGTTCCCAAGGGTGCGCCTTCCATTATTTTGTCAGATAATATGTTATCATTGCCCT
1 ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
15138 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
66 ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTA
15181 AATCAGGTAA
Statistics
Matches: 469, Mismatches: 21, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
127 121 0.26
128 348 0.74
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (128 bp):
ATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCT
ATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCACTATTCAC
Found at i:15410 original size:34 final size:34
Alignment explanation
Indices: 15363--15463 Score: 123
Period size: 34 Copynumber: 3.0 Consensus size: 34
15353 CATCGAGATG
* *
15363 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
* * * *
15397 TTAAATTTTGAATAATATTATTTTTATTTTTATT
1 TTAAATTTTGAATAATATAATTTATATTTTAAAT
*
15431 TTAAATTTCT-AATAATATAATTTGTATTTTAAA
1 TTAAATTT-TGAATAATATAATTTATATTTTAAA
15464 AACATTTATC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 55 0.98
35 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (34 bp):
TTAAATTTTGAATAATATAATTTATATTTTAAAT
Found at i:16011 original size:21 final size:20
Alignment explanation
Indices: 15984--16053 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 20
15974 GGTATAAAAC
*
15984 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
16004 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
16025 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
16046 CCCTGCGG
1 -CCTGCGG
16054 AGATGGCATA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
20 3 0.07
21 40 0.87
22 3 0.07
ACGTcount: A:0.19, C:0.27, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:16083 original size:21 final size:21
Alignment explanation
Indices: 16057--16104 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
16047 CCTGCGGAGA
* *
16057 TGGCATATAAATTGGTGGGCT
1 TGGCATATAAAGTGGAGGGCT
*
16078 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAAGTGGAGGGCT
*
16099 GGGCAT
1 TGGCAT
16105 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.10, G:0.40, T:0.27
Consensus pattern (21 bp):
TGGCATATAAAGTGGAGGGCT
Found at i:17864 original size:34 final size:31
Alignment explanation
Indices: 17821--17909 Score: 88
Period size: 34 Copynumber: 2.7 Consensus size: 31
17811 TTAATAATTC
*
17821 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
17855 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* * *
17886 TATAAAATATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
17910 AAAATACTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
31 6 0.13
32 16 0.35
33 2 0.04
34 22 0.48
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.39
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:17886 original size:31 final size:33
Alignment explanation
Indices: 17821--17900 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
17811 TTAATAATTC
* *
17821 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTACATAAATATTA-TTTAA
*
17855 TAAAAAAATAATATTTACATAAATA-TA-TTAA
1 TAAAAAAATAATAATTACATAAATATTATTTAA
*
17886 TATAAAATATAATAA
1 TA-AAAAAATAATAA
17901 CTATTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
31 6 0.15
32 10 0.25
33 2 0.05
34 22 0.55
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
TAAAAAAATAATAATTACATAAATATTATTTAA
Found at i:20510 original size:57 final size:57
Alignment explanation
Indices: 20441--20570 Score: 163
Period size: 57 Copynumber: 2.3 Consensus size: 57
20431 GAAATCCTTG
* * *
20441 TGCAGGCTGAGATGAAAATGAAGGTTGCATCCTTCTTACA-ACTTGAGATGAAGCTGC
1 TGCAGGTTGAGATGAAAATGAAGGGTGCATCCTTCTTACAGAC-TGAGATGAAGATGC
* * * *
20498 TGCAGGTTGAGATGAAGATGGAGGGTGCATCTTTCTTACAGACTGAGATGAAGATGT
1 TGCAGGTTGAGATGAAAATGAAGGGTGCATCCTTCTTACAGACTGAGATGAAGATGC
* *
20555 TACATGTTGAGATGAA
1 TGCAGGTTGAGATGAA
20571 GGTGATGCGG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 61 0.97
58 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (57 bp):
TGCAGGTTGAGATGAAAATGAAGGGTGCATCCTTCTTACAGACTGAGATGAAGATGC
Found at i:23744 original size:20 final size:20
Alignment explanation
Indices: 23700--24000 Score: 205
Period size: 20 Copynumber: 14.9 Consensus size: 20
23690 AATGACCAAC
23700 AAAATCGCAACGCGATATC--
1 AAAATCGCAACGCGAT-TCAG
*
23719 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTCAG
* **
23739 AAAATCGCAACGTTGA-AAAG
1 AAAATCGCAACG-CGATTCAG
23759 AAAATCGCAACG-G--TCAAAAG
1 AAAATCGCAACGCGATTC---AG
23779 AAAATCGCAACGCGATCTTCCA-
1 AAAATCGCAACGCGA--TT-CAG
* * **
23801 AGAATCGCAATGCGAGCCA-
1 AAAATCGCAACGCGATTCAG
*
23820 AAGAATCGCAATGCGATTCCA-
1 AA-AATCGCAACGCGATT-CAG
* *
23841 AGAATCGCAATGCGATCTTC-G
1 AAAATCGCAACGCGA--TTCAG
*
23862 AAGAATCGCAATGCGATTCA-
1 AA-AATCGCAACGCGATTCAG
* *
23882 AAGAATCGCAACGTGATTGAG
1 AA-AATCGCAACGCGATTCAG
23903 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
23923 ATAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
23943 AAAATCGCAACGCGATTCCA-
1 AAAATCGCAACGCGATT-CAG
* *
23963 AGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCAG
23983 AAAATCGCAACGCGATTC
1 AAAATCGCAACGCGATTC
24001 CAAGAATCGC
Statistics
Matches: 230, Mismatches: 28, Indels: 47
0.75 0.09 0.15
Matches are distributed among these distances:
18 2 0.01
19 21 0.09
20 164 0.71
21 12 0.05
22 28 0.12
23 1 0.00
25 1 0.00
26 1 0.00
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTCAG
Found at i:23830 original size:62 final size:62
Alignment explanation
Indices: 23761--23937 Score: 177
Period size: 62 Copynumber: 2.9 Consensus size: 62
23751 TTGAAAAGAA
23761 AATCGCAACGGTCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAG
1 AATCGCAACGGTCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAG
* * * * **
23823 AATCGCAATGCGATTC-CAAG--AATCGCAATGCGATCTTCGAAGAATCGCAATGCGATTCAAAG
1 AATCGCAA--CG-GTCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAG
* ** * *
23885 AATCGCAAC-GTGATTGAGAAAATCGCAACGCGA--TTCCAATAATCGCAACGCGA
1 AATCGCAACGGTCA-AAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGA
23938 TTGAGAAAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
58 1 0.01
60 20 0.21
62 66 0.70
64 5 0.05
65 2 0.02
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (62 bp):
AATCGCAACGGTCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCAAAG
Found at i:23851 original size:40 final size:40
Alignment explanation
Indices: 23700--24012 Score: 323
Period size: 40 Copynumber: 7.8 Consensus size: 40
23690 AATGACCAAC
*
23700 AAAATCGCAACGCGATAT-CAA-AATCGCAACGCGATTTAG
1 AAAATCGCAACGCGAT-TCCAAGAATCGCAACGCGATTGAG
* **** **
23739 AAAATCGCAACGTTGAAAAGAA-AATCGCAACG-G-TCAAAAG
1 AAAATCGCAACG-CGATTCCAAGAATCGCAACGCGAT--TGAG
* ***
23779 AAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGAGCCA-
1 AAAATCGCAACGCGA--TTCCAAGAATCGCAACGCGATTGAG
* * **
23820 AAGAATCGCAATGCGATTCCAAGAATCGCAATGCGATCTTCG
1 AA-AATCGCAACGCGATTCCAAGAATCGCAACGCGAT-TGAG
* * *
23862 AAGAATCGCAATGCGATTCAAAGAATCGCAACGTGATTGAG
1 AA-AATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAG
*
23903 AAAATCGCAACGCGATTCCAATAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAG
23943 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAG
1 AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAG
23983 AAAATCGCAACGCGATTCCAAGAATCGCAA
1 AAAATCGCAACGCGATTCCAAGAATCGCAA
24013 AACGGCAAAA
Statistics
Matches: 232, Mismatches: 30, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.00
39 15 0.06
40 151 0.65
41 8 0.03
42 56 0.24
43 1 0.00
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (40 bp):
AAAATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAG
Found at i:24008 original size:20 final size:20
Alignment explanation
Indices: 23781--24012 Score: 229
Period size: 20 Copynumber: 11.4 Consensus size: 20
23771 GTCAAAAGAA
23781 AATCGCAACGCGATCTTCCAAG
1 AATCGCAACGCGA--TTCCAAG
* *
23803 AATCGCAATGCGA-GCCAAAG
1 AATCGCAACGCGATTCC-AAG
*
23823 AATCGCAATGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
* *
23843 AATCGCAATGCGATCTTCGAAG
1 AATCGCAACGCGA--TTCCAAG
* *
23865 AATCGCAATGCGATTCAAAG
1 AATCGCAACGCGATTCCAAG
* * *
23885 AATCGCAACGTGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
*
23905 AATCGCAACGCGATTCCAAT
1 AATCGCAACGCGATTCCAAG
* *
23925 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
23945 AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
* *
23965 AATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AG
23985 AATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAG
24005 AATCGCAA
1 AATCGCAA
24013 AACGGCAAAA
Statistics
Matches: 180, Mismatches: 20, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
19 5 0.03
20 139 0.77
21 5 0.03
22 31 0.17
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (20 bp):
AATCGCAACGCGATTCCAAG
Found at i:24009 original size:60 final size:60
Alignment explanation
Indices: 23702--24012 Score: 228
Period size: 60 Copynumber: 5.1 Consensus size: 60
23692 TGACCAACAA
* ****
23702 AATCGCAACGCGATAT-CAA-AATCGCAACGCGATTTAGAAAATCGCAACGTTGAAAAGAA-
1 AATCGCAACGCGAT-TCCAAGAATCGCAACGCGATTTAGAAAATCGCAACG-CGATTCCAAG
* ** * *
23761 AATCGCAACG-G--TCAAAAGAAAATCGCAACGCGATCTTCCAAGAATCGCAATGCGA-GCCAAA
1 AATCGCAACGCGATTC-CAAG--AATCGCAACGCGAT-TTAGAA-AATCGCAACGCGATTCC-AA
23822 G
60 G
* * * * *
23823 AATCGCAATGCGATTCCAAGAATCGCAATGCGATCTTCGAAGAATCGCAATGCGATTCAAAG
1 AATCGCAACGCGATTCCAAGAATCGCAACGCGAT-TTAGAA-AATCGCAACGCGATTCCAAG
* * * * * * *
23885 AATCGCAACGTGATT-GAGAAAATCGCAACGCGATTCCA-ATAATCGCAACGCGATT-GAGAA
1 AATCGCAACGCGATTCCA-AGAATCGCAACGCGATT-TAGAAAATCGCAACGCGATTCCA-AG
*
23945 AATCGCAACGCGATTCCAAGAATCGCAACGCGATTGAGAAAATCGCAACGCGATTCCAAG
1 AATCGCAACGCGATTCCAAGAATCGCAACGCGATTTAGAAAATCGCAACGCGATTCCAAG
24005 AATCGCAA
1 AATCGCAA
24013 AACGGCAAAA
Statistics
Matches: 201, Mismatches: 32, Indels: 37
0.74 0.12 0.14
Matches are distributed among these distances:
55 1 0.00
57 2 0.01
58 1 0.00
59 12 0.06
60 84 0.42
61 13 0.06
62 81 0.40
63 2 0.01
64 3 0.01
65 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (60 bp):
AATCGCAACGCGATTCCAAGAATCGCAACGCGATTTAGAAAATCGCAACGCGATTCCAAG
Found at i:24134 original size:6 final size:6
Alignment explanation
Indices: 24123--24176 Score: 108
Period size: 6 Copynumber: 9.0 Consensus size: 6
24113 GACACGTATT
24123 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
24171 ACCACG
1 ACCACG
24177 GCGGCGGCGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:24922 original size:6 final size:6
Alignment explanation
Indices: 24913--24962 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
24903 CCGCCGTCTC
24913 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG
1 GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG GTCGTG
24961 GT
1 GT
24963 AATACGTGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.00, C:0.16, G:0.50, T:0.34
Consensus pattern (6 bp):
GTCGTG
Found at i:25098 original size:20 final size:20
Alignment explanation
Indices: 25073--25123 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
25063 TTTTGCCGTT
*
25073 TTGCGATTCTT-GGAATCGCG
1 TTGCGATT-TTCGCAATCGCG
*
25093 TTGCGATTTTCTCAATCGCG
1 TTGCGATTTTCGCAATCGCG
25113 TTGCGATTTTC
1 TTGCGATTTTC
25124 TTTTGACCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.14, C:0.22, G:0.24, T:0.41
Consensus pattern (20 bp):
TTGCGATTTTCGCAATCGCG
Found at i:25124 original size:20 final size:20
Alignment explanation
Indices: 25086--25124 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
25076 CGATTCTTGG
25086 AATCGCGTTGCGATTTTCTC
1 AATCGCGTTGCGATTTTCTC
25106 AATCGCGTTGCGATTTTCT
1 AATCGCGTTGCGATTTTCT
25125 TTTGACCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (20 bp):
AATCGCGTTGCGATTTTCTC
Found at i:25134 original size:20 final size:20
Alignment explanation
Indices: 25111--25164 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
25101 TTCTCAATCG
* *
25111 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTCAA
25131 CGTTGCGATTTTCTTTTCAA
1 CGTTGCGATTTTCTTTTCAA
*
25151 CATTGCGATTTTCT
1 CGTTGCGATTTTCT
25165 AAATCGCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTCAA
Found at i:25174 original size:20 final size:19
Alignment explanation
Indices: 25151--25201 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
25141 TTCTTTTCAA
25151 CATTGCGATTTTCTAAATCG
1 CATTGCGATTTT-TAAATCG
***
25171 CATTGCGATTTTTGTTTCG
1 CATTGCGATTTTTAAATCG
25190 CATTGCGATTTT
1 CATTGCGATTTT
25202 GTTGGTCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (19 bp):
CATTGCGATTTTTAAATCG
Found at i:25587 original size:21 final size:21
Alignment explanation
Indices: 25535--25581 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
25525 GTTTCCAGAT
25535 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
25556 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
25577 TCGCA
1 TCGCA
25582 TTGCGATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:25626 original size:21 final size:21
Alignment explanation
Indices: 25596--25959 Score: 240
Period size: 21 Copynumber: 17.6 Consensus size: 21
25586 GATTTACATA
*
25596 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
25617 TTCGCGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
** * *
25638 TTCGCGTTGCGATTTTTCAAA
1 TTCGCGTTGCGATAGTCCAAG
* * *
25659 TT--CGTTGTGGTTGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
** ** *
25678 TTCGCGTTGCGATTTTATAAA
1 TTCGCGTTGCGATAGTCCAAG
*
25699 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
25718 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* *
25741 TT--CGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
25762 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
25781 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
25804 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
25823 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
25846 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
25865 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
25888 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
**
25907 TTCGCGTTGCGATTTTCCGAA-
1 TTCGCGTTGCGATAGTCC-AAG
* *
25928 TT--AGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
25947 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
25960 TTATTCCAAT
Statistics
Matches: 270, Mismatches: 49, Indels: 48
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.01
19 74 0.27
21 159 0.59
22 2 0.01
23 33 0.12
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:25648 original size:42 final size:40
Alignment explanation
Indices: 25602--25976 Score: 280
Period size: 42 Copynumber: 9.1 Consensus size: 40
25592 CATATTCGCA
*
25602 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAGTT--CG
** * * * *
25644 TTGCGATTTTTCAAATT--CGTTGTGGT-TGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATAT-TCCAAGTT--CG
** ** * * *
25684 TTGCGATTTTATAAATT--CGTTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAGTT--CG
* * *
25724 TTGCGATTTATTCCAAATT--CGTTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCGCGTTGCGA--TATTCCAAGTTCG
* *
25766 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAGTTCG
*
25808 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAGTTCG
* *
25850 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAGTTCG
* *
25892 TTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCGAA-TTAG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATATTCC-AAGTTCG
* *
25932 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAATTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAGTTCG
25974 TTG
1 TTG
25977 TGATTTATTC
Statistics
Matches: 291, Mismatches: 30, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
40 100 0.34
41 4 0.01
42 179 0.62
44 8 0.03
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (40 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAGTTCG
Found at i:25676 original size:40 final size:40
Alignment explanation
Indices: 25621--25751 Score: 192
Period size: 40 Copynumber: 3.2 Consensus size: 40
25611 TCCAAGTTCG
25621 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTTCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTTCAAATT
* * *
25661 CGTTGTGGTTGTCCAAGTTCGCGTTGCGATTTTAT-AAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTT-TCAAATT
*
25701 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTT-TT-CAAATT
25743 CGTTGCGAT
1 CGTTGCGAT
25752 TTATTCCAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
40 64 0.80
41 2 0.03
42 14 0.17
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (40 bp):
CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTTCAAATT
Found at i:25769 original size:63 final size:62
Alignment explanation
Indices: 25696--25938 Score: 273
Period size: 63 Copynumber: 3.9 Consensus size: 62
25686 GCGATTTTAT
*
25696 AAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCC
1 AAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAATTCGTTGCGATTTATTCC
* * *
25759 AAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGA--TAGTCG
1 AAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAATTCGTTGCGATTTATTCC
* * * * *
25820 AAGTTCGCGTTGCGATTTATTCCAAGTT--CGTTGCGA-TAGTCGAAGTTCGCGTTGCGATTTAT
1 AAATT--CGTTGCGA--TAGTCCAAGTTCGCGTTGCGATTATTCCAAATT--CGTTGCGATTTAT
25882 TCC
60 TCC
* *
25885 AAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATT-TTCCGAATTAGTTGCGAT
1 AAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTATTCCAAATTCGTTGCGAT
25939 AGTCGAAGTT
Statistics
Matches: 152, Mismatches: 17, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
61 34 0.22
63 100 0.66
64 1 0.01
65 17 0.11
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (62 bp):
AAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTATTCCAAATTCGTTGCGATTTATTCC
Found at i:25811 original size:84 final size:83
Alignment explanation
Indices: 25735--25976 Score: 382
Period size: 84 Copynumber: 2.9 Consensus size: 83
25725 TGCGATTTAT
25735 TCCAAATT-CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATT
1 TCCAAATTCCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATT
25799 CCAAATTCGTTGCGATAG
66 CCAAATTCGTTGCGATAG
* * *
25817 TCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAATTC-CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
25882 TCCAAATTCGTTGCGATAG
65 TCCAAATTCGTTGCGATAG
* * *
25901 TCCAAGTTCGCGTTGCGA-TT-TTCCGAATTAGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
1 TCCAAATTC-CGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTAT
*
25964 TCCAATTTCGTTG
65 TCCAAATTCGTTG
25977 TGATTTATTC
Statistics
Matches: 150, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
82 58 0.39
83 2 0.01
84 90 0.60
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (83 bp):
TCCAAATTCCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATT
CCAAATTCGTTGCGATAG
Found at i:25975 original size:21 final size:21
Alignment explanation
Indices: 25722--25989 Score: 157
Period size: 21 Copynumber: 12.9 Consensus size: 21
25712 TCGAAGTTCG
*
25722 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAATTT
*
25743 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAATTT
* * *
25764 CGTTGCGA--TAGTCGAAGTTCG
1 CGTTGCGATTTATTCCAA-TT-T
*
25785 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAATTT
* * *
25806 CGTTGCGA--TAGTCGAAGTTCG
1 CGTTGCGATTTATTCCAA-TT-T
*
25827 CGTTGCGATTTATTCCAAGTT
1 CGTTGCGATTTATTCCAATTT
* * *
25848 CGTTGCGA--TAGTCGAAGTTCG
1 CGTTGCGATTTATTCCAA-TT-T
*
25869 CGTTGCGATTTATTCCAAATT
1 CGTTGCGATTTATTCCAATTT
* *
25890 CGTTGCGA--TAGTCCAAGTTCG
1 CGTTGCGATTTATTCCAA-TT-T
25911 CGTTGCGA-TT-TTCCGAA-TT
1 CGTTGCGATTTATTCC-AATTT
* * * *
25930 AGTTGCGA--TAGTCGAAGTTCG
1 CGTTGCGATTTATTCCAA-TT-T
25951 CGTTGCGATTTATTCCAATTT
1 CGTTGCGATTTATTCCAATTT
*
25972 CGTTGTGATTTATTCCAA
1 CGTTGCGATTTATTCCAA
25990 ATGCGTGGTC
Statistics
Matches: 187, Mismatches: 38, Indels: 44
0.70 0.14 0.16
Matches are distributed among these distances:
18 3 0.02
19 34 0.18
20 6 0.03
21 112 0.60
22 8 0.04
23 24 0.13
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAATTT
Found at i:26127 original size:21 final size:19
Alignment explanation
Indices: 26094--26212 Score: 60
Period size: 21 Copynumber: 5.7 Consensus size: 19
26084 CGTTGCGATT
* *
26094 TTGGACTATCGCAACGAAT
1 TTGGAATATCGCAACGAAC
26113 TTGGAATAAATCGCAACACGAAC
1 TTGGAAT--ATCGC-A-ACGAAC
* *
26136 TTCGACTATCGCAACGCGAAC
1 TTGGAATATCGCAA--CGAAC
* *
26157 TT-CAACTATCGCAACGAAT
1 TTGGAA-TATCGCAACGAAC
26176 TTGGAATAAATCGCAACGCGAAC
1 TTGGAAT--ATCGCAA--CGAAC
* *
26199 TTCGACTATCGCAA
1 TTGGAATATCGCAA
26213 ATCAGTTTCC
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
19 14 0.18
20 4 0.05
21 39 0.51
22 1 0.01
23 19 0.25
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (19 bp):
TTGGAATATCGCAACGAAC
Found at i:26168 original size:42 final size:41
Alignment explanation
Indices: 26122--26279 Score: 126
Period size: 42 Copynumber: 3.8 Consensus size: 41
26112 TTTGGAATAA
*
26122 ATCGCAACACGAACTTCGACTATCGCAACGCGAACTTCAACT
1 ATCGCAA-ACGAACTTCGACTATCGCAACGCGAACTTCGACT
* * *
26164 ATCGC-AACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAAACGAACTTCGACT--ATCGCAACGCGAACTTCGACT
** * *
26206 ATCGCAAATC-AGTTTCCAGA-T-TCACAACGCAAACTTCGACT
1 ATCGCAAA-CGAACTT-C-GACTATCGCAACGCGAACTTCGACT
* * *
26247 ATCGCAACGCGAACTTGGACTATCGCAATGCGA
1 ATCGCAA-ACGAACTTCGACTATCGCAACGCGA
26280 TAGTCCAAGT
Statistics
Matches: 91, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
40 12 0.13
41 28 0.31
42 41 0.45
43 6 0.07
44 2 0.02
45 2 0.02
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (41 bp):
ATCGCAAACGAACTTCGACTATCGCAACGCGAACTTCGACT
Found at i:26256 original size:21 final size:21
Alignment explanation
Indices: 26230--26279 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
26220 TCCAGATTCA
*
26230 CAACGCAAACTTCGACTATCG
1 CAACGCGAACTTCGACTATCG
*
26251 CAACGCGAACTTGGACTATCG
1 CAACGCGAACTTCGACTATCG
*
26272 CAATGCGA
1 CAACGCGA
26280 TAGTCCAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (21 bp):
CAACGCGAACTTCGACTATCG
Found at i:41345 original size:2 final size:2
Alignment explanation
Indices: 41338--41362 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
41328 AGAAAAGAAT
41338 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 T
41363 CGAGATTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43362 original size:35 final size:35
Alignment explanation
Indices: 43322--43399 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
43312 CACAATCATC
43322 AATTACATTTTAAACCCCAAAATCCAAAATACTTT
1 AATTACATTTTAAACCCCAAAATCCAAAATACTTT
* * *
43357 AATTACATTTTAAACCTCAAATTCCTAAATACTTT
1 AATTACATTTTAAACCCCAAAATCCAAAATACTTT
43392 AATTACAT
1 AATTACAT
43400 ACTCAACCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (35 bp):
AATTACATTTTAAACCCCAAAATCCAAAATACTTT
Found at i:43413 original size:35 final size:35
Alignment explanation
Indices: 43322--43415 Score: 116
Period size: 35 Copynumber: 2.7 Consensus size: 35
43312 CACAATCATC
** *
43322 AATTACATTTTAAACCCCAAAATCCAAAATACTTT
1 AATTACATACTAAACCCCAAATTCCAAAATACTTT
** * *
43357 AATTACATTTTAAACCTCAAATTCCTAAATACTTT
1 AATTACATACTAAACCCCAAATTCCAAAATACTTT
*
43392 AATTACATACTCAACCCCAAATTC
1 AATTACATACTAAACCCCAAATTC
43416 ATAATTCATT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (35 bp):
AATTACATACTAAACCCCAAATTCCAAAATACTTT
Found at i:43771 original size:143 final size:144
Alignment explanation
Indices: 43559--43830 Score: 379
Period size: 143 Copynumber: 1.9 Consensus size: 144
43549 AAATACTCAA
* *** * *
43559 TTCAGTTTACAAAATAGTTGACTTGAAATTTTTTCGATTTGAGTTTATAAAATGTAAATTAAGTT
1 TTCAGTTTACAAAATAGTTGACTCGAAATTTTTAAAATTTGAGTTTATAAAATGTAAATCAAGTC
* *
43624 GAATTGAA-T-TTTT-AAGTTTCTGTTTAAATTTAATTATAAATATTTATCATATTATAATATTA
66 GAATTGAATTATTTTCAAGTTTCTGTTTAAA-TTAATTATAAATATTTATAATACTAT-ATATTA
43686 TTTGATTTTAATTCAG
129 TTTGATTTTAATTCAG
* * *
43702 TTCAGTTTATAAAATAGTTTACTCGAAATTTTTAAAATTTGAGTTTATAAAATTTAAATCAAGTC
1 TTCAGTTTACAAAATAGTTGACTCGAAATTTTTAAAATTTGAGTTTATAAAATGTAAATCAAGTC
*
43767 GAATTGAATTGAATTTTCGAGTTTCTGTTTAAATTAATTATAAATATTTATAATACTATATATT
66 GAATTGAATT--ATTTTCAAGTTTCTGTTTAAATTAATTATAAATATTTATAATACTATATATT
43831 TGATTCTAAT
Statistics
Matches: 112, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
143 64 0.57
144 1 0.01
146 5 0.04
147 28 0.25
148 14 0.12
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (144 bp):
TTCAGTTTACAAAATAGTTGACTCGAAATTTTTAAAATTTGAGTTTATAAAATGTAAATCAAGTC
GAATTGAATTATTTTCAAGTTTCTGTTTAAATTAATTATAAATATTTATAATACTATATATTATT
TGATTTTAATTCAG
Found at i:44404 original size:35 final size:36
Alignment explanation
Indices: 44337--44417 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 36
44327 GGGGTTGGGC
* *
44337 ATGTAATTGAAGTATTTTTGGAATTTAAGGTTTAGA
1 ATGTAATTGAAGTATTTTTGGAATATAAGGTTTAAA
* **
44373 ATGTTATTGAAGTA-TTTTGGAATATGGGGTTTAAA
1 ATGTAATTGAAGTATTTTTGGAATATAAGGTTTAAA
*
44408 ATGCAATTGA
1 ATGTAATTGA
44418 TGATTGTGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 25 0.66
36 13 0.34
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.42
Consensus pattern (36 bp):
ATGTAATTGAAGTATTTTTGGAATATAAGGTTTAAA
Found at i:45653 original size:18 final size:20
Alignment explanation
Indices: 45630--45672 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 20
45620 TATAGGTATC
45630 TATATAT-TATTA-ATATT-A
1 TATATATCT-TTATATATTCA
45648 TATATATCTTTATATATTCA
1 TATATATCTTTATATATTCA
45668 TATAT
1 TATAT
45673 CTATATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.45
19 6 0.27
20 6 0.27
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TATATATCTTTATATATTCA
Found at i:45673 original size:18 final size:19
Alignment explanation
Indices: 45649--45684 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
45639 TTAATATTAT
*
45649 ATATATCTTTA-TATATTC
1 ATATATCTATATTATATTC
45667 ATATATCTATATTATATT
1 ATATATCTATATTATATT
45685 TGTGTTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
ATATATCTATATTATATTC
Found at i:48317 original size:12 final size:12
Alignment explanation
Indices: 48300--48324 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48290 CTCAAACAGA
48300 GAGAATGAACGT
1 GAGAATGAACGT
48312 GAGAATGAACGT
1 GAGAATGAACGT
48324 G
1 G
48325 TTACATGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.36, T:0.16
Consensus pattern (12 bp):
GAGAATGAACGT
Found at i:48386 original size:29 final size:29
Alignment explanation
Indices: 48353--48408 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
48343 TCCCAACACA
*
48353 TAGGTCGTCATGCCCTCCGGGCGACCTTG
1 TAGGTCGCCATGCCCTCCGGGCGACCTTG
*
48382 TAGGTTGCCATGCCCTCCGGGCGACCT
1 TAGGTCGCCATGCCCTCCGGGCGACCT
48409 ACCCTCGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.11, C:0.36, G:0.30, T:0.23
Consensus pattern (29 bp):
TAGGTCGCCATGCCCTCCGGGCGACCTTG
Found at i:48522 original size:14 final size:14
Alignment explanation
Indices: 48503--48530 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48493 TCGGATGCTC
48503 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
48517 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
48531 ACCGGGAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.29, G:0.43, T:0.21
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:48531 original size:10 final size:10
Alignment explanation
Indices: 48483--48516 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
48473 CATAGCTAGT
48483 TCGGATGGCC
1 TCGGATGGCC
48493 TCGGAT-GCTC
1 TCGGATGGC-C
48503 TCGGATGGCC
1 TCGGATGGCC
48513 TCGG
1 TCGG
48517 TCGGATGGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 2 0.09
10 18 0.82
11 2 0.09
ACGTcount: A:0.09, C:0.29, G:0.38, T:0.24
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:50947 original size:3 final size:3
Alignment explanation
Indices: 50924--50991 Score: 75
Period size: 3 Copynumber: 22.3 Consensus size: 3
50914 AGCCTGCAAA
* * *
50924 AAT AAT ATT AAT AGT ATT AAT AAT -AT AAT AAT AAT AAT AAGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
*
50969 TAT AAT AAT AAT AAT ATAT AAT A
1 AAT AAT AAT AAT AAT A-AT AAT A
50992 TATTATTTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
2 2 0.04
3 47 0.85
4 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:51361 original size:84 final size:84
Alignment explanation
Indices: 51219--51491 Score: 352
Period size: 84 Copynumber: 3.2 Consensus size: 84
51209 CTGAATGAAA
* * * *
51219 TCGAACTCGTCAGGTCTTTGGTTGGCAGATAGCCCTTCTCAACTTAAGCTATGCTGCAAATGATG
1 TCGAACTCG-AAGGTCTTTGGTTGGCAAATAGCCCTTCTCGACTTAAGATATGCTGCAAATGATG
*
51284 TGCCTCGGAGCTGAGCGTAG
65 TGCCTTGGAGCTGAGCGTAG
* * * * *
51304 TCAAACTCGAAGGTCTTTGGTTGGCAAATAGCCCTTCTTGCCTTGAGATATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTGGTTGGCAAATAGCCCTTCTCGACTTAAGATATGCTGCAAATGATGT
*
51369 ACCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * *
51388 TCGAACTCAAAGGTCTTTGGTTGG-AAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
1 TCGAACTCGAAGGTCTTTGGTTGGCAA-ATAGCCCTTCTCGACTTAAGATATGCTGCAAATGATG
*
51452 TGCCTTAGAGCTGAGCGT-G
65 TGCCTTGGAGCTGAGCGTAG
**
51471 ATCGAACTCGGGGGTCTTTGG
1 -TCGAACTCGAAGGTCTTTGG
51492 CAGATAGCCT
Statistics
Matches: 162, Mismatches: 24, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
83 3 0.02
84 151 0.93
85 8 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTGGTTGGCAAATAGCCCTTCTCGACTTAAGATATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAG
Found at i:51723 original size:106 final size:106
Alignment explanation
Indices: 51531--52538 Score: 1678
Period size: 106 Copynumber: 9.5 Consensus size: 106
51521 CGTCGGGAAG
* *
51531 TTGA-AAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTTGA
1 TTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* * * *
51595 GTCCAATATCCTTTGCTATGAAGTTGAACTTGGCTCTGAAA
66 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
*
51636 TTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGA
1 TTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
*
51701 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATA
66 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
* *
51742 TTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACATGCGTTGTCTGGA
1 TTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
51807 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATA
66 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAA-A
* * * *
51849 TTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACATGCGTTGTCTGGA
1 TTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
51914 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
66 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
* * * * * *
51955 TTGGGAAATTATTTATTGACAATCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCAGGA
1 TTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
*
52020 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATA
66 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
*
52061 TTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGA
1 TTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
52126 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
66 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
* * *
52167 TTGGGAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
1 TTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
*
52232 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTATGAAA
66 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
* *
52273 TCGAAAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
1 TTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
*
52338 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGATA
66 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
*
52379 TTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGA
1 TTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
*
52444 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA
66 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
* * *
52485 TT-AGGAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGCGAAGTTGAACTTG
1 TTGA-GAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
52539 ACTCTAAAAG
Statistics
Matches: 850, Mismatches: 50, Indels: 5
0.94 0.06 0.01
Matches are distributed among these distances:
105 5 0.01
106 741 0.87
107 104 0.12
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
TTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAA
Found at i:55028 original size:17 final size:17
Alignment explanation
Indices: 55002--55034 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
54992 TGTAAACGAT
*
55002 GAACACAAAATAAAAGA
1 GAACAAAAAATAAAAGA
55019 GAACAAAAAATAAAAG
1 GAACAAAAAATAAAAG
55035 GGTTAGTGAG
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:0.73, C:0.09, G:0.12, T:0.06
Consensus pattern (17 bp):
GAACAAAAAATAAAAGA
Found at i:57652 original size:3 final size:3
Alignment explanation
Indices: 57629--57694 Score: 73
Period size: 3 Copynumber: 22.3 Consensus size: 3
57619 AGCCTGCAAA
* * *
57629 AAT AAT ATT AAT AGT ATT AAT AAT -AT AAT AAT AAT AAT AAGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT
*
57674 TAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
57695 TATTATTTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
2 4 0.08
3 46 0.87
4 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:58317 original size:14 final size:14
Alignment explanation
Indices: 58298--58325 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58288 CGCTGGGCAT
58298 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
58312 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
58326 AAGCATCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.29, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:58373 original size:23 final size:23
Alignment explanation
Indices: 58347--58392 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
58337 GCCATTCGAA
58347 CGAGCTATGCGAGGGCAA-CCGAG
1 CGAGCTATGCGAGGG-AATCCGAG
58370 CGAGCTATGCGAGGGAATCCGAG
1 CGAGCTATGCGAGGGAATCCGAG
58393 GGCAACCGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.26, C:0.24, G:0.39, T:0.11
Consensus pattern (23 bp):
CGAGCTATGCGAGGGAATCCGAG
Found at i:58443 original size:29 final size:29
Alignment explanation
Indices: 58410--58494 Score: 134
Period size: 29 Copynumber: 2.9 Consensus size: 29
58400 GAGCGAGGGT
58410 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
* **
58439 AGGTCGCCCGGAGTGCATGACTTCCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
*
58468 AGGTCGCCCGGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGTGCATGGCGACCTA
58495 TGTGTTGGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.20, C:0.31, G:0.34, T:0.15
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:58595 original size:29 final size:29
Alignment explanation
Indices: 58553--58609 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
58543 GAGCAAGGGT
*
58553 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCCGAGTGCATGGCGACCTACA
*
58582 AGGTCGCCCCGAGTGCCTGGCGACCTAC
1 AGGTCGCCCCGAGTGCATGGCGACCTAC
58610 GGCTAACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.18, C:0.35, G:0.33, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCCGAGTGCATGGCGACCTACA
Found at i:59230 original size:17 final size:17
Alignment explanation
Indices: 59210--59242 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59200 ATATTTATTT
*
59210 ATATAAAATATAATATA
1 ATATAAAAAATAATATA
59227 ATATAAAAAATAATAT
1 ATATAAAAAATAATAT
59243 TATGGTAGTA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAAAAATAATATA
Found at i:59335 original size:15 final size:14
Alignment explanation
Indices: 59315--59360 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 14
59305 CATAATATTA
59315 TAAATAGTAAAATAT
1 TAAATA-TAAAATAT
59330 TAAATATTAAAAATAT
1 TAAATA-T-AAAATAT
*
59346 AAAATATAAAATAT
1 TAAATATAAAATAT
59360 T
1 T
59361 TTAAATTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 7 0.26
15 8 0.30
16 12 0.44
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
TAAATATAAAATAT
Found at i:59344 original size:16 final size:15
Alignment explanation
Indices: 59323--59366 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
59313 TATAAATAGT
59323 AAAATATTAAATATTA
1 AAAATATTAAATA-TA
*
59339 AAAATATAAAATATA
1 AAAATATTAAATATA
*
59354 AAATATTTTAAAT
1 AAA-ATATTAAAT
59367 TCTCAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAATATTAAATATA
Found at i:59366 original size:23 final size:24
Alignment explanation
Indices: 59308--59366 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
59298 TTCATTCCAT
*
59308 AATATTATAAATAGTAAAATATTA
1 AATATTATAAATAGTAAAATATAA
*
59332 AATATTAAAAATA-TAAAATATAA
1 AATATTATAAATAGTAAAATATAA
*
59355 AATATTTTAAAT
1 AATATTATAAAT
59367 TCTCAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
23 19 0.61
24 12 0.39
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (24 bp):
AATATTATAAATAGTAAAATATAA
Found at i:61254 original size:15 final size:15
Alignment explanation
Indices: 61231--61272 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
61221 TTTGACTATA
61231 TTAAATAAATTA-AT
1 TTAAATAAATTACAT
61245 TTATAATAAATTATCAT
1 TTA-AATAAATTA-CAT
61262 TTAAATAAATT
1 TTAAATAAATT
61273 CAATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 8 0.32
17 5 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATAAATTACAT
Found at i:63588 original size:37 final size:37
Alignment explanation
Indices: 63515--63589 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
63505 ACTATAAGAT
* *
63515 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
* *
63552 ATTTATATAATTTTTTTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTGAAAATCATAAA
63589 A
1 A
63590 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:69591 original size:32 final size:32
Alignment explanation
Indices: 69551--69613 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
69541 ATTTTTCAAC
* *
69551 AAACATCTATCAAACTTTGAAAA-CTATTTTTT
1 AAACATCTACCAAACTTTAAAAATC-ATTTTTT
69583 AAACATCTACCAAACTTTAAAAATCATTTTT
1 AAACATCTACCAAACTTTAAAAATCATTTTT
69614 CAAATTTCGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.43, C:0.17, G:0.02, T:0.38
Consensus pattern (32 bp):
AAACATCTACCAAACTTTAAAAATCATTTTTT
Found at i:70727 original size:23 final size:22
Alignment explanation
Indices: 70664--70724 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
70654 ATAATTATTT
*
70664 AAAAA-ATTAAATAAAAATACC
1 AAAAATATTTAATAAAAATACC
70685 AAAAATATTTAATAAAAATACC
1 AAAAATATTTAATAAAAATACC
70707 AAAAATATTTAATAAAAA
1 AAAAATATTTAATAAAAA
70725 ATAATTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 5 0.13
22 33 0.87
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAAATATTTAATAAAAATACC
Found at i:73237 original size:2 final size:2
Alignment explanation
Indices: 73230--73324 Score: 190
Period size: 2 Copynumber: 47.5 Consensus size: 2
73220 ATCATTAATA
73230 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
73272 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
73314 AT AT AT AT AT A
1 AT AT AT AT AT A
73325 CTCTGTGGAT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 93 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:79813 original size:18 final size:18
Alignment explanation
Indices: 79790--79824 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79780 TTCCATCCGG
*
79790 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
79808 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
79825 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:82331 original size:29 final size:29
Alignment explanation
Indices: 82288--82370 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
82278 CTCACCTAAC
*
82288 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
82318 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
82347 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
82371 ATTTAGATTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:87083 original size:29 final size:29
Alignment explanation
Indices: 87040--87122 Score: 130
Period size: 29 Copynumber: 2.8 Consensus size: 29
87030 ATCACCTAAC
*
87040 TAAATTGATGTAAGCAATGACATCATTATT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
87070 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
87099 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
87123 ATTTAGTTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
29 45 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:88272 original size:16 final size:16
Alignment explanation
Indices: 88251--88282 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
88241 AACTCACGAC
88251 TCCATTAGAAGTGTAA
1 TCCATTAGAAGTGTAA
88267 TCCATTAGAAGTGTAA
1 TCCATTAGAAGTGTAA
88283 GTAGTGAGAG
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:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
TCCATTAGAAGTGTAA
Found at i:106852 original size:6 final size:6
Alignment explanation
Indices: 106841--107108 Score: 312
Period size: 6 Copynumber: 45.2 Consensus size: 6
106831 GTTACACGTT
*
106841 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGGA
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA
* * * *
106889 GAAGAA GAAGAA GGAGAA GAAGAA GGAGAA GGAAGAA GGAGAA GGAGAA
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA -GAAGAA GAAGAA GAAGAA
* * * * * * * *
106938 GGAGAA GGAGAA GGAGAA GGAGAA GAAGGA GAAGGA GAAGGA GAAGGA
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA
* * * * * *
106986 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAG-A GAAG-A
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA
107032 GAAGAA G-AGAA G-AGAA G-AGAA GAAGAA GAAAGAA GAAGAA GAAGAA
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA G-AAGAA GAAGAA GAAGAA
107078 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA G
1 GAAGAA GAAGAA GAAGAA GAAGAA GAAGAA G
107109 GCAACTAGGG
Statistics
Matches: 249, Mismatches: 9, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
5 25 0.10
6 213 0.86
7 11 0.04
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (6 bp):
GAAGAA
Found at i:107282 original size:114 final size:115
Alignment explanation
Indices: 107164--107406 Score: 443
Period size: 114 Copynumber: 2.1 Consensus size: 115
107154 GTGGCTACGG
* *
107164 GAAGAAGCAGAAGAAGAAAAAGGGCAGCTAGGGGGGAGGGTGGCTACGGGTGTATATTTGATTTA
1 GAAGAAGAAGAAGAAGAAAAAGGGCAGCTAGGGGGAAGGGTGGCTACGGGTGTATATTTGATTTA
*
107229 GTATAGTTAAAATTTTTCTTTATA-TTTTTTTCATATGCAATACGTTGAA
66 GTATAGTTAAAATTTTTCTTTATATTTTTTTTCATATGCAATACATTGAA
*
107278 GAAGAAGAAGAAGAAGAAGAAGGGCAGCTAGGGGGAAGGGTGGCTACGGGTGTATATTTGATTTA
1 GAAGAAGAAGAAGAAGAAAAAGGGCAGCTAGGGGGAAGGGTGGCTACGGGTGTATATTTGATTTA
107343 GTATAGTTAAAATTTTTCTTTATATTTTTTTTCATATGCAATACATTGAA
66 GTATAGTTAAAATTTTTCTTTATATTTTTTTTCATATGCAATACATTGAA
107393 GAAGAAGAAGAAGA
1 GAAGAAGAAGAAGA
107407 CAGGTGTATA
Statistics
Matches: 124, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
114 86 0.69
115 38 0.31
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (115 bp):
GAAGAAGAAGAAGAAGAAAAAGGGCAGCTAGGGGGAAGGGTGGCTACGGGTGTATATTTGATTTA
GTATAGTTAAAATTTTTCTTTATATTTTTTTTCATATGCAATACATTGAA
Found at i:107283 original size:3 final size:3
Alignment explanation
Indices: 107275--107299 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
107265 GCAATACGTT
107275 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
107300 GGCAGCTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:107514 original size:6 final size:6
Alignment explanation
Indices: 107485--107841 Score: 355
Period size: 6 Copynumber: 60.8 Consensus size: 6
107475 AAGAAAAAGA
* * *
107485 AGAAGA AGAAGG AGAAGG AGAAGG AGAAGG AG--GG AGGAGG AGGAGG
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG
* * * *
107531 AGGAGG AGAA-G AGAAGG AGAATG AGAATG AGAAGG AGGAGGAGG AGGAGG
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG A-GA--AGG AGAAGG
* * * * * * *
107581 AGGAGG AGGAGG AGGAGG AGGAGG AGGATG AGAAGG AGAATG AGAAGG
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG
*
107629 AGAAGG AGAAGG AGAAGG AGAATG AGAAGG AGAAGG AGAAGG AG-A--
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG
* * *
107674 AGAAGG ATAAGG ATAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGA
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG
* *
107722 AGAAGG AGAAGA AGAAGG AGGAGG -G--GG AGAA-- AG-AGG AGAATGAG
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAA-G-G
*
107766 AAGAAGC AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAA-G
1 -AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG
* *
107814 AGAATG AGAA-G AGAAGG AGAAGA AGAAG
1 AGAAGG AGAAGG AGAAGG AGAAGG AGAAG
107842 AAAAAGAAAA
Statistics
Matches: 309, Mismatches: 22, Indels: 40
0.83 0.06 0.11
Matches are distributed among these distances:
3 5 0.02
4 8 0.03
5 19 0.06
6 263 0.85
7 3 0.01
8 3 0.01
9 8 0.03
ACGTcount: A:0.48, C:0.00, G:0.49, T:0.03
Consensus pattern (6 bp):
AGAAGG
Found at i:107842 original size:6 final size:6
Alignment explanation
Indices: 107623--107871 Score: 116
Period size: 6 Copynumber: 42.0 Consensus size: 6
107613 AAGGAGAATG
* * * * * * *
107623 AGAAGG AGAAGG AGAAGG AGAAGG AGAATG- AGAAGG AGAAGG AGAAGG
1 AGAAGA AGAAGA AGAAGA AGAAGA AGAA-GA AGAAGA AGAAGA AGAAGA
* * * * * * * * *
107671 AGAAGA AGGATA AGGATA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA
1 AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA
* * * ** * *
107719 AGAAGA AGGAGA AGAAGA AGGAGG AGGGGG AGAA-A GAGGAGA ATG-AGA
1 AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA -AGAAGA A-GAAGA
* * * * * * *
107767 AGAAGC AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAGG AGAAG-
1 AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA
* * *
107814 AGAATG- AGAAG- AGAAGG AGAAGA AGAAGA AAAAGA A-AAGA AGAAAA
1 AGAA-GA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA AGAAGA
107860 AGAAGA AGAAGA
1 AGAAGA AGAAGA
107872 CGAGTGTATA
Statistics
Matches: 214, Mismatches: 20, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
5 17 0.08
6 194 0.91
7 3 0.01
ACGTcount: A:0.55, C:0.00, G:0.43, T:0.02
Consensus pattern (6 bp):
AGAAGA
Found at i:107955 original size:12 final size:12
Alignment explanation
Indices: 107919--107957 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
107909 TGGCTACGGT
*
107919 AAGAAGAATAAG
1 AAGAAGAATAAA
*
107931 AAGAAGAAGAAA
1 AAGAAGAATAAA
107943 AAGAAGAATAAA
1 AAGAAGAATAAA
107955 AAG
1 AAG
107958 GGCAGCTAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (12 bp):
AAGAAGAATAAA
Found at i:108127 original size:85 final size:85
Alignment explanation
Indices: 107984--108147 Score: 240
Period size: 85 Copynumber: 1.9 Consensus size: 85
107974 GGTGGCTACG
*
107984 GGTGTATATTTGATTTAGTATAGTTAAAAAAAAATTTATATTTTTTTTCATATGCAATACGTTGA
1 GGTGTATATTTGATTTAGTATAGTTAAAAAAAAATTTATATTTTTTTTCATATGCAATACGTTAA
108049 AGAAGAAGAAGAAGAAGAAT
66 AGAAGAAGAAGAAGAAGAAT
*****
108069 GGTGTATATTTGATTTAGTATAGTTAAAATTTTTCTTTATATTTTTTTT-ATATGCAATACGTTA
1 GGTGTATATTTGATTTAGTATAGTTAAAA-AAAAATTTATATTTTTTTTCATATGCAATACGTTA
* *
108133 AAGAATAAGGAGAAG
65 AAGAAGAAGAAGAAG
108148 GAGGAGAAGG
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
85 56 0.80
86 14 0.20
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.41
Consensus pattern (85 bp):
GGTGTATATTTGATTTAGTATAGTTAAAAAAAAATTTATATTTTTTTTCATATGCAATACGTTAA
AGAAGAAGAAGAAGAAGAAT
Found at i:108150 original size:6 final size:6
Alignment explanation
Indices: 108149--108581 Score: 298
Period size: 6 Copynumber: 72.5 Consensus size: 6
108139 AAGGAGAAGG
* * *
108149 AGGAGA AGGAGG AGGAGA AGGAGA AGGAGG AGGAGG AGGAGA AGGAGGA
1 AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGA-GA
* * * *
108198 GGAGGAGA AGGAGA AGGAGG AGGAGA AGG-GA AGGGGA AGGGAAGA AGAAGG
1 --AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA A-GG-AGA AGGAGA
* * * *
108249 AGGAGA ATGAGA GGGAGA ATGAGA AGGAGA ATGAGA A-GAG- -GGAGA
1 AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA
* * * * *
108294 AGGAGA AGGAGA ATGAGAAGA ATGAGA AGGAGG AGGAGG AGGAGG AGGAAA
1 AGGAGA AGGAGA A-G-G-AGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA
** * * * *
108345 ACAAGA AGAAGA GGGTGA AGGAG- A--AGA AGGAGA AGGAGA AAGAGA
1 AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA
* * * * *
108390 AGAAAA AGAAGA AGGAGA AGGAGA AGGAGA AGCAGA AGGAAA AGGAGA
1 AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA
* * * *
108438 AGGAGA AGGAGA AGGAGA AGAAGA AGAATG- AGAAGA AGAAGA AGGATG-
1 AGGAGA AGGAGA AGGAGA AGGAGA AGGA-GA AGGAGA AGGAGA AGGA-GA
* * * *
108486 AGGAGG AGGAGA A--AG- AGGAGA AGGAGA AGAAGG AGGAGA AGGAGG
1 AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA
* * * * * * *
108531 AGGAGG AGAAGA AGAATG- AGGAGA AGGAGG AGGAGG AGGAGG AGAAGA
1 AGGAGA AGGAGA AGGA-GA AGGAGA AGGAGA AGGAGA AGGAGA AGGAGA
108579 AGG
1 AGG
108582 GCAGCTAGGA
Statistics
Matches: 346, Mismatches: 57, Indels: 48
0.77 0.13 0.11
Matches are distributed among these distances:
3 3 0.01
4 6 0.02
5 14 0.04
6 299 0.86
7 10 0.03
8 6 0.02
9 8 0.02
ACGTcount: A:0.48, C:0.00, G:0.49, T:0.02
Consensus pattern (6 bp):
AGGAGA
Found at i:108574 original size:9 final size:9
Alignment explanation
Indices: 108140--108571 Score: 197
Period size: 9 Copynumber: 46.6 Consensus size: 9
108130 TTAAAGAATA
108140 AGGAGAAGG
1 AGGAGAAGG
108149 AGGAGAAGG
1 AGGAGAAGG
* *
108158 AGGAGGAGA
1 AGGAGAAGG
108167 AGGAGAAGG
1 AGGAGAAGG
*
108176 AGGAGGAGG
1 AGGAGAAGG
108185 AGGAGAAGG
1 AGGAGAAGG
108194 A-G-G-AGG
1 AGGAGAAGG
108200 AGGAGAAGG
1 AGGAGAAGG
* *
108209 AGAAGGAGG
1 AGGAGAAGG
108218 AGGAGAAGGG
1 AGGAGAA-GG
*
108228 AAGGGGAAGGG
1 -AGGAGAA-GG
*
108239 AAGAAGAAGG
1 -AGGAGAAGG
108249 AGGAGAATGAG
1 AGGAGAA-G-G
108260 AGGGAGAATGAG
1 A-GGAGAA-G-G
*
108272 AAGGAGAATG
1 -AGGAGAAGG
* *
108282 AGAAGAGGG
1 AGGAGAAGG
* * *
108291 AGAAGGAGA
1 AGGAGAAGG
*
108300 AGGAGAATG
1 AGGAGAAGG
*
108309 AGAAGAATGAG
1 AGGAGAA-G-G
*
108320 AAGGAGGAGG
1 -AGGAGAAGG
*
108330 AGGAGGAGG
1 AGGAGAAGG
* **
108339 AGGAAAACA
1 AGGAGAAGG
*
108348 AGAAGAA-G
1 AGGAGAAGG
*
108356 AGGGTGAAGG
1 A-GGAGAAGG
*
108366 AGAAGAAGG
1 AGGAGAAGG
* * *
108375 AGAAGGAGA
1 AGGAGAAGG
* *
108384 AAGAGAAGA
1 AGGAGAAGG
** *
108393 AAAAGAAGA
1 AGGAGAAGG
108402 AGGAGAAGG
1 AGGAGAAGG
* * *
108411 AGAAGGAGA
1 AGGAGAAGG
*
108420 AGCAGAAGG
1 AGGAGAAGG
** * *
108429 AAAAGGAGA
1 AGGAGAAGG
108438 AGGAGAAGG
1 AGGAGAAGG
* * *
108447 AGAAGGAGA
1 AGGAGAAGG
* *
108456 AGAAGAAGA
1 AGGAGAAGG
* *
108465 ATGAGAAGA
1 AGGAGAAGG
*
108474 AGAAGAAGG
1 AGGAGAAGG
* *
108483 ATGAGGAGG
1 AGGAGAAGG
*
108492 AGGAGAAAG
1 AGGAGAAGG
108501 AGGAGAAGG
1 AGGAGAAGG
*
108510 AGAAGAAGG
1 AGGAGAAGG
108519 AGGAGAAGG
1 AGGAGAAGG
*
108528 AGGAGGAGG
1 AGGAGAAGG
*
108537 AGAAGAAGAATG
1 AG--G-AGAAGG
108549 AGGAGAAGG
1 AGGAGAAGG
*
108558 AGGAGGAGG
1 AGGAGAAGG
108567 AGGAG
1 AGGAG
108572 GAGAAGAAGG
Statistics
Matches: 320, Mismatches: 86, Indels: 34
0.73 0.20 0.08
Matches are distributed among these distances:
6 4 0.01
7 2 0.01
8 3 0.01
9 253 0.79
10 10 0.03
11 20 0.06
12 27 0.08
13 1 0.00
ACGTcount: A:0.48, C:0.00, G:0.49, T:0.02
Consensus pattern (9 bp):
AGGAGAAGG
Found at i:108594 original size:3 final size:3
Alignment explanation
Indices: 108480--108574 Score: 82
Period size: 3 Copynumber: 31.7 Consensus size: 3
108470 AAGAAGAAGA
* * * * * * *
108480 AGG ATG AGG AGG AGG AGA AAG AGG AGA AGG AGA AGA AGG AGG AGA AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
* * * * *
108528 AGG AGG AGG AGA AGA AGA ATG AGG AGA AGG AGG AGG AGG AGG AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AG
108575 AAGAAGGGCA
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.44, C:0.00, G:0.54, T:0.02
Consensus pattern (3 bp):
AGG
Found at i:112391 original size:31 final size:31
Alignment explanation
Indices: 112356--112451 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
112346 CAGGTCAATA
*
112356 TTGGGTCGGGTCAATACCGGATCGATTGATT
1 TTGGGTCGGGTCAATACCGGATCGGTTGATT
* * **
112387 TTGGGTTGGGTTAATACTAGATCGGTTAGATT
1 TTGGGTCGGGTCAATACCGGATCGGTT-GATT
** * *
112419 TCAGGTCGGGTCAATATCGAATCGGTTGATT
1 TTGGGTCGGGTCAATACCGGATCGGTTGATT
112450 TT
1 TT
112452 CGGTTTAGGT
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
31 27 0.54
32 23 0.46
ACGTcount: A:0.21, C:0.12, G:0.30, T:0.36
Consensus pattern (31 bp):
TTGGGTCGGGTCAATACCGGATCGGTTGATT
Found at i:112443 original size:32 final size:30
Alignment explanation
Indices: 112359--112450 Score: 85
Period size: 32 Copynumber: 2.9 Consensus size: 30
112349 GTCAATATTG
* * **
112359 GGTCGGGTCAATACCGGATCGATTGATTTTG
1 GGTCGGGTCAATA-CGAATCGGTTGATTTCA
* * *
112390 GGTTGGGTTAATACTAGATCGGTTAGATTTCA
1 GGTCGGGTCAATACGA-ATCGGTT-GATTTCA
112422 GGTCGGGTCAATATCGAATCGGTTGATTT
1 GGTCGGGTCAATA-CGAATCGGTTGATTT
112451 TCGGTTTAGG
Statistics
Matches: 48, Mismatches: 10, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
30 1 0.02
31 22 0.46
32 23 0.48
33 2 0.04
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (30 bp):
GGTCGGGTCAATACGAATCGGTTGATTTCA
Found at i:113246 original size:16 final size:16
Alignment explanation
Indices: 113227--113282 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
113217 TTCAAGTTAA
*
113227 TTTCGGTTCGGTTTGC
1 TTTCGGTTCGGGTTGC
* *
113243 TTTCGATACGGGTTGC
1 TTTCGGTTCGGGTTGC
* **
113259 TTTTGGTTCGGGTTAA
1 TTTCGGTTCGGGTTGC
113275 TTTCGGTT
1 TTTCGGTT
113283 TCGGTTCGGG
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.07, C:0.14, G:0.30, T:0.48
Consensus pattern (16 bp):
TTTCGGTTCGGGTTGC
Found at i:113288 original size:22 final size:22
Alignment explanation
Indices: 113263--113307 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
113253 GGTTGCTTTT
*
113263 GGTTCGGGTTAATTTCGGTTTC
1 GGTTCGGGTTAATTTCAGTTTC
*
113285 GGTTCGGGTTGATTTCAGTTTC
1 GGTTCGGGTTAATTTCAGTTTC
113307 G
1 G
113308 CTAAATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.13, G:0.33, T:0.44
Consensus pattern (22 bp):
GGTTCGGGTTAATTTCAGTTTC
Found at i:116864 original size:2 final size:2
Alignment explanation
Indices: 116857--116883 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
116847 ATATTAAAAT
116857 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
116884 TATTTTGATA
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:126861 original size:17 final size:17
Alignment explanation
Indices: 126839--126891 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
126829 ATTTAAGAGT
* *
126839 TAGTTTGATTAATGAAC
1 TAGTTTAATCAATGAAC
126856 TAGTTTAATCAATGAA-
1 TAGTTTAATCAATGAAC
*
126872 TCAGCTTTATTCAATGAAC
1 T-AG-TTTAATCAATGAAC
126891 T
1 T
126892 TAATGCATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 1 0.03
17 16 0.53
18 12 0.40
19 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (17 bp):
TAGTTTAATCAATGAAC
Found at i:127746 original size:64 final size:63
Alignment explanation
Indices: 127674--127829 Score: 201
Period size: 64 Copynumber: 2.5 Consensus size: 63
127664 GTGCACTAAG
* * *
127674 AGTGCATCGATACATTAAATGCATTCGATG-TTTCA-AACAAGTCTGAGTGCATCGATGCATGGT
1 AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AA-CCTGAGTGCATCGATGCATGG-
127737 CT
63 -T
* *
127739 A-TGCATCGATGCATAAAATGTATTCGATGTTTTCATAAAACCTGAGTGTATCGATGCATGGT
1 AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGATGCATGGT
*
127801 AGTGCATCGATGCATAAAATACATTCGAT
1 AGTGCATCGATGCATAAAATGCATTCGAT
127830 ATGGTTAGTG
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
62 2 0.02
63 25 0.31
64 44 0.54
65 8 0.10
66 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (63 bp):
AGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCTGAGTGCATCGATGCATGGT
Found at i:136427 original size:45 final size:45
Alignment explanation
Indices: 136376--136481 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
136366 GGTGCACTAA
*
136376 GAGTGCATCGATGCATTAAATGCATTCGATG-TTTCA-AACAAGCCT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAA-AA-CCT
*
136421 GAGTGCATTGATGCATAAAATGCATTCGATGTTTTCATAAAACCT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCT
*
136466 GAGTGTATCGATGCAT
1 GAGTGCATCGATGCAT
136482 GGTAGTGTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
45 46 0.84
46 7 0.13
47 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (45 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACCT
Found at i:143073 original size:24 final size:23
Alignment explanation
Indices: 143046--143108 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 23
143036 ATATGAGTTT
*
143046 TTTAAATGTTTTGAAAATATATGA
1 TTTATATGTTTTGAAAATATAT-A
*
143070 TTTATA-GTTTATAAAAATATATA
1 TTTATATGTTT-TGAAAATATATA
143093 -TTATATCGTTTTGAAA
1 TTTATAT-GTTTTGAAA
143109 TTTTTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
22 5 0.15
23 9 0.27
24 19 0.58
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.48
Consensus pattern (23 bp):
TTTATATGTTTTGAAAATATATA
Found at i:143260 original size:75 final size:75
Alignment explanation
Indices: 143127--143510 Score: 420
Period size: 75 Copynumber: 5.0 Consensus size: 75
143117 AAATATATAT
* * * *
143127 ATATATAATATATAATTTTTAAAAACATTTTTGAAAAACATATATATTATATAGTTTTGAAAATT
1 ATATATATTATAT-AGTTTTGAAAATATTTTTGAAAAACATATATATTATATAGTTTTGAAAATT
143192 AGTTTTTAAAA
65 AGTTTTTAAAA
* *
143203 ATATATATTATATAGTTTTGAAAATATTTTTGAAAAACATATATATTATATAATTTTGAAAATCA
1 ATATATATTATATAGTTTTGAAAATATTTTTGAAAAACATATATATTATATAGTTTTGAAAATTA
143268 GTTTTTAAATA
66 GTTTTTAAA-A
* *
143279 TATATATATATATATATATTATATAGTTTTGAAAACATTTTTGAAAAACATATATATTATATAGT
1 -ATATATAT-TATATA-GTT-T-T-G-----AAAATATTTTTGAAAAACATATATATTATATAGT
*
143344 TTTGAAAATTAGTTTTTAAAT
55 TTTGAAAATTAGTTTTTAAAA
* * * *
143365 ATATATATTATATAGTTTTAAAAATTAGCTTTT-AAAAATATATATATTATATAGTTTTGAAAGT
1 ATATATATTATATAGTTTTGAAAA-TA-TTTTTGAAAAACATATATATTATATAGTTTTGAAAAT
143429 TAGTTTTT-AAA
64 TAGTTTTTAAAA
* * * *
143440 ATATATATTATAT-GATTTTGAAAATTATTTTTTAAAAAC--ATATATTGTATAGTTTTAAAAAA
1 ATATATATTATATAG-TTTTGAAAA-TATTTTTGAAAAACATATATATTATATAGTTTTGAAAAT
143502 T-GTTTTTAA
64 TAGTTTTTAA
143511 TTTATTTATC
Statistics
Matches: 266, Mismatches: 25, Indels: 37
0.81 0.08 0.11
Matches are distributed among these distances:
72 6 0.02
73 21 0.08
74 5 0.02
75 91 0.34
76 51 0.19
77 12 0.05
78 6 0.02
79 2 0.01
80 1 0.00
81 2 0.01
82 2 0.01
83 2 0.01
84 6 0.02
85 8 0.03
87 51 0.19
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (75 bp):
ATATATATTATATAGTTTTGAAAATATTTTTGAAAAACATATATATTATATAGTTTTGAAAATTA
GTTTTTAAAA
Found at i:143294 original size:87 final size:86
Alignment explanation
Indices: 143203--143378 Score: 316
Period size: 87 Copynumber: 2.0 Consensus size: 86
143193 GTTTTTAAAA
*
143203 ATATATATTATATAGTTTTGAAAATATTTTTGAAAAACATATATATTATATAATTTTGAAAATCA
1 ATATATATTATATAGTTTTGAAAACATTTTTGAAAAACATATATATTATATAATTTTGAAAATCA
143268 GTTTTTAAATATATATATATAT
66 GTTTTTAAATATATATAT-TAT
* *
143290 ATATATATTATATAGTTTTGAAAACATTTTTGAAAAACATATATATTATATAGTTTTGAAAATTA
1 ATATATATTATATAGTTTTGAAAACATTTTTGAAAAACATATATATTATATAATTTTGAAAATCA
143355 GTTTTTAAATATATATATTAT
66 GTTTTTAAATATATATATTAT
143376 ATA
1 ATA
143379 GTTTTAAAAA
Statistics
Matches: 86, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
86 6 0.07
87 80 0.93
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.47
Consensus pattern (86 bp):
ATATATATTATATAGTTTTGAAAACATTTTTGAAAAACATATATATTATATAATTTTGAAAATCA
GTTTTTAAATATATATATTAT
Found at i:143349 original size:162 final size:157
Alignment explanation
Indices: 143077--143452 Score: 546
Period size: 162 Copynumber: 2.4 Consensus size: 157
143067 TGATTTATAG
* *
143077 TTTATAAAAATATATATTATATCGTTTTG-AAAT-TTTTTTAAAATATATATATATATAATATAT
1 TTTA-AAAAATATATATTATATAGTTTTGAAAATAGTTTTTAAAATATATATATATATAATATAT
*
143140 AATTTTTAAAAACATTTTTGAAAAACATATATATTATATAGTTTTGAAAATTAGTTTTTAAAAAT
65 AAGTTTTAAAAACATTTTTGAAAAACATATATATTATATAGTTTTGAAAATTAGTTTTTAAAAAT
* *
143205 ATATATTATATAGTTTTGAAAA-TA-TT
130 ATATATTATATAGTTTTAAAAATTAGCT
*
143231 TTTGAAAAACATATATATTATATAATTTTGAAAATCAGTTTTTAAATATATATATATATATATAT
1 TTT-AAAAA-ATATATATTATATAGTTTTGAAAAT-AGTTTTTAAA-ATATATATATATATA-AT
*
143296 ATTATATAGTTTTGAAAACATTTTTGAAAAACATATATATTATATAGTTTTGAAAATTAGTTTTT
61 A-TATA-AGTTTTAAAAACATTTTTGAAAAACATATATATTATATAGTTTTGAAAATTAGTTTTT
*
143361 AAATATATATATTATATAGTTTTAAAAATTAGCT
124 AAAAATATATATTATATAGTTTTAAAAATTAGCT
*
143395 TTTAAAAATATATATATTATATAGTTTTGAAAGTTAGTTTTTAAAATATATAT-TATAT
1 TTTAAAAA-ATATATATTATATAGTTTTGAAA-ATAGTTTTTAAAATATATATATATAT
143453 GATTTTGAAA
Statistics
Matches: 199, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
154 7 0.04
155 19 0.10
156 4 0.02
158 8 0.04
159 15 0.08
160 3 0.02
161 9 0.05
162 90 0.45
163 39 0.20
164 5 0.03
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (157 bp):
TTTAAAAAATATATATTATATAGTTTTGAAAATAGTTTTTAAAATATATATATATATAATATATA
AGTTTTAAAAACATTTTTGAAAAACATATATATTATATAGTTTTGAAAATTAGTTTTTAAAAATA
TATATTATATAGTTTTAAAAATTAGCT
Found at i:143378 original size:37 final size:37
Alignment explanation
Indices: 143288--143510 Score: 258
Period size: 37 Copynumber: 6.0 Consensus size: 37
143278 ATATATATAT
*
143288 ATATATATATTATATAGTTTTGAAAA-CA-TTTTTGAAAA
1 ATATATATATTATATAGTTTTGAAAATTAGTTTTT---AA
*
143326 ACATATATATTATATAGTTTTGAAAATTAGTTTTTAA
1 ATATATATATTATATAGTTTTGAAAATTAGTTTTTAA
* *
143363 ATATATATATTATATAGTTTTAAAAATTAGCTTTTAAAA
1 ATATATATATTATATAGTTTTGAAAATTAG-TTTT-TAA
*
143402 ATATATATATTATATAGTTTTGAAAGTTAGTTTTTAA
1 ATATATATATTATATAGTTTTGAAAATTAGTTTTTAA
*
143439 A-ATATATATTATAT-GATTTTGAAAATTATTTTTTAA
1 ATATATATATTATATAG-TTTTGAAAATTAGTTTTTAA
* * * * *
143475 AAACATATATTGTATAGTTTTAAAAAAT-GTTTTTAA
1 ATATATATATTATATAGTTTTGAAAATTAGTTTTTAA
143511 TTTATTTATC
Statistics
Matches: 163, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
35 1 0.01
36 39 0.24
37 53 0.33
38 34 0.21
39 31 0.19
40 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.48
Consensus pattern (37 bp):
ATATATATATTATATAGTTTTGAAAATTAGTTTTTAA
Found at i:143464 original size:112 final size:112
Alignment explanation
Indices: 143288--143500 Score: 306
Period size: 112 Copynumber: 1.9 Consensus size: 112
143278 ATATATATAT
143288 ATATATATATTATATAGTTTTGAAAACATTTTTGAAAAACATATATATTATATAGTTTTGAAAAT
1 ATATATATATTATATAGTTTTGAAAACATTTTT--AAAACATATATATTATATAGTTTTGAAAAT
* *
143353 TAGTTTTTAAATATATATATTATATAGTTTTAAAAATTAGCTTTTAAAA
64 TAGTTTTTAAAAACATATATTATATAGTTTTAAAAATTAGCTTTTAAAA
**
143402 ATATATATATTATATAGTTTTGAAAGTTAGTTTTT-AAA-ATATATATTATAT-GATTTTGAAAA
1 ATATATATATTATATAGTTTTGAAA-ACA-TTTTTAAAACATATATATTATATAG-TTTTGAAAA
* *
143464 TTATTTTTTAAAAACATATATTGTATAGTTTTAAAAA
63 TTAGTTTTTAAAAACATATATTATATAGTTTTAAAAA
143501 ATGTTTTTAA
Statistics
Matches: 90, Mismatches: 6, Indels: 8
0.87 0.06 0.08
Matches are distributed among these distances:
111 1 0.01
112 55 0.61
113 3 0.03
114 25 0.28
115 1 0.01
116 5 0.06
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (112 bp):
ATATATATATTATATAGTTTTGAAAACATTTTTAAAACATATATATTATATAGTTTTGAAAATTA
GTTTTTAAAAACATATATTATATAGTTTTAAAAATTAGCTTTTAAAA
Found at i:143519 original size:4 final size:4
Alignment explanation
Indices: 143510--143567 Score: 71
Period size: 4 Copynumber: 14.0 Consensus size: 4
143500 AATGTTTTTA
* *
143510 ATTT ATTT ATCT ATTT TTTT ATTT ATTT ATTTT ATTT CATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT -ATTT ATTT ATTT
*
143560 ATCT ATTT
1 ATTT ATTT
143568 TCTTTCTTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
4 38 0.83
5 8 0.17
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:143568 original size:26 final size:26
Alignment explanation
Indices: 143522--143573 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
143512 TTATTTATCT
* *
143522 ATTTTTTTATTTATTTATTTTATTTC
1 ATTTATTTATTTATCTATTTTATTTC
*
143548 ATTTATTTATTTATCTATTTTCTTTC
1 ATTTATTTATTTATCTATTTTATTTC
143574 TTTCTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (26 bp):
ATTTATTTATTTATCTATTTTATTTC
Found at i:145004 original size:16 final size:18
Alignment explanation
Indices: 144966--145004 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
144956 ATTTTTTCTC
144966 TCATTTGATTCTTTTTTA
1 TCATTTGATTCTTTTTTA
144984 T-ATTT-ATTCTTTTTT-
1 TCATTTGATTCTTTTTTA
144999 TCATTT
1 TCATTT
145005 TTTCATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 14 0.70
17 4 0.20
18 1 0.05
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.72
Consensus pattern (18 bp):
TCATTTGATTCTTTTTTA
Found at i:147714 original size:16 final size:16
Alignment explanation
Indices: 147693--147725 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
147683 TTCTAAGAGT
147693 ATGAGTGTTCAATATC
1 ATGAGTGTTCAATATC
147709 ATGAGTGTTCAATATC
1 ATGAGTGTTCAATATC
147725 A
1 A
147726 AAATGTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (16 bp):
ATGAGTGTTCAATATC
Found at i:149684 original size:92 final size:92
Alignment explanation
Indices: 149525--149710 Score: 234
Period size: 92 Copynumber: 2.0 Consensus size: 92
149515 TCAAAATGAA
* *
149525 ACAAAAACATATGATTTCATAAAAAACGTACCAAAAGTGAAACTTTAGGTACTAAATGTGTCGTT
1 ACAAAAACATATGATTTCATAAAAAACATACCAAAAGTGAAACTTTAGGTACTAAATGTGTCATT
149590 TATCCAAAATAAATAATTTATAACTAT
66 TATCCAAAATAAATAATTTATAACTAT
* * * *
149617 ACAAAAACGTATGTTTTCATAAAAAAGAACATATCAAAAGTGAAACTTTATGTACTAAAT-T-T-
1 ACAAAAACATATGATTTCAT--AAAA-AACATACCAAAAGTGAAACTTTAGGTACTAAATGTGTC
** * *
149679 ATTTATCTTAAATAATTAATTTATAATTAT
63 ATTTATCCAAAATAAATAATTTATAACTAT
149709 AC
1 AC
149711 GTTGAGTAAT
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
92 45 0.56
93 1 0.01
94 5 0.06
95 30 0.37
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (92 bp):
ACAAAAACATATGATTTCATAAAAAACATACCAAAAGTGAAACTTTAGGTACTAAATGTGTCATT
TATCCAAAATAAATAATTTATAACTAT
Found at i:157257 original size:29 final size:29
Alignment explanation
Indices: 157228--157434 Score: 285
Period size: 29 Copynumber: 7.2 Consensus size: 29
157218 ATAAATTTAT
* * *
157228 TTACGAAATTAACACCCTTTTAAAAATAT
1 TTACGAAAATAGCACCCTTTTAAAAATAA
* *
157257 TTAGGAAAATAGCA-TCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
157285 TTACGAAAATAGCACCC-TTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
** *
157313 TTATAAAAATAACACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
157342 TTACAAAAATAGCACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
* *
157371 TTACAAAAATAACACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
157400 TTAC-AAAATAGCACCCTTTTGAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
157428 TTACGAA
1 TTACGAA
157435 TATGTCACCG
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
28 76 0.47
29 84 0.52
ACGTcount: A:0.50, C:0.15, G:0.05, T:0.29
Consensus pattern (29 bp):
TTACGAAAATAGCACCCTTTTAAAAATAA
Found at i:157281 original size:28 final size:29
Alignment explanation
Indices: 157240--157431 Score: 282
Period size: 28 Copynumber: 6.7 Consensus size: 29
157230 ACGAAATTAA
* **
157240 CACCCTTTTAAAAATATTTAGGAAAATAG
1 CACCCTTTTAAAAATAATTACAAAAATAG
* *
157269 CA-TCTTTTAAAAATAATTACGAAAATAG
1 CACCCTTTTAAAAATAATTACAAAAATAG
* *
157297 CACCC-TTTAAAAATAATTATAAAAATAA
1 CACCCTTTTAAAAATAATTACAAAAATAG
157325 CACCCTTTTAAAAATAATTACAAAAATAG
1 CACCCTTTTAAAAATAATTACAAAAATAG
*
157354 CACCCTTTTAAAAATAATTACAAAAATAA
1 CACCCTTTTAAAAATAATTACAAAAATAG
157383 CACCCTTTTAAAAATAATTAC-AAAATAG
1 CACCCTTTTAAAAATAATTACAAAAATAG
*
157411 CACCCTTTTGAAAATAATTAC
1 CACCCTTTTAAAAATAATTAC
157432 GAATATGTCA
Statistics
Matches: 149, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
28 76 0.51
29 73 0.49
ACGTcount: A:0.50, C:0.16, G:0.04, T:0.30
Consensus pattern (29 bp):
CACCCTTTTAAAAATAATTACAAAAATAG
Found at i:157301 original size:57 final size:58
Alignment explanation
Indices: 157228--157431 Score: 297
Period size: 57 Copynumber: 3.6 Consensus size: 58
157218 ATAAATTTAT
* * * ** * *
157228 TTACGAAATTAACACCCTTTTAAAAATATTTAGGAAAATAGCA-TCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAATTACAAAAATAACACCCTTTTAAAAATAA
*
157285 TTACGAAAATAGCACCC-TTTAAAAATAATTATAAAAATAACACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAATTACAAAAATAACACCCTTTTAAAAATAA
*
157342 TTACAAAAATAGCACCCTTTTAAAAATAATTACAAAAATAACACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAATTACAAAAATAACACCCTTTTAAAAATAA
*
157400 TTAC-AAAATAGCACCCTTTTGAAAATAATTAC
1 TTACGAAAATAGCACCCTTTTAAAAATAATTAC
157432 GAATATGTCA
Statistics
Matches: 135, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
56 21 0.16
57 71 0.53
58 43 0.32
ACGTcount: A:0.50, C:0.16, G:0.04, T:0.30
Consensus pattern (58 bp):
TTACGAAAATAGCACCCTTTTAAAAATAATTACAAAAATAACACCCTTTTAAAAATAA
Found at i:161737 original size:57 final size:57
Alignment explanation
Indices: 161664--161866 Score: 282
Period size: 56 Copynumber: 3.6 Consensus size: 57
161654 ATAAATTTAT
* * * * * *
161664 TTACGAAATTAACACCCTTTTAAAAATATTTAGGAAAATAGCATCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAATTACGAAAATAACACCTTTTAAAAATAA
* *
161721 TTACGAAAATAGCACCC-TTTAAATATAATTATGAAAATAACACCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAATTACGAAAATAACACCTTTTAAAAATAA
* *
161777 TTACGAAAATAGCACCCTTTTGAAAATAATTACAAAAATAACACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAATTACGAAAATAACA-CCTTTTAAAAATAA
* *
161835 TTACAAAAATAGCACCCTTTTGAAAATAATTA
1 TTACGAAAATAGCACCCTTTTAAAAATAATTA
161867 TGAATATGTC
Statistics
Matches: 132, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
56 51 0.39
57 36 0.27
58 45 0.34
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.31
Consensus pattern (57 bp):
TTACGAAAATAGCACCCTTTTAAAAATAATTACGAAAATAACACCTTTTAAAAATAA
Found at i:161879 original size:29 final size:29
Alignment explanation
Indices: 161664--161866 Score: 268
Period size: 29 Copynumber: 7.1 Consensus size: 29
161654 ATAAATTTAT
* * *
161664 TTACGAAATTAACACCCTTTTAAAAATAT
1 TTACGAAAATAGCACCCTTTTAAAAATAA
* *
161693 TTAGGAAAATAGCA-TCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
161721 TTACGAAAATAGCACCC-TTTAAATATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
* *
161749 TTATGAAAATAACA-CCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
*
161777 TTACGAAAATAGCACCCTTTTGAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
* *
161806 TTACAAAAATAACACCCTTTTAAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
* *
161835 TTACAAAAATAGCACCCTTTTGAAAATAA
1 TTACGAAAATAGCACCCTTTTAAAAATAA
161864 TTA
1 TTA
161867 TGAATATGTC
Statistics
Matches: 152, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 2 0.01
28 69 0.45
29 81 0.53
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.31
Consensus pattern (29 bp):
TTACGAAAATAGCACCCTTTTAAAAATAA
Done.