Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004646.1 Hibiscus syriacus cultivar Beakdansim tig00010416_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: 139767
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:8336 original size:76 final size:77
Alignment explanation
Indices: 8152--8323 Score: 265
Period size: 76 Copynumber: 2.2 Consensus size: 77
8142 TATTAATGTC
*
8152 CTTAGTGAACCATGACATTCTTGGATGTAACCTATTTTATTAATAAAAATAATAACATTACATAC
1 CTTAGTGAACCATGACATTCTTGGATGCAACCTATTTTATTAATAAAAATAATAACATTACATAC
8217 CCCAACCTATTT
66 CCCAACCTATTT
* * * **
8229 CTCAGTGAACCATGACATTCTTGGATGCAACCTATTTTATTAAT-AAAATATTATCATTACATGT
1 CTTAGTGAACCATGACATTCTTGGATGCAACCTATTTTATTAATAAAAATAATAACATTACATAC
*
8293 CGCAACCTATTT
66 CCCAACCTATTT
*
8305 CTTAGTGAACCATGGCATT
1 CTTAGTGAACCATGACATT
8324 TTTTGGCGCA
Statistics
Matches: 86, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
76 44 0.51
77 42 0.49
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.35
Consensus pattern (77 bp):
CTTAGTGAACCATGACATTCTTGGATGCAACCTATTTTATTAATAAAAATAATAACATTACATAC
CCCAACCTATTT
Found at i:8832 original size:77 final size:77
Alignment explanation
Indices: 8683--8848 Score: 181
Period size: 77 Copynumber: 2.1 Consensus size: 77
8673 AACTTTAGGC
* * * * * * *
8683 GCAACCCATTTTATTATTAAAATATTAAGATTCCAGATTATAACCTACTTTCTTAGTGAACCATG
1 GCAACCTATTTTATTATAAAAATATTAACATTACAGATCACAACATACTTTCTTAGTGAACCATG
* **
8748 GCATTCTTGGGT
66 ACATTCTTGGAA
* * *
8760 GCAACCTATTTTATTAATAAAAATATTGACATTACAGATCACAACAT-CTTTCTTAGTGAATCTT
1 GCAACCTATTTTATT-ATAAAAATATTAACATTACAGATCACAACATACTTTCTTAGTGAACCAT
*
8824 GACCTTCTTGGAA
65 GACATTCTTGGAA
8837 GCAACCTTATTT
1 GCAACC-TATTT
8849 CTTATATATA
Statistics
Matches: 73, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
77 44 0.60
78 29 0.40
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (77 bp):
GCAACCTATTTTATTATAAAAATATTAACATTACAGATCACAACATACTTTCTTAGTGAACCATG
ACATTCTTGGAA
Found at i:9103 original size:21 final size:21
Alignment explanation
Indices: 9078--9118 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9068 CTTTCTTTTA
9078 TTCT-TTCTT-TTATTCTTTC
1 TTCTCTTCTTCTTATTCTTTC
*
9097 TTCTCTTCTTCTTGTTCTTTC
1 TTCTCTTCTTCTTATTCTTTC
9118 T
1 T
9119 CCTTTATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 10 0.53
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCTCTTCTTCTTATTCTTTC
Found at i:9106 original size:12 final size:12
Alignment explanation
Indices: 9066--9098 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
9056 ACAACATCTT
9066 TTCTTTCTTTTA
1 TTCTTTCTTTTA
9078 TTCTTTCTTTTA
1 TTCTTTCTTTTA
9090 TTCTTTCTT
1 TTCTTTCTT
9099 CTCTTCTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.06, C:0.18, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTTCTTTTA
Found at i:9449 original size:65 final size:64
Alignment explanation
Indices: 9345--9479 Score: 216
Period size: 65 Copynumber: 2.1 Consensus size: 64
9335 ATCTTTATCT
* * *
9345 GGTTTCATCTTAAAATTTTCATAGTTATGGTTGAGAAGATCGATTTTTGTTTCCCTCACTTCACC
1 GGTTTCATCTTAAAATTTTCATAGATATGGTTAAGAAGATCAATTTTTGTTT-CCTCACTTCACC
* *
9410 GGTTTCATCTTATAATTTTCATAGATATGGTTAAGAAGATCAATTTTTGTTTCCTCACTTCACT
1 GGTTTCATCTTAAAATTTTCATAGATATGGTTAAGAAGATCAATTTTTGTTTCCTCACTTCACC
9474 GGTTTC
1 GGTTTC
9480 TTCATGAGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
64 17 0.26
65 48 0.74
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (64 bp):
GGTTTCATCTTAAAATTTTCATAGATATGGTTAAGAAGATCAATTTTTGTTTCCTCACTTCACC
Found at i:12285 original size:20 final size:20
Alignment explanation
Indices: 12260--12302 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
12250 TCATGGGTAC
* *
12260 CGATACTGAACCTTTAGTAT
1 CGATACTAAAACTTTAGTAT
*
12280 CGATACTAAAACTTTGGTAT
1 CGATACTAAAACTTTAGTAT
12300 CGA
1 CGA
12303 ACCCACATGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (20 bp):
CGATACTAAAACTTTAGTAT
Found at i:12382 original size:20 final size:20
Alignment explanation
Indices: 12357--12467 Score: 195
Period size: 20 Copynumber: 5.5 Consensus size: 20
12347 GGATTAAGAC
12357 AGTATCGATACCCTCATGTG
1 AGTATCGATACCCTCATGTG
* *
12377 AGTATCGATACCCTTATATG
1 AGTATCGATACCCTCATGTG
12397 AGTATCGATACCCTCATGTG
1 AGTATCGATACCCTCATGTG
*
12417 AGTATCGATACCCTCATATG
1 AGTATCGATACCCTCATGTG
12437 AGTATCGATACCCTCATGTG
1 AGTATCGATACCCTCATGTG
12457 AGTATCGATAC
1 AGTATCGATAC
12468 TAAGGTGTTG
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 85 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (20 bp):
AGTATCGATACCCTCATGTG
Found at i:14909 original size:22 final size:21
Alignment explanation
Indices: 14874--14932 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
14864 TCATTGGAAT
*
14874 AGGAGGTTTAGAAACCAGAAATG
1 AGGA-GTTTCGAAACCAGAAA-G
14897 AGGAGTTTCGAAACCAGAAAG
1 AGGAGTTTCGAAACCAGAAAG
*
14918 AGG-GTTTCAAAACCA
1 AGGAGTTTCGAAACCA
14933 TAAGTGAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 11 0.32
21 4 0.12
22 15 0.44
23 4 0.12
ACGTcount: A:0.42, C:0.14, G:0.27, T:0.17
Consensus pattern (21 bp):
AGGAGTTTCGAAACCAGAAAG
Found at i:14930 original size:20 final size:22
Alignment explanation
Indices: 14885--14932 Score: 73
Period size: 20 Copynumber: 2.3 Consensus size: 22
14875 GGAGGTTTAG
*
14885 AAACCAGAAATGAGGAGTTTCG
1 AAACCAGAAATGAGGAGTTTCA
14907 AAACCAGAAA-GAGG-GTTTCA
1 AAACCAGAAATGAGGAGTTTCA
14927 AAACCA
1 AAACCA
14933 TAAGTGAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 11 0.44
21 4 0.16
22 10 0.40
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.15
Consensus pattern (22 bp):
AAACCAGAAATGAGGAGTTTCA
Found at i:18248 original size:53 final size:53
Alignment explanation
Indices: 18191--18301 Score: 150
Period size: 53 Copynumber: 2.1 Consensus size: 53
18181 ATATTTACAC
* * ** *
18191 TTATATATGAATCATATCAATTTAAACTAAAATAAATTTAAAAAAAAATATTA
1 TTATATATGAATCAAATAAATTTAAACTAAAATAAAACTAAAAAAAAATATAA
* * *
18244 TTATATATGAATTAAATAAATTTAAACTATAATAAAACTATAAAAAAATATAA
1 TTATATATGAATCAAATAAATTTAAACTAAAATAAAACTAAAAAAAAATATAA
18297 TTATA
1 TTATA
18302 ATAAAGATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (53 bp):
TTATATATGAATCAAATAAATTTAAACTAAAATAAAACTAAAAAAAAATATAA
Found at i:19184 original size:14 final size:14
Alignment explanation
Indices: 19152--19178 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19142 TTTAAACTAT
19152 AATAAAAATATAAA
1 AATAAAAATATAAA
19166 AATAAAAATATAA
1 AATAAAAATATAA
19179 TTATAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAAAAATATAAA
Found at i:20534 original size:21 final size:20
Alignment explanation
Indices: 20507--20604 Score: 88
Period size: 20 Copynumber: 4.8 Consensus size: 20
20497 AATCAGTGTC
20507 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
20528 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
20548 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
20568 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
20589 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
20605 ACACATAAAT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 31 0.51
21 30 0.49
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:20557 original size:41 final size:41
Alignment explanation
Indices: 20448--20604 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 41
20438 AAATGACCAA
* **
20448 CAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGA-TCCC
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
* ** * *
20487 CAGAATCGCAAATC-AGTGTCCAAAATCGCAACGCGATTCTT-
1 CAAAATCGCAACGCGAATAT-CAAAATCGCAACGCGATT-TTC
* * * **
20528 GAAAATCGCAATGCG-ATAGTCAAATTCGCATTGCGATTTTC
1 CAAAATCGCAACGCGAATA-TCAAAATCGCAACGCGATTTTC
*
20569 CAAAATCGCAACGCGAATATGAAAATCGCAACGCGA
1 CAAAATCGCAACGCGAATATCAAAATCGCAACGCGA
20605 ACACATAAAT
Statistics
Matches: 87, Mismatches: 23, Indels: 14
0.70 0.19 0.11
Matches are distributed among these distances:
38 1 0.01
39 12 0.14
40 17 0.20
41 53 0.61
42 4 0.05
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (41 bp):
CAAAATCGCAACGCGAATATCAAAATCGCAACGCGATTTTC
Found at i:20614 original size:20 final size:20
Alignment explanation
Indices: 20591--20761 Score: 107
Period size: 20 Copynumber: 8.6 Consensus size: 20
20581 GCGAATATGA
20591 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
20611 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
20631 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
** *
20651 AAATCGCAACGCGTTTCCGT
1 AAATCGCAACGCGTAACCAT
* * *
20671 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
20691 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
* **
20711 AAATCGCAACGAG-AATCTGT
1 AAATCGCAACGCGTAA-CCAT
* *
20731 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGTAA-CCAT
20751 AAATCGCAACG
1 AAATCGCAACG
20762 AGAATCTGTA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.02
20 127 0.97
21 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:20656 original size:60 final size:58
Alignment explanation
Indices: 20571--20780 Score: 208
Period size: 60 Copynumber: 3.5 Consensus size: 58
20561 CGATTTTCCA
* ** * *
20571 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCGAAC-CGTAAATCGCAA-GCGTATCCGT
* ** *
20631 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTTTCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGTGAATCCGTAAATCGCAACGCG-AACCGTAAATCGCAA-GCGTATCCGT
* *
20691 AAATCGCAACGAT-AATCCGTAAATCGCAACGAGAATCTGTAAATCGCAA-CGATAATCCGT
1 AAATCGCAACG-TGAATCCGTAAATCGCAACGCGAA-CCGTAAATCGCAAGCG-T-ATCCGT
* * *
20751 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGTGAATCCGTAAATCGCAAC
20781 ACTGAAATTT
Statistics
Matches: 125, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
58 2 0.02
59 1 0.01
60 120 0.96
61 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (58 bp):
AAATCGCAACGTGAATCCGTAAATCGCAACGCGAACCGTAAATCGCAAGCGTATCCGT
Found at i:20762 original size:20 final size:20
Alignment explanation
Indices: 20625--20780 Score: 174
Period size: 20 Copynumber: 7.8 Consensus size: 20
20615 CGCAATGCGT
*
20625 ATCCGTAAATCGCAACG-TGT
1 ATCCGTAAATCGCAACGAT-A
*
20645 ATCCGTAAATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
* * *
20665 TTCCGTATATCGCAACGCGT-
1 ATCCGTAAATCGCAACG-ATA
20685 ATCCGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
20705 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
*
20725 ATCTGTAAATCGCAACGATA
1 ATCCGTAAATCGCAACGATA
*
20745 ATCCGTAAATCGCAACGAGA
1 ATCCGTAAATCGCAACGATA
* *
20765 ATCTGTAAATCACAAC
1 ATCCGTAAATCGCAAC
20781 ACTGAAATTT
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
19 1 0.01
20 119 0.98
22 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (20 bp):
ATCCGTAAATCGCAACGATA
Found at i:20762 original size:40 final size:40
Alignment explanation
Indices: 20591--20780 Score: 208
Period size: 40 Copynumber: 4.8 Consensus size: 40
20581 GCGAATATGA
* *
20591 AAATCGCAACGCGAA-CACATAAATCGCAATGCG-T-ATCCGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAA--CGATAATCCGT
* * * *
20631 AAATCGCAACGTGTATCCGTAAATCGCAACGCGT-TTCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACG-ATAATCCGT
* * *
20671 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
20711 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
20751 AAATCGCAACGAGAATCTGTAAATCACAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
20781 ACTGAAATTT
Statistics
Matches: 133, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 129 0.97
41 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (40 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:21489 original size:24 final size:24
Alignment explanation
Indices: 21462--21508 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
21452 AAATTCGGTC
21462 TTGGTCAATATC-CGGACTTTGATA
1 TTGGTCAATA-CACGGACTTTGATA
*
21486 TTGGTCAATACACGGATTTTGAT
1 TTGGTCAATACACGGACTTTGAT
21509 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATACACGGACTTTGATA
Found at i:21700 original size:12 final size:12
Alignment explanation
Indices: 21683--21707 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21673 ATATAATCCT
21683 GAAGAAGAAAAA
1 GAAGAAGAAAAA
21695 GAAGAAGAAAAA
1 GAAGAAGAAAAA
21707 G
1 G
21708 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:22821 original size:19 final size:19
Alignment explanation
Indices: 22799--23105 Score: 340
Period size: 19 Copynumber: 17.4 Consensus size: 19
22789 CGGAAATTAC
*
22799 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
22818 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
22832 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
22852 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
22866 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
22885 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
22899 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
22918 AATCGCAATGCGAAATAAA
1 AATCGCAATGCGAAATGAA
*
22937 AATCGAAAT--GAAA-G--
1 AATCGCAATGCGAAATGAA
22951 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
22970 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
22989 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
23008 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
23027 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
* *
23041 AATCGCAATGCAAAATGAC
1 AATCGCAATGCGAAATGAA
*
23060 TATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
23079 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
23098 AATCGCAA
1 AATCGCAA
23106 CGAGAGAATC
Statistics
Matches: 245, Mismatches: 17, Indels: 52
0.78 0.05 0.17
Matches are distributed among these distances:
14 48 0.20
15 2 0.01
16 13 0.05
17 14 0.06
18 3 0.01
19 152 0.62
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:22871 original size:14 final size:14
Alignment explanation
Indices: 22852--22906 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
22842 CGGAAATGAA
22852 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
22866 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
22885 AATCGCAACGAGAG
1 AATCGCAACGAGAG
22899 AATCGCAA
1 AATCGCAA
22907 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:22988 original size:71 final size:68
Alignment explanation
Indices: 22832--23127 Score: 327
Period size: 71 Copynumber: 4.2 Consensus size: 68
22822 CCAACATGAA
*
22832 AATCGCAATGCGGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAAAATCGCAAT--GAAATG-AAATCGCA
*
22892 ACGAGAG
62 ACGAAAG
* *
22899 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATAAAAATCGAAATGAAA-G-AATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGAAATGAAATCGCAA--C
22962 GAAATG
64 GAAA-G
22968 AAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
1 --AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAT--GAAATG-AAATCGC
*
23033 AACGACAG
61 AACGAAAG
* **
23041 AATCGCAATGCAAAATGACTATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAT--GAAATG-AAATCGCAA
*
23106 CGAGAG
63 CGAAAG
23112 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
23128 TATAAACGCA
Statistics
Matches: 202, Mismatches: 12, Indels: 26
0.84 0.05 0.11
Matches are distributed among these distances:
66 24 0.12
67 11 0.05
68 7 0.03
69 5 0.02
70 1 0.00
71 136 0.67
73 5 0.02
74 5 0.02
76 8 0.04
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (68 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGAAATGAAATCGCAACGA
AAG
Found at i:22998 original size:38 final size:38
Alignment explanation
Indices: 22940--23127 Score: 243
Period size: 38 Copynumber: 5.2 Consensus size: 38
22930 AAATAAAAAT
22940 CGAAATGAAAGAATCGCAATGCGAAATGAAAATCGCAATG
1 CGAAATG-AA-AATCGCAATGCGAAATGAAAATCGCAATG
22980 CGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATG
1 CGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATG
*
23018 CGAAATGAAAATCGCAA--CGACA-G--AATCGCAATG
1 CGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATG
* **
23051 CAAAATGACTATCGCAATGCGAAATGAAAATCGCAATG
1 CGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATG
*
23089 CGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATG
1 CGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATG
23122 CGAAAT
1 CGAAAT
23128 TATAAACGCA
Statistics
Matches: 134, Mismatches: 9, Indels: 17
0.84 0.06 0.11
Matches are distributed among these distances:
33 42 0.31
34 1 0.01
35 5 0.04
36 7 0.05
38 70 0.52
39 2 0.01
40 7 0.05
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (38 bp):
CGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATG
Found at i:23143 original size:52 final size:52
Alignment explanation
Indices: 22866--23127 Score: 327
Period size: 52 Copynumber: 4.9 Consensus size: 52
22856 GCAACGAGAG
22866 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
* * * *
22918 AATCGCAATGCGAAATAAAAATCGAAATGAAAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
*
22970 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
* * *
23027 AATCGCAA--CGACA-G--AATCGCAATGCAAAATGACTATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAGA-GA--ATCGCAATGCGAAATGAA
23079 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAAT
23128 TATAAACGCA
Statistics
Matches: 181, Mismatches: 16, Indels: 26
0.81 0.07 0.12
Matches are distributed among these distances:
49 1 0.01
50 2 0.01
52 125 0.69
54 8 0.04
55 8 0.04
56 1 0.01
57 36 0.20
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAA
Found at i:23209 original size:38 final size:39
Alignment explanation
Indices: 23134--23210 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 39
23124 AAATTATAAA
* **
23134 CGCATTGCGATTTTCATTTTCGCATTGCGATTTTCATTT
1 CGCATTACGATTTTCATTTTCGCATTGCGATAGTCATTT
23173 CGCATTACGATTTTCA-TTTCGCATTGCGATAGTCATTT
1 CGCATTACGATTTTCATTTTCGCATTGCGATAGTCATTT
23211 TTGCCTTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
38 20 0.57
39 15 0.43
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (39 bp):
CGCATTACGATTTTCATTTTCGCATTGCGATAGTCATTT
Found at i:23210 original size:19 final size:19
Alignment explanation
Indices: 23134--23202 Score: 120
Period size: 19 Copynumber: 3.6 Consensus size: 19
23124 AAATTATAAA
23134 CGCATTGCGATTTTCATTTT
1 CGCATTGCGATTTTCA-TTT
23154 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
*
23173 CGCATTACGATTTTCATTT
1 CGCATTGCGATTTTCATTT
23192 CGCATTGCGAT
1 CGCATTGCGAT
23203 AGTCATTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 31 0.66
20 16 0.34
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:23328 original size:14 final size:14
Alignment explanation
Indices: 23309--23345 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
23299 CATCAATTAC
23309 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
23323 ACAAATCATCTTTT
1 ACAAATCAACTTTT
23337 ACAAATCAA
1 ACAAATCAA
23346 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:23787 original size:19 final size:19
Alignment explanation
Indices: 23735--23860 Score: 101
Period size: 19 Copynumber: 7.1 Consensus size: 19
23725 TCTTTTGGTT
*
23735 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
***
23754 GAGAATGACTGTCGCAACGC
1 GA-AATGAAAATCGCAACGC
23774 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
23791 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
23807 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
23824 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
23840 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
23859 GA
1 GA
23861 TTTTGGTTTC
Statistics
Matches: 83, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
14 20 0.24
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 36 0.43
20 15 0.18
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:23801 original size:14 final size:14
Alignment explanation
Indices: 23782--23838 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
23772 GCGAAATGAA
23782 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
23796 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
23815 AATCGCAACGAGAG
1 AATCGCAACGAGAG
23829 AATCGCAACG
1 AATCGCAACG
23839 CGAAATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:23807 original size:33 final size:33
Alignment explanation
Indices: 23735--23855 Score: 179
Period size: 33 Copynumber: 3.5 Consensus size: 33
23725 TCTTTTGGTT
23735 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGC
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAACGC
23774 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
23807 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
23840 GAAATAAAAATCGCAA
1 GAAATGAAAATCGCAA
23856 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
33 57 0.70
36 1 0.01
38 1 0.01
39 22 0.27
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:23891 original size:14 final size:14
Alignment explanation
Indices: 23872--23928 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
23862 TTTGGTTTCG
23872 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
23886 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
23905 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
23919 CGTTGCGATT
1 CGTTGCGATT
23929 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:23904 original size:33 final size:33
Alignment explanation
Indices: 23856--23945 Score: 162
Period size: 33 Copynumber: 2.7 Consensus size: 33
23846 AAAATCGCAA
**
23856 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
23889 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
23922 TGCGATTTTCATTTCGCGTTGCGA
1 TGCGATTTTCATTTCGCGTTGCGA
23946 CAGTCATTCT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.09, C:0.22, G:0.24, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:23910 original size:19 final size:19
Alignment explanation
Indices: 23886--23945 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
23876 GCGATTCTCT
23886 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
23905 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
23919 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
23938 CGTTGCGA
1 CGTTGCGA
23946 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.43
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:23963 original size:20 final size:20
Alignment explanation
Indices: 23912--23966 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
23902 TCGCGTTGCG
***
23912 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGACAGTC
*
23932 ATT-TCGCGTTGCGACAGTC
1 ATTCTCTCGTTGCGACAGTC
23951 ATTCTCTCGTTGCGAC
1 ATTCTCTCGTTGCGAC
23967 TCTTCTGCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.13, C:0.27, G:0.20, T:0.40
Consensus pattern (20 bp):
ATTCTCTCGTTGCGACAGTC
Found at i:24087 original size:33 final size:33
Alignment explanation
Indices: 24045--24115 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
24035 AATACTAACT
24045 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
24078 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
24111 TGAAA
1 TGAAA
24116 TCTAAGTGAA
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:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:24347 original size:22 final size:22
Alignment explanation
Indices: 24295--24349 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
24285 TGGTTGTGAG
**
24295 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
24317 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
24339 GGATTTCTTCG
1 GGATTTCTTCG
24350 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:24521 original size:20 final size:20
Alignment explanation
Indices: 24496--24689 Score: 203
Period size: 20 Copynumber: 9.7 Consensus size: 20
24486 CTTTAAATAT
24496 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
24516 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
* *
24538 -TCGTTGCGATTTACCGATA
1 CGCGTTGCGATTTACGGATA
*
24557 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
24577 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
24597 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
24617 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
24637 CGCATTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
24657 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
24677 CGCGTTGCGATTT
1 CGCGTTGCGATTT
24690 TGGAAAATCG
Statistics
Matches: 143, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
19 2 0.01
20 124 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:24661 original size:60 final size:60
Alignment explanation
Indices: 24498--24669 Score: 236
Period size: 60 Copynumber: 2.9 Consensus size: 60
24488 TTAAATATCG
* ** *
24498 CGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGATACG
1 CGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTACCGATACA
* *** * *
24559 CGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACCGATACA
*
24619 CGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTT
1 CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTT
24670 TCATATTCGC
Statistics
Matches: 95, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
60 69 0.73
61 26 0.27
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (60 bp):
CGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTACCGATACA
Found at i:24683 original size:60 final size:60
Alignment explanation
Indices: 24495--24810 Score: 232
Period size: 60 Copynumber: 5.2 Consensus size: 60
24485 GCTTTAAATA
* ** * *
24495 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACCGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGA-TTTATGTATTCGCGTTGCGATTTTCAGAT
* * *** * * *
24556 ACGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * *
24616 ACACGTTGCGATTTACGGATACGCATTGCGATTTATGTGTTCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
* * * * * *
24676 TCGCGTTGCGATTT-TGGAAAATCGCAATGCGAATT-TG-ACTATCGCATTGCGATTTTCAAGAA
1 TCGCGTTGCGATTTACGG-ATA-CGCATTGCGATTTATGTA-T-TCGCGTTGCGATTTTC-AGAT
* * ** * * *
24738 TCGCGTTGCGATTT-TGGACACTG-ATTTGCGATTCTGGGGA-TCGCGTTGCGATTTTTA-TT
1 TCGCGTTGCGATTTACGGATAC-GCA-TTGCGATT-TATGTATTCGCGTTGCGATTTTCAGAT
24797 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
24811 TGTTGGTCAT
Statistics
Matches: 207, Mismatches: 38, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
59 16 0.08
60 92 0.44
61 77 0.37
62 20 0.10
63 1 0.00
64 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGGATACGCATTGCGATTTATGTATTCGCGTTGCGATTTTCAGAT
Found at i:24706 original size:21 final size:20
Alignment explanation
Indices: 24656--24753 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
24646 ATTTATGTGT
* * * *
24656 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
24676 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
24697 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
24717 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
24738 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
24754 GACACTGATT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:24748 original size:41 final size:41
Alignment explanation
Indices: 24656--24812 Score: 110
Period size: 41 Copynumber: 3.9 Consensus size: 41
24646 ATTTATGTGT
* * *
24656 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
24697 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
* * * ***
24738 TCGCGTTGCGATTTTGGACACT-G-ATTTGCGATTCTG-GGGA
1 TCGCGTTGCGATTTT-GATATTCGCA-TTGCGATTTTGCAAAA
* *
24778 TCGCGTTGCGATTTTTAT-TTCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTG
24813 TTGGTCATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.01
39 12 0.13
40 19 0.21
41 52 0.58
42 5 0.06
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:28441 original size:150 final size:150
Alignment explanation
Indices: 28170--28620 Score: 848
Period size: 150 Copynumber: 3.0 Consensus size: 150
28160 GCTTAAAACA
*
28170 TTATAAATTACTTGATTTGATTATTAATCCGACTATAAGGTATAATGAAGCTCAGTAACACCTAC
1 TTATAAATTACTTGATTTGATTATTAATCCGACTATAAGGTATAATGAAGCTTAGTAACACCTAC
28235 CTGAGTCCGGGCAGAGTATTGGATCCTTCAAGGAGGAAGCAAGGTTCTCCTTTGCAAAGATTTAG
66 CTGAGTCCGGGCAGAGTATTGGATCCTTCAAGGAGGAAGCAAGGTTCTCCTTTGCAAAGATTTAG
28300 CCATAGCTATAGCTCACCAC
131 CCATAGCTATAGCTCACCAC
* *
28320 TTATAAATTACTTGACTTGATTATTAATCCGACTATAAGGTATAATGAAGCTTAGTAACACCAAC
1 TTATAAATTACTTGATTTGATTATTAATCCGACTATAAGGTATAATGAAGCTTAGTAACACCTAC
28385 CTGAGTCCGGGCAGAGTATTGGATCCTTCAAGGAGGAAGCAAGGTTCTCCTTTGCAAAGATTTAG
66 CTGAGTCCGGGCAGAGTATTGGATCCTTCAAGGAGGAAGCAAGGTTCTCCTTTGCAAAGATTTAG
28450 CCATAGCTATAGCTCACCAC
131 CCATAGCTATAGCTCACCAC
28470 TTATAAATTACTTGATTTGATTATTAATCCGACTATAAGGTATAATGAAGCTTAGTAACACCTAC
1 TTATAAATTACTTGATTTGATTATTAATCCGACTATAAGGTATAATGAAGCTTAGTAACACCTAC
* *
28535 CTGAGTCTGGGAAGAGTATTGGATCCTTCAAGGAGGAAGCAAGGTTCTCCTTTGCAAAGATTTAG
66 CTGAGTCCGGGCAGAGTATTGGATCCTTCAAGGAGGAAGCAAGGTTCTCCTTTGCAAAGATTTAG
*
28600 CCATAGCTCTAGCTCACCAC
131 CCATAGCTATAGCTCACCAC
28620 T
1 T
28621 CGTCCGTGAC
Statistics
Matches: 293, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 293 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (150 bp):
TTATAAATTACTTGATTTGATTATTAATCCGACTATAAGGTATAATGAAGCTTAGTAACACCTAC
CTGAGTCCGGGCAGAGTATTGGATCCTTCAAGGAGGAAGCAAGGTTCTCCTTTGCAAAGATTTAG
CCATAGCTATAGCTCACCAC
Found at i:37987 original size:19 final size:19
Alignment explanation
Indices: 37963--38011 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
37953 AGGGGGTGCT
37963 GTAAATTCAGTTTCATTGG
1 GTAAATTCAGTTTCATTGG
37982 GTAAATTCAGTTTCATTGG
1 GTAAATTCAGTTTCATTGG
*
38001 GTATATTCAGT
1 GTAAATTCAGT
38012 GAGTTTGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (19 bp):
GTAAATTCAGTTTCATTGG
Found at i:41610 original size:60 final size:60
Alignment explanation
Indices: 41517--41647 Score: 253
Period size: 60 Copynumber: 2.2 Consensus size: 60
41507 CCAAAGCTTG
*
41517 CTCCTGAAACTCGGCAACTCTGTGCTCCTGAACTCCGGGTTTATTCAAGGCGTCATTACT
1 CTCCTGAAACTCGACAACTCTGTGCTCCTGAACTCCGGGTTTATTCAAGGCGTCATTACT
41577 CTCCTGAAACTCGACAACTCTGTGCTCCTGAACTCCGGGTTTATTCAAGGCGTCATTACT
1 CTCCTGAAACTCGACAACTCTGTGCTCCTGAACTCCGGGTTTATTCAAGGCGTCATTACT
41637 CTCCTGAAACT
1 CTCCTGAAACT
41648 GATATAGCAG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 70 1.00
ACGTcount: A:0.21, C:0.31, G:0.18, T:0.30
Consensus pattern (60 bp):
CTCCTGAAACTCGACAACTCTGTGCTCCTGAACTCCGGGTTTATTCAAGGCGTCATTACT
Found at i:52468 original size:2 final size:2
Alignment explanation
Indices: 52463--52536 Score: 148
Period size: 2 Copynumber: 37.0 Consensus size: 2
52453 ATTAGAAAAA
52463 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
52505 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
52537 GCAAGTATTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 72 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55855 original size:28 final size:31
Alignment explanation
Indices: 55822--55880 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
55812 ATAGTTATAA
55822 TCAAAATACT-TA-CTTTAACA-TTTATTTT
1 TCAAAATACTATAGCTTTAACACTTTATTTT
* *
55850 TCAAAATATTATAGCTTTAATACTTTATTTT
1 TCAAAATACTATAGCTTTAACACTTTATTTT
55881 AGAAAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 9 0.35
29 2 0.08
30 7 0.27
31 8 0.31
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.51
Consensus pattern (31 bp):
TCAAAATACTATAGCTTTAACACTTTATTTT
Found at i:56522 original size:59 final size:60
Alignment explanation
Indices: 56385--56515 Score: 167
Period size: 60 Copynumber: 2.2 Consensus size: 60
56375 CCATATGTCC
* * * *
56385 CCAAATTATAACTCTCATTTTAAATTAACCCTTAAACTTCTGAATATTCCAAATTCATCT
1 CCAAAATATGACTCTTATTTTAAACTAACCCTTAAACTTCTGAATATTCCAAATTCATCT
* * *
56445 CCAAAATATGACTCTTATTTTAAACTATCCCTTAAACTT-TGAATATTTCAATTTCATAC-
1 CCAAAATATGACTCTTATTTTAAACTAACCCTTAAACTTCTGAATATTCCAAATTCAT-CT
*
56504 CCAAACTATGAC
1 CCAAAATATGAC
56516 ATTTATTCTA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
59 27 0.44
60 35 0.56
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (60 bp):
CCAAAATATGACTCTTATTTTAAACTAACCCTTAAACTTCTGAATATTCCAAATTCATCT
Found at i:56543 original size:59 final size:59
Alignment explanation
Indices: 56385--56527 Score: 155
Period size: 59 Copynumber: 2.4 Consensus size: 59
56375 CCATATGTCC
* * * * * *
56385 CCAAATTATAACTCTCATTTTAAATTAACCCTTAAACTTCTGAATATTCCAAATTCATCT
1 CCAAAATATGACTCTTATTCTAAACTATCCCTTAAACTT-TGAATATTCCAAATTCATCT
* * *
56445 CCAAAATATGACTCTTATTTTAAACTATCCCTTAAACTTTGAATATTTCAATTTCATAC-
1 CCAAAATATGACTCTTATTCTAAACTATCCCTTAAACTTTGAATATTCCAAATTCAT-CT
*
56504 CCAAACTATGACAT-TTATTCTAAA
1 CCAAAATATGAC-TCTTATTCTAAA
56528 GTGGTCCCTA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 36 0.50
60 36 0.50
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.38
Consensus pattern (59 bp):
CCAAAATATGACTCTTATTCTAAACTATCCCTTAAACTTTGAATATTCCAAATTCATCT
Found at i:60840 original size:17 final size:17
Alignment explanation
Indices: 60820--60852 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
60810 AAAAAATTGA
*
60820 AAAACTTTTAAAACCCC
1 AAAACTTTGAAAACCCC
60837 AAAACTTTGAAAACCC
1 AAAACTTTGAAAACCC
60853 TAATTCTAAT
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:0.48, C:0.27, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAACTTTGAAAACCCC
Found at i:61438 original size:10 final size:10
Alignment explanation
Indices: 61423--61450 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
61413 TTGAAAAATA
61423 AAAAATGTGT
1 AAAAATGTGT
61433 AAAAATGTGT
1 AAAAATGTGT
61443 AAAAATGT
1 AAAAATGT
61451 AAAATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.18, T:0.29
Consensus pattern (10 bp):
AAAAATGTGT
Found at i:62680 original size:42 final size:42
Alignment explanation
Indices: 62621--62722 Score: 159
Period size: 42 Copynumber: 2.4 Consensus size: 42
62611 CGTGCATGTT
* **
62621 GTTGCTGCTGCTCCCTCATGCACTCGTGATTCCTTTTCTGCC
1 GTTGCTGCTGCTCCCTCATGCACGCGTGATTCCTCCTCTGCC
*
62663 GTTGCTGCTACTCCCTCATGCACGCGTGATTCCTCCTCTGCC
1 GTTGCTGCTGCTCCCTCATGCACGCGTGATTCCTCCTCTGCC
*
62705 GCTGCTGCTGCTCCCTCA
1 GTTGCTGCTGCTCCCTCA
62723 CCTCATGCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.08, C:0.39, G:0.20, T:0.33
Consensus pattern (42 bp):
GTTGCTGCTGCTCCCTCATGCACGCGTGATTCCTCCTCTGCC
Found at i:62884 original size:4 final size:4
Alignment explanation
Indices: 62875--63018 Score: 261
Period size: 4 Copynumber: 35.8 Consensus size: 4
62865 CATGAAACAC
62875 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
62923 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA
* *
62971 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA GAGA GAAGA GAGA AAG
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA AAGA -AAGA AAGA AAG
63019 GAAAAGAAGA
Statistics
Matches: 135, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
4 132 0.98
5 3 0.02
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:63204 original size:58 final size:54
Alignment explanation
Indices: 63142--63251 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 54
63132 ATTTAGTTAA
*
63142 TTAGTTTGTTAGTTTAAGTTATATATTATATTATATAAAAAAATAGTTAATTAGTTTG
1 TTAGTTTCTTAGTTTAAG-T-TATATTATA-TAT-TAAAAAAATAGTTAATTAGTTTG
* * *
63200 TTAGTTTCTTAGTTTAAGTTATATTATATGTTAAAAAATTATTTAATTAGTT
1 TTAGTTTCTTAGTTTAAGTTATATTATATATTAAAAAAATAGTTAATTAGTT
63252 GTTTGTTACT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
54 19 0.40
55 2 0.04
56 9 0.19
57 1 0.02
58 17 0.35
ACGTcount: A:0.36, C:0.01, G:0.11, T:0.52
Consensus pattern (54 bp):
TTAGTTTCTTAGTTTAAGTTATATTATATATTAAAAAAATAGTTAATTAGTTTG
Found at i:63268 original size:53 final size:58
Alignment explanation
Indices: 63150--63269 Score: 144
Period size: 54 Copynumber: 2.2 Consensus size: 58
63140 AATTAGTTTG
*
63150 TTAGTTTAAGTTATATATTATATTATATAAAAAAATAGTTAATTAGTTTGTTAGTTTC
1 TTAGTTTAAGTTATATATTATATTATATAAAAAAATAGTTAATTAGTTTGTTAGTTAC
* * * *
63208 TTAGTTTAAG-T-TATATTATA-TGT-TAAAAAATTATTTAATTAG-TTGTTTGTTAC
1 TTAGTTTAAGTTATATATTATATTATATAAAAAAATAGTTAATTAGTTTGTTAGTTAC
63261 TGT-GTTTAA
1 T-TAGTTTAA
63270 ACGTATATTA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
53 16 0.29
54 18 0.32
55 2 0.04
56 9 0.16
57 1 0.02
58 10 0.18
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.52
Consensus pattern (58 bp):
TTAGTTTAAGTTATATATTATATTATATAAAAAAATAGTTAATTAGTTTGTTAGTTAC
Found at i:63690 original size:17 final size:17
Alignment explanation
Indices: 63668--63727 Score: 84
Period size: 17 Copynumber: 3.4 Consensus size: 17
63658 ATTTATTCCC
63668 GTTTAAAAAAATATTTT
1 GTTTAAAAAAATATTTT
*
63685 GTTTAAAAATATTTATTGTT
1 GTTTAAAAA-A-ATATT-TT
63705 GTTTAAAAAAATATTTT
1 GTTTAAAAAAATATTTT
63722 GTTTAA
1 GTTTAA
63728 TTTATATTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
17 17 0.45
18 5 0.13
19 5 0.13
20 11 0.29
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (17 bp):
GTTTAAAAAAATATTTT
Found at i:67021 original size:11 final size:11
Alignment explanation
Indices: 67005--67046 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
66995 TTTAATTGAA
67005 TTATTTATATT
1 TTATTTATATT
*
67016 TTATTTTTATT
1 TTATTTATATT
*
67027 TTATCTTAT-TG
1 TTAT-TTATATT
67038 TTATTTATA
1 TTATTTATA
67047 AATAGTCGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 4 0.15
11 19 0.73
12 3 0.12
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (11 bp):
TTATTTATATT
Found at i:67041 original size:16 final size:17
Alignment explanation
Indices: 67005--67046 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
66995 TTTAATTGAA
* *
67005 TTATTTATATTTTATTT
1 TTATTTATATCTTATTG
67022 TTATTT-TATCTTATTG
1 TTATTTATATCTTATTG
67038 TTATTTATA
1 TTATTTATA
67047 AATAGTCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATTTATATCTTATTG
Found at i:67656 original size:22 final size:22
Alignment explanation
Indices: 67629--67670 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
67619 AAATAGTTGA
*
67629 ATTTATAAATAATCGAATTTAT
1 ATTTATAAATAATCAAATTTAT
*
67651 ATTTATAAATAGTCAAATTT
1 ATTTATAAATAATCAAATTT
67671 TTTCTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (22 bp):
ATTTATAAATAATCAAATTTAT
Found at i:67670 original size:38 final size:37
Alignment explanation
Indices: 67594--67670 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 37
67584 TTAGTAATGA
* **
67594 TTATTAATAATGATTTATTATTATTAAATAGTTGAAT
1 TTATAAATAATGATTTATTATTATTAAATAGTCAAAT
67631 TTATAAATAATCGAATTTA-TATT-TATAAATAGTCAAAT
1 TTATAAATAAT-G-ATTTATTATTAT-TAAATAGTCAAAT
67669 TT
1 TT
67671 TTTCTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
37 11 0.32
38 18 0.53
39 5 0.15
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (37 bp):
TTATAAATAATGATTTATTATTATTAAATAGTCAAAT
Found at i:67797 original size:21 final size:22
Alignment explanation
Indices: 67771--67815 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
67761 TGATTACTGA
* *
67771 TAATGATTTATTATTAAT-ATC
1 TAATGATTTAATACTAATAATC
67792 TAATGATTTAATACTAATAATC
1 TAATGATTTAATACTAATAATC
67814 TA
1 TA
67816 GTAATGATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (22 bp):
TAATGATTTAATACTAATAATC
Found at i:67897 original size:15 final size:15
Alignment explanation
Indices: 67874--67912 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
67864 AATCTTTTAA
67874 TAATGATTTTATATT
1 TAATGATTTTATATT
*
67889 TAATTATTTTATATT
1 TAATGATTTTATATT
67904 TAATGATTT
1 TAATGATTT
67913 AGTAATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (15 bp):
TAATGATTTTATATT
Found at i:67927 original size:16 final size:16
Alignment explanation
Indices: 67906--67937 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
67896 TTTATATTTA
*
67906 ATGATTTAGTAATGAT
1 ATGATTTACTAATGAT
67922 ATGATTTACTAATGAT
1 ATGATTTACTAATGAT
67938 TACTAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.44
Consensus pattern (16 bp):
ATGATTTACTAATGAT
Found at i:68028 original size:11 final size:11
Alignment explanation
Indices: 67922--68078 Score: 86
Period size: 11 Copynumber: 13.0 Consensus size: 11
67912 TAGTAATGAT
*
67922 ATGATTTACTA
1 ATGATTTAATA
67933 ATGATTACTAATA
1 ATGATT--TAATA
67946 ATGATTTATTATTA
1 ATGATTTA--A-TA
67960 AT-ATTTAATA
1 ATGATTTAATA
*
67970 AT--TTGATACTA
1 ATGATT--TAATA
*
67981 ATGATTTAGTA
1 ATGATTTAATA
67992 ATGATTAGTAATA
1 ATGATT--TAATA
*
68005 ATAAAATTATAATA
1 AT--GATT-TAATA
68019 ATGATTTAATA
1 ATGATTTAATA
68030 CTATTGATTTAATA
1 --A-TGATTTAATA
68044 ATGATTACTAATA
1 ATGATT--TAATA
*
68057 ATAATTTAATA
1 ATGATTTAATA
*
68068 ATGATTAAATA
1 ATGATTTAATA
68079 TTTAAATAAA
Statistics
Matches: 118, Mismatches: 10, Indels: 36
0.72 0.06 0.22
Matches are distributed among these distances:
9 2 0.02
10 4 0.03
11 49 0.42
12 4 0.03
13 35 0.30
14 21 0.18
15 3 0.03
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (11 bp):
ATGATTTAATA
Found at i:68038 original size:52 final size:49
Alignment explanation
Indices: 67965--68078 Score: 147
Period size: 52 Copynumber: 2.3 Consensus size: 49
67955 TATTAATATT
* * * *
67965 TAATAATTTGATACTAATGATTTAGTAATGATTAGTAATAATAAAATTATAA
1 TAATGATTTAATACTAATGATTTAATAATGATTACTAATAAT--AATT-TAA
*
68017 TAATGATTTAATACTATTGATTTAATAATGATTACTAATAATAATTTAA
1 TAATGATTTAATACTAATGATTTAATAATGATTACTAATAATAATTTAA
*
68066 TAATGATTAAATA
1 TAATGATTTAATA
68079 TTTAAATAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 15 0.27
50 4 0.07
52 37 0.66
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (49 bp):
TAATGATTTAATACTAATGATTTAATAATGATTACTAATAATAATTTAA
Found at i:72268 original size:16 final size:16
Alignment explanation
Indices: 72247--72285 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
72237 GATATTACCC
* *
72247 GACCTGTTTTTAACCT
1 GACCTGTTATGAACCT
72263 GACCTGTTATGAACCT
1 GACCTGTTATGAACCT
*
72279 AACCTGT
1 GACCTGT
72286 AATTGACTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (16 bp):
GACCTGTTATGAACCT
Found at i:73286 original size:22 final size:22
Alignment explanation
Indices: 73260--73304 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
73250 AAACCCTTAC
**
73260 AAATATCAAGTAGAAGCAAACA
1 AAATATCAAACAGAAGCAAACA
73282 AAATATCAAACAGAAGCAAACA
1 AAATATCAAACAGAAGCAAACA
73304 A
1 A
73305 TATAAAATAG
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:0.62, C:0.16, G:0.11, T:0.11
Consensus pattern (22 bp):
AAATATCAAACAGAAGCAAACA
Found at i:73316 original size:20 final size:21
Alignment explanation
Indices: 73258--73316 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
73248 CCAAACCCTT
* *
73258 ACAAATATCAAGTAGAAGCAA
1 ACAAATATAAAATAGAAGCAA
* *
73279 ACAAAATATCAAACAGAAGCAA
1 AC-AAATATAAAATAGAAGCAA
73301 AC-AATATAAAATAGAA
1 ACAAATATAAAATAGAA
73317 TAATGCAGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 12 0.36
21 2 0.06
22 19 0.58
ACGTcount: A:0.63, C:0.14, G:0.10, T:0.14
Consensus pattern (21 bp):
ACAAATATAAAATAGAAGCAA
Found at i:74326 original size:13 final size:13
Alignment explanation
Indices: 74308--74334 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74298 CCACCGTACT
74308 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
74321 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
74334 C
1 C
74335 TGTAACGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.63, G:0.30, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:75957 original size:76 final size:76
Alignment explanation
Indices: 75293--75931 Score: 1242
Period size: 76 Copynumber: 8.4 Consensus size: 76
75283 GAAATATTGA
75293 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
75358 AGGCTTTTTGG
66 AGGCTTTTTGG
75369 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
75434 AGGCTTTTTGG
66 AGGCTTTTTGG
75445 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
75510 AGGCTTTTTGG
66 AGGCTTTTTGG
*
75521 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTTCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
75586 AGGCTTTTTGG
66 AGGCTTTTTGG
*
75597 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTTCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
75662 AGGCTTTTTGG
66 AGGCTTTTTGG
*
75673 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTTCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
75738 AGGCTTTTTGG
66 AGGCTTTTTGG
75749 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
75814 AGGCTTTTTGG
66 AGGCTTTTTGG
*
75825 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
75890 AGGCTTTTTGG
66 AGGCTTTTTGG
75901 AAACATCATGCACTGAAGGACTTACAGATGA
1 AAACATCATGCACTGAAGGACTTACAGATGA
75932 GGGAAATAGT
Statistics
Matches: 560, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 560 1.00
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:76632 original size:22 final size:22
Alignment explanation
Indices: 76607--76661 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
76597 CATAAAGCTT
76607 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
76629 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
76651 TCATCTTTGAA
1 TCATCTTTGAA
76662 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:78070 original size:74 final size:76
Alignment explanation
Indices: 77929--78098 Score: 220
Period size: 74 Copynumber: 2.3 Consensus size: 76
77919 ATTGTGGGCC
* *
77929 TTCAGCATGCCCCAACA-TTGGCTAATACAAGTGTTCAAAATGCATCAACAGTTCTGATTCTGAT
1 TTCAGCATGCCCCAACATTTGGCTAATACAAGTATTCAAAATACATCAACAGTTCTGATTCTGAT
*
77993 TGAAATGGGTT
66 TGAAAAGGGTT
* * * ** * *
78004 TTCAGCATGCCCCAACATTTTGCTGATA-AA-TATTCAGAATATTTCAACATTTCTGATTCTGTT
1 TTCAGCATGCCCCAACATTTGGCTAATACAAGTATTCAAAATACATCAACAGTTCTGATTCTGAT
78067 TGAAAAGGGTT
66 TGAAAAGGGTT
*
78078 TTCAGCATGCCCCAATATTTG
1 TTCAGCATGCCCCAACATTTG
78099 CTTCTTTGTA
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
74 55 0.67
75 19 0.23
76 8 0.10
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.34
Consensus pattern (76 bp):
TTCAGCATGCCCCAACATTTGGCTAATACAAGTATTCAAAATACATCAACAGTTCTGATTCTGAT
TGAAAAGGGTT
Found at i:79383 original size:83 final size:83
Alignment explanation
Indices: 79243--79807 Score: 1049
Period size: 83 Copynumber: 6.8 Consensus size: 83
79233 GTTCCTATCA
79243 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATT
79308 CAATGATTGGTTCTGTAT
66 CAATGATTGGTTCTGTAT
*
79326 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTTATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATT
*
79391 CAATGATTGGTTCTGTCT
66 CAATGATTGGTTCTGTAT
* * *
79409 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGATATTAGCACATTTATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATT
*
79474 CAATGATTGGTTCTGTCT
66 CAATGATTGGTTCTGTAT
79492 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATT
79557 CAATGATTGGTTCTGTAT
66 CAATGATTGGTTCTGTAT
79575 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATT
*
79640 CAATGATTGGTTCTATAT
66 CAATGATTGGTTCTGTAT
*
79658 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTTATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATT
*
79723 CAATGATTGGTTCTGTCT
66 CAATGATTGGTTCTGTAT
79741 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATT
79806 CA
66 CA
79808 TGTTTGGACT
Statistics
Matches: 469, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
83 469 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATT
CAATGATTGGTTCTGTAT
Found at i:82039 original size:12 final size:12
Alignment explanation
Indices: 82024--82065 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
82014 ATTTTCCTTT
82024 TTCTTTTTTTTC
1 TTCTTTTTTTTC
82036 TTCTCTTTTTTT-
1 TTCT-TTTTTTTC
*
82048 TTCTTCTTTTTC
1 TTCTTTTTTTTC
82060 TTCTTT
1 TTCTTT
82066 CTTTGTTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 6 0.23
12 13 0.50
13 7 0.27
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (12 bp):
TTCTTTTTTTTC
Found at i:82045 original size:15 final size:14
Alignment explanation
Indices: 82027--82068 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 14
82017 TTCCTTTTTC
82027 TTTTTTTTCTTCTCT
1 TTTTTTTTCTTCT-T
82042 TTTTTTTTCTTCTT
1 TTTTTTTTCTTCTT
82056 TTTCTTCTTTCTT
1 TTT-TT-TTTCTT
82069 TGTTGGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.16
15 15 0.60
16 6 0.24
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTTTCTTCTT
Found at i:82371 original size:2 final size:2
Alignment explanation
Indices: 82364--82419 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
82354 ACAACAAAGG
82364 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
82406 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
82420 TAAAGGATAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86752 original size:9 final size:9
Alignment explanation
Indices: 86732--86774 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
86722 AATACTTGAA
86732 AATAAA-AT
1 AATAAATAT
86740 AATAAATAT
1 AATAAATAT
86749 AATAAATAT
1 AATAAATAT
*
86758 TATGAAA-AT
1 AAT-AAATAT
86767 AATAAATA
1 AATAAATA
86775 AAAAAAATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 9 0.30
9 18 0.60
10 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (9 bp):
AATAAATAT
Found at i:86792 original size:27 final size:28
Alignment explanation
Indices: 86731--86792 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
86721 TAATACTTGA
*
86731 AAATAAAATAATAAATATAATAAATATT
1 AAATAAAATAATAAATATAATAAAAATT
86759 --ATGAAAATAATAAATA-AA-AAAAATT
1 AAAT-AAAATAATAAATATAATAAAAATT
86784 GAAATAAAA
1 -AAATAAAA
86793 GAAAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
25 6 0.21
26 4 0.14
27 17 0.59
28 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (28 bp):
AAATAAAATAATAAATATAATAAAAATT
Found at i:87487 original size:25 final size:24
Alignment explanation
Indices: 87458--87517 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
87448 TAATAAATAA
87458 AAATATATTAAAATTATAATATTTT
1 AAATATATTAAAATTATAAT-TTTT
* *
87483 AAATAAAACT-AAATTATAATTTTT
1 AAAT-ATATTAAAATTATAATTTTT
87507 ATAATAT-TTAA
1 A-AATATATTAA
87518 TTATTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
23 1 0.04
24 7 0.25
25 17 0.61
26 3 0.11
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
AAATATATTAAAATTATAATTTTT
Found at i:88235 original size:13 final size:13
Alignment explanation
Indices: 88217--88243 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88207 CCACCGTACT
88217 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
88230 CCGCCGCCGGCCA
1 CCGCCGCCGGCCA
88243 C
1 C
88244 TGTAACGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.63, G:0.30, T:0.00
Consensus pattern (13 bp):
CCGCCGCCGGCCA
Found at i:89036 original size:23 final size:23
Alignment explanation
Indices: 89010--89078 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 23
89000 TCATTATTAT
89010 ATATATATTTTTTAATAATAATA
1 ATATATATTTTTTAATAATAATA
* *
89033 ATATATA-TATAT-AT-ATAATA
1 ATATATATTTTTTAATAATAATA
*
89053 ATATAT-TTTAGTTAATAATAATA
1 ATATATATTT-TTTAATAATAATA
89076 ATA
1 ATA
89079 ATTAAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 13 0.35
21 3 0.08
22 5 0.14
23 16 0.43
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (23 bp):
ATATATATTTTTTAATAATAATA
Found at i:89092 original size:43 final size:41
Alignment explanation
Indices: 89012--89094 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 41
89002 ATTATTATAT
*
89012 ATATATTTTTTAATAATAATAATATATATATATATATAATA
1 ATATATTTTTTAATAATAATAATATATAAATATATATAATA
89053 ATATATTTTAGTTAATAATAATAATA-ATTAAA-ATAATATAAT
1 ATATATTTT--TTAATAATAATAATATA-TAAATAT-ATATAAT
89095 GAAAAATTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
41 9 0.24
42 3 0.08
43 25 0.68
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (41 bp):
ATATATTTTTTAATAATAATAATATATAAATATATATAATA
Found at i:89093 original size:20 final size:20
Alignment explanation
Indices: 89024--89094 Score: 52
Period size: 23 Copynumber: 3.2 Consensus size: 20
89014 ATATTTTTTA
*
89024 ATAATAATAATATATATATATAT
1 ATAATAATAAT-TA-AAATA-AT
* **
89047 ATAATAATATATTTTAGTTAAT
1 ATAATAATA-A-TTAAAATAAT
89069 AATAATAATAATTAAAATAAT
1 -ATAATAATAATTAAAATAAT
89090 ATAAT
1 ATAAT
89095 GAAAAATTAG
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
20 5 0.13
21 7 0.18
22 3 0.08
23 21 0.54
24 2 0.05
25 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (20 bp):
ATAATAATAATTAAAATAAT
Found at i:89969 original size:31 final size:31
Alignment explanation
Indices: 89931--89994 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
89921 CTATTTGTTT
*
89931 ATTGCTCATATCAAACAAGGACATAATGACA
1 ATTGCTCATATCAAACAAGGAAATAATGACA
*
89962 ATTGCTCATATCAAACAGGGAAATAATGACA
1 ATTGCTCATATCAAACAAGGAAATAATGACA
89993 AT
1 AT
89995 CTTTTCGAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.23
Consensus pattern (31 bp):
ATTGCTCATATCAAACAAGGAAATAATGACA
Found at i:91591 original size:34 final size:32
Alignment explanation
Indices: 91500--91598 Score: 91
Period size: 32 Copynumber: 3.2 Consensus size: 32
91490 AAATTTAATG
* * *
91500 ATTTAATATATTAATTTAAGGTTTATATTTCA
1 ATTTAATTTATTAATTTAAGGTTCATATTTAA
* *
91532 ATTT--TTT-TTAATTTAA--TCCAAATTTAA
1 ATTTAATTTATTAATTTAAGGTTCATATTTAA
91559 AGTTATAATTTATTAATTTAAGGTTCATATTTAAA
1 A-TT-TAATTTATTAATTTAAGGTTCATATTT-AA
91594 ATTTA
1 ATTTA
91599 TTCAATTTGA
Statistics
Matches: 52, Mismatches: 7, Indels: 15
0.70 0.09 0.20
Matches are distributed among these distances:
27 8 0.15
28 2 0.04
29 10 0.19
30 2 0.04
31 3 0.06
32 13 0.25
33 2 0.04
34 9 0.17
35 3 0.06
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (32 bp):
ATTTAATTTATTAATTTAAGGTTCATATTTAA
Found at i:91606 original size:61 final size:61
Alignment explanation
Indices: 91465--91611 Score: 179
Period size: 61 Copynumber: 2.4 Consensus size: 61
91455 TTGTCTCTTA
* * * * *
91465 ATTTTAAATTTATTTAATTTAGTCTAAATTTAATGATTTAATATATTAATTTAAGGTTTAT
1 ATTTAAAATTTATTTAATTTAATCCAAATTTAAAGATTTAATATATTAATTTAAGGTTCAT
* * * *
91526 ATTTCAATTTTTTTTAATTTAATCCAAATTTAAAG-TTATAATTTATTAATTTAAGGTTCAT
1 ATTTAAAATTTATTTAATTTAATCCAAATTTAAAGATT-TAATATATTAATTTAAGGTTCAT
* *
91587 ATTTAAAATTTATTCAATTTGATCC
1 ATTTAAAATTTATTTAATTTAATCC
91612 TTATATATTT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
60 2 0.03
61 70 0.97
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.52
Consensus pattern (61 bp):
ATTTAAAATTTATTTAATTTAATCCAAATTTAAAGATTTAATATATTAATTTAAGGTTCAT
Found at i:91689 original size:18 final size:18
Alignment explanation
Indices: 91666--91868 Score: 170
Period size: 18 Copynumber: 11.1 Consensus size: 18
91656 AATAAATTAA
91666 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
*
91684 TGTATAGTTTATATATAC
1 TATATAGTTTATATATAC
*
91702 TA-AT-GAATTATATA-A-
1 TATATAG-TTTATATATAC
91717 TATATAGTTTGTATATACCATATAC
1 TATATAG--T-T-TAT---ATATAC
*
91742 TATATAGGTTATATATAC
1 TATATAGTTTATATATAC
* *
91760 TA-AT-GAATTGTATA-A-
1 TATATAG-TTTATATATAC
91775 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
*
91793 TATATAGTTTATATATAA
1 TATATAGTTTATATATAC
*
91811 TGTATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
91829 CATATAGTATATATATATAT
1 TATATAGT-T-TATATATAC
91849 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
91867 TA
1 TA
91869 ATAAACTATA
Statistics
Matches: 149, Mismatches: 18, Indels: 36
0.73 0.09 0.18
Matches are distributed among these distances:
15 4 0.03
16 14 0.09
17 20 0.13
18 75 0.50
19 3 0.02
20 18 0.12
21 3 0.02
22 1 0.01
23 3 0.02
24 1 0.01
25 7 0.05
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.47
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:91697 original size:51 final size:52
Alignment explanation
Indices: 91642--91806 Score: 147
Period size: 51 Copynumber: 3.1 Consensus size: 52
91632 TCAATAAATA
*
91642 TATATGTTTATATTAATAAAT-TAATATATAGTTTATATATACTGTATAGTT
1 TATATGTTTATATTAATAAATATAATATATAGTTTATATATACTATATAGTT
* * * * * * * *
91693 TATATATACTA-ATGAAT-TATATAATATATAGTTTGTATATACCATATACTA
1 TATATGT-TTATATTAATAAATATAATATATAGTTTATATATACTATATAGTT
* *
91744 TATAGGTTATATATACTAATGAATTGTATAATATATAGTTTATATATACTATATAGTT
1 TATATGTT-TATAT--TAAT-AA--ATATAATATATAGTTTATATATACTATATAGTT
91802 TATAT
1 TATAT
91807 ATAATGTATA
Statistics
Matches: 84, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
50 2 0.02
51 43 0.51
52 4 0.05
54 3 0.04
58 32 0.38
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (52 bp):
TATATGTTTATATTAATAAATATAATATATAGTTTATATATACTATATAGTT
Found at i:91745 original size:25 final size:25
Alignment explanation
Indices: 91711--91759 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
91701 CTAATGAATT
* *
91711 ATATAATATATAGTTTGTATATACC
1 ATATAATATATAGGTTATATATACC
*
91736 ATATACTATATAGGTTATATATAC
1 ATATAATATATAGGTTATATATAC
91760 TAATGAATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (25 bp):
ATATAATATATAGGTTATATATACC
Found at i:91754 original size:58 final size:58
Alignment explanation
Indices: 91678--91798 Score: 197
Period size: 58 Copynumber: 2.1 Consensus size: 58
91668 TATAGTTTAT
* * *
91678 ATATACTGTATAGTTTATATATACTAATGAATTATATAATATATAGTTTGTATATACC
1 ATATACTATATAGGTTATATATACTAATGAATTATATAATATATAGTTTATATATACC
* *
91736 ATATACTATATAGGTTATATATACTAATGAATTGTATAATATATAGTTTATATATACT
1 ATATACTATATAGGTTATATATACTAATGAATTATATAATATATAGTTTATATATACC
91794 ATATA
1 ATATA
91799 GTTTATATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (58 bp):
ATATACTATATAGGTTATATATACTAATGAATTATATAATATATAGTTTATATATACC
Found at i:91789 original size:9 final size:10
Alignment explanation
Indices: 91775--91863 Score: 68
Period size: 9 Copynumber: 9.6 Consensus size: 10
91765 AATTGTATAA
91775 TATATAGT-T
1 TATATAGTAT
*
91784 TATATA-TAC
1 TATATAGTAT
91793 TATATAGT-T
1 TATATAGTAT
*
91802 TATATA-TAA
1 TATATAGTAT
*
91811 TGTATAGT-T
1 TATATAGTAT
*
91820 TATATA-TAC
1 TATATAGTAT
*
91829 CATATAGTAT
1 TATATAGTAT
91839 ATATATA-TAT
1 -TATATAGTAT
91849 TATATAGT-T
1 TATATAGTAT
91858 TATATA
1 TATATA
91864 TACTAATAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
8 3 0.05
9 46 0.74
10 8 0.13
11 5 0.08
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.49
Consensus pattern (10 bp):
TATATAGTAT
Found at i:93800 original size:2 final size:2
Alignment explanation
Indices: 93724--93781 Score: 107
Period size: 2 Copynumber: 28.5 Consensus size: 2
93714 AAATATCAAC
93724 TA TA GTA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93767 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
93782 GTCATATGTA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 53 0.96
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:93848 original size:24 final size:25
Alignment explanation
Indices: 93816--93864 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
93806 ATAATAGTTC
*
93816 ATATGTAACTATAGTTCATATGTAA
1 ATATGTAACGATAGTTCATATGTAA
*
93841 ATAT-TAACGATAGTTTATATGTAA
1 ATATGTAACGATAGTTCATATGTAA
93865 CTATAGTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (25 bp):
ATATGTAACGATAGTTCATATGTAA
Found at i:93959 original size:33 final size:32
Alignment explanation
Indices: 93922--93988 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 32
93912 AGTTTATATG
*
93922 TAAACTATAGTTCATACATATAGTATATAAATA
1 TAAACTATAGTTCATACAAATAGTATA-AAATA
* *
93955 TAAACTATAGTTTATATAAATAGTATAAAATA
1 TAAACTATAGTTCATACAAATAGTATAAAATA
93987 TA
1 TA
93989 GTATATAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 7 0.23
33 24 0.77
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (32 bp):
TAAACTATAGTTCATACAAATAGTATAAAATA
Found at i:93963 original size:20 final size:20
Alignment explanation
Indices: 93939--94012 Score: 85
Period size: 20 Copynumber: 3.5 Consensus size: 20
93929 TAGTTCATAC
93939 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
93959 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATAT-AA-A-TATAAA
93984 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
94004 TTATAGTAT
1 ATATAGTAT
94013 GTAGTTTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 19 0.41
21 1 0.02
22 7 0.15
23 7 0.15
24 1 0.02
25 11 0.24
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:93988 original size:25 final size:23
Alignment explanation
Indices: 93939--93999 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
93929 TAGTTCATAC
93939 ATATAGTATAT-AA-A-TATAAA
1 ATATAGTATATAAATAGTATAAA
*
93959 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATATAAATAGTATAAA
93984 ATATAGTATATAAATA
1 ATATAGTATATAAATA
94000 TAAATTATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 5 0.15
22 5 0.15
23 12 0.35
24 1 0.03
25 11 0.32
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
ATATAGTATATAAATAGTATAAA
Found at i:93991 original size:12 final size:13
Alignment explanation
Indices: 93952--94001 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
93942 TAGTATATAA
93952 ATATAAACTATAGT
1 ATATAAA-TATAGT
*
93966 TTATATAA-ATAGT
1 ATATA-AATATAGT
93979 ATA-AAATATAGT
1 ATATAAATATAGT
93991 ATATAAATATA
1 ATATAAATATA
94002 AATTATAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 9 0.29
13 14 0.45
14 4 0.13
15 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (13 bp):
ATATAAATATAGT
Found at i:94041 original size:7 final size:7
Alignment explanation
Indices: 94029--94059 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
94019 TATATAAATA
94029 TAAACCC
1 TAAACCC
94036 TAAACCC
1 TAAACCC
94043 TAAACCC
1 TAAACCC
94050 TAAACCC
1 TAAACCC
94057 TAA
1 TAA
94060 GCCCCACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.39, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCC
Found at i:94190 original size:2 final size:2
Alignment explanation
Indices: 94073--94170 Score: 86
Period size: 2 Copynumber: 52.5 Consensus size: 2
94063 CCACACACAC
94073 AT AT AT AT AT AT AT AT AT AT AT AT AT A- 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
* * * *
94114 AA ACT AT AT A- AT TT AT AC A- AT AT AT AT -T AT TT AT A- AT -T
1 AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
94152 AT AC AT A- AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
94171 AATTGTATAG
Statistics
Matches: 78, Mismatches: 9, Indels: 18
0.74 0.09 0.17
Matches are distributed among these distances:
1 8 0.10
2 69 0.88
3 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:94191 original size:20 final size:21
Alignment explanation
Indices: 94156--94212 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
94146 ATAATTATAC
* *
94156 ATAATATATAATATAAATT-GT
1 ATAATTTAT-ATATAAATTCAT
*
94177 ATAGTTTATATAT-AATTCAT
1 ATAATTTATATATAAATTCAT
94197 ATAATTTATATATAAA
1 ATAATTTATATATAAA
94213 CTATGCAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.13
20 17 0.57
21 9 0.30
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (21 bp):
ATAATTTATATATAAATTCAT
Found at i:94307 original size:25 final size:26
Alignment explanation
Indices: 94253--94343 Score: 73
Period size: 25 Copynumber: 3.5 Consensus size: 26
94243 ATATATAAGC
* **
94253 TATATAGTATTATATTTTATACATGG
1 TATATAGTATTATACTTTATACATAA
*
94279 TATATAGT-TTATGCTTTATACATAA
1 TATATAGTATTATACTTTATACATAA
* *
94304 TATATA-TATATATA-TATATATATATA
1 TATATAGTAT-TATACTTTATACATA-A
94330 TATATA-TATATATA
1 TATATAGTAT-TATA
94344 GTTGTTTTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 1 0.02
25 28 0.51
26 26 0.47
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (26 bp):
TATATAGTATTATACTTTATACATAA
Found at i:94310 original size:2 final size:2
Alignment explanation
Indices: 94303--94343 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
94293 TTTATACATA
94303 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94344 GTTGTTTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:94727 original size:210 final size:212
Alignment explanation
Indices: 94365--95179 Score: 1291
Period size: 210 Copynumber: 3.8 Consensus size: 212
94355 TTTTTTCTCA
*
94365 ACTTATTACTTATTTATATTTATT-AATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTA-T
1 ACTTATTACTTATTTATATTT-TTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACT
*
94428 ATTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTT-T-TGTGCTGT
65 -TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTTATGTGTGTTGT
*
94491 TTAATATATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTGCAAATTTTATTT
129 TTAATATATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTT
*
94556 GCACCTGAAATTGACCCAT
194 GCATCTGAAATTGACCCAT
94575 ACTTATTACTTATTTATATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
1 ACTTATTACTTATTTATATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
* * *
94640 TTTTTTATTAATTTCAACCTCAAAATTTTAAATTATTTTGATTTGATCCCTT-T-TGTGTTGTTT
66 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTTATGTGTGTTGTTT
94703 AATATATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGC
131 AATATATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGC
94768 ATCTGAAATTGACCCAT
196 ATCTGAAATTGACCCAT
* *
94785 ACTTATTACTTATTTCTATTTTTAAATTGACCCATAACTTTTTAAATGGGTATAATTTAGTACTT
1 ACTTATTACTTATTTATATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
* * *
94850 TTTTGTATTAATTTCAACATCACAATATAAAATTATTTCGATTTGATCCCTCATTAATGTGTGTT
66 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGAT-CC-C-TT-ATGTGTGTT
* *
94915 GTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTAT
127 GTTTAATATATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTAT
* *
94980 TTGCATATGAAATTGATCCAT
192 TTGCATCTGAAATTGACCCAT
* * * *
95001 ACTTATTACTTAATTCTTTTTTTTAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
1 ACTTATTACTTATTTATATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
*
95066 TTTTGTATTAATTTCAACCTCATAATTTAAAATTATTTCGATTTGATCCCTCATCAATGTGTGTT
66 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCT--T--ATGTGTGTT
* *
95131 GTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
127 GTTTAATATATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTA
95180 ATTCTTAAAT
Statistics
Matches: 568, Mismatches: 26, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
209 2 0.00
210 302 0.53
211 3 0.01
212 1 0.00
213 3 0.01
214 1 0.00
215 4 0.01
216 252 0.44
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (212 bp):
ACTTATTACTTATTTATATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTT
TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTCGATTTGATCCCTTATGTGTGTTGTTT
AATATATTTAAATTTTTATTTATAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTGC
ATCTGAAATTGACCCAT
Found at i:96158 original size:19 final size:19
Alignment explanation
Indices: 96131--96169 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
96121 ATACTTAGAA
*
96131 TGACGTATATTTCCATTTG
1 TGACATATATTTCCATTTG
96150 TGACATATATTTCCATTTG
1 TGACATATATTTCCATTTG
96169 T
1 T
96170 TTCTCAGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (19 bp):
TGACATATATTTCCATTTG
Found at i:103092 original size:13 final size:12
Alignment explanation
Indices: 103074--103117 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
103064 ACCCTGTACC
103074 TATTTTTTATTTT
1 TATTTTTTA-TTT
*
103087 TATTTTCTATTT
1 TATTTTTTATTT
* *
103099 TACTTTTTATAT
1 TATTTTTTATTT
103111 TATTTTT
1 TATTTTT
103118 AACTACGTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 18 0.69
13 8 0.31
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (12 bp):
TATTTTTTATTT
Found at i:106248 original size:20 final size:20
Alignment explanation
Indices: 106223--106323 Score: 141
Period size: 20 Copynumber: 5.0 Consensus size: 20
106213 ACCATTAGAC
106223 AGGGGGAAT-TAGTACCCCCT
1 AGGGGGAATCT-GTACCCCCT
*
106243 AGGGGGAATCTGTTCCCCCT
1 AGGGGGAATCTGTACCCCCT
* *
106263 GGGGGGAATCGGTACCCCCT
1 AGGGGGAATCTGTACCCCCT
*
106283 GGGGGGAATCTGTACCCCCT
1 AGGGGGAATCTGTACCCCCT
106303 ATGGGGGAATCTGTACCCCCT
1 A-GGGGGAATCTGTACCCCCT
106324 GGGCAATCTG
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
20 53 0.73
21 20 0.27
ACGTcount: A:0.18, C:0.29, G:0.33, T:0.21
Consensus pattern (20 bp):
AGGGGGAATCTGTACCCCCT
Found at i:107563 original size:24 final size:25
Alignment explanation
Indices: 107536--107618 Score: 102
Period size: 24 Copynumber: 3.4 Consensus size: 25
107526 CATAATTCAA
* *
107536 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAGAAATCCAT
*
107560 GTCAAGTAACAGATCA-AAATCCAT
1 GTCAAGTATCAGATCAGAAATCCAT
107584 GTC-AGATATCAGATCAG-AATCCAT
1 GTCAAG-TATCAGATCAGAAATCCAT
107608 GTCAAGTATCA
1 GTCAAGTATCA
107619 TATAAGAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
23 6 0.12
24 43 0.84
25 2 0.04
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (25 bp):
GTCAAGTATCAGATCAGAAATCCAT
Found at i:110140 original size:18 final size:18
Alignment explanation
Indices: 110117--110155 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
110107 GCCGGTCAAC
110117 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
110135 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
110153 GGT
1 GGT
110156 TTTGACCGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.21, G:0.51, T:0.18
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:111921 original size:19 final size:20
Alignment explanation
Indices: 111878--111925 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
111868 TCTAAATCCT
*
111878 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
111898 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
111917 TTTTCAAAA
1 TTTTCAAAA
111926 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:112863 original size:35 final size:35
Alignment explanation
Indices: 112785--112890 Score: 164
Period size: 35 Copynumber: 3.1 Consensus size: 35
112775 CTTACAAGCT
* * *
112785 CCCTAGTTTTT-C-TGGGCTAAACTAGAA-CTTTT
1 CCCTAGTTTTTACACGGGCTAAGCTAGAACCTTTC
112817 CCCTAGTTTTTACACGGGCTAAGCTAGAACCTTTC
1 CCCTAGTTTTTACACGGGCTAAGCTAGAACCTTTC
112852 CCCTAGTTTTTACACGGGCTAAGCTAGAACCTTTC
1 CCCTAGTTTTTACACGGGCTAAGCTAGAACCTTTC
112887 CCCT
1 CCCT
112891 TTACAAAAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
32 11 0.16
33 1 0.01
34 13 0.19
35 43 0.63
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (35 bp):
CCCTAGTTTTTACACGGGCTAAGCTAGAACCTTTC
Found at i:113288 original size:22 final size:21
Alignment explanation
Indices: 113237--113301 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
113227 CGTTAGACAA
* *
113237 GGGGGAATCGGTACCCTCTGG
1 GGGGGAATCGGTTCCCCCTGG
113258 GGGGGAATCGGTTCCCCCTGG
1 GGGGGAATCGGTTCCCCCTGG
*
113279 GGTGGGAATCTGTTCCCCCTGG
1 GG-GGGAATCGGTTCCCCCTGG
113301 G
1 G
113302 CAATCTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 21 0.52
22 19 0.47
ACGTcount: A:0.11, C:0.26, G:0.42, T:0.22
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCCCTGG
Found at i:122529 original size:95 final size:95
Alignment explanation
Indices: 122358--122550 Score: 262
Period size: 95 Copynumber: 2.0 Consensus size: 95
122348 TATTGTCCTA
* * * *
122358 TAATCGAGGATCATTATGTAATTTTTAATAGTCAGATGATTCAACAAAACGACATCATACAATCG
1 TAATCGAGGATCATTATGTAATTTTTAATAGTCAGAAGAGTCAACAAAACAACACCATACAATCG
122423 AGAACCATTTTTATACTTTA-TAATTTTATT
66 AGAACCATTTTTATACTTTACT-ATTTTATT
* ***
122453 TAATCGAGGATCATTATGTAATTTTTAATAGTCAGAAGAGTCAACGAAACAACACCATATTGTCG
1 TAATCGAGGATCATTATGTAATTTTTAATAGTCAGAAGAGTCAACAAAACAACACCATACAATCG
* ** *
122518 AGGACTTTTTTTATACTTTACTCTTTTATT
66 AGAACCATTTTTATACTTTACTATTTTATT
122548 TAA
1 TAA
122551 CAAGGACATT
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
95 84 0.99
96 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (95 bp):
TAATCGAGGATCATTATGTAATTTTTAATAGTCAGAAGAGTCAACAAAACAACACCATACAATCG
AGAACCATTTTTATACTTTACTATTTTATT
Found at i:125970 original size:2 final size:2
Alignment explanation
Indices: 125963--126015 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
125953 AAATATAGAA
125963 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
126005 AT AT AT AT AT A
1 AT AT AT AT AT A
126016 GGATCCAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:126299 original size:141 final size:142
Alignment explanation
Indices: 126070--126354 Score: 491
Period size: 141 Copynumber: 2.0 Consensus size: 142
126060 GAAATCAAAA
* * *
126070 TTTGAGATTAACAATAGGAAATGAAAAGATATTCATTAGAAAAAAAAATAAGAAGTTAGTCTCAG
1 TTTGAGATTAACAATAGGAAATGAAAAGATATTCACTAG-AAAAAAAATAAGAAGTTAATCTCAC
*
126135 TCTTTGATTTTCCCTCATCCAACGATCCTAAAATTGTGTAAAGCTTTTGGTTTTACACTAGCTGT
65 TCTTTGATTTTCCCTCATCCAACGATCCTAAAATAGTGTAAAGCTTTTGGTTTTACACTAGCTGT
126200 AAGTGGATCATAC
130 AAGTGGATCATAC
* *
126213 TTTGAGATTAACAGTAGGAAATGAAAAGATATTCACTAG-AAAAAAATAAGAAGTTAATTTCACT
1 TTTGAGATTAACAATAGGAAATGAAAAGATATTCACTAGAAAAAAAATAAGAAGTTAATCTCACT
*
126277 CTTTGATTTTCCCTCATTCAACGATCCTAAAATAGTGTAAAGCTTTTGGTTTTACACTAGCTGTA
66 CTTTGATTTTCCCTCATCCAACGATCCTAAAATAGTGTAAAGCTTTTGGTTTTACACTAGCTGTA
126342 AGTGGATCATAC
131 AGTGGATCATAC
126354 T
1 T
126355 GGTAATATGG
Statistics
Matches: 135, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 98 0.73
143 37 0.27
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (142 bp):
TTTGAGATTAACAATAGGAAATGAAAAGATATTCACTAGAAAAAAAATAAGAAGTTAATCTCACT
CTTTGATTTTCCCTCATCCAACGATCCTAAAATAGTGTAAAGCTTTTGGTTTTACACTAGCTGTA
AGTGGATCATAC
Found at i:133430 original size:20 final size:20
Alignment explanation
Indices: 133405--133459 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
133395 ACAGGTAACG
*
133405 AATTTGATAAAACCGATTGA
1 AATTTGACAAAACCGATTGA
**
133425 AATTTGACAAAACCGATTTT
1 AATTTGACAAAACCGATTGA
*
133445 AATTTGAGAAAACCG
1 AATTTGACAAAACCG
133460 GTAAAGAGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.29
Consensus pattern (20 bp):
AATTTGACAAAACCGATTGA
Found at i:133796 original size:21 final size:21
Alignment explanation
Indices: 133770--133816 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
133760 GCCTATAAAT
*
133770 TATCGATACGTTAGACTCATG
1 TATCGATACCTTAGACTCATG
133791 TATCGATACCTTAGACTCATG
1 TATCGATACCTTAGACTCATG
133812 TATCG
1 TATCG
133817 GTACATGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (21 bp):
TATCGATACCTTAGACTCATG
Done.