Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001690.1 Hibiscus syriacus cultivar Beakdansim tig00003377_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: 103024
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:342 original size:11 final size:12
Alignment explanation
Indices: 309--347 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 12
299 CTCCCATTAT
309 CATTTTAAAACA
1 CATTTTAAAACA
321 CTTATTTTAAAACA
1 C--ATTTTAAAACA
335 CA-TTTAAAACA
1 CATTTTAAAACA
346 CA
1 CA
348 CTTCTCCCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 11 0.44
12 2 0.08
14 12 0.48
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (12 bp):
CATTTTAAAACA
Found at i:14276 original size:16 final size:16
Alignment explanation
Indices: 14255--14287 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14245 TACTATTCAT
*
14255 GTGAATAGTGAATTTC
1 GTGAATAGTGAAATTC
14271 GTGAATAGTGAAATTC
1 GTGAATAGTGAAATTC
14287 G
1 G
14288 GTCGGCGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (16 bp):
GTGAATAGTGAAATTC
Found at i:22200 original size:13 final size:13
Alignment explanation
Indices: 22182--22207 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22172 ATTAAAATAG
22182 AGAAAAAAATAAA
1 AGAAAAAAATAAA
22195 AGAAAAAAATAAA
1 AGAAAAAAATAAA
22208 TTTCGAGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
AGAAAAAAATAAA
Found at i:23908 original size:24 final size:24
Alignment explanation
Indices: 23881--23978 Score: 133
Period size: 24 Copynumber: 4.1 Consensus size: 24
23871 GGAAACTGAT
* *
23881 GAGGAAACCGACGACGGAAGTAGC
1 GAGGAAACCGACGATGGAACTAGC
* *
23905 GAGGAAACCGGCGGTGGAACTAGC
1 GAGGAAACCGACGATGGAACTAGC
*
23929 GAGGAAACCGACGAGGGAACTAGC
1 GAGGAAACCGACGATGGAACTAGC
* *
23953 GAGGAAACTGTCGATGGAACTAGC
1 GAGGAAACCGACGATGGAACTAGC
23977 GA
1 GA
23979 CAAAACTGAC
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.35, C:0.19, G:0.38, T:0.08
Consensus pattern (24 bp):
GAGGAAACCGACGATGGAACTAGC
Found at i:23933 original size:48 final size:48
Alignment explanation
Indices: 23881--23978 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
23871 GGAAACTGAT
* *
23881 GAGGAAACCGACGACGGAAGTAGCGAGGAAACCGGCGGTGGAACTAGC
1 GAGGAAACCGACGACGGAACTAGCGAGGAAACCGGCGATGGAACTAGC
* * *
23929 GAGGAAACCGACGAGGGAACTAGCGAGGAAACTGTCGATGGAACTAGC
1 GAGGAAACCGACGACGGAACTAGCGAGGAAACCGGCGATGGAACTAGC
23977 GA
1 GA
23979 CAAAACTGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.35, C:0.19, G:0.38, T:0.08
Consensus pattern (48 bp):
GAGGAAACCGACGACGGAACTAGCGAGGAAACCGGCGATGGAACTAGC
Found at i:23955 original size:12 final size:12
Alignment explanation
Indices: 23920--24139 Score: 83
Period size: 12 Copynumber: 18.3 Consensus size: 12
23910 AACCGGCGGT
23920 GGAACTAGCGAG
1 GGAACTAGCGAG
* *
23932 GAAAC-CGACGAG
1 GGAACTAG-CGAG
23944 GGAACTAGCGAG
1 GGAACTAGCGAG
* *
23956 GAAACT-GTCGAT
1 GGAACTAG-CGAG
*
23968 GGAACTAGCGAC
1 GGAACTAGCGAG
**
23980 AAAACT-GACGAG
1 GGAACTAG-CGAG
* **
23992 GAAACCGGCGAG
1 GGAACTAGCGAG
*
24004 GGAGCTAGCGA-
1 GGAACTAGCGAG
24015 GGACACT-GACGAG
1 GGA-ACTAG-CGAG
** * *
24028 GGAACCGGTGAT
1 GGAACTAGCGAG
24040 GGAACTAGCGAG
1 GGAACTAGCGAG
* *
24052 GAAACTAACGAG
1 GGAACTAGCGAG
* ** * *
24064 GAAACCGGTGAT
1 GGAACTAGCGAG
24076 GGAACTAGCGAG
1 GGAACTAGCGAG
*
24088 GAAACT-GACGAG
1 GGAACTAG-CGAG
* **
24100 GAAACCGGCGAG
1 GGAACTAGCGAG
*
24112 GGAACTACCGAG
1 GGAACTAGCGAG
**
24124 GGAACCGGCGAG
1 GGAACTAGCGAG
24136 GGAA
1 GGAA
24140 GCAATGAGGA
Statistics
Matches: 150, Mismatches: 46, Indels: 24
0.68 0.21 0.11
Matches are distributed among these distances:
11 8 0.05
12 134 0.89
13 8 0.05
ACGTcount: A:0.35, C:0.20, G:0.37, T:0.08
Consensus pattern (12 bp):
GGAACTAGCGAG
Found at i:23984 original size:24 final size:24
Alignment explanation
Indices: 23881--23994 Score: 122
Period size: 24 Copynumber: 4.8 Consensus size: 24
23871 GGAAACTGAT
* * *
23881 GAGGAAACCGACGACGGAAGTAGC
1 GAGGAAACTGACGATGGAACTAGC
* * *
23905 GAGGAAACCGGCGGTGGAACTAGC
1 GAGGAAACTGACGATGGAACTAGC
* *
23929 GAGGAAACCGACGAGGGAACTAGC
1 GAGGAAACTGACGATGGAACTAGC
*
23953 GAGGAAACTGTCGATGGAACTAGC
1 GAGGAAACTGACGATGGAACTAGC
**
23977 GACAAAACTGACGA-GGAA
1 GAGGAAACTGACGATGGAA
23995 ACCGGCGAGG
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
23 4 0.05
24 73 0.95
ACGTcount: A:0.37, C:0.19, G:0.36, T:0.08
Consensus pattern (24 bp):
GAGGAAACTGACGATGGAACTAGC
Found at i:23990 original size:48 final size:48
Alignment explanation
Indices: 23885--23992 Score: 144
Period size: 48 Copynumber: 2.2 Consensus size: 48
23875 ACTGATGAGG
* * * **
23885 AAACCGACGACGGAAGTAGCGAGGAAACCGGCGGTGGAACTAGCGAGG
1 AAACCGACGAGGGAACTAGCGAGGAAACCGGCGATGGAACTAGCGACA
* *
23933 AAACCGACGAGGGAACTAGCGAGGAAACTGTCGATGGAACTAGCGACA
1 AAACCGACGAGGGAACTAGCGAGGAAACCGGCGATGGAACTAGCGACA
*
23981 AAACTGACGAGG
1 AAACCGACGAGG
23993 AAACCGGCGA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.36, C:0.20, G:0.35, T:0.08
Consensus pattern (48 bp):
AAACCGACGAGGGAACTAGCGAGGAAACCGGCGATGGAACTAGCGACA
Found at i:24012 original size:36 final size:36
Alignment explanation
Indices: 23952--24124 Score: 229
Period size: 36 Copynumber: 4.8 Consensus size: 36
23942 AGGGAACTAG
* * **
23952 CGAGGAAACTGTCGATGGAACTAGCGACAAAACTGA
1 CGAGGAAACCGGCGATGGAACTAGCGAGGAAACTGA
* * *
23988 CGAGGAAACCGGCGAGGGAGCTAGCGAGGACACTGA
1 CGAGGAAACCGGCGATGGAACTAGCGAGGAAACTGA
* * *
24024 CGAGGGAACCGGTGATGGAACTAGCGAGGAAACTAA
1 CGAGGAAACCGGCGATGGAACTAGCGAGGAAACTGA
*
24060 CGAGGAAACCGGTGATGGAACTAGCGAGGAAACTGA
1 CGAGGAAACCGGCGATGGAACTAGCGAGGAAACTGA
* *
24096 CGAGGAAACCGGCGAGGGAACTACCGAGG
1 CGAGGAAACCGGCGATGGAACTAGCGAGG
24125 GAACCGGCGA
Statistics
Matches: 119, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 119 1.00
ACGTcount: A:0.35, C:0.20, G:0.36, T:0.09
Consensus pattern (36 bp):
CGAGGAAACCGGCGATGGAACTAGCGAGGAAACTGA
Found at i:24052 original size:60 final size:60
Alignment explanation
Indices: 23904--24139 Score: 177
Period size: 60 Copynumber: 3.7 Consensus size: 60
23894 ACGGAAGTAG
* * *
23904 CGAGGAAACCGGCGGTGGAACTAGCGAGGAAACCGACGAGGGAACTAGCGAGGAAACTGT
1 CGAGGGAACCGGCGATGGAACTAGCGAGGAAACCGACGAGGGAACTAGCGAGGAAACTGA
* ** *** * * *
23964 CGATGGAACTAGCGACAAAACT-GACGAGGAAACCGGCGAGGGAGCTAGCGAGGACACTGA
1 CGAGGGAACCGGCGATGGAACTAG-CGAGGAAACCGACGAGGGAACTAGCGAGGAAACTGA
* *
24024 CGAGGGAACCGGTGATGGAACTAGCGAGGAAACTAACGAGGAAACCGGTGATGGAACTAGCGAGG
1 CGAGGGAACCGGCGATGGAACTAGCGAGGAAAC---C---G--A-C---GAGGGAACTAGCGAGG
24089 AAACTGA
54 AAACTGA
* * * * *
24096 CGAGGAAACCGGCGAGGGAACTACCGAGGGAACCGGCGAGGGAA
1 CGAGGGAACCGGCGATGGAACTAGCGAGGAAACCGACGAGGGAA
24140 GCAATGAGGA
Statistics
Matches: 132, Mismatches: 30, Indels: 28
0.69 0.16 0.15
Matches are distributed among these distances:
59 1 0.01
60 76 0.58
61 1 0.01
63 2 0.02
66 2 0.02
69 2 0.02
72 48 0.36
ACGTcount: A:0.34, C:0.20, G:0.38, T:0.08
Consensus pattern (60 bp):
CGAGGGAACCGGCGATGGAACTAGCGAGGAAACCGACGAGGGAACTAGCGAGGAAACTGA
Found at i:24110 original size:24 final size:24
Alignment explanation
Indices: 23881--24136 Score: 121
Period size: 24 Copynumber: 10.7 Consensus size: 24
23871 GGAAACTGAT
* *
23881 GAGGAAACCGACGACGG-AAGTAGC
1 GAGGAAACCGGCGA-GGAAACTAGC
*
23905 GAGGAAACCGGCG-GTGGAACTAGC
1 GAGGAAACCGGCGAG-GAAACTAGC
* *
23929 GAGGAAACCGACGAGGGAACTAGC
1 GAGGAAACCGGCGAGGAAACTAGC
* *
23953 GAGGAAACTGTCGATGG-AACTAGC
1 GAGGAAACCGGCGA-GGAAACTAGC
** * * **
23977 GACAAAACTGACGAGGAAACCGGC
1 GAGGAAACCGGCGAGGAAACTAGC
* * ** *
24001 GAGGGAGCTAGCGAGGACACT-GAC
1 GAGGAAACCGGCGAGGAAACTAG-C
* *
24025 GAGGGAACCGGTGATGG-AACTAGC
1 GAGGAAACCGGCGA-GGAAACTAGC
*** ** *
24049 GAGGAAACTAACGAGGAAACCGGT
1 GAGGAAACCGGCGAGGAAACTAGC
**
24073 GATGG-AACTAGCGAGGAAACT-GAC
1 GA-GGAAACCGGCGAGGAAACTAG-C
* *
24097 GAGGAAACCGGCGAGGGAACTACC
1 GAGGAAACCGGCGAGGAAACTAGC
*
24121 GAGGGAACCGGCGAGG
1 GAGGAAACCGGCGAGG
24137 GAAGCAATGA
Statistics
Matches: 180, Mismatches: 39, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
22 1 0.01
23 9 0.05
24 162 0.90
25 8 0.04
ACGTcount: A:0.34, C:0.20, G:0.38, T:0.08
Consensus pattern (24 bp):
GAGGAAACCGGCGAGGAAACTAGC
Found at i:24175 original size:24 final size:24
Alignment explanation
Indices: 24148--24213 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
24138 AAGCAATGAG
24148 GAAACTAATGAGGAAACCGACAAA
1 GAAACTAATGAGGAAACCGACAAA
* * * *
24172 GAAA-TCGAGGAGGGAACCGACAAG
1 GAAACT-AATGAGGAAACCGACAAA
* *
24196 GGAACCAATGAGGAAACC
1 GAAACTAATGAGGAAACC
24214 CATGAGGAAA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
23 1 0.03
24 30 0.97
ACGTcount: A:0.47, C:0.18, G:0.29, T:0.06
Consensus pattern (24 bp):
GAAACTAATGAGGAAACCGACAAA
Found at i:24213 original size:12 final size:12
Alignment explanation
Indices: 24198--24273 Score: 62
Period size: 12 Copynumber: 6.3 Consensus size: 12
24188 CCGACAAGGG
24198 AACCAATGAGGA
1 AACCAATGAGGA
*
24210 AACCCATGAGGA
1 AACCAATGAGGA
**** *
24222 AATTGCTAAGGA
1 AACCAATGAGGA
*
24234 AACTAATGAGGA
1 AACCAATGAGGA
** *
24246 AACCGGTGAGGG
1 AACCAATGAGGA
24258 AACCAATGAGGA
1 AACCAATGAGGA
24270 AACC
1 AACC
24274 GTCGGTGGAA
Statistics
Matches: 47, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.43, C:0.17, G:0.28, T:0.12
Consensus pattern (12 bp):
AACCAATGAGGA
Found at i:24265 original size:24 final size:24
Alignment explanation
Indices: 24238--24323 Score: 86
Period size: 24 Copynumber: 3.6 Consensus size: 24
24228 TAAGGAAACT
24238 AATGAGGAAACCGGTGAGGGAACC
1 AATGAGGAAACCGGTGAGGGAACC
*
24262 AATGAGGAAACC-GTCG-GTGGAATC
1 AATGAGGAAACCGGT-GAG-GGAACC
* * * *
24286 GATGAGGAAACCAGCGAGGGAACA
1 AATGAGGAAACCGGTGAGGGAACC
*
24310 AATGAAGAAACCGG
1 AATGAGGAAACCGG
24324 GAAGAAAACC
Statistics
Matches: 50, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
23 3 0.06
24 45 0.90
25 2 0.04
ACGTcount: A:0.40, C:0.16, G:0.35, T:0.09
Consensus pattern (24 bp):
AATGAGGAAACCGGTGAGGGAACC
Found at i:25697 original size:29 final size:29
Alignment explanation
Indices: 25641--25737 Score: 133
Period size: 30 Copynumber: 3.3 Consensus size: 29
25631 AAAAAAATTG
*
25641 AATACTTTAGGTA-CTATTTTGACTAAAA
1 AATACTTTAGGTACCTATTTTGACAAAAA
*
25669 AATACTTTAGGTACCTATTTTGACCAAAA
1 AATACTTTAGGTACCTATTTTGACAAAAA
* * *
25698 AATAAGTTTAGATACTTATTTTGACAAAAA
1 AAT-ACTTTAGGTACCTATTTTGACAAAAA
25728 AATACTTTAG
1 AATACTTTAG
25738 ATACTTAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
28 13 0.21
29 23 0.38
30 25 0.41
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.37
Consensus pattern (29 bp):
AATACTTTAGGTACCTATTTTGACAAAAA
Found at i:25738 original size:29 final size:29
Alignment explanation
Indices: 25641--25744 Score: 138
Period size: 29 Copynumber: 3.6 Consensus size: 29
25631 AAAAAAATTG
* *
25641 AATACTTTAGGTAC-TATTTTGACTAAAA
1 AATACTTTAGATACTTATTTTGACAAAAA
* * *
25669 AATACTTTAGGTACCTATTTTGACCAAAA
1 AATACTTTAGATACTTATTTTGACAAAAA
*
25698 AATAAGTTTAGATACTTATTTTGACAAAAA
1 AAT-ACTTTAGATACTTATTTTGACAAAAA
25728 AATACTTTAGATACTTA
1 AATACTTTAGATACTTA
25745 AATGAAAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
28 14 0.21
29 29 0.43
30 25 0.37
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.38
Consensus pattern (29 bp):
AATACTTTAGATACTTATTTTGACAAAAA
Found at i:25754 original size:28 final size:30
Alignment explanation
Indices: 25694--25777 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 30
25684 TATTTTGACC
* ** *
25694 AAAAAATAAGTTTAGATACTTATTTTGACA
1 AAAAAATAACTTTAGATACTTATAATGAAA
25724 AAAAAAT-ACTTTAGATACTTA-AATGAAA
1 AAAAAATAACTTTAGATACTTATAATGAAA
* *
25752 AAAGATGATATACTTTAGGTACTTAT
1 AAA-A-AATA-ACTTTAGATACTTAT
25778 TTGTGATATA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
28 7 0.16
29 14 0.33
30 9 0.21
32 13 0.30
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.35
Consensus pattern (30 bp):
AAAAAATAACTTTAGATACTTATAATGAAA
Found at i:25901 original size:29 final size:29
Alignment explanation
Indices: 25867--25925 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
25857 CCTAAATTAA
25867 TTTGATATCATTGCTTACATCAATTTAGT
1 TTTGATATCATTGCTTACATCAATTTAGT
* *
25896 TTTGATGTTATTGCTTACATCAATTTAGT
1 TTTGATATCATTGCTTACATCAATTTAGT
25925 T
1 T
25926 AGGTGAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (29 bp):
TTTGATATCATTGCTTACATCAATTTAGT
Found at i:32017 original size:29 final size:29
Alignment explanation
Indices: 31975--32038 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
31965 AAAAATTAAC
31975 CGATTT-CCTTTCAAGAATGAAGACTTCA
1 CGATTTCCCTTTCAAGAATGAAGACTTCA
32003 CGATTTCCCTTTCAAGAATGAAGACTTCA
1 CGATTTCCCTTTCAAGAATGAAGACTTCA
*
32032 AGATTTC
1 CGATTTC
32039 TCTAGCTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 6 0.18
29 28 0.82
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (29 bp):
CGATTTCCCTTTCAAGAATGAAGACTTCA
Found at i:32646 original size:4 final size:4
Alignment explanation
Indices: 32637--32679 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
32627 AGAGGTAAAT
* * *
32637 CTAC CTAC CTAC CTAC CTAC CTAC CTAT CTAT CTAT CTAC CTA
1 CTAC CTAC CTAC CTAC CTAC CTAC CTAC CTAC CTAC CTAC CTA
32680 TCTATCTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.26, C:0.42, G:0.00, T:0.33
Consensus pattern (4 bp):
CTAC
Found at i:32680 original size:12 final size:12
Alignment explanation
Indices: 32635--32687 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
32625 GAAGAGGTAA
32635 ATCTACCTACCT
1 ATCTACCTACCT
*
32647 ACCTACCTACCT
1 ATCTACCTACCT
* * *
32659 ACCTATCTATCT
1 ATCTACCTACCT
*
32671 ATCTACCTATCT
1 ATCTACCTACCT
32683 ATCTA
1 ATCTA
32688 AGATATTTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.26, C:0.38, G:0.00, T:0.36
Consensus pattern (12 bp):
ATCTACCTACCT
Found at i:34534 original size:2 final size:2
Alignment explanation
Indices: 34489--34517 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
34479 ATATTTTTAA
34489 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34518 GTTTTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34545 original size:23 final size:22
Alignment explanation
Indices: 34503--34641 Score: 146
Period size: 23 Copynumber: 6.4 Consensus size: 22
34493 ATATATATAT
*
34503 ATATATATATATATAGTTTTAAAA
1 ATATATAT-TATATA-TTTTTAAA
34527 ATATATATTATATATTTTTGAAA
1 ATATATATTATATATTTTT-AAA
34550 ATATATATTATATATTTTTGAAA
1 ATATATATTATATATTTTT-AAA
**
34573 ATATATA-TATAT-TGTTTTGGA
1 ATATATATTATATAT-TTTTAAA
* *
34594 A-A-ATA-TATATAGTTTTGAA
1 ATATATATTATATATTTTTAAA
34613 ATATATATTATATA-TTTTAAA
1 ATATATATTATATATTTTTAAA
34634 ATATATAT
1 ATATATAT
34642 GACTTTATTC
Statistics
Matches: 103, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
19 15 0.15
20 2 0.02
21 20 0.19
22 19 0.18
23 39 0.38
24 8 0.08
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.50
Consensus pattern (22 bp):
ATATATATTATATATTTTTAAA
Found at i:34553 original size:21 final size:22
Alignment explanation
Indices: 34503--34641 Score: 146
Period size: 21 Copynumber: 6.4 Consensus size: 22
34493 ATATATATAT
**
34503 ATATATATATATATAGTTTTAAAA
1 ATATATAT-TATATA-TTTTTGAA
34527 ATATATATTATATATTTTTGAAA
1 ATATATATTATATATTTTTG-AA
34550 ATATATATTATATATTTTTGAA
1 ATATATATTATATATTTTTGAA
*
34572 A-ATATA-TATATATTGTTTTGGA
1 ATATATATTATATA-T-TTTTGAA
*
34594 A-A-ATA-TATATAGTTTTGAA
1 ATATATATTATATATTTTTGAA
*
34613 ATATATATTATATA-TTTTAAA
1 ATATATATTATATATTTTTGAA
34634 ATATATAT
1 ATATATAT
34642 GACTTTATTC
Statistics
Matches: 103, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
19 7 0.07
20 7 0.07
21 32 0.31
22 21 0.20
23 28 0.27
24 8 0.08
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.50
Consensus pattern (22 bp):
ATATATATTATATATTTTTGAA
Found at i:34601 original size:19 final size:17
Alignment explanation
Indices: 34577--34621 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
34567 TTGAAAATAT
34577 ATATATATTGTTTTGGAAA
1 ATATATATTGTTTT-G-AA
*
34596 ATATATATAGTTTTGAA
1 ATATATATTGTTTTGAA
34613 ATATATATT
1 ATATATATT
34622 ATATATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.42
18 1 0.04
19 13 0.54
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (17 bp):
ATATATATTGTTTTGAA
Found at i:47691 original size:28 final size:28
Alignment explanation
Indices: 47659--47719 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
47649 AGATATATAT
*
47659 ATATATATAACTATGTAG-TTTTGAAAAA
1 ATATATATAA-TATGCAGTTTTTGAAAAA
*
47687 ATATATATAATATGCAGTTTTTGAAAAC
1 ATATATATAATATGCAGTTTTTGAAAAA
47715 ATATA
1 ATATA
47720 ATGTATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (28 bp):
ATATATATAATATGCAGTTTTTGAAAAA
Found at i:60281 original size:24 final size:24
Alignment explanation
Indices: 60248--60306 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
60238 CATGGCCAGG
* *
60248 TGAGGAAACCAGACAGCGAACCAA
1 TGAGGGAACCAGACACCGAACCAA
**
60272 TGAGGGAACCAGTGACCGAACCAA
1 TGAGGGAACCAGACACCGAACCAA
**
60296 CCAGGGAACCA
1 TGAGGGAACCA
60307 CTGCGGGAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.41, C:0.27, G:0.27, T:0.05
Consensus pattern (24 bp):
TGAGGGAACCAGACACCGAACCAA
Found at i:60377 original size:24 final size:24
Alignment explanation
Indices: 60350--60405 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
60340 TCCATGCCGA
*
60350 AACTGACGTAGACACCGACTGGGG
1 AACTGACGTAGACACAGACTGGGG
* *
60374 AACTGATGTGGACACAGACTGGGG
1 AACTGACGTAGACACAGACTGGGG
*
60398 AACCGACG
1 AACTGACG
60406 AGGAAACCGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.34, T:0.12
Consensus pattern (24 bp):
AACTGACGTAGACACAGACTGGGG
Found at i:60422 original size:24 final size:24
Alignment explanation
Indices: 60395--60652 Score: 124
Period size: 24 Copynumber: 10.8 Consensus size: 24
60385 ACACAGACTG
*
60395 GGGAACCGACGAGGAAACCGGCGA
1 GGGAACCAACGAGGAAACCGGCGA
* * ****
60419 GGGAACCAATGAGGAAATCAATAA
1 GGGAACCAACGAGGAAACCGGCGA
** * **
60443 GGGAACCGGCAAAGG-AACCGATGA
1 GGGAACCAAC-GAGGAAACCGGCGA
* *
60467 GAGAACCAACGAGGGAACCGGCGA
1 GGGAACCAACGAGGAAACCGGCGA
* *
60491 GGCAATCAACGAAGG-AACCGGCGA
1 GGGAACCAACG-AGGAAACCGGCGA
* * **
60515 GGGAAACAAAGAGGAAACCGTTGA
1 GGGAACCAACGAGGAAACCGGCGA
* *** *
60539 GGGAACCAGCGAGGAAACTATCAA
1 GGGAACCAACGAGGAAACCGGCGA
* * *
60563 GGGAATCAATGAGGAAACCGGTGA
1 GGGAACCAACGAGGAAACCGGCGA
* * * **
60587 GGGAACAAATGAAGAAACCGATGA
1 GGGAACCAACGAGGAAACCGGCGA
* * * * * *
60611 GAGAACTAGCAAGAAAACCGTCGA
1 GGGAACCAACGAGGAAACCGGCGA
*
60635 GGGAACCAACCAGGAAAC
1 GGGAACCAACGAGGAAAC
60653 TGATAAGAAA
Statistics
Matches: 169, Mismatches: 61, Indels: 8
0.71 0.26 0.03
Matches are distributed among these distances:
23 6 0.04
24 157 0.93
25 6 0.04
ACGTcount: A:0.42, C:0.19, G:0.33, T:0.06
Consensus pattern (24 bp):
GGGAACCAACGAGGAAACCGGCGA
Found at i:60482 original size:36 final size:35
Alignment explanation
Indices: 60396--60488 Score: 96
Period size: 36 Copynumber: 2.6 Consensus size: 35
60386 CACAGACTGG
* * * *
60396 GGAACCGACGAGGAAACCGGCGAGGGAACCAATGA
1 GGAACCAACGAGGGAACCGGCAAAGGAACCAATGA
* ** *
60431 GGAAATCAATAAGGGAACCGGCAAAGGAACCGATGA
1 GG-AACCAACGAGGGAACCGGCAAAGGAACCAATGA
60467 GAGAACCAACGAGGGAACCGGC
1 G-GAACCAACGAGGGAACCGGC
60489 GAGGCAATCA
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
35 2 0.04
36 42 0.93
37 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.34, T:0.04
Consensus pattern (35 bp):
GGAACCAACGAGGGAACCGGCAAAGGAACCAATGA
Found at i:60484 original size:12 final size:12
Alignment explanation
Indices: 60395--60519 Score: 61
Period size: 12 Copynumber: 10.4 Consensus size: 12
60385 ACACAGACTG
60395 GGGAACCGACGA
1 GGGAACCGACGA
* *
60407 GGAAACCGGCGA
1 GGGAACCGACGA
* *
60419 GGGAACCAATGA
1 GGGAACCGACGA
* * * **
60431 GGAAATCAATAA
1 GGGAACCGACGA
* *
60443 GGGAACCGGCAA
1 GGGAACCGACGA
* *
60455 AGGAACCGATGA
1 GGGAACCGACGA
* *
60467 GAGAACCAACGA
1 GGGAACCGACGA
*
60479 GGGAACCGGCGA
1 GGGAACCGACGA
* * *
60491 GGCAATCAACGA
1 GGGAACCGACGA
* *
60503 AGGAACCGGCGA
1 GGGAACCGACGA
60515 GGGAA
1 GGGAA
60520 ACAAAGAGGA
Statistics
Matches: 78, Mismatches: 35, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
12 78 1.00
ACGTcount: A:0.39, C:0.21, G:0.36, T:0.04
Consensus pattern (12 bp):
GGGAACCGACGA
Found at i:60638 original size:72 final size:72
Alignment explanation
Indices: 60458--60644 Score: 198
Period size: 72 Copynumber: 2.6 Consensus size: 72
60448 CCGGCAAAGG
* * * *
60458 AACCGATGAGAGAACCAACGAGGGAACCGGCGAGGCAATCAACGAAGGAACCGGCGAGGGAAACA
1 AACCGATGAGAGAACCAGCGAGGAAACCGTCGAGGGAATCAACGAAGGAACCGGCGAGGGAAACA
*
60523 AAGAGGA
66 AAGAAGA
* * ** * * *
60530 AACCGTTGAGGGAACCAGCGAGGAAACTATCAAGGGAATCAATG-AGGAAACCGGTGAGGG-AAC
1 AACCGATGAGAGAACCAGCGAGGAAACCGTCGAGGGAATCAACGAAGG-AACCGGCGAGGGAAAC
60593 AAATGAAGA
65 AAA-GAAGA
* * * *
60602 AACCGATGAGAGAACTAGCAAGAAAACCGTCGAGGGAACCAAC
1 AACCGATGAGAGAACCAGCGAGGAAACCGTCGAGGGAATCAAC
60645 CAGGAAACTG
Statistics
Matches: 91, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
71 9 0.10
72 82 0.90
ACGTcount: A:0.42, C:0.19, G:0.32, T:0.07
Consensus pattern (72 bp):
AACCGATGAGAGAACCAGCGAGGAAACCGTCGAGGGAATCAACGAAGGAACCGGCGAGGGAAACA
AAGAAGA
Found at i:63049 original size:4 final size:4
Alignment explanation
Indices: 63040--63065 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
63030 GAGTTGTTGC
63040 AGTT AGTT AGTT AGTT AGTT AGTT AG
1 AGTT AGTT AGTT AGTT AGTT AGTT AG
63066 GGTTGTTAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (4 bp):
AGTT
Found at i:63664 original size:15 final size:16
Alignment explanation
Indices: 63644--63680 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
63634 AACGTCTTTT
63644 AAAAAT-ATTTTTAAG
1 AAAAATCATTTTTAAG
63659 AAAAATCATTTTTAAG
1 AAAAATCATTTTTAAG
63675 ACAAAA
1 A-AAAA
63681 AACTGGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.30
16 10 0.50
17 4 0.20
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (16 bp):
AAAAATCATTTTTAAG
Found at i:66154 original size:85 final size:85
Alignment explanation
Indices: 66024--66425 Score: 513
Period size: 85 Copynumber: 4.7 Consensus size: 85
66014 ATATGTCATC
** *
66024 GAGCTGAATGGAATCAAACTCGACA-GTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
1 GAGCTGAATATAATCGAACTCGA-AGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
66088 CTGTAAATTTGATATGCCCTT
65 CTGTAAATTTGATATGCCCTT
* * * * *
66109 GAGCTGAATATAATCGATCTCGAAGGTTTTTATTAACAGATAGCCCTTCTCTCCTTGAGCTATGT
1 GAGCTGAATATAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
*
66174 TGTAAATTTGATATTCCCTT
66 TGTAAATTTGATATGCCCTT
* * * * * * *
66194 GAGCTGAATGA-AATCAAAATCGAAGATTTTTATTGACAGATAACCCTTCTTGCCTTGAGTTATG
1 GAGCTGAAT-ATAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATG
*
66258 CTGTAAATTTGATATGTCCTT
65 CTGTAAATTTGATATGCCCTT
* * * ** *
66279 GAGCTGATTGTAATCGAACTCGAA-GTTTTGGTTGAGTGATAGGCCTTCTCGCCTTGAGCTATGC
1 GAGCTGAATATAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
* *
66343 TATAAATTTGATATGTCCTT
66 TGTAAATTTGATATGCCCTT
* * *
66363 GAGCTGAATGTAATCGAACTCGAAGGTTTTGGTTGACAGATAACCCTTCTCGCCTTGAGCTAT
1 GAGCTGAATATAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTAT
66426 AATATAATAG
Statistics
Matches: 273, Mismatches: 40, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
84 74 0.27
85 198 0.73
86 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (85 bp):
GAGCTGAATATAATCGAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
TGTAAATTTGATATGCCCTT
Found at i:68058 original size:95 final size:95
Alignment explanation
Indices: 67893--68091 Score: 321
Period size: 95 Copynumber: 2.1 Consensus size: 95
67883 GGACAACTTA
*
67893 ATATTATAATCACCTTTATCAGGCTAGCTAAATCTTATCTATAAAGCCGCGACGTTTAACCAATT
1 ATATTATAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGCCGCGACGTTTAACCAATT
67958 CCTTTAGAGGGACAACTCAAGCTTTATTGT
66 CCTTTAGAGGGACAACTCAAGCTTTATTGT
* * *
67988 ATATTATAATCATCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAG-GGCGTTTAACCAAT
1 ATATTATAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGCC-GCGACGTTTAACCAAT
* *
68052 TGCTTTAGAGGGACAGCTCAAGCTTTATTGT
65 TCCTTTAGAGGGACAACTCAAGCTTTATTGT
68083 ATA-TATAAT
1 ATATTATAAT
68092 ATTATAATCT
Statistics
Matches: 97, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
94 6 0.06
95 90 0.93
96 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (95 bp):
ATATTATAATCACCTTTATCAGGCTAGCTAAATCTTATCCATAAAGCCGCGACGTTTAACCAATT
CCTTTAGAGGGACAACTCAAGCTTTATTGT
Found at i:77859 original size:32 final size:31
Alignment explanation
Indices: 77817--77898 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 31
77807 ACCTAAACTG
77817 AAAATCAACTGATCCGATATTGACCCGACCT
1 AAAATCAACTGATCCGATATTGACCCGACCT
* **
77848 AAAATCTAACTGATCCGGTATTGACCCGATTT
1 AAAATC-AACTGATCCGATATTGACCCGACCT
77880 AAAAATCAACCT-ATCCGAT
1 -AAAATCAA-CTGATCCGAT
77899 GATCTAAATC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
31 6 0.14
32 30 0.68
33 8 0.18
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.26
Consensus pattern (31 bp):
AAAATCAACTGATCCGATATTGACCCGACCT
Found at i:79655 original size:42 final size:42
Alignment explanation
Indices: 79608--79848 Score: 172
Period size: 41 Copynumber: 5.8 Consensus size: 42
79598 AAAATTATAC
*
79608 TTTAGCGGCGTTTTTTAAACAAGCGCCGCAATAGAGTGGTAA
1 TTTAGCGGCGTTTTTTAAACAAACGCCGCAATAGAGTGGTAA
* ** * *
79650 TTTAGCGGCG-TTTATAGCTCAAACGCCGCAATAAAGTTGT--
1 TTTAGCGGCGTTTTTTA-AACAAACGCCGCAATAGAGTGGTAA
** * *
79690 TTATAGTAGCTTTTTTTCAACAAACGCCGCAATAGAGTGGTAA
1 TT-TAGCGGCGTTTTTTAAACAAACGCCGCAATAGAGTGGTAA
* * * * *
79733 TTTAGCGGC-TTTTTTATACAAACGCTGCTATAGTGTTGT--
1 TTTAGCGGCGTTTTTTAAACAAACGCCGCAATAGAGTGGTAA
* * * * * * *
79772 TTATAGTGGCGTTTGTTCAACAAATGACGCTATAGA-TAAGTAA
1 TT-TAGCGGCGTTTTTTAAACAAACGCCGCAATAGAGT-GGTAA
* * *
79815 TTTAGCGGCGTTTATCAAACAAACGCTGCAATAG
1 TTTAGCGGCGTTTTTTAAACAAACGCCGCAATAG
79849 TATTGTTTAT
Statistics
Matches: 149, Mismatches: 40, Indels: 20
0.71 0.19 0.10
Matches are distributed among these distances:
39 2 0.01
40 9 0.06
41 73 0.49
42 61 0.41
43 4 0.03
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTTAAACAAACGCCGCAATAGAGTGGTAA
Found at i:79721 original size:83 final size:82
Alignment explanation
Indices: 79615--79910 Score: 274
Period size: 83 Copynumber: 3.6 Consensus size: 82
79605 TACTTTAGCG
* *
79615 GCGTTTTTTAAACAAGCGCCGCAATAGAGTGGTAATTTAGCGGCGTTTATAGCT-CAAACGCCGC
1 GCGTTTTTTCAACAAACGCCGCAATAGAGTGGTAATTTAGCGGCGTTTATA--TACAAACGCCGC
79679 AATAAAGTTGTTTATAGTA
64 AATAAAGTTGTTTATAGTA
* * * * *
79698 GCTTTTTTTCAACAAACGCCGCAATAGAGTGGTAATTTAGCGGCTTTTTTATACAAACGCTGCTA
1 GCGTTTTTTCAACAAACGCCGCAATAGAGTGGTAATTTAGCGGCGTTTATATACAAACGCCGCAA
** *
79763 TAGTGTTGTTTATAGTG
66 TAAAGTTGTTTATAGTA
* * * * * * *
79780 GCGTTTGTTCAACAAATGACGCTATAGA-TAAGTAATTTAGCGGCGTTTATCAAACAAACGCTGC
1 GCGTTTTTTCAACAAACGCCGCAATAGAGT-GGTAATTTAGCGGCGTTTAT-ATACAAACGCCGC
* *
79844 AATAGTA-TTGTTTATAGTG
64 AATA-AAGTTGTTTATAGTA
**** * * ** *
79863 GCGTTAGGGCAAAAAATGCCGCAATAGAGTAATAATATAGCGGCGTTT
1 GCGTTTTTTCAACAAACGCCGCAATAGAGTGGTAATTTAGCGGCGTTT
79911 GTCCTACAAA
Statistics
Matches: 178, Mismatches: 30, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
81 2 0.01
82 64 0.36
83 111 0.62
84 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (82 bp):
GCGTTTTTTCAACAAACGCCGCAATAGAGTGGTAATTTAGCGGCGTTTATATACAAACGCCGCAA
TAAAGTTGTTTATAGTA
Found at i:79866 original size:41 final size:41
Alignment explanation
Indices: 79750--79867 Score: 109
Period size: 41 Copynumber: 2.9 Consensus size: 41
79740 GCTTTTTTAT
* *
79750 ACAAACGCTGCTATAGTGTTGTTTATAGTGGCGTTTGTTCA
1 ACAAACGCTGCTATAGTATTGTTTATAGTGGCGTTTGATCA
* * *
79791 ACAAATGAC-GCTATAG-ATAAGTAATT-TAGCGGCGTTT-ATCAA
1 ACAAACG-CTGCTATAGTAT-TGT--TTATAGTGGCGTTTGATC-A
*
79833 ACAAACGCTGCAATAGTATTGTTTATAGTGGCGTT
1 ACAAACGCTGCTATAGTATTGTTTATAGTGGCGTT
79868 AGGGCAAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
40 3 0.05
41 27 0.45
42 26 0.43
43 4 0.07
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (41 bp):
ACAAACGCTGCTATAGTATTGTTTATAGTGGCGTTTGATCA
Found at i:82079 original size:43 final size:43
Alignment explanation
Indices: 82018--82169 Score: 123
Period size: 43 Copynumber: 3.5 Consensus size: 43
82008 CAGAATTTTA
* *
82018 GCGGCGTTTGCATAAAAAATGCCACTAAATCTCAAAACTTATT
1 GCGGCGTTTGCATAAAAAACGCCACTAAATCTCAAAACCTATT
* * *
82061 GCGGCGTTTGTGAT-AAAAACGCCGCTAAATCTCAACACCTATT
1 GCGGCGTTTG-CATAAAAAACGCCACTAAATCTCAAAACCTATT
* * * * * *
82104 ACGGCGTTT--TTAAGACAAACGTCGCTAAATATCAACACCTATT
1 GCGGCGTTTGCATAA-A-AAACGCCACTAAATCTCAAAACCTATT
* *
82147 GCGTCGTTTG-TTAAACAAACGCC
1 GCGGCGTTTGCATAAA-AAACGCC
82170 TCTATAAATC
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 1 0.01
43 83 0.90
44 6 0.07
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
GCGGCGTTTGCATAAAAAACGCCACTAAATCTCAAAACCTATT
Found at i:95388 original size:23 final size:23
Alignment explanation
Indices: 95360--95416 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
95350 GAAGGTCTTT
*
95360 GGGTTTGGGTTAGATTGTAATTA
1 GGGTTTAGGTTAGATTGTAATTA
95383 GGGTTTAGGTTAGATTGTAATTA
1 GGGTTTAGGTTAGATTGTAATTA
95406 GGGTTTAGGTT
1 GGGTTTAGGTT
95417 TTTAGGTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.21, C:0.00, G:0.35, T:0.44
Consensus pattern (23 bp):
GGGTTTAGGTTAGATTGTAATTA
Found at i:95505 original size:19 final size:17
Alignment explanation
Indices: 95483--95522 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
95473 ATGCAAAATA
*
95483 AATATTAATATTAATTAAT
1 AATAATAATATT-A-TAAT
95502 AATAATAATATTATAAT
1 AATAATAATATTATAAT
95519 AATA
1 AATA
95523 GCGGTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
19 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAATAATATTATAAT
Done.