Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006021.1 Hibiscus syriacus cultivar Beakdansim tig00014209_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: 70452
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:7275 original size:23 final size:24
Alignment explanation
Indices: 7232--7276 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
7222 TCTTCTTGAT
*
7232 GATGTATAAAACAACTTTGTACAC
1 GATGTATAAAACAACTATGTACAC
*
7256 GATGTAT-AAACATCTATGTAC
1 GATGTATAAAACAACTATGTAC
7277 CATGTCATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (24 bp):
GATGTATAAAACAACTATGTACAC
Found at i:14690 original size:17 final size:17
Alignment explanation
Indices: 14668--14708 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
14658 TGAAAAGGTA
*
14668 GAAACCACTATAAAAGG
1 GAAACCACTATAAAAAG
14685 GAAACCACTATAAAAAG
1 GAAACCACTATAAAAAG
14702 GAAACCA
1 GAAACCA
14709 TAAATGAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.56, C:0.20, G:0.15, T:0.10
Consensus pattern (17 bp):
GAAACCACTATAAAAAG
Found at i:20249 original size:45 final size:45
Alignment explanation
Indices: 20171--20354 Score: 198
Period size: 45 Copynumber: 4.2 Consensus size: 45
20161 CCTCGGCTCG
* * * *
20171 TCCATCACATAAAGAGTTGAATCAGA-TTTACTTTTCTTTCTCGAT
1 TCCATCACATAAGGAGTTGGATCA-ACTTCACTTTTCTTGCTCGAT
* * *
20216 TCCATTACATAAGGAGCTGGATCACCTTCACTTTTCTTGCTCGAT
1 TCCATCACATAAGGAGTTGGATCAACTTCACTTTTCTTGCTCGAT
* * * * *
20261 TCCATCACATAAAGAGTTGGGTCAGCATCACTATTTC--GCTAGAT
1 TCCATCACATAAGGAGTTGGATCAACTTCACT-TTTCTTGCTCGAT
20305 TCCATCACATAAGGAGTTGGATCAACTTCAC-TTT-TTGCTCGAT
1 TCCATCACATAAGGAGTTGGATCAACTTCACTTTTCTTGCTCGAT
*
20348 CCCATCA
1 TCCATCA
20355 AAGAAGAAGT
Statistics
Matches: 115, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
42 3 0.03
43 12 0.10
44 33 0.29
45 63 0.55
46 4 0.03
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (45 bp):
TCCATCACATAAGGAGTTGGATCAACTTCACTTTTCTTGCTCGAT
Found at i:22898 original size:140 final size:139
Alignment explanation
Indices: 22623--22910 Score: 334
Period size: 141 Copynumber: 2.1 Consensus size: 139
22613 TTTATCACAC
* *
22623 CCTTTAATATAGGGAATGATTTGAGTTGGCTCTCGCATTAACATGCCTGAGGACTATTTTGATTA
1 CCTTTAATATAGGGAATAATTTGAGTTGGCTCTCGCATTAACATGCCTGAGGACCATTTTGATTA
* * * * **
22688 TTCGATTCAATGATTGGTTAAAATGAATTAGGATTAATATTAGAGTCTTTGCTTTAGGTTTAATT
66 TTCAACTCAATAATTAGTTAAAACAAATTAGGATTAATATTAGAGTCTTT-CTTTAGGTTTAA-T
*
22753 TTCCTTTA-GT
129 GTCCTTTAGGT
* * * *
22763 CCTTTAATTTAGGGAATAATTTGATTTGGCTCTCGTATTAACATG-GTCGAGGGACCATTTTGAT
1 CCTTTAATATAGGGAATAATTTGAGTTGGCTCTCGCATTAACATGCCT-GA-GGACCATTTTGAT
*
22827 TATTCAACTCAATAATTAGTTAAAACAAATTAGGGTTAATATTAGAGCCTCCATTT-TTTAGGTT
64 TATTCAACTCAATAATTAGTTAAAACAAATTAGGATTAATATTAGAG--T-C-TTTCTTTAGGTT
22891 T-A-GTCCTTTAGGT
125 TAATGTCCTTTAGGT
*
22904 TCTTTAA
1 CCTTTAA
22911 ATTTCATAAT
Statistics
Matches: 126, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
139 1 0.01
140 50 0.40
141 60 0.48
142 1 0.01
143 10 0.08
144 1 0.01
145 3 0.02
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.41
Consensus pattern (139 bp):
CCTTTAATATAGGGAATAATTTGAGTTGGCTCTCGCATTAACATGCCTGAGGACCATTTTGATTA
TTCAACTCAATAATTAGTTAAAACAAATTAGGATTAATATTAGAGTCTTTCTTTAGGTTTAATGT
CCTTTAGGT
Found at i:25709 original size:40 final size:40
Alignment explanation
Indices: 25638--25717 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
25628 ATAGGATTCA
* * * *
25638 AATATTGCACTGTAGTGCTGAGGTCGAGCCTTGCTCACCT
1 AATAATGCACCGTAGTGCTAAGGTCGAGCCTTGCCCACCT
* *
25678 AATAATGCACCGTAGTGCTAAGGTTGGGCCTTGCCCACCT
1 AATAATGCACCGTAGTGCTAAGGTCGAGCCTTGCCCACCT
25718 TATACACCGT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (40 bp):
AATAATGCACCGTAGTGCTAAGGTCGAGCCTTGCCCACCT
Found at i:39069 original size:15 final size:16
Alignment explanation
Indices: 39049--39084 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
39039 TAAAAGGATT
39049 ATTAAATTT-TAATTA
1 ATTAAATTTATAATTA
*
39064 ATTAAATTTATATTTA
1 ATTAAATTTATAATTA
39080 ATTAA
1 ATTAA
39085 TTTGAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTAAATTTATAATTA
Found at i:39069 original size:90 final size:90
Alignment explanation
Indices: 38958--39135 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 90
38948 TAATCCCTAA
* *
38958 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
*
39023 TAGGGTAACTTGGATATAAAAGGAT
66 TAGGATAACTTGGATATAAAAGGAT
* * *
39048 TATTAAATTTTAATTAATTAAATTTATATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
1 TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
*
39113 TAGGATAACTTGGCTATAAAAGG
66 TAGGATAACTTGGATATAAAAGG
39136 GTGTGTTAGG
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (90 bp):
TATTAAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAAACCCTAATATGAT
TAGGATAACTTGGATATAAAAGGAT
Found at i:40774 original size:23 final size:23
Alignment explanation
Indices: 40744--40801 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
40734 TCGGTTTTGA
40744 TTCGATTCAACCATGAAATCGAC
1 TTCGATTCAACCATGAAATCGAC
40767 TTCGATTCAACCATGAAATCGAC
1 TTCGATTCAACCATGAAATCGAC
40790 TTCGATTCAACC
1 TTCGATTCAACC
40802 TTATACAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.28
Consensus pattern (23 bp):
TTCGATTCAACCATGAAATCGAC
Found at i:45799 original size:81 final size:82
Alignment explanation
Indices: 45659--45871 Score: 322
Period size: 81 Copynumber: 2.6 Consensus size: 82
45649 GGTGACATAG
* *
45659 ATGGATTTGGTGTATGTTTTCAGTGTCAGGTGTGGTAGTGGTGTTAGGT-GACTTTGGTGTTTTA
1 ATGG-TTTGGTGTATATTTTCAATGTCAGGTGTGGTAGTGGTGTTAGGTGGACTTTGGTGTTTTA
45723 AAAGAGTCCAATGGGTTA
65 AAAGAGTCCAATGGGTTA
* **
45741 ATGGTTTGGTGTATATTTTCAATGTTAGGTGTGGTAGTGGTGTTAGGTGGA-TTTGGTGTTTTTT
1 ATGGTTTGGTGTATATTTTCAATGTCAGGTGTGGTAGTGGTGTTAGGTGGACTTTGGTGTTTTAA
*
45805 GAGAGTCCAATGGGTTA
66 AAGAGTCCAATGGGTTA
* * *
45822 ATGGTTTGTTGTATATTTTTAATGTCAGGTGCGGTAGTGGTGTTAGGTGG
1 ATGGTTTGGTGTATATTTTCAATGTCAGGTGTGGTAGTGGTGTTAGGTGG
45872 TTGTGTTTCG
Statistics
Matches: 120, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
81 114 0.95
82 6 0.05
ACGTcount: A:0.18, C:0.05, G:0.35, T:0.43
Consensus pattern (82 bp):
ATGGTTTGGTGTATATTTTCAATGTCAGGTGTGGTAGTGGTGTTAGGTGGACTTTGGTGTTTTAA
AAGAGTCCAATGGGTTA
Found at i:52363 original size:57 final size:59
Alignment explanation
Indices: 52250--52364 Score: 148
Period size: 57 Copynumber: 1.9 Consensus size: 59
52240 TTGTAACCCG
* *
52250 AGAGTTCTAAGTAAATAAAATAGCTAATTCCTAAATAAAAGATAATGATATAATCAAACTA
1 AGAGTTCTAAGTAAATAAAATA-C-AATTCCTAAATAAAAGATAATAAAATAATCAAACTA
52311 AGAGTTCTAAGTAAAT-AAATA-AATTCCTAAATAAATA-A-AATAAAAATAATCAAA
1 AGAGTTCTAAGTAAATAAAATACAATTCCTAAATAAA-AGATAAT-AAAATAATCAAA
52365 TTAAAATCCT
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
56 3 0.06
57 25 0.50
58 1 0.02
60 5 0.10
61 16 0.32
ACGTcount: A:0.57, C:0.09, G:0.08, T:0.27
Consensus pattern (59 bp):
AGAGTTCTAAGTAAATAAAATACAATTCCTAAATAAAAGATAATAAAATAATCAAACTA
Found at i:53644 original size:27 final size:27
Alignment explanation
Indices: 53603--53660 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
53593 ATTTCTACTC
* *
53603 ATTTGTGATAATTTATATAGAATTTTA
1 ATTTGTGATAATTTATATAAAATTTCA
*
53630 ATTTGTGATAGTTTATATAAAATTTCA
1 ATTTGTGATAATTTATATAAAATTTCA
53657 ATTT
1 ATTT
53661 ATGGCTTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (27 bp):
ATTTGTGATAATTTATATAAAATTTCA
Found at i:54223 original size:24 final size:25
Alignment explanation
Indices: 54177--54224 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
54167 AAAGTCCTAT
* *
54177 TTTTTTAAATAGCAAGTATAATATA
1 TTTTTTAAATAACAAGTAGAATATA
*
54202 TTTTTTCAATAACAAGT-GAATAT
1 TTTTTTAAATAACAAGTAGAATAT
54225 TAGAATTAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (25 bp):
TTTTTTAAATAACAAGTAGAATATA
Found at i:55780 original size:24 final size:25
Alignment explanation
Indices: 55748--55795 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
55738 TTATGTTAGG
*
55748 AAGTCGAATTTGTA-AAATTTTAAA
1 AAGTCGAATTTATATAAATTTTAAA
*
55772 AAGTTGAATTTATATAAATTTTAA
1 AAGTCGAATTTATATAAATTTTAA
55796 GAGAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (25 bp):
AAGTCGAATTTATATAAATTTTAAA
Found at i:63673 original size:25 final size:26
Alignment explanation
Indices: 63619--63683 Score: 114
Period size: 25 Copynumber: 2.5 Consensus size: 26
63609 TAACAAAAAG
63619 GGGGAGAAATGTTAAAGTGTTTTAAA
1 GGGGAGAAATGTTAAAGTGTTTTAAA
63645 GGGGAGAAATGTTAAAGTG-TTTAAA
1 GGGGAGAAATGTTAAAGTGTTTTAAA
*
63670 GGGGAGAAGTGTTA
1 GGGGAGAAATGTTA
63684 GAGTAAGGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
25 19 0.50
26 19 0.50
ACGTcount: A:0.37, C:0.00, G:0.35, T:0.28
Consensus pattern (26 bp):
GGGGAGAAATGTTAAAGTGTTTTAAA
Found at i:64043 original size:22 final size:22
Alignment explanation
Indices: 64018--64072 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
64008 AGAGGGAACT
64018 GATTCCCCCCTAAGGGGGTACC
1 GATTCCCCCCTAAGGGGGTACC
64040 GATTCCCCCCTAAGGGGGTACC
1 GATTCCCCCCTAAGGGGGTACC
64062 GATTCCCCCCT
1 GATTCCCCCCT
64073 TAATGGTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.16, C:0.40, G:0.24, T:0.20
Consensus pattern (22 bp):
GATTCCCCCCTAAGGGGGTACC
Found at i:66819 original size:17 final size:17
Alignment explanation
Indices: 66797--66833 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
66787 TTTCCTCGAT
66797 ATTAAAAAATAAAAATA
1 ATTAAAAAATAAAAATA
* *
66814 ATTAAAAAATTAATATA
1 ATTAAAAAATAAAAATA
66831 ATT
1 ATT
66834 TATAAAATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTAAAAAATAAAAATA
Found at i:68460 original size:25 final size:25
Alignment explanation
Indices: 68440--68496 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
68430 TGTAATATTT
68440 AATAAT-ATTAATAACAATAATAATA
1 AATAATGA-TAATAACAATAATAATA
*
68465 AATAATGATAATAATAATAAATATATA
1 AATAATGATAATAACAAT-AATA-ATA
68492 AATAA
1 AATAA
68497 GATGGGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 15 0.54
26 5 0.18
27 8 0.29
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (25 bp):
AATAATGATAATAACAATAATAATA
Found at i:68461 original size:3 final size:3
Alignment explanation
Indices: 68439--68484 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
68429 TTGTAATATT
* * *
68439 TAA TAA TAT TAA TAA CAA TAA TAA TAAA TAA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
68485 ATATATAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:68468 original size:16 final size:16
Alignment explanation
Indices: 68440--68481 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
68430 TGTAATATTT
*
68440 AATAAT-ATTAATAAC
1 AATAATAATAAATAAC
*
68455 AATAATAATAAATAAT
1 AATAATAATAAATAAC
*
68471 GATAATAATAA
1 AATAATAATAA
68482 TAAATATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (16 bp):
AATAATAATAAATAAC
Found at i:68754 original size:19 final size:18
Alignment explanation
Indices: 68735--68791 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
68725 AACAAGCTCT
68735 TTCATTGTGAACTTCTTC
1 TTCATTGTGAACTTCTTC
*
68753 TTC-TTCAGATG-AGTTCTTC
1 TTCATT--G-TGAACTTCTTC
68772 -TCATTGTGAACTTCTTC
1 TTCATTGTGAACTTCTTC
68789 TTC
1 TTC
68792 TTCAGATGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
16 2 0.06
17 10 0.32
18 7 0.23
19 10 0.32
20 2 0.06
ACGTcount: A:0.16, C:0.23, G:0.12, T:0.49
Consensus pattern (18 bp):
TTCATTGTGAACTTCTTC
Found at i:68808 original size:39 final size:36
Alignment explanation
Indices: 68732--68800 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
68722 TTGAACAAGC
68732 TCTT-TCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
68767 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGA
1 TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGA
68801 CGAGTTCTGC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 4 0.12
36 29 0.88
ACGTcount: A:0.17, C:0.22, G:0.13, T:0.48
Consensus pattern (36 bp):
TCTTCTCATTGTGAACTTCTTCTTCTTCAGATGAGT
Found at i:68814 original size:39 final size:36
Alignment explanation
Indices: 68736--68822 Score: 129
Period size: 36 Copynumber: 2.3 Consensus size: 36
68726 ACAAGCTCTT
*
68736 TCATTGTGAACTTCTTCTTCTTCAGATGAGTTCTTC
1 TCATTGTGAACTTCTTCTTCTTCAGATGAGTTCTGC
68772 TCATTGTGAACTTCTTCTTCTTCAGATGACGAGTTCTGC
1 TCATTGTGAACTTCTTCTTCTTCAGAT---GAGTTCTGC
*
68811 TCATTATGAACT
1 TCATTGTGAACT
68823 CTACCTGGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 27 0.59
39 19 0.41
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.44
Consensus pattern (36 bp):
TCATTGTGAACTTCTTCTTCTTCAGATGAGTTCTGC
Found at i:69102 original size:113 final size:112
Alignment explanation
Indices: 68764--69121 Score: 477
Period size: 112 Copynumber: 3.2 Consensus size: 112
68754 TCTTCAGATG
* ** * * *
68764 AGTTCTTCTCATTGTGAACTTCTTCTTCTTC-AGATGACGAGTTCTGCTCATTATGAACTCTACC
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCA-GATGAGTTCTTCTCATTATGAACTCTAAC
* * * * *
68828 TGGCAATGTTGATCCATCAAATGATGAATTTAAACAAAAGGTTGAACA
65 TGGTAATGATGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACA
* * *
68876 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTA-TATGAACTCGAAC
1 AGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAAC
* *
68940 TGGTAATGATGATCCATTGAATGATGAATTCAAGCAAAAAGTTGAACA
65 TGGTAATGATGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACA
*
68988 AGTTCTTCTCATTATGAACTTCTTCTTCTTTCTTTAGATGAGTTCTTCTCATTATGAACTCTAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATGAGTTCTTCTCATTATGAACTCTAAC
* * * * *
69053 TGGTACTGCTGTTCCACCGAGTGATGAATTTAAGCAAAAAGTTGAACA
65 TGGTAATGATGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACA
69101 AGTTCTTCTCATTATGAACTT
1 AGTTCTTCTCATTATGAACTT
69122 TCTCTGGAAA
Statistics
Matches: 215, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
111 1 0.00
112 123 0.57
113 90 0.42
114 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (112 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACT
GGTAATGATGATCCATCGAATGATGAATTTAAGCAAAAAGTTGAACA
Found at i:69115 original size:73 final size:73
Alignment explanation
Indices: 69028--69191 Score: 202
Period size: 73 Copynumber: 2.2 Consensus size: 73
69018 TCTTTAGATG
* ** * * *
69028 AGTTCTTCTCATTATGAACTCTAACTGGTACTGCTGTTCCACCGAGTGATGAATTTAAGCAAAAA
1 AGTTCTTCTCATTATGAACTCTAACTGGAAAAGCTGATCCACCAAATGATGAATTTAAGCAAAAA
69093 GTTGAACA
66 GTTGAACA
* ** * * * *
69101 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTCTAACTGGAAAAGCTGATCCACCAAATGATGAATTTAAGCAAAAA
69166 GTTGAACA
66 GTTGAACA
*
69174 AATTCTTCTCATTATGAA
1 AGTTCTTCTCATTATGAA
69192 TTTCTTCTTC
Statistics
Matches: 77, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (73 bp):
AGTTCTTCTCATTATGAACTCTAACTGGAAAAGCTGATCCACCAAATGATGAATTTAAGCAAAAA
GTTGAACA
Found at i:69164 original size:186 final size:186
Alignment explanation
Indices: 68949--69303 Score: 494
Period size: 186 Copynumber: 1.9 Consensus size: 186
68939 CTGGTAATGA
** *
68949 TGATCCATTGAATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
1 TGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
* * * ** * * *
69014 TCTTTCTTTAGATGAGTTCTTCTCATTATGAACTCTAACTGGTACTGCTGTTCCACCGAGTGATG
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGCTGATCCACCAAATGATG
*
69079 AATTTAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTTCTCTGGAAAAGC
131 AATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTTCTCTGGAAAAGC
* ** * *
69135 TGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCT
1 TGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
* ** *
69200 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATG
66 TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGCTGATCCACCAAATGATG
* * *
69265 GATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
131 AATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGA
69304 TTTCTTCTTC
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
186 145 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (186 bp):
TGATCCATCAAATGATGAATTCAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCT
TCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAACTGGAAAAGCTGATCCACCAAATGATG
AATTTAAGCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTTCTCTGGAAAAGC
Found at i:69468 original size:111 final size:113
Alignment explanation
Indices: 69101--69605 Score: 878
Period size: 112 Copynumber: 4.5 Consensus size: 113
69091 AAGTTGAACA
*
69101 AGTTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
*
69166 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
66 GTTAAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
69214 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
*
69279 GTTGAACAAATTCTTCTCATTATG-ATTTCTTCTTCCTTCTTCAGATG
66 GTTAAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
* *
69326 AGTTATTCTCATTATGAACTTTTTCTGGAAAA-TTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
* *
69390 GTTAAACAAATTTTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATG
66 GTTAAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
69438 AGTTCTTCTCATTATGAACTTTTTCT-GAAAA-CTGATCCATCAAATGATGGATTTGAGCAAAAG
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
* *
69501 GTTGAAAAAAAAT-TTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
66 GTT-AAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
69549 A-TTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
1 AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGA
69606 ATCTTTGCTA
Statistics
Matches: 377, Mismatches: 11, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
110 24 0.06
111 132 0.35
112 133 0.35
113 88 0.23
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTTTTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAG
GTTAAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATG
Done.