Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_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: 3902382
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 18
Found at i:2754 original size:199 final size:198
Alignment explanation
Indices: 2378--2939 Score: 715
Period size: 199 Copynumber: 2.8 Consensus size: 198
2368 GTATCGACAC
* *
2378 TTTTGTCCAGAATGAATGCCAAACGGGTGCACGCATAAAATGTTGATACATTTATTAAAAGTATC
1 TTTTGTCCAGAATGAATGCCAAACGGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATC
* * *
2443 GATTCCAAAAACATCGAAA-CATATAATTATAATGTAATAGGTAAATTTCCAATGTAACCCGTAG
66 GATCCCAAAAACATCGAAACCA-ATAATTATAATGTAATAGGTAAATTTACAATGT-ACCAGTAG
* * * *
2507 AAATATACTGGTTTTATGAGAGAATAGATCAACATAATGTATCGACACTTTTTAA-ATTTGTGTC
129 AAATATACCGGTTTTATGAGAAAATAGGTCAATATAATGTATCGACACTTTTTAAGA-TTGTGTC
2571 AATACA
193 AATACA
* * *
2577 TTTTGTCCAAAATGAATGCCAAACGCGATGCACGCATAAAGTGTCGATACATTTATTAACAGTAT
1 TTTTGTCCAGAATGAATGCCAAACG-GGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTAT
* * *
2642 CGATCCCAAAAACATCGAAACCAATAATTACAATGTAATAGGTAAATTTAAAATGTACCATTAGA
65 CGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTACCAGTAGA
* * *
2707 AATATACCGGTTTTATGAGAAAATAGGTCTATATAATTTATCGACACTTTTTAAGATTGTGTCGA
130 AATATACCGGTTTTATGAGAAAATAGGTCAATATAATGTATCGACACTTTTTAAGATTGTGTCAA
*
2772 TATA
195 TACA
* * * *
2776 -TTT-TCTAGAATGAAAGCCCAACGAGGTGCACGCATAAAGTGTCGATACATTTA--AAATTGTA
1 TTTTGTCCAGAATGAATGCCAAACG-GGTGCACGCATAAAGTGTCGATACATTTATTAAA-AGTA
* ** * *
2837 TCGATCCCGAAAACATCGAAACTGATAATTATAATGTAATATGTAAATTTACAATGTTACCGGTA
64 TCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATG-TACCAGTA
* * * *
2902 TAAATATACC-GATTTAGTTAGAAAATATGTCAATATAA
128 GAAATATACCGGTTTTA-TGAGAAAATAGGTCAATATAA
2940 GTACTATCTA
Statistics
Matches: 317, Mismatches: 40, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
195 2 0.01
196 58 0.18
197 77 0.24
198 3 0.01
199 90 0.28
200 85 0.27
201 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (198 bp):
TTTTGTCCAGAATGAATGCCAAACGGGTGCACGCATAAAGTGTCGATACATTTATTAAAAGTATC
GATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTACCAGTAGAA
ATATACCGGTTTTATGAGAAAATAGGTCAATATAATGTATCGACACTTTTTAAGATTGTGTCAAT
ACA
Found at i:3055 original size:87 final size:84
Alignment explanation
Indices: 2934--3093 Score: 248
Period size: 87 Copynumber: 1.9 Consensus size: 84
2924 AAATATGTCA
* *
2934 ATATAAGTACTATCTAACATTATATAACGCTACCTAATATGTTATTGTACTTAATAATATTTCCA
1 ATATAAGTACTACCTAACATCATATAACGCTACCTAATATGTTATTGTACTTAATAATATTTCCA
2999 GTTAAATGTCTATTTTTTT
66 GTTAAATGTCTATTTTTTT
* *
3018 ATATAAGTGCTACCTATTACATCATATAAGCGCTACCTAATATGTTATTGTACTTAATACTATTT
1 ATATAAGTACTACCTA--ACATCATATAA-CGCTACCTAATATGTTATTGTACTTAATAATATTT
*
3083 CCGGTTAAATG
63 CCAGTTAAATG
3094 ATATAACATA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
84 14 0.21
86 10 0.15
87 44 0.65
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (84 bp):
ATATAAGTACTACCTAACATCATATAACGCTACCTAATATGTTATTGTACTTAATAATATTTCCA
GTTAAATGTCTATTTTTTT
Found at i:9156 original size:14 final size:16
Alignment explanation
Indices: 9132--9163 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9122 AATTATAAAT
9132 AGTATATATGT-TTCG
1 AGTATATATGTCTTCG
9147 AGTA-ATATGTCTTCG
1 AGTATATATGTCTTCG
9162 AG
1 AG
9164 AAGTATTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (16 bp):
AGTATATATGTCTTCG
Found at i:13025 original size:105 final size:105
Alignment explanation
Indices: 12808--13374 Score: 904
Period size: 105 Copynumber: 5.4 Consensus size: 105
12798 GTATTGTTCC
* * * *
12808 GGAGTCCAATATCATTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTCGGTTGACA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTCTGTTGACA
** ***
12873 GTCAGCGGTCCCTTCGTCGTGAAGTTGAACTTATACTGTCT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCT
**
12914 TAAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTCTGTTGACAA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTCTGTTGACAA
12979 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCT
* *
13019 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCT-AGGATTGAGAAATGGT-TGTTGAC
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGAGAAAT-GTCTGTTGAC
13082 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCT
64 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCT
* *
13124 GGGGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTCTGTTGACAA
*
13189 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCT
* * *
13229 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAATGTTTATTGACAA
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTCTGTTGACAA
* *
13294 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCT
13334 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
13375 GGTAAAACCT
Statistics
Matches: 434, Mismatches: 23, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
104 3 0.01
105 381 0.88
106 50 0.12
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (105 bp):
GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTCTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCT
Found at i:14183 original size:47 final size:47
Alignment explanation
Indices: 14125--14217 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 47
14115 TTTTCCCTTC
* * * *
14125 TTTTTTCTTTTCTCAATTTAGGGCGCCCTTTCGGGTTTTCACCCTAAA
1 TTTTTTCTTTTC-CAACTTAGGACGCCCTCTCAGGTTTTCACCCTAAA
* *
14173 TTTTTT-TTTTCCGACTTAGGACGCCCTCTCAGGTTTTCATCCTAA
1 TTTTTTCTTTTCCAACTTAGGACGCCCTCTCAGGTTTTCACCCTAA
14218 GCGAAGTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 28 0.72
47 5 0.13
48 6 0.15
ACGTcount: A:0.15, C:0.26, G:0.14, T:0.45
Consensus pattern (47 bp):
TTTTTTCTTTTCCAACTTAGGACGCCCTCTCAGGTTTTCACCCTAAA
Found at i:20686 original size:21 final size:21
Alignment explanation
Indices: 20661--20708 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
20651 TCTTTATTTG
*
20661 ATCTTCTAATATTTTTATCTTT
1 ATCTTCT-ATATTTTTAGCTTT
*
20683 -TCTTCTATCTTTTTAGCTTT
1 ATCTTCTATATTTTTAGCTTT
20703 ATCTTC
1 ATCTTC
20709 CTCATCAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.17, C:0.19, G:0.02, T:0.62
Consensus pattern (21 bp):
ATCTTCTATATTTTTAGCTTT
Found at i:24456 original size:4 final size:4
Alignment explanation
Indices: 24447--24519 Score: 51
Period size: 4 Copynumber: 17.8 Consensus size: 4
24437 ATGTTAGAAG
* * * *
24447 AAAT AAAT AAAT AAAT AAAT AAA- ATACT AAAT AAGT CAAAT GAAAG GAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT -AAAT -AAAT AAAT
*
24497 AAAT AAATT AATT AAA- AAAT AAA
1 AAAT AAA-T AAAT AAAT AAAT AAA
24520 ACAAATGATG
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
3 4 0.08
4 39 0.74
5 10 0.19
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:27613 original size:18 final size:18
Alignment explanation
Indices: 27577--27618 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
27567 TATTGCCACG
*
27577 TTAATCAAAGTGTTTATT
1 TTAATCAAAGTGTTAATT
27595 TTAATCAAA-TGATTAATT
1 TTAATCAAAGTG-TTAATT
27613 TATAAT
1 T-TAAT
27619 TAACTAAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 2 0.10
18 15 0.71
19 4 0.19
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (18 bp):
TTAATCAAAGTGTTAATT
Found at i:38771 original size:31 final size:31
Alignment explanation
Indices: 38685--38771 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 31
38675 GCTTAATGCG
* *
38685 TTTAGTACCTAAATTATCAGTTTTGATCCGT
1 TTTAGTACCTAAATTATCAATTTTTATCCGT
* * * *
38716 TTTATTATCTAAACTATCAATTTTTATTCGT
1 TTTAGTACCTAAATTATCAATTTTTATCCGT
* *
38747 TTTAGTACCTAAATTTTTAATTTTT
1 TTTAGTACCTAAATTATCAATTTTT
38772 TTAAAACCAT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.13, G:0.07, T:0.53
Consensus pattern (31 bp):
TTTAGTACCTAAATTATCAATTTTTATCCGT
Found at i:38799 original size:152 final size:153
Alignment explanation
Indices: 38603--38892 Score: 395
Period size: 152 Copynumber: 1.9 Consensus size: 153
38593 CTTTACTATA
* * * * *
38603 TAAACTTTTATTTTTTTTCAAAACCACACCCAACGTTTAGTTTTTGTTTCATTTTAGTACCTGCT
1 TAAACTTTTAATTTTTTTCAAAACCACACACAACATTTAGTTTTTGTTTCATTTTAGTACCCGCC
** * * * *
38668 GTTAAAAGCTTAATGCGTTTAGTACCTAAATTATCAG-TTTTGATCCGTTTTATTATCTAAACTA
66 GTTAAAAGCTTAACACGTTTAGTAACTAAACTATCAGTTTTTGA-CCGTTTTAGTACCTAAACTA
38732 TCAATTTTTATTCGTTTTAGTACC
130 TCAATTTTTATTCGTTTTAGTACC
* * * *
38756 TAAATTTTTAATTTTTTT-AAAACCATACATAACATTTAGTTTTTGTTTCATTTTGGTACCCGCC
1 TAAACTTTTAATTTTTTTCAAAACCACACACAACATTTAGTTTTTGTTTCATTTTAGTACCCGCC
* * *
38820 GTTAAAAGTTTAACATGTTTAGTAACTAAACTATCAGTTTTTGACCGTTTTAGTACCTAAACTTT
66 GTTAAAAGCTTAACACGTTTAGTAACTAAACTATCAGTTTTTGACCGTTTTAGTACCTAAACTAT
38885 CAATTTTT
131 CAATTTTT
38893 TCAAAAATTA
Statistics
Matches: 118, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
152 96 0.81
153 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (153 bp):
TAAACTTTTAATTTTTTTCAAAACCACACACAACATTTAGTTTTTGTTTCATTTTAGTACCCGCC
GTTAAAAGCTTAACACGTTTAGTAACTAAACTATCAGTTTTTGACCGTTTTAGTACCTAAACTAT
CAATTTTTATTCGTTTTAGTACC
Found at i:40754 original size:22 final size:22
Alignment explanation
Indices: 40729--40785 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
40719 AAATAAATGT
**
40729 TAAATAAATCAAAAGGA-AAAAA
1 TAAATAAAT-AAAAACATAAAAA
*
40751 TAAAA-AATAAAAAACATAAAAA
1 TAAATAAAT-AAAAACATAAAAA
40773 TAAATAAATAAAA
1 TAAATAAATAAAA
40786 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
21 8 0.29
22 17 0.61
23 3 0.11
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.16
Consensus pattern (22 bp):
TAAATAAATAAAAACATAAAAA
Found at i:40755 original size:7 final size:7
Alignment explanation
Indices: 40745--40801 Score: 60
Period size: 7 Copynumber: 7.4 Consensus size: 7
40735 AATCAAAAGG
40745 AAAAAAT
1 AAAAAAT
40752 AAAAAAT
1 AAAAAAT
*
40759 AAAAAAC
1 AAAAAAT
40766 ATAAAAAT
1 A-AAAAAT
40774 AAATAAAT
1 AAA-AAAT
40782 AAAATAAAAT
1 --AA-AAAAT
40792 AAAAAAT
1 AAAAAAT
40799 AAA
1 AAA
40802 GGTAAAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
7 24 0.56
8 12 0.28
10 6 0.14
11 1 0.02
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (7 bp):
AAAAAAT
Found at i:40764 original size:9 final size:9
Alignment explanation
Indices: 40752--40795 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
40742 AGGAAAAAAT
40752 AAAAAATAA
1 AAAAAATAA
*
40761 AAAACATAA
1 AAAAAATAA
40770 AAATAAATAA
1 AAA-AAATAA
*
40780 ATAAAATAA
1 AAAAAATAA
40789 AATAAAA
1 AA-AAAA
40796 AATAAAGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 18 0.62
10 11 0.38
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (9 bp):
AAAAAATAA
Found at i:40808 original size:18 final size:18
Alignment explanation
Indices: 40747--40801 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
40737 TCAAAAGGAA
40747 AAAAT-AAA-AAATAAA-
1 AAAATAAAATAAATAAAT
40762 AAACATAAAAATAAATAAAT
1 AAA-AT-AAAATAAATAAAT
40782 AAAATAAAATAAA-AAAT
1 AAAATAAAATAAATAAAT
40799 AAA
1 AAA
40802 GGTAAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.09
16 2 0.06
17 7 0.20
18 11 0.31
19 9 0.26
20 3 0.09
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (18 bp):
AAAATAAAATAAATAAAT
Found at i:40809 original size:13 final size:12
Alignment explanation
Indices: 40747--40801 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
40737 TCAAAAGGAA
40747 AAAATAAAAAAT
1 AAAATAAAAAAT
* *
40759 AAAA-AACATA-
1 AAAATAAAAAAT
40769 AAAATAAATAAAT
1 AAAATAAA-AAAT
40782 AAAATAAAATAA-
1 AAAATAAAA-AAT
40794 AAAATAAA
1 AAAATAAA
40802 GGTAAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
10 4 0.11
11 6 0.17
12 15 0.43
13 10 0.29
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:40817 original size:7 final size:7
Alignment explanation
Indices: 40807--40832 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
40797 ATAAAGGTAA
40807 AAATATT
1 AAATATT
40814 AAATATT
1 AAATATT
40821 AAATATT
1 AAATATT
40828 AAATA
1 AAATA
40833 AATCAAAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAATATT
Found at i:40859 original size:5 final size:5
Alignment explanation
Indices: 40849--40874 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
40839 AGGGGAAAAT
40849 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
40875 AATGTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:40995 original size:40 final size:42
Alignment explanation
Indices: 40923--41008 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 42
40913 GAAGTAAAAT
40923 AAAAAAATGACAAAATTAAAAGGAGAAGAAAAATGAATAACTA
1 AAAAAAATGACAAAATTAAAA-GAGAAGAAAAATGAATAACTA
40966 AAAAAAATG-CTAAAATTAAAA-AGAA-AAAAATGAATAACTA
1 AAAAAAATGAC-AAAATTAAAAGAGAAGAAAAATGAATAACTA
41006 AAA
1 AAA
41009 GTTTAGAGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
40 18 0.43
41 4 0.10
42 1 0.02
43 19 0.45
ACGTcount: A:0.70, C:0.05, G:0.10, T:0.15
Consensus pattern (42 bp):
AAAAAAATGACAAAATTAAAAGAGAAGAAAAATGAATAACTA
Found at i:42061 original size:37 final size:37
Alignment explanation
Indices: 42015--42448 Score: 320
Period size: 37 Copynumber: 11.6 Consensus size: 37
42005 AATATATTAT
* * *
42015 TATTATATATTTTTTCAAAAATATTTCCAAAACTATA
1 TATTATATATGTTTTCAAAAATTTTTCAAAAACTATA
*
42052 TA--ATATATATTTTCAAAAATATTTT--AAAACTATA
1 TATTATATATGTTTTCAAAAAT-TTTTCAAAAACTATA
* * * ** *
42086 TATAATAT-TTTTTTTAAATGTTTTT--AAAATTATA
1 TATTATATATGTTTTCAAAAATTTTTCAAAAACTATA
*
42120 TATTATATATGTTGTCAAAAATGTTTTC-AAAACTATA
1 TATTATATATGTTTTCAAAAAT-TTTTCAAAAACTATA
* *
42157 TACTATATAAGTTTTC-AAAATGTTTTCAAAAACTATA
1 TATTATATATGTTTTCAAAAAT-TTTTCAAAAACTATA
* *
42194 TATTATATAAGTTTTCAAAATGTTTTTCAAAAACTATA
1 TATTATATATGTTTTCAAAA-ATTTTTCAAAAACTATA
* *
42232 TATTATATATATTTTC-AAAATGTTTTTAAAAACTATA
1 TATTATATATGTTTTCAAAAAT-TTTTCAAAAACTATA
*
42269 TATTATATATATTTTC-AAAATGTTTTCAAAAACTATA
1 TATTATATATGTTTTCAAAAAT-TTTTCAAAAACTATA
* * * * *
42306 TATTATATAAGTTTTTAAAATGTTTTTGAAAACTATTTATTATTATA
1 TATTATATATGTTTTCAAAA-ATTTTT--CAA--A---A--ACTATA
* * ** *
42353 TATATATATATATTTTTAAATGTTTTTTTAAAAACTATA
1 TAT-TATATATGTTTTCAAA-AATTTTTCAAAAACTATA
*
42392 TATTATA-A-ATTTTC-AAAATGTTTTCAAAAACTATA
1 TATTATATATGTTTTCAAAAAT-TTTTCAAAAACTATA
*
42427 TATTATATATATATTTCAAAAA
1 TATTATATATGT-TTTCAAAAA
42449 CTATACGATA
Statistics
Matches: 329, Mismatches: 40, Indels: 54
0.78 0.09 0.13
Matches are distributed among these distances:
34 31 0.09
35 57 0.17
36 29 0.09
37 116 0.35
38 47 0.14
39 14 0.04
40 2 0.01
41 1 0.00
42 1 0.00
44 1 0.00
45 1 0.00
46 2 0.01
47 8 0.02
48 19 0.06
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.47
Consensus pattern (37 bp):
TATTATATATGTTTTCAAAAATTTTTCAAAAACTATA
Found at i:42250 original size:112 final size:110
Alignment explanation
Indices: 42010--42435 Score: 460
Period size: 112 Copynumber: 3.8 Consensus size: 110
42000 ATAATAATAT
* * **
42010 ATTAT-TATTATATATTTTTTCAAAAAT-ATTTCCAAAACTATATA-ATATATATTTTCAAAAAT
1 ATTATATATTATATATATTTTCAAAAATGTTTTTAAAAACTATATATATATA-ATTTTC-AAAAT
* ** *
42072 ATTTT--AAAACTATATA-TA-ATATTTTTTTTAAATGTTTTT-AAA
64 GTTTTCAAAAACTATATATTATATAAGTTTTTAAAATGTTTTTAAAA
* * *
42114 ATTATATATTATATATGTTGTCAAAAATG-TTTTCAAAACTATATACTATATAAGTTTTCAAAAT
1 ATTATATATTATATATATTTTCAAAAATGTTTTTAAAAACTATATA-TATATAA-TTTTCAAAAT
*
42178 GTTTTCAAAAACTATATATTATATAAGTTTTCAAAATGTTTTTCAAAA
64 GTTTTCAAAAACTATATATTATATAAGTTTTTAAAATGTTTTT-AAAA
*
42226 ACTATATATTATATATATTTTC-AAAATGTTTTTAAAAACTATATATTATATATATTTTCAAAAT
1 ATTATATATTATATATATTTTCAAAAATGTTTTTAAAAACTATATA-TATATA-ATTTTCAAAAT
42290 GTTTTCAAAAACTATATATTATATAAGTTTTTAAAATGTTTTTGAAAA
64 GTTTTCAAAAACTATATATTATATAAGTTTTTAAAATGTTTTT-AAAA
***
42338 CTATTTATTATTATATATATATATATATTTTTAAATGTTTTTTTAAAAACTATATAT-TATAAAT
1 --A-TTA-TA-TAT-TATATATAT-T-TTCAAAAATG--TTTTTAAAAACTATATATATAT-AAT
42402 TTTCAAAATGTTTTCAAAAACTATATATTATATA
55 TTTCAAAATGTTTTCAAAAACTATATATTATATA
42436 TATATTTCAA
Statistics
Matches: 279, Mismatches: 18, Indels: 33
0.85 0.05 0.10
Matches are distributed among these distances:
104 5 0.02
105 35 0.13
106 10 0.04
107 10 0.04
108 11 0.04
109 2 0.01
110 17 0.06
111 6 0.02
112 99 0.35
113 1 0.00
114 1 0.00
115 2 0.01
116 2 0.01
117 3 0.01
118 9 0.03
119 1 0.00
120 2 0.01
121 44 0.16
122 2 0.01
123 17 0.06
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (110 bp):
ATTATATATTATATATATTTTCAAAAATGTTTTTAAAAACTATATATATATAATTTTCAAAATGT
TTTCAAAAACTATATATTATATAAGTTTTTAAAATGTTTTTAAAA
Found at i:42354 original size:47 final size:48
Alignment explanation
Indices: 42302--42397 Score: 126
Period size: 49 Copynumber: 2.0 Consensus size: 48
42292 TTTCAAAAAC
* *
42302 TATATAT-TATATA-AGTTTTTAAAATG-TTTTTGAAAACTATTTATTAT
1 TATATATATATATATA-TTTTT-AAATGTTTTTTAAAAACTATATATTAT
42349 TATATATATATATATATTTTTAAATGTTTTTTTAAAAACTATATATTAT
1 TATATATATATATATATTTTTAAATG-TTTTTTAAAAACTATATATTAT
42398 AAATTTTCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
47 12 0.28
48 11 0.26
49 20 0.47
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (48 bp):
TATATATATATATATATTTTTAAATGTTTTTTAAAAACTATATATTAT
Found at i:42355 original size:84 final size:83
Alignment explanation
Indices: 42265--42441 Score: 241
Period size: 84 Copynumber: 2.1 Consensus size: 83
42255 TTTTAAAAAC
*
42265 TATATATTATATATATTTTCAAAATG-TTTTCAAAAACTATATATTATATAAGTTTTTAAAATGT
1 TATATATTATATATATTTT-AAAATGTTTTTCAAAAACTATATATTATA-AA-TTTTCAAAATGT
** *
42329 TTTTGAAAACTATTTATTAT-
63 TTTCAAAAACTATATATTATA
* *
42349 TATATATATATATATATTTTTAAATGTTTTTTTAAAAACTATATATTATAAATTTTCAAAATGTT
1 TATATAT-TATATATATTTTAAAATG-TTTTTCAAAAACTATATATTATAAATTTTCAAAATGTT
42414 TTCAAAAACTATATATTATA
64 TTCAAAAACTATATATTATA
42434 TATATATT
1 TATATATT
42442 TCAAAAACTA
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
84 41 0.49
85 21 0.25
86 21 0.25
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (83 bp):
TATATATTATATATATTTTAAAATGTTTTTCAAAAACTATATATTATAAATTTTCAAAATGTTTT
CAAAAACTATATATTATA
Found at i:42421 original size:35 final size:36
Alignment explanation
Indices: 42351--42447 Score: 108
Period size: 35 Copynumber: 2.6 Consensus size: 36
42341 TTTATTATTA
* * *
42351 TATATATATATATATTTT-TAAATGTTTTTTTAAAAAC
1 TATATAT-TATAAATTTTCAAAATG-TTTTTCAAAAAC
42388 TATATATTATAAATTTTCAAAATG-TTTTCAAAAAC
1 TATATATTATAAATTTTCAAAATGTTTTTCAAAAAC
42423 TATATATTATATATATATTTCAAAA
1 TATATATTATA-A-AT-TTTCAAAA
42448 ACTATACGAT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
35 21 0.40
36 10 0.19
37 14 0.26
38 8 0.15
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.48
Consensus pattern (36 bp):
TATATATTATAAATTTTCAAAATGTTTTTCAAAAAC
Found at i:44453 original size:30 final size:30
Alignment explanation
Indices: 44417--44480 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
44407 GTTGGTGGTT
44417 TCCACCTCTCGTGTGACATTGAATTGAATC
1 TCCACCTCTCGTGTGACATTGAATTGAATC
* * *
44447 TCCACCTCTCGTGTGGCTTTGAATTGGATC
1 TCCACCTCTCGTGTGACATTGAATTGAATC
44477 TCCA
1 TCCA
44481 ATCCAATCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.34
Consensus pattern (30 bp):
TCCACCTCTCGTGTGACATTGAATTGAATC
Found at i:48971 original size:15 final size:15
Alignment explanation
Indices: 48951--48981 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48941 ATTATCGATG
48951 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
48966 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
48981 A
1 A
48982 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:55455 original size:26 final size:26
Alignment explanation
Indices: 55421--55474 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
55411 TTGAAATTAA
*
55421 TGGCCAAACTTTAGGTGATTGAAAGT
1 TGGCAAAACTTTAGGTGATTGAAAGT
55447 TGGCAAAACTTTAGGTGATTGAAAGT
1 TGGCAAAACTTTAGGTGATTGAAAGT
55473 TG
1 TG
55475 ACAACAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.31
Consensus pattern (26 bp):
TGGCAAAACTTTAGGTGATTGAAAGT
Found at i:61174 original size:17 final size:19
Alignment explanation
Indices: 61141--61179 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
61131 TTTAACAACT
61141 TATAGAACATTAAATA-TAA
1 TATAGAACA-TAAATATTAA
61160 TATAGAACA-AAATATTAA
1 TATAGAACATAAATATTAA
61178 TA
1 TA
61180 ATACAGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TATAGAACATAAATATTAA
Found at i:61725 original size:48 final size:48
Alignment explanation
Indices: 61664--61758 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
61654 AAATCAGATC
61664 AGGTAACAGATCAGAATCCATGTCAAGTATCATATAAAAATTCAGGTT
1 AGGTAACAGATCAGAATCCATGTCAAGTATCATATAAAAATTCAGGTT
* *
61712 AGGTAACATATCAGAATCCATGTCAAGTATTATATAAAAATTCAGGT
1 AGGTAACAGATCAGAATCCATGTCAAGTATCATATAAAAATTCAGGT
61759 CAAATATCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (48 bp):
AGGTAACAGATCAGAATCCATGTCAAGTATCATATAAAAATTCAGGTT
Found at i:61760 original size:24 final size:24
Alignment explanation
Indices: 61685--61770 Score: 91
Period size: 24 Copynumber: 3.6 Consensus size: 24
61675 CAGAATCCAT
61685 GTCAAGTATCATATAAAAATTCAG
1 GTCAAGTATCATATAAAAATTCAG
* * * * * * *
61709 GTTAGGTAACATATCAGAATCCAT
1 GTCAAGTATCATATAAAAATTCAG
*
61733 GTCAAGTATTATATAAAAATTCAG
1 GTCAAGTATCATATAAAAATTCAG
*
61757 GTCAAATATCATAT
1 GTCAAGTATCATAT
61771 CAGATAATTA
Statistics
Matches: 45, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (24 bp):
GTCAAGTATCATATAAAAATTCAG
Found at i:61770 original size:48 final size:48
Alignment explanation
Indices: 61667--61774 Score: 162
Period size: 48 Copynumber: 2.2 Consensus size: 48
61657 TCAGATCAGG
* * **
61667 TAACAGATCAGAATCCATGTCAAGTATCATATAAAAATTCAGGTTAGG
1 TAACATATCAGAATCCATGTCAAGTATCATATAAAAATTCAGGTCAAA
*
61715 TAACATATCAGAATCCATGTCAAGTATTATATAAAAATTCAGGTCAAA
1 TAACATATCAGAATCCATGTCAAGTATCATATAAAAATTCAGGTCAAA
*
61763 TATCATATCAGA
1 TAACATATCAGA
61775 TAATTATTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.29
Consensus pattern (48 bp):
TAACATATCAGAATCCATGTCAAGTATCATATAAAAATTCAGGTCAAA
Found at i:62510 original size:29 final size:30
Alignment explanation
Indices: 62478--62535 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
62468 TTATTTACAA
*
62478 AATTACGAAAATAACACCA-TTTTAAAATT
1 AATTACCAAAATAACACCATTTTTAAAATT
* *
62507 AATTACCAATATAGCACCATTTTTAAAAT
1 AATTACCAAAATAACACCATTTTTAAAAT
62536 ATTTACTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.33
Consensus pattern (30 bp):
AATTACCAAAATAACACCATTTTTAAAATT
Found at i:62586 original size:22 final size:24
Alignment explanation
Indices: 62524--62598 Score: 84
Period size: 23 Copynumber: 3.1 Consensus size: 24
62514 AATATAGCAC
*
62524 CATTTTTAAAATATTTACTAAAAT-G
1 CATTTTTAAAA-A-TTACAAAAATAG
62549 TCATTTTTCAAAAATTAC-AAAATAG
1 -CATTTTT-AAAAATTACAAAAATAG
62574 CA-TTTTAAAAATTACAAAAATAG
1 CATTTTTAAAAATTACAAAAATAG
62597 CA
1 CA
62599 CCCTTTTCGA
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
22 9 0.20
23 13 0.28
24 7 0.15
25 5 0.11
26 8 0.17
27 4 0.09
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (24 bp):
CATTTTTAAAAATTACAAAAATAG
Found at i:62711 original size:18 final size:18
Alignment explanation
Indices: 62688--62727 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
62678 AATGGTCAAT
62688 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
62706 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
62724 GGTC
1 GGTC
62728 GGGTTGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.10, C:0.23, G:0.50, T:0.17
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:68241 original size:11 final size:11
Alignment explanation
Indices: 68225--68258 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
68215 GACACATTTT
*
68225 TTTCTTCAAAA
1 TTTCTTAAAAA
68236 TTTCTTAAAAA
1 TTTCTTAAAAA
68247 TTTCTTAAAAA
1 TTTCTTAAAAA
68258 T
1 T
68259 CCAAAGTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (11 bp):
TTTCTTAAAAA
Found at i:68436 original size:17 final size:19
Alignment explanation
Indices: 68403--68441 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
68393 TTTAACAACT
68403 TATAGAACATTAAATA-TAA
1 TATAGAACA-TAAATATTAA
68422 TATAGAACA-AAATATTAA
1 TATAGAACATAAATATTAA
68440 TA
1 TA
68442 ATACAGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TATAGAACATAAATATTAA
Found at i:68983 original size:48 final size:48
Alignment explanation
Indices: 68920--69016 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
68910 AAAACATAAA
*
68920 TCAGGTCAGGTAACATATCAGAATCCATGTCAAGTATCATATAAAAAT
1 TCAGGCCAGGTAACATATCAGAATCCATGTCAAGTATCATATAAAAAT
68968 TCAGGCCAGGTAACATATCAGAATCCATGTCAAGTATCATATAAAAAT
1 TCAGGCCAGGTAACATATCAGAATCCATGTCAAGTATCATATAAAAAT
69016 T
1 T
69017 AAGGTCAAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (48 bp):
TCAGGCCAGGTAACATATCAGAATCCATGTCAAGTATCATATAAAAAT
Found at i:69023 original size:24 final size:24
Alignment explanation
Indices: 68920--69033 Score: 93
Period size: 24 Copynumber: 4.8 Consensus size: 24
68910 AAAACATAAA
* * * *
68920 TCAGGTCAGGTAACATATCAGAAT
1 TCAGGTCAAGTATCATATAAAAAT
* *
68944 CCATGTCAAGTATCATATAAAAAT
1 TCAGGTCAAGTATCATATAAAAAT
* * * * *
68968 TCAGGCCAGGTAACATATCAGAAT
1 TCAGGTCAAGTATCATATAAAAAT
* *
68992 CCATGTCAAGTATCATATAAAAAT
1 TCAGGTCAAGTATCATATAAAAAT
* *
69016 TAAGGTCAAATATCATAT
1 TCAGGTCAAGTATCATAT
69034 CATATAACTA
Statistics
Matches: 66, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 66 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (24 bp):
TCAGGTCAAGTATCATATAAAAAT
Found at i:69033 original size:48 final size:48
Alignment explanation
Indices: 68930--69035 Score: 167
Period size: 48 Copynumber: 2.2 Consensus size: 48
68920 TCAGGTCAGG
* **
68930 TAACATATCAGAATCCATGTCAAGTATCATATAAAAATTCAGGCCAGG
1 TAACATATCAGAATCCATGTCAAGTATCATATAAAAATTAAGGCCAAA
*
68978 TAACATATCAGAATCCATGTCAAGTATCATATAAAAATTAAGGTCAAA
1 TAACATATCAGAATCCATGTCAAGTATCATATAAAAATTAAGGCCAAA
*
69026 TATCATATCA
1 TAACATATCA
69036 TATAACTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.27
Consensus pattern (48 bp):
TAACATATCAGAATCCATGTCAAGTATCATATAAAAATTAAGGCCAAA
Found at i:69852 original size:23 final size:23
Alignment explanation
Indices: 69826--69871 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
69816 AAAATGTCAT
*
69826 TTTTCAAAATTACAAAAATAGCA
1 TTTTAAAAATTACAAAAATAGCA
69849 TTTTAAAAATTACAAAAATAGCA
1 TTTTAAAAATTACAAAAATAGCA
69872 CCTTTTCGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.30
Consensus pattern (23 bp):
TTTTAAAAATTACAAAAATAGCA
Found at i:76255 original size:2 final size:2
Alignment explanation
Indices: 76248--76289 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
76238 TGTTAATGCA
76248 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
76290 TCAATTCGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78137 original size:22 final size:22
Alignment explanation
Indices: 78107--78216 Score: 148
Period size: 22 Copynumber: 5.0 Consensus size: 22
78097 TGCCATCAAT
*
78107 ATACAAAAGTGCCTTAGCACTG
1 ATACTAAAGTGCCTTAGCACTG
*
78129 ATACTAAAGTGCCTCAGCACTG
1 ATACTAAAGTGCCTTAGCACTG
78151 ATACTAAAGTGCCTTAGCACTG
1 ATACTAAAGTGCCTTAGCACTG
* ** * *
78173 ATACAAAAGTGCAATCGCATTG
1 ATACTAAAGTGCCTTAGCACTG
*
78195 ATACTAAAGTGCCATAGCACTG
1 ATACTAAAGTGCCTTAGCACTG
78217 GGGAAGAAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 76 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (22 bp):
ATACTAAAGTGCCTTAGCACTG
Found at i:82269 original size:18 final size:18
Alignment explanation
Indices: 82246--82387 Score: 257
Period size: 18 Copynumber: 7.9 Consensus size: 18
82236 GCGTAGAATT
*
82246 TGTCCCGTAGGACCACTG
1 TGTCCCGAAGGACCACTG
82264 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTG
82282 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTG
82300 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTG
82318 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTG
82336 TGTCCCGAAGGACCACTG
1 TGTCCCGAAGGACCACTG
* *
82354 TGTCCCAAAGGACCACTA
1 TGTCCCGAAGGACCACTG
82372 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
82388 GTAGACCTCG
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 120 1.00
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTG
Found at i:85520 original size:22 final size:22
Alignment explanation
Indices: 85495--85542 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
85485 ACTAGTTATT
* *
85495 ATATATATGATTTTTATCATGA
1 ATATATATGATGTTTATCACGA
*
85517 ATATATATGATGTTTATTACGA
1 ATATATATGATGTTTATCACGA
85539 ATAT
1 ATAT
85543 TACTTCGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (22 bp):
ATATATATGATGTTTATCACGA
Found at i:88222 original size:23 final size:23
Alignment explanation
Indices: 88196--88258 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
88186 CGTATAAATA
*
88196 CATCAAAGTGCCATATAGAATTG
1 CATCGAAGTGCCATATAGAATTG
**
88219 CATCGAAGTGCCACGTAGAATTG
1 CATCGAAGTGCCATATAGAATTG
* *
88242 CACCGTAGTGCCATATA
1 CATCGAAGTGCCATATA
88259 AGATTATCCC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (23 bp):
CATCGAAGTGCCATATAGAATTG
Found at i:91034 original size:14 final size:15
Alignment explanation
Indices: 91015--91045 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
91005 AAATTGTATG
91015 TAATGATATA-AAAT
1 TAATGATATACAAAT
91029 TAATGATATACAAAT
1 TAATGATATACAAAT
91044 TA
1 TA
91046 GAGAAATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (15 bp):
TAATGATATACAAAT
Found at i:91699 original size:20 final size:20
Alignment explanation
Indices: 91669--91731 Score: 101
Period size: 20 Copynumber: 3.1 Consensus size: 20
91659 AATCAGATTG
91669 CCCAGGGGGTACAGATTCCCC
1 CCCA-GGGGTACAGATTCCCC
91690 CCCAGGGGTACAGATTCCCC
1 CCCAGGGGTACAGATTCCCC
91710 CCCAGGGGTATC-GATTCCCC
1 CCCAGGGGTA-CAGATTCCCC
91730 CC
1 CC
91732 TGTCTAACGG
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
20 36 0.88
21 5 0.12
ACGTcount: A:0.17, C:0.41, G:0.25, T:0.16
Consensus pattern (20 bp):
CCCAGGGGTACAGATTCCCC
Found at i:93946 original size:20 final size:23
Alignment explanation
Indices: 93921--93974 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 23
93911 CCTTGAAGTA
93921 CATCGATGCATTC-T-ACA-GTG
1 CATCGATGCATTCTTAACATGTG
93941 CATCGATGCATTCTTTAACATGTG
1 CATCGATGCATTC-TTAACATGTG
93965 CATCGATGCA
1 CATCGATGCA
93975 CTACCCATGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 13 0.43
22 1 0.03
23 3 0.10
24 13 0.43
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (23 bp):
CATCGATGCATTCTTAACATGTG
Found at i:94034 original size:65 final size:62
Alignment explanation
Indices: 93962--94103 Score: 164
Period size: 65 Copynumber: 2.2 Consensus size: 62
93952 TCTTTAACAT
*
93962 GTGCATCGATGCACTACC-CATGCATCGAT-ATACAAATTACCTTCGATGTTTTCATT-TTTAAA
1 GTGCATCGATGCACT-CCTCATGCATCGATCAT-C-AATTACATTCGATG-TTTC-TTCTTTAAA
*
94024 GG
61 GA
* *
94026 GATGCATCGATGCACTCCTTATGCATCGATGCATCAATTGCATTCGATGTTTCTTCTTTAAAGA
1 G-TGCATCGATGCACTCCTCATGCATCGAT-CATCAATTACATTCGATGTTTCTTCTTTAAAGA
94090 GTGCATCGATGCAC
1 GTGCATCGATGCAC
94104 ATTGAATGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
63 15 0.22
64 15 0.22
65 36 0.52
66 1 0.01
67 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.34
Consensus pattern (62 bp):
GTGCATCGATGCACTCCTCATGCATCGATCATCAATTACATTCGATGTTTCTTCTTTAAAGA
Found at i:98848 original size:55 final size:53
Alignment explanation
Indices: 98788--98960 Score: 129
Period size: 55 Copynumber: 3.2 Consensus size: 53
98778 GTCAGGATAA
*
98788 ATAAGACTTGAAAAATCTTCAAATGACGAGCCTGCTCCCTATTCCTTCAGGAAGT
1 ATAAGACTTGAAAAATCTTCAAA--ACGAGCCTGCTCCCTATTCATTCAGGAAGT
* * * * * *
98843 ATAAGACTCGAACAATCCTTTGC-AAACGTGTCTTCTCCCTATTCATTCAGGGAGT
1 ATAAGACTTGAAAAAT-C-TT-CAAAACGAGCCTGCTCCCTATTCATTCAGGAAGT
* **
98898 ATAAGAC-TCAAACAATCTTCAATAAACTTGTCC-GCTCCCTATTCATTCA-GAGAGT
1 ATAAGACTTGAAA-AATCTTC-A-AAACGAG-CCTGCTCCCTATTCATTCAGGA-AGT
*
98953 ATAGGACT
1 ATAAGACT
98961 CAATCTTCAA
Statistics
Matches: 93, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
52 1 0.01
53 2 0.02
54 4 0.04
55 79 0.85
56 2 0.02
57 4 0.04
58 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (53 bp):
ATAAGACTTGAAAAATCTTCAAAACGAGCCTGCTCCCTATTCATTCAGGAAGT
Found at i:98970 original size:51 final size:51
Alignment explanation
Indices: 98877--99281 Score: 720
Period size: 51 Copynumber: 7.9 Consensus size: 51
98867 AACGTGTCTT
* * **
98877 CTCCCTATTCATTCAGGGAGTATAAGACTCAAACAATCTTCAATAAACTTGTCCG
1 CTCCCTATTCATTCAGAGAGTATAGGACT----CAATCTTCAACGAACTTGTCCG
98932 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
1 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
98983 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
1 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
99034 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
1 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
99085 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
1 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
*
99136 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCTG
1 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
99187 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
1 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
*
99238 ATCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
1 CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAAC
99282 GAATTTGCTT
Statistics
Matches: 343, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
51 316 0.92
55 27 0.08
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (51 bp):
CTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCCG
Found at i:100625 original size:8 final size:8
Alignment explanation
Indices: 100598--100715 Score: 50
Period size: 9 Copynumber: 14.4 Consensus size: 8
100588 CCTCCTTTTA
100598 TTTCTCTTT
1 TTTCTC-TT
*
100607 TTTTTCATT
1 TTTCTC-TT
100616 TTTCTCTT
1 TTTCTCTT
*
100624 TTTAT-TT
1 TTTCTCTT
*
100631 TTCTTTCTT
1 TT-TCTCTT
*
100640 TTTTTCATT
1 TTTCTC-TT
*
100649 TTTAT-TT
1 TTTCTCTT
*
100656 TTTTTCATT
1 TTTCTC-TT
*
100665 TTTAT-TT
1 TTTCTCTT
100672 TTTCTCATT
1 TTTCTC-TT
100681 TTT-TC-T
1 TTTCTCTT
100687 TTTCT-TCT
1 TTTCTCT-T
100695 TTTCTTCTT
1 TTTC-TCTT
100704 TTTCTCATT
1 TTTCTC-TT
100713 TTT
1 TTT
100716 ATTATTATTT
Statistics
Matches: 87, Mismatches: 9, Indels: 26
0.71 0.07 0.21
Matches are distributed among these distances:
6 4 0.05
7 17 0.20
8 21 0.24
9 44 0.51
10 1 0.01
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTCTCTT
Found at i:100625 original size:16 final size:16
Alignment explanation
Indices: 100593--100715 Score: 89
Period size: 16 Copynumber: 7.7 Consensus size: 16
100583 TGAACCCTCC
* *
100593 TTTT-ATTTCTCTTTT
1 TTTTCATTTTTCTCTT
100608 TTTTCATTTTTCTC-T
1 TTTTCATTTTTCTCTT
100623 TTTT-ATTTTTCTTTCTTT
1 TTTTCATTTTTC--TC-TT
* *
100641 TTTTCATTTTTATTTT
1 TTTTCATTTTTCTCTT
*
100657 TTTTCATTTTTAT-TT
1 TTTTCATTTTTCTCTT
100672 TTTCTCATTTTT-TCTT
1 TTT-TCATTTTTCTCTT
100688 TTCTTC--TTTTCTTCTT
1 TT-TTCATTTTTC-TCTT
100704 TTTCTCATTTTT
1 TTT-TCATTTTT
100716 ATTATTATTT
Statistics
Matches: 90, Mismatches: 4, Indels: 25
0.76 0.03 0.21
Matches are distributed among these distances:
14 11 0.12
15 16 0.18
16 46 0.51
17 2 0.02
18 9 0.10
19 6 0.07
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTCATTTTTCTCTT
Found at i:100733 original size:8 final size:8
Alignment explanation
Indices: 100606--100744 Score: 70
Period size: 8 Copynumber: 17.9 Consensus size: 8
100596 TATTTCTCTT
100606 TTTTTTCA
1 TTTTTTCA
100614 TTTTTCTC-
1 TTTTT-TCA
*
100622 TTTTTAT-T
1 TTTTT-TCA
*
100630 TTTCTTTCT
1 TTT-TTTCA
100639 TTTTTTCA
1 TTTTTTCA
*
100647 TTTTTAT-T
1 TTTTT-TCA
100655 TTTTTTCA
1 TTTTTTCA
100663 -TTTTT-A
1 TTTTTTCA
100669 TTTTTTCTCA
1 -TTTTT-TCA
100679 TTTTTTC-
1 TTTTTTCA
100686 TTTTCTTC-
1 TTTT-TTCA
100694 TTTTCTTC-
1 TTTT-TTCA
100702 TTTTTCTCA
1 TTTTT-TCA
100711 -TTTTT-A
1 TTTTTTCA
*
100717 -TTATT-A
1 TTTTTTCA
100723 TTTTTTCA
1 TTTTTTCA
100731 -TTTTTCA
1 TTTTTTCA
100738 TTTTTTC
1 TTTTTTC
100745 TCTTTTATTT
Statistics
Matches: 109, Mismatches: 6, Indels: 32
0.74 0.04 0.22
Matches are distributed among these distances:
6 7 0.06
7 23 0.21
8 63 0.58
9 15 0.14
10 1 0.01
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTCA
Found at i:100734 original size:6 final size:7
Alignment explanation
Indices: 100607--100742 Score: 54
Period size: 7 Copynumber: 18.7 Consensus size: 7
100597 ATTTCTCTTT
100607 TTTTTCA
1 TTTTTCA
100614 TTTTTC-
1 TTTTTCA
*
100620 TCTTTTTA
1 T-TTTTCA
100628 TTTTTC-
1 TTTTTCA
100634 TTTCTT--
1 TTT-TTCA
100640 TTTTTCA
1 TTTTTCA
100647 TTTTT-A
1 TTTTTCA
100653 TTTTTTTTCA
1 ---TTTTTCA
100663 TTTTT-A
1 TTTTTCA
100669 TTTTTTCTCA
1 --TTTT-TCA
*
100679 TTTTTTCT
1 -TTTTTCA
*
100687 TTTCTTCT
1 TTT-TTCA
*
100695 TTTCTTCT
1 TTT-TTCA
100703 TTTTCTCA
1 TTTT-TCA
100711 TTTTT-A
1 TTTTTCA
*
100717 TTATT-A
1 TTTTTCA
100723 TTTTTTCA
1 -TTTTTCA
100731 TTTTTCA
1 TTTTTCA
100738 TTTTT
1 TTTTT
100743 TCTCTTTTAT
Statistics
Matches: 106, Mismatches: 6, Indels: 34
0.73 0.04 0.23
Matches are distributed among these distances:
5 2 0.02
6 15 0.14
7 47 0.44
8 29 0.27
9 11 0.10
10 2 0.02
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:100750 original size:16 final size:15
Alignment explanation
Indices: 100606--100760 Score: 108
Period size: 16 Copynumber: 10.1 Consensus size: 15
100596 TATTTCTCTT
100606 TTTTTTCATTTTTCTC
1 TTTTTTCATTTTT-TC
*
100622 TTTTTAT-TTTTCTTTC
1 TTTTT-TCATTT-TTTC
*
100638 TTTTTTTCATTTTTATT
1 -TTTTTTCATTTTT-TC
100655 TTTTTTCATTTTTAT-
1 TTTTTTCATTTTT-TC
100670 TTTTTCTCATTTTTTC
1 TTTTT-TCATTTTTTC
100686 TTTTCTTC-TTTTCTTC
1 TTTT-TTCATTTT-TTC
100702 TTTTTCTCA-TTTTT-
1 TTTTT-TCATTTTTTC
* *
100716 ATTATT-ATTTTTTC
1 TTTTTTCATTTTTTC
*
100730 ATTTTTCATTTTTTC
1 TTTTTTCATTTTTTC
* *
100745 TCTTTT-ATTTCTTC
1 TTTTTTCATTTTTTC
100759 TT
1 TT
100761 CAAGCGAAAT
Statistics
Matches: 115, Mismatches: 10, Indels: 30
0.74 0.06 0.19
Matches are distributed among these distances:
12 1 0.01
13 6 0.05
14 16 0.14
15 25 0.22
16 54 0.47
17 13 0.11
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTCATTTTTTC
Found at i:113749 original size:19 final size:19
Alignment explanation
Indices: 113725--113763 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
113715 TCGAATGCAT
113725 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
113744 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
113763 T
1 T
113764 GAATATTTTC
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:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:113780 original size:65 final size:63
Alignment explanation
Indices: 113662--113870 Score: 215
Period size: 65 Copynumber: 3.2 Consensus size: 63
113652 AGCATCTACA
** *
113662 CATGCACCGATGCA-TCAGTCCATGCATCGATGCATCGATGAATAAATT-GAACATCGAATGCAT
1 CATGCACCGATGCACTC--TCCATGCATCGATGCATC--TGAATATTTTCAAACATCGAATGCAT
*
113725 TC
62 TT
113727 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCA-TCTGAATATTTTC-AAACATCGAATGCATTT
* * *** * **
113792 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCATCTGAATA-TTTTCAAACATCGAATGCATTT
* *
113856 TATGCATCGATGCAC
1 CATGCACCGATGCAC
113871 ACTTGGTGCA
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
63 8 0.06
64 52 0.41
65 64 0.51
66 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (63 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCATCTGAATATTTTCAAACATCGAATGCATTT
Found at i:113886 original size:64 final size:64
Alignment explanation
Indices: 113662--113891 Score: 223
Period size: 64 Copynumber: 3.6 Consensus size: 64
113652 AGCATCTACA
* * ** *
113662 CATGCACCGATGCATCAGTCCATGCATCGATGCATCGATGAATAAATT--GAACATCGAATGCAT
1 CATGCATCGATGCA-CACTCCATGCATCGATGCATC-A-GAATATTTTCAAAACATCGAATGCAT
*
113725 TC
63 TT
* * *
113727 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAAAACATCGAATGCATTT
* ** **
113792 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-AAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAAAACATCGAATGCATTT
* *** *
113856 TATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 CATGCATCGATGCACACTCCATGCATCGATGCATCA
113892 AGTGTTCCAA
Statistics
Matches: 139, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
63 7 0.05
64 68 0.49
65 64 0.46
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAAAACATCGAATGCATTT
Found at i:119695 original size:20 final size:21
Alignment explanation
Indices: 119666--119721 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
119656 TCTGCGCTTC
*
119666 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
119686 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
119708 ATGCATCGATGCAT
1 ATGCATCGATGCAT
119722 AAGACCATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:121301 original size:21 final size:21
Alignment explanation
Indices: 121259--121302 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
121249 ACCCTGGGAG
*
121259 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
121280 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
121301 CT
1 CT
121303 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:122351 original size:19 final size:19
Alignment explanation
Indices: 122327--122365 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
122317 TCGAATGCAT
122327 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
122346 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
122365 T
1 T
122366 GAATATTTTC
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:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:122466 original size:64 final size:65
Alignment explanation
Indices: 122313--122473 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 65
122303 GAATAAATTG
* * *** *
122313 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
* **
122378 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-TTTTCA
122441 A
65 A
122442 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
122474 CTTGGTGCAC
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 37 0.44
65 48 0.56
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:122488 original size:64 final size:64
Alignment explanation
Indices: 122313--122493 Score: 220
Period size: 64 Copynumber: 2.8 Consensus size: 64
122303 GAATAAATTG
* * * *
122313 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAA
* ** **
122378 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAA
*** *
122442 AACATCGAATGCATTTCATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCA
122494 AGTGTTCCAA
Statistics
Matches: 99, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
64 51 0.52
65 48 0.48
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAA
Found at i:124161 original size:2 final size:2
Alignment explanation
Indices: 124154--124180 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
124144 CAGAGAAGAG
124154 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
124181 AATACACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:124945 original size:16 final size:17
Alignment explanation
Indices: 124918--124950 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
124908 ATTCTAGCAA
124918 GTTTGTATTCTGGAACT
1 GTTTGTATTCTGGAACT
124935 GTTTGTA-TCTGGAACT
1 GTTTGTATTCTGGAACT
124951 ACCAGTCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.18, C:0.12, G:0.24, T:0.45
Consensus pattern (17 bp):
GTTTGTATTCTGGAACT
Found at i:125500 original size:40 final size:39
Alignment explanation
Indices: 125424--125501 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
125414 AAATAAAAGA
* *
125424 ATAAAGTTATAGTTAATCAAAACTACTAAATAAAATAAG
1 ATAAAGTCATAGTTAATCAAAACTACCAAATAAAATAAG
* * *
125463 ATAAGAGTCATAGTTAATCTAAACTACCAATTGAAATAA
1 ATAA-AGTCATAGTTAATCAAAACTACCAAATAAAATAA
125502 TTTACTACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.53, C:0.10, G:0.09, T:0.28
Consensus pattern (39 bp):
ATAAAGTCATAGTTAATCAAAACTACCAAATAAAATAAG
Found at i:127671 original size:39 final size:39
Alignment explanation
Indices: 127627--127734 Score: 180
Period size: 39 Copynumber: 2.8 Consensus size: 39
127617 GCATAAAGTT
127627 ATAGTTAATCTAAACTACTAAATCAAATAAGATAGAGTC
1 ATAGTTAATCTAAACTACTAAATCAAATAAGATAGAGTC
* * *
127666 ATAGTTAATCTAAACTACCAAATCAAATAGGATAGAGTT
1 ATAGTTAATCTAAACTACTAAATCAAATAAGATAGAGTC
*
127705 ATAGTTAATCTAAACTACTAATTCAAATAA
1 ATAGTTAATCTAAACTACTAAATCAAATAA
127735 TTTACTGCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (39 bp):
ATAGTTAATCTAAACTACTAAATCAAATAAGATAGAGTC
Found at i:131138 original size:27 final size:25
Alignment explanation
Indices: 131087--131139 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
131077 AAACATGTTT
* *
131087 CTATTTTAAAAAATGAAAATAAAAA
1 CTATTTTAAAAAATAAAAACAAAAA
*
131112 CTATTTTCTAAAAATAAAAACAGAAAA
1 CTATTTT-AAAAAATAAAAACA-AAAA
131139 C
1 C
131140 AAAACAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 11 0.48
27 5 0.22
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.26
Consensus pattern (25 bp):
CTATTTTAAAAAATAAAAACAAAAA
Found at i:133279 original size:19 final size:19
Alignment explanation
Indices: 133255--133292 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
133245 GGATGGGAGG
133255 CACACCCTGTTTCGAATGT
1 CACACCCTGTTTCGAATGT
133274 CACACCCTGTTTCGAATGT
1 CACACCCTGTTTCGAATGT
133293 TCAACATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.16, T:0.32
Consensus pattern (19 bp):
CACACCCTGTTTCGAATGT
Found at i:139451 original size:30 final size:30
Alignment explanation
Indices: 139415--139489 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 30
139405 GAAAATTGAA
*
139415 TTAAACGGGGATAGGG-AAAAATTGTTTATG
1 TTAAACGGGGAT-GGGAAAAAATCGTTTATG
*
139445 TTAAACGAGGATGGGAAAAAATCGTTTATG
1 TTAAACGGGGATGGGAAAAAATCGTTTATG
*
139475 TTAAACGGGAATGGG
1 TTAAACGGGGATGGG
139490 GACGGGTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 3 0.08
30 37 0.93
ACGTcount: A:0.37, C:0.05, G:0.31, T:0.27
Consensus pattern (30 bp):
TTAAACGGGGATGGGAAAAAATCGTTTATG
Found at i:139584 original size:4 final size:4
Alignment explanation
Indices: 139575--139665 Score: 54
Period size: 4 Copynumber: 24.8 Consensus size: 4
139565 ATAATTATTT
* * * *
139575 TATA TATA TATA TATA -ATA T-TA -ATA AATT TA-A TTTA AAT- TA-A
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * *
139617 TATA TATA TATA TATA TA-A TATT TATA TATT TA-A TTTA AATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
139663 TAT
1 TAT
139666 CTGGCCCGAT
Statistics
Matches: 64, Mismatches: 15, Indels: 16
0.67 0.16 0.17
Matches are distributed among these distances:
3 15 0.23
4 49 0.77
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (4 bp):
TATA
Found at i:139586 original size:6 final size:6
Alignment explanation
Indices: 139575--139665 Score: 54
Period size: 6 Copynumber: 16.5 Consensus size: 6
139565 ATAATTATTT
* * * *
139575 TATATA TATATA TATA-A TAT-TA -ATAAA TTTA-A TTTAAA T-TA-A
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * *
139617 TATATA TATATA TATATA -ATATT TATATA TTTA-A TTTAAA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
139663 TAT
1 TAT
139666 CTGGCCCGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.06
5 24 0.34
6 42 0.60
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TATATA
Found at i:139623 original size:44 final size:42
Alignment explanation
Indices: 139575--139665 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 42
139565 ATAATTATTT
139575 TATATATATATATATAATATTAATAAATTTAATTTAAATTAATA
1 TATATATATATATATAATATTAATAAATTTAATTTAAA-T-ATA
* *
139619 TATATATATATATATAATATTTATATATTTAATTTAAATATA
1 TATATATATATATATAATATTAATAAATTTAATTTAAATATA
139661 TATAT
1 TATAT
139666 CTGGCCCGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
42 8 0.18
43 1 0.02
44 36 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (42 bp):
TATATATATATATATAATATTAATAAATTTAATTTAAATATA
Found at i:143950 original size:159 final size:158
Alignment explanation
Indices: 143498--143921 Score: 482
Period size: 159 Copynumber: 2.7 Consensus size: 158
143488 TTCTCTTATG
* * * * *
143498 ATCACCATGCTTTTCAGATTCTTTACCATTTCCAAGATTT-TTCTTTCACCATAACTGTTTCCCG
1 ATCACCATGTTTTTGAGATTCTTTACCATTTCCAATATTTCTTCTTTCACCGTAACTGTTTCCTG
* * * *
143562 ATTCTCTATCA-CATTTCTTCCACTGAATCCAGATCTCTCTATGCTGTGTTGTTCATAGGTATCT
66 AATCTCTTTCATCATTTCTTCCACTAAATCCAGATCTCTC-A-GCTGCGTTGTTCATAGGTATCT
* *
143626 GAA-AAAAGCATTCTATGAAAACCACTGCG
129 GAAGAAAAGAATTCTATGAAAACCACTGCA
** ** * * * *
143655 ATCACTTTGTTTTTGAGATTCTTTACCATCCCCATTATTTCTTCTTTCACAGAAACTGTTTCCTC
1 ATCACCATGTTTTTGAGATTCTTTACCATTTCCAATATTTCTTCTTTCACCGTAACTGTTTCCTG
* * * *
143720 AATCTCTTTCATCGCTAT-TTCCACTAAGTCCAGATCTCTCAATGCTGCATTGTTCATAGGTATC
66 AATCTCTTTCATC-ATTTCTTCCACTAAATCCAGATCTCTC-A-GCTGCGTTGTTCATAGGTATC
**
143784 TGAAGAAAA-AATTCTATGAAGGCCACTGCA
128 TGAAGAAAAGAATTCTATGAAAACCACTGCA
* * * *
143814 ATCACCGTGTTTTTGAGATTCTTTA-CAGTTTCTACTATTTCTTCTTTCCCCGTAACTGTTTCCT
1 ATCACCATGTTTTTGAGATTCTTTACCA-TTTCCAATATTTCTTCTTTCACCGTAACTGTTTCCT
*
143878 GAATCTCTTTCATCTTTTCTTCCACTAAATCCAGATCTCTCAGC
65 GAATCTCTTTCATCATTTCTTCCACTAAATCCAGATCTCTCAGC
143922 ACTGCGTTTT
Statistics
Matches: 222, Mismatches: 39, Indels: 12
0.81 0.14 0.04
Matches are distributed among these distances:
157 34 0.15
158 33 0.15
159 149 0.67
160 6 0.03
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (158 bp):
ATCACCATGTTTTTGAGATTCTTTACCATTTCCAATATTTCTTCTTTCACCGTAACTGTTTCCTG
AATCTCTTTCATCATTTCTTCCACTAAATCCAGATCTCTCAGCTGCGTTGTTCATAGGTATCTGA
AGAAAAGAATTCTATGAAAACCACTGCA
Found at i:145172 original size:34 final size:34
Alignment explanation
Indices: 145131--145232 Score: 116
Period size: 34 Copynumber: 3.0 Consensus size: 34
145121 TGAAAATTTC
* *
145131 ATGTTATGATATAAATTCTTATCACGAAGGATATG
1 ATGTTATGGTATAAATTCTTATCACGAAAGATA-G
* * *
145166 -TGTTATGGTATATATTCTTATCATGAAAGTTAG
1 ATGTTATGGTATAAATTCTTATCACGAAAGATAG
* *
145199 ATGTTATGGTATAAATTCTTTTCATGAAATGATA
1 ATGTTATGGTATAAATTCTTATCACGAAA-GATA
145233 TAAGATTTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
33 1 0.02
34 53 0.93
35 3 0.05
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.42
Consensus pattern (34 bp):
ATGTTATGGTATAAATTCTTATCACGAAAGATAG
Found at i:146762 original size:21 final size:22
Alignment explanation
Indices: 146724--146778 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
146714 AGATGATGAT
*
146724 AAATAAGATAGAATAAAGAGTAA
1 AAATAAAATAGAATAAAGA-TAA
146747 AAATAAAATA-AA-AAAGATAA
1 AAATAAAATAGAATAAAGATAA
*
146767 AGAATATAATAG
1 A-AATAAAATAG
146779 GATAGAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 4 0.14
21 13 0.46
22 2 0.07
23 9 0.32
ACGTcount: A:0.69, C:0.00, G:0.13, T:0.18
Consensus pattern (22 bp):
AAATAAAATAGAATAAAGATAA
Found at i:149408 original size:8 final size:9
Alignment explanation
Indices: 149390--149485 Score: 50
Period size: 10 Copynumber: 9.8 Consensus size: 9
149380 TAAGACATTA
149390 ATTAGTATTT
1 ATTA-TATTT
149400 ATT-TATTT
1 ATTATATTT
149408 ACTTATATTT
1 A-TTATATTT
*
149418 ATATATATAT
1 AT-TATATTT
*
149428 ATATATATAT
1 AT-TATATTT
*
149438 ATATATATAT
1 AT-TATATTT
*
149448 ATATATATAT
1 AT-TATATTT
*
149458 ATATATATAT
1 AT-TATATTT
*
149468 ATATATATAT
1 AT-TATATTT
149478 ATATATAT
1 AT-TATAT
149486 ATATATAAGT
Statistics
Matches: 82, Mismatches: 1, Indels: 6
0.92 0.01 0.07
Matches are distributed among these distances:
8 6 0.07
9 3 0.04
10 73 0.89
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (9 bp):
ATTATATTT
Found at i:149424 original size:2 final size:2
Alignment explanation
Indices: 149411--149492 Score: 155
Period size: 2 Copynumber: 41.0 Consensus size: 2
149401 TTTATTTACT
*
149411 TA TA TT 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
149453 TA TA 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
149493 AGTAGGATAC
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
2 78 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:150095 original size:54 final size:54
Alignment explanation
Indices: 149916--150107 Score: 215
Period size: 55 Copynumber: 3.5 Consensus size: 54
149906 CTATCGCTTC
* * *
149916 CAGAGAATATAAGACTCAAACAGA-CTTCAACAGTCATGTATGCTCCTTATTTCTT
1 CAGAGAGTATAAGACTCGAACA-ATCTTCAACA-TCATGTATGCTCCCTATTTCTT
* * * * * *
149971 CAGAGAGTATAAGATTCAAACAGTCTTCAACAATCTTGTTTTCTCCCTATTTCTT
1 CAGAGAGTATAAGACTCGAACAATCTTCAAC-ATCATGTATGCTCCCTATTTCTT
* * * *
150026 CAGAGAGTATGAGACTCGAATAATCTTCAACATCGTGTCTGCTCCCTATTTCTT
1 CAGAGAGTATAAGACTCGAACAATCTTCAACATCATGTATGCTCCCTATTTCTT
* *
150080 CAAAGAGAATAAGACTCGAACAATCTTC
1 CAGAGAGTATAAGACTCGAACAATCTTC
150108 TGAAAACGGG
Statistics
Matches: 116, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
54 44 0.38
55 71 0.61
56 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (54 bp):
CAGAGAGTATAAGACTCGAACAATCTTCAACATCATGTATGCTCCCTATTTCTT
Found at i:150126 original size:109 final size:110
Alignment explanation
Indices: 149861--150528 Score: 455
Period size: 109 Copynumber: 6.1 Consensus size: 110
149851 AAATTCTTTT
* * * * * ** * * *
149861 AGAGAGTATAGGACTCGAACGATCTTCT-ATAAACAGGTTCGCTCTCTATCGCTTCCAGAGAATA
1 AGAGAGTATAAGACTCGAACAATCTTCTGA-AAACGGGTTCGCTCCCTCTTTCTT-TAGGGAGTA
* * * *
149925 TA-AGACTCAAACAGA-CTTCAACAGTCATGTAT-GCTCCTTATTTCTTC
64 TAGA-ACTCGAACA-ATCTTCAACA-TCGTGTCTCGCTCCCTATTTCTTC
* * * ** ** * * *
149972 AGAGAGTATAAGATTCAAACAGTCTTC--AACAATCTTGTTTTCTCCCTATTTCTTCAGAGAGTA
1 AGAGAGTATAAGACTCGAACAATCTTCTGAA-AA-CGGGTTCGCTCCCTCTTTCTTTAGGGAGTA
*
150035 T-GAGACTCGAATAATCTTCAACATCGTGTCT-GCTCCCTATTTCTTC
64 TAGA-ACTCGAACAATCTTCAACATCGTGTCTCGCTCCCTATTTCTTC
* *
150081 AAAGAGAATAAGACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATA
1 AGAGAGTATAAGACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATA
* * ** * * *
150146 GAACTTGAACGTATTCTTC-TTAT-GGGT-TCACTCCCTCTTTCTTC
66 GAACTCGAAC--AATCTTCAACATCGTGTCTCGCTCCCTATTTCTTC
* * * * *
150190 AGGGAGTATAAAACTCAAACAATCTTCTGAGAACGGGTTCGCTCCCTCTTTTTTTAGGGAGTATA
1 AGAGAGTATAAGACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATA
* * * * *
150255 GAACTCGAACAATCTTCTAAGAACG-GGCTCGCTCCCTCTTTCTTT
66 GAACTCGAACAATCTTC-AACATCGTGTCTCGCTCCCTATTTCTTC
* * *
150300 AGGGAGTATATA-ACTCGAACAAT-TTCTGCAAGCGGGTTCGCTCCCTCTTTCTTTAGGGAGTAT
1 AGAGAGTATA-AGACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAT
* * * * *
150363 AGAACTCAAACAATATTCTAAAAGTTG-GT-TCGCTCCCTCTTTCTTC
65 AGAACTCGAACAATCTTC-AACA-TCGTGTCTCGCTCCCTATTTCTTC
**** * *
150409 A-AGGAGTAT-AGAACTCGAAC-ATCTT-TTTCTACGGGTTCACTCCCTATTTCTTTAGGGAGTA
1 AGA-GAGTATAAG-ACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTA
* * *
150470 TAGAACTCGAA-AATCATCTGAA-AACGTGT-TCGCTCCCTCTTTCTTC
64 TAGAACTCGAACAATC-T-TCAACATCGTGTCTCGCTCCCTATTTCTTC
*
150516 AGGGAGTATAAGA
1 AGAGAGTATAAGA
150529 TAACCTTATA
Statistics
Matches: 453, Mismatches: 79, Indels: 54
0.77 0.13 0.09
Matches are distributed among these distances:
106 1 0.00
107 38 0.08
108 47 0.10
109 249 0.55
110 73 0.16
111 45 0.10
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (110 bp):
AGAGAGTATAAGACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATA
GAACTCGAACAATCTTCAACATCGTGTCTCGCTCCCTATTTCTTC
Found at i:150236 original size:164 final size:162
Alignment explanation
Indices: 150066--150526 Score: 538
Period size: 164 Copynumber: 2.8 Consensus size: 162
150056 CATCGTGTCT
* * *
150066 GCTCCCTATTTCTTCAAAGAGAATA-AGACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTCT
1 GCTCCCTCTTTCTTCAAGGAGTATAGA-ACTCGAACAATCTTCT-AAAACGGGTTCGCTCCCTCT
* * * * *
150130 TTCTTTAGGGAGTATAGAACTTGAAC-GTATTCTTCTTA-TGGGTTCACTCCCTCTTTCTTCAGG
64 TTCTTTAGGGAGTATAGAACTCGAACAAT-TTCTGC-AAGCGGGTTCACTCCCTCTTTCTTCAGG
* *
150193 GAGTATAAAACTCAAACAATCTTCTGAGAACG-GGTTC
127 GAGTATAAAACTCAAACAATATTCT-A-AAAGTGGTTC
* * * *
150230 GCTCCCTCTTTTTTTAGGGAGTATAGAACTCGAACAATCTTCTAAGAACGGGCTCGCTCCCTCTT
1 GCTCCCTCTTTCTTCAAGGAGTATAGAACTCGAACAATCTTCTAA-AACGGGTTCGCTCCCTCTT
* * *
150295 TCTTTAGGGAGTATATAACTCGAACAATTTCTGCAAGCGGGTTCGCTCCCTCTTTCTTTAGGGAG
65 TCTTTAGGGAGTATAGAACTCGAACAATTTCTGCAAGCGGGTTCACTCCCTCTTTCTTCAGGGAG
*
150360 TATAGAACTCAAACAATATTCTAAAAGTTGGTTC
130 TATAAAACTCAAACAATATTCTAAAAG-TGGTTC
* *** * *
150394 GCTCCCTCTTTCTTCAAGGAGTATAGAACTCGAAC-ATCTTTTTCTACGGGTTCACTCCCTATTT
1 GCTCCCTCTTTCTTCAAGGAGTATAGAACTCGAACAATCTTCTAAAACGGGTTCGCTCCCTCTTT
* * * * *
150458 CTTTAGGGAGTATAGAACTCGAA-AATCATCTGAAAACGTGTTCGCTCCCTCTTTCTTCAGGGAG
66 CTTTAGGGAGTATAGAACTCGAACAAT-TTCTGCAAGCGGGTTCACTCCCTCTTTCTTCAGGGAG
150522 TATAA
130 TATAA
150527 GATAACCTTA
Statistics
Matches: 255, Mismatches: 35, Indels: 16
0.83 0.11 0.05
Matches are distributed among these distances:
161 3 0.01
162 77 0.30
163 10 0.04
164 163 0.64
165 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (162 bp):
GCTCCCTCTTTCTTCAAGGAGTATAGAACTCGAACAATCTTCTAAAACGGGTTCGCTCCCTCTTT
CTTTAGGGAGTATAGAACTCGAACAATTTCTGCAAGCGGGTTCACTCCCTCTTTCTTCAGGGAGT
ATAAAACTCAAACAATATTCTAAAAGTGGTTC
Found at i:150249 original size:55 final size:54
Alignment explanation
Indices: 150093--150525 Score: 500
Period size: 55 Copynumber: 8.0 Consensus size: 54
150083 AGAGAATAAG
150093 ACTCGAACAATCTTCTGAAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
1 ACTCGAACAATCTTCTG-AAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
* * * * * * *
150148 ACTTGAACGTATTCTTCT--TATGGGTTCACTCCCTCTTTCTTCAGGGAGTATAAA
1 ACTCGAAC--AATCTTCTGAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
* *
150202 ACTCAAACAATCTTCTGAGAACGGGTTCGCTCCCTCTTTTTTTAGGGAGTATAGA
1 ACTCGAACAATCTTCTGA-AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
* * *
150257 ACTCGAACAATCTTCTAAGAACGGGCTCGCTCCCTCTTTCTTTAGGGAGTATATA
1 ACTCGAACAATCTTCTGA-AACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
*
150312 ACTCGAACAAT-TTCTGCAAGCGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
1 ACTCGAACAATCTTCTG-AAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
* * * * *
150366 ACTCAAACAATATTCT-AAAAGTTGGTTCGCTCCCTCTTTCTTCAAGGAGTATAGA
1 ACTCGAACAATCTTCTGAAACG--GGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
* *** * *
150421 ACTCGAAC-ATCTTTTTCTACGGGTTCACTCCCTATTTCTTTAGGGAGTATAGA
1 ACTCGAACAATCTTCTGAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
* * *
150474 ACTCGAA-AATCATCTGAAAACGTGTTCGCTCCCTCTTTCTTCAGGGAGTATA
1 ACTCGAACAATCTTCTG-AAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATA
150526 AGATAACCTT
Statistics
Matches: 317, Mismatches: 49, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
52 7 0.02
53 43 0.14
54 118 0.37
55 142 0.45
57 7 0.02
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.33
Consensus pattern (54 bp):
ACTCGAACAATCTTCTGAAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTATAGA
Found at i:154723 original size:20 final size:19
Alignment explanation
Indices: 154670--154748 Score: 79
Period size: 19 Copynumber: 4.1 Consensus size: 19
154660 AATTTACAAC
154670 ACTGAATTTCAAATTCGCA
1 ACTGAATTTCAAATTCGCA
*
154689 ACTGAATTTCAAATTTGCA
1 ACTGAATTTCAAATTCGCA
* * *
154708 ACTCGATTTTCGAATTCACA
1 ACT-GAATTTCAAATTCGCA
* *
154728 ACACGAATTT-AATTTCGCA
1 AC-TGAATTTCAAATTCGCA
154747 AC
1 AC
154749 AGGTTTTAGT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
19 29 0.60
20 19 0.40
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (19 bp):
ACTGAATTTCAAATTCGCA
Found at i:158277 original size:20 final size:20
Alignment explanation
Indices: 158225--158277 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
158215 CGATTGATGT
*
158225 GAAAGTCAAATTCGCAACGC
1 GAAAGTCAAATTTGCAACGC
*
158245 GAAAGTCAAATTTGCAACGT
1 GAAAGTCAAATTTGCAACGC
*
158265 TAAAGTCAAATTT
1 GAAAGTCAAATTT
158278 ACGTTGCGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (20 bp):
GAAAGTCAAATTTGCAACGC
Found at i:158325 original size:20 final size:20
Alignment explanation
Indices: 158297--158362 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
158287 TTTTTGCGTT
*
158297 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
158317 GCGAAAGTCAAAATT-GCAAC
1 GCGAAAGTC-AAATTCGCAAC
* ** *
158337 GTGATTGTCAAATTCGAAAC
1 GCGAAAGTCAAATTCGCAAC
158357 GCGAAA
1 GCGAAA
158363 TCGCAAACCG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:159986 original size:21 final size:21
Alignment explanation
Indices: 159936--159986 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
159926 TGAATCGGCT
*
159936 TCTTGAACAGTGGGAGGGGCC
1 TCTTGAACGGTGGGAGGGGCC
*
159957 TCTTGAACGGTGTGAGGGGCC
1 TCTTGAACGGTGGGAGGGGCC
159978 TCTTGAACG
1 TCTTGAACG
159987 ACAGGAGGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.20, G:0.39, T:0.24
Consensus pattern (21 bp):
TCTTGAACGGTGGGAGGGGCC
Found at i:159994 original size:21 final size:21
Alignment explanation
Indices: 159948--160008 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
159938 TTGAACAGTG
**
159948 GGAGGGGCCTCTTGAACG-GT
1 GGAGGGGCCTCTTGAACGACA
159968 GTGAGGGGCCTCTTGAACGACA
1 G-GAGGGGCCTCTTGAACGACA
** *
159990 GGAGGCACCTTTTGAACGA
1 GGAGGGGCCTCTTGAACGA
160009 TGACAGGTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
20 1 0.03
21 32 0.94
22 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.20
Consensus pattern (21 bp):
GGAGGGGCCTCTTGAACGACA
Found at i:162180 original size:20 final size:20
Alignment explanation
Indices: 162157--162250 Score: 127
Period size: 20 Copynumber: 4.7 Consensus size: 20
162147 AAACTTAAAT
*
162157 TCGCAATGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
162177 TCGCAACGCGAAAATGAAAA
1 TCGCAACGCGAAAATGAAAA
162197 TCGCAACGC-AAACATGAAAA
1 TCGCAACGCGAAA-ATGAAAA
* *
162217 TCTCAACGCGAAAAAAGAAAA
1 TCGCAACGCG-AAAATGAAAA
*
162238 TTGCAACGCGAAA
1 TCGCAACGCGAAA
162251 CTAAATTTGC
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.05
20 46 0.70
21 14 0.21
22 3 0.05
ACGTcount: A:0.50, C:0.20, G:0.18, T:0.12
Consensus pattern (20 bp):
TCGCAACGCGAAAATGAAAA
Found at i:162806 original size:20 final size:20
Alignment explanation
Indices: 162781--162864 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
162771 ATAAACGCGC
162781 TTTGACTTCTGTGTTGCGAA
1 TTTGACTTCTGTGTTGCGAA
*
162801 TTTGACTTATGTGTTGCGAA
1 TTTGACTTCTGTGTTGCGAA
**
162821 TTTGGA-AACTGTGTTGCGAAA
1 TTT-GACTTCTGTGTTGCG-AA
* * *
162842 TTGGAGTTC-GCGTTGCGAA
1 TTTGACTTCTGTGTTGCGAA
162861 TTTG
1 TTTG
162865 TTGGTCATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
19 5 0.10
20 40 0.77
21 7 0.13
ACGTcount: A:0.19, C:0.12, G:0.29, T:0.40
Consensus pattern (20 bp):
TTTGACTTCTGTGTTGCGAA
Found at i:172118 original size:66 final size:66
Alignment explanation
Indices: 172012--172145 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 66
172002 CTGGTGGCTC
172012 TTCTGATTGGAAAGCACTCAGAGAGAACTCACAGAGAGAACTGTAGAAAACACTTTTGTAAGTGA
1 TTCTGATTGGAAAGCACTCAGAGAGAACTCACAGAGAGAACTGTAGAAAACACTTTTGTAAGTGA
172077 A
66 A
*
172078 TTCTGATTGGAAAGCACTCAGAGAGAACTCACAGAGAGAACTGTAGAAAACACTTTTTTAAGTGA
1 TTCTGATTGGAAAGCACTCAGAGAGAACTCACAGAGAGAACTGTAGAAAACACTTTTGTAAGTGA
172143 A
66 A
172144 TT
1 TT
172146 GTGAATGTTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.25
Consensus pattern (66 bp):
TTCTGATTGGAAAGCACTCAGAGAGAACTCACAGAGAGAACTGTAGAAAACACTTTTGTAAGTGA
A
Found at i:172359 original size:22 final size:22
Alignment explanation
Indices: 172325--172366 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
172315 TCAGCTGTTA
* *
172325 TAACTCCTAAAATTATATCATG
1 TAACCCCTAAAATTAAATCATG
*
172347 TAACCCCTGAAATTAAATCA
1 TAACCCCTAAAATTAAATCA
172367 AATAACTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (22 bp):
TAACCCCTAAAATTAAATCATG
Found at i:172372 original size:22 final size:22
Alignment explanation
Indices: 172324--172372 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
172314 TTCAGCTGTT
* * *
172324 ATAACTCCTAAAATTATATCAT
1 ATAACCCCTAAAATTAAATCAA
* *
172346 GTAACCCCTGAAATTAAATCAA
1 ATAACCCCTAAAATTAAATCAA
172368 ATAAC
1 ATAAC
172373 TCTTGTAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.20, G:0.04, T:0.29
Consensus pattern (22 bp):
ATAACCCCTAAAATTAAATCAA
Found at i:172686 original size:5 final size:5
Alignment explanation
Indices: 172676--172719 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
172666 ACCACGACTA
* * * *
172676 CGAGC CGAGC CGAGC CGTGC CGTGC CGTGT CGAGC CGAGC CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
172720 ATGGACAGAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.14, C:0.36, G:0.41, T:0.09
Consensus pattern (5 bp):
CGAGC
Found at i:178262 original size:22 final size:22
Alignment explanation
Indices: 178209--178262 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
178199 TTCAGCTGTT
* *
178209 ATAACTCCTGAAATTATATCAT
1 ATAACTCCTGAAATTAAATCAA
* *
178231 GTAA-TCCCTGGAATTAAATCAA
1 ATAACT-CCTGAAATTAAATCAA
178253 ATAACTCCTG
1 ATAACTCCTG
178263 TAACTCCTGA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (22 bp):
ATAACTCCTGAAATTAAATCAA
Found at i:178562 original size:5 final size:5
Alignment explanation
Indices: 178552--178589 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
178542 ACCACGACCA
*
178552 CGAGC CGAGC CGAGC CGAGC CGTGC CGA-C CGAGC CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
178590 ACGGACGGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.18, C:0.39, G:0.39, T:0.03
Consensus pattern (5 bp):
CGAGC
Found at i:180538 original size:32 final size:27
Alignment explanation
Indices: 180472--180537 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
180462 CTTTATTTTG
*
180472 TTCGGGTCGGGCTTTTTAAGTGTGATA
1 TTCGGGTCGGGTTTTTTAAGTGTGATA
*
180499 TTCGGGTCTGGTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTTTTTTAAGTGTGATA
180526 TTCGGGTCGGGT
1 TTCGGGTCGGGT
180538 CGGGTTTAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.12, C:0.11, G:0.35, T:0.42
Consensus pattern (27 bp):
TTCGGGTCGGGTTTTTTAAGTGTGATA
Found at i:180712 original size:233 final size:234
Alignment explanation
Indices: 180274--180989 Score: 844
Period size: 233 Copynumber: 3.0 Consensus size: 234
180264 CGGATCATGT
* * * * *
180274 TTTTTTAAGTGTGATATTCGGGTCAGGTTCAGGTTTAGGTGAAAAAAACCGGACCGACCCGAAAT
1 TTTTTTAAGTGTGATATTCGGGTC-GGGTCGGGTTTAGGTAAAAAAAACCGGATCGACCCGAAAA
* *
180339 TATATATAATTCAGGTCGGGTCGGAATAAGTCACTGTTTTTATTAA-ATAAAATAATTTTTTATT
65 TATATATAATTC-GGTCGGGTCGGATTAAGT-ACTGTTTTTATTAATA-AAAATATTTTTTTATT
* * *
180403 ATTTCTGGTCAGGTCGGGTCGGATTTTTAATTCATATATTCGGGTCGGGTCGGATGAAACTTTAT
127 ATTTCAGGTCGGGTCGGGTCGGATTTCTAATTCATATATT---GTCGGGTCGGATGAAACTTTAT
*
180468 TTTG-T---TCGGGTCGGGCTTTTTAAGTGTGATATTCGGGTCTGG
189 TTTGTTCGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCTGG
*
180510 TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTTAGGATAAAAAAAACCGGATCGACTCGAAAA
1 TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTTAGG-TAAAAAAAACCGGATCGACCCGAAAA
* *
180575 TATATATAATTCGGGTCGCGTC-GATTAAGT-CTGTTTTTATTAATAAAAATTTTTTTTTATTAT
65 TATATATAATTC-GGTCGGGTCGGATTAAGTACTGTTTTTATTAATAAAAATATTTTTTTATTAT
* * * *
180638 TTCGGGCCGGGTCAGGTCGGATTTCTAATTCATATA-T-TCGGGTCGAATGAAACTTTATTTTGT
129 TTCAGGTCGGGTCGGGTCGGATTTCTAATTCATATATTGTCGGGTCGGATGAAACTTTATTTTGT
180701 TCGGGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCGGGTCTGG
194 TC-GGTCGGGTCGGGTTTTTTAAGTGTGATA-T----TCGGGTCTGG
* * **
180748 TTATTTTAAGTGCGATATTCGGGTCGGGTCGGGTTTGGGTTTAGGGTGAAAAACCGGATCGACCC
1 TT-TTTTAAGTGTGATATTCGGGTCGGGTCGGGTTTAGG--TA---AAAAAAACCGGATCGACCC
* *
180813 GAAAA-ATATAAAATTCAGTCGGGTCGGATTAAGTCACTG-TTTTATTAAATAAAAATATTTTTT
60 GAAAATATATATAATTCGGTCGGGTCGGATTAAGT-ACTGTTTTTATT-AATAAAAATATTTTTT
180876 TATTATTTCAGGTCGGGTCGGGTCGGATTTCTAATTCATATATTCGGGTCGGGTCGGATGAAACT
123 TATTATTTCAGGTCGGGTCGGGTCGGATTTCTAATTCATATATT---GTCGGGTCGGATGAAACT
* * *
180941 TTA-TTTGTTCAGGTTGGGTTTGGGTTTTTTTAAGTGTGATATTTGGGTC
185 TTATTTTGTTC-GGTCGGG-TCGGG-TTTTTTAAGTGTGATATTCGGGTC
180990 GAGTCGGGTC
Statistics
Matches: 416, Mismatches: 36, Indels: 47
0.83 0.07 0.09
Matches are distributed among these distances:
228 24 0.06
229 1 0.00
232 1 0.00
233 85 0.20
234 2 0.00
235 19 0.05
236 66 0.16
238 12 0.03
239 34 0.08
240 2 0.00
241 7 0.02
242 18 0.04
243 28 0.07
244 57 0.14
245 7 0.02
248 13 0.03
249 24 0.06
250 16 0.04
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (234 bp):
TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTTAGGTAAAAAAAACCGGATCGACCCGAAAAT
ATATATAATTCGGTCGGGTCGGATTAAGTACTGTTTTTATTAATAAAAATATTTTTTTATTATTT
CAGGTCGGGTCGGGTCGGATTTCTAATTCATATATTGTCGGGTCGGATGAAACTTTATTTTGTTC
GGTCGGGTCGGGTTTTTTAAGTGTGATATTCGGGTCTGG
Found at i:180765 original size:33 final size:32
Alignment explanation
Indices: 180700--180783 Score: 141
Period size: 33 Copynumber: 2.6 Consensus size: 32
180690 CTTTATTTTG
*
180700 TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTAAGTGCGATA
*
180732 TTCGGGTCGGGTCTGGTTATTTTAAGTGCGATA
1 TTCGGGTCGGGTCGGGTT-TTTTAAGTGCGATA
180765 TTCGGGTCGGGTCGGGTTT
1 TTCGGGTCGGGTCGGGTTT
180784 GGGTTTAGGG
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
32 18 0.38
33 30 0.62
ACGTcount: A:0.11, C:0.12, G:0.38, T:0.39
Consensus pattern (32 bp):
TTCGGGTCGGGTCGGGTTTTTTAAGTGCGATA
Found at i:181044 original size:38 final size:38
Alignment explanation
Indices: 180966--181041 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
180956 GGGTTTGGGT
**
180966 TTTTTTAAGTGTGATATTTGGGTCGAGTCGGGTCGGGG
1 TTTTTTAAGTGTGATATTCAGGTCGAGTCGGGTCGGGG
181004 TTTTTTAAGTGTGATATTCCAGGTC-AGGTCGGGTCGGG
1 TTTTTTAAGTGTGATATT-CAGGTCGA-GTCGGGTCGGG
181042 TTTCGGGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 19 0.56
39 15 0.44
ACGTcount: A:0.14, C:0.11, G:0.37, T:0.38
Consensus pattern (38 bp):
TTTTTTAAGTGTGATATTCAGGTCGAGTCGGGTCGGGG
Found at i:181597 original size:16 final size:18
Alignment explanation
Indices: 181572--181617 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
181562 TATGAAATTG
*
181572 GATTCCAATTCC-T-ACA
1 GATTCTAATTCCTTCACA
181588 GATTCTAATTCCTTCACA
1 GATTCTAATTCCTTCACA
181606 GATTCTAATTCC
1 GATTCTAATTCC
181618 CTCATAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 11 0.41
17 1 0.04
18 15 0.56
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.37
Consensus pattern (18 bp):
GATTCTAATTCCTTCACA
Found at i:182514 original size:4 final size:4
Alignment explanation
Indices: 182505--182535 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
182495 CTGAAAGGTA
182505 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
182536 AGTTTAGGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:182598 original size:7 final size:7
Alignment explanation
Indices: 182588--182621 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
182578 ATATTTTATA
182588 TAAAATT
1 TAAAATT
182595 TAAAATT
1 TAAAATT
182602 TAAAATT
1 TAAAATT
182609 T-AAATT
1 TAAAATT
*
182615 AAAAATT
1 TAAAATT
182622 AATCATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TAAAATT
Found at i:182619 original size:13 final size:14
Alignment explanation
Indices: 182589--182621 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
182579 TATTTTATAT
*
182589 AAAATTTAAAATTT
1 AAAATTTAAAATTA
182603 AAAATTT-AAATTA
1 AAAATTTAAAATTA
182616 AAAATT
1 AAAATT
182622 AATCATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATTTAAAATTA
Found at i:188866 original size:86 final size:85
Alignment explanation
Indices: 188691--188931 Score: 250
Period size: 86 Copynumber: 2.8 Consensus size: 85
188681 TAACCGGAAT
* * * * **
188691 ATTATTAAGTACAATAACATATTAAGTACTGCTTATATAATGTAATATGTAAGGCTTATAATAAA
1 ATTATCAAGCACAATAACATATTAAGTACCGCTTATATAATGAAATATGTAACACTTATAATAAA
* * *
188756 ATAGGTTAATTACTAGAAAT
66 ATAGATCAATTACTAGAAAC
* * *
188776 ATTATCAAGCACAATAATATATTAGGTACCGCTTATATAAT-AAATATGTATCACTTATATAATA
1 ATTATCAAGCACAATAACATATTAAGTACCGCTTATATAATGAAATATGTAACAC-T-TATAATA
*
188840 AAATAGATCAATTACTGGAAAC
64 AAATAGATCAATTACTAGAAAC
* * * * * * * * *
188862 ATTATCAAACACAATAACATATTATGTAGCACTTATATAATGTAATAAGTAGCGCTTGTATATAA
1 ATTATCAAGCACAATAACATATTAAGTACCGCTTATATAATGAAATATGTAACACTTATA-ATAA
188927 AATAG
65 AATAG
188932 TAGCGCTTAT
Statistics
Matches: 129, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
84 9 0.07
85 40 0.31
86 71 0.55
87 9 0.07
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (85 bp):
ATTATCAAGCACAATAACATATTAAGTACCGCTTATATAATGAAATATGTAACACTTATAATAAA
ATAGATCAATTACTAGAAAC
Found at i:188913 original size:23 final size:22
Alignment explanation
Indices: 188887--188952 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 22
188877 AACATATTAT
* **
188887 GTAGCACTTATATAATGTAATAA
1 GTAGCGCTTATATAATAAAAT-A
*
188910 GTAGCGCTTGTAT-ATAAAATA
1 GTAGCGCTTATATAATAAAATA
188931 GTAGCGCTTATATAA-AAAATA
1 GTAGCGCTTATATAATAAAATA
188952 G
1 G
188953 GTTAATTACT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 20 0.54
22 6 0.16
23 11 0.30
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (22 bp):
GTAGCGCTTATATAATAAAATA
Found at i:189008 original size:23 final size:23
Alignment explanation
Indices: 188982--189031 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
188972 ATCAAGCACA
* *
188982 ATAACATATTAGGTACCACTTAT
1 ATAACATAATAGGTAACACTTAT
**
189005 ATAATGTAATAGGTAACACTTAT
1 ATAACATAATAGGTAACACTTAT
189028 ATAA
1 ATAA
189032 TAAAAGGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAACACTTAT
Found at i:189039 original size:21 final size:22
Alignment explanation
Indices: 188992--189039 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
188982 ATAACATATT
* *
188992 AGGTACCACTTATATAATGTAAT
1 AGGTAACACTTATATAA-GTAAA
189015 AGGTAACACTTATATAA-TAAA
1 AGGTAACACTTATATAAGTAAA
189036 AGGT
1 AGGT
189040 TAATTACTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
23 16 0.70
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (22 bp):
AGGTAACACTTATATAAGTAAA
Found at i:189102 original size:84 final size:84
Alignment explanation
Indices: 188937--189129 Score: 291
Period size: 84 Copynumber: 2.3 Consensus size: 84
188927 AATAGTAGCG
*
188937 CTTATATAAAAAATAGGTTAATTACTATAAACATTATCAAGCACAATAACATATTAGGTACCACT
1 CTTATAT-AAAAA-AGGTTAATTACTAGAAACATTATCAAGCACAATAACATATTAGGTACCACT
*
189002 TATATAATGTAATAGGTAACA
64 TATATAACGTAATAGGTAACA
* *
189023 CTTATATAATAAAAGGTTAATTACTGGAAACATTATCAAGCACAAT-ACATATTAGGTAGCACTT
1 CTTATATAA-AAAAGGTTAATTACTAGAAACATTATCAAGCACAATAACATATTAGGTACCACTT
*
189087 ATATAACGTAATAGGTAACG
65 ATATAACGTAATAGGTAACA
*
189107 CTTATAT-AAATAGGTTAATTACT
1 CTTATATAAAAAAGGTTAATTACT
189130 TAATTTGTAT
Statistics
Matches: 100, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
82 14 0.14
83 1 0.01
84 42 0.42
85 33 0.33
86 10 0.10
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.32
Consensus pattern (84 bp):
CTTATATAAAAAAGGTTAATTACTAGAAACATTATCAAGCACAATAACATATTAGGTACCACTTA
TATAACGTAATAGGTAACA
Found at i:190062 original size:197 final size:196
Alignment explanation
Indices: 189658--190077 Score: 546
Period size: 197 Copynumber: 2.1 Consensus size: 196
189648 TTTAAAATAA
189658 ACATTGTAAA-TTACCTATTACATTATAATTATCGTTTCGATATTTTTGGGATCGATACAATTTT
1 ACATTGTAAATTTACCTATTACATTATAATTATCGTTTCGATATTTTTGGGATCGATACAATTTT
* * *
189722 AATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACAA
66 AATGTATCAACACTTTATACGTGCACCTCGTTGGGCATTCATTCTAGAAAAAAGTATCGACACAA
* *
189787 ACTTAAAATGTGTCGATACATTATGTAGACATATTTTCTCATAAAACCGGTATATTTATACCGAG
131 ACTTAAAATGTGTCGATACATTATGTAGACATATTCTCTCATAAAACCGGTATATTTATACAGAG
189852 T
196 T
* * **
189853 ACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTTTTGGGATCGATA-TTTTT
1 ACATTGTAAATTTACCTATTACATTATAATTATC-GTTTCGATATTTTTGGGATCGATACAATTT
* * * *
189917 AATAAATGTATCAACACTTTATATGTGCACCTCGTTTGGCATTCATTCTAGACAAAA-TGTCGAC
65 --T-AATGTATCAACACTTTATACGTGCACCTCGTTGGGCATTCATTCTAGAAAAAAGTATCGAC
*** * * ** *
189981 AC-TTTTTAAATTTGTGTCGATACATTATGTTGATTTATTCTCTCAT-AAATCGGTATATTTATA
127 ACAAACTTAAA-ATGTGTCGATACATTATGTAGACATATTCTCTCATAAAACCGGTATATTTATA
190044 CAG-GTT
191 CAGAG-T
*
190050 ACATTATAAATTTACCTATTACATTATA
1 ACATTGTAAATTTACCTATTACATTATA
190078 TCGATTTCTA
Statistics
Matches: 195, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
195 10 0.05
196 26 0.13
197 73 0.37
198 39 0.20
199 47 0.24
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (196 bp):
ACATTGTAAATTTACCTATTACATTATAATTATCGTTTCGATATTTTTGGGATCGATACAATTTT
AATGTATCAACACTTTATACGTGCACCTCGTTGGGCATTCATTCTAGAAAAAAGTATCGACACAA
ACTTAAAATGTGTCGATACATTATGTAGACATATTCTCTCATAAAACCGGTATATTTATACAGAG
T
Found at i:190226 original size:40 final size:38
Alignment explanation
Indices: 190150--190239 Score: 94
Period size: 40 Copynumber: 2.3 Consensus size: 38
190140 TTCTATCATT
* *
190150 ATAATATAATTAAGATATATTATTCTTATTATAATAAATA
1 ATAATATAATTAAGATATATTATTCTTAATAAAAT-AA-A
*
190190 ATAATATAATTATA-ATAATTTTATT-TTAATAAAATAAA
1 ATAATATAATTA-AGAT-ATATTATTCTTAATAAAATAAA
190228 ATAATCATAATT
1 ATAAT-ATAATT
190240 TTTTATTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
38 6 0.14
39 8 0.18
40 22 0.50
41 8 0.18
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (38 bp):
ATAATATAATTAAGATATATTATTCTTAATAAAATAAA
Found at i:190252 original size:30 final size:33
Alignment explanation
Indices: 190175--190247 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
190165 TATATTATTC
* * *
190175 TTATTATAATAAATAATAATATAATTATAATAATT
1 TTATTTTAAT-AA-AATAAAATAATCATAATAATT
*
190210 TTATTTTAATAAAATAAAATAATCATAAT-TTT
1 TTATTTTAATAAAATAAAATAATCATAATAATT
190242 TTATTT
1 TTATTT
190248 ATAAATTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 8 0.24
33 15 0.44
34 2 0.06
35 9 0.26
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (33 bp):
TTATTTTAATAAAATAAAATAATCATAATAATT
Found at i:190344 original size:26 final size:29
Alignment explanation
Indices: 190315--190378 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
190305 TTCTAAATTT
190315 TAAA-AATAATATTA-T-TATTT-TGTTAA
1 TAAATAAT-ATATTATTGTATTTATGTTAA
190341 TAAATAATATATTATTGTATTTGATGTTAA
1 TAAATAATATATTATTGTATTT-ATGTTAA
190371 TAAATAAT
1 TAAATAAT
190379 TTTTTAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
26 10 0.30
27 4 0.12
28 5 0.15
30 14 0.42
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (29 bp):
TAAATAATATATTATTGTATTTATGTTAA
Found at i:197710 original size:25 final size:24
Alignment explanation
Indices: 197652--197711 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
197642 GAATAGATAT
*
197652 AAAATAAAT-TAATTAAAATTAAG
1 AAAATAATTATAATTAAAATTAAG
*
197675 AAAATATTTATAATTAAGAATTAA-
1 AAAATAATTATAATTAA-AATTAAG
*
197699 ATATATAATTATA
1 A-AAATAATTATA
197712 CTATAGTGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 7 0.23
24 8 0.27
25 15 0.50
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (24 bp):
AAAATAATTATAATTAAAATTAAG
Found at i:198651 original size:20 final size:20
Alignment explanation
Indices: 198610--198653 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
198600 GTTTGTTAGC
*
198610 AGTTGAGGCTGTTAATATTT
1 AGTTGAGGCTGTTAATAGTT
* *
198630 AGTTGAGGTTGTTAATGGTT
1 AGTTGAGGCTGTTAATAGTT
198650 AGTT
1 AGTT
198654 ACAAAGTCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.02, G:0.30, T:0.45
Consensus pattern (20 bp):
AGTTGAGGCTGTTAATAGTT
Found at i:199536 original size:28 final size:26
Alignment explanation
Indices: 199495--199549 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 26
199485 CACCATTAAC
199495 ATAGCTCTAATGGGATGCTTCTATGA
1 ATAGCTCTAATGGGATGCTTCTATGA
199521 ATAGCCTCTAAATGGGATGCTTCTATGA
1 ATAG-CTCT-AATGGGATGCTTCTATGA
199549 A
1 A
199550 CCAGTTGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 4 0.15
27 4 0.15
28 19 0.70
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (26 bp):
ATAGCTCTAATGGGATGCTTCTATGA
Found at i:218324 original size:26 final size:25
Alignment explanation
Indices: 218282--218341 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
218272 CAATTAAACT
* * *
218282 AATATCAACTAATTAAATTATTTAA
1 AATATTAAATAATTAAATTAATTAA
218307 TAAT-TTAAATAATATAAATTAATTAA
1 -AATATTAAATAAT-TAAATTAATTAA
218333 AATATTAAA
1 AATATTAAA
218342 CTGGTTATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (25 bp):
AATATTAAATAATTAAATTAATTAA
Found at i:218335 original size:19 final size:18
Alignment explanation
Indices: 218273--218336 Score: 51
Period size: 19 Copynumber: 3.6 Consensus size: 18
218263 TAATATATTC
* *
218273 AATTAAACTAATATCAACT
1 AATTAAAATAATAT-AAAT
* *
218292 AATT-AAATTAT-TTAAT
1 AATTAAAATAATATAAAT
*
218308 AATTTAAATAATATAAATT
1 AATTAAAATAATATAAA-T
218327 AATTAAAATA
1 AATTAAAATA
218337 TTAAACTGGT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
16 6 0.17
17 7 0.20
18 8 0.23
19 14 0.40
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTAAAATAATATAAAT
Found at i:219078 original size:23 final size:23
Alignment explanation
Indices: 219052--219114 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
219042 TAATAATTAT
219052 TTAAAATTTAAATTTAAAAAACC
1 TTAAAATTTAAATTTAAAAAACC
** * **
219075 TTAATTTTTAAATTTATAAGTCC
1 TTAAAATTTAAATTTAAAAAACC
* *
219098 TTAAACTTTAAAATTAA
1 TTAAAATTTAAATTTAA
219115 TTAGGCCCTC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.43
Consensus pattern (23 bp):
TTAAAATTTAAATTTAAAAAACC
Found at i:220013 original size:29 final size:31
Alignment explanation
Indices: 219979--220053 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 31
219969 CAAATTTTGG
*
219979 TTAGTGACCAAAATGTAAAATT-TGAA-AGT
1 TTAGTGACCAAAATGTAAAATTGGGAAGAGT
* * *
220008 TTAGTGGCCAAAGTATAAAATTGGGAAGAGT
1 TTAGTGACCAAAATGTAAAATTGGGAAGAGT
*
220039 TTAGGGACCAAAATG
1 TTAGTGACCAAAATG
220054 GTAATTTTAC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
29 19 0.53
30 3 0.08
31 14 0.39
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (31 bp):
TTAGTGACCAAAATGTAAAATTGGGAAGAGT
Found at i:220479 original size:23 final size:23
Alignment explanation
Indices: 220452--220516 Score: 121
Period size: 23 Copynumber: 2.8 Consensus size: 23
220442 TGGTATGAAT
220452 GTAATTATCAAGTTTCATTAATG
1 GTAATTATCAAGTTTCATTAATG
220475 GTAATTATCAAGTTTCATTAATG
1 GTAATTATCAAGTTTCATTAATG
*
220498 GTAATTATCAAATTTCATT
1 GTAATTATCAAGTTTCATT
220517 TAAGCTAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (23 bp):
GTAATTATCAAGTTTCATTAATG
Done.