Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 243 of 344
Found at i:80663206 original size:7 final size:8
Alignment explanation
Indices: 80663167--80663215 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
80663157 ATATTAAATA
*
80663167 TTAAATTT
1 TTAATTTT
*
80663175 TTAAGTTT
1 TTAATTTT
*
80663183 TAAATTTT
1 TTAATTTT
80663191 TTAA-TTT
1 TTAATTTT
80663198 TTAATTTT
1 TTAATTTT
80663206 TTAATTTT
1 TTAATTTT
80663214 TT
1 TT
80663216 TAAAGATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
7 7 0.19
8 29 0.81
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (8 bp):
TTAATTTT
Found at i:80663214 original size:15 final size:15
Alignment explanation
Indices: 80663167--80663214 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
80663157 ATATTAAATA
*
80663167 TTAAATTTTTAAGTTT
1 TTAATTTTTTAA-TTT
*
80663183 TAAATTTTTTAATTT
1 TTAATTTTTTAATTT
80663198 TTAATTTTTTAATTT
1 TTAATTTTTTAATTT
80663213 TT
1 TT
80663215 TTAAAGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 19 0.66
16 10 0.34
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TTAATTTTTTAATTT
Found at i:80663465 original size:1 final size:1
Alignment explanation
Indices: 80663459--80663599 Score: 282
Period size: 1 Copynumber: 141.0 Consensus size: 1
80663449 TAAAAGTTAG
80663459 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
80663524 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
80663589 TTTTTTTTTTT
1 TTTTTTTTTTT
80663600 ATGTTAACTT
Statistics
Matches: 140, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 140 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:80663974 original size:38 final size:40
Alignment explanation
Indices: 80663824--80663986 Score: 192
Period size: 41 Copynumber: 4.1 Consensus size: 40
80663814 TATAATTAAT
* * *
80663824 ATCTTTAGCGGC-ATTT-TTAAAAAAGCACCGCTAATGC-CA
1 ATCTTTAGCGGCGCTTTCTTAAAAATG--CCGCTAATGCTCG
* ** *
80663863 ATCTTTAGCGGTGCTTTCTTAAAAGCGCCGCTAGTGCTCAG
1 ATCTTTAGCGGCGCTTTCTTAAAAATGCCGCTAATGCTC-G
*
80663904 ATCTTTAGCGACGCTTTCTTAAAAATGCCGCTAATGCTCG
1 ATCTTTAGCGGCGCTTTCTTAAAAATGCCGCTAATGCTCG
80663944 ATCTTTAGCGGCGC-TTC-TAAAAATGCCGCTAATGCTCG
1 ATCTTTAGCGGCGCTTTCTTAAAAATGCCGCTAATGCTCG
80663982 ATCTT
1 ATCTT
80663987 NNNNNNNNNN
Statistics
Matches: 108, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
38 26 0.24
39 23 0.21
40 18 0.17
41 41 0.38
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (40 bp):
ATCTTTAGCGGCGCTTTCTTAAAAATGCCGCTAATGCTCG
Found at i:80678939 original size:27 final size:27
Alignment explanation
Indices: 80678909--80679086 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
80678899 ATATTGAGCC
* *
80678909 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
80678936 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
80678963 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * *
80678991 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
80679018 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
80679045 CGCACACTTAGTGCAACATAGTCAAAC-
1 CGCACACTTAGTGCTACATAATC-AACT
80679072 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
80679087 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:80679048 original size:82 final size:81
Alignment explanation
Indices: 80678929--80679085 Score: 235
Period size: 82 Copynumber: 1.9 Consensus size: 81
80678919 GTGCTATATA
* *
80678929 ATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAAC-CGC
80678994 ACACTTAGTGCCGCATG
65 ACACTTAGTGCCGCATG
* * **
80679011 ATCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAACCGC
1 ATCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGC
80679075 ACACTTAGTGC
65 ACACTTAGTGC
80679086 TGTACAATTT
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 53 0.78
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAACCGCA
CACTTAGTGCCGCATG
Found at i:80683412 original size:22 final size:22
Alignment explanation
Indices: 80683386--80683432 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
80683376 TATTTTCTTG
80683386 TTTAAGCTCTAGAAATTCCTTC
1 TTTAAGCTCTAGAAATTCCTTC
*
80683408 TTTAAGCTCTAGAAATTCTTTC
1 TTTAAGCTCTAGAAATTCCTTC
80683430 TTT
1 TTT
80683433 TTCTAATCCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.19, G:0.09, T:0.47
Consensus pattern (22 bp):
TTTAAGCTCTAGAAATTCCTTC
Found at i:80687260 original size:21 final size:22
Alignment explanation
Indices: 80687236--80687277 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
80687226 TTATTCAATA
*
80687236 AAAATTATAA-AAACTAAAATT
1 AAAATAATAATAAACTAAAATT
*
80687257 AAAATAATAATAAAGTAAAAT
1 AAAATAATAATAAACTAAAAT
80687278 GAAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAATAATAATAAACTAAAATT
Found at i:80695092 original size:18 final size:17
Alignment explanation
Indices: 80695065--80695098 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
80695055 TCGCTTTCAC
*
80695065 AGAAAGAAAATAGAAAAA
1 AGAAAAAAAAT-GAAAAA
80695083 AGAAAAAAAATGAAAA
1 AGAAAAAAAATGAAAA
80695099 GGGGAAGAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (17 bp):
AGAAAAAAAATGAAAAA
Found at i:80695168 original size:19 final size:19
Alignment explanation
Indices: 80695141--80695180 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
80695131 AAGAAGAATA
*
80695141 AAAATTAAAAATTAAA-AAT
1 AAAAGTAAAAA-TAAATAAT
80695160 AAAAGTAAAAATAAATAAT
1 AAAAGTAAAAATAAATAAT
80695179 AA
1 AA
80695181 TAATAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
AAAAGTAAAAATAAATAAT
Found at i:80695170 original size:7 final size:6
Alignment explanation
Indices: 80695137--80695223 Score: 57
Period size: 6 Copynumber: 13.8 Consensus size: 6
80695127 AAGGAAGAAG
* * *
80695137 AATAAA AATTAAA AATTAAA AATAAA AGTAAA AATAAA TAATAAT AATAAT
1 AATAAA AA-TAAA AA-TAAA AATAAA AATAAA AATAAA -AATAAA AATAAA
** ** * *
80695188 AATAGT AATAGT AATAAT AATAAT AATAATA AATAA
1 AATAAA AATAAA AATAAA AATAAA AATAA-A AATAA
80695224 TTAAACTAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
6 49 0.68
7 23 0.32
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (6 bp):
AATAAA
Found at i:80695181 original size:3 final size:3
Alignment explanation
Indices: 80695173--80695224 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
80695163 AGTAAAAATA
* *
80695173 AAT AAT AAT AAT AAT AAT AGT AAT AGT AAT AAT AAT AAT AAT AAT AAAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT
80695222 AAT
1 AAT
80695225 TAAACTAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:80703209 original size:46 final size:46
Alignment explanation
Indices: 80703131--80703242 Score: 120
Period size: 46 Copynumber: 2.4 Consensus size: 46
80703121 GTGCTATTGT
80703131 AAGACATGTCTGGGACATGCATCAGCCTCGAGATG-TAAGCCAATGC
1 AAGACATGTCTGGGACATGCATCAGCCTCGAGATGAT-AGCCAATGC
* * * * * *
80703177 AAGACATGTCTGGGACATGCGT-TGGCTACGAGATGATAGTCAGTGT
1 AAGACATGTCTGGGACATGCATCAGCCT-CGAGATGATAGCCAATGC
*
80703223 AAGACCATGTCTAGGACATG
1 AAGA-CATGTCTGGGACATG
80703243 GCTTCAACTT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
45 3 0.05
46 38 0.68
47 15 0.27
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
AAGACATGTCTGGGACATGCATCAGCCTCGAGATGATAGCCAATGC
Found at i:80722980 original size:96 final size:96
Alignment explanation
Indices: 80722857--80723036 Score: 256
Period size: 96 Copynumber: 1.9 Consensus size: 96
80722847 ACTTGTCGAG
* *
80722857 GCCGATGCCATGTCCCAAACATGGTCTTACACTAG-CTCTTATCTCAAT-GCCGATACCATGTCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACT-GTCTCTTATATC-ATGGCCAATACCATGTCC
*
80722920 CAGACATGGTCTTACAATGGCTCTCACAACATC
64 CAAACATGGTCTTACAATGGCTCTCACAACATC
* * * *
80722953 GCCGATGCCATGTTCCAACCATGGTCTTACACTGTCTCTTATATCGTGGCCAATGCCATGTCCCA
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGTCTCTTATATCATGGCCAATACCATGTCCCA
*
80723018 AACATGGTCTTACACTGGC
66 AACATGGTCTTACAATGGC
80723037 ACACATATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
95 2 0.03
96 72 0.97
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGTCTCTTATATCATGGCCAATACCATGTCCCA
AACATGGTCTTACAATGGCTCTCACAACATC
Found at i:80723045 original size:48 final size:48
Alignment explanation
Indices: 80722812--80723046 Score: 222
Period size: 48 Copynumber: 4.9 Consensus size: 48
80722802 GTGAATTGCT
* * * * * * *
80722812 GATGCCATGTTCCAAACAAGGACTTACATTGGCTCACTTGTCGA-GGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGCC
* * *
80722860 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTTATCTCAAT-GCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATC-ATGGCC
* * * * * *
80722908 GATACCATGTCCCAGACATGGTCTTACAATGGCTCTCACAACATCGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGGCC
* * * * *
80722956 GATGCCATGTTCCAACCATGGTCTTACACTGTCTCTTATATCGTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGGCC
* * *
80723004 AATGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCA
1 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCA
80723047 CCCAAATTTC
Statistics
Matches: 148, Mismatches: 37, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
47 2 0.01
48 146 0.99
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATCATGGCC
Found at i:80725109 original size:23 final size:23
Alignment explanation
Indices: 80725061--80725109 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
80725051 TGCTAAAGTC
* **
80725061 TAACTTTTTCCCAAAGCCTGTTG
1 TAACTTTTTCCCAAAACCTGAAG
80725084 TAACTTTTT-CCAAAACCTCGAAG
1 TAACTTTTTCCCAAAACCT-GAAG
80725107 TAA
1 TAA
80725110 ACCTTAGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (23 bp):
TAACTTTTTCCCAAAACCTGAAG
Found at i:80729814 original size:30 final size:29
Alignment explanation
Indices: 80729757--80729814 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
80729747 AACCTACACA
* *
80729757 ACATTAACCAAAACCAATCCAAGCATAAC
1 ACATTAACCAAAACCAACCCAACCATAAC
80729786 ACATATAACCAAAA-CAACCACAACCATAA
1 ACAT-TAACCAAAACCAACC-CAACCATAA
80729815 GAAATTTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.55, C:0.31, G:0.02, T:0.12
Consensus pattern (29 bp):
ACATTAACCAAAACCAACCCAACCATAAC
Found at i:80730520 original size:48 final size:48
Alignment explanation
Indices: 80730449--80730674 Score: 222
Period size: 48 Copynumber: 4.7 Consensus size: 48
80730439 GATGAATTGT
* * * * *
80730449 CGATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTTGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTCGAGGC
* * * *
80730497 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTCTCAATGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTCGAGGC
* * * * *
80730545 CTATGCCATGTCCCAAATATGGTCTTACACTGGCTCTCA-CAAC-ACCGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATC-TCGA-GGC
* * * * *
80730593 CGATGCCATGTTCAAAACATGGTCTTACATTGGCTCTCATATCGTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTCGAGGC
* * *
80730641 TGATGCCATGTCCTAGACATGGTCTTACACTGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGC
80730675 ACACATATCA
Statistics
Matches: 143, Mismatches: 31, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
47 2 0.01
48 141 0.99
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATCTCGAGGC
Found at i:80735094 original size:31 final size:31
Alignment explanation
Indices: 80735059--80735124 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
80735049 ACAATTTGGC
* *
80735059 CACTAAACTATTTAGAAATTTTCATTTAAGT
1 CACTAAACTATTCAGAAATTTTCATTTAAGA
* * *
80735090 CACTAAACTATTCATAAGTTTTTATTTAAGA
1 CACTAAACTATTCAGAAATTTTCATTTAAGA
80735121 CACT
1 CACT
80735125 TGGCTATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (31 bp):
CACTAAACTATTCAGAAATTTTCATTTAAGA
Found at i:80746259 original size:40 final size:39
Alignment explanation
Indices: 80746175--80746359 Score: 178
Period size: 40 Copynumber: 4.6 Consensus size: 39
80746165 TCGAATGATG
* * *
80746175 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAT
* *
80746214 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
80746255 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
* *
80746294 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACT-AT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT
* *
80746333 AACCGGGCTATGTTCCGAAGGCATTTG
1 -TCCGGGCTAAG-TCCGAAGGCATTTG
80746360 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 35 0.29
40 75 0.62
41 11 0.09
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:80746311 original size:79 final size:81
Alignment explanation
Indices: 80746175--80746357 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
80746165 TCGAATGATG
* *
80746175 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
80746239 TGTGCGAGATACTA-A
66 TGTGCAAGATACTATA
* * * **
80746254 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
80746316 TTTGTGCAAGTTACTATA
64 TTTGTGCAAGATACTATA
* * *
80746334 ACCGGGCTATGTTCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
80746358 TGAACGAGTA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.66
80 29 0.33
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCAAGATACTATA
Found at i:80746381 original size:79 final size:79
Alignment explanation
Indices: 80746228--80746382 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
80746218 GGACTAAGAT
* * **
80746228 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
80746293 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * * *
80746307 CCGAAGGCATTTGTGCAAGTTACT-ATAACCGGGCTATGTTCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
80746370 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
80746383 ATTTCAAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.61
80 23 0.36
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:80757124 original size:20 final size:20
Alignment explanation
Indices: 80757099--80757136 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
80757089 GAAGCAAAAA
80757099 TACCAAG-TGAAAATGAAGTC
1 TACCAAGCTGAAAA-GAAGTC
80757119 TACCAAGCTGAAAAGAAG
1 TACCAAGCTGAAAAGAAG
80757137 CTTGGAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.47, C:0.16, G:0.21, T:0.16
Consensus pattern (20 bp):
TACCAAGCTGAAAAGAAGTC
Found at i:80763926 original size:13 final size:14
Alignment explanation
Indices: 80763908--80763941 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
80763898 AATACCAATA
80763908 AATAAATAAAA-TT
1 AATAAATAAAAGTT
80763921 AATAAATAAAAGTTT
1 AATAAATAAAAG-TT
80763936 AATAAA
1 AATAAA
80763942 CAGTCTAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
15 8 0.42
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (14 bp):
AATAAATAAAAGTT
Found at i:80764793 original size:4 final size:4
Alignment explanation
Indices: 80764784--80764847 Score: 53
Period size: 4 Copynumber: 16.2 Consensus size: 4
80764774 ATCTATCAAC
** * *
80764784 TTAT TTAT TTAT TTAT TT-T CAAC TT-T TTAT TAAT TT-T TTACT GTTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA-T -TTAT
80764831 TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT T
80764848 ATTGCCTTGC
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
3 6 0.13
4 36 0.77
5 2 0.04
6 3 0.06
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:80764941 original size:12 final size:11
Alignment explanation
Indices: 80764928--80764961 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
80764918 ACTTCATTAT
80764928 TTTTATTTTTA
1 TTTTATTTTTA
*
80764939 TTTTATTATTTC
1 TTTTATT-TTTA
80764951 TTTTATTTTTA
1 TTTTATTTTTA
80764962 ATGCTTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:80765238 original size:17 final size:17
Alignment explanation
Indices: 80765179--80765220 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
80765169 GATTAGTACC
80765179 ATTATTATAAAATCGAT
1 ATTATTATAAAATCGAT
*
80765196 ATTATTATAAAATTGAT
1 ATTATTATAAAATCGAT
*
80765213 GTTATTAT
1 ATTATTAT
80765221 TATTATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (17 bp):
ATTATTATAAAATCGAT
Found at i:80765245 original size:23 final size:23
Alignment explanation
Indices: 80765196--80765249 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
80765186 TAAAATCGAT
* *
80765196 ATTATTATAAAATTGATGTTATT
1 ATTATTATAAAATTGATATTATC
* *
80765219 ATTATTATAAAATTGGTATTCTC
1 ATTATTATAAAATTGATATTATC
80765242 ATTATTAT
1 ATTATTAT
80765250 TGTAGTTGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (23 bp):
ATTATTATAAAATTGATATTATC
Found at i:80782384 original size:63 final size:63
Alignment explanation
Indices: 80782285--80782410 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
80782275 CACACTTCAG
* *
80782285 ACTTCAAACTCTTTCTGTTTGGCCCATTTTACTATTTAAAAATAATCATAAATATTTAAAACA
1 ACTTCAAACTCTTTCAGTTTGGCCCATTTTACTATTTAAAAACAATCATAAATATTTAAAACA
*
80782348 ACTTCAAACTCTTTCAGTTTGGTCCATTTTACTATTTAAAAACAATCATAAATATTTAAAACA
1 ACTTCAAACTCTTTCAGTTTGGCCCATTTTACTATTTAAAAACAATCATAAATATTTAAAACA
80782411 TATACTTTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (63 bp):
ACTTCAAACTCTTTCAGTTTGGCCCATTTTACTATTTAAAAACAATCATAAATATTTAAAACA
Found at i:80784003 original size:21 final size:21
Alignment explanation
Indices: 80783938--80784003 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 21
80783928 TATCCAACCA
*
80783938 AATAAATTTAATATCTAACAT
1 AATAAATTCAATATCTAACAT
* *
80783959 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAT
80783984 AATAAATTCAATATCTAACA
1 AATAAATTCAATATCTAACA
80784004 AATTCAAGAC
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 14 0.39
22 2 0.06
23 2 0.06
24 2 0.06
25 16 0.44
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.30
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAT
Found at i:80784004 original size:32 final size:32
Alignment explanation
Indices: 80783977--80784037 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
80783967 CAACAAGCTT
* *
80783977 AAAACATAATAAATTCAATATCTAACAAATTC
1 AAAACATAATAAATTCAAAATCCAACAAATTC
* *
80784009 AAGACATAATAATTTCAAAATCCAACAAA
1 AAAACATAATAAATTCAAAATCCAACAAA
80784038 CTAAAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (32 bp):
AAAACATAATAAATTCAAAATCCAACAAATTC
Found at i:80787724 original size:25 final size:25
Alignment explanation
Indices: 80787677--80787727 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
80787667 AGTAACGAAC
**
80787677 AAGAAGAAAAAAAAAGAGTTTTAAA
1 AAGAAGAAAAAAAAAGAACTTTAAA
*
80787702 AAGAAGAAAAAAACAGAACTTTAAA
1 AAGAAGAAAAAAAAAGAACTTTAAA
80787727 A
1 A
80787728 TGAACATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.69, C:0.04, G:0.14, T:0.14
Consensus pattern (25 bp):
AAGAAGAAAAAAAAAGAACTTTAAA
Found at i:80799811 original size:56 final size:56
Alignment explanation
Indices: 80799730--80799843 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
80799720 TTATTTTCAA
80799730 TCACAAGAATGGGTTAAAGAGATAAATTTACTGCCATGATGAGTACCGCACTATTT
1 TCACAAGAATGGGTTAAAGAGATAAATTTACTGCCATGATGAGTACCGCACTATTT
* * *
80799786 TCACAATAATGGGTTAAAGGGATAAATTTACTGCCATGATGAGTACTGCACTATTT
1 TCACAAGAATGGGTTAAAGAGATAAATTTACTGCCATGATGAGTACCGCACTATTT
80799842 TC
1 TC
80799844 CCACCAATCT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (56 bp):
TCACAAGAATGGGTTAAAGAGATAAATTTACTGCCATGATGAGTACCGCACTATTT
Found at i:80803149 original size:20 final size:21
Alignment explanation
Indices: 80803126--80803164 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
80803116 ATTACTTACC
*
80803126 ATAAACATTAA-AATTAAAAT
1 ATAAAAATTAATAATTAAAAT
80803146 ATAAAAATTAATAATTAAA
1 ATAAAAATTAATAATTAAA
80803165 TTCGGATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAAAAATTAATAATTAAAAT
Found at i:80803320 original size:23 final size:24
Alignment explanation
Indices: 80803266--80803320 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
80803256 TAGCTACGGA
80803266 AATTAAA-ACAATTAAAATTTATC
1 AATTAAATACAATTAAAATTTATC
80803289 AA-TACAATACAATT-AAATTT-TC
1 AATTA-AATACAATTAAAATTTATC
80803311 ACATTAAATA
1 A-ATTAAATA
80803321 TTTCAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
22 5 0.18
23 15 0.54
24 8 0.29
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.35
Consensus pattern (24 bp):
AATTAAATACAATTAAAATTTATC
Found at i:80803852 original size:5 final size:5
Alignment explanation
Indices: 80803842--80803884 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
80803832 TATTATTATA
80803842 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
80803885 TATTCTTAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:80803949 original size:19 final size:20
Alignment explanation
Indices: 80803912--80803950 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
80803902 TAGTATAATT
*
80803912 TATTATTTTATACATATGTA
1 TATTATTTTATACACATGTA
80803932 TATTATTTT-TACACATGTA
1 TATTATTTTATACACATGTA
80803951 AACACCAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (20 bp):
TATTATTTTATACACATGTA
Found at i:80805020 original size:325 final size:325
Alignment explanation
Indices: 80804426--80805065 Score: 955
Period size: 325 Copynumber: 2.0 Consensus size: 325
80804416 ATTTAATTCG
* * *
80804426 AGTGGCTAGAGGTACACATCCTGTTGATACAGTGATACAACGAGGGAATACGTAAGAAGATGTGG
1 AGTGGCTAGAAGTACACATCCTGTTGATACAGTGATACAACGAAGGAATACATAAGAAGATGTGG
* *
80804491 TGGAGCTAATGGAGGTCGGTTCACCCAATCGGAGTGGAGAGCCGAAGATTCCAAAGAGTGAAAGT
66 TGGAGCTAATGGAGGTCAGTTCACCCAATCGGAGTGGAGAGCCGAAGATTACAAAGAGTGAAAGT
* *
80804556 GGAGAAAGTATGAAGGCTAAGTGTTGAGGGTCAACTAGCAGAGTATAGGTAAGTATATCTCAGAG
131 GGAGAAAGTATGAAGGATAAGTGTTGAGGGTCAACTAGCAGAGTATAGGCAAGTATATCTCAGAG
* *
80804621 AGTCGATCAATTGATCATCGTTTTGGAGGCTATTTATGGGCAAGGTCCCATGTAGGATGATGTTA
196 AGTCGATCAATTGATCATCGTTTTGGAGGCTATTTATGGGCAAGGTCCCATGCAGGATGACGTTA
* **
80804686 ACGTGTTGAGCCCGTAACTAGGCCATCATTGTGGGACGTGTGGGGCGAATGTCTTCAATAGGACA
261 ACGTGTTGAGCCCGCAACTAGGCCATCATTGTGGGACGTGTAAGGCGAATGTCTTCAATAGGACA
* * * *
80804751 AGTGGCTAGAAGTACATA-CCTTGTTGATACATTGATACAATGAAGGAATACATAGGAAGATGTG
1 AGTGGCTAGAAGTACACATCC-TGTTGATACAGTGATACAACGAAGGAATACATAAGAAGATGTG
* **
80804815 GTGGAGCTAATGGAGGTCAGTTTACCCAATCAGG-GTGGAGAGTTGAAGATTACAAAGAGTGAAA
65 GTGGAGCTAATGGAGGTCAGTTCACCCAATC-GGAGTGGAGAGCCGAAGATTACAAAGAGTGAAA
*
80804879 GTGGAGAAAGTATGAAGGATAAGTGCTT-AGGGTCAACT-GACAGAGTGTAGGCAAGTATATCTC
129 GTGGAGAAAGTATGAAGGATAAGTG-TTGAGGGTCAACTAG-CAGAGTATAGGCAAGTATATCTC
* ** **
80804942 TGAGAGTCGATCCCTTGATCATCGTTTTGGAGGCTATTTATGGGCAAGGTCCTGTGCAGGATGAC
192 AGAGAGTCGATCAATTGATCATCGTTTTGGAGGCTATTTATGGGCAAGGTCCCATGCAGGATGAC
* * * *
80805007 GTTAACTTGTTGAGCCCGCAACTAGGCCATCATTGTTGGATGTGTAAGGTGAATGTCTT
257 GTTAACGTGTTGAGCCCGCAACTAGGCCATCATTGTGGGACGTGTAAGGCGAATGTCTT
80805066 TGATGGGATG
Statistics
Matches: 282, Mismatches: 29, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
324 3 0.01
325 275 0.98
326 4 0.01
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (325 bp):
AGTGGCTAGAAGTACACATCCTGTTGATACAGTGATACAACGAAGGAATACATAAGAAGATGTGG
TGGAGCTAATGGAGGTCAGTTCACCCAATCGGAGTGGAGAGCCGAAGATTACAAAGAGTGAAAGT
GGAGAAAGTATGAAGGATAAGTGTTGAGGGTCAACTAGCAGAGTATAGGCAAGTATATCTCAGAG
AGTCGATCAATTGATCATCGTTTTGGAGGCTATTTATGGGCAAGGTCCCATGCAGGATGACGTTA
ACGTGTTGAGCCCGCAACTAGGCCATCATTGTGGGACGTGTAAGGCGAATGTCTTCAATAGGACA
Found at i:80810821 original size:23 final size:23
Alignment explanation
Indices: 80810791--80810838 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
80810781 TAGGGGACTT
80810791 TGGCATACAAGTCTTGAGACATA
1 TGGCATACAAGTCTTGAGACATA
80810814 TGGCATACAAGTCTTGAGACATA
1 TGGCATACAAGTCTTGAGACATA
80810837 TG
1 TG
80810839 ACACATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (23 bp):
TGGCATACAAGTCTTGAGACATA
Found at i:80812871 original size:20 final size:19
Alignment explanation
Indices: 80812835--80812885 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
80812825 AAGGGCTATT
*
80812835 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
80812854 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
80812874 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
80812886 GTTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:80814878 original size:24 final size:24
Alignment explanation
Indices: 80814851--80814921 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
80814841 ATCATAGAAA
80814851 GTGTACAT-TGGCACTATGTGTGCG
1 GTGTA-ATATGGCACTATGTGTGCG
*
80814875 GTGTAGTATGGCACTATGTGTGCG
1 GTGTAATATGGCACTATGTGTGCG
*
80814899 GAGTTGAATA--GCACTATGTGTGC
1 GTG-T-AATATGGCACTATGTGTGC
80814922 TGATTTGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.02
24 36 0.88
25 1 0.02
26 3 0.07
ACGTcount: A:0.20, C:0.14, G:0.34, T:0.32
Consensus pattern (24 bp):
GTGTAATATGGCACTATGTGTGCG
Found at i:80814942 original size:26 final size:24
Alignment explanation
Indices: 80814861--80814931 Score: 88
Period size: 24 Copynumber: 3.0 Consensus size: 24
80814851 GTGTACATTG
* * * *
80814861 GCACTATGTGTGCGGTGTAGTATG
1 GCACTATGTGTGCGGAGTTGAATA
80814885 GCACTATGTGTGCGGAGTTGAATA
1 GCACTATGTGTGCGGAGTTGAATA
* *
80814909 GCACTATGTGTGCTGATTTGAAT
1 GCACTATGTGTGCGGAGTTGAAT
80814932 GTCAACATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.21, C:0.13, G:0.32, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGGAGTTGAATA
Found at i:80816773 original size:47 final size:44
Alignment explanation
Indices: 80816710--80816831 Score: 129
Period size: 47 Copynumber: 2.6 Consensus size: 44
80816700 TATGTGTGCT
* * *
80816710 AGTGTAAAACATGTCTGGGACATGCATGGGCTACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-T--ATTGACGAGAGCC
*
80816756 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGTATT--GACGAGAGCC
*
80816804 AGTGTAAGACATGTTTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
80816832 AGCCTTGAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
45 3 0.05
46 13 0.20
47 28 0.42
48 22 0.33
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGTATTGACGAGAGCC
Found at i:80816812 original size:48 final size:48
Alignment explanation
Indices: 80816707--80816923 Score: 159
Period size: 48 Copynumber: 4.6 Consensus size: 48
80816697 TGATATGTGT
* ** *
80816707 GCTAGTGTAAAACATGTCTGGGACAT-GCATGGGC--T-ACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGA-TA-GAGA
* * * *
80816753 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGA-CGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCATTGAGATAGAGA
* * * *
80816801 GCTAGTGTAAGACATGTTTGGGACAT-GCATCAGCCTTGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGATAGA-GA
* * * *
80816849 GCTAGTGTAAGACTTGTCTGGGACATGGCGTCAGC-TT--GAT-GTGT
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGATAGAGA
*
80816893 G-TCAGTGTAAGACCTGTCTGGGACATGGCAT
1 GCT-AGTGTAAGACATGTCTGGGACATGGCAT
80816924 TGACACCGAT
Statistics
Matches: 139, Mismatches: 23, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 27 0.19
46 25 0.18
47 28 0.20
48 48 0.35
49 7 0.05
50 1 0.01
51 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGATAGAGA
Found at i:80816964 original size:49 final size:49
Alignment explanation
Indices: 80816747--80817025 Score: 166
Period size: 49 Copynumber: 5.8 Consensus size: 49
80816737 GGGCTACATT
* * *** *
80816747 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTG--AG
1 ATGAAAGCCAGTGTAAGA-CTTGTCTGGGACATGGCATCGACCTCGATAG
* * * * * * * *
80816795 ACGAGAGCTAGTGTAAGACATGTTTGGGACAT-GCATC-AGCCTTGAGAT
1 ATGAAAGCCAGTGTAAGACTTGTCTGGGACATGGCATCGA-CCTCGATAG
* * * *
80816843 AT-ACAAGCTAGTGTAAGACTTGTCTGGGACATGGCGTC-AGCTTGAT-G
1 ATGA-AAGCCAGTGTAAGACTTGTCTGGGACATGGCATCGACCTCGATAG
* * * *
80816890 -TG--TGTCAGTGTAAGACCTGTCTGGGACATGGCATTGACAC-CGATAG
1 ATGAAAGCCAGTGTAAGACTTGTCTGGGACATGGCATCGAC-CTCGATAG
* * * * * * *
80816936 ATGAGAGCCAGTGTAAGACTTGTTTGGGACACGACATCGGCCTCGGTAT
1 ATGAAAGCCAGTGTAAGACTTGTCTGGGACATGGCATCGACCTCGATAG
* *
80816985 ATGAAAGTCAGTGTAAGACTTGTCTGGGAAATGGCATCGAC
1 ATGAAAGCCAGTGTAAGACTTGTCTGGGACATGGCATCGAC
80817026 TTTAATGTGC
Statistics
Matches: 178, Mismatches: 40, Indels: 25
0.73 0.16 0.10
Matches are distributed among these distances:
44 27 0.15
45 4 0.02
46 11 0.06
47 16 0.09
48 49 0.28
49 71 0.40
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (49 bp):
ATGAAAGCCAGTGTAAGACTTGTCTGGGACATGGCATCGACCTCGATAG
Found at i:80820537 original size:51 final size:51
Alignment explanation
Indices: 80820432--80820539 Score: 119
Period size: 51 Copynumber: 2.1 Consensus size: 51
80820422 CCAAGAATTG
* * * *
80820432 GTTCATATGAAATAACAGTTCTTACCAAATGACAGCTCATGCAAAGTAATA
1 GTTCATATGAAATAACAGTTCTTACCAAATAACAACTCATGCAAAATAACA
* * * * *
80820483 GTTCATATGAAATATCAGTT-TATATCGAATAACAATTCATTCAAAATAACA
1 GTTCATATGAAATAACAGTTCT-TACCAAATAACAACTCATGCAAAATAACA
80820534 GTTCAT
1 GTTCAT
80820540 GCTTCATCAT
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 1 0.02
51 46 0.98
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (51 bp):
GTTCATATGAAATAACAGTTCTTACCAAATAACAACTCATGCAAAATAACA
Found at i:80826447 original size:19 final size:20
Alignment explanation
Indices: 80826409--80826447 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
80826399 TCACCATTCT
*
80826409 ATTGTTATTAGGCATTGAATA
1 ATTGTTATTA-GCATGGAATA
80826430 ATTGTTATT-GCATGGAAT
1 ATTGTTATTAGCATGGAAT
80826448 GTGCGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.44
Consensus pattern (20 bp):
ATTGTTATTAGCATGGAATA
Found at i:80826633 original size:48 final size:49
Alignment explanation
Indices: 80826557--80826881 Score: 297
Period size: 48 Copynumber: 6.7 Consensus size: 49
80826547 GTTATTTGTG
*
80826557 GGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATATGA
1 GGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAATATATGA
* * ** * **
80826606 GTC-AGTGTAAGATCATGTTTGAAACATGGCATCGGCAT-TGT-TATGA
1 GGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAATATATGA
* * ** * *
80826652 GAGCTAATGTAAGACCATGTCTATGACATGGCATCGACCTCAATATGTGA
1 G-GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAATATATGA
* * * **
80826702 -GCTAGTGTAAGACCACGTTTGGAACATGGCATCGGCAT-TGT-TATGA
1 GGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAATATATGA
* * *
80826748 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTAA
1 G-GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAATATATGA
* * * *
80826798 GAC-AGTGTAAGACCATGTTTGGGACCTGGCATCGGCACT-GATACATGA
1 GGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGC-CTCAATATATGA
* * *
80826846 GAGCCAATGTAAGACCATGTCTGGGACATGGCATCG
1 G-GCTAGTGTAAGACCATGTTTGGGACATGGCATCG
80826882 ATATTTTACC
Statistics
Matches: 215, Mismatches: 50, Indels: 21
0.75 0.17 0.07
Matches are distributed among these distances:
46 10 0.05
47 3 0.01
48 158 0.73
49 8 0.04
50 36 0.17
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (49 bp):
GGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCAATATATGA
Found at i:80826728 original size:96 final size:96
Alignment explanation
Indices: 80826558--80826882 Score: 456
Period size: 96 Copynumber: 3.4 Consensus size: 96
80826548 TTATTTGTGG
* * * *
80826558 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATATGAG-TCAGTGTAAGATCAT
1 GCTAATGTAAGACCATGTCTGGGACATGGCATCGACCTCAATATGTGAGCT-AGTGTAAGACCAT
*
80826622 GTTTGAAACATGGCATCGGCATTGTTATGAGA
65 GTTTGGAACATGGCATCGGCATTGTTATGAGA
** *
80826654 GCTAATGTAAGACCATGTCTATGACATGGCATCGACCTCAATATGTGAGCTAGTGTAAGACCACG
1 GCTAATGTAAGACCATGTCTGGGACATGGCATCGACCTCAATATGTGAGCTAGTGTAAGACCATG
80826719 TTTGGAACATGGCATCGGCATTGTTATGAGA
66 TTTGGAACATGGCATCGGCATTGTTATGAGA
* * *
80826750 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTAAGAC-AGTGTAAGACCAT
1 GCTAATGTAAGACCATGTCTGGGACATGGCATCGACCTCAATATGTGAG-CTAGTGTAAGACCAT
* * * *
80826814 GTTTGGGACCTGGCATCGGCACTGATACATGAGA
65 GTTTGGAACATGGCATCGGCATTG-T-TATGAGA
*
80826848 GCCAATGTAAGACCATGTCTGGGACATGGCATCGA
1 GCTAATGTAAGACCATGTCTGGGACATGGCATCGA
80826883 TATTTTACCC
Statistics
Matches: 204, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
96 163 0.80
97 3 0.01
98 38 0.19
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (96 bp):
GCTAATGTAAGACCATGTCTGGGACATGGCATCGACCTCAATATGTGAGCTAGTGTAAGACCATG
TTTGGAACATGGCATCGGCATTGTTATGAGA
Found at i:80830878 original size:39 final size:39
Alignment explanation
Indices: 80830835--80830978 Score: 200
Period size: 39 Copynumber: 3.7 Consensus size: 39
80830825 ACCAACTCGA
* * * * *
80830835 AGCCTGCGAGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGCG-GACCTTAAGTCCGGATATAATTCCAGCACAT
*
80830874 AGCCTGCGGATCTTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
80830913 AGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
80830952 AGCCTGCGGACCCTAAGTCCGGATATA
1 AGCCTGCGGACCTTAAGTCCGGATATA
80830979 CATCACTGAA
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
38 2 0.02
39 95 0.98
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:80830901 original size:78 final size:78
Alignment explanation
Indices: 80830815--80830978 Score: 190
Period size: 78 Copynumber: 2.1 Consensus size: 78
80830805 GAATTTAAAC
* * * * *
80830815 CCGG-TATAATACCAACTCGA-AGCCTGCGAGA-CTTTAGCCCGGACATATTTCCAGCACGTAGC
1 CCGGATATAATACCAACAC-ATAGCCTGCG-GACCCTAAGCCCGGACATAATTCCAGCACATAGC
* *
80830877 CTGCGGATCTTAAGT
64 CTGCGGACCCTAAGT
* * * *
80830892 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCT
1 CCGGATATAATACCAACACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
80830957 GCGGACCCTAAGT
66 GCGGACCCTAAGT
80830970 CCGGATATA
1 CCGGATATA
80830979 CATCACTGAA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 7 0.10
78 66 0.90
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (78 bp):
CCGGATATAATACCAACACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCT
GCGGACCCTAAGT
Found at i:80838858 original size:39 final size:39
Alignment explanation
Indices: 80838738--80838863 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
80838728 AGACTTTAGC
* * * * *
80838738 CCGGACATATTTCCAGCACGTAGTCTGCGGACCTTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
**
80838777 CCAAATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
*
80838816 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAATT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
80838855 CCGGATATA
1 CCGGATATA
80838864 CATCACTGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGT
Found at i:80857817 original size:30 final size:30
Alignment explanation
Indices: 80857783--80857843 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
80857773 TTCCCGAGCC
80857783 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
80857813 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
80857843 T
1 T
80857844 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:80862678 original size:33 final size:33
Alignment explanation
Indices: 80862641--80862716 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
80862631 CAATCCCTCA
*
80862641 AACACACCGATACTCATAAGAGCTAA-TCCAACC
1 AACACACCAATACTCATAAGAGCTAACT-CAACC
** * * *
80862674 AACACATTAATGCTCATGAGAGTTAACTCAACC
1 AACACACCAATACTCATAAGAGCTAACTCAACC
80862707 AACACACCAA
1 AACACACCAA
80862717 ATGGAGTGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.43, C:0.30, G:0.09, T:0.17
Consensus pattern (33 bp):
AACACACCAATACTCATAAGAGCTAACTCAACC
Found at i:80870190 original size:27 final size:26
Alignment explanation
Indices: 80870142--80870272 Score: 131
Period size: 27 Copynumber: 4.9 Consensus size: 26
80870132 GCGAGGCTGC
* *
80870142 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
80870168 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
*
80870195 CAGATAATTGTGGCATAGCCACCATGA-
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
** *
80870222 CAGATATATGTGGCAGATACATCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
80870249 CAGATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
80870273 AGACGCTTCC
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
26 9 0.10
27 73 0.84
28 5 0.06
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:80870234 original size:54 final size:53
Alignment explanation
Indices: 80870168--80870272 Score: 174
Period size: 54 Copynumber: 2.0 Consensus size: 53
80870158 GTCACCAGAT
*
80870168 ACAGATATTGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCATG
1 ACAGATATTGTGGCAGAGACACCAGATCAGATAATTGTGGCATAGCCACCATG
* *
80870221 ACAGATATATGTGGCAGATACATCAGATCAGATAATTGTGGCATAGCCACCA
1 ACAGATAT-TGTGGCAGAGACACCAGATCAGATAATTGTGGCATAGCCACCA
80870273 AGACGCTTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 8 0.17
54 40 0.83
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (53 bp):
ACAGATATTGTGGCAGAGACACCAGATCAGATAATTGTGGCATAGCCACCATG
Found at i:80870416 original size:75 final size:75
Alignment explanation
Indices: 80870293--80870444 Score: 295
Period size: 75 Copynumber: 2.0 Consensus size: 75
80870283 TCCATAATAT
*
80870293 AACCCATGTCCCCATGCAACAGATATATAATCATGGCATACATCATACAGAATCAGATCGTCATG
1 AACCCATGTCCCCATGCAACAGATATATAATCATGGCATACATCATACAAAATCAGATCGTCATG
80870358 CTTTTCAGTC
66 CTTTTCAGTC
80870368 AACCCATGTCCCCATGCAACAGATATATAATCATGGCATACATCATACAAAATCAGATCGTCATG
1 AACCCATGTCCCCATGCAACAGATATATAATCATGGCATACATCATACAAAATCAGATCGTCATG
80870433 CTTTTCAGTC
66 CTTTTCAGTC
80870443 AA
1 AA
80870445 AATTAACCCT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.26
Consensus pattern (75 bp):
AACCCATGTCCCCATGCAACAGATATATAATCATGGCATACATCATACAAAATCAGATCGTCATG
CTTTTCAGTC
Found at i:80872001 original size:26 final size:26
Alignment explanation
Indices: 80871970--80872051 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
80871960 TGAAATGCCC
80871970 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
80871996 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
80872022 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
80872048 ATCA
1 ATCA
80872052 ATTTGTACCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:80874537 original size:36 final size:36
Alignment explanation
Indices: 80874490--80874567 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
80874480 TTCCACAGTT
* *
80874490 TTGTTGTTATTT-CATTATTATATTGC-TACTCTTTTA
1 TTGTTATTATTTGCA-TATTATATAGCTTA-TCTTTTA
* *
80874526 TTGTTATTATTTGGATATTATATAGCTTATGTTTTA
1 TTGTTATTATTTGCATATTATATAGCTTATCTTTTA
80874562 TTGTTA
1 TTGTTA
80874568 ATGTTGCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
36 33 0.92
37 3 0.08
ACGTcount: A:0.22, C:0.06, G:0.12, T:0.60
Consensus pattern (36 bp):
TTGTTATTATTTGCATATTATATAGCTTATCTTTTA
Found at i:80879671 original size:35 final size:35
Alignment explanation
Indices: 80879625--80879692 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
80879615 TTTGGGTTTT
80879625 TTACTTATATAATATAAAATAAATAAATAAAAATA
1 TTACTTATATAATATAAAATAAATAAATAAAAATA
80879660 TTACTTATATAATATAAAATAAATAAATAAAAA
1 TTACTTATATAATATAAAATAAATAAATAAAAA
80879693 ATACAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (35 bp):
TTACTTATATAATATAAAATAAATAAATAAAAATA
Found at i:80879702 original size:15 final size:15
Alignment explanation
Indices: 80879635--80879695 Score: 50
Period size: 15 Copynumber: 3.7 Consensus size: 15
80879625 TTACTTATAT
*
80879635 AATATAAAATAAATA
1 AATAAAAAATAAATA
*
80879650 AATAAAAATATTACTTATA
1 AATAAAAA-A-TA--AATA
*
80879669 TAATATAAAATAAATA
1 -AATAAAAAATAAATA
80879685 AATAAAAAATA
1 AATAAAAAATA
80879696 CAAAAATGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
15 17 0.47
16 4 0.11
17 2 0.06
18 2 0.06
19 4 0.11
20 7 0.19
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
AATAAAAAATAAATA
Found at i:80882279 original size:37 final size:39
Alignment explanation
Indices: 80882225--80882329 Score: 115
Period size: 37 Copynumber: 2.7 Consensus size: 39
80882215 TTCAAAAAAA
**
80882225 TAAAGTTGACACCCAGTGTCTCATCGGCTA-AACCGAAG
1 TAAAGTTGACACCCAGTGTCTCATCGAATATAACCGAAG
* * *
80882263 TAAA-TTGACACCCAGTGCCTCATTGAATATATCCGAAG
1 TAAAGTTGACACCCAGTGTCTCATCGAATATAACCGAAG
* *
80882301 TAATTATTTGACACCCAGTGTTTCATCGA
1 TAA--AGTTGACACCCAGTGTCTCATCGA
80882330 CTTGAAGTCG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
37 21 0.38
38 14 0.25
40 1 0.02
41 19 0.35
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (39 bp):
TAAAGTTGACACCCAGTGTCTCATCGAATATAACCGAAG
Found at i:80882478 original size:11 final size:11
Alignment explanation
Indices: 80882462--80882510 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
80882452 ATTTAAATAA
80882462 TCAATATATAT
1 TCAATATATAT
80882473 TCAATATATAT
1 TCAATATATAT
80882484 ATCAAT-TCA-A-
1 -TCAATAT-ATAT
*
80882494 TCAATATAAAT
1 TCAATATATAT
80882505 TCAATA
1 TCAATA
80882511 AATTCATCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
9 6 0.18
10 2 0.06
11 19 0.58
12 6 0.18
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (11 bp):
TCAATATATAT
Found at i:80882483 original size:13 final size:12
Alignment explanation
Indices: 80882461--80882489 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
80882451 AATTTAAATA
80882461 ATCAATATATAT
1 ATCAATATATAT
80882473 -TCAATATATAT
1 ATCAATATATAT
80882484 ATCAAT
1 ATCAAT
80882490 TCAATCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (12 bp):
ATCAATATATAT
Found at i:80882491 original size:17 final size:14
Alignment explanation
Indices: 80882464--80882511 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
80882454 TTAAATAATC
*
80882464 AATATATATTCAAT
1 AATATAAATTCAAT
80882478 ATATATATCAATTCAAT
1 A-ATATA--AATTCAAT
80882495 CAATATAAATTCAAT
1 -AATATAAATTCAAT
80882510 AA
1 AA
80882512 ATTCATCACA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 3 0.10
15 13 0.45
17 12 0.41
18 1 0.03
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATAAATTCAAT
Found at i:80882532 original size:24 final size:24
Alignment explanation
Indices: 80882487--80882533 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
80882477 TATATATATC
80882487 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
80882511 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
80882534 TCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:80883310 original size:15 final size:15
Alignment explanation
Indices: 80883290--80883366 Score: 53
Period size: 15 Copynumber: 5.5 Consensus size: 15
80883280 TTAATTGTTT
80883290 TATTATTAT-ATAATA
1 TATTATTATAAT-ATA
80883305 TATTATTATAATATA
1 TATTATTATAATATA
*
80883320 TA-T-TTA-AATGT-
1 TATTATTATAATATA
*
80883331 TA--AGTA-AATATA
1 TATTATTATAATATA
*
80883343 TTTTATTATAATATA
1 TATTATTATAATATA
80883358 TATATATTA
1 TAT-TATTA
80883367 AATTTTACAT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
11 8 0.16
12 5 0.10
13 3 0.06
14 4 0.08
15 22 0.45
16 7 0.14
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
TATTATTATAATATA
Found at i:80898731 original size:20 final size:21
Alignment explanation
Indices: 80898691--80898731 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
80898681 ACTTGTATAA
*
80898691 CTATAATCAAACATTCAAAAT
1 CTATAATCAAACATCCAAAAT
*
80898712 CTATCATCAAACA-CCAAAAT
1 CTATAATCAAACATCCAAAAT
80898732 ACTCATGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (21 bp):
CTATAATCAAACATCCAAAAT
Found at i:80902946 original size:10 final size:10
Alignment explanation
Indices: 80902880--80902996 Score: 84
Period size: 10 Copynumber: 11.7 Consensus size: 10
80902870 TCATGACTTT
80902880 TTAAATAATTA
1 TTAAA-AATTA
*
80902891 TAAAATAATTA
1 TTAAA-AATTA
80902902 TATAAAAA-TA
1 T-TAAAAATTA
*
80902912 ATATAAAA-TA
1 TTA-AAAATTA
80902922 TGTAAAAA-TA
1 T-TAAAAATTA
80902932 TTTAAAAATTA
1 -TTAAAAATTA
*
80902943 TT-AAGATTA
1 TTAAAAATTA
*
80902952 -TAAAAATAA
1 TTAAAAATTA
*
80902961 TTAAAAAATA
1 TTAAAAATTA
*
80902971 TT-AAATTTA
1 TTAAAAATTA
80902980 TTAAAAATTA
1 TTAAAAATTA
80902990 TTAAAAA
1 TTAAAAA
80902997 AAAGTCCCAA
Statistics
Matches: 86, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
8 1 0.01
9 20 0.23
10 44 0.51
11 18 0.21
12 3 0.03
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:80902955 original size:28 final size:29
Alignment explanation
Indices: 80902924--80902998 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
80902914 ATAAAATATG
*
80902924 TAAAAATATTTAAAAATTATTAAGA-TTA-
1 TAAAAATATTTAAAAAATATTAA-ATTTAT
*
80902952 TAAAAATAATTAAAAAATATTAAATTTAT
1 TAAAAATATTTAAAAAATATTAAATTTAT
*
80902981 TAAAAATTATTAAAAAAA
1 TAAAAA-TATTTAAAAAA
80902999 AGTCCCAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
27 1 0.03
28 24 0.60
29 6 0.15
30 9 0.22
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (29 bp):
TAAAAATATTTAAAAAATATTAAATTTAT
Found at i:80903122 original size:10 final size:10
Alignment explanation
Indices: 80903069--80903161 Score: 55
Period size: 10 Copynumber: 9.2 Consensus size: 10
80903059 GGTTTTTAAT
*
80903069 AATTATTAAAC
1 AATTA-TAAAA
80903080 AATTATAAAA
1 AATTATAAAA
* **
80903090 GA-TATTTAA
1 AATTATAAAA
* * *
80903099 TATTATTAAT
1 AATTATAAAA
80903109 AATTATAAAA
1 AATTATAAAA
80903119 AATTATAAAAA
1 AATTAT-AAAA
80903130 AATT-TATAAA
1 AATTATA-AAA
* *
80903140 AAGTATTAAA
1 AATTATAAAA
*
80903150 AATAATAAAA
1 AATTATAAAA
80903160 AA
1 AA
80903162 GTAAAACATA
Statistics
Matches: 63, Mismatches: 15, Indels: 9
0.72 0.17 0.10
Matches are distributed among these distances:
9 7 0.11
10 42 0.67
11 14 0.22
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (10 bp):
AATTATAAAA
Found at i:80903430 original size:20 final size:20
Alignment explanation
Indices: 80903407--80903487 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
80903397 TACTATGTTT
80903407 TTATAAATTTTAATAATTTA
1 TTATAAATTTTAATAATTTA
80903427 TTAT-AATTATTAATAATTTA
1 TTATAAATT-TTAATAATTTA
* *
80903447 --A-ATATTTTTATAATTTA
1 TTATAAATTTTAATAATTTA
*
80903464 CTTTATAAATTCTAATAA-TTA
1 --TTATAAATTTTAATAATTTA
80903485 TTA
1 TTA
80903488 AAACTATGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
17 10 0.20
18 4 0.08
19 7 0.14
20 15 0.31
21 4 0.08
22 9 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATAAATTTTAATAATTTA
Found at i:80903600 original size:20 final size:19
Alignment explanation
Indices: 80903575--80903668 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 19
80903565 TTTGGACGTG
80903575 AATTTTAATAATTATTAAAT
1 AATTTTAATAATT-TTAAAT
* *
80903595 AATTTT-ATCATTTTTTAAT
1 AATTTTAAT-AATTTTAAAT
** *
80903614 AAACTTAAT-ATTTT-TAT
1 AATTTTAATAATTTTAAAT
80903631 AATTATTAATCAATTTTAAAT
1 AATT-TTAAT-AATTTTAAAT
80903652 AATTTTATATATATTTT
1 AATTTTA-ATA-ATTTT
80903669 TGTAATTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
17 4 0.07
18 9 0.16
19 11 0.19
20 20 0.35
21 13 0.23
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
AATTTTAATAATTTTAAAT
Found at i:80903678 original size:21 final size:21
Alignment explanation
Indices: 80903650--80903696 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
80903640 TCAATTTTAA
80903650 ATAA-TTTTATATATATT-TTT
1 ATAATTTTTATATA-ATTCTTT
* *
80903670 GTAATTTTTCTATAATTCTTT
1 ATAATTTTTATATAATTCTTT
80903691 ATAATT
1 ATAATT
80903697 ATCTAAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (21 bp):
ATAATTTTTATATAATTCTTT
Found at i:80903693 original size:10 final size:10
Alignment explanation
Indices: 80903575--80903696 Score: 55
Period size: 10 Copynumber: 12.4 Consensus size: 10
80903565 TTTGGACGTG
80903575 AATTTTA-AT
1 AATTTTATAT
*
80903584 AATTATTAAAT
1 AATT-TTATAT
80903595 AATTTTATCAT
1 AATTTTAT-AT
*
80903606 -TTTTTA-AT
1 AATTTTATAT
**
80903614 AAACTTA-AT
1 AATTTTATAT
80903623 -ATTTT-TAT
1 AATTTTATAT
80903631 AATTATTA-AT
1 AATT-TTATAT
*
80903641 CAATTTTAAAT
1 -AATTTTATAT
80903652 AATTTTATAT
1 AATTTTATAT
*
80903662 ATATTTT-TGT
1 A-ATTTTATAT
*
80903672 AATTTTTCTAT
1 AA-TTTTATAT
80903683 AATTCTT-TAT
1 AATT-TTATAT
80903693 AATT
1 AATT
80903697 ATCTAAACAA
Statistics
Matches: 89, Mismatches: 10, Indels: 27
0.71 0.08 0.21
Matches are distributed among these distances:
8 7 0.08
9 13 0.15
10 44 0.49
11 25 0.28
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.57
Consensus pattern (10 bp):
AATTTTATAT
Found at i:80904826 original size:25 final size:25
Alignment explanation
Indices: 80904764--80904815 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
80904754 AAAAAGTCTA
*
80904764 AAGTATTAGTTTTCACATTTTAAGG
1 AAGTATTAATTTTCACATTTTAAGG
80904789 AAGTATTAATTTTCACATTTTAAGG
1 AAGTATTAATTTTCACATTTTAAGG
80904814 AA
1 AA
80904816 TTCTAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.42
Consensus pattern (25 bp):
AAGTATTAATTTTCACATTTTAAGG
Found at i:80905543 original size:21 final size:20
Alignment explanation
Indices: 80905517--80905576 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
80905507 TTTAGATAAT
80905517 TATAAAAATTATAAAAAAACA
1 TATAAAAATTATAAAAAAA-A
* *
80905538 TATAAAAATAATTTAAAAATAA
1 TATAAAAAT--TATAAAAAAAA
*
80905560 T-TAAGAATTATAAAAAA
1 TATAAAAATTATAAAAAA
80905577 TTATTAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 7 0.22
21 15 0.47
22 2 0.06
23 8 0.25
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (20 bp):
TATAAAAATTATAAAAAAAA
Found at i:80905577 original size:20 final size:19
Alignment explanation
Indices: 80905521--80905588 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 19
80905511 GATAATTATA
80905521 AAAATTATAAAAAA-ACATAT
1 AAAATTATAAAAAATA-AT-T
* *
80905541 AAAAATAATTTAAAAATAATT
1 -AAAATTA-TAAAAAATAATT
*
80905562 AAGAATTATAAAAAATTATT
1 AA-AATTATAAAAAATAATT
80905582 AAAATTA
1 AAAATTA
80905589 AAATTTATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
19 5 0.13
20 14 0.36
21 11 0.28
22 8 0.21
23 1 0.03
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (19 bp):
AAAATTATAAAAAATAATT
Found at i:80911438 original size:29 final size:29
Alignment explanation
Indices: 80911379--80911439 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
80911369 GTTATAAAAT
* * * *
80911379 AAATTATGAATATTATTTTAAATTATTAA
1 AAATTATAAATATTATTTAAAAATATAAA
80911408 AAATTATAAGATATTA-TTAAAAATATAAA
1 AAATTATAA-ATATTATTTAAAAATATAAA
80911437 AAA
1 AAA
80911440 AGAGAGATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 21 0.78
30 6 0.22
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
AAATTATAAATATTATTTAAAAATATAAA
Found at i:80911440 original size:30 final size:29
Alignment explanation
Indices: 80911371--80911440 Score: 70
Period size: 30 Copynumber: 2.3 Consensus size: 29
80911361 AAAAAAAAGT
* **
80911371 TATAAAATAAATTATGAATATTATTTTAAA
1 TATAAAA-AAATTATAAATATTATTAAAAA
*
80911401 T-TATTAAAAATTATAAGATATTATTAAAAA
1 TATA-AAAAAATTATAA-ATATTATTAAAAA
80911431 TATAAAAAAA
1 TATAAAAAAA
80911441 GAGAGATTGT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
29 10 0.31
30 20 0.62
31 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (29 bp):
TATAAAAAAATTATAAATATTATTAAAAA
Found at i:80911811 original size:76 final size:76
Alignment explanation
Indices: 80911681--80911833 Score: 279
Period size: 76 Copynumber: 2.0 Consensus size: 76
80911671 GAAAAGACAC
* * *
80911681 AAAGGATACGAATTCATAATATTTTTTTGGATGATACAACCAATAGCTTTGTGTCTCTTTTGTAC
1 AAAGGATACGAATTCATAATATTTTTTTAGACGATACAACCAATAGCTTCGTGTCTCTTTTGTAC
80911746 TAGTATTAATT
66 TAGTATTAATT
80911757 AAAGGATACGAATTCATAATATTTTTTTAGACGATACAACCAATAGCTTCGTGTCTCTTTTGTAC
1 AAAGGATACGAATTCATAATATTTTTTTAGACGATACAACCAATAGCTTCGTGTCTCTTTTGTAC
80911822 TAGTATTAATT
66 TAGTATTAATT
80911833 A
1 A
80911834 GTTCCCAATA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.41
Consensus pattern (76 bp):
AAAGGATACGAATTCATAATATTTTTTTAGACGATACAACCAATAGCTTCGTGTCTCTTTTGTAC
TAGTATTAATT
Found at i:80912589 original size:5 final size:5
Alignment explanation
Indices: 80912579--80912610 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
80912569 TAATGAAGTT
80912579 AATAA AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AATAA AA
80912611 CAAATTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:80913752 original size:14 final size:14
Alignment explanation
Indices: 80913733--80913780 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
80913723 GTTTGTTAAC
80913733 TATTGTAAGCTACA
1 TATTGTAAGCTACA
** *
80913747 TATTGTTTGTTA-A
1 TATTGTAAGCTACA
80913760 CTATTGTAAGCTACA
1 -TATTGTAAGCTACA
80913775 TATTGT
1 TATTGT
80913781 TGTATTCAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
13 1 0.04
14 24 0.92
15 1 0.04
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (14 bp):
TATTGTAAGCTACA
Found at i:80913755 original size:28 final size:28
Alignment explanation
Indices: 80913723--80913781 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
80913713 AATTTGAAAG
80913723 GTTTGTTAACTATTGTAAGCTACATATT
1 GTTTGTTAACTATTGTAAGCTACATATT
80913751 GTTTGTTAACTATTGTAAGCTACATATT
1 GTTTGTTAACTATTGTAAGCTACATATT
80913779 GTT
1 GTT
80913782 GTATTCAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.47
Consensus pattern (28 bp):
GTTTGTTAACTATTGTAAGCTACATATT
Found at i:80918652 original size:20 final size:21
Alignment explanation
Indices: 80918629--80918675 Score: 51
Period size: 23 Copynumber: 2.2 Consensus size: 21
80918619 TTATAATTAT
*
80918629 TAATAATTT-TAATTTTTTTA
1 TAATAATTTATAATTTTTTAA
*
80918649 TAATTTATTTTATAATTTTTTAA
1 TAA--TAATTTATAATTTTTTAA
80918672 TAAT
1 TAAT
80918676 TATTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
20 3 0.14
21 1 0.05
22 5 0.23
23 13 0.59
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TAATAATTTATAATTTTTTAA
Found at i:80918661 original size:12 final size:11
Alignment explanation
Indices: 80918638--80918676 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
80918628 TTAATAATTT
80918638 TAATTTTTTTA
1 TAATTTTTTTA
80918649 TAATTTATTTTA
1 TAATTT-TTTTA
*
80918661 TAATTTTTTAA
1 TAATTTTTTTA
80918672 TAATT
1 TAATT
80918677 ATTAAAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TAATTTTTTTA
Found at i:80922182 original size:9 final size:9
Alignment explanation
Indices: 80922166--80922208 Score: 77
Period size: 9 Copynumber: 4.8 Consensus size: 9
80922156 GGTATTTTTC
80922166 GGTAATTCG
1 GGTAATTCG
*
80922175 GTTAATTCG
1 GGTAATTCG
80922184 GGTAATTCG
1 GGTAATTCG
80922193 GGTAATTCG
1 GGTAATTCG
80922202 GGTAATT
1 GGTAATT
80922209 TTTAACCAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.37
Consensus pattern (9 bp):
GGTAATTCG
Found at i:80931424 original size:17 final size:17
Alignment explanation
Indices: 80931402--80931462 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
80931392 ATTGAATCAC
80931402 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
80931419 TACATAAGCCTTTGAATCAC
1 TACATAA---TTAAAAACAT
*
80931439 TACATAATTAAAAACTT
1 TACATAATTAAAAACAT
80931456 TACATAA
1 TACATAA
80931463 GTCTTGAAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 19 0.59
20 13 0.41
ACGTcount: A:0.49, C:0.16, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:80931443 original size:37 final size:37
Alignment explanation
Indices: 80931393--80931463 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
80931383 TGATTAAATA
80931393 TTGAATCACTACATAATTAAAAACATTACATAAGCCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGCCT
*
80931430 TTGAATCACTACATAATTAAAAACTTTACATAAG
1 TTGAATCACTACATAATTAAAAACATTACATAAG
80931464 TCTTGAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGCCT
Found at i:80935611 original size:23 final size:23
Alignment explanation
Indices: 80935581--80935630 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
80935571 CTATATGGGA
*
80935581 TTACAAAATGAGTTTTCGTAAAC
1 TTACAAAATGAGTTTTCATAAAC
80935604 TTACAAAATGAGTTTTCATAAAC
1 TTACAAAATGAGTTTTCATAAAC
80935627 TTAC
1 TTAC
80935631 CCTTTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (23 bp):
TTACAAAATGAGTTTTCATAAAC
Found at i:80953955 original size:28 final size:28
Alignment explanation
Indices: 80953914--80954068 Score: 165
Period size: 28 Copynumber: 5.6 Consensus size: 28
80953904 AAAAATTTTC
80953914 TCGCACACTTAGTGCTCAATAACCGATT
1 TCGCACACTTAGTGCTCAATAACCGATT
* * *
80953942 TCACACACTTAGTGCTCGGAA-ATCCAATT
1 TCGCACACTTAGTGCTC--AATAACCGATT
* * * * *
80953971 T-GCACACTTAATGTTTAA-AACCAACT
1 TCGCACACTTAGTGCTCAATAACCGATT
* *
80953997 T-GCACACTCAGTGCTCAATGACCGATT
1 TCGCACACTTAGTGCTCAATAACCGATT
*
80954024 TCGCACACTTAGTGCTCAATGACCGATT
1 TCGCACACTTAGTGCTCAATAACCGATT
80954052 TCGCACACTTAGTGCTC
1 TCGCACACTTAGTGCTC
80954069 GGTATCAAAT
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
26 22 0.21
27 6 0.06
28 69 0.65
29 7 0.07
30 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (28 bp):
TCGCACACTTAGTGCTCAATAACCGATT
Found at i:80970453 original size:18 final size:18
Alignment explanation
Indices: 80970430--80970466 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
80970420 CATGCAAACG
80970430 TATAAAAACAAAAAATAA
1 TATAAAAACAAAAAATAA
* *
80970448 TATAAAAATAACAAATAA
1 TATAAAAACAAAAAATAA
80970466 T
1 T
80970467 TTACGAGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (18 bp):
TATAAAAACAAAAAATAA
Found at i:80970855 original size:11 final size:12
Alignment explanation
Indices: 80970834--80970885 Score: 58
Period size: 11 Copynumber: 4.6 Consensus size: 12
80970824 ATAAATAGTT
*
80970834 TATAATAAAATGA
1 TATAAT-AAATAA
80970847 TAT-ATAAATAA
1 TATAATAAATAA
80970858 TATAATAAA-AA
1 TATAATAAATAA
80970869 -ATAA-AAATAA
1 TATAATAAATAA
80970879 TATAATA
1 TATAATA
80970886 TGTAATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
9 3 0.09
10 6 0.18
11 14 0.41
12 8 0.24
13 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
TATAATAAATAA
Found at i:80970876 original size:21 final size:23
Alignment explanation
Indices: 80970834--80970885 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
80970824 ATAAATAGTT
*
80970834 TATAATAAAATGATATATAAATAA
1 TATAATAAAA-GATATAAAAATAA
80970858 TATAATAAAA-A-ATAAAAATAA
1 TATAATAAAAGATATAAAAATAA
80970879 TATAATA
1 TATAATA
80970886 TGTAATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 16 0.59
22 1 0.04
24 10 0.37
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
TATAATAAAAGATATAAAAATAA
Found at i:80972150 original size:15 final size:16
Alignment explanation
Indices: 80972130--80972159 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
80972120 TGTAAAGGAC
80972130 TTTTTA-TTATTTTTG
1 TTTTTATTTATTTTTG
80972145 TTTTTATTTATTTTT
1 TTTTTATTTATTTTT
80972160 CTATTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTTTATTTATTTTTG
Found at i:80972166 original size:17 final size:16
Alignment explanation
Indices: 80972129--80972178 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
80972119 CTGTAAAGGA
80972129 CTTTTTA-TTATTTTT
1 CTTTTTATTTATTTTT
*
80972144 GTTTTTATTTATTTTT
1 CTTTTTATTTATTTTT
* *
80972160 CTATTTTTTTTCTTTTT
1 CT-TTTTATTTATTTTT
80972177 CT
1 CT
80972179 GGGCCGGGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 6 0.21
16 9 0.31
17 14 0.48
ACGTcount: A:0.10, C:0.08, G:0.02, T:0.80
Consensus pattern (16 bp):
CTTTTTATTTATTTTT
Found at i:80975494 original size:43 final size:43
Alignment explanation
Indices: 80975415--80975531 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
80975405 TAAGCTCGTA
* **
80975415 CAATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAA-ATAT
1 CAATGCCATTGTCCCAGACAG-GGTCTTACACATAATCAATA-AT
**
80975458 CAATGCCATTGTCCCAGACAGGGTCTTACACATAATCTCTAAT
1 CAATGCCATTGTCCCAGACAGGGTCTTACACATAATCAATAAT
* *
80975501 CGATGCCAGTT-TCCCAGACACGGTCTTACAC
1 CAATGCCA-TTGTCCCAGACAGGGTCTTACAC
80975532 GATATCTCAA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
43 60 0.94
44 4 0.06
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (43 bp):
CAATGCCATTGTCCCAGACAGGGTCTTACACATAATCAATAAT
Found at i:80975539 original size:43 final size:43
Alignment explanation
Indices: 80975460--80975551 Score: 127
Period size: 43 Copynumber: 2.1 Consensus size: 43
80975450 TCAAATATCA
*
80975460 ATGCCATTGTCCCAGACAGGGTCTTACACATAATCTCTAA-TCG
1 ATGCCATTGTCCCAGACACGGTCTTACACATAATCTC-AAGTCG
80975503 ATGCCAGTT-TCCCAGACACGGTCTTACACGAT-ATCTCAAGTCG
1 ATGCCA-TTGTCCCAGACACGGTCTTACAC-ATAATCTCAAGTCG
80975546 ATGCCA
1 ATGCCA
80975552 AATCCCAGGC
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
42 2 0.04
43 39 0.87
44 4 0.09
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCATTGTCCCAGACACGGTCTTACACATAATCTCAAGTCG
Found at i:80976196 original size:15 final size:15
Alignment explanation
Indices: 80976173--80976212 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
80976163 ATTCAAATAA
* *
80976173 AAAATATATTAACCC
1 AAAACATATCAACCC
80976188 AAAACATATCAACCC
1 AAAACATATCAACCC
80976203 AAAACATATC
1 AAAACATATC
80976213 TTTCATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAACATATCAACCC
Found at i:80978107 original size:42 final size:42
Alignment explanation
Indices: 80978048--80978132 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
80978038 TCACTGATCG
80978048 ACTAGTAGAGATGGGACCATACTGAATCCCAGATTTTTGCCA
1 ACTAGTAGAGATGGGACCATACTGAATCCCAGATTTTTGCCA
*
80978090 ACTAGTAGAGATGGGACCATAGTGAATCCCAGATTTTTGCCA
1 ACTAGTAGAGATGGGACCATACTGAATCCCAGATTTTTGCCA
80978132 A
1 A
80978133 TGAACACTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (42 bp):
ACTAGTAGAGATGGGACCATACTGAATCCCAGATTTTTGCCA
Found at i:80978429 original size:24 final size:24
Alignment explanation
Indices: 80978390--80978438 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
80978380 TTTGAAGGAA
*
80978390 TTATTTTTGATACTAATAAATAAG
1 TTATTTTTAATACTAATAAATAAG
*
80978414 TTATTTTTAATTCTAATAAATAAG
1 TTATTTTTAATACTAATAAATAAG
80978438 T
1 T
80978439 CAAAAGCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (24 bp):
TTATTTTTAATACTAATAAATAAG
Found at i:80988066 original size:40 final size:40
Alignment explanation
Indices: 80988029--80988214 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
80988019 GCTACTCGTT
* *
80988029 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
80988069 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
80988109 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
80988149 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
80988190 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
80988215 CATCATTCAA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:80992862 original size:30 final size:30
Alignment explanation
Indices: 80992816--80992873 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
80992806 TAGGCACTTC
* * *
80992816 CACAAGGGTAATCCACACGTCCGTGTGTGA
1 CACAAGGGTAAGCCACACGCCCATGTGTGA
*
80992846 CACACGGGTAAGCCACACGCCCATGTGT
1 CACAAGGGTAAGCCACACGCCCATGTGT
80992874 CATGGCCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (30 bp):
CACAAGGGTAAGCCACACGCCCATGTGTGA
Found at i:80997017 original size:43 final size:43
Alignment explanation
Indices: 80996921--80997088 Score: 162
Period size: 43 Copynumber: 3.9 Consensus size: 43
80996911 TTTATTTGAA
* **
80996921 AAAACGCCGCTAAAGATCATGACATTT-ACGGTACTTTTTCC-AC
1 AAAA-GCCGCTAAAGATCATGACCTTTAACGGCGC-TTTTCCTAC
*
80996964 AAACGCCGCTAAAGATCATGACCTTTAACGGCGCTTTTCCTAC
1 AAAAGCCGCTAAAGATCATGACCTTTAACGGCGCTTTTCCTAC
* * * * *
80997007 AAAAGACGCTAAAGATCATGACCTTCAGCGACGCTTTTTCTAC
1 AAAAGCCGCTAAAGATCATGACCTTTAACGGCGCTTTTCCTAC
* ** * *
80997050 AAACA-CCGCTAAAAATCACAACCTTTAGCAGCGCTTTTC
1 AAA-AGCCGCTAAAGATCATGACCTTTAACGGCGCTTTTC
80997089 TCAAAAACAC
Statistics
Matches: 104, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 27 0.26
43 76 0.73
44 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (43 bp):
AAAAGCCGCTAAAGATCATGACCTTTAACGGCGCTTTTCCTAC
Found at i:80997097 original size:43 final size:42
Alignment explanation
Indices: 80996920--80997113 Score: 146
Period size: 43 Copynumber: 4.5 Consensus size: 42
80996910 GTTTATTTGA
* * *
80996920 AAAAACGCCGCTAAAGATCATGACATTTA-CG-GTACTTTTTCC-
1 AAAAACACCGCTAAAAATCATGACCTTTAGCGCG--C-TTTTCCT
* * * *
80996962 ACAAACGCCGCTAAAGATCATGACCTTTAACGGCGCTTTTCCT
1 AAAAACACCGCTAAAAATCATGACCTTTAGC-GCGCTTTTCCT
* * * *
80997005 ACAAAAGA-CGCTAAAGATCATGACCTTCAGCGACGCTTTTTCT
1 A-AAAACACCGCTAAAAATCATGACCTTTAGCG-CGCTTTTCCT
* **
80997048 ACAAACACCGCTAAAAATCACAACCTTTAGCAGCGCTTTT-CT
1 AAAAACACCGCTAAAAATCATGACCTTTAGC-GCGCTTTTCCT
*
80997090 CAAAAACACCGCTAAAAGTCATGA
1 -AAAAACACCGCTAAAAATCATGA
80997114 AATTCAAAAA
Statistics
Matches: 125, Mismatches: 18, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
42 40 0.32
43 79 0.63
44 5 0.04
45 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (42 bp):
AAAAACACCGCTAAAAATCATGACCTTTAGCGCGCTTTTCCT
Found at i:80997103 original size:86 final size:85
Alignment explanation
Indices: 80996920--80997119 Score: 208
Period size: 86 Copynumber: 2.3 Consensus size: 85
80996910 GTTTATTTGA
* * ** * * **
80996920 AAAAACGCCGCTAAAGATCATGACATTTACGGTACTTTTTCCACAAACGCCGCTAAAGATCATGA
1 AAAAACACCGCTAAAGATCATGACATTCACGACACTTTTTCCACAAACACCGCTAAAAATCACAA
*
80996985 CCTTTAACGGCGCTTTTCCT
66 CCTTTAACAGCGCTTTTCCT
* * * *
80997005 ACAAAAGA-CGCTAAAGATCATGACCTTCAGCGACGCTTTTTCTACAAACACCGCTAAAAATCAC
1 A-AAAACACCGCTAAAGATCATGACATTCA-CGACACTTTTTCCACAAACACCGCTAAAAATCAC
*
80997069 AACCTTTAGCAGCGCTTTT-CT
64 AACCTTTAACAGCGCTTTTCCT
*
80997090 CAAAAACACCGCTAAA-AGTCATGAAATTCA
1 -AAAAACACCGCTAAAGA-TCATGACATTCA
80997120 AAAAAAATAT
Statistics
Matches: 93, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
85 28 0.30
86 65 0.70
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (85 bp):
AAAAACACCGCTAAAGATCATGACATTCACGACACTTTTTCCACAAACACCGCTAAAAATCACAA
CCTTTAACAGCGCTTTTCCT
Found at i:80997374 original size:19 final size:19
Alignment explanation
Indices: 80997352--80997391 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
80997342 ATTTAGAATC
80997352 AAAACTAAAATAAATAATA
1 AAAACTAAAATAAATAATA
* * *
80997371 AAAATTAGATTAAATAATA
1 AAAACTAAAATAAATAATA
80997390 AA
1 AA
80997392 TATAAATGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (19 bp):
AAAACTAAAATAAATAATA
Found at i:80997397 original size:32 final size:33
Alignment explanation
Indices: 80997318--80997398 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 33
80997308 TCAAGTTATC
*
80997318 TTAAATATTAAAATAAA-AATAAAAATTTAGAA
1 TTAAATAATAAAATAAATAATAAAAATTTAGAA
* *
80997350 TCAAA-ACTAAAATAAATAATAAAAA-TTAG-A
1 TTAAATAATAAAATAAATAATAAAAATTTAGAA
80997380 TTAAATAATAAATATAAAT
1 TTAAATAATAAA-ATAAAT
80997399 GAAATAAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
30 5 0.12
31 19 0.45
32 18 0.43
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (33 bp):
TTAAATAATAAAATAAATAATAAAAATTTAGAA
Found at i:80997405 original size:18 final size:18
Alignment explanation
Indices: 80997359--80997405 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
80997349 ATCAAAACTA
80997359 AAATAAATAATAAAAATT
1 AAATAAATAATAAAAATT
* *
80997377 AGATTAAATAATAAATA-T
1 A-AATAAATAATAAAAATT
80997395 AAATGAAATAA
1 AAAT-AAATAA
80997406 AGACTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 2 0.08
18 9 0.38
19 13 0.54
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (18 bp):
AAATAAATAATAAAAATT
Found at i:80999175 original size:9 final size:9
Alignment explanation
Indices: 80999161--80999188 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
80999151 ATGGCAATCA
80999161 AGCATCATC
1 AGCATCATC
80999170 AGCATCATC
1 AGCATCATC
80999179 AGCATCATC
1 AGCATCATC
80999188 A
1 A
80999189 TTTTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.32, G:0.11, T:0.21
Consensus pattern (9 bp):
AGCATCATC
Found at i:81001171 original size:9 final size:9
Alignment explanation
Indices: 81001136--81001172 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
81001126 TTTAATTTTA
*
81001136 ATTTTTTAT
1 ATTTTTTCT
81001145 ATTTTTTTCT
1 A-TTTTTTCT
81001155 ATTTTTTCT
1 ATTTTTTCT
81001164 ATTTTTTCT
1 ATTTTTTCT
81001173 TTTAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (9 bp):
ATTTTTTCT
Found at i:81001268 original size:7 final size:7
Alignment explanation
Indices: 81001256--81001290 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
81001246 ATATAGACTA
81001256 AAATATT
1 AAATATT
81001263 AAATATT
1 AAATATT
81001270 AAATATT
1 AAATATT
81001277 AAATATT
1 AAATATT
81001284 AAATATT
1 AAATATT
81001291 TAAGTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATATT
Found at i:81001321 original size:6 final size:7
Alignment explanation
Indices: 81001295--81001320 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
81001285 AATATTTAAG
81001295 TTTTTTA
1 TTTTTTA
81001302 TTTTTTA
1 TTTTTTA
81001309 TTTTTTA
1 TTTTTTA
81001316 TTTTT
1 TTTTT
81001321 AAATTTTAAA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:81001831 original size:24 final size:24
Alignment explanation
Indices: 81001803--81001851 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
81001793 CCAAAATAAC
81001803 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
81001827 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
81001851 A
1 A
81001852 TAAATATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:81001854 original size:11 final size:12
Alignment explanation
Indices: 81001810--81001855 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
81001800 AACAATTAAT
81001810 TTTTATATAAAC
1 TTTTATATAAAC
* * *
81001822 TTTTAAATTAAT
1 TTTTATATAAAC
81001834 TTTTATATAAAC
1 TTTTATATAAAC
81001846 TTTTA-ATAAA
1 TTTTATATAAA
81001856 TATATGAGTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
11 5 0.18
12 23 0.82
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTATATAAAC
Found at i:81002512 original size:41 final size:41
Alignment explanation
Indices: 81002467--81002603 Score: 177
Period size: 41 Copynumber: 3.3 Consensus size: 41
81002457 GTTTATAACT
* *
81002467 TTTAGTGGCGTTTTACCAAAAGTGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
81002508 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
* * * * * * *
81002549 TTTAACGGCGTTTTAACAAAAAACGCCACTATTGCTC-AGTT
1 TTTAGCGGCGTTTT-ACCAAAAGCGCCGCTAATGCTCTGGTC
81002590 TTTAGCGGCGTTTT
1 TTTAGCGGCGTTTT
81002604 TGTTAAAATG
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
41 67 0.79
42 18 0.21
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:81006525 original size:51 final size:51
Alignment explanation
Indices: 81006446--81006555 Score: 166
Period size: 51 Copynumber: 2.2 Consensus size: 51
81006436 TTACTTGCAA
* * **
81006446 CAGCAACATTATCCACTCCATGTGATGTTGTAAAATCACAAACATATTCAT
1 CAGCAACATTATCCACTCCATCTAATGTTACAAAATCACAAACATATTCAT
* *
81006497 CAGCAACATTATCCACTCTATCTAATGTTACAAAATCACCAACATATTCAT
1 CAGCAACATTATCCACTCCATCTAATGTTACAAAATCACAAACATATTCAT
81006548 CAGCAACA
1 CAGCAACA
81006556 ACTTCACTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.27
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCATCTAATGTTACAAAATCACAAACATATTCAT
Found at i:81006724 original size:33 final size:33
Alignment explanation
Indices: 81006685--81006762 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 33
81006675 TACCCCTCCT
* *
81006685 ACATCACCCTCCCCAACAGATTCTACCTTTTCT
1 ACATCACCCTCCCCAACAGATTCTACCTCTTCA
* ** * *
81006718 AGATCACATTCACCATCAGATTCTACCTCTTCA
1 ACATCACCCTCCCCAACAGATTCTACCTCTTCA
81006751 ACATCACCCTCC
1 ACATCACCCTCC
81006763 TCAGCAGTCA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.41, G:0.04, T:0.28
Consensus pattern (33 bp):
ACATCACCCTCCCCAACAGATTCTACCTCTTCA
Found at i:81007434 original size:117 final size:117
Alignment explanation
Indices: 81007228--81007438 Score: 359
Period size: 117 Copynumber: 1.8 Consensus size: 117
81007218 GGTAACAGAA
*
81007228 ATCAACAACATCGAGACCACTGTCACATCACAAATCGACAAAACAAACCCTATATTGTGGCACTG
1 ATCAACAACATCGAGACCACTGTCACATCACAAATCGACAAAACAAACCCTACATTGTGGCACTG
*
81007293 AAATTGCAATAATAAGTCACAAATAACCATATACAATTTTAACAACAACTTT
66 AAATTGCAATAATAAATCACAAATAACCATATACAATTTTAACAACAACTTT
* * * * *
81007345 ATCAACAACATTGGGACCATTGTCGCTTCACAAATCGACAAAACAAACCCTACATTGTGGCACTG
1 ATCAACAACATCGAGACCACTGTCACATCACAAATCGACAAAACAAACCCTACATTGTGGCACTG
81007410 AAATTGCAATAATAAATCACAAATAACCA
66 AAATTGCAATAATAAATCACAAATAACCA
81007439 ACAAACCAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
117 87 1.00
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.22
Consensus pattern (117 bp):
ATCAACAACATCGAGACCACTGTCACATCACAAATCGACAAAACAAACCCTACATTGTGGCACTG
AAATTGCAATAATAAATCACAAATAACCATATACAATTTTAACAACAACTTT
Found at i:81008137 original size:38 final size:38
Alignment explanation
Indices: 81008080--81008158 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
81008070 TAATAATTTC
81008080 CTTAACTTTTTACACTTTAACCAAAAGTAGTGAAAAAT
1 CTTAACTTTTTACACTTTAACCAAAAGTAGTGAAAAAT
* *
81008118 CTTAACTTTTTGCAGTTTAACCAAAAGTAGTGAAAAAT
1 CTTAACTTTTTACACTTTAACCAAAAGTAGTGAAAAAT
81008156 CTT
1 CTT
81008159 TCACTTTCCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.35
Consensus pattern (38 bp):
CTTAACTTTTTACACTTTAACCAAAAGTAGTGAAAAAT
Done.