Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 34 of 38
Found at i:5221094 original size:156 final size:153
Alignment explanation
Indices: 5220929--5221376 Score: 436
Period size: 156 Copynumber: 2.9 Consensus size: 153
5220919 GAGGATTTGG
*
5220929 AAAGAATTATAGATAGGATGAACCTATCCTAAATACCAACCTTCGGCATAAAAGCGGACCCGATG
1 AAAGAATTATAGATAGGATGAACCTATCCTAAATACC-ACCTTCGGCATAAAAGCGGACTCGATG
5220994 ACAACCTAAGACTCAGTTTTGAAAAAATTATGAAAATGCCCCTATAAGATACTTTCGACTTAGAA
65 ACAACCTAAGACTCAGTTTT-AAAAAATTATGAAAATGCCCCTA-AAGATACTTTCGACTTAGAA
* ** *
5221059 GTGCCCGA-TACCTTTAAAAAACTTAA
128 GTACCCGAGTACCCCT-AAAAACCTAA
* * * * *
5221085 AAA-AGATTATAGATGGGATGAACCTATCCTAAATATCCACTTTCGGCATAAAAGTGAACTTGAT
1 AAAGA-ATTATAGATAGGATGAACCTATCCTAAATA-CCACCTTCGGCATAAAAGCGGACTCGAT
* * * * * * *
5221149 AACAATCTAAGACTCGATTTTTAAAAAAATTATGAAAATACCCCTAAGGGTACTATCGA-TGTAG
64 GACAACCTAAGACTC-AGTTTT-AAAAAATTATGAAAATGCCCCTAAAGATACTTTCGACT-TAG
* * **
5221213 AAATACTC-AGTACCCCTAAGGACCTAA
126 AAGTACCCGAGTACCCCTAAAAACCTAA
* * * * *
5221240 AAAGAATTATAGACAAGATGAACCTATCTTAAATACCCACCTTCAGCATAAAAGCGGACTCGGTG
1 AAAGAATTATAGATAGGATGAACCTATCCTAAATA-CCACCTTCGGCATAAAAGCGGACTCGATG
* * ** * * * * * *
5221305 ATAACCTAGGACTTGGTTCTAGAGAAATTATAAAAATGTCCCTAAATGATACCTTCGACGTAGAA
65 ACAACCTAAGACTCAGTTTTA-AAAAATTATGAAAATGCCCCTAAA-GATACTTTCGACTTAGAA
5221370 GTACCCG
128 GTACCCG
5221377 GCACTCCTAA
Statistics
Matches: 230, Mismatches: 52, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
153 1 0.00
154 22 0.10
155 88 0.38
156 90 0.39
157 29 0.13
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.25
Consensus pattern (153 bp):
AAAGAATTATAGATAGGATGAACCTATCCTAAATACCACCTTCGGCATAAAAGCGGACTCGATGA
CAACCTAAGACTCAGTTTTAAAAAATTATGAAAATGCCCCTAAAGATACTTTCGACTTAGAAGTA
CCCGAGTACCCCTAAAAACCTAA
Found at i:5221911 original size:5 final size:5
Alignment explanation
Indices: 5221901--5221929 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
5221891 TGAAAAGAAT
5221901 AAATA AAATA AAATA AAATA AAATA AAAT
1 AAATA AAATA AAATA AAATA AAATA AAAT
5221930 TTTTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:5222576 original size:166 final size:165
Alignment explanation
Indices: 5222233--5222579 Score: 371
Period size: 166 Copynumber: 2.1 Consensus size: 165
5222223 AAAGAAGGGC
* * * ** * * *
5222233 ATTTCAAGGAAAAAATGATAAACATGTGAAAATAAGTGAATTTTTCAAAACTGATTTAGTATGAA
1 ATTTCAAGGAAAAAATGAAAAACATATGAAAATAAATGAAAATTTCAAAACTAATTTAATATAAA
* * * * **
5222298 TTAAATGAAGGTATTTGATGAATTTTAAAAATTTTTAACCGAGAAAAACCCCAGCAAAAACCTTT
66 TTAAATGAAGATATTTGATGAATTTTAAAAATTTATAAACAAGAAAAACCCCA-CAAAAACAATT
** * * *
5222363 ATGGAATAGAAAACTCGGTTTTTCAAAAACAAGAGA
130 ACAGAATAGAAAACTCCGTATTTCAAAAACAAGAAA
*
5222399 ATTTTAAGGAAAAAATGAAAAAC-TCATGAAAATAAATGAAAATTTCAAAACTAATTTAATATAA
1 ATTTCAAGGAAAAAATGAAAAACAT-ATGAAAATAAATGAAAATTTCAAAACTAATTTAATATAA
* * * *
5222463 ATTAGATGATGATATTTGATGAATTTT-AAAA-TTATAAACAATGAAAAATCTCCC-TAAAAATA
65 ATTAAATGAAGATATTTGATGAATTTTAAAAATTTATAAACAA-GAAAAA-C-CCCACAAAAACA
*
5222525 ATTACAGAATAGAAAA-TACCGTATTTCAAAGACAAGAAAA
127 ATTACAGAATAGAAAACT-CCGTATTTCAAAAACAAG-AAA
5222565 ATTTCAAGGAAAAAA
1 ATTTCAAGGAAAAAA
5222580 AGGTAAATTA
Statistics
Matches: 149, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
164 8 0.05
165 44 0.30
166 94 0.63
167 3 0.02
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.28
Consensus pattern (165 bp):
ATTTCAAGGAAAAAATGAAAAACATATGAAAATAAATGAAAATTTCAAAACTAATTTAATATAAA
TTAAATGAAGATATTTGATGAATTTTAAAAATTTATAAACAAGAAAAACCCCACAAAAACAATTA
CAGAATAGAAAACTCCGTATTTCAAAAACAAGAAA
Found at i:5227733 original size:52 final size:52
Alignment explanation
Indices: 5227588--5227716 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
5227578 CGAAATATGA
*
5227588 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
5227640 AAATTTACCTGTATGTATCGATACATTTCAGAGTGTATCGATGCATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
5227692 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
5227717 AAGATTAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:5227743 original size:13 final size:13
Alignment explanation
Indices: 5227725--5227749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5227715 CAAAGATTAG
5227725 TGTATCGATACAA
1 TGTATCGATACAA
5227738 TGTATCGATACA
1 TGTATCGATACA
5227750 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5227812 original size:13 final size:13
Alignment explanation
Indices: 5227794--5227877 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
5227784 AGCTTCGTAG
5227794 CGATACATTGTAT
1 CGATACATTGTAT
5227807 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
5227826 CGATACATTGTAT
1 CGATACATTGTAT
5227839 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
5227858 CGATACATTGTAT
1 CGATACATTGTAT
5227871 CGATACA
1 CGATACA
5227878 ACTCGTTGAC
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 26 0.44
14 1 0.02
15 2 0.03
16 8 0.14
17 2 0.03
18 1 0.02
19 19 0.32
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:5227826 original size:19 final size:18
Alignment explanation
Indices: 5227802--5227864 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
5227792 AGCGATACAT
5227802 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
5227821 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
5227834 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
5227853 TGTATCGATACA
1 TGTATCGATACA
5227865 TTGTATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:5227879 original size:32 final size:32
Alignment explanation
Indices: 5227794--5227879 Score: 163
Period size: 32 Copynumber: 2.7 Consensus size: 32
5227784 AGCTTCGTAG
*
5227794 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
5227826 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
5227858 CGATACATTGTATCGATACAAC
1 CGATACATTGTATCGATACAAC
5227880 TCGTTGACAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:5228398 original size:13 final size:13
Alignment explanation
Indices: 5228380--5228406 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5228370 ACAAAGTTCA
5228380 AATGTATCGATAC
1 AATGTATCGATAC
5228393 AATGTATCGATAC
1 AATGTATCGATAC
5228406 A
1 A
5228407 TTGAGTAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:5228482 original size:19 final size:19
Alignment explanation
Indices: 5228458--5228507 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
5228448 AGCGATACAT
5228458 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
5228477 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
5228496 TGTATCGATACA
1 TGTATCGATACA
5228508 TTGTATCGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:5228514 original size:13 final size:13
Alignment explanation
Indices: 5228496--5228520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5228486 ACAACACTTA
5228496 TGTATCGATACAT
1 TGTATCGATACAT
5228509 TGTATCGATACA
1 TGTATCGATACA
5228521 AATTGTTGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5229414 original size:88 final size:88
Alignment explanation
Indices: 5229316--5229637 Score: 285
Period size: 88 Copynumber: 3.6 Consensus size: 88
5229306 CTAACCCCAC
* * * *
5229316 TCTAACAAAAATTCAAATTTTCCTTCGTATAATTTTATCCATGGGAAAACTTCATCCTTATTCTT
1 TCTAA-AAAAA-TCAAATTTTCCTTCGTATAATTTTATCTATGGGGAAACTCCATCCCTATTCTT
* *
5229381 CCGAAGGTACACTCCAACCCCGCTCT
64 CCGAAGGAACACTCCAA-CCCGCTAT
* ** * * * * * *
5229407 TCTAAAAAAATAAAATTTTCCTTCGTGGAATTATATATTTAGGGAAACTCTATCCCTATTATTCC
1 TCTAAAAAAATCAAATTTTCCTTCGTATAATTTTATCTATGGGGAAACTCCATCCCTATTCTTCC
* * *
5229472 -AAGGGGATACTCTAA--CGCTAT
66 GAA-GGAACACTCCAACCCGCTAT
* * * * * * *
5229493 TCTAAGAAAAATTTAAATTTTCTTTCGCATGATTTTATCTTTGGGGAAACTCCATCCCCATTCCT
1 TCTAA-AAAAA-TCAAATTTTCCTTCGTATAATTTTATCTATGGGGAAACTCCATCCCTATTCTT
*
5229558 CCG-AGGAAACACTCCAACCTCGCTTT
64 CCGAAGG-AACACTCCAACC-CGCTAT
* *
5229584 TC-AAAAAAATCAAATTTTCATTCGTATAATTTTATCTTTGGGGAAACTCCATCC
1 TCTAAAAAAATCAAATTTTCCTTCGTATAATTTTATCTATGGGGAAACTCCATCC
5229638 TAACTCCTTC
Statistics
Matches: 185, Mismatches: 38, Indels: 19
0.76 0.16 0.08
Matches are distributed among these distances:
86 10 0.05
87 7 0.04
88 93 0.50
89 56 0.30
90 7 0.04
91 12 0.06
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (88 bp):
TCTAAAAAAATCAAATTTTCCTTCGTATAATTTTATCTATGGGGAAACTCCATCCCTATTCTTCC
GAAGGAACACTCCAACCCGCTAT
Found at i:5229657 original size:176 final size:177
Alignment explanation
Indices: 5229306--5229671 Score: 409
Period size: 177 Copynumber: 2.1 Consensus size: 177
5229296 AAAAGGGCAC
* * * *
5229306 CTAACCCCACTCTAACAAAAATTCAAATTTTCCTTCGTATAATTTTATCCATGGGAAAACTTCAT
1 CTAACCTCATTCTAACAAAAATTCAAATTTTCCTTCGCATAATTTTATCCATGGGAAAACTCCAT
** * * * *
5229371 CCTTATTCTTCCGAAGGTACACTCCAACCCCGCTCTTCTAAAAAAATAAAATTTTCCTTCGTGGA
66 CCCCATTCCTCCGAAGGAACACTCCAACCCCGCTCTTCTAAAAAAATAAAATTTTCATTCGTAGA
* *
5229436 ATTATATATTTAGGGAAACTCTATCCCTATTATTCCAAGGGGATACT
131 ATTATATATTTAGGGAAACTCCATCCCTATCATTCCAAGGGGATACT
* * * * ** *
5229483 CTAACGCT-ATTCTAAGAAAAATTTAAATTTTCTTTCGCATGATTTTATCTTTGGGGAAACTCCA
1 CTAAC-CTCATTCTAACAAAAATTCAAATTTTCCTTCGCATAATTTTATCCATGGGAAAACTCCA
* * *
5229547 TCCCCATTCCTCCG-AGGAAACACTCCAACCTCGCTTTTC-AAAAAAATCAAATTTTCATTCGTA
65 TCCCCATTCCTCCGAAGG-AACACTCCAACCCCGCTCTTCTAAAAAAATAAAATTTTCATTCGTA
* * * * * *
5229610 TAATTTTATCTTTGGGGAAACTCCAT-CCTAACTCCTT-CGAGGGGATACT
129 GAATTATATATTTAGGGAAACTCCATCCCT-A-TCATTCCAAGGGGATACT
5229659 CTAACCTCATTCT
1 CTAACCTCATTCT
5229672 TCATGAAAAA
Statistics
Matches: 156, Mismatches: 28, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
175 5 0.03
176 67 0.43
177 83 0.53
178 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.34
Consensus pattern (177 bp):
CTAACCTCATTCTAACAAAAATTCAAATTTTCCTTCGCATAATTTTATCCATGGGAAAACTCCAT
CCCCATTCCTCCGAAGGAACACTCCAACCCCGCTCTTCTAAAAAAATAAAATTTTCATTCGTAGA
ATTATATATTTAGGGAAACTCCATCCCTATCATTCCAAGGGGATACT
Found at i:5235064 original size:19 final size:18
Alignment explanation
Indices: 5235037--5235097 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
5235027 CGATACATTT
*
5235037 TATCAATACAAAACTTATG
1 TATCGATAC-AAACTTATG
5235056 TATCGATAC--A--T-TG
1 TATCGATACAAACTTATG
5235069 TATCGATACAACACTTATG
1 TATCGATACAA-ACTTATG
5235088 TATCGATACA
1 TATCGATACA
5235098 TTGTATCGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.31
14 1 0.03
16 2 0.06
18 1 0.03
19 20 0.57
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (18 bp):
TATCGATACAAACTTATG
Found at i:5235072 original size:13 final size:13
Alignment explanation
Indices: 5235054--5235110 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
5235044 ACAAAACTTA
5235054 TGTATCGATACAT
1 TGTATCGATACAT
5235067 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
5235085 ATGTATCGATACAT
1 -TGTATCGATACAT
5235099 TGTATCGATACA
1 TGTATCGATACA
5235111 AATTGTTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5235078 original size:32 final size:32
Alignment explanation
Indices: 5235022--5235112 Score: 146
Period size: 32 Copynumber: 2.8 Consensus size: 32
5235012 GCAGTAGCTT
* * *
5235022 TGTAGCGATACATTTTATCAATACAAAACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
*
5235054 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAAAACTTA
5235086 TGTATCGATACATTGTATCGATACAAA
1 TGTATCGATACATTGTATCGATACAAA
5235113 TTGTTGAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 54 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAAAACTTA
Found at i:5248298 original size:13 final size:13
Alignment explanation
Indices: 5248280--5248304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5248270 CATAAAGTGT
5248280 TGTATCGATACAA
1 TGTATCGATACAA
5248293 TGTATCGATACA
1 TGTATCGATACA
5248305 TTTTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5248386 original size:13 final size:13
Alignment explanation
Indices: 5248368--5248392 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5248358 ATCACTTAAA
5248368 TGTATCGATACAT
1 TGTATCGATACAT
5248381 TGTATCGATACA
1 TGTATCGATACA
5248393 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5248457 original size:52 final size:52
Alignment explanation
Indices: 5248401--5248529 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
5248391 CACTGATCTT
* *
5248401 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
5248453 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
5248505 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
5248530 TCATATTTCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:5255755 original size:20 final size:21
Alignment explanation
Indices: 5255732--5255784 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
5255722 ATTTCAGGCA
5255732 TGTATTGATACATTCACT-TT
1 TGTATTGATACATTCACTGTT
* *
5255752 TGTATCGATACATTTACTGTT
1 TGTATTGATACATTCACTGTT
*
5255773 TATATTGATACA
1 TGTATTGATACA
5255785 AATTGTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.28, C:0.13, G:0.11, T:0.47
Consensus pattern (21 bp):
TGTATTGATACATTCACTGTT
Found at i:5261237 original size:14 final size:14
Alignment explanation
Indices: 5261218--5261263 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
5261208 CTTTTCGGCT
5261218 AAAAAACAAAAAAG
1 AAAAAACAAAAAAG
*
5261232 AAAAAAGAAAAAAG
1 AAAAAACAAAAAAG
*
5261246 -AAGAACAAAAAA-
1 AAAAAACAAAAAAG
5261258 AAAAAA
1 AAAAAA
5261264 GAGAACCAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 14 0.52
14 13 0.48
ACGTcount: A:0.87, C:0.04, G:0.09, T:0.00
Consensus pattern (14 bp):
AAAAAACAAAAAAG
Found at i:5261268 original size:18 final size:20
Alignment explanation
Indices: 5261232--5261269 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
5261222 AACAAAAAAG
5261232 AAAAAAGAAAAAAGAAGAAC
1 AAAAAAGAAAAAAGAAGAAC
5261252 AAAAAA-AAAAAAG-AGAAC
1 AAAAAAGAAAAAAGAAGAAC
5261270 CAGCTTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.82, C:0.05, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAAAAAGAAGAAC
Found at i:5262403 original size:64 final size:64
Alignment explanation
Indices: 5262330--5262452 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 64
5262320 TATCTTTTTC
* * * *
5262330 AAAGCCCACACAAGCTGGTGGCACATTTTATTTTAGTCCTT-AAAGAGTAAGAAGCTTTTTTTAA
1 AAAGCCCACACAAACTAGTGGCACACTTTATTTTAGT-CTTCAAAAAGTAAGAAGCTTTTTTTAA
* * *
5262394 AAAGCCCACACAAACTAGTGTCACCCTTTATTTTAGTCTTCAAAAAGTAAGATGCTTTT
1 AAAGCCCACACAAACTAGTGGCACACTTTATTTTAGTCTTCAAAAAGTAAGAAGCTTTT
5262453 CCTTTTGTTT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 3 0.06
64 48 0.94
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (64 bp):
AAAGCCCACACAAACTAGTGGCACACTTTATTTTAGTCTTCAAAAAGTAAGAAGCTTTTTTTAA
Found at i:5262637 original size:72 final size:68
Alignment explanation
Indices: 5262284--5263202 Score: 293
Period size: 72 Copynumber: 13.0 Consensus size: 68
5262274 GTGGCATCCC
* * * *
5262284 TTATTTTAGTCCTCAAAGAGTAGGATGCTTTTCCTTTATCTTTTTCAAAGCCCACACAAGCTGGT
1 TTATTTTAGTCCTCAAAGAGCAAGATG-TTTT--TTT-T-TTTTT-AAAGCCTACACAAGCTAGT
5262349 GGCACA--TT
60 -GCACACCTT
* * * * ** * *
5262357 TTATTTTAGTCCTTAAAGAGTAAGAAG---CTTTTTTTAAAAAGCCCACACAAACTAGTGTCAC-
1 TTATTTTAGTCCTCAAAGAGCAAGATGTTTTTTTTTTTTTAAAGCCTACACAAGCTAGTG-CACA
5262418 CC-T
65 CCTT
* * * * * *
5262421 TTATTTTAGTCTTCAAAAAGTAAGATGCTTTTCCTTTTGTTTTCAAAGCCCATACAAGCT-GATG
1 TTATTTTAGTCCTCAAAGAGCAAGATG-TTTT--TTTT-TTTTTAAAGCCTACACAAGCTAG-TG
*
5262485 -GCA-CTCT
61 CACACCT-T
* * ** ** * * ** *
5262492 TTATTTTAGTCCTCAAAGTA-TAGGACATTTTTCCTTTTTCAAAGCCAACTTAAGCTGGTGGCAC
1 TTATTTTAGTCCTCAAAG-AGCAAGATGTTTTTTTTTTTTTAAAGCCTACACAAGCTAGT-GCAC
*
5262556 -CC-C
64 ACCTT
5262559 TTATTTTAGTCCTCAAAGAGCAAGATGTTTTTTTTTTCTTTCAGCAAAGCCTACACAAGCTAGTG
1 TTATTTTAGTCCTCAAAGAGCAAGATGTTTTTTTTTT-TTT----AAAGCCTACACAAGCTAGTG
5262624 -ACACCTT
61 CACACCTT
* * * ** * * *
5262631 TTATTTTAGTCTTCAAAGAGTAAGACGTTTTTCCTTTTTTAAAGCCTACACAAGTTGGTGTCACC
1 TTATTTTAGTCCTCAAAGAGCAAGATGTTTTTTTTTTTTTAAAGCCTACACAAGCTAGTG-CACA
5262696 CCTT
65 CCTT
* * *
5262700 TTATCCCTTTAGTCCTTAAAGAGCAAGATGTTTTTTTCTTTTTAAAG-CTCACACAAGCTGGTGG
1 TTAT---TTTAGTCCTCAAAGAGCAAGATGTTTTTTTTTTTTTAAAGCCT-ACACAAGCTAGT-G
5262764 CAC-CCTTT
61 CACACC-TT
* * * *
5262772 TTATCCCTGTCAGTCCTC-AAG-G---G--GTTTTTTTCTTTTTAAAGCCCACACAAGCTGGTGG
1 TTAT---T-TTAGTCCTCAAAGAGCAAGATGTTTTTTTTTTTTTAAAGCCTACACAAGCTAGT-G
5262830 CAC-CCTTT
61 CACACC-TT
* * * * * * *
5262838 TTATCCTTTTTAATCCTCAAAGAGCAGGATGTCTTTTTCTTTTTAAAGCC-ACACGAGCTGGTGG
1 TTA----TTTTAGTCCTCAAAGAGCAAGATGTTTTTTTTTTTTTAAAGCCTACACAAGCTAGTGC
5262902 A-ACCCTTT
62 ACA-CC-TT
* * * ** * * *
5262910 TTATGCCTTTCAGTTCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACAAACTAGTG-
1 TTAT---TTT-AGTCCTCAAAGAGCAAGATGTTTTTTTTTTTTTAAAGCCTACACAAGCTAGTGC
5262974 ACACCCTTT
62 ACA-CC-TT
* * * ** * * * *
5262983 TTATCTCTTTTAGTCCTTAAAAAGCAGGACATCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGG
1 TTA----TTTTAGTCCTCAAAGAGCAAGATGTTTTTTTTTTTTTAAAGCCTACACAAGCTAGT-G
*
5263048 CAC-CTTTTT
61 CACAC--CTT
* * *
5263057 TATCCATTTTAGTCCTTAAAGAGCAAGATG---TCTTTTTTTTAAAGCTTACACAAGCTAGTGGC
1 T-T--ATTTTAGTCCTCAAAGAGCAAGATGTTTTTTTTTTTTTAAAGCCTACACAAGCTAGT-GC
5263119 AC-CCATT
62 ACACC-TT
* * * * * *
5263126 TTATCCTTTTTAGACCTCAAAGAGCAGGACGTCTTTTTTTTTGTTTTAAAGCCTATACAAACTGG
1 TTA----TTTTAGTCCTCAAAGAGCAAGA--TGTTTTTTTTT-TTTTAAAGCCTACACAAGCTAG
5263191 TGGCAC-CCTT
59 T-GCACACCTT
5263201 TT
1 TT
5263203 TATCCTTTTC
Statistics
Matches: 665, Mismatches: 103, Indels: 154
0.72 0.11 0.17
Matches are distributed among these distances:
63 1 0.00
64 44 0.07
65 3 0.00
66 53 0.08
67 73 0.11
68 10 0.02
69 17 0.03
70 61 0.09
71 57 0.09
72 164 0.25
73 135 0.20
74 7 0.01
75 12 0.02
76 26 0.04
77 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (68 bp):
TTATTTTAGTCCTCAAAGAGCAAGATGTTTTTTTTTTTTTAAAGCCTACACAAGCTAGTGCACAC
CTT
Found at i:5262638 original size:139 final size:136
Alignment explanation
Indices: 5262224--5263270 Score: 524
Period size: 139 Copynumber: 7.5 Consensus size: 136
5262214 AAACCTTTTG
* * * *
5262224 TAGTCCTCAAAGTGCAAGACATTTTTCTTTTTTAAAGCCCACGA-AAGTTGGTGGCATCCCTTAT
1 TAGTCCTCAAAGAGTAAGACATTTTTCTTTTTTAAAGCCCAC-ACAAGCTGGTGGCACCCCTTAT
* * *
5262288 TTTAGTCCTCAAAGAGTAGGATGCTTTTCCTTTATCTTTTTCAAAGCCCACACAAGCTGGTGGCA
65 TTTAGTCCTCAAAGAGCAAGATGCTTTT-CTTTTTC-TTTTCAAAGCCCACACAAGCT-GTGGCA
*
5262353 CATTTTATTT
127 CCTTTTATTT
* ** ** * * * *
5262363 TAGTCCTTAAAGAGTAAGA-AGCTTT-TTTTAAAAAGCCCACACAAACTAGTGTCACCCTTTATT
1 TAGTCCTCAAAGAGTAAGACATTTTTCTTTTTTAAAGCCCACACAAGCTGGTGGCACCCCTTATT
* * * * * *
5262426 TTAGTCTTCAAAAAGTAAGATGCTTTTCCTTTTGTTTTCAAAGCCCATACAAGCTGATGGCA-CT
66 TTAGTCCTCAAAGAGCAAGATGCTTTTCTTTTTCTTTTCAAAGCCCACACAAGCTG-TGGCACCT
5262490 CTTTATTT
130 -TTTATTT
* * * **
5262498 TAGTCCTCAAAGTA-TAGGACATTTTTCCTTTTTCAAAGCCAACTTAAGCTGGTGGCACCCCTTA
1 TAGTCCTCAAAG-AGTAAGACATTTTT-CTTTTTTAAAGCCCACACAAGCTGGTGGCACCCCTTA
* * * *
5262562 TTTTAGTCCTCAAAGAGCAAGATG-TTTTTTTTTTCTTTCAGCAAAGCCTACACAAGCTAGTGAC
64 TTTTAGTCCTCAAAGAGCAAGATGCTTTTCTTTTTCTTT--TCAAAGCCCACACAAGCT-GTGGC
5262626 ACCTTTTATTT
126 ACCTTTTATTT
* * * * *
5262637 TAGTCTTCAAAGAGTAAGACGTTTTTCCTTTTTTAAAGCCTACACAAGTTGGTGTCACCCCTTTT
1 TAGTCCTCAAAGAGTAAGACATTTTT-CTTTTTTAAAGCCCACACAAGCTGGTGGCACCCC--TT
* * *
5262702 ATCCCTTTAGTCCTTAAAGAGCAAGATG---TT-TTTTTCTTTTTAAAGCTCACACAAGCTGGTG
63 AT---TTTAGTCCTCAAAGAGCAAGATGCTTTTCTTTTTCTTTTCAAAGCCCACACAAGCT-GTG
5262763 GCACCCTTTTTATCCCTGT
124 GCA-CC-TTTTAT---T-T
* *** *
5262782 CAGTCCTC-AAG-G---GGTTTTTTTC-TTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTA
1 TAGTCCTCAAAGAGTAAGACATTTTTCTTTTTTAAAGCCCACACAAGCTGGTGGCACCC--CTTA
* * * *
5262841 TCCTTTTTAATCCTCAAAGAGCAGGATG----TCTTTTTCTTTTTAAAG-CCACACGAGCTGGTG
64 ----TTTTAGTCCTCAAAGAGCAAGATGCTTTTCTTTTTCTTTTCAAAGCCCACACAAGCT-GTG
*
5262901 GAACCCTTTTTATGCCTT
124 GCA-CC-TTTTAT---TT
* * * * * * *
5262919 TCAGTTCTCAAAGAGTAGGATGCCTTTTTC-TTTTTAAAGCCCACACAAACTAGTGACACCCTTT
1 T-AGTCCTCAAAGAGTAAGA--CATTTTTCTTTTTTAAAGCCCACACAAGCTGGTGGCACCC--C
* * * * *
5262983 TTATCTCTTTTAGTCCTTAAAAAGCAGGA--C--ATCTTTTTCTTTTTAAAGCCCACACAAGCTG
61 TTA----TTTTAGTCCTCAAAGAGCAAGATGCTTTTCTTTTTCTTTTCAAAGCCCACACAAGCT-
5263044 GTGGCACCTTTTTTATCCATTT
121 GTGGCACC---TTT-T--ATTT
* * * ** * *
5263066 TAGTCCTTAAAGAGCAAG--ATGTCTT-TTTTTTAAAGCTTACACAAGCTAGTGGCACCCATTTT
1 TAGTCCTCAAAGAGTAAGACAT-TTTTCTTTTTTAAAGCCCACACAAGCTGGTGGCACCC--CTT
* * * * * * *
5263128 ATCCTTTTTAGACCTCAAAGAGCAGGACGTCTTTT-TTTTTGTTTT-AAAGCCTATACAAACTGG
63 A----TTTTAGTCCTCAAAGAGCAAGATG-CTTTTCTTTTTCTTTTCAAAGCCCACACAAGCT-G
5263191 TGGCACCCTTTTTATCCTTT
122 TGGCA-CC-TTTTA---TTT
* *** *
5263211 TCAGTCTTCAAAGAGTAAGAC-GCCTT-TTTTTTAAAGCCCAC-CAAGTTGGTGGCACCCCTT
1 T-AGTCCTCAAAGAGTAAGACATTTTTCTTTTTTAAAGCCCACACAAGCTGGTGGCACCCCTT
5263271 TTATCCCTTT
Statistics
Matches: 726, Mismatches: 122, Indels: 116
0.75 0.13 0.12
Matches are distributed among these distances:
134 2 0.00
135 47 0.06
136 10 0.01
137 64 0.09
138 119 0.16
139 150 0.21
140 12 0.02
141 19 0.03
142 5 0.01
143 60 0.08
144 27 0.04
145 109 0.15
146 80 0.11
147 18 0.02
148 2 0.00
150 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.37
Consensus pattern (136 bp):
TAGTCCTCAAAGAGTAAGACATTTTTCTTTTTTAAAGCCCACACAAGCTGGTGGCACCCCTTATT
TTAGTCCTCAAAGAGCAAGATGCTTTTCTTTTTCTTTTCAAAGCCCACACAAGCTGTGGCACCTT
TTATTT
Found at i:5262875 original size:73 final size:73
Alignment explanation
Indices: 5262798--5263364 Score: 602
Period size: 73 Copynumber: 7.9 Consensus size: 73
5262788 TCAAGGGGTT
*
5262798 TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTATCCTTTTTAATCCTCAAAGAGC
1 TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTATCCTTTTTAGTCCTCAAAGAGC
5262863 AGGATGTC
66 AGGATGTC
* * * *
5262871 TTTTTCTTTTTAAAG-CCACACGAGCTGGTGGAACCCTTTTTATGCC-TTTCAGTTCTCAAAGAG
1 TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTAT-CCTTTTTAGTCCTCAAAGAG
* *
5262934 TAGGATGCC
65 CAGGATGTC
* * * * *
5262943 TTTTTCTTTTTAAAGCCCACACAAACTAGTGACACCCTTTTTAT-CTCTTTTAGTCCTTAAAAAG
1 TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTATCCT-TTTTAGTCCTCAAAGAG
**
5263007 CAGGACATC
65 CAGGATGTC
* * *
5263016 TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTTTATCCATTTTAGTCCTTAAAGAGC
1 TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTATCCTTTTTAGTCCTCAAAGAGC
*
5263081 AAGATGTC
66 AGGATGTC
** * * *
5263089 --TTT-TTTTTAAAGCTTACACAAGCTAGTGGCACCCATTTTATCCTTTTTAGACCTCAAAGAGC
1 TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTATCCTTTTTAGTCCTCAAAGAGC
*
5263151 AGGACGTC
66 AGGATGTC
* * * * * *
5263159 TTTTTTTTTGTTTTAAAGCCTATACAAACTGGTGGCACCCTTTTTATCCTTTTCAGTCTTCAAAG
1 --TTTTTCT-TTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTATCCTTTTTAGTCCTCAAAG
* * *
5263224 AGTAAGACG-C
63 AGCAGGATGTC
* * * * * * *
5263234 -CTTT-TTTTTAAAGCCCAC-CAAGTTGGTGGCACCCCTTTTATCCCTTTTAGTCTTTAAAGAGT
1 TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTATCCTTTTTAGTCCTCAAAGAGC
*
5263296 ATGATGTC
66 AGGATGTC
* * *
5263304 TTTTTCTTTTTAAAGCCCACATAAGTTGGTGGCA--CTTTTTATCCTTTTT-GTTCTCAAAGAG
1 TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTATCCTTTTTAGTCCTCAAAGAG
5263365 TAGAACTTTT
Statistics
Matches: 412, Mismatches: 67, Indels: 33
0.80 0.13 0.06
Matches are distributed among these distances:
69 42 0.10
70 78 0.19
71 21 0.05
72 79 0.19
73 132 0.32
74 4 0.01
75 2 0.00
76 54 0.13
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (73 bp):
TTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTATCCTTTTTAGTCCTCAAAGAGC
AGGATGTC
Found at i:5262981 original size:145 final size:142
Alignment explanation
Indices: 5262562--5263406 Score: 726
Period size: 145 Copynumber: 5.9 Consensus size: 142
5262552 GCACCCCTTA
* * * * * *
5262562 TTTTAGTCCTCAAAGAGCAAGATGTTTTTTTTTTCTTTCAGCAAAGCCTACACAAGCTAGTGACA
1 TTTTAGTCCTTAAAGAGCAGGATGTCTTTTTCTT-TTT----AAAGCC-ACACAAGCTGGTGGCA
* * * * *
5262627 -CC-TTTTAT--TTT-AG-TCTTCAAAGAGTAAGACGTTTTTCCTTTTTTAAAGCCTACACAAGT
60 CCCTTTTTATCCTTTCAGTTC-TCAAAGAGTAGGATGCTTTT--TTTTTTAAAGCCCACACAAGC
*
5262686 TGGTGTCACCCCTTTTATCC-
122 TGGTGGCACCCCTTTTATCCT
* * *
5262706 CTTTAGTCCTTAAAGAGCAAGATGTTTTTTTCTTTTTAAAGCTCACACAAGCTGGTGGCACCCTT
1 TTTTAGTCCTTAAAGAGCAGGATGTCTTTTTCTTTTTAAAGC-CACACAAGCTGGTGGCACCCTT
* * *
5262771 TTTATCCCTGTCAGTCCTC-AAG-G--GG-T-TTTTTTCTTTTTAAAGCCCACACAAGCTGGTGG
65 TTTAT-CCTTTCAGTTCTCAAAGAGTAGGATGCTTTTT-TTTTTAAAGCCCACACAAGCTGGTGG
*
5262830 CACCCTTTTTATCCT
128 CACCCCTTTTATCCT
* * * *
5262845 TTTTAATCCTCAAAGAGCAGGATGTCTTTTTCTTTTTAAAGCCACACGAGCTGGTGGAACCCTTT
1 TTTTAGTCCTTAAAGAGCAGGATGTCTTTTTCTTTTTAAAGCCACACAAGCTGGTGGCACCCTTT
* * *
5262910 TTATGCCTTTCAGTTCTCAAAGAGTAGGATGCCTTTTTCTTTTTAAAGCCCACACAAACTAGTGA
66 TTAT-CCTTTCAGTTCTCAAAGAGTAGGATG-CTTTTT-TTTTTAAAGCCCACACAAGCTGGTGG
*
5262975 CACCCTTTTTAT-CT
128 CACCCCTTTTATCCT
* ** *
5262989 CTTTTAGTCCTTAAAAAGCAGGACATCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCACCTT
1 -TTTTAGTCCTTAAAGAGCAGGATGTCTTTTTCTTTTTAAAG-CCACACAAGCTGGTGGCACCCT
* * * * * * ** *
5263054 TTTTATCCATTTTAGTCCTTAAAGAGCAAGATG-TCTTTTTTTTAAAGCTTACACAAGCTAGTGG
64 TTTTATCC-TTTCAGTTCTCAAAGAGTAGGATGCTTTTTTTTTTAAAGCCCACACAAGCTGGTGG
*
5263118 CACCCATTTTATCCT
128 CACCCCTTTTATCCT
* * * * * *
5263133 TTTTAGACCTCAAAGAGCAGGACGTCTTTTTTTTTGTTTTAAAGCCTATACAAACTGGTGGCACC
1 TTTTAGTCCTTAAAGAGCAGGATGTC--TTTTTCT-TTTTAAAGCC-ACACAAGCTGGTGGCACC
* * * *
5263198 CTTTTTATCCTTTTCAG-TCTTCAAAGAGTAAGACGC-CTTTTTTTTAAAGCCCAC-CAAGTTGG
62 CTTTTTATCC-TTTCAGTTC-TCAAAGAGTAGGATGCTTTTTTTTTTAAAGCCCACACAAGCTGG
*
5263260 TGGCACCCCTTTTATCCC
125 TGGCACCCCTTTTATCCT
* * * * *
5263278 TTTTAGTCTTTAAAGAGTATGATGTCTTTTTCTTTTTAAAGCCCACATAAGTTGGTGGCA--CTT
1 TTTTAGTCCTTAAAGAGCAGGATGTCTTTTTCTTTTTAAAG-CCACACAAGCTGGTGGCACCCTT
** * * * * *
5263341 TTTATCCTTTTTGTTCTCAAAGAGTA-GA-ACTTTTTTTCCTCAAAGCCCACACAAGTTGGTAGC
65 TTTATCCTTTCAGTTCTCAAAGAGTAGGATGCTTTTTTT-TTTAAAGCCCACACAAGCTGGTGGC
5263404 ACC
129 ACC
5263407 TATCTATTTT
Statistics
Matches: 585, Mismatches: 84, Indels: 68
0.79 0.11 0.09
Matches are distributed among these distances:
137 2 0.00
138 79 0.14
139 88 0.15
140 30 0.05
141 7 0.01
142 22 0.04
143 68 0.12
144 44 0.08
145 134 0.23
146 111 0.19
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.38
Consensus pattern (142 bp):
TTTTAGTCCTTAAAGAGCAGGATGTCTTTTTCTTTTTAAAGCCACACAAGCTGGTGGCACCCTTT
TTATCCTTTCAGTTCTCAAAGAGTAGGATGCTTTTTTTTTTAAAGCCCACACAAGCTGGTGGCAC
CCCTTTTATCCT
Found at i:5263986 original size:21 final size:21
Alignment explanation
Indices: 5263939--5263994 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
5263929 TACAATAAGC
*
5263939 TAATGTATCAGTACATAATTG
1 TAATGTATCAATACATAATTG
**
5263960 -AATGTATCAATACATGCTTG
1 TAATGTATCAATACATAATTG
*
5263980 TAATGTATCGATACA
1 TAATGTATCAATACA
5263995 GCACCATGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (21 bp):
TAATGTATCAATACATAATTG
Found at i:5268046 original size:19 final size:20
Alignment explanation
Indices: 5268003--5268053 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
5267993 CACATCCAGA
*
5268003 TGTATCGATACATATTGCTT
1 TGTATCGATACATATTGCAT
*
5268023 TGTATCGATACATGTT-CAT
1 TGTATCGATACATATTGCAT
*
5268042 TGTATTGATACA
1 TGTATCGATACA
5268054 CACTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATATTGCAT
Found at i:5269703 original size:3 final size:3
Alignment explanation
Indices: 5269695--5269750 Score: 85
Period size: 3 Copynumber: 18.7 Consensus size: 3
5269685 AACCATCAAA
* * *
5269695 GAT GAT GAT GAA GAT GAT AAA GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
5269743 GAT GAT GA
1 GAT GAT GA
5269751 AGTTGACTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:5275756 original size:13 final size:13
Alignment explanation
Indices: 5275738--5275765 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5275728 CATTATTCAA
5275738 TGTATCGATACAT
1 TGTATCGATACAT
5275751 TGTATCGATACAT
1 TGTATCGATACAT
5275764 TG
1 TG
5275766 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5275761 original size:33 final size:33
Alignment explanation
Indices: 5275718--5275783 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
5275708 GCCAAGGAAA
*
5275718 TGTATTGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
5275751 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
5275784 CTGGGAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:5278525 original size:33 final size:33
Alignment explanation
Indices: 5278488--5278554 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5278478 TTCAATGATT
5278488 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
5278521 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
5278554 T
1 T
5278555 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:5278526 original size:13 final size:13
Alignment explanation
Indices: 5278508--5278532 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5278498 CATAAAATGT
5278508 TGTATCGATACAA
1 TGTATCGATACAA
5278521 TGTATCGATACA
1 TGTATCGATACA
5278533 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5278615 original size:13 final size:13
Alignment explanation
Indices: 5278597--5278621 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5278587 ATTACTCACA
5278597 TGTATCGATACAT
1 TGTATCGATACAT
5278610 TGTATCGATACA
1 TGTATCGATACA
5278622 CTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5278686 original size:52 final size:52
Alignment explanation
Indices: 5278630--5278750 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
5278620 CACTGATTTT
*
5278630 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
5278682 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
5278734 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
5278751 TAACTTTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:5285986 original size:15 final size:15
Alignment explanation
Indices: 5285966--5285999 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5285956 TCCAAACACA
*
5285966 AAAAAAAGAAAAAAG
1 AAAAAAACAAAAAAG
*
5285981 AAAAAAACAAAACAG
1 AAAAAAACAAAAAAG
5285996 AAAA
1 AAAA
5286000 TCTCGGTGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.85, C:0.06, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAAAG
Found at i:5287127 original size:30 final size:32
Alignment explanation
Indices: 5287028--5287266 Score: 251
Period size: 32 Copynumber: 7.7 Consensus size: 32
5287018 AAAAAAAAAA
*
5287028 AAAGTCCACGACTCAGTGGCAATCTCTG-C-TC
1 AAAGTCCACGACTCAGTGGC-ATCTTTGTCTTC
* * *
5287059 AAAGTCTACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
5287091 AAAGTCCACGACTCAGTGGCAT-TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
* *
5287121 AAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
5287153 AAAGTCCACGACTCAGTGGCAT-TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
* * *
5287183 AAGGTCCACGACTCAATGGCAT-TTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
* * * * *
5287214 AAAGCCCACAACTCCGTGGCACCTTT-TCCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTGT-CTTC
* * *
5287246 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
5287267 CCCTTTTAAA
Statistics
Matches: 180, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
30 54 0.30
31 54 0.30
32 72 0.40
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (32 bp):
AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
Found at i:5287139 original size:62 final size:62
Alignment explanation
Indices: 5287028--5287234 Score: 310
Period size: 62 Copynumber: 3.3 Consensus size: 62
5287018 AAAAAAAAAA
* *
5287028 AAAGTCCACGACTCAGTGGCAATCTCTG-CTCAAAGTCTACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
5287091 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
* * *
5287153 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAGGTCCACGACTCAATGGCAT-TTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
* * *
5287214 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
5287235 CCTTTTCCTT
Statistics
Matches: 135, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
61 29 0.21
62 86 0.64
63 20 0.15
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (62 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTCAAAGTCCACGACTCAGTGGCATCTTTTTCTTT
Found at i:5287315 original size:34 final size:32
Alignment explanation
Indices: 5287205--5287596 Score: 376
Period size: 34 Copynumber: 12.1 Consensus size: 32
5287195 TCAATGGCAT
**
5287205 TTTTTCTTCAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTTTAAGCCCACAACTCCGTGGCACC
* *
5287237 TTTTCCTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTTTAAGCCCACAACTCCGTGGCACC
* *
5287269 -----CTTTTAAAGCCCACAATTCCGTGGCACT
1 TTTTTCTTTT-AAGCCCACAACTCCGTGGCACC
5287297 TTTTTCATCTTTAAGCCCACAACTCCGTGGCACC
1 TTTTTC-T-TTTAAGCCCACAACTCCGTGGCACC
*
5287331 TTCTTCTTTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTC-TTTT-AAGCCCACAACTCCGTGGCACC
*
5287365 TTCTTCTTTTCAAAGCCCACAACTCCGTGGCA-C
1 TTTTTCTTTT--AAGCCCACAACTCCGTGGCACC
** *
5287398 TTTTT-TTAAAAGCCCACAACTCTGTGGCACTC
1 TTTTTCTTTTAAGCCCACAACTCCGTGGCAC-C
* * *
5287430 TTTTTCCTTCTAAGCCCATAATTCCGTGGCACCC
1 TTTTT-CTTTTAAGCCCACAACTCCGTGGCA-CC
*
5287464 TTTTTCCTTTTAAAGCCCACGACTCCGTGGCA-C
1 TTTTT-CTTTT-AAGCCCACAACTCCGTGGCACC
*
5287497 ----TCTTTAAAGCCCACAACTCCGTGGCACC
1 TTTTTCTTTTAAGCCCACAACTCCGTGGCACC
*
5287525 TTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTC
1 TTTTTC-TTTT-AAGCCCACAACTCCGTGGCAC-C
* *
5287560 TTTTTCCCTTTTAAGTCCACAACTCCGTGGCATC
1 TTTTT--CTTTTAAGCCCACAACTCCGTGGCACC
5287594 TTT
1 TTT
5287597 CTCCCTTCCT
Statistics
Matches: 306, Mismatches: 28, Indels: 50
0.80 0.07 0.13
Matches are distributed among these distances:
27 23 0.08
28 25 0.08
29 1 0.00
30 19 0.06
32 40 0.13
33 17 0.06
34 131 0.43
35 45 0.15
36 4 0.01
37 1 0.00
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.32
Consensus pattern (32 bp):
TTTTTCTTTTAAGCCCACAACTCCGTGGCACC
Found at i:5287505 original size:160 final size:155
Alignment explanation
Indices: 5287211--5287564 Score: 455
Period size: 160 Copynumber: 2.2 Consensus size: 155
5287201 GCATTTTTTC
5287211 TTCAAAGCCCACAACTCCGTGGCACCTTTTCCTTTAAAGCCCACAACTCCGTGGCACCCTTTTAA
1 TTCAAAGCCCACAACTCCGTGGCA-CTTTT--TTTAAAGCCCACAACTCCGTGGCACCCTTTTAA
*
5287276 AGCCCACAATTCCGTGGCACTTTTTTCATCTTTAAGCCCACAACTCCGTGGCACCTTCTTCTTTT
63 AGCCCACAATTCCGTGGCACCTTTTTCATCTTTAAGCCCACAACTCCGTGGCA-C--CTTC-TTT
5287341 TAAAGCCCACAACTCCGTGGCACCTTCTTCTT
124 TAAAGCCCACAACTCCGTGGCACCTTCTTCTT
* *
5287373 TTCAAAGCCCACAACTCCGTGGCACTTTTTTTAAAAGCCCACAACTCTGTGGCACTCTTTTTCCT
1 TTCAAAGCCCACAACTCCGTGGCACTTTTTTT-AAAGCCCACAACTCCGTGGCAC-C--CTT--T
* * * *
5287438 TCTAAGCCCATAATTCCGTGGCACCCTTTTTCCT-TTTAAAGCCCACGACTCCGTGGCA-C-TC-
60 T-AAAGCCCACAATTCCGTGGCA-CCTTTTTCATCTTT-AAGCCCACAACTCCGTGGCACCTTCT
5287499 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
122 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCTT
* *
5287533 TTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TTCAAAGCCCACAACTCCGTGGCACTTTTTTT
5287565 CCCTTTTAAG
Statistics
Matches: 174, Mismatches: 9, Indels: 20
0.86 0.04 0.10
Matches are distributed among these distances:
159 3 0.02
160 85 0.49
161 6 0.03
162 26 0.15
163 3 0.02
165 2 0.01
166 22 0.13
167 27 0.16
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.31
Consensus pattern (155 bp):
TTCAAAGCCCACAACTCCGTGGCACTTTTTTTAAAGCCCACAACTCCGTGGCACCCTTTTAAAGC
CCACAATTCCGTGGCACCTTTTTCATCTTTAAGCCCACAACTCCGTGGCACCTTCTTTTAAAGCC
CACAACTCCGTGGCACCTTCTTCTT
Found at i:5287510 original size:27 final size:27
Alignment explanation
Indices: 5287472--5287562 Score: 110
Period size: 27 Copynumber: 3.1 Consensus size: 27
5287462 CCTTTTTCCT
*
5287472 TTTAAAGCCCACGACTCCGTGGCACTC
1 TTTAAAGCCCACAACTCCGTGGCACTC
5287499 TTTAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTAAAGCCCACAACTCCGTGGCA----C-TC
5287531 TTTTTAAAGCCCACAACTCCGTGGCACTC
1 --TTTAAAGCCCACAACTCCGTGGCACTC
5287560 TTT
1 TTT
5287563 TTCCCTTTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
27 26 0.46
29 2 0.04
30 1 0.02
31 1 0.02
32 2 0.04
34 24 0.43
ACGTcount: A:0.22, C:0.35, G:0.14, T:0.29
Consensus pattern (27 bp):
TTTAAAGCCCACAACTCCGTGGCACTC
Found at i:5287564 original size:96 final size:95
Alignment explanation
Indices: 5287304--5287596 Score: 389
Period size: 96 Copynumber: 3.1 Consensus size: 95
5287294 ACTTTTTTCA
*
5287304 TCTTT-AAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTC
1 TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
5287368 TT-CTTTTCAAAGCCCACAACTCCGTGGCAC
66 TTCCTTTT-AAAGCCCACAACTCCGTGGCAC
* * * * * * *
5287398 TTTTTTTAAAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCT-AAGCCCATAATTCCGTGGCAC
1 --TCTTT-AAAGCCCACAACTCCGTGGCAC-CTTCTTCTTTTTAAAGCCCACAACTCCGTGGCA-
*
5287462 CCTTTTTCCTTTTAAAGCCCACGACTCCGTGGCAC
61 CCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC
5287497 TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTT
1 TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCAC-CTT
*
5287562 TTTCCCTTTT-AAGTCCACAACTCCGTGGCA-
65 TTT-CCTTTTAAAGCCCACAACTCCGTGGCAC
5287592 TCTTT
1 TCTTT
5287597 CTCCCTTCCT
Statistics
Matches: 171, Mismatches: 18, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
95 15 0.09
96 67 0.39
97 10 0.06
98 38 0.22
99 36 0.21
100 5 0.03
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (95 bp):
TCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTT
TTCCTTTTAAAGCCCACAACTCCGTGGCAC
Found at i:5287644 original size:33 final size:34
Alignment explanation
Indices: 5287601--5287665 Score: 114
Period size: 33 Copynumber: 1.9 Consensus size: 34
5287591 ATCTTTCTCC
5287601 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCTT
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACCTT
*
5287635 CTTCC-AAAGCCTACACAAGTCGGTGGCAACC
1 CTTCCTAAAGCCCACACAAGTCGGTGGCAACC
5287666 CCTCTAAGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 25 0.83
34 5 0.17
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.18
Consensus pattern (34 bp):
CTTCCTAAAGCCCACACAAGTCGGTGGCAACCTT
Found at i:5287737 original size:49 final size:49
Alignment explanation
Indices: 5287670--5288334 Score: 935
Period size: 49 Copynumber: 13.8 Consensus size: 49
5287660 GCAACCCCTC
* * *
5287670 TAAGCCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
5287719 TAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
5287768 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
5287817 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
5287866 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
5287915 TAAGTCCAATATCA-CTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATAT-AGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
5287964 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
5288013 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
5288062 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
5288111 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
5288160 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
5288203 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
5288252 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
5288295 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC
5288335 ATTTTCCATC
Statistics
Matches: 550, Mismatches: 55, Indels: 27
0.87 0.09 0.04
Matches are distributed among these distances:
43 78 0.14
45 2 0.00
47 1 0.00
48 2 0.00
49 465 0.85
50 2 0.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:5287844 original size:98 final size:98
Alignment explanation
Indices: 5287670--5288333 Score: 1199
Period size: 98 Copynumber: 6.9 Consensus size: 98
5287660 GCAACCCCTC
* *
5287670 TAAGCCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCACT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
5287735 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
5287768 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
5287833 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
*
5287866 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCACT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
5287931 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
5287964 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
5288029 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
5288062 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
5288127 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
5288160 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
5288219 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
66 GGCCTTGAATCAGCATATTGGCATCTTCATCTT
* *
5288252 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
5288311 GGCCTTGAATCAGCATATTGGCA
66 GGCCTTGAATCAGCATATTGGCA
5288334 CATTTTCCAT
Statistics
Matches: 560, Mismatches: 6, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
92 132 0.24
94 1 0.00
98 427 0.76
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (98 bp):
TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCT
GGCCTTGAATCAGCATATTGGCATCTTCATCTT
Found at i:5288228 original size:92 final size:92
Alignment explanation
Indices: 5288108--5288333 Score: 434
Period size: 92 Copynumber: 2.5 Consensus size: 92
5288098 GCACCTTCAT
5288108 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
5288173 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
5288200 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
5288265 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
5288292 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
5288334 CATTTTCCAT
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 132 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:5288366 original size:42 final size:41
Alignment explanation
Indices: 5288115--5288368 Score: 195
Period size: 43 Copynumber: 5.7 Consensus size: 41
5288105 CATCTTTAAG
* *
5288115 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAA
1 TCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----CA--TTT-A
* * *
5288163 GTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTAA
1 -TCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTT-A
* *
5288206 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAA
1 -TCCAATATAGCTGGCCTTGAATCAGCACATTGGCA----CA--TTT-A
* *
5288255 GTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAA
1 -TCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTT-A
*
5288298 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTT-
1 -TCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTTA
* *
5288339 TCCATCTTTAAGCTGGCCTTGAATCAGCAC
1 TCCA-ATAT-AGCTGGCCTTGAATCAGCAC
5288369 GTTGACATCC
Statistics
Matches: 177, Mismatches: 20, Indels: 23
0.80 0.09 0.10
Matches are distributed among these distances:
40 4 0.02
41 2 0.01
42 19 0.11
43 80 0.45
45 2 0.01
47 1 0.01
49 69 0.39
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (41 bp):
TCCAATATAGCTGGCCTTGAATCAGCACATTGGCACATTTA
Found at i:5288572 original size:171 final size:168
Alignment explanation
Indices: 5288292--5288676 Score: 611
Period size: 171 Copynumber: 2.3 Consensus size: 168
5288282 ACATTGGCAC
* *
5288292 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA---CAT-TTTCCATCTTTAAGCT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTCAATCTGTAAGCT
5288353 GGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAAT
66 GGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAAT
5288418 CAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
131 CAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
* *
5288456 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTT-AAGTTCAATGT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTCATCTTTCAA--TC--TGT
*
5288520 -AGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCA
61 AAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
*
5288584 TGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
126 TGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
*
5288627 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTCATC
5288677 ATCTCTAAAA
Statistics
Matches: 203, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
164 40 0.20
168 4 0.02
169 3 0.01
170 2 0.01
171 152 0.75
172 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (168 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTCATCTTTCAATCTGTAAGCT
GGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATGAAT
CAACATATTGGCATCTTTATCACTTTTCTCATCATCAT
Found at i:5289512 original size:33 final size:33
Alignment explanation
Indices: 5289475--5289541 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5289465 TTCAATGATT
5289475 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
5289508 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
5289541 T
1 T
5289542 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:5289513 original size:13 final size:13
Alignment explanation
Indices: 5289495--5289519 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5289485 CATAAAATGT
5289495 TGTATCGATACAA
1 TGTATCGATACAA
5289508 TGTATCGATACA
1 TGTATCGATACA
5289520 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5289602 original size:13 final size:13
Alignment explanation
Indices: 5289584--5289608 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5289574 ATTACTCACA
5289584 TGTATCGATACAT
1 TGTATCGATACAT
5289597 TGTATCGATACA
1 TGTATCGATACA
5289609 CTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5289673 original size:52 final size:52
Alignment explanation
Indices: 5289617--5289737 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
5289607 CACTGATTTT
*
5289617 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
5289669 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
5289721 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
5289738 TAACTTTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:5298750 original size:30 final size:29
Alignment explanation
Indices: 5298715--5298979 Score: 185
Period size: 30 Copynumber: 8.7 Consensus size: 29
5298705 TTTTTCTTCA
* *
5298715 AAGTCCACAACTCAATGGCATCTCTTTTCT
1 AAGTCCACGACTCAGTGGCATCT-TTTTCT
* *
5298745 AAGTCCACGACTTAGTAGCATCTTTTTCTT
1 AAGTCCACGACTCAGTGGCATCTTTTTC-T
5298775 CCAAGTCCACGACTCAGTGGCAT-TTTTTCTT
1 --AAGTCCACGACTCAGTGGCATCTTTTTC-T
*
5298806 CAAAGTCCACGACTTAGTGGCATCTCTTTTCT
1 --AAGTCCACGACTCAGTGGCATCT-TTTTCT
* * *
5298838 AAGTCCACAACTTAGTAGCATCTTTTTCTT
1 AAGTCCACGACTCAGTGGCATCTTTTTC-T
*
5298868 CAAAGTCCACGACTCAGTGGCATTTTTTTTCTT
1 --AAGTCCACGACTCAGTGGCA-TCTTTTTC-T
* * * * *
5298901 CAAAATCCACGACTCAGTAGTATCTTTTCCCA
1 --AAGTCCACGACTCAGTGGCATCTTTT-TCT
* * * **
5298933 AAATCCATGACTCCGTGGCA-CCCTTT-T
1 AAGTCCACGACTCAGTGGCATCTTTTTCT
*
5298960 AAGTCCACGACTCCGTGGCA
1 AAGTCCACGACTCAGTGGCA
5298980 CCCTTTTAAA
Statistics
Matches: 195, Mismatches: 30, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
27 18 0.09
29 13 0.07
30 58 0.30
31 29 0.15
32 43 0.22
33 34 0.17
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (29 bp):
AAGTCCACGACTCAGTGGCATCTTTTTCT
Found at i:5298782 original size:62 final size:61
Alignment explanation
Indices: 5298705--5298928 Score: 231
Period size: 62 Copynumber: 3.6 Consensus size: 61
5298695 TTCTTCAAAT
* *
5298705 TTTTTCTTCAAAGTCCACAACTCAATGGCATCTCTTTTCTAAGTCCACGACTTAGTAGCATC
1 TTTTTCTTCAAAGTCCACAACTCAGTGGCATCT-TTTTCTAAGTCCACGACTTAGTGGCATC
* *
5298767 TTTTTCTTCCAAGTCCACGACTCAGTGGCAT-TTTTTCTTCAAAGTCCACGACTTAGTGGCATC
1 TTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTTTTC-T--AAGTCCACGACTTAGTGGCATC
* * *
5298830 TCTTTTC-T--AAGTCCACAACTTAGTAGCATCTTTTTCTTCAAAGTCCACGACTCAGTGGCATT
1 T-TTTTCTTCAAAGTCCACAACTCAGTGGCATCTTTTTC-T--AAGTCCACGACTTAGTGGCA-T
*
5298892 T
61 C
* * * *
5298893 TTTTTCTTCAAAATCCACGACTCAGTAGTATCTTTT
1 TTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTTT
5298929 CCCAAAATCC
Statistics
Matches: 140, Mismatches: 13, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
60 5 0.04
61 20 0.14
62 62 0.44
63 26 0.19
64 5 0.04
65 22 0.16
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (61 bp):
TTTTTCTTCAAAGTCCACAACTCAGTGGCATCTTTTTCTAAGTCCACGACTTAGTGGCATC
Found at i:5298862 original size:93 final size:93
Alignment explanation
Indices: 5298703--5298916 Score: 356
Period size: 93 Copynumber: 2.3 Consensus size: 93
5298693 AATTCTTCAA
* *
5298703 ATTTTTTCTTCAAAGTCCACAACTCAATGGCATCTCTTTTCTAAGTCCACGACTTAGTAGCATCT
1 ATTTTTTCTTCAAAGTCCACGACTCAATGGCATCTCTTTTCTAAGTCCACAACTTAGTAGCATCT
*
5298768 TTTTCTTCCAAGTCCACGACTCAGTGGC
66 TTTTCTTCAAAGTCCACGACTCAGTGGC
* *
5298796 ATTTTTTCTTCAAAGTCCACGACTTAGTGGCATCTCTTTTCTAAGTCCACAACTTAGTAGCATCT
1 ATTTTTTCTTCAAAGTCCACGACTCAATGGCATCTCTTTTCTAAGTCCACAACTTAGTAGCATCT
5298861 TTTTCTTCAAAGTCCACGACTCAGTGGC
66 TTTTCTTCAAAGTCCACGACTCAGTGGC
*
5298889 ATTTTTTTTCTTCAAAATCCACGACTCA
1 A--TTTTTTCTTCAAAGTCCACGACTCA
5298917 GTAGTATCTT
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
93 89 0.79
95 23 0.21
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (93 bp):
ATTTTTTCTTCAAAGTCCACGACTCAATGGCATCTCTTTTCTAAGTCCACAACTTAGTAGCATCT
TTTTCTTCAAAGTCCACGACTCAGTGGC
Found at i:5299026 original size:34 final size:32
Alignment explanation
Indices: 5298954--5299501 Score: 366
Period size: 27 Copynumber: 17.9 Consensus size: 32
5298944 TCCGTGGCAC
*
5298954 CCTTTTAAGTCCACGACTCCGTGGCA-C----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
* *
5298981 CCTTTTAAAGCCCACAACTACGTGGCACCTTTT
1 CCTTTT-AAGTCCACAACTCCGTGGCACCTTTT
* *
5299014 CCTTTTCAAAGCCCACAACTCTGTGGCACCTTTT
1 CCTTTT--AAGTCCACAACTCCGTGGCACCTTTT
* * *
5299048 TCTTTTCAAAGTCCATAACTCTGTGGCA-C----
1 CCTTTT--AAGTCCACAACTCCGTGGCACCTTTT
* *
5299077 CCTTTTAAGTCCATAACTCCGTGGCCCCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTT-TT
* *
5299110 CCTTTAAAGCCCACAACTCCGTGGCA-C----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
* *
5299137 CCTTTTAAGTCTACAACTCTGTGGCACCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTT-TT
* *
5299170 CCTTTTAAGTCCACAACTCTGTGGCACCATTTCC
1 CCTTTTAAGTCCACAACTCCGTGGCACC-TTT-T
*
5299204 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCAC-C-TTTT
*
5299238 CCTTTTAAGTCTACAACTCCGTGGCA-C----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
*
5299265 CCTTTTAAGTCCATAACTCCGTGGCACCCTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CCTTTT
* *
5299298 CCCTTTTAAGCCCACAACTCCGAGGCACTCTTTTT
1 -CCTTTTAAGTCCACAACTCCGTGGCAC-C-TTTT
* *
5299333 CCTTTTAAGTCCATAACTCTGTGGCA-C----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
*
5299360 CCTTTTAAGCCCACAACTCCGTGGCA-C---T
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
**
5299388 -CTTTTAAGTCCACAACTCTATGGCA-C----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
5299414 CCTTTTAAGTCCACAACTCCGTGGCA-C----
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
** * **
5299441 CCTTTTAAGTTTACAACTCCGTCGCATTTTTCT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTT-T
* * *
5299474 CCTTTTAAGCCCACAAGTCAGTGGCACC
1 CCTTTTAAGTCCACAACTCCGTGGCACC
5299502 CCTTTCAAAA
Statistics
Matches: 426, Mismatches: 56, Indels: 72
0.77 0.10 0.13
Matches are distributed among these distances:
27 164 0.38
28 19 0.04
29 7 0.02
32 3 0.01
33 78 0.18
34 147 0.35
35 8 0.02
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.32
Consensus pattern (32 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
Found at i:5299262 original size:68 final size:67
Alignment explanation
Indices: 5298981--5299365 Score: 312
Period size: 61 Copynumber: 6.0 Consensus size: 67
5298971 TCCGTGGCAC
* * * * *
5298981 CCTTTTAAAGCCCACAACTACGTGGCACC-TTTTCCTTTTCAAAGCCCACAACTCTGTGGCA-CC
1 CCTTTT-AAGTCCACAACTCCGTGGCACCATTTCCCTTTT--AAGTCCACAACTCCGTGGCACCC
5299044 TTTTT
63 TTTTT
* * *
5299049 -CTTTTCAAAGTCCATAACTCTGTGG---CA---CCCTTTTAAGTCCATAACTCCGTGGC-CCCT
1 CCTTTT--AAGTCCACAACTCCGTGGCACCATTTCCCTTTTAAGTCCACAACTCCGTGGCACCCT
*
5299106 TGTT
64 TTTT
* * * * *
5299110 CCTTTAAAGCCCACAACTCCGTGG---CA---CCCTTTTAAGTCTACAACTCTGTGGCA-CCTTG
1 CCTTTTAAGTCCACAACTCCGTGGCACCATTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
5299168 TT
66 TT
* * *
5299170 CCTTTTAAGTCCACAACTCTGTGGCACCATTTCCCCTTTTAAGCCCACAACTCCGTGGCACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCATTT-CCCTTTTAAGTCCACAACTCCGTGGCACCCTT
5299235 TTT
65 TTT
* *
5299238 CCTTTTAAGTCTACAACTCCGTGG---CA---CCCTTTTAAGTCCATAACTCCGTGGCACCCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCATTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
*
5299297 TC
66 TT
* * * * * *
5299299 CCTTTTAAGCCCACAACTCCGAGGCACTCTTTTTCCTTTTAAGTCCATAACTCTGTGGCACCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCAC-CATTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTT
5299364 TT
65 TT
5299366 AAGCCCACAA
Statistics
Matches: 261, Mismatches: 36, Indels: 40
0.77 0.11 0.12
Matches are distributed among these distances:
60 68 0.26
61 74 0.28
62 4 0.02
63 8 0.03
65 4 0.02
67 29 0.11
68 74 0.28
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (67 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCATTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTT
TT
Found at i:5299302 original size:95 final size:92
Alignment explanation
Indices: 5298954--5299501 Score: 538
Period size: 95 Copynumber: 5.9 Consensus size: 92
5298944 TCCGTGGCAC
* * *
5298954 CCTTTTAAGTCCACGACTCCGTGGCACCCTTTTAAAGCCCACAACTACGTGGCACCTTTTCCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCTTTTCCTTT
*
5299019 TCAAAGCCCACAACTCTGTGGCACCTTTTT
65 T--AAGCCCACAACTCCGTGGCACCTTTTT
* * * *
5299049 -CTTTTCAAAGTCCATAACTCTGTGGCACCCTTTTAAGTCCATAACTCCGTGGCCCCTTGTTCCT
1 CCTTTT--AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCT
*
5299113 TTAAAGCCCACAACTCCGTGGCA-C-----
63 TTTAAGCCCACAACTCCGTGGCACCTTTTT
* * *
5299137 CCTTTTAAGTCTACAACTCTGTGGCACCTTGTTCCTTTTAAGTCCACAACTCTGTGGCACCATTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-C-----CCTTTTAAGTCCACAACTCCGTGGCACC-TTT
*
5299202 CCCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
59 -TCCTTTTAAGCCCACAACTCCGTGGCAC-CTTTTT
* *
5299238 CCTTTTAAGTCTACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCACCCTTTTCCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTT-CCTT
*
5299303 TTAAGCCCACAACTCCGAGGCACTCTTTTT
64 TTAAGCCCACAACTCCGTGGCAC-CTTTTT
* * *
5299333 CCTTTTAAGTCCATAACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCA-C---T-CTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
* **
5299393 AAGTCCACAACTCTATGGCA-C-----
66 AAGCCCACAACTCCGTGGCACCTTTTT
** * **
5299414 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTTTACAACTCCGTCGCATTTTTCTCCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTT-TCCTTT
* *
5299479 TAAGCCCACAAGTCAGTGGCACC
65 TAAGCCCACAACTCCGTGGCACC
5299502 CCTTTCAAAA
Statistics
Matches: 384, Mismatches: 41, Indels: 63
0.79 0.08 0.13
Matches are distributed among these distances:
81 47 0.12
86 2 0.01
87 39 0.10
88 23 0.06
89 5 0.01
90 1 0.00
93 28 0.07
94 51 0.13
95 128 0.33
96 34 0.09
100 1 0.00
101 25 0.07
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.32
Consensus pattern (92 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTT
AAGCCCACAACTCCGTGGCACCTTTTT
Found at i:5299551 original size:29 final size:30
Alignment explanation
Indices: 5299480--5299604 Score: 168
Period size: 29 Copynumber: 4.3 Consensus size: 30
5299470 TTCTCCTTTT
5299480 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
*
5299510 AAGCCCACAAGTCGGTGGCACCCCTTTC-A
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
*
5299539 AAGCCCACAAGTCAGTGGCA-ACC-TTCAA
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
* ** *
5299567 AAGCACACAAGTTGGT-GCAACCCTTTCAA
1 AAGCCCACAAGTCAGTGGCACCCCTTTCAA
5299596 AAGCCCACA
1 AAGCCCACA
5299605 CAAGTTGGTG
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
27 6 0.07
28 18 0.21
29 33 0.39
30 27 0.32
ACGTcount: A:0.32, C:0.34, G:0.18, T:0.16
Consensus pattern (30 bp):
AAGCCCACAAGTCAGTGGCACCCCTTTCAA
Found at i:5299599 original size:57 final size:59
Alignment explanation
Indices: 5299480--5299604 Score: 184
Period size: 57 Copynumber: 2.2 Consensus size: 59
5299470 TTCTCCTTTT
* * *
5299480 AAGCCCACAAGTCAGTGGCACCCCTTTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCA
1 AAGCCCACAAGTCAGTGGCACACCTTTCAAAAGCACACAAGTCGGTGGCAACCCTTTCA
*
5299539 AAGCCCACAAGTCAGTGGCA-ACC-TTCAAAAGCACACAAGTTGGT-GCAACCCTTTCAA
1 AAGCCCACAAGTCAGTGGCACACCTTTCAAAAGCACACAAGTCGGTGGCAACCCTTTC-A
5299596 AAGCCCACA
1 AAGCCCACA
5299605 CAAGTTGGTG
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
56 10 0.16
57 29 0.48
58 2 0.03
59 20 0.33
ACGTcount: A:0.32, C:0.34, G:0.18, T:0.16
Consensus pattern (59 bp):
AAGCCCACAAGTCAGTGGCACACCTTTCAAAAGCACACAAGTCGGTGGCAACCCTTTCA
Found at i:5299810 original size:87 final size:87
Alignment explanation
Indices: 5299631--5300150 Score: 743
Period size: 87 Copynumber: 6.0 Consensus size: 87
5299621 TCTTCTAAGT
* * * *
5299631 CCAATATCTCTGACCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACTAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAACATATTGGCACC-TTGTCTTTAAGACTAATGTCGCTGGCCT
*
5299696 TGAATCAGCACATTGGCACAAGT
65 TGAATCAGCACATTGGCACAAGC
* * * *
5299719 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTCTAAGACCAATGTTGCTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACTAATGTCGCTGGCCTT
*
5299784 GAATCAGCACATTGGCATAAGC
66 GAATCAGCACATTGGCACAAGC
* * *
5299806 CCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACTAATATCGCTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACTAATGTCGCTGGCCTT
*
5299871 GAATCAGCACATTGGCACAAGT
66 GAATCAGCACATTGGCACAAGC
* * * * **
5299893 CCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTAAGACTAATGTCATTGGCCT
1 CCAATATCGCTGGCCTTGAATCAACATATTGGCACC-TTGTCTTTAAGACTAATGTCGCTGGCCT
5299958 TGAATCAGCACATTGGCACAAGC
65 TGAATCAGCACATTGGCACAAGC
* * *
5299981 CCAATATCGGTGGCCTTGAATTAGCATATTGGCACCTTGTCTTTAAGACTAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACTAATGTCGCTGGCCTT
* * *
5300046 GAATCAACACATTAGCATAAGC
66 GAATCAGCACATTGGCACAAGC
* * * *
5300068 CCAATATCGCTGGCCCTAAATCAACATATTGGCACCTTGTCTTTAAGACCAATATCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACTAATGTCGCTGGCCTT
*
5300133 GAATCAGCATATTGGCAC
66 GAATCAGCACATTGGCAC
5300151 CTATACCTTT
Statistics
Matches: 383, Mismatches: 48, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
87 273 0.71
88 110 0.29
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACTAATGTCGCTGGCCTT
GAATCAGCACATTGGCACAAGC
Found at i:5299969 original size:175 final size:172
Alignment explanation
Indices: 5299626--5300149 Score: 751
Period size: 175 Copynumber: 3.0 Consensus size: 172
5299616 CGTCTTCTTC
* * *
5299626 TAAGTCCAATATCTCTGACCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACTAATGTCGCT
1 TAAGCCCAATATCGCTG-CCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGACTAATGTCGCT
5299691 GGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCT
64 GGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCT
* *
5299756 TGTCTCTAAGACCAATGTTGCTAGCCTTGAATCAGCACATTGGCA
129 TGTCT-TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * *
5299801 TAAGCCCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACTAATATCGCTA
1 TAAGCCCAATATCGCT-GCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACTAATGTCGCTG
* *
5299866 GCCTTGAATCAGCACATTGGCACAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
65 GCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACC-T
* * **
5299931 TATCATTAAGACTAATGTCATTGGCCTTGAATCAGCACATTGGCA
129 TGTC-TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
* * *
5299976 CAAGCCCAATATCGGTGGCCTTGAATTAGCATATTGGCACCTTGTCTTTAAGACTAATGTCGCTG
1 TAAGCCCAATATCGCT-GCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACTAATGTCGCTG
* * * * * *
5300041 GCCTTGAATCAACACATTAGCATAAGCCCAATATCGCTGGCCCTAAATCAACATATTGGCACCTT
65 GCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTT
* *
5300106 GTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA
130 GTC-TTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
5300150 CCTATACCTT
Statistics
Matches: 310, Mismatches: 36, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
174 121 0.39
175 187 0.60
176 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (172 bp):
TAAGCCCAATATCGCTGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACTAATGTCGCTGG
CCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTG
TCTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:5300047 original size:223 final size:224
Alignment explanation
Indices: 5299801--5300337 Score: 671
Period size: 223 Copynumber: 2.4 Consensus size: 224
5299791 CACATTGGCA
* * * * * *
5299801 TAAGCCCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACTAATATCGCTA
1 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCA-CTTGTCTTTAAGACCAATATCGCTG
* * *
5299866 GCCTTGAATCAGCACATTGGCA-C-AAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACC
65 GCCTTGAATCAGCATATTGGCATCTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * * * * *
5299929 TTTATCATTAAGACTAATGTCATTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGGTGG
130 TATACCATTAAGACCAATGTCACTGGCCTTAAATCAGCACATTGGCACAAGCCCAATATCGCTGG
5299994 CCTTGAATTAGCATATTGGCACCTTGTCTT
195 CCTTGAATTAGCATATTGGCACCTTGTCTT
* * *
5300024 TAAGACTAATGTCGCTGGCCTTGAATCAACACATT---A---G-C-ATAAGCCCAATATCGCTGG
1 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCACTTGTCTTTAAGACCAATATCGCTGG
* * *
5300081 CCCTAAATCAACATATTGGCACCTTGTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATT
66 CCTTGAATCAGCATATTGGCA-----TC--TAAGACCAATATCGCTGGCCTTGAATCAGCATATT
* *
5300146 GGCACCTATACCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCACAAGCCCAATAT
124 GGCACCTATACCATTAAGACCAATGTCACTGGCCTTAAATCAGCACATTGGCACAAGCCCAATAT
5300211 CGCTGGCCTTGAATTAGCATATTGGCACCTTGTCTT
189 CGCTGGCCTTGAATTAGCATATTGGCACCTTGTCTT
* * * *
5300247 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAGTCCAATATCGTT
1 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCAC-TT-GTCTTTAAGACCAATATCGCT
5300312 GGCCTTGAATCAGCATATTGGCATCT
64 GGCCTTGAATCAGCATATTGGCATCT
5300338 TTAACATTCC
Statistics
Matches: 263, Mismatches: 32, Indels: 35
0.80 0.10 0.11
Matches are distributed among these distances:
214 32 0.12
215 1 0.00
216 1 0.00
220 2 0.01
223 188 0.71
226 2 0.01
228 2 0.01
232 1 0.00
233 34 0.13
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (224 bp):
TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCACTTGTCTTTAAGACCAATATCGCTGG
CCTTGAATCAGCATATTGGCATCTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
ATACCATTAAGACCAATGTCACTGGCCTTAAATCAGCACATTGGCACAAGCCCAATATCGCTGGC
CTTGAATTAGCATATTGGCACCTTGTCTT
Found at i:5300109 original size:262 final size:262
Alignment explanation
Indices: 5299627--5300150 Score: 850
Period size: 262 Copynumber: 2.0 Consensus size: 262
5299617 GTCTTCTTCT
* * *
5299627 AAGTCCAATATCTCTGACCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACTAATGTCGCTG
1 AAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCACCTTTATCATTAAGACTAATGTCACTG
*
5299692 GCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTT
66 GCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTT
* * * *
5299757 GTCTCTAAGACCAATGTTGCTAGCCTTGAATCAGCACATTGGCATAAGCCCAATATCGCTAGCCT
131 GTCTCTAAGACCAATGTCGCTAGCCTTGAATCAACACATTAGCATAAGCCCAATATCGCTAGCCC
* *
5299822 TGAATCAACATATTGGCACCTTGTCTTTAAGACTAATATCGCTAGCCTTGAATCAGCACATTGGC
196 TAAATCAACATATTGGCACCTTGTCTTTAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGC
5299887 AC
261 AC
* * *
5299889 AAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCATTAAGACTAATGTCATTG
1 AAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCACCTTTATCATTAAGACTAATGTCACTG
* * *
5299954 GCCTTGAATCAGCACATTGGCACAAGCCCAATATCGGTGGCCTTGAATTAGCATATTGGCACCTT
66 GCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTT
* * * *
5300019 GTCTTTAAGACTAATGTCGCTGGCCTTGAATCAACACATTAGCATAAGCCCAATATCGCTGGCCC
131 GTCTCTAAGACCAATGTCGCTAGCCTTGAATCAACACATTAGCATAAGCCCAATATCGCTAGCCC
* *
5300084 TAAATCAACATATTGGCACCTTGTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGC
196 TAAATCAACATATTGGCACCTTGTCTTTAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGC
5300149 AC
261 AC
5300151 CTATACCTTT
Statistics
Matches: 240, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
262 240 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (262 bp):
AAGTCCAATATCGCTGACCTTGAATCAGCATATTGGCACCTTTATCATTAAGACTAATGTCACTG
GCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTT
GTCTCTAAGACCAATGTCGCTAGCCTTGAATCAACACATTAGCATAAGCCCAATATCGCTAGCCC
TAAATCAACATATTGGCACCTTGTCTTTAAGACCAATATCGCTAGCCTTGAATCAGCACATTGGC
AC
Found at i:5300178 original size:49 final size:48
Alignment explanation
Indices: 5300063--5300430 Score: 308
Period size: 49 Copynumber: 7.8 Consensus size: 48
5300053 CACATTAGCA
* * * * * *
5300063 TAAGCCCAATATCGCTGGCCCTAAATCAACATATTGGCACCTTGTCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* *
5300111 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTATACCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCT-TATCTT
* *
5300160 TAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGG---C--A-C--
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* * * *
5300200 -AAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTGTCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
* *
5300247 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTT
* * * * *
5300296 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA-CCTTATC-TT
* * * ** *
5300346 CCTAAGCCCAATGTCGTTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTT
1 --TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT-ATCTT
* * * * *
5300395 CAAGTCTAATGTCGCTAGCCTTGAATCAGCACATTG
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTG
5300431 TCATTCTTTT
Statistics
Matches: 264, Mismatches: 40, Indels: 33
0.78 0.12 0.10
Matches are distributed among these distances:
39 31 0.12
42 2 0.01
43 1 0.00
45 1 0.00
46 1 0.00
47 29 0.11
48 75 0.28
49 83 0.31
50 7 0.03
52 34 0.13
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (48 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTATCTT
Found at i:5300220 original size:262 final size:256
Alignment explanation
Indices: 5299675--5300238 Score: 686
Period size: 262 Copynumber: 2.2 Consensus size: 256
5299665 CCTTTATCTT
* * *
5299675 TAAGACTAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAAT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAAT
* * *
5299740 CAACATATTGGCACCTTGTCTCTAAGACCAATGTTGCTAGCCTTGAATCAGCACATTGGCATAAG
66 CAACATATTGGCACCTTGTCTCTAAGACCAATGTCGCTAGCCTTGAATCAACACATTAGCATAAG
* * *
5299805 CCCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTGTCTTTAAGACTAATATCGCTAGCCT
131 CCCAATATCGCTAGCCCTAAATCAACATATTGGCACCTTGTCTTTAAGACCAATATCGCTAGCCT
* * * *
5299870 TGAATCAGCACATTGGCACAAGTCCGATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
196 TGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTAAATCAGCACATTGG--CC--TATC
* * ** *
5299935 ATTAAGACTAATGTCATTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGGTGGCCTTGA
1 --TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGA
* * * * *
5300000 ATTAGCATATTGGCACCTTGTCTTTAAGACTAATGTCGCTGGCCTTGAATCAACACATTAGCATA
64 ATCAACATATTGGCACCTTGTCTCTAAGACCAATGTCGCTAGCCTTGAATCAACACATTAGCATA
* *
5300065 AGCCCAATATCGCTGGCCCTAAATCAACATATTGGCACCTTGTCTTTAAGACCAATATCGCTGGC
129 AGCCCAATATCGCTAGCCCTAAATCAACATATTGGCACCTTGTCTTTAAGACCAATATCGCTAGC
* *
5300130 CTTGAATCAGCATATTGGCACCTATACCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATT
194 CTTGAATCAGCACATTGG---C---A-C---AAGACCAATATCGCTGGCCTTAAATCAGCACATT
5300195 GG-C-A-C
249 GGCCTATC
* * *
5300200 -AAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCAC
1 TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
5300239 CTTGTCTTTA
Statistics
Matches: 262, Mismatches: 30, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
262 225 0.86
265 2 0.01
266 1 0.00
268 1 0.00
269 2 0.01
272 31 0.12
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (256 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAAT
CAACATATTGGCACCTTGTCTCTAAGACCAATGTCGCTAGCCTTGAATCAACACATTAGCATAAG
CCCAATATCGCTAGCCCTAAATCAACATATTGGCACCTTGTCTTTAAGACCAATATCGCTAGCCT
TGAATCAGCACATTGGCACAAGACCAATATCGCTGGCCTTAAATCAGCACATTGGCCTATC
Found at i:5300280 original size:87 final size:88
Alignment explanation
Indices: 5300116--5300286 Score: 299
Period size: 87 Copynumber: 2.0 Consensus size: 88
5300106 GTCTTTAAGA
5300116 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTATACCTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTATACCTTTAAGACCAATGTCGCTGGCCT
5300181 TAAATCAGCACATTGGCACAAGC
66 TAAATCAGCACATTGGCACAAGC
* **
5300204 CCAATATCGCTGGCCTTGAATTAGCATATTGGCACCT-TGTCTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTATACCTTTAAGACCAATGTCGCTGGCCT
*
5300268 TGAATCAGCACATTGGCAC
66 TAAATCAGCACATTGGCAC
5300287 TTTCATCTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
87 43 0.54
88 36 0.46
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (88 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTATACCTTTAAGACCAATGTCGCTGGCCT
TAAATCAGCACATTGGCACAAGC
Found at i:5300324 original size:136 final size:135
Alignment explanation
Indices: 5299719--5300334 Score: 566
Period size: 136 Copynumber: 4.6 Consensus size: 135
5299709 TGGCACAAGT
* * * * * *
5299719 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTCTAAGACCAATGTTGCTAGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCTGGCCTT
* * * *
5299784 GAATCAGCACATTGGCATAAGCCCAATATCGCTAGCCTTGAATCAACATATTGGCACCTTGTCTT
66 GAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCCTAAATCAACATATTGGCACCTTGTCTT
5299849 TAAGA
131 TAAGA
* * * * * *
5299854 CTAATATCGCTAGCCTTGAATCAGCACATTGG--C---A-C---AAGTCCGATATCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCTGGCCTT
* * * * ** * * * *
5299910 GAATCAGCATATTGGCACCTTTATCATTAAGACTAATGTCATTGGCCTTGAATCAGCACATTGGC
66 GAATCAGCACATTGG---C---A-C---AAGCCCAATATCGCTGGCCCTAAATCAACATATTGGC
*
5299975 A------C---AAGC
121 ACCTTGTCTTTAAGA
* * * * *
5299981 CCAATATCGGTGGCCTTGAATTAGCATATTGGCACCTTGTCTTTAAGACTAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCTGGCCTT
* * *
5300046 GAATCAACACATTAGCATAAGCCCAATATCGCTGGCCCTAAATCAACATATTGGCACCTTGTCTT
66 GAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCCTAAATCAACATATTGGCACCTTGTCTT
5300111 TAAGA
131 TAAGA
* *
5300116 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTATACCTTTAAGACCAATGTCGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CTTTATCTTTAAGACCAATGTCGCTGGCCT
* * * * *
5300181 TAAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTGTCT
65 TGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCCTAAATCAACATATTGGCACCTTGTCT
5300246 TTAAGA
130 TTAAGA
* * * * *
5300252 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTTTAAGTCCAATATCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTT-ATCTTTAAGACCAATGTCGCTGGCCT
*
5300317 TGAATCAGCATATTGGCA
65 TGAATCAGCACATTGGCA
5300335 TCTTTAACAT
Statistics
Matches: 382, Mismatches: 69, Indels: 59
0.75 0.14 0.12
Matches are distributed among these distances:
126 59 0.15
127 30 0.08
129 3 0.01
130 2 0.01
132 2 0.01
133 3 0.01
135 66 0.17
136 217 0.57
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (135 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACTTTATCTTTAAGACCAATGTCGCTGGCCTT
GAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCCTAAATCAACATATTGGCACCTTGTCTT
TAAGA
Found at i:5300377 original size:52 final size:50
Alignment explanation
Indices: 5300204--5300476 Score: 197
Period size: 52 Copynumber: 5.5 Consensus size: 50
5300194 TGGCACAAGC
* * * * *
5300204 CCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTGTC-T-T-TAAGA
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCATCTT-TCATCTCTAAGA
* * *
5300252 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CTTTCATCTTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCATCTTTCATCTCTAAGA
* * *
5300301 CCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACAT-TCCTAAGC
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCATCTTT--CATCT-CTAAGA
** *
5300353 CCAATGTCGTTGGCCTTGTCTCAGCACATTGGCAT-TCTTC-T-TC-AAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCATCT-TTCATCTCTAAGA
* * * * *
5300400 CTAATGTCGCTAGCCTTGAATCAGCACATTGTCATTCTTTTCATCTTTAA-A
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-TC-TTTCATCTCTAAGA
* * * *
5300451 CCCAATATTGTTGGTCGTGAATCAGC
1 -CCAATGTCGTTGGCCTTGAATCAGC
5300477 GTATTGGTCC
Statistics
Matches: 181, Mismatches: 29, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
46 2 0.01
47 35 0.19
48 34 0.19
49 40 0.22
50 7 0.04
51 3 0.02
52 60 0.33
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (50 bp):
CCAATGTCGTTGGCCTTGAATCAGCACATTGGCATCTTTCATCTCTAAGA
Found at i:5300464 original size:99 final size:100
Alignment explanation
Indices: 5300199--5300476 Score: 232
Period size: 99 Copynumber: 2.8 Consensus size: 100
5300189 CACATTGGCA
* * * * * *
5300199 CAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGGCACCTTGT--C-TT--TAAGA-CCAATG
1 CAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCATCTT-TAACATTCCTAA-ACCCAATA
*
5300258 TCGCTGGCCTTGAATCAGCACATTGGCACTTTCATCTT
64 TCGTTGGCCTTGAATCAGCACATTGGCAC-TTCATCTT
* * * * * *
5300296 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTC
1 CAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCATCTTTAACATTCCTAAACCCAATATC
** *
5300361 GTTGGCCTTGTCTCAGCACATTGGCA-TTCTTCTT
66 GTTGGCCTTGAATCAGCACATTGGCACTTCATCTT
* * * * *
5300395 CAAGTCTAATGTCGCTAGCCTTGAATCAGCACATTGTCATTCTTT-TCA-TCTTTAAACCCAATA
1 CAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCA-TCTTTAACATTC-CTAAACCCAATA
* * *
5300458 TTGTTGGTCGTGAATCAGC
64 TCGTTGGCCTTGAATCAGC
5300477 GTATTGGTCC
Statistics
Matches: 147, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
96 1 0.01
97 38 0.26
98 3 0.02
99 66 0.45
100 5 0.03
101 34 0.23
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (100 bp):
CAAGTCCAATATCGCTAGCCTTGAATCAGCACATTGGCATCTTTAACATTCCTAAACCCAATATC
GTTGGCCTTGAATCAGCACATTGGCACTTCATCTT
Found at i:5301191 original size:19 final size:19
Alignment explanation
Indices: 5301167--5301227 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
5301157 ACAGTAAATA
5301167 TATCGATACATAAGTGTTG
1 TATCGATACATAAGTGTTG
5301186 TATCGATAC--AA----TG
1 TATCGATACATAAGTGTTG
5301199 TATCGATACATAAGTGTTG
1 TATCGATACATAAGTGTTG
*
5301218 TATCAATACA
1 TATCGATACA
5301228 ATGTATCACT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.31
15 2 0.06
17 2 0.06
19 20 0.57
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.34
Consensus pattern (19 bp):
TATCGATACATAAGTGTTG
Found at i:5301202 original size:13 final size:13
Alignment explanation
Indices: 5301184--5301208 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5301174 ACATAAGTGT
5301184 TGTATCGATACAA
1 TGTATCGATACAA
5301197 TGTATCGATACA
1 TGTATCGATACA
5301209 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:5301208 original size:32 final size:32
Alignment explanation
Indices: 5301167--5301234 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
5301157 ACAGTAAATA
*
5301167 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCAATACAATG
5301199 TATCGATACATAAGTGTTGTATCAATACAATG
1 TATCGATACATAAGTGTTGTATCAATACAATG
5301231 TATC
1 TATC
5301235 ACTACAAAGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCAATACAATG
Found at i:5301297 original size:13 final size:13
Alignment explanation
Indices: 5301279--5301306 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5301269 CATTGAATAA
5301279 TGTATCGATACAT
1 TGTATCGATACAT
5301292 TGTATCGATACAT
1 TGTATCGATACAT
5301305 TG
1 TG
5301307 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5301301 original size:33 final size:33
Alignment explanation
Indices: 5301259--5301324 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
5301249 GCCAAGGAAA
5301259 TGTATCGATACATTGAAT-AATGTATCGATACAT
1 TGTATCGATACATTG-ATCAATGTATCGATACAT
**
5301292 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
5301325 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 2 0.07
33 28 0.93
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:5304588 original size:13 final size:13
Alignment explanation
Indices: 5304570--5304595 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5304560 CAATTTTTTG
5304570 TGTATCGATACAT
1 TGTATCGATACAT
5304583 TGTATCGATACAT
1 TGTATCGATACAT
5304596 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5304592 original size:33 final size:33
Alignment explanation
Indices: 5304550--5304614 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
5304540 TACAAGCCAA
* *
5304550 TGTATCGATACA-ATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTTGGTGTATCGATACAT
5304583 TGTATCGATACATACTTTGGTGTATCGATACA
1 TGTATCGATACATACTTTGGTGTATCGATACA
5304615 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATACTTTGGTGTATCGATACAT
Found at i:5306000 original size:22 final size:24
Alignment explanation
Indices: 5305970--5306013 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
5305960 CCTCTCAATC
*
5305970 TCTTCAAGA-ATTATACCCCAAAT
1 TCTTCAAGAGATTATAACCCAAAT
5305993 TCTT-AAGAGATTATAACCCAA
1 TCTTCAAGAGATTATAACCCAA
5306014 GGTTGAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (24 bp):
TCTTCAAGAGATTATAACCCAAAT
Found at i:5306788 original size:128 final size:128
Alignment explanation
Indices: 5306560--5306817 Score: 507
Period size: 128 Copynumber: 2.0 Consensus size: 128
5306550 TTAATGTATC
5306560 AGTACAAATACCTATGTATCGATACTTTGGATTATTTTTACTTGAAAACATTCGATTTAAGGCTT
1 AGTACAAATACCTATGTATCGATACTTTGGATTATTTTTACTTGAAAACATTCGATTTAAGGCTT
5306625 GAAAACACTTATATGAAACTCTAAAACATTATTGATATTGAAAATCACTTAGAACACGGTTTT
66 GAAAACACTTATATGAAACTCTAAAACATTATTGATATTGAAAATCACTTAGAACACGGTTTT
5306688 AGTACAAATACCTATGTATCGATACTTTGGATTATTTTTACTTGAAAACATTCGATTTAAGGCTT
1 AGTACAAATACCTATGTATCGATACTTTGGATTATTTTTACTTGAAAACATTCGATTTAAGGCTT
*
5306753 GAAAACACTTATATGAAACTCTAAAGCATTATTGATATTGAAAATCACTTAGAACACGGTTTT
66 GAAAACACTTATATGAAACTCTAAAACATTATTGATATTGAAAATCACTTAGAACACGGTTTT
5306816 AG
1 AG
5306818 AGTATTTTTA
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 129 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (128 bp):
AGTACAAATACCTATGTATCGATACTTTGGATTATTTTTACTTGAAAACATTCGATTTAAGGCTT
GAAAACACTTATATGAAACTCTAAAACATTATTGATATTGAAAATCACTTAGAACACGGTTTT
Found at i:5310838 original size:29 final size:29
Alignment explanation
Indices: 5310796--5310867 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
5310786 CATTGTTCAT
5310796 TGTATCGATACATTCTAGGTTTAACC-AGA
1 TGTATCGATACATTCTAGGTTT-ACCTAGA
*
5310825 TGTATCGATACATTCTGGGTTTACCTAGA
1 TGTATCGATACATTCTAGGTTTACCTAGA
5310854 TGTATCGATACATT
1 TGTATCGATACATT
5310868 TTACATTGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 3 0.07
29 38 0.93
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (29 bp):
TGTATCGATACATTCTAGGTTTACCTAGA
Found at i:5310914 original size:33 final size:33
Alignment explanation
Indices: 5310877--5310939 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
5310867 TTTACATTGA
*
5310877 ATCGATACATTGCTCATTGTATCGATACATCAT
1 ATCGATACATTGCTCATAGTATCGATACATCAT
5310910 ATCGATACATTGCTCATAGTATCGATACAT
1 ATCGATACATTGCTCATAGTATCGATACAT
5310940 TTTACAATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.35
Consensus pattern (33 bp):
ATCGATACATTGCTCATAGTATCGATACATCAT
Found at i:5310951 original size:20 final size:19
Alignment explanation
Indices: 5310853--5310961 Score: 79
Period size: 20 Copynumber: 5.8 Consensus size: 19
5310843 GTTTACCTAG
*
5310853 ATGTATCGATACATTTTACA
1 ATGTATCGATACATTCT-CA
* *
5310873 TTGAATCGATACATTGCTCA
1 ATGTATCGATACATT-CTCA
*
5310893 TTGTATCGATACA---TC-
1 ATGTATCGATACATTCTCA
5310908 A--TATCGATACATTGCTC-
1 ATGTATCGATACATT-CTCA
*
5310925 ATAGTATCGATACATTTTACA
1 AT-GTATCGATACATTCT-CA
5310946 ATGTATCGATACATTC
1 ATGTATCGATACATTC
5310962 AGGCATTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 20
0.73 0.07 0.20
Matches are distributed among these distances:
13 10 0.14
16 2 0.03
17 3 0.04
19 1 0.01
20 53 0.74
21 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (19 bp):
ATGTATCGATACATTCTCA
Found at i:5313416 original size:51 final size:51
Alignment explanation
Indices: 5313245--5313423 Score: 182
Period size: 51 Copynumber: 3.5 Consensus size: 51
5313235 AAATTTCTAG
* * * * **
5313245 ATTTTTCAT-CTCGGGGATACTCCAACGCCGGTTCCATTTCCAAAACATCA
1 ATTTTTCATAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
* * * * *
5313295 ATTTTTCTTAATCGAGGATACTGCAACTCCGATTTTATTTCTAAAGCATCG
1 ATTTTTCATAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
* * *
5313346 A-TTTACGGTAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACCA
1 ATTTTTC-ATAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
* * *
5313397 ATTTTTCACAATTGGGGATACTCCAAC
1 ATTTTTCATAATCGAGGATACTCCAAC
5313424 CCCGTTATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
50 12 0.12
51 87 0.84
52 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
ATTTTTCATAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACATCA
Found at i:5313555 original size:28 final size:27
Alignment explanation
Indices: 5313501--5313564 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
5313491 CGGGGGGTAG
5313501 TCCAACCCCGTTATTTCATCGGGGATAC
1 TCCAACCCCGTTATTT-ATCGGGGATAC
*
5313529 TCCAATCCCGTTATTT-TCGAGGTGATAC
1 TCCAACCCCGTTATTTATCG-GG-GATAC
*
5313557 TCTAACCC
1 TCCAACCC
5313565 TGATTATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 3 0.10
27 2 0.06
28 26 0.84
ACGTcount: A:0.22, C:0.31, G:0.16, T:0.31
Consensus pattern (27 bp):
TCCAACCCCGTTATTTATCGGGGATAC
Found at i:5313607 original size:51 final size:49
Alignment explanation
Indices: 5313552--5313726 Score: 167
Period size: 51 Copynumber: 3.4 Consensus size: 49
5313542 TTTTCGAGGT
*
5313552 GATACTCTAACCCTGATTATATTTCTAAAATACCAATTTTTCACAATCGGG
1 GATACTCTAACCC-GATT-TATTTCTAAAATATCAATTTTTCACAATCGGG
* * * * *
5313603 GATACTCCAACTCCGATTTTATTTCCAAAATATTAATTTCTCATAATCGGGG
1 GATACTCTAAC-CCGA-TTTATTTCTAAAATATCAATTTTTCACAATC-GGG
* *
5313655 GATACT-TCAACCCCGACCTTATTTCT-AAATCATCGATTTTTCACAATCGGG
1 GATACTCT-AA-CCCGA-TTTATTTCTAAAAT-ATCAATTTTTCACAATCGGG
*
5313706 GATACTCTAACCCCA-TTATTT
1 GATACTCTAACCCGATTTATTT
5313727 TCGAGGGGAT
Statistics
Matches: 102, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
48 6 0.06
50 4 0.04
51 51 0.50
52 40 0.39
53 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.35
Consensus pattern (49 bp):
GATACTCTAACCCGATTTATTTCTAAAATATCAATTTTTCACAATCGGG
Found at i:5313851 original size:79 final size:79
Alignment explanation
Indices: 5313652--5313871 Score: 207
Period size: 79 Copynumber: 2.8 Consensus size: 79
5313642 CTCATAATCG
* * * * * *
5313652 GGGGATACTTCAACCCCGACCTTATTTCT--AAATCATCGATTTT-TCACAATCGGGGATACTCT
1 GGGGATACTCCAACCCCGA-TTTATTTCTCAAAAT-ACCGATTTTCT-ATAATCAGGGATACTCC
* ** *
5313714 AACCCCATTATTTTCGA
63 AATCCTGTTATTTCCGA
* * * *
5313731 GGGGATACTCCAACCCTGATTTTTTTTTCAAAATACCGATTTTCTATAATTAGGGATACTCCAAT
1 GGGGATACTCCAACCCCGATTTATTTCTCAAAATACCGATTTTCTATAATCAGGGATACTCCAAT
5313796 CCTGTTATTTCCGA
66 CCTGTTATTTCCGA
* * *
5313810 GGGGATACTCCAACCCCGATTTCATTTCTC-CAA-CCCTGATTTTCTATAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGATTT-ATTTCTCAAAATACC-GATTTTCTATAATCAGGGATACTCC
5313872 GGCCCCGTTG
Statistics
Matches: 115, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
78 8 0.07
79 97 0.84
80 10 0.09
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTATTTCTCAAAATACCGATTTTCTATAATCAGGGATACTCCAAT
CCTGTTATTTCCGA
Found at i:5326327 original size:19 final size:18
Alignment explanation
Indices: 5326276--5326331 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
5326266 ACCTTCTTTT
* *
5326276 AAAAAAAAGAGAGAAAAA
1 AAAAAAAAAAAAGAAAAA
*
5326294 AAAAACAAAGCAAAGAAAAA
1 AAAAA-AAA-AAAAGAAAAA
5326314 AAGAAAAAAAAAAGAAAA
1 AA-AAAAAAAAAAGAAAA
5326332 GAACCTGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 5 0.16
19 11 0.34
20 13 0.41
21 3 0.09
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAGAAAAA
Found at i:5327499 original size:56 final size:55
Alignment explanation
Indices: 5327336--5327549 Score: 313
Period size: 55 Copynumber: 3.9 Consensus size: 55
5327326 TTTTCTTTTT
* * *
5327336 AAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAATAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTA
*
5327391 AAAGCCCACACAAGTTGGTGGCACCTTTTGGTCCTCAAAGAGCAGGACGCCTTTA
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTA
** *
5327446 AAAGCCCACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTT
1 AAAGCCCACACAAGTTGGTGGCA-CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTA
* **
5327502 AAAGCCCACACAGGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGAC
1 AAAGCCCACACAAGTTGGTGGCACCTT-TTAGTCCTCAAAGAGCAGGAC
5327550 ACTCTCTCTT
Statistics
Matches: 145, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
54 2 0.01
55 93 0.64
56 50 0.34
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (55 bp):
AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTA
Found at i:5327506 original size:111 final size:110
Alignment explanation
Indices: 5327336--5327549 Score: 322
Period size: 111 Copynumber: 1.9 Consensus size: 110
5327326 TTTTCTTTTT
*
5327336 AAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAATAGCAGGACGCCTTTCAAAGCCCACA
1 AAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
***
5327401 CAAGTTGGTGGCACCTT-TTGGTCCTCAAAGAGCAGGACGCCTTTA
66 CAAGTTGGTGGCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTTA
* ** *
5327446 AAAGCCCACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCAC
1 AAAGCCCACACAAGTTAGTGGCA-CCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCAC
*
5327511 ACAGGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGAC
65 ACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGAC
5327550 ACTCTCTCTT
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
110 25 0.27
111 68 0.73
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (110 bp):
AAAGCCCACACAAGTTAGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
CAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTTA
Found at i:5327771 original size:211 final size:205
Alignment explanation
Indices: 5327362--5327759 Score: 573
Period size: 211 Copynumber: 1.9 Consensus size: 205
5327352 AGTGGCACCT
* *
5327362 TTTAGTCCTCAAATAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTGGTCCTC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTC
* * *
5327427 AAAGAGCAGGACGCCTTTAAAAGCCCACACAAGTTGGTGGCATTTTTTTAGTCCTCAAAGAGCAG
66 AAAGAGCAAGACGCCTTTAAAAGCCCACACAAGTGGGTGGCATTTTTTCAGTCCTCAAAGAGCAG
* * * *
5327492 GACGCCTTTTAAAGCCCACACAGGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACACTCTCT
131 GACGCCTTTCAAAGCCCACACAAGTCGGTGGCAATTCCCAGTCCTCAAAGAGCAGGACACTCTCT
5327557 CTTTTCGCCC
196 CTTTTCGCCC
* * * **
5327567 TTTAGTCCTCAAGGAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCT
* *
5327632 CAAAGATCAAGACGCCTTTTCCTGTTAAAGCCCACACAAGTGGGTGGCA-TTTTTCAGTCCTCAA
65 CAAAGAGCAAGACGCC---T--T-TAAAAGCCCACACAAGTGGGTGGCATTTTTTCAGTCCTCAA
*
5327696 AGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCAATTTCCAGTCCTCAAAGAGCAGGA
124 AGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCAATTCCCAGTCCTCAAAGAGCAGGA
5327760 TGCTTTCTCT
Statistics
Matches: 169, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
205 51 0.30
206 20 0.12
209 1 0.01
211 74 0.44
212 23 0.14
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (205 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTC
AAAGAGCAAGACGCCTTTAAAAGCCCACACAAGTGGGTGGCATTTTTTCAGTCCTCAAAGAGCAG
GACGCCTTTCAAAGCCCACACAAGTCGGTGGCAATTCCCAGTCCTCAAAGAGCAGGACACTCTCT
CTTTTCGCCC
Found at i:5327807 original size:61 final size:60
Alignment explanation
Indices: 5327591--5327883 Score: 305
Period size: 61 Copynumber: 4.9 Consensus size: 60
5327581 AGTAGGACGC
* * * * *
5327591 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCTCAAAGATCAAGACGCCTTT-T
1 CTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACG-CTTTCT
* * *
5327652 CCTGTT-AAAGCCCACACAAGTGGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACG----C-
1 -CT-TTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCTTTCT
* * *
5327708 CTTTCAAAGCCCACACAAGTCGGTGGCAATTTCCAGTCCTCAAAGAGCAGGATGCTTTCT
1 CTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCTTTCT
* * *
5327768 CTTTGCAAAGCCCACACAAGTTGGTGACACCTTCCAGTCCTCAAAGAGCAGGACGCTTTTT
1 CTTT-CAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCTTTCT
* ** * *
5327829 CTTTTCAAAGCCCACA-TAGTTGGTGGCACTTTTTAGTCCTCAAAGAACAGAACGC
1 C-TTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGC
5327884 ACTTTATTTT
Statistics
Matches: 199, Mismatches: 22, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
54 2 0.01
55 47 0.24
59 1 0.01
60 36 0.18
61 84 0.42
62 27 0.14
63 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (60 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCTTTCT
Found at i:5327812 original size:116 final size:117
Alignment explanation
Indices: 5327570--5327823 Score: 327
Period size: 116 Copynumber: 2.2 Consensus size: 117
5327560 TTCGCCCTTT
* * * * * *
5327570 AGTCCTCAAGGAGTAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCTAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCATATTTCCAGTCCTCAA
* * ** *
5327635 AGATCAAGACGCCTTTTCCTGTTAAAGCCCACACAAGTGGGTGGCATTTTTC
66 AGAGCAAGACGCCTTTTCCTGTTAAAGCCCACACAAGTGGGTGACACCTTCC
5327687 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCA-ATTTCCAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCATATTTCCAGTCCTCAA
* * *
5327751 AGAGCAGGATG-C-TTTCTCT-TTGCAAAGCCCACACAAGTTGGTGACACCTTCC
66 AGAGCAAGACGCCTTTTC-CTGTT--AAAGCCCACACAAGTGGGTGACACCTTCC
5327803 AGTCCTCAAAGAGCAGGACGC
1 AGTCCTCAAAGAGCAGGACGC
5327824 TTTTTCTTTT
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
114 6 0.05
115 3 0.03
116 66 0.55
117 45 0.38
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (117 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTCGGTGGCATATTTCCAGTCCTCAA
AGAGCAAGACGCCTTTTCCTGTTAAAGCCCACACAAGTGGGTGACACCTTCC
Found at i:5327958 original size:43 final size:42
Alignment explanation
Indices: 5327859--5327966 Score: 139
Period size: 42 Copynumber: 2.5 Consensus size: 42
5327849 TGGTGGCACT
* *
5327859 TTTTAGTCCTCAAAGAACAGAACGCACTTTATTTTCCTCTTTC
1 TTTT-GTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTC
*
5327902 TTTTGTCCTCAAAGAGCAGGACGCA-TTTCGTTTTCCT-TTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTT-ATTTTCCTCTTTC
5327943 TCCTTTGTCCTCAAAGAGCAGGAC
1 T--TTTGTCCTCAAAGAGCAGGAC
5327967 ACGTTCAAGT
Statistics
Matches: 59, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
41 8 0.14
42 26 0.44
43 25 0.42
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (42 bp):
TTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTCTTTC
Found at i:5330507 original size:51 final size:51
Alignment explanation
Indices: 5330431--5330612 Score: 168
Period size: 51 Copynumber: 3.6 Consensus size: 51
5330421 AAATTTCTAG
* * * **
5330431 ATTTTTCAT-CTCGGGGAGACTCCAACCCCGGTTCCATTTCCAAAACATCA
1 ATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCA
* * * * * * *
5330481 ATTTTTCTTAATCAGGGATACTCCAACTCTGATTTTATTTCTAAAGCATCG
1 ATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCA
** ** * * * *
5330532 ATTTACCGCAATCGGGGGTACTCTAACTCCGATTTTATTTCCAAAACACCA
1 ATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCA
*
5330583 ATTTTTCATAATTGGGGATACTCCAACCCC
1 ATTTTTCATAATCGGGGATACTCCAACCCC
5330613 ATTATTTTAT
Statistics
Matches: 99, Mismatches: 32, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
50 8 0.08
51 91 0.92
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.33
Consensus pattern (51 bp):
ATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACATCA
Found at i:5330629 original size:28 final size:28
Alignment explanation
Indices: 5330597--5330668 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
5330587 TTCATAATTG
* **
5330597 GGGATACTCCAACCCCATTATTTTATCA
1 GGGATACTCCAACCCCATTATTTCAGAA
* * *
5330625 GGGATACTCCAACCTCGTTATTTCCGAA
1 GGGATACTCCAACCCCATTATTTCAGAA
5330653 GGGATACTCCAACCCC
1 GGGATACTCCAACCCC
5330669 GGCTTTATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.26
Consensus pattern (28 bp):
GGGATACTCCAACCCCATTATTTCAGAA
Found at i:5330715 original size:110 final size:107
Alignment explanation
Indices: 5330550--5330826 Score: 331
Period size: 110 Copynumber: 2.6 Consensus size: 107
5330540 CAATCGGGGG
* * * * * * * *
5330550 TACTCTAACTCCGATTTTATTTCCAAAACACCAATTTTTCATAATTGGGGATACTCCAACCCCAT
1 TACTCCAACCCCGACTTTATATCTAAAATACTAATTTTTCATAATCGGGGATACTCCAACCCCAT
*
5330615 TATTTTATCAGGGATACTCCAA-CCTCGTTATTTCCGAAGGGA
66 TATTTCATCAGGGATACTCCAATCC-CGTTATTTCCGAAGGGA
* * * *
5330657 TACTCCAACCCCGGCTTTATATCTAAAAATATTGATTTTTTTCATAATCGGGGGTACTCCAACCC
1 TACTCCAACCCCGACTTTATATCT-AAAATACT-A-ATTTTTCATAATCGGGGATACTCCAACCC
* ** *
5330722 CGTTATTTCATCAGGGATACTCCAATCCCGTTATTTTTGAGGGGA
63 CATTATTTCATCAGGGATACTCCAATCCCGTTATTTCCGAAGGGA
* * *
5330767 TACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTTCACAATCGGGGATACTCCAAC
1 TACTCCAACCCCGACTTTATATCTAAAATACTAATTTTTCATAATCGGGGATACTCCAAC
5330827 TTCGATTTTG
Statistics
Matches: 142, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
107 42 0.30
108 6 0.04
109 8 0.06
110 84 0.59
111 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (107 bp):
TACTCCAACCCCGACTTTATATCTAAAATACTAATTTTTCATAATCGGGGATACTCCAACCCCAT
TATTTCATCAGGGATACTCCAATCCCGTTATTTCCGAAGGGA
Found at i:5330744 original size:28 final size:28
Alignment explanation
Indices: 5330706--5330779 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
5330696 TTTCATAATC
*
5330706 GGGGGTACTCCAACCCCGTTATTTCATCA
1 GGGGATACTCCAACCCCGTTATTT-ATCA
* * *
5330735 -GGGATACTCCAATCCCGTTATTTTTGA
1 GGGGATACTCCAACCCCGTTATTTATCA
5330762 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
5330780 ATTTTATTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 2 0.05
28 37 0.95
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.27
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTATCA
Found at i:5330833 original size:51 final size:50
Alignment explanation
Indices: 5330762--5330933 Score: 184
Period size: 51 Copynumber: 3.4 Consensus size: 50
5330752 TTATTTTTGA
5330762 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACT-ATTTTTCACAATC
** * * * *
5330813 GGGGATACTCCAACTTCGATTTTGTTTCTAAAATATTGATTTCTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACT-ATTTTTCACAATC
* ** * *
5330864 GGGGGATACTTCAACCCCGACCTTATTT-TTAAATCATCTATTTTTTACAATC
1 -GGGGATACTCCAACCCCGATTTTATTTCTAAAAT-A-CTATTTTTCACAATC
*
5330916 GGGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCG
5330934 TTATTTTCGA
Statistics
Matches: 98, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
51 65 0.66
52 32 0.33
53 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAATACTATTTTTCACAATC
Found at i:5331064 original size:79 final size:78
Alignment explanation
Indices: 5330905--5331093 Score: 204
Period size: 79 Copynumber: 2.4 Consensus size: 78
5330895 AATCATCTAT
* *
5330905 TTTTTACAATCGGGGATACTCTAACCCCGTTATTTTCGAAAGGATACTCTAAACCCGATTTTATT
1 TTTTTATAATCGGGGATACTCCAACCCCGTTATTTTCGAAAGGATACTCTAAACCCGATTTTATT
*
5330970 TTCAAAATACCGA
66 TTCAAAACACCGA
* * * *
5330983 TTTTCTATAATCAGGGATACTCCAACCCTGTTA-TTTCTGAAAGGATACTC-CAACCTCGGTTTT
1 TTTT-TATAATCGGGGATACTCCAACCCCGTTATTTTC-GAAAGGATACTCTAAACC-CGATTTT
** *
5331046 A-TTTCTGGAACACTGA
63 ATTTTC-AAAACACCGA
**
5331062 TTTTTCATAATCGGGGATACTCCGGCCCCGTT
1 TTTTT-ATAATCGGGGATACTCCAACCCCGTT
5331094 GTTATCTCAA
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 17 0.18
79 75 0.82
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.35
Consensus pattern (78 bp):
TTTTTATAATCGGGGATACTCCAACCCCGTTATTTTCGAAAGGATACTCTAAACCCGATTTTATT
TTCAAAACACCGA
Found at i:5336106 original size:43 final size:42
Alignment explanation
Indices: 5336045--5336144 Score: 155
Period size: 43 Copynumber: 2.4 Consensus size: 42
5336035 TACTTTTCAT
* * *
5336045 AATGTATCTATAAATGCATTTGAAATTTATAGCCGTTGGGTAC
1 AATGTATCGATACATGCATTTGAAATTTATAGCCGTT-GGCAC
*
5336088 AATGTATCGATACATGCATTTGAAATTTATAGTCGTTGGCAC
1 AATGTATCGATACATGCATTTGAAATTTATAGCCGTTGGCAC
5336130 AATGTATCGATACAT
1 AATGTATCGATACAT
5336145 TTTACCATGT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 19 0.36
43 34 0.64
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (42 bp):
AATGTATCGATACATGCATTTGAAATTTATAGCCGTTGGCAC
Found at i:5336156 original size:20 final size:20
Alignment explanation
Indices: 5336131--5336186 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
5336121 CGTTGGCACA
5336131 ATGTATCGATACATTTTACC
1 ATGTATCGATACATTTTACC
* * *
5336151 ATGTATCGATACAATGTCCC
1 ATGTATCGATACATTTTACC
*
5336171 ATGTATCGATATATTT
1 ATGTATCGATACATTT
5336187 CACTTAAGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTACC
Found at i:5336262 original size:19 final size:19
Alignment explanation
Indices: 5336212--5336267 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
5336202 CTAGCAGTCT
* *
5336212 CATGTATTAATATAATTGAG
1 CATGTATTGATACAA-TGAG
* * *
5336232 TATATATCGATACAATGAG
1 CATGTATTGATACAATGAG
5336251 CATGTATTGATACAATG
1 CATGTATTGATACAATG
5336268 TATCGATACA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (19 bp):
CATGTATTGATACAATGAG
Found at i:5349564 original size:26 final size:28
Alignment explanation
Indices: 5349535--5349595 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
5349525 TCTGAATAAC
*
5349535 ATTTTTAAGTATT-A-TTTTATTAAAAT
1 ATTTTTAAATATTAATTTTTATTAAAAT
*
5349561 ATTTGTAAATATTAATTTTTATTAAAAT
1 ATTTTTAAATATTAATTTTTATTAAAAT
5349589 ATTTTTA
1 ATTTTTA
5349596 TAATTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 11 0.37
27 1 0.03
28 18 0.60
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (28 bp):
ATTTTTAAATATTAATTTTTATTAAAAT
Found at i:5350961 original size:37 final size:38
Alignment explanation
Indices: 5350847--5350963 Score: 128
Period size: 39 Copynumber: 3.1 Consensus size: 38
5350837 AATCTAAAAT
* *
5350847 ATATGACTAATACATGAATTTTTTATTAGATTTTGAAAG
1 ATATGACT-ATACATAAATTTTTTATTAGAATTTGAAAG
* * * * *
5350886 ATATTAGTAATGCATAGATTATTTATTAGAATTTGAAAG
1 ATATGACT-ATACATAAATTTTTTATTAGAATTTGAAAG
* *
5350925 ATATGACT-TACATAAATTTTTTATTGGAATTCGAAAG
1 ATATGACTATACATAAATTTTTTATTAGAATTTGAAAG
5350962 AT
1 AT
5350964 GAGACTAATG
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
37 26 0.41
39 38 0.59
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.42
Consensus pattern (38 bp):
ATATGACTATACATAAATTTTTTATTAGAATTTGAAAG
Found at i:5351572 original size:232 final size:233
Alignment explanation
Indices: 5351003--5351581 Score: 576
Period size: 233 Copynumber: 2.5 Consensus size: 233
5350993 TAAATATGAT
* * * * * * * *
5351003 TAATGCATAAATTCTTGATAGGAATTAGATTCTTTTTTATATGAAAGAAGTTAATAATACTAATA
1 TAATGCATAGATTCTTGATGGGAATTAGATTCCTTTTAATATAAAAGAAGTTGATAAAACTAATG
* * * * * *
5351068 CATGGATTATAAATGTTAGACTGTAAGGAA-TCGACTAATGCTTGGATTGGAATTCAAAAAATGG
66 CATGGATTATAAATGTCAAACTGTAA-GAATTAGACTAATGCATGGATTAGAATTCAAAAAATGA
* * * ** *
5351132 GACTAATGCATGGATTCTGTTTTGAAATAAATATGATTAATATGTAGATTGCTAATGAAAATCAA
130 GACTAATACATGGATTCTATTTTAAAATAAATATGATTAATACATAGATTACTAATGAAAATCAA
* *
5351197 ATTCCTTTTGATATGAAAGAAATTGATAAGACTAATGTA
195 ATTCCTTTTGATATGAAAGAAATTGATAAAACTAATGCA
* * * * * * * *
5351236 TGATGCATAGATTTTTTATGCGAATCAGATTTCTTTTAATATGAAAA-AAGTTGATAAAATTGAT
1 TAATGCATAGATTCTTGATGGGAATTAGATTCCTTTTAATAT-AAAAGAAGTTGATAAAACTAAT
* * * * * *
5351300 GAATTGATTATAAATATCAAACTATAA-AGATTAGACTAATGCATGGATTAGAATTTAAAAGATG
65 GCATGGATTATAAATGTCAAACTGTAAGA-ATTAGACTAATGCATGGATTAGAATTCAAAAAATG
* * * * *
5351364 AGACTAATACATGGATTTTATTTTAAAATACATGTGATTAATACATAGATTACTAAT-AGGAATT
129 AGACTAATACATGGATTCTATTTTAAAATAAATATGATTAATACATAGATTACTAATGA-AAATC
* * *
5351428 AAATTCCTTCTT-ATGTGAAA-AAGTTGATAAAATTAATGCA
193 AAATTCCTT-TTGATATGAAAGAAATTGATAAAACTAATGCA
* * * * * *
5351468 TAATGCATAGATTCTTGATGGGATTTAGATACCTTCTGATATAAAAGAAATTGATAAGACTAATG
1 TAATGCATAGATTCTTGATGGGAATTAGATTCCTTTTAATATAAAAGAAGTTGATAAAACTAATG
* * * * *
5351533 CATGGATTATAAATGTCAAACCGCAAGAATTAAACTAATGTATGAATTA
66 CATGGATTATAAATGTCAAACTGTAAGAATTAGACTAATGCATGGATTA
5351582 TAGTTGAGAA
Statistics
Matches: 272, Mismatches: 67, Indels: 15
0.77 0.19 0.04
Matches are distributed among these distances:
231 5 0.02
232 102 0.38
233 160 0.59
234 5 0.02
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (233 bp):
TAATGCATAGATTCTTGATGGGAATTAGATTCCTTTTAATATAAAAGAAGTTGATAAAACTAATG
CATGGATTATAAATGTCAAACTGTAAGAATTAGACTAATGCATGGATTAGAATTCAAAAAATGAG
ACTAATACATGGATTCTATTTTAAAATAAATATGATTAATACATAGATTACTAATGAAAATCAAA
TTCCTTTTGATATGAAAGAAATTGATAAAACTAATGCA
Found at i:5354734 original size:13 final size:13
Alignment explanation
Indices: 5354716--5354740 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5354706 TACAAAAGAT
5354716 CAATGTATCGATA
1 CAATGTATCGATA
5354729 CAATGTATCGAT
1 CAATGTATCGAT
5354741 GCATTTGAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:5354806 original size:13 final size:13
Alignment explanation
Indices: 5354788--5354871 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
5354778 AGCTTCGTAG
5354788 CGATACATTGTAT
1 CGATACATTGTAT
5354801 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
5354820 CGATACATTGTAT
1 CGATACATTGTAT
*
5354833 CGATACAACACTTATGCAT
1 CGAT---ACA--T-TGTAT
5354852 CGATACATTGTAT
1 CGATACATTGTAT
5354865 CGATACA
1 CGATACA
5354872 AATTGTTGAA
Statistics
Matches: 57, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
13 25 0.44
14 1 0.02
15 2 0.04
16 8 0.14
17 2 0.04
18 1 0.02
19 18 0.32
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:5354820 original size:19 final size:18
Alignment explanation
Indices: 5354796--5354858 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
5354786 AGCGATACAT
5354796 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
5354815 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
5354828 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
5354847 TGCATCGATACA
1 TGTATCGATACA
5354859 TTGTATCGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
16 2 0.05
18 1 0.03
19 22 0.59
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.32
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:5354829 original size:32 final size:32
Alignment explanation
Indices: 5354788--5354873 Score: 154
Period size: 32 Copynumber: 2.7 Consensus size: 32
5354778 AGCTTCGTAG
*
5354788 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGCAT
*
5354820 CGATACATTGTATCGATACAACACTTATGCAT
1 CGATACATTGTATCGATACAAAACTTATGCAT
5354852 CGATACATTGTATCGATACAAA
1 CGATACATTGTATCGATACAAA
5354874 TTGTTGAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGCAT
Found at i:5355319 original size:92 final size:92
Alignment explanation
Indices: 5355162--5355332 Score: 229
Period size: 92 Copynumber: 1.9 Consensus size: 92
5355152 GGTGTCTACA
*
5355162 AGAATCAAATTCCTTTTGGCAGAAAGAAAGAAATGTTGATTGATTGCAAATGTCAAACCGCAAGG
1 AGAATCAAATTCCTTTTGGCAGAAAGAAAGAAAAGTTGATTGATTGCAAATGTCAAACCGCAAGG
* *
5355227 ATTGGACTAATGCATAAATTATATTTG
66 ATAGGACAAATGCATAAATTATATTTG
* * * * **
5355254 AGAATCAAATTCCTTTTGGTAGAAA-AGAAGAAAAGTTTATTGATTGTAAATGTTACAATTG-AA
1 AGAATCAAATTCCTTTTGGCAGAAAGA-AAGAAAAGTTGATTGATTGCAAATGTCA-AACCGCAA
5355317 GGATAGGACAAATGCA
64 GGATAGGACAAATGCA
5355333 GATATTTTGA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 1 0.01
92 64 0.94
93 3 0.04
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (92 bp):
AGAATCAAATTCCTTTTGGCAGAAAGAAAGAAAAGTTGATTGATTGCAAATGTCAAACCGCAAGG
ATAGGACAAATGCATAAATTATATTTG
Found at i:5359002 original size:22 final size:22
Alignment explanation
Indices: 5358975--5359022 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
5358965 TTTGAAGTTC
5358975 AAAATTTGAGAAAATTTTACAA
1 AAAATTTGAGAAAATTTTACAA
5358997 AAAATTTGAGAAAATTTTACAA
1 AAAATTTGAGAAAATTTTACAA
5359019 AAAA
1 AAAA
5359023 ATTTACAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.29
Consensus pattern (22 bp):
AAAATTTGAGAAAATTTTACAA
Found at i:5362671 original size:72 final size:73
Alignment explanation
Indices: 5362064--5362671 Score: 446
Period size: 73 Copynumber: 8.5 Consensus size: 73
5362054 AAATAAAAAA
* * * * * * *
5362064 TTAAAATTCTATAAATAAAGATAAATAATAACTT-AAAATTTTAAACTCATATAATTA-ACTCAA
1 TTAAACTTCTACAAATAAAAATAAATTATACCTTCAAAA-TTTAAACTCATATAATTATACCCTA
*
5362127 AAAATAAAT
65 AAAACAAAT
* ** * *
5362136 TTAAACTTCTACAAATAAAAATAAATTATACCATCAAAATTATAAACTTGTATAATCATACCCAA
1 TTAAACTTCTACAAATAAAAATAAATTATACCTTCAAAATT-TAAACTCATATAATTATACCCTA
*
5362201 AAAACACAT
65 AAAACAAAT
** * * * *
5362210 TTAAACTTCTA-AAATAAAAATAAATTATACCACCAAAAATATAAAATCATATAATAATA-TCTA
1 TTAAACTTCTACAAATAAAAATAAATTATACCTTC-AAAATTTAAACTCATATAATTATACCCT-
*
5362273 AAAAACACAT
64 AAAAACAAAT
*** * * * ** *
5362283 TTAAACTTCTACAAAT-ACCCTAAATTATACCCTAAAAATTTAAACTCGTATAATTATATTCAAA
1 TTAAACTTCTACAAATAAAAATAAATTATACCTTCAAAATTTAAACTCATATAATTATACCCTAA
*
5362347 AAATAAAT
66 AAACAAAT
* * * * * * * *
5362355 TTTAACTTCTACAAATAAAGATAAATAATATCC-TAAAAACTTAAGCTCATATAATCA-AACC-A
1 TTAAACTTCTACAAATAAAAATAAATTATA-CCTTCAAAATTTAAACTCATATAATTATACCCTA
5362417 AAAACAAAT
65 AAAACAAAT
* * * * * * * * * *
5362426 TTAAACATCAATAAATTAAAATGAATTACACTTTCAAAAATTTAAACTTATACAATTAT-GCCTA
1 TTAAACTTCTACAAATAAAAATAAATTATACCTTC-AAAATTTAAACTCATATAATTATACCCTA
5362490 AAAA-AATAT
65 AAAACAA-AT
* * * * * *
5362499 TTAAACTTTTACAAATCAAAATAAAGTATATCC--CAAAAATTTAAATTCACATAATTA-A--AT
1 TTAAACTTCTACAAATAAAAATAAATTATA-CCTTC-AAAATTTAAACTCATATAATTATACCCT
*
5362559 AAAAATAAAT
64 AAAAACAAAT
5362569 TTAAACATT-TAC--A-AAAAATAAATTATACCTTCAAAATTTAAACTCATATAATTATACCCTA
1 TTAAAC-TTCTACAAATAAAAATAAATTATACCTTCAAAATTTAAACTCATATAATTATACCCTA
*
5362630 CAAACAAAT
65 AAAACAAAT
* * *
5362639 TTAAA-TTCTATAAGTAAAAATAAATAATACCTT
1 TTAAACTTCTACAAATAAAAATAAATTATACCTT
5362672 TAATCAAATT
Statistics
Matches: 423, Mismatches: 86, Indels: 54
0.75 0.15 0.10
Matches are distributed among these distances:
66 2 0.00
67 32 0.08
68 5 0.01
69 2 0.00
70 32 0.08
71 35 0.08
72 134 0.32
73 146 0.35
74 35 0.08
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (73 bp):
TTAAACTTCTACAAATAAAAATAAATTATACCTTCAAAATTTAAACTCATATAATTATACCCTAA
AAACAAAT
Found at i:5363095 original size:5 final size:5
Alignment explanation
Indices: 5363085--5363116 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
5363075 GCTCGGTACT
5363085 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTT
5363117 GGCTCGTAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:5363779 original size:9 final size:9
Alignment explanation
Indices: 5363765--5363795 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
5363755 TAAAATTAAA
5363765 AATTAAAAG
1 AATTAAAAG
5363774 AATTAAAAG
1 AATTAAAAG
5363783 AATTAAAAG
1 AATTAAAAG
5363792 AATT
1 AATT
5363796 TTTTTGAGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.26
Consensus pattern (9 bp):
AATTAAAAG
Found at i:5364201 original size:18 final size:18
Alignment explanation
Indices: 5364148--5364214 Score: 64
Period size: 18 Copynumber: 3.5 Consensus size: 18
5364138 TATATACATA
*
5364148 AATATATTAAAAAATATAT
1 AATATA-TAAAAATTATAT
*
5364167 AATATATAATTAATTAT-T
1 AATATATAA-AAATTATAT
5364185 AATATATAAAAATTTATATTT
1 AATATATAAAAA-TTATA--T
5364206 AATATATAA
1 AATATATAA
5364215 TATTTTAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 2 0.05
18 17 0.43
19 11 0.28
21 10 0.25
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATATAAAAATTATAT
Found at i:5364536 original size:17 final size:18
Alignment explanation
Indices: 5364506--5364570 Score: 61
Period size: 17 Copynumber: 3.8 Consensus size: 18
5364496 AATAATAAAT
5364506 AATATATAAATTAT-TAA
1 AATATATAAATTATATAA
5364523 AATAT-TAAATT-TATATA
1 AATATATAAATTATATA-A
*
5364540 AATATAT-AA-TATTTAA
1 AATATATAAATTATATAA
5364556 AATA-ATATAATTATA
1 AATATATA-AATTATA
5364571 ATACGTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 13
0.72 0.04 0.24
Matches are distributed among these distances:
15 3 0.08
16 14 0.36
17 18 0.46
18 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AATATATAAATTATATAA
Found at i:5364579 original size:23 final size:26
Alignment explanation
Indices: 5364535--5364596 Score: 76
Period size: 24 Copynumber: 2.5 Consensus size: 26
5364525 TATTAAATTT
* *
5364535 ATATAAATATATAATA-TTTAAAATA
1 ATATAAATATATAATACGTAAAAATA
5364560 ATAT-AAT-TATAATACGTAAAAATA
1 ATATAAATATATAATACGTAAAAATA
*
5364584 ATACAAATATATA
1 ATATAAATATATA
5364597 TATTTTTGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 7 0.23
24 13 0.42
25 7 0.23
26 4 0.13
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (26 bp):
ATATAAATATATAATACGTAAAAATA
Found at i:5369097 original size:54 final size:53
Alignment explanation
Indices: 5369034--5369135 Score: 134
Period size: 54 Copynumber: 1.9 Consensus size: 53
5369024 ATATATGATA
* *
5369034 AAATAAAATGCATAAATTT-ACTTCCAAGAAAAGTAAAGTACATAAATTATAAG
1 AAATAAAATGCATAAATTTAAATTCCAA-AAAAATAAAGTACATAAATTATAAG
* * *
5369087 AAATCAAAATGCTTAAATTTAAATTGCAAAAAAATAAATTACATAAATT
1 AAAT-AAAATGCATAAATTTAAATTCCAAAAAAATAAAGTACATAAATT
5369136 TAAATTGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
53 4 0.10
54 32 0.76
55 6 0.14
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (53 bp):
AAATAAAATGCATAAATTTAAATTCCAAAAAAATAAAGTACATAAATTATAAG
Found at i:5369126 original size:145 final size:145
Alignment explanation
Indices: 5368863--5369153 Score: 546
Period size: 145 Copynumber: 2.0 Consensus size: 145
5368853 GTAATTATAT
*
5368863 ATACACATATATATGTATATATGATAAAATAAAATGCATAAATTTACTTCCAAGAACAGTAAAGT
1 ATACACATATATATGTATATATGATAAAATAAAATGCATAAATTTACTTCCAAGAAAAGTAAAGT
*
5368928 ACATAAATTATAAGAAATCAAAATGCTTAAATTTAAAATGCAAGAAAATAAATTACATAAATTTA
66 ACATAAATTATAAGAAATCAAAATGCTTAAATTTAAAATGCAAAAAAATAAATTACATAAATTTA
*
5368993 AATTGTAATCAAATA
131 AATTGTAATAAAATA
5369008 ATACACATATATATGTATATATGATAAAATAAAATGCATAAATTTACTTCCAAGAAAAGTAAAGT
1 ATACACATATATATGTATATATGATAAAATAAAATGCATAAATTTACTTCCAAGAAAAGTAAAGT
*
5369073 ACATAAATTATAAGAAATCAAAATGCTTAAATTTAAATTGCAAAAAAATAAATTACATAAATTTA
66 ACATAAATTATAAGAAATCAAAATGCTTAAATTTAAAATGCAAAAAAATAAATTACATAAATTTA
5369138 AATTGTAATAAAATA
131 AATTGTAATAAAATA
5369153 A
1 A
5369154 ATAAGCTACA
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 142 1.00
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.31
Consensus pattern (145 bp):
ATACACATATATATGTATATATGATAAAATAAAATGCATAAATTTACTTCCAAGAAAAGTAAAGT
ACATAAATTATAAGAAATCAAAATGCTTAAATTTAAAATGCAAAAAAATAAATTACATAAATTTA
AATTGTAATAAAATA
Done.