Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 37 of 325
Found at i:13781105 original size:22 final size:21
Alignment explanation
Indices: 13781080--13781142 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
13781070 ACAATCATTT
13781080 TTTATTTTTATATATTTTTAAA
1 TTTATTTTTATAT-TTTTTAAA
*
13781102 TTTATTATTATATTTTTTGAAA
1 TTTATTTTTATATTTTTT-AAA
*
13781124 ---ATATTTATATTTTTTAAA
1 TTTATTTTTATATTTTTTAAA
13781142 T
1 T
13781143 ATTTCTTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 3 0.08
19 13 0.36
21 5 0.14
22 15 0.42
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTATTTTTATATTTTTTAAA
Found at i:13781131 original size:19 final size:17
Alignment explanation
Indices: 13781086--13781146 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 17
13781076 ATTTTTTATT
13781086 TTTATATATTTTTAAATTTA
1 TTTATAT-TTTTTAAA--TA
13781106 TTATTATATTTTTTGAAAATA
1 -T-TTATATTTTTT--AAATA
13781127 TTTATATTTTTTAAATA
1 TTTATATTTTTTAAATA
13781144 TTT
1 TTT
13781147 CTTTGAATTT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
17 8 0.22
19 11 0.30
20 1 0.03
21 8 0.22
22 6 0.16
23 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTATATTTTTTAAATA
Found at i:13784842 original size:15 final size:14
Alignment explanation
Indices: 13784813--13784855 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
13784803 AGAAAAAAGT
**
13784813 AAATATAAATTATA
1 AAATATAAAAAATA
*
13784827 AAGATTTAAAAAATA
1 AA-ATATAAAAAATA
13784842 AAATATAAAAAATA
1 AAATATAAAAAATA
13784856 TTTTTAAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (14 bp):
AAATATAAAAAATA
Found at i:13786185 original size:66 final size:64
Alignment explanation
Indices: 13786076--13786198 Score: 174
Period size: 66 Copynumber: 1.9 Consensus size: 64
13786066 AATTATTTTA
* *
13786076 TTTTATTTTCCAATATGGCAATACCTTAACATTGTTTTGTTGGCACAACTTAATACTATCATTG
1 TTTTATTTTCCAATATGGCAATACCTTAACATTGCTTTATTGGCACAACTTAATACTATCATTG
* * * *
13786140 TTTTATTTTTCTCAATATGTCAGTACTTTAACATTGCTTTATTGGCACAACTTGATACT
1 TTTTA-TTTTC-CAATATGGCAATACCTTAACATTGCTTTATTGGCACAACTTAATACT
13786199 CTCTAATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
64 5 0.10
65 5 0.10
66 41 0.80
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.46
Consensus pattern (64 bp):
TTTTATTTTCCAATATGGCAATACCTTAACATTGCTTTATTGGCACAACTTAATACTATCATTG
Found at i:13788791 original size:20 final size:20
Alignment explanation
Indices: 13788768--13788818 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
13788758 CGGACAAGGG
*
13788768 ACACGGGCGTGTCCCAAGTC
1 ACACAGGCGTGTCCCAAGTC
13788788 ACACAGGCGTGTCCCAAGTC
1 ACACAGGCGTGTCCCAAGTC
13788808 ACACAGGCGTG
1 ACACAGGCGTG
13788819 GGGAATCCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.33, G:0.29, T:0.14
Consensus pattern (20 bp):
ACACAGGCGTGTCCCAAGTC
Found at i:13801311 original size:23 final size:24
Alignment explanation
Indices: 13801258--13801311 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
13801248 AAACGTCTTC
13801258 TAAACT-TCTAATCACTTTACTAG
1 TAAACTATCTAATCACTTTACTAG
* * * *
13801281 TAATCTATCTAATTA-TTTATTAT
1 TAAACTATCTAATCACTTTACTAG
13801304 TAAACTAT
1 TAAACTAT
13801312 TTGTACAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (24 bp):
TAAACTATCTAATCACTTTACTAG
Found at i:13803010 original size:16 final size:17
Alignment explanation
Indices: 13802979--13803011 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13802969 TTCATAAGTA
13802979 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
13802996 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
13803012 GCTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:13803226 original size:46 final size:46
Alignment explanation
Indices: 13803176--13803380 Score: 295
Period size: 46 Copynumber: 4.5 Consensus size: 46
13803166 CCATAGTGTC
* * *
13803176 TTTCAACTATGGTCTTACTCATTTTC-TGTCAGGTTGCCATGGTATA
1 TTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATA
** * * * *
13803222 TTTCAACCATGGTCTTATTCTTTTCATGTCATGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATA
*
13803268 TTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATA
1 TTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATA
*
13803314 TTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATC
1 TTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATA
13803360 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
13803381 CTGGTTGCCA
Statistics
Matches: 144, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 140 0.97
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
TTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATA
Found at i:13803477 original size:38 final size:38
Alignment explanation
Indices: 13803343--13803526 Score: 308
Period size: 38 Copynumber: 5.0 Consensus size: 38
13803333 CATTTCATAT
13803343 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
13803381 CTGGTTGCCA---TATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
13803416 CAGGTTGCCA---TATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
13803451 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
13803489 CAGGTTGCCATGGTAACTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
13803527 TTTCATATCA
Statistics
Matches: 140, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
35 69 0.49
38 71 0.51
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:13808624 original size:46 final size:46
Alignment explanation
Indices: 13808562--13808835 Score: 379
Period size: 46 Copynumber: 6.0 Consensus size: 46
13808552 TTTGACATGA
* * * * * *
13808562 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TTTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *** *
13808608 TGCCATGGTATATTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
13808654 TGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
13808700 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
13808746 TGCCATGGTATCTTTCAACAATGTTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
13808792 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
13808836 AGAGCACACT
Statistics
Matches: 205, Mismatches: 22, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
45 4 0.02
46 201 0.98
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:13819312 original size:39 final size:39
Alignment explanation
Indices: 13819269--13819399 Score: 181
Period size: 39 Copynumber: 3.3 Consensus size: 39
13819259 GGTTTTTAAC
** *
13819269 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * * *
13819308 CCGGATATATTTCTAGCATATAGCCTACGGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
13819347 CCGGATATTTTTCCAGCATATAGCCTGCGGACTTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
13819386 CCGGATATATTTTC
1 CCGGATAT-TTTTC
13819400 AATCTCATAC
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 74 0.94
40 5 0.06
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:13821297 original size:53 final size:53
Alignment explanation
Indices: 13821156--13821306 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
13821146 ATAAGTGCGC
* **
13821156 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
13821209 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
13821262 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
13821307 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:13824221 original size:23 final size:23
Alignment explanation
Indices: 13824195--13824238 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
13824185 CCAATCGATG
*
13824195 AAATCAATAGT-TTATGTTTTTTT
1 AAATAAATAGTCTTA-GTTTTTTT
*
13824218 AAATAAATTGTCTTAGTTTTT
1 AAATAAATAGTCTTAGTTTTT
13824239 ATGATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.55
Consensus pattern (23 bp):
AAATAAATAGTCTTAGTTTTTTT
Found at i:13838304 original size:24 final size:22
Alignment explanation
Indices: 13838277--13838322 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
13838267 TTTATATGAT
*
13838277 TATATATTTATTATATAATATAAA
1 TATATATTTA--AAATAATATAAA
*
13838301 TATATCTTTAAAATAATATAAA
1 TATATATTTAAAATAATATAAA
13838323 ATAAGTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
24 9 0.45
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TATATATTTAAAATAATATAAA
Found at i:13838758 original size:31 final size:31
Alignment explanation
Indices: 13838723--13838786 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
13838713 ATAGTAATTA
*
13838723 TATCATTATATTAAATTATTTAAATATCATT
1 TATCATTATATTAAATTACTTAAATATCATT
* *
13838754 TATCATTATATTAATTTACTTAAATATTATT
1 TATCATTATATTAAATTACTTAAATATCATT
13838785 TA
1 TA
13838787 CAAATATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (31 bp):
TATCATTATATTAAATTACTTAAATATCATT
Found at i:13838816 original size:24 final size:23
Alignment explanation
Indices: 13838782--13838847 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 23
13838772 CTTAAATATT
* *
13838782 ATTTACAAATATTATTATATTAA
1 ATTTTCAAATATTATTATATAAA
*
13838805 ATTATTCAAATATCATTCGATATAAA
1 ATT-TTCAAATATTATT--ATATAAA
*
13838831 ATTTTAAAATATT-TTAT
1 ATTTTCAAATATTATTAT
13838848 TTATGTATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
22 2 0.06
23 3 0.09
24 13 0.37
25 8 0.23
26 9 0.26
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTTTCAAATATTATTATATAAA
Found at i:13839484 original size:11 final size:12
Alignment explanation
Indices: 13839452--13839485 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
13839442 TAAATATACA
13839452 TTTAATATATAT
1 TTTAATATATAT
13839464 TTTAATATATAT
1 TTTAATATATAT
13839476 TTTAA-ATATA
1 TTTAATATATA
13839486 ATATATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTAATATATAT
Found at i:13839494 original size:27 final size:25
Alignment explanation
Indices: 13839455--13839508 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
13839445 ATATACATTT
*
13839455 AATATATATTTTA-ATATATATTTTA
1 AATATATATTTTATA-AAATATTTTA
13839480 AATATAATATATTTATAAAATATTTTA
1 AATAT-ATAT-TTTATAAAATATTTTA
13839507 AA
1 AA
13839509 GAAAAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 5 0.20
26 4 0.16
27 15 0.60
28 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
AATATATATTTTATAAAATATTTTA
Found at i:13849391 original size:51 final size:51
Alignment explanation
Indices: 13849313--13849423 Score: 168
Period size: 51 Copynumber: 2.2 Consensus size: 51
13849303 TATCCGGATA
*
13849313 AAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATTATTCCAGATG
1 AAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCAGATG
* * * *
13849364 AAATATGAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAATTCCGGATG
1 AAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCAGATG
*
13849415 AAGTATGAA
1 AAATATGAA
13849424 TTAAGTTTGA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.27
Consensus pattern (51 bp):
AAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCAGATG
Found at i:13851878 original size:132 final size:132
Alignment explanation
Indices: 13851696--13852086 Score: 412
Period size: 132 Copynumber: 3.0 Consensus size: 132
13851686 ATTATTCGTT
* * *
13851696 TAAAAATTTCTTTAAAACGAAGGCGA-GATTTGATATTTGACAATTCGCGGAATCGTGCCCTAAC
1 TAAAAA-TCCTTTAAAACGAAGGCGATG-TTCGATATTTGACAATTCGCGGAATCGTGCCCTATC
* * * *
13851760 GTGCTGGGTTGCAATTTCTC-ATTTGTTCAAAATAATCTAATATCCCTTCAAAATTCCATTTATG
64 GTGCTGGGTTGCAATTTCTCGA-TTGTTCAAAATAATCGAAGATCCCTTCAAAATTCCACTCATG
13851824 TCTTC
128 TCTTC
* *
13851829 TAAAAATCCTTTAAAACGAGGGCGATGTTCGATATTTGACAATTCGCGGAATCATGCCCTATCGT
1 TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGCGGAATCGTGCCCTATCGT
* *** * *
13851894 GCTGGGTTGCAATTTCTCGATTGTTCAAAATAATCGAAGGTCCCTTTTGAATTTCACTCATGTTT
66 GCTGGGTTGCAATTTCTCGATTGTTCAAAATAATCGAAGATCCCTTCAAAATTCCACTCATGTCT
13851959 TC
131 TC
* * ** * * * * *
13851961 TAAAAA-CTCTTCAAAACAAAGGTAATATTCGATGTTTGGCCATTCGGGGAATCGTGCCCTATCG
1 TAAAAATC-CTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGCGGAATCGTGCCCTATCG
* * * * * * * * *
13852025 TGCTGGGTTGCGATCTC-CTGTTTGTCCAAAATGATCGAAGATTCCTTTAGAATTTCACTCAT
65 TGCTGGGTTGCAATTTCTC-GATTGTTCAAAATAATCGAAGATCCCTTCAAAATTCCACTCAT
13852087 ACTTTTTAAA
Statistics
Matches: 220, Mismatches: 34, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
131 2 0.01
132 210 0.95
133 8 0.04
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.35
Consensus pattern (132 bp):
TAAAAATCCTTTAAAACGAAGGCGATGTTCGATATTTGACAATTCGCGGAATCGTGCCCTATCGT
GCTGGGTTGCAATTTCTCGATTGTTCAAAATAATCGAAGATCCCTTCAAAATTCCACTCATGTCT
TC
Found at i:13860397 original size:13 final size:12
Alignment explanation
Indices: 13860367--13860422 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
13860357 AATGTGAAAC
*
13860367 AAAAAGAAATTG
1 AAAAAGAAGTTG
13860379 AAAAAGAAGTTG
1 AAAAAGAAGTTG
*
13860391 AAGAAAGAAG-AG
1 AA-AAAGAAGTTG
*
13860403 AAAATG-AGTTAG
1 AAAAAGAAGTT-G
13860415 AAAAAGAA
1 AAAAAGAA
13860423 ACAAAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 2 0.06
11 3 0.09
12 22 0.63
13 8 0.23
ACGTcount: A:0.64, C:0.00, G:0.23, T:0.12
Consensus pattern (12 bp):
AAAAAGAAGTTG
Found at i:13863125 original size:21 final size:21
Alignment explanation
Indices: 13863068--13863119 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
13863058 CTCCAAAACA
13863068 AGGGAAAATGGGTTACATTTT
1 AGGGAAAATGGGTTACATTTT
13863089 AGGGAAAATGGGTTACATTTT
1 AGGGAAAATGGGTTACATTTT
13863110 AGGGAAAATG
1 AGGGAAAATG
13863120 TCTTACCCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.04, G:0.31, T:0.29
Consensus pattern (21 bp):
AGGGAAAATGGGTTACATTTT
Found at i:13863561 original size:34 final size:35
Alignment explanation
Indices: 13863503--13863569 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
13863493 CAAACACCAG
13863503 AAAATATTTTCCAGTAAATCATTTTACAAAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAAAAAAGT
*
13863538 AAAATATTTTCCAG-AAATCATTTTACGAAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAAAAAA
13863570 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAAAAAAGT
Found at i:13870586 original size:21 final size:21
Alignment explanation
Indices: 13870536--13870587 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
13870526 TCAAAAATTT
*
13870536 TATAAAATTAATTTTTAAAAA
1 TATAAAAATAATTTTTAAAAA
*
13870557 TCATTAAAAT-ATTTTTAAAAA
1 T-ATAAAAATAATTTTTAAAAA
13870578 GTATAAAAAT
1 -TATAAAAAT
13870588 TATAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TATAAAAATAATTTTTAAAAA
Found at i:13877136 original size:20 final size:20
Alignment explanation
Indices: 13877106--13877146 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
13877096 TAAATAATTT
13877106 AAAATTCATAAAATTATAAAA
1 AAAATTCATAAAATT-TAAAA
13877127 AAAATT-ATAAAATTTAAAA
1 AAAATTCATAAAATTTAAAA
13877146 A
1 A
13877147 TAAAAATAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.30
20 8 0.40
21 6 0.30
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATTCATAAAATTTAAAA
Found at i:13877151 original size:21 final size:22
Alignment explanation
Indices: 13877105--13877151 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 22
13877095 ATAAATAATT
13877105 TAAAATTCATAAAATTATAAAA
1 TAAAATTCATAAAATTATAAAA
13877127 -AAAATT-ATAAAATT-TAAAAA
1 TAAAATTCATAAAATTAT-AAAA
13877147 TAAAA
1 TAAAA
13877152 ATAGCATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
19 1 0.04
20 12 0.52
21 10 0.43
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAATTCATAAAATTATAAAA
Found at i:13880529 original size:27 final size:27
Alignment explanation
Indices: 13880481--13880638 Score: 182
Period size: 27 Copynumber: 5.9 Consensus size: 27
13880471 GCGAGGCTGC
* *
13880481 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
13880508 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
13880534 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
13880561 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
13880588 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
13880615 CAAATAATTGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
13880639 AGACGCTTCC
Statistics
Matches: 115, Mismatches: 8, Indels: 16
0.83 0.06 0.12
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:13880574 original size:54 final size:54
Alignment explanation
Indices: 13880499--13880638 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 54
13880489 GTGACGAAGT
*
13880499 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
13880553 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
13880607 CACCAGATCAAATAATTGTGGCATAGCCACCA
1 CACCAGATCAGATAATTGTGGCATAGCCACCA
13880639 AGACGCTTCC
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:13880807 original size:28 final size:26
Alignment explanation
Indices: 13880745--13880818 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
13880735 AAATTAACCC
** * *
13880745 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAATAGTAATTTTCCACA
13880771 TAGGGGTATAATAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTTCC--ACA
*
13880799 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
13880819 AGTTGCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 20 0.49
28 21 0.51
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTCCACA
Found at i:13882287 original size:26 final size:26
Alignment explanation
Indices: 13882253--13882360 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
13882243 TGAAATGCCC
* *
13882253 ATCACGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
13882279 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
13882305 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13882331 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13882357 ATCA
1 ATCA
13882361 ATCTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13883459 original size:13 final size:14
Alignment explanation
Indices: 13883443--13883478 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
13883433 CAATCTCATA
13883443 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
13883456 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
13883469 TCTC-ATTTCA
1 TCTCAATTTCA
13883479 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:13883468 original size:18 final size:19
Alignment explanation
Indices: 13883430--13883470 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
13883420 TGGTTCATGT
13883430 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
13883449 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
13883467 TTTC
1 TTTC
13883471 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:13883990 original size:19 final size:19
Alignment explanation
Indices: 13883966--13884005 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
13883956 TTTCAATTCA
13883966 ATTCAAATAATCA-ATATAT
1 ATTC-AATAATCATATATAT
*
13883985 ATTCAATATTCATATATAT
1 ATTCAATAATCATATATAT
13884004 AT
1 AT
13884006 CTATATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTCAATAATCATATATAT
Found at i:13885335 original size:5 final size:5
Alignment explanation
Indices: 13885319--13885369 Score: 59
Period size: 5 Copynumber: 10.0 Consensus size: 5
13885309 TTACTTATTT
* *
13885319 ATATA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA ATAT- ATATA
1 ATATA -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA ATATA
13885370 TTTTAACACA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
4 4 0.10
5 25 0.64
6 10 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (5 bp):
ATATA
Found at i:13885346 original size:15 final size:14
Alignment explanation
Indices: 13885321--13885369 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
13885311 ACTTATTTAT
13885321 ATATATATAATATA
1 ATATATATAATATA
13885335 ATATACTATAATAT-
1 ATATA-TATAATATA
*
13885349 A-ATA-ATAATTTA
1 ATATATATAATATA
13885361 ATATATATA
1 ATATATATA
13885370 TTTTAACACA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
11 6 0.20
12 1 0.03
13 6 0.20
14 9 0.30
15 8 0.27
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATATATAATATA
Found at i:13885348 original size:26 final size:25
Alignment explanation
Indices: 13885318--13885369 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
13885308 TTTACTTATT
13885318 TATATATATATAATATAATATACTATAA
1 TATA-ATA-ATAATATAATATA-TATAA
*
13885346 TATAATAATAATTTAATATATATA
1 TATAATAATAATATAATATATATA
13885370 TTTTAACACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 12 0.52
27 3 0.13
28 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (25 bp):
TATAATAATAATATAATATATATAA
Found at i:13889456 original size:13 final size:14
Alignment explanation
Indices: 13889440--13889475 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
13889430 CAATCTCATA
13889440 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
13889453 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
13889466 TCTC-ATTTCA
1 TCTCAATTTCA
13889476 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:13889465 original size:18 final size:19
Alignment explanation
Indices: 13889427--13889467 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
13889417 TGGTTCATGT
13889427 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
13889446 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
13889464 TTTC
1 TTTC
13889468 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:13889657 original size:39 final size:37
Alignment explanation
Indices: 13889590--13889723 Score: 99
Period size: 39 Copynumber: 3.5 Consensus size: 37
13889580 ACCAATATGG
* *
13889590 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAG-AATATTTGA
* * *
13889629 CACCCAGTGTCTCATCGGCCTAGCCGAAGAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAATATTTGA
* * * * *
13889666 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAG-AATAT-TTGA
*
13889707 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
13889724 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
37 18 0.25
38 11 0.15
39 24 0.33
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAATATTTGA
Found at i:13889721 original size:41 final size:40
Alignment explanation
Indices: 13889626--13889724 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 40
13889616 AAGCAATATT
*
13889626 TGACACCCAGTGTCTCATCG-GCCTAGCCGAAGAAAGTTG
1 TGACACCCAGTGTCTCATCGAACCTAGCCGAAGAAAGTTG
* ** * *
13889665 -G-TACCCAGTACCTCATCGAATCTATCCGAAGAAA-TATAG
1 TGACACCCAGTGTCTCATCGAACCTAGCCGAAGAAAGT-T-G
13889704 TGACACCCAGTGTCTCATCGA
1 TGACACCCAGTGTCTCATCGA
13889725 CTCGAGGTCG
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
37 15 0.33
38 14 0.30
39 1 0.02
40 1 0.02
41 15 0.33
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (40 bp):
TGACACCCAGTGTCTCATCGAACCTAGCCGAAGAAAGTTG
Found at i:13889989 original size:18 final size:19
Alignment explanation
Indices: 13889963--13890001 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
13889953 TTTCAATTCA
13889963 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
13889982 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
13890000 AT
1 AT
13890002 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:13892346 original size:20 final size:20
Alignment explanation
Indices: 13892307--13892347 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13892297 TTTGTGAATG
* *
13892307 TTAAAAATTAGATATAAAAA
1 TTAAAAATTAAAAATAAAAA
13892327 TTAAAAATTAAAAATTAAAAA
1 TTAAAAATTAAAAA-TAAAAA
13892348 ATATTATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
TTAAAAATTAAAAATAAAAA
Found at i:13892349 original size:8 final size:7
Alignment explanation
Indices: 13892307--13892347 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
13892297 TTTGTGAATG
13892307 TTAAAAA
1 TTAAAAA
* *
13892314 TTAGATA
1 TTAAAAA
13892321 -TAAAAA
1 TTAAAAA
13892327 TTAAAAA
1 TTAAAAA
13892334 TTAAAAA
1 TTAAAAA
13892341 TTAAAAA
1 TTAAAAA
13892348 ATATTATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (7 bp):
TTAAAAA
Found at i:13892766 original size:22 final size:22
Alignment explanation
Indices: 13892741--13892805 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
13892731 AAAAAAATCA
13892741 AAATATAACTTTGTTAAATAGT
1 AAATATAACTTTGTTAAATAGT
* * *
13892763 AAATGATAA-ATTCTTAAATTGT
1 AAAT-ATAACTTTGTTAAATAGT
*
13892785 AAATATTAACTCTGTTGAAAT
1 AAATA-TAACTTTGTT-AAAT
13892806 TGGCAAGGTA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
21 1 0.03
22 21 0.64
23 7 0.21
24 4 0.12
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (22 bp):
AAATATAACTTTGTTAAATAGT
Found at i:13893544 original size:50 final size:50
Alignment explanation
Indices: 13893490--13893591 Score: 161
Period size: 50 Copynumber: 2.0 Consensus size: 50
13893480 GATTTAAATT
13893490 TTAAAATATGAAAAATAAAATAAAATAATTC-TTAAAATTAAAATTTCAAA
1 TTAAAATATGAAAAATAAAATAAAATAATTCTTTAAAA-TAAAATTTCAAA
* * *
13893540 TTAAAATATGAAAAATAGAATGATATAATTCTTTAAAATAAAATTTCAAA
1 TTAAAATATGAAAAATAAAATAAAATAATTCTTTAAAATAAAATTTCAAA
13893590 TT
1 TT
13893592 CGAGGAGAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
50 42 0.88
51 6 0.12
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (50 bp):
TTAAAATATGAAAAATAAAATAAAATAATTCTTTAAAATAAAATTTCAAA
Found at i:13896470 original size:19 final size:19
Alignment explanation
Indices: 13896443--13896479 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13896433 TTAATATTAA
*
13896443 TATTTCAATAATAAATATT
1 TATTACAATAATAAATATT
*
13896462 TATTACAATTATAAATAT
1 TATTACAATAATAAATAT
13896480 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTACAATAATAAATATT
Found at i:13896927 original size:13 final size:14
Alignment explanation
Indices: 13896897--13896938 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
13896887 CTAGGAAAGT
13896897 AAATTATTTTTCAA
1 AAATTATTTTTCAA
* *
13896911 AAATAATTTTT-AG
1 AAATTATTTTTCAA
13896924 AAATTA-TTTTCAA
1 AAATTATTTTTCAA
13896937 AA
1 AA
13896939 CATAAAGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
12 4 0.17
13 9 0.39
14 10 0.43
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:13897254 original size:17 final size:18
Alignment explanation
Indices: 13897234--13897267 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13897224 ATAATTATTT
13897234 TAAAT-TTATAAAAAATA
1 TAAATATTATAAAAAATA
*
13897251 TAAATATTATCAAAAAT
1 TAAATATTATAAAAAAT
13897268 TTCAAAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAATATTATAAAAAATA
Found at i:13901953 original size:92 final size:92
Alignment explanation
Indices: 13901796--13901963 Score: 282
Period size: 92 Copynumber: 1.8 Consensus size: 92
13901786 AGTTGCTGAA
* * **
13901796 CGGTTCATTGGGTAGGATTTTTTGACCAATTTTATCCCGTTGGATACAACATTATAGGATGGGCA
1 CGGTTCATTGGATAGGATTTTTTGACCAAGTTTATCCAATTGGATACAACATTATAGGATGGGCA
13901861 AAAACCAAAAAATTTGAGCTGAACATG
66 AAAACCAAAAAATTTGAGCTGAACATG
*
13901888 CGGTTCATTGGATAGGATTTTTTGACCAAGTTTATCCAATTGGATAGAACATTATAGGATGGGCA
1 CGGTTCATTGGATAGGATTTTTTGACCAAGTTTATCCAATTGGATACAACATTATAGGATGGGCA
*
13901953 AAATCCAAAAA
66 AAAACCAAAAA
13901964 GTTACTTCGA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 70 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (92 bp):
CGGTTCATTGGATAGGATTTTTTGACCAAGTTTATCCAATTGGATACAACATTATAGGATGGGCA
AAAACCAAAAAATTTGAGCTGAACATG
Found at i:13910928 original size:7 final size:7
Alignment explanation
Indices: 13910916--13910948 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
13910906 TAAAAAATTA
13910916 AATATTC
1 AATATTC
13910923 AATATTC
1 AATATTC
13910930 AATATTC
1 AATATTC
13910937 AATATTC
1 AATATTC
13910944 AATAT
1 AATAT
13910949 GAAATTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATTC
Found at i:13913920 original size:42 final size:46
Alignment explanation
Indices: 13913857--13913990 Score: 150
Period size: 49 Copynumber: 2.9 Consensus size: 46
13913847 CTTCGTTTAC
** * *
13913857 TCGATGTCATAGTTCAACTATGGTCTTACAC-AT-C-T-TCATATA
1 TCGATGTCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
13913899 TCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGTCATAGCCCAGCTATGGTCTTACAC--AAT-ACATATCACATA
*
13913948 TCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATC
1 TCGATGTCATAGCCCAGCTATGGTCTTACAC-AAT-ACATATC
13913991 TCACTGATGC
Statistics
Matches: 79, Mismatches: 6, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
42 28 0.35
45 2 0.03
47 1 0.01
48 12 0.15
49 36 0.46
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (46 bp):
TCGATGTCATAGCCCAGCTATGGTCTTACACAATACATATCACATA
Found at i:13913959 original size:49 final size:48
Alignment explanation
Indices: 13913898--13914068 Score: 179
Period size: 47 Copynumber: 3.6 Consensus size: 48
13913888 ATCTTCATAT
* *
13913898 ATCGATGTCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* *
13913946 TATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
* * * * * *
13913994 CT-GATGCCATATCTCAGATATGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAATCACATATCACA
* * *
13914040 ACCGATTCCATATCCCAGATATGGTCTTA
1 ATCGATGCCATAGCCCAGATATGGTCTTA
13914069 TACGGAAATC
Statistics
Matches: 105, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
46 25 0.24
47 35 0.33
48 13 0.12
49 32 0.30
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTCTTACACGTAATCACATATCACA
Found at i:13914125 original size:31 final size:31
Alignment explanation
Indices: 13914090--13914300 Score: 305
Period size: 31 Copynumber: 6.8 Consensus size: 31
13914080 CTTGTCACTT
*
13914090 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
13914121 GTAGCCGGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
13914152 GTAGTCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
13914183 GTAGCAGAAGCTACCATTTTTCACTTATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
13914214 GCAGCAGAAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
13914245 GTAGCCGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
13914276 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
13914301 TGTCATTTGT
Statistics
Matches: 163, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 163 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:13914362 original size:37 final size:37
Alignment explanation
Indices: 13914310--13914390 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
13914300 TTGTCATTTG
* *
13914310 TCCTTGATCAGATAAGTGTAGCCGAAGCTATTACTTA
1 TCCTTGATCAAATAAGTGTAGCCGAAGCTATCACTTA
13914347 TCCTTGATCAAATAAGTGTAGCCGAAGCTATCACTTA
1 TCCTTGATCAAATAAGTGTAGCCGAAGCTATCACTTA
13914384 TCACTTG
1 TC-CTTG
13914391 TTGCCATGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 37 0.90
38 4 0.10
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (37 bp):
TCCTTGATCAAATAAGTGTAGCCGAAGCTATCACTTA
Found at i:13933632 original size:133 final size:133
Alignment explanation
Indices: 13933464--13933735 Score: 528
Period size: 133 Copynumber: 2.1 Consensus size: 133
13933454 CAATGCATTG
*
13933464 GCTA-GAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGATCTCACCTGATTGCTA
1 GCTATGAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGAACTCACCTGATTGCTA
13933528 TTTATGATGAGCATGTTTGTGATGAATAACTTAAAATTTTTTTTATGTGTCTTTGAAAAATAATG
66 TTTATGATGAGCATGTTTGTGATGAATAACTTAAAATTTTTTTTATGTGTCTTTGAAAAATAATG
13933593 CAA
131 CAA
13933596 GCTATGAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGAACTCACCTGATTGCTA
1 GCTATGAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGAACTCACCTGATTGCTA
13933661 TTTATGATGAGCATGTTTGTGATGAATAACTTAAAATTTTTTTTATGTGTCTTTGAAAAATAATG
66 TTTATGATGAGCATGTTTGTGATGAATAACTTAAAATTTTTTTTATGTGTCTTTGAAAAATAATG
13933726 CAA
131 CAA
13933729 GCTATGA
1 GCTATGA
13933736 CTGTTTAAGT
Statistics
Matches: 138, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
132 4 0.03
133 134 0.97
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (133 bp):
GCTATGAAAAGATCTGGTCATTGGTAATTTTTATTTTTATTTTAGTGGAACTCACCTGATTGCTA
TTTATGATGAGCATGTTTGTGATGAATAACTTAAAATTTTTTTTATGTGTCTTTGAAAAATAATG
CAA
Found at i:13937737 original size:3 final size:3
Alignment explanation
Indices: 13937729--13937774 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
13937719 TCTTAATGTT
13937729 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13937775 ATAACAAGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13938465 original size:21 final size:21
Alignment explanation
Indices: 13938441--13938508 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
13938431 CTTCAACAGA
13938441 CCCAATCACCAAC-CCGACAAC
1 CCCAATCA-CAACTCCGACAAC
* *
13938462 CCCAGTCACAACTCCGACAGC
1 CCCAATCACAACTCCGACAAC
* * *
13938483 ACCAGTTACAACTCCGACAAC
1 CCCAATCACAACTCCGACAAC
13938504 CCCAA
1 CCCAA
13938509 CCCCGACTCC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 4 0.10
21 35 0.90
ACGTcount: A:0.35, C:0.47, G:0.09, T:0.09
Consensus pattern (21 bp):
CCCAATCACAACTCCGACAAC
Found at i:13939092 original size:18 final size:18
Alignment explanation
Indices: 13939066--13939100 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13939056 TACCATGACC
13939066 ATGACCCCACCCTTTCCG
1 ATGACCCCACCCTTTCCG
* *
13939084 ATGAGCCCACCTTTTCC
1 ATGACCCCACCCTTTCC
13939101 CGGAGCAGGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.46, G:0.11, T:0.26
Consensus pattern (18 bp):
ATGACCCCACCCTTTCCG
Found at i:13942105 original size:4 final size:4
Alignment explanation
Indices: 13942096--13942126 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
13942086 TACATAATAT
*
13942096 TATG TATG TATG TATG TATA TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
13942127 CCAACTCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:13942113 original size:12 final size:12
Alignment explanation
Indices: 13942092--13942126 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
13942082 TTTTTACATA
13942092 ATAT-TATGTAT
1 ATATGTATGTAT
*
13942103 GTATGTATGTAT
1 ATATGTATGTAT
13942115 ATATGTATGTAT
1 ATATGTATGTAT
13942127 CCAACTCCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (12 bp):
ATATGTATGTAT
Found at i:13948960 original size:70 final size:70
Alignment explanation
Indices: 13948873--13949014 Score: 266
Period size: 70 Copynumber: 2.0 Consensus size: 70
13948863 TTAATAATGA
13948873 AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAAGAAAATGTCAATTGAAGAGCT
1 AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAAGAAAATGTCAATTGAAGAGCT
13948938 CCTGG
66 CCTGG
* *
13948943 AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAGGAAAATGTCAATTGAAGTGCT
1 AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAAGAAAATGTCAATTGAAGAGCT
13949008 CCTGG
66 CCTGG
13949013 AA
1 AA
13949015 CATACTGCAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (70 bp):
AAGCTTAAAGTTTAAACTTGATCAACTTTGTCTGATAATGAGAAGAAAATGTCAATTGAAGAGCT
CCTGG
Found at i:13953571 original size:19 final size:21
Alignment explanation
Indices: 13953533--13953582 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
13953523 AATACATTAA
* *
13953533 ATTAAAAAATAACTCTTAATT
1 ATTAAAAAATAACACATAATT
13953554 -TTAAAAAATAA-ACATAATT
1 ATTAAAAAATAACACATAATT
13953573 ATCTAAAAAA
1 AT-TAAAAAA
13953583 ATTAAATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 6 0.24
20 12 0.48
21 7 0.28
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTAAAAAATAACACATAATT
Found at i:13955497 original size:29 final size:29
Alignment explanation
Indices: 13955454--13955513 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
13955444 AATACATTAA
13955454 ATCCAAACAGACCTAAGCAAACCTATCAT
1 ATCCAAACAGACCTAAGCAAACCTATCAT
* * *
13955483 ATCCAAACAGTCCTAGGCACACCTATCAT
1 ATCCAAACAGACCTAAGCAAACCTATCAT
13955512 AT
1 AT
13955514 AAGCTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.32, G:0.08, T:0.20
Consensus pattern (29 bp):
ATCCAAACAGACCTAAGCAAACCTATCAT
Found at i:13958616 original size:15 final size:15
Alignment explanation
Indices: 13958596--13958637 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
13958586 TGTCCTTGAA
13958596 GGATGTTCCCCATAT
1 GGATGTTCCCCATAT
13958611 GGATGTTCCCCATAT
1 GGATGTTCCCCATAT
13958626 GGATGTTCCCCA
1 GGATGTTCCCCA
13958638 GCAATGGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (15 bp):
GGATGTTCCCCATAT
Found at i:13967796 original size:15 final size:15
Alignment explanation
Indices: 13967762--13967795 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
13967752 AATTCTAAAA
13967762 ATTTTAAAAAAATAT
1 ATTTTAAAAAAATAT
13967777 ATTTTAAAAAAATA-
1 ATTTTAAAAAAATAT
13967791 ATTTT
1 ATTTT
13967796 TTTAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTTTAAAAAAATAT
Found at i:13968605 original size:60 final size:62
Alignment explanation
Indices: 13968504--13968631 Score: 149
Period size: 60 Copynumber: 2.1 Consensus size: 62
13968494 ATTTTGAAAA
* * * * *
13968504 TTTTA-AAGTTAGAATTAAATTGATAAATTTCGTAAATGTTGA-AGGTTAAGTTTATTGAATT
1 TTTTAGAAGTTAGAATTAAATTGATAAATCTCGTAAACGTTGAGA-GCTAAATTTATTAAATT
*
13968565 TTTTAGAA-TTAGAATT-AATTGATAAA-CTCTGTAAACGTTGAGAGCTAAATTTGTTAAATT
1 TTTTAGAAGTTAGAATTAAATTGATAAATCTC-GTAAACGTTGAGAGCTAAATTTATTAAATT
13968625 TTTTAGA
1 TTTTAGA
13968632 TTAATACAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
59 2 0.03
60 40 0.69
61 14 0.24
62 2 0.03
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.43
Consensus pattern (62 bp):
TTTTAGAAGTTAGAATTAAATTGATAAATCTCGTAAACGTTGAGAGCTAAATTTATTAAATT
Found at i:13975191 original size:8 final size:8
Alignment explanation
Indices: 13975178--13975203 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13975168 ATTAATAATA
13975178 TATAAAAT
1 TATAAAAT
13975186 TATAAAAT
1 TATAAAAT
13975194 TATAAAAT
1 TATAAAAT
13975202 TA
1 TA
13975204 AATAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TATAAAAT
Found at i:13981196 original size:25 final size:26
Alignment explanation
Indices: 13981135--13981199 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
13981125 TATCATTTTA
*
13981135 AATT-TATATA-TTATATATACAAAT
1 AATTATATATATTTATATATAAAAAT
*
13981159 AATTATATTTATTTA-ATATAAAAAT
1 AATTATATATATTTATATATAAAAAT
13981184 AA-TATGATATATTTAT
1 AATTAT-ATATATTTAT
13981200 TCAAATGTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 7 0.21
25 24 0.71
26 3 0.09
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (26 bp):
AATTATATATATTTATATATAAAAAT
Found at i:13991418 original size:25 final size:25
Alignment explanation
Indices: 13991390--13991437 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13991380 GAGATTTTAG
13991390 AAAAGAGAAAAAAGAAGAGAGAGAA
1 AAAAGAGAAAAAAGAAGAGAGAGAA
* * *
13991415 AAAAGCGAGAAGAGAAGAGAGAG
1 AAAAGAGAAAAAAGAAGAGAGAG
13991438 TGAGAGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (25 bp):
AAAAGAGAAAAAAGAAGAGAGAGAA
Found at i:13991428 original size:16 final size:15
Alignment explanation
Indices: 13991388--13991430 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
13991378 GAGAGATTTT
13991388 AGAA-AAGAGAAAAA
1 AGAAGAAGAGAAAAA
13991402 AGAAGAGAGAGAAAAA
1 AGAAGA-AGAGAAAAA
*
13991418 AGCGAGAAGAGAA
1 AG-AAGAAGAGAA
13991431 GAGAGAGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 4 0.16
15 1 0.04
16 17 0.68
17 3 0.12
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.00
Consensus pattern (15 bp):
AGAAGAAGAGAAAAA
Found at i:13993322 original size:22 final size:22
Alignment explanation
Indices: 13993297--13993339 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13993287 AGCATATGAG
13993297 AAAACTTGGTAAAAAATGTACT
1 AAAACTTGGTAAAAAATGTACT
13993319 AAAACTTGGTAAAAAATGTAC
1 AAAACTTGGTAAAAAATGTAC
13993340 AAGCTATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (22 bp):
AAAACTTGGTAAAAAATGTACT
Found at i:14001093 original size:26 final size:26
Alignment explanation
Indices: 14001055--14001138 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
14001045 CATGAAATTC
* *
14001055 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
*
14001081 TTATCATGGAACATTTACCTAGCCTA
1 TTATCATGGAACATTTACCTAACCTA
14001107 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
14001133 TTATCA
1 TTATCA
14001139 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:14005343 original size:26 final size:26
Alignment explanation
Indices: 14005314--14005366 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
14005304 TCAGACATGC
14005314 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
14005340 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
14005366 A
1 A
14005367 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:14006879 original size:26 final size:26
Alignment explanation
Indices: 14006850--14006933 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
14006840 CAGGAAATTC
*
14006850 TTATAATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14006876 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14006902 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
14006928 TTATCA
1 TTATCA
14006934 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14008272 original size:15 final size:16
Alignment explanation
Indices: 14008252--14008296 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
14008242 TTCTTTATTA
*
14008252 AATATTATTATTTCT-
1 AATATTATTATTTATC
14008267 AATATTATTAATATTATC
1 AATATTATT-AT-TTATC
14008285 AATATTATTATT
1 AATATTATTATT
14008297 ATTTTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 9 0.35
16 3 0.12
17 5 0.19
18 9 0.35
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (16 bp):
AATATTATTATTTATC
Found at i:14008278 original size:9 final size:9
Alignment explanation
Indices: 14008246--14008313 Score: 54
Period size: 9 Copynumber: 7.9 Consensus size: 9
14008236 TTTTGTTTCT
14008246 TTATTAAATA
1 TTATT-AATA
14008256 TTATT-AT-
1 TTATTAATA
*
14008263 TT-CTAATA
1 TTATTAATA
14008271 TTATTAATA
1 TTATTAATA
*
14008280 TTATCAATA
1 TTATTAATA
*
14008289 TTATTATTA
1 TTATTAATA
* *
14008298 TTTTTTATA
1 TTATTAATA
14008307 -TATTAAT
1 TTATTAAT
14008314 GTATATTTTC
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
6 1 0.02
7 4 0.09
8 9 0.20
9 26 0.58
10 5 0.11
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (9 bp):
TTATTAATA
Found at i:14008281 original size:18 final size:18
Alignment explanation
Indices: 14008254--14008313 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
14008244 CTTTATTAAA
*
14008254 TATTATTATTTCTAATAT
1 TATTAATATTTCTAATAT
14008272 TATTAATATTATC-AATAT
1 TATTAATATT-TCTAATAT
* * *
14008290 TATTATTATTTTTTATA-
1 TATTAATATTTCTAATAT
14008307 TATTAAT
1 TATTAAT
14008314 GTATATTTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 7 0.20
18 26 0.74
19 2 0.06
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTAATATTTCTAATAT
Found at i:14008387 original size:12 final size:11
Alignment explanation
Indices: 14008367--14008488 Score: 54
Period size: 12 Copynumber: 10.6 Consensus size: 11
14008357 TTTAATTTCA
14008367 TATTATTATTAT
1 TATTATTA-TAT
* *
14008379 TAGTATTATAA
1 TATTATTATAT
14008390 TATTA-TAT-T
1 TATTATTATAT
14008399 TATTATTAATAT
1 TATTATT-ATAT
*
14008411 TAGTATATATAT
1 TATTAT-TATAT
*
14008423 T-TTATTAT-G
1 TATTATTATAT
14008432 TATGTATATATAT
1 TAT-TAT-TATAT
* *
14008445 AATTTTTATAT
1 TATTATTATAT
** *
14008456 AGTATTATCGTTT
1 --TATTATTATAT
14008469 CTATTATTATATT
1 -TATTATTATA-T
14008482 TATTATT
1 TATTATT
14008489 TTCACTATTA
Statistics
Matches: 80, Mismatches: 19, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
9 6 0.08
10 8 0.10
11 19 0.24
12 37 0.46
13 10 0.12
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (11 bp):
TATTATTATAT
Found at i:14008392 original size:23 final size:24
Alignment explanation
Indices: 14008366--14008463 Score: 87
Period size: 26 Copynumber: 4.0 Consensus size: 24
14008356 CTTTAATTTC
14008366 ATAT-TATTATTATTAGTATTATA
1 ATATATATTATTATTAGTATTATA
*
14008389 ATATTATATTTATTATTAATATTAGT-
1 ATA-TATA-TTATTATTAGTATTA-TA
14008415 ATATATATT-TTATTATGTATGTAT-
1 ATATATATTATTATTA-GTAT-TATA
*
14008439 ATATATAATTTTTATATAGTATTAT
1 ATATAT-ATTATTAT-TAGTATTAT
14008464 CGTTTCTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
23 9 0.14
24 13 0.20
25 14 0.22
26 25 0.39
27 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (24 bp):
ATATATATTATTATTAGTATTATA
Found at i:14008680 original size:37 final size:38
Alignment explanation
Indices: 14008638--14008719 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 38
14008628 TTTAATACTC
* * *
14008638 TTATATTATGTATATTATTTTTTTTAATATTATATTT-T
1 TTATATTACGTATA-TATTTTTTTAAATATCATATTTAT
14008676 TATATATTACGTATATATTTTTTTAAATATCATA-TTAT
1 T-TATATTACGTATATATTTTTTTAAATATCATATTTAT
14008714 TTATAT
1 TTATAT
14008720 ACTTTATTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
37 7 0.18
38 20 0.51
39 12 0.31
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (38 bp):
TTATATTACGTATATATTTTTTTAAATATCATATTTAT
Found at i:14008682 original size:15 final size:15
Alignment explanation
Indices: 14008611--14008684 Score: 50
Period size: 14 Copynumber: 5.0 Consensus size: 15
14008601 ATTTCTTTAT
14008611 TATTTTT-TAT-TTA
1 TATTTTTATATATTA
* *
14008624 TTATTTTAATACTCTTA
1 -TATTTTTATA-TATTA
*
14008641 TATTATGTATATTATT-
1 TATT-TTTATA-TATTA
14008657 T-TTTTTA-ATATTA
1 TATTTTTATATATTA
14008670 TATTTTTATATATTA
1 TATTTTTATATATTA
14008685 CGTATATATT
Statistics
Matches: 47, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
12 4 0.09
13 2 0.04
14 15 0.32
15 10 0.21
16 6 0.13
17 10 0.21
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (15 bp):
TATTTTTATATATTA
Found at i:14008690 original size:39 final size:39
Alignment explanation
Indices: 14008639--14008720 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
14008629 TTAATACTCT
* * *
14008639 TATATTATGTATATTATTTTTTTTAATATTATATT-TTTA
1 TATATTACGTATA-TATTTTTTTAAATATCATATTATTTA
14008678 TATATTACGTATATATTTTTTTAAATATCATATTATTTA
1 TATATTACGTATATATTTTTTTAAATATCATATTATTTA
14008717 TATA
1 TATA
14008721 CTTTATTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
38 19 0.49
39 20 0.51
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (39 bp):
TATATTACGTATATATTTTTTTAAATATCATATTATTTA
Found at i:14008731 original size:38 final size:34
Alignment explanation
Indices: 14008617--14008731 Score: 85
Period size: 32 Copynumber: 3.3 Consensus size: 34
14008607 TTATTATTTT
* * * *
14008617 TTATT-TATTATTTTAATACTCTTA-TATTATGTA
1 TTATTATATTTTTTTAATA-TCATATTTTTATATA
*
14008650 -TATTAT-TTTTTTTAATATTATATTTTTATATA
1 TTATTATATTTTTTTAATATCATATTTTTATATA
14008682 TTACGTATATATTTTTTTAAATATCATATTATTTATATA
1 TTA--T-TATATTTTTTT-AATATCATATT-TTTATATA
14008721 CTTTATTATAT
1 --TTATTATAT
14008732 AGGTGTATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
31 3 0.05
32 21 0.32
33 3 0.05
35 1 0.02
36 3 0.05
37 7 0.11
38 15 0.23
39 9 0.14
41 3 0.05
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (34 bp):
TTATTATATTTTTTTAATATCATATTTTTATATA
Found at i:14008775 original size:21 final size:22
Alignment explanation
Indices: 14008715--14008775 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
14008705 TCATATTATT
14008715 TATATACTTTATT-ATATAGGTG
1 TATAT-CTTTATTAATATAGGTG
*
14008737 TATATCTTTAATATATATA-G-G
1 TATATCTTTATTA-ATATAGGTG
14008758 TATATCTTTATGTAATAT
1 TATATCTTTAT-TAATAT
14008776 TAGTATTGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 21 0.62
22 8 0.24
23 5 0.15
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (22 bp):
TATATCTTTATTAATATAGGTG
Found at i:14008775 original size:23 final size:23
Alignment explanation
Indices: 14008715--14008767 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 23
14008705 TCATATTATT
14008715 TATATACTTT-AT-TATATAGGTG
1 TATAT-CTTTAATATATATAGGTG
14008737 TATATCTTTAATATATATA-G-G
1 TATATCTTTAATATATATAGGTG
14008758 TATATCTTTA
1 TATATCTTTA
14008768 TGTAATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 15 0.52
22 8 0.28
23 6 0.21
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (23 bp):
TATATCTTTAATATATATAGGTG
Found at i:14014985 original size:20 final size:19
Alignment explanation
Indices: 14014962--14015020 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 19
14014952 AAAATCTAAA
14014962 ATTTTATAAATTCATAATTT
1 ATTTTATAAATT-ATAATTT
14014982 ATTTTATAAAATTATAAATTT
1 ATTTTAT-AAATTAT-AATTT
*
14015003 TTTTTA-AAATTTATAATT
1 ATTTTATAAA-TTATAATT
14015021 ATGCGAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
19 7 0.20
20 13 0.37
21 15 0.43
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTATAAATTATAATTT
Found at i:14015001 original size:21 final size:21
Alignment explanation
Indices: 14014962--14015018 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 21
14014952 AAAATCTAAA
14014962 ATTTTAT-AAATTCAT-AATTT
1 ATTTTATAAAATT-ATAAATTT
14014982 ATTTTATAAAATTATAAATTT
1 ATTTTATAAAATTATAAATTT
14015003 -TTTT-TAAAATTTATAA
1 ATTTTATAAAA-TTATAA
14015019 TTATGCGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.15
20 19 0.56
21 10 0.29
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTTATAAAATTATAAATTT
Found at i:14015364 original size:18 final size:17
Alignment explanation
Indices: 14015324--14015367 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
14015314 TTTTTTTGCA
*
14015324 TTTTTTAAAATTTTAAC
1 TTTTTTATAATTTTAAC
**
14015341 GATTTTATAATTTTAAAC
1 TTTTTTATAATTTT-AAC
14015359 TTTTTTATA
1 TTTTTTATA
14015368 TAGATAACAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTTTATAATTTTAAC
Found at i:14016684 original size:18 final size:18
Alignment explanation
Indices: 14016661--14016697 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14016651 TTAATTCTAG
14016661 TTATTTGTAATTATAATT
1 TTATTTGTAATTATAATT
* *
14016679 TTATTTGTATTTGTAATT
1 TTATTTGTAATTATAATT
14016697 T
1 T
14016698 CTAGACAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TTATTTGTAATTATAATT
Found at i:14026676 original size:14 final size:12
Alignment explanation
Indices: 14026639--14026663 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14026629 CTATAACCCT
14026639 ACATATATATGC
1 ACATATATATGC
14026651 ACATATATATGC
1 ACATATATATGC
14026663 A
1 A
14026664 TTTATATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ACATATATATGC
Found at i:14027725 original size:21 final size:21
Alignment explanation
Indices: 14027692--14027733 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14027682 AACATTGGTT
* *
14027692 ATAATATACAAAAATTAATAA
1 ATAAGATACAAAAAATAATAA
*
14027713 ATAAGATATAAAAAATAATAA
1 ATAAGATACAAAAAATAATAA
14027734 TATATTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
ATAAGATACAAAAAATAATAA
Found at i:14033447 original size:45 final size:45
Alignment explanation
Indices: 14033398--14033661 Score: 420
Period size: 45 Copynumber: 5.9 Consensus size: 45
14033388 TCGGCCATGG
* * * *
14033398 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* *
14033443 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
14033488 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
14033533 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
14033578 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* * * **
14033623 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
14033662 TCCACCTCTT
Statistics
Matches: 205, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 205 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
Found at i:14033796 original size:16 final size:16
Alignment explanation
Indices: 14033775--14033806 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14033765 TATTCTGCAT
14033775 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
14033791 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
14033807 AAACACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.12, T:0.12
Consensus pattern (16 bp):
TTAAACAACAGCAGCA
Found at i:14037279 original size:45 final size:45
Alignment explanation
Indices: 14037230--14037493 Score: 420
Period size: 45 Copynumber: 5.9 Consensus size: 45
14037220 TCGGCCATGG
* * * * *
14037230 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
14037275 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
14037320 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
14037365 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
14037410 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* * * **
14037455 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
14037494 TCCACCTCTT
Statistics
Matches: 205, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 205 1.00
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:14038760 original size:20 final size:20
Alignment explanation
Indices: 14038735--14038774 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
14038725 TAACCCATTA
*
14038735 CTTACTCCCAGAGGCTTACT
1 CTTACTCCCACAGGCTTACT
14038755 CTTACTCCCACAGGCTTACT
1 CTTACTCCCACAGGCTTACT
14038775 TATTCTCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.38, G:0.12, T:0.30
Consensus pattern (20 bp):
CTTACTCCCACAGGCTTACT
Found at i:14050003 original size:25 final size:25
Alignment explanation
Indices: 14049974--14050024 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
14049964 CAAAGGAAAA
**
14049974 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
14049999 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
14050024 T
1 T
14050025 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:14054667 original size:25 final size:25
Alignment explanation
Indices: 14054638--14054688 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
14054628 CAAAGGAAAA
**
14054638 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
14054663 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
14054688 T
1 T
14054689 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:14062709 original size:22 final size:22
Alignment explanation
Indices: 14062658--14062718 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
14062648 ATAAGTAAAT
* *
14062658 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
14062679 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
14062701 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
14062719 GATAGAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:14062818 original size:3 final size:3
Alignment explanation
Indices: 14062810--14062849 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
14062800 AAAGTAGTGC
*
14062810 TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
14062850 CTATTAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:14062957 original size:16 final size:16
Alignment explanation
Indices: 14062938--14062969 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14062928 TTATAATAAT
14062938 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
14062954 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
14062970 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:14063221 original size:3 final size:3
Alignment explanation
Indices: 14063213--14063248 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
14063203 CTACCATATT
14063213 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14063249 TAGAAATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14063356 original size:3 final size:3
Alignment explanation
Indices: 14063342--14063371 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
14063332 AAATATACAC
14063342 TAA TATA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA
14063372 TAGAAATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:14063463 original size:124 final size:123
Alignment explanation
Indices: 14063220--14063489 Score: 524
Period size: 124 Copynumber: 2.2 Consensus size: 123
14063210 ATTATAATAA
14063220 TAATA-ATAATAATAATAATAATAATAATATAGAAATACAAAGAGCAAATAAAAATATTAAATTT
1 TAATATATAATAATAATAATAATAATAATATAGAAATACAAAGAGCAAATAAAAATATTAAATTT
14063284 AAAAACAATACTATATATAAAAGTATATACATACATATATGTACATAAAAATATACAC
66 AAAAACAATACTATATATAAAAGTATATACATACATATATGTACATAAAAATATACAC
14063342 TAATATATAATAATAATAATAATAATAATATAGAAATACAAAGAGCAAATAAAAATATTAAATTT
1 TAATATATAATAATAATAATAATAATAATATAGAAATACAAAGAGCAAATAAAAATATTAAA-TT
14063407 TAAAAACAATACTATATATAAAAGTATATACATACATATATGTACATAAAAATATACAC
65 TAAAAACAATACTATATATAAAAGTATATACATACATATATGTACATAAAAATATACAC
14063466 TAATATATAATAATAATAATAATA
1 TAATATATAATAATAATAATAATA
14063490 TTAAAATGCA
Statistics
Matches: 146, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
122 5 0.03
123 56 0.38
124 85 0.58
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.30
Consensus pattern (123 bp):
TAATATATAATAATAATAATAATAATAATATAGAAATACAAAGAGCAAATAAAAATATTAAATTT
AAAAACAATACTATATATAAAAGTATATACATACATATATGTACATAAAAATATACAC
Found at i:14064013 original size:23 final size:21
Alignment explanation
Indices: 14063962--14064018 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 21
14063952 TCGAAAAAAG
* *
14063962 AAAAATCCCCTCTTGAATCTC
1 AAAAATCTCTTCTTGAATCTC
14063983 AAAAATCTCTTCTTGAATCTC
1 AAAAATCTCTTCTTGAATCTC
14064004 AAAAAAATCTCTTCT
1 --AAAAATCTCTTCT
14064019 CTCCAAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 19 0.59
23 13 0.41
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAAATCTCTTCTTGAATCTC
Found at i:14065280 original size:8 final size:7
Alignment explanation
Indices: 14065234--14065279 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
14065224 TAATTTTTAG
14065234 AAAA-TA
1 AAAATTA
14065240 AAAA-TA
1 AAAATTA
14065246 AAAATGTA
1 AAAAT-TA
*
14065254 AATATTTA
1 AA-AATTA
14065262 AAAATTA
1 AAAATTA
14065269 AAAATTA
1 AAAATTA
14065276 AAAA
1 AAAA
14065280 AACAATAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
6 10 0.29
7 15 0.43
8 8 0.23
9 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (7 bp):
AAAATTA
Found at i:14065286 original size:29 final size:29
Alignment explanation
Indices: 14065206--14065286 Score: 69
Period size: 29 Copynumber: 2.8 Consensus size: 29
14065196 AAATATGATT
* * *
14065206 AATTAAAAATTTTAAAAATAATTTTTAGAA
1 AATTAAAAA-TTAAAAAAAAATATTTAGAA
*
14065236 AA-TAAAAA-TAAAAATGTAAATATTTA-AA
1 AATTAAAAATTAAAAA--AAAATATTTAGAA
14065264 AATTAAAAATTAAAAAAACAATA
1 AATTAAAAATTAAAAAAA-AATA
14065287 AAAAGTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
27 5 0.12
28 5 0.12
29 23 0.56
30 8 0.20
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.31
Consensus pattern (29 bp):
AATTAAAAATTAAAAAAAAATATTTAGAA
Found at i:14077541 original size:93 final size:92
Alignment explanation
Indices: 14077409--14077603 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
14077399 TTAATTTTAG
* *
14077409 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
14077473 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
14077501 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
14077566 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
14077594 CAAATTCATA
1 TAAATTCATA
14077604 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:14077661 original size:17 final size:17
Alignment explanation
Indices: 14077636--14077669 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
14077626 ATAATTTTAA
*
14077636 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
14077653 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
14077670 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:14077671 original size:15 final size:16
Alignment explanation
Indices: 14077636--14077674 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
14077626 ATAATTTTAA
*
14077636 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
14077653 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
14077668 ATTTAAT
1 ATTTAAT
14077675 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:14077678 original size:17 final size:18
Alignment explanation
Indices: 14077640--14077679 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
14077630 TTTTAAATTT
*
14077640 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
14077658 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
14077674 TATTAA
1 TATTAA
14077680 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:14077793 original size:15 final size:15
Alignment explanation
Indices: 14077758--14077809 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14077748 TTAAGAATTT
*
14077758 TATTAAATTAT-ATA
1 TATTTAATTATAATA
14077772 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
14077786 TATTTAATAATAAT-
1 TATTTAATTATAATA
14077800 TATGTTAATT
1 TAT-TTAATT
14077810 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:14077800 original size:119 final size:120
Alignment explanation
Indices: 14077635--14077929 Score: 442
Period size: 120 Copynumber: 2.5 Consensus size: 120
14077625 AATAATTTTA
* *
14077635 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATATTAATTAT-TTGAAAATT-T-T
1 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTT--AAATTATAT
* *
14077695 TTTATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAAT-TTTATTTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTT-TTAAG
*
14077753 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
*
14077818 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
14077873 AATTTTATT-AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
14077930 ATGATTAAAT
Statistics
Matches: 163, Mismatches: 7, Indels: 12
0.90 0.04 0.07
Matches are distributed among these distances:
118 22 0.13
119 67 0.41
120 68 0.42
121 6 0.04
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
Found at i:14077839 original size:120 final size:119
Alignment explanation
Indices: 14077635--14077929 Score: 440
Period size: 119 Copynumber: 2.5 Consensus size: 119
14077625 AATAATTTTA
* *
14077635 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATATTAATTAT-TTGAAAATTTTTT
1 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTT-AAAATTTTTT
* *
14077697 TATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAAT-TTTATTTATTAAG
64 TACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTT-TTAAG
*
14077753 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAATT-T-TTT
*
14077817 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTTTTAAG
64 TACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
*
14077873 AATTTTATT-AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAAT
14077930 ATGATTAAAT
Statistics
Matches: 163, Mismatches: 7, Indels: 12
0.90 0.04 0.07
Matches are distributed among these distances:
118 22 0.13
119 69 0.42
120 66 0.40
121 6 0.04
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (119 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAAATTTTTTTA
CAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
Found at i:14077893 original size:16 final size:16
Alignment explanation
Indices: 14077886--14077927 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14077876 TTTATTAATT
14077886 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
14077902 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
14077917 AT-TATGTTTAA
1 ATATAT-TTTAA
14077928 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:14077898 original size:13 final size:15
Alignment explanation
Indices: 14077880--14077918 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
14077870 AAGAATTTTA
14077880 TTAATTAT-ATAT-T
1 TTAATTATAATATAT
14077893 TTAATTATAATATAT
1 TTAATTATAATATAT
*
14077908 TTAATAATAAT
1 TTAATTATAAT
14077919 TATGTTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.35
14 4 0.17
15 11 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTAATTATAATATAT
Found at i:14077959 original size:75 final size:75
Alignment explanation
Indices: 14077878--14078112 Score: 187
Period size: 75 Copynumber: 3.1 Consensus size: 75
14077868 TTAAGAATTT
*
14077878 TATTAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAATATGATTAAATTAT
1 TATTAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTAT
*
14077943 TTATTATTGA
66 TTATAATTGA
* * * **** * *
14077953 TATTAATCT-TATTAAATTTAAATAACAATA-A--CAATAATAATT-TACCAAAACA-AATTTAT
1 TATTAAT-TATA-T-ATTTTAATTAA-AATATATTTAATAATAATTATGTTTAAATATGA-TTA-
* * *
14078012 GCTAATTATTAAGAATT-T
60 ---AATTATTTATAATTGA
14078030 TATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
1 TATT-AATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTA
*
14078095 TTTATGATTGA
65 TTTATAATTGA
*
14078106 TAATAAT
1 TATTAAT
14078113 AATCTTATTA
Statistics
Matches: 115, Mismatches: 28, Indels: 34
0.65 0.16 0.19
Matches are distributed among these distances:
73 1 0.01
74 8 0.07
75 37 0.32
76 15 0.13
77 15 0.13
78 30 0.26
79 8 0.07
80 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (75 bp):
TATTAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAATTAT
TTATAATTGA
Found at i:14078049 original size:153 final size:155
Alignment explanation
Indices: 14077862--14078173 Score: 540
Period size: 153 Copynumber: 2.0 Consensus size: 155
14077852 ATAAGAATAT
* *
14077862 TAATTTTTAAGAATTTTATTAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 TAATTATTAAGAATTTTATTAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
*
14077927 AATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATT-AAATTTAAATAACAATAACAATA
66 AATATGATTAAATTATTTATGATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATA
14077989 ATAATTTACCAAAACAAATTTATGC
131 ATAATTTACCAAAACAAATTTATGC
14078014 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATT-AATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
14078079 AAATATGATTAAATTATTTATGATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
65 AAATATGATTAAATTATTTATGATTGATAAT-ATAATCTTATTAAAATTTAAATAACAATAACAA
* *
14078144 TAATCATTTACCAAAACAAATTTCTGC
129 TAATAATTTACCAAAACAAATTTATGC
14078171 TAA
1 TAA
14078174 GGGTATTCTA
Statistics
Matches: 150, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
152 19 0.13
153 70 0.47
154 2 0.01
156 10 0.07
157 49 0.33
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (155 bp):
TAATTATTAAGAATTTTATTAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTAAATTATTTATGATTGATAATATAATCTTATTAAAATTTAAATAACAATAACAATA
ATAATTTACCAAAACAAATTTATGC
Found at i:14078054 original size:18 final size:17
Alignment explanation
Indices: 14078026--14078060 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14078016 ATTATTAAGA
*
14078026 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
14078043 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
14078061 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:14078324 original size:16 final size:16
Alignment explanation
Indices: 14078305--14078336 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
14078295 TACACAGTTT
14078305 TTCCATTACACCTCTA
1 TTCCATTACACCTCTA
14078321 TTCCATTACACCTCTA
1 TTCCATTACACCTCTA
14078337 ATCATAGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.38, G:0.00, T:0.38
Consensus pattern (16 bp):
TTCCATTACACCTCTA
Found at i:14078359 original size:14 final size:14
Alignment explanation
Indices: 14078340--14078367 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14078330 ACCTCTAATC
14078340 ATAGTATAAAAATT
1 ATAGTATAAAAATT
14078354 ATAGTATAAAAATT
1 ATAGTATAAAAATT
14078368 TAAAATTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
ATAGTATAAAAATT
Done.