Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 49 of 150
Found at i:14117798 original size:18 final size:19
Alignment explanation
Indices: 14117761--14117798 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
14117751 ACCACATTCA
*
14117761 TTTCCAAATGTTTCTCATTT
1 TTTCCAAA-GTTTATCATTT
14117781 TTTCCAAA-TTTATCATTT
1 TTTCCAAAGTTTATCATTT
14117799 ATATCCATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.24, C:0.18, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTCCAAAGTTTATCATTT
Found at i:14120005 original size:289 final size:289
Alignment explanation
Indices: 14119484--14120046 Score: 873
Period size: 289 Copynumber: 1.9 Consensus size: 289
14119474 TTTCTTACTG
14119484 TTTCAATCAATTTTGAACTCCAAATCTTAATTCCTTTTGATTTCTATCATCTCTTAAGTTATAAA
1 TTTCAATCAATTTTGAACTCCAAATCTTAATTCCTTTTGATTTCTATCATCTCTTAAGTTATAAA
* *
14119549 CCTCTATAAAAACCAAGAAAATCACCCAAAAACTTCATCATCTACATCATCTTCTCCAAACGTGA
66 CCTCAATAAAAACCAAGAAAATCAACCAAAAACTTCATCATCTACATCATCTTCTCCAAACGTGA
* * * * * *
14119614 GTTTTTTTGGATTTGCGTCAAAGCTTATTTTTCTCCCATCGAAGGTAACCATTCAAATTTCTATG
131 GTGTTTCTAGATTTGCATCAAAGCTCATTTTTCTCCCATCGAAGGTAACCATTCAAATTACTATG
* * * *
14119679 AGTTTTAAATGATGTCTAGTCTCTTAAACTGAATTTGTAGCGATTGAAACAAATG-TTTAAATTA
196 AGTTTTAAATGATATCTAGTCTCTTAAACTGAATTTGTAACCATTGAAACAAACGTTTTAAA-TA
*
14119743 AAAGCTAAAAATTGGGTCGTTTAATTGCTA
260 AAAGCCAAAAATTGGGTCGTTTAATTGCTA
14119773 TTTCAATCAATTTTGAACTCCAAAT-TCTAATTCCTTTTGATTTCTATCATCTCTTAAGTTATAA
1 TTTCAATCAATTTTGAACTCCAAATCT-TAATTCCTTTTGATTTCTATCATCTCTTAAGTTATAA
* * *
14119837 ACCTCAATAAAAACCAAGAAAATTAACTAAAAACTTCATCATCTACATCATCTTCTCCAAATGTG
65 ACCTCAATAAAAACCAAGAAAATCAACCAAAAACTTCATCATCTACATCATCTTCTCCAAACGTG
* * *
14119902 -GCTGTTTCTAGATTTGCATCAAAGCTCATTTTTCTTCCATCGAAGGTAACCATTCGACTTACTA
130 AG-TGTTTCTAGATTTGCATCAAAGCTCATTTTTCTCCCATCGAAGGTAACCATTCAAATTACTA
* *
14119966 TGAGTTTTAAATGATATCTAGTC-CTTTAAACTTAATTTGTAACCATTGAAACACACGTTTTAAA
194 TGAGTTTTAAATGATATCTAGTCTC-TTAAACTGAATTTGTAACCATTGAAACAAACGTTTTAAA
14120030 TAAAAGCCAAAAATTGG
258 TAAAAGCCAAAAATTGG
14120047 ATTGTTAATG
Statistics
Matches: 249, Mismatches: 21, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
288 3 0.01
289 240 0.96
290 6 0.02
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (289 bp):
TTTCAATCAATTTTGAACTCCAAATCTTAATTCCTTTTGATTTCTATCATCTCTTAAGTTATAAA
CCTCAATAAAAACCAAGAAAATCAACCAAAAACTTCATCATCTACATCATCTTCTCCAAACGTGA
GTGTTTCTAGATTTGCATCAAAGCTCATTTTTCTCCCATCGAAGGTAACCATTCAAATTACTATG
AGTTTTAAATGATATCTAGTCTCTTAAACTGAATTTGTAACCATTGAAACAAACGTTTTAAATAA
AAGCCAAAAATTGGGTCGTTTAATTGCTA
Found at i:14129885 original size:18 final size:18
Alignment explanation
Indices: 14129852--14129886 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14129842 TTTAATTGGA
*
14129852 AAATTAATTAATTAAATT
1 AAATTAATTAAGTAAATT
*
14129870 AAATTAATTTAGTAAAT
1 AAATTAATTAAGTAAAT
14129887 AGTATTTATT
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:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
AAATTAATTAAGTAAATT
Found at i:14132989 original size:23 final size:23
Alignment explanation
Indices: 14132961--14133008 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
14132951 AAAAAAGAAA
14132961 GGGAAAAAATACATAAGTGACAG
1 GGGAAAAAATACATAAGTGACAG
14132984 GGGAAAAAATACATAAGTGACAG
1 GGGAAAAAATACATAAGTGACAG
14133007 GG
1 GG
14133009 CCTATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.50, C:0.08, G:0.29, T:0.12
Consensus pattern (23 bp):
GGGAAAAAATACATAAGTGACAG
Found at i:14133029 original size:8 final size:8
Alignment explanation
Indices: 14133016--14133051 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
14133006 GGGCCTATAA
14133016 TAAAAAAT
1 TAAAAAAT
14133024 TAAAAAAT
1 TAAAAAAT
14133032 TAAAAAAT
1 TAAAAAAT
14133040 TAAAAAAT
1 TAAAAAAT
14133048 TAAA
1 TAAA
14133052 TCCATGTCTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
TAAAAAAT
Found at i:14139271 original size:26 final size:26
Alignment explanation
Indices: 14139242--14139295 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
14139232 CGTTTAGATA
14139242 GTTAATTAATTAAAAAGGACTAATTT
1 GTTAATTAATTAAAAAGGACTAATTT
14139268 GTTAATTAATTAAAAAGGACTAATTT
1 GTTAATTAATTAAAAAGGACTAATTT
14139294 GT
1 GT
14139296 AAAAAAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.13, T:0.39
Consensus pattern (26 bp):
GTTAATTAATTAAAAAGGACTAATTT
Found at i:14143765 original size:19 final size:19
Alignment explanation
Indices: 14143714--14143766 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
14143704 ACTAGCATGT
*
14143714 AAAGTGCATACTAGCACAC
1 AAAGTGCATACTGGCACAC
*
14143733 AAAGTGCATACTGGCACAT
1 AAAGTGCATACTGGCACAC
* *
14143752 GAAGTGCATCCTGGC
1 AAAGTGCATACTGGC
14143767 GCGTTAGCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.19
Consensus pattern (19 bp):
AAAGTGCATACTGGCACAC
Found at i:14147977 original size:30 final size:30
Alignment explanation
Indices: 14147938--14148009 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
14147928 CCTTGTGTCT
*
14147938 AGCC-GTGTGTCTCACACCGCCAAGTCACA
1 AGCCTGTGTGTCTCACACCACCAAGTCACA
* *
14147967 CGCCTGTGTGTCTCACACTACCAAGTCACA
1 AGCCTGTGTGTCTCACACCACCAAGTCACA
14147997 AGCCTGTGTGTCT
1 AGCCTGTGTGTCT
14148010 GGCCGTGTAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 3 0.08
30 35 0.92
ACGTcount: A:0.21, C:0.35, G:0.21, T:0.24
Consensus pattern (30 bp):
AGCCTGTGTGTCTCACACCACCAAGTCACA
Found at i:14160957 original size:17 final size:17
Alignment explanation
Indices: 14160935--14160967 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
14160925 GATCGCTAAT
14160935 CATATTACATGCATACC
1 CATATTACATGCATACC
14160952 CATATTACATGCATAC
1 CATATTACATGCATAC
14160968 ACGATTCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.30
Consensus pattern (17 bp):
CATATTACATGCATACC
Found at i:14162177 original size:10 final size:10
Alignment explanation
Indices: 14162162--14162192 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
14162152 AACTTTCCTA
14162162 TTAAAAGTTT
1 TTAAAAGTTT
14162172 TTAAAAGTTT
1 TTAAAAGTTT
14162182 TTAAAAGTTT
1 TTAAAAGTTT
14162192 T
1 T
14162193 CATTCTGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (10 bp):
TTAAAAGTTT
Found at i:14165128 original size:42 final size:43
Alignment explanation
Indices: 14165068--14165181 Score: 185
Period size: 42 Copynumber: 2.7 Consensus size: 43
14165058 TTTTATCCTA
*
14165068 GAAAAGAGAATTTAAAAAGAGGAGAAGATAATATTGGGTTGTT
1 GAAAAAAGAATTTAAAAAGAGGAGAAGATAATATTGGGTTGTT
*
14165111 GAAAAAA-AATTTAAAAAGAGGAGAAGATAATATTTGGTTGTT
1 GAAAAAAGAATTTAAAAAGAGGAGAAGATAATATTGGGTTGTT
* *
14165153 GAAAAAAGAATTTAAAACGAGGAAAAGAT
1 GAAAAAAGAATTTAAAAAGAGGAGAAGAT
14165182 CAACATGAGT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
42 41 0.62
43 25 0.38
ACGTcount: A:0.52, C:0.01, G:0.24, T:0.24
Consensus pattern (43 bp):
GAAAAAAGAATTTAAAAAGAGGAGAAGATAATATTGGGTTGTT
Found at i:14167705 original size:18 final size:18
Alignment explanation
Indices: 14167680--14167728 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
14167670 AATTCACAAT
* *
14167680 TCAAATTCACTTT-CATT
1 TCAAATTCACTTTAAATA
14167697 TCAAAATTCACTTTAAATA
1 TC-AAATTCACTTTAAATA
14167716 TCAAATTCACTTT
1 TCAAATTCACTTT
14167729 TCCATTCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 2 0.07
18 22 0.79
19 4 0.14
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (18 bp):
TCAAATTCACTTTAAATA
Found at i:14172861 original size:43 final size:43
Alignment explanation
Indices: 14172733--14172848 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
14172723 TTTATCCTAG
14172733 AAAAAGCAATTTAAAAAGAGGAGAAGATAATCTTAGGTTGTTGA
1 AAAAAG-AATTTAAAAAGAGGAGAAGATAATCTTAGGTTGTTGA
* * *
14172777 AAAAAGAACTTAAAAAGAGGAGAAGATAATTTTTGGTTGTTGA
1 AAAAAGAATTTAAAAAGAGGAGAAGATAATCTTAGGTTGTTGA
*
14172820 AAAAAGAATTTAAAACGAGGA-AGAGATAA
1 AAAAAGAATTTAAAAAGAGGAGA-AGATAA
14172849 ACATGGGTTG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
42 1 0.02
43 59 0.89
44 6 0.09
ACGTcount: A:0.51, C:0.03, G:0.22, T:0.23
Consensus pattern (43 bp):
AAAAAGAATTTAAAAAGAGGAGAAGATAATCTTAGGTTGTTGA
Found at i:14175841 original size:41 final size:40
Alignment explanation
Indices: 14175782--14175927 Score: 145
Period size: 41 Copynumber: 3.6 Consensus size: 40
14175772 CAGACTTATT
**
14175782 GTCTAGCAGGCTGGATGCCGGTGATATAATTCAGGCTATG
1 GTCTAGCAGGCTTAATGCCGGTGATATAATTCAGGCTATG
* * * *
14175822 TGCCTAGCAGGCTTAATGCCGGTGA-ATTAATTCAGACTTTAC
1 -GTCTAGCAGGCTTAATGCCGGTGATA-TAATTCAGGCTAT-G
* *
14175864 GTCTAGCAGGCTTAATGCCGGTGATACATTTC-GGACTATAG
1 GTCTAGCAGGCTTAATGCCGGTGATATAATTCAGG-CTAT-G
14175905 GTCTAGCAGGCTATAA-GCCGGTG
1 GTCTAGCAGGCT-TAATGCCGGTG
14175928 TATCGAATCA
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
40 2 0.02
41 82 0.93
42 4 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
GTCTAGCAGGCTTAATGCCGGTGATATAATTCAGGCTATG
Found at i:14176315 original size:2 final size:2
Alignment explanation
Indices: 14176303--14176332 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14176293 TATATGATGA
*
14176303 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14176333 TCGAATGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14186636 original size:27 final size:27
Alignment explanation
Indices: 14186612--14186671 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
14186602 AATATATAAC
14186612 TTATATTTTTAATATTTATATTATAATA
1 TTATATTTTT-ATATTTATATTATAATA
* **
14186640 TTATATTTTTATTTTTATAAAATAA-A
1 TTATATTTTTATATTTATATTATAATA
14186666 TTATAT
1 TTATAT
14186672 AAATGTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.24
27 12 0.41
28 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTATATTTTTATATTTATATTATAATA
Found at i:14194050 original size:17 final size:17
Alignment explanation
Indices: 14194030--14194062 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14194020 TAGAATTGGG
*
14194030 TTGAGAAGTTAATTTAA
1 TTGAGAAATTAATTTAA
14194047 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
14194063 GTTAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:14196292 original size:35 final size:35
Alignment explanation
Indices: 14196236--14196362 Score: 121
Period size: 35 Copynumber: 3.6 Consensus size: 35
14196226 AAGCTCGACT
* * *
14196236 TTTAGAAAATGTTGGGGTAGACCCGTCTAAGGAAAT
1 TTTA-AAAAGGTTGGGATAGACCCGTCTAAGGAAAC
* * * *
14196272 TTTAAAAAGGCTGGGATAGACTCGTCTAATGTAACC
1 TTTAAAAAGGTTGGGATAGACCCGTCTAA-GGAAAC
* ** *
14196308 TTT-AAAAGGTTCGGATAGACCCAACTAAGGCAAC
1 TTTAAAAAGGTTGGGATAGACCCGTCTAAGGAAAC
*
14196342 CTTAAAAAGGTTGGGATAGAC
1 TTTAAAAAGGTTGGGATAGAC
14196363 ACTTCCAAGG
Statistics
Matches: 72, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
34 5 0.07
35 57 0.79
36 10 0.14
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (35 bp):
TTTAAAAAGGTTGGGATAGACCCGTCTAAGGAAAC
Found at i:14197488 original size:80 final size:80
Alignment explanation
Indices: 14197391--14197551 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
14197381 TTAAGAAGTA
14197391 TGAAGAATAATGAATCCAAACAAACAAAACATAAAAAAAATCAAATAAATCAACTGCTAATACCA
1 TGAAGAATAATGAATCCAAACAAACAAAACATAAAAAAAATCAAATAAATCAACTGCTAATACCA
14197456 TCGTTGAATCAACTT
66 TCGTTGAATCAACTT
14197471 TGAAGAATAATGAATCCAAACAAACAAAACATAAAAAAAATCAAATAAATCAACTGCTAATACCA
1 TGAAGAATAATGAATCCAAACAAACAAAACATAAAAAAAATCAAATAAATCAACTGCTAATACCA
14197536 TCGTTGAATCAACTT
66 TCGTTGAATCAACTT
14197551 T
1 T
14197552 AGTTTCAGTA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.53, C:0.17, G:0.07, T:0.22
Consensus pattern (80 bp):
TGAAGAATAATGAATCCAAACAAACAAAACATAAAAAAAATCAAATAAATCAACTGCTAATACCA
TCGTTGAATCAACTT
Found at i:14198255 original size:16 final size:16
Alignment explanation
Indices: 14198236--14198268 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14198226 TCAAACTTCA
14198236 ATCGGTTAGTCAATTT
1 ATCGGTTAGTCAATTT
14198252 ATCGGTTAGTCAATTT
1 ATCGGTTAGTCAATTT
14198268 A
1 A
14198269 GTCCTTTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (16 bp):
ATCGGTTAGTCAATTT
Found at i:14199962 original size:46 final size:45
Alignment explanation
Indices: 14199885--14199984 Score: 155
Period size: 46 Copynumber: 2.2 Consensus size: 45
14199875 GGAAAATGAT
* * *
14199885 TAAGACCATAGTTGAAATACATTATGGCACCATACCAGAGAAGAAA
1 TAAGACCATAGTTGAAATACACTATGACACCATACCAGA-AACAAA
*
14199931 TAAGACCATAGTTGAAATACACTATGACACCATACCAGAAACAAG
1 TAAGACCATAGTTGAAATACACTATGACACCATACCAGAAACAAA
14199976 TAAGACCAT
1 TAAGACCAT
14199985 GACTGAAAGA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 13 0.26
46 37 0.74
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.19
Consensus pattern (45 bp):
TAAGACCATAGTTGAAATACACTATGACACCATACCAGAAACAAA
Found at i:14200023 original size:45 final size:45
Alignment explanation
Indices: 14199974--14200097 Score: 214
Period size: 45 Copynumber: 2.8 Consensus size: 45
14199964 ACCAGAAACA
14199974 AGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTATCG
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTATCG
*
14200019 AGTAAGACCATGATTGAAAGACGTTATGGCATCATGATTCTATCG
1 AGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTATCG
*
14200064 AGTAAGACCAT-AGCTGAAAGACGCTATGGCATCA
1 AGTAAGACCATGA-CTGAAAGACGTTATGGCATCA
14200098 CGAATCAAAG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
44 1 0.01
45 74 0.99
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.25
Consensus pattern (45 bp):
AGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTATCG
Found at i:14200137 original size:90 final size:90
Alignment explanation
Indices: 14199974--14200138 Score: 208
Period size: 90 Copynumber: 1.8 Consensus size: 90
14199964 ACCAGAAACA
* * * ** * *
14199974 AGTAAGACCATGACTGAAAGACGTTATGGCATCATGATTCTATCGAGTAAGACCATGATTGAAAG
1 AGTAAGACCATGACTGAAAGACGCTATGGCATCACGAATCTAAAGAATAAAACCATGATTGAAAG
**
14200039 ACGTTATGGCATCATGATTCTATCG
66 ACACTATGGCATCATGATTCTATCG
*
14200064 AGTAAGACCAT-AGCTGAAAGACGCTATGGCATCACGAATC-AAAGAAATAAAACCATGGTTGAA
1 AGTAAGACCATGA-CTGAAAGACGCTATGGCATCACGAATCTAAAG-AATAAAACCATGATTGAA
14200127 AGACACTATGGC
64 AGACACTATGGC
14200139 GACACAACAA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
89 3 0.05
90 60 0.95
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.23
Consensus pattern (90 bp):
AGTAAGACCATGACTGAAAGACGCTATGGCATCACGAATCTAAAGAATAAAACCATGATTGAAAG
ACACTATGGCATCATGATTCTATCG
Found at i:14200175 original size:46 final size:46
Alignment explanation
Indices: 14200066--14200227 Score: 158
Period size: 45 Copynumber: 3.6 Consensus size: 46
14200056 TTCTATCGAG
* * *
14200066 TAAGACCATAGCTGAAAGACGCTATGGC-ATCACGAATCAAAGAA-ATA
1 TAAGACCATGGTTGAAAGACACTATGGCGA-CAC-AA-CAAAGAATATA
*
14200113 -AA-ACCATGGTTGAAAGACACTATGGCGACACAACAAAAAATATA
1 TAAGACCATGGTTGAAAGACACTATGGCGACACAACAAAGAATATA
* * * *
14200157 TAAGACCATGGTTGAAAGACATTAT---GACATCAAGACGAGAATAAA
1 TAAGACCATGGTTGAAAGACACTATGGCGACA-CAACA-AAGAATATA
14200202 TAAGACCATGGTTGAAAGACACTATG
1 TAAGACCATGGTTGAAAGACACTATG
14200228 CCACACTTCG
Statistics
Matches: 98, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
43 10 0.10
44 9 0.09
45 56 0.57
46 23 0.23
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGACACTATGGCGACACAACAAAGAATATA
Found at i:14221913 original size:25 final size:24
Alignment explanation
Indices: 14221876--14221934 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
14221866 CCCTGTACAT
* *
14221876 GTATGCTCATACGAGCTCTGAATCG
1 GTATGCTCTTACGAGCTCT-AAACG
*
14221901 GTATGCTCTTACGAGCTGTAAACG
1 GTATGCTCTTACGAGCTCTAAACG
*
14221925 GTAAGCTCTT
1 GTATGCTCTT
14221935 CTAAGCTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 13 0.43
25 17 0.57
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (24 bp):
GTATGCTCTTACGAGCTCTAAACG
Found at i:14221955 original size:25 final size:24
Alignment explanation
Indices: 14221921--14221983 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 24
14221911 ACGAGCTGTA
*
14221921 AACGGTAAGCTCTTCTAAGCTGAAT
1 AACGGTAAGCTCTGC-AAGCTGAAT
*
14221946 AACGGTAAGCTCATGCGAGCTGAAT
1 AACGGTAAGCTC-TGCAAGCTGAAT
*
14221971 ATCGGTAAGCTCT
1 AACGGTAAGCTCT
14221984 CTTGAGCTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 1 0.03
25 31 0.91
26 2 0.06
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (24 bp):
AACGGTAAGCTCTGCAAGCTGAAT
Found at i:14221990 original size:25 final size:25
Alignment explanation
Indices: 14221923--14222003 Score: 80
Period size: 25 Copynumber: 3.2 Consensus size: 25
14221913 GAGCTGTAAA
* *
14221923 CGGTAAGCTCT-TCTAAGCTGAATAA
1 CGGTAAGCTCTCT-TGAGCTGAATAT
14221948 CGGTAAGCTCATGC--GAGCTGAATAT
1 CGGTAAGCTC-T-CTTGAGCTGAATAT
14221973 CGGTAAGCTCTCTTGAGCTGAGA-AT
1 CGGTAAGCTCTCTTGAGCTGA-ATAT
14221998 CGGTAA
1 CGGTAA
14222004 CCTTAATGAC
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 44 0.92
26 2 0.04
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (25 bp):
CGGTAAGCTCTCTTGAGCTGAATAT
Found at i:14222002 original size:50 final size:49
Alignment explanation
Indices: 14221895--14222003 Score: 116
Period size: 50 Copynumber: 2.2 Consensus size: 49
14221885 TACGAGCTCT
* *
14221895 GAATCGGTATGCTCTTACGAGCTGTAAACGGTAAGCTCTTCTAAGCTGA
1 GAATCGGTAAGCTCATACGAGCTGTAAACGGTAAGCTCTTCTAAGCTGA
* * *
14221944 -ATAACGGTAAGCTCATGCGAGCTG-AATATCGGTAAGCTC-TCTTGAGCTGA
1 GA-ATCGGTAAGCTCATACGAGCTGTAA-A-CGGTAAGCTCTTC-TAAGCTGA
14221994 GAATCGGTAA
1 GAATCGGTAA
14222004 CCTTAATGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
48 3 0.06
49 21 0.43
50 24 0.49
51 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (49 bp):
GAATCGGTAAGCTCATACGAGCTGTAAACGGTAAGCTCTTCTAAGCTGA
Found at i:14238473 original size:30 final size:30
Alignment explanation
Indices: 14238414--14238473 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
14238404 TGCCTTTAAA
* **
14238414 AATATTTACAAAAAGAGACCATTAATTTTT
1 AATATTTACAAAAAGAGACAACCAATTTTT
14238444 AATATTTACAAAAAGA-ACAACCAACTTTTT
1 AATATTTACAAAAAGAGACAACCAA-TTTTT
14238474 CAAATAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAATTTTT
Found at i:14240539 original size:50 final size:50
Alignment explanation
Indices: 14240431--14240727 Score: 231
Period size: 50 Copynumber: 5.8 Consensus size: 50
14240421 ATTTGGGTAA
* * *
14240431 AGAGATCTCATGTAAGACCATGTCTGGGACATGGCATTTGCATCCTTGAGATCATG
1 AGAGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCA--C-TGAG---ATG
* *
14240487 AGAGATCCCATGTAAGACCATGCCTGGGACATGCCGTTGGCACTGAGATG
1 AGAGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCACTGAGATG
* * * *
14240537 AGAGGTCCCATGTAAGACCAT-CTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGATCCCATGTAAGACCATGC-CTGGGACATGGCATTGGCACTGAGATG
* ** ** * * *
14240587 AGAGGTCCCCCGTAAGACCATGTTTGGAACATGGCATGGGCACTGATATG
1 AGAGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCACTGAGATG
** * * * * *
14240637 AGA-ACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCAAT-ACATA
1 AGAGA-TCCCATGTAAGACCATGCCTGGGACATGGCATTGGCACTGAGATG
* * * * * *
14240686 AAACATCCCCTGTAAAACCATGTCTGGGACATGGCTTTGGCA
1 AGAGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCA
14240728 TGTTATTATC
Statistics
Matches: 199, Mismatches: 38, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
49 37 0.19
50 120 0.60
53 4 0.02
54 1 0.01
56 37 0.19
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (50 bp):
AGAGATCCCATGTAAGACCATGCCTGGGACATGGCATTGGCACTGAGATG
Found at i:14240619 original size:100 final size:103
Alignment explanation
Indices: 14240439--14240678 Score: 270
Period size: 100 Copynumber: 2.3 Consensus size: 103
14240429 AAAGAGATCT
* * * *
14240439 CATGTAAGACCATGTCTGGGACATGGCATTTGCATCCTTGAGATCATGAGAGATCCCATGTAAGA
1 CATGTAAGACCATATCTAGGACATGGCATTGGCATCC-TGAGA--ATGAGAGATCCCACGTAAGA
* * * **
14240504 CCATGCCTGGGACATGCCGTTGGCACTGAGATGAGAGGTCC
63 CCATGCCTGGAACATGCCATGGGCACTGAGATGAGAACTCC
* * * *
14240545 CATGTAAGACCATCTCTAGGACATGGCGTTGGCA-CC-GAG-ATGAGAGGTCCCCCGTAAGACCA
1 CATGTAAGACCATATCTAGGACATGGCATTGGCATCCTGAGAATGAGAGATCCCACGTAAGACCA
** * *
14240607 TGTTTGGAACATGGCATGGGCACTGATATGAGAACTCC
66 TGCCTGGAACATGCCATGGGCACTGAGATGAGAACTCC
*
14240645 CATGTAAGACCATATCTAGGATATGGCATTGGCA
1 CATGTAAGACCATATCTAGGACATGGCATTGGCA
14240679 ATACATAAAA
Statistics
Matches: 115, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
100 80 0.70
103 3 0.03
105 2 0.02
106 30 0.26
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (103 bp):
CATGTAAGACCATATCTAGGACATGGCATTGGCATCCTGAGAATGAGAGATCCCACGTAAGACCA
TGCCTGGAACATGCCATGGGCACTGAGATGAGAACTCC
Found at i:14251967 original size:43 final size:43
Alignment explanation
Indices: 14251906--14252063 Score: 217
Period size: 43 Copynumber: 3.7 Consensus size: 43
14251896 TGTCTCAGAC
** * * *
14251906 ATGGTCTTACATGGAAATCTCATATCAATGCCAATAGCCCAGTT
1 ATGGTCTTACA-CAAAATCTCAAATCGATGCCAATAGCCCAGCT
*
14251950 ATGGTCTTATACAAAATCTCAAATCGATGCCAATAGCCCAGCT
1 ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCCAGCT
* * *
14251993 ATTGTCTTACACAAAATCTCAAATCGATGCTAATAGCCCAACT
1 ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCCAGCT
*
14252036 ATGGTCTTACACGAAATCTCAAATCGAT
1 ATGGTCTTACACAAAATCTCAAATCGAT
14252064 ATTGAAACAT
Statistics
Matches: 102, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
43 92 0.90
44 10 0.10
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACACAAAATCTCAAATCGATGCCAATAGCCCAGCT
Found at i:14256667 original size:22 final size:22
Alignment explanation
Indices: 14256639--14256686 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
14256629 AGCGTGGTTG
14256639 AACTCCTACCTTCTATTTCCAT
1 AACTCCTACCTTCTATTTCCAT
14256661 AACTCCTACCTTCTATTTCCAT
1 AACTCCTACCTTCTATTTCCAT
14256683 AACT
1 AACT
14256687 TTGGCAGCCT
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:0.25, C:0.35, G:0.00, T:0.40
Consensus pattern (22 bp):
AACTCCTACCTTCTATTTCCAT
Found at i:14261962 original size:22 final size:22
Alignment explanation
Indices: 14261900--14261964 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
14261890 GGAGGAAGTG
*
14261900 TATGGCTTGTAGCCGTTCTGTT
1 TATGGCTTCTAGCCGTTCTGTT
* * *
14261922 CAAGGCTTACT-GCCTTTCTGTT
1 TATGGCTT-CTAGCCGTTCTGTT
*
14261944 TATGGCTTTTAGCCGTTCTGT
1 TATGGCTTCTAGCCGTTCTGT
14261965 CTACGGTGTC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.11, C:0.22, G:0.23, T:0.45
Consensus pattern (22 bp):
TATGGCTTCTAGCCGTTCTGTT
Found at i:14277255 original size:24 final size:24
Alignment explanation
Indices: 14277201--14277257 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
14277191 GCTTATCCGG
14277201 GTAATATAACGGGTAGCTCTAGAAA
1 GTAAT-TAACGGGTAGCTCTAGAAA
* *
14277226 GCAATTAACGGGTAGCTC-CGAAGA
1 GTAATTAACGGGTAGCTCTAGAA-A
14277250 GTAATTAA
1 GTAATTAA
14277258 TCAGGAAGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 21 0.75
25 4 0.14
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (24 bp):
GTAATTAACGGGTAGCTCTAGAAA
Found at i:14284046 original size:17 final size:16
Alignment explanation
Indices: 14284007--14284052 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
14283997 TCCCAGAATT
14284007 TTAATATTTTTAATTGA
1 TTAA-ATTTTTAATTGA
*
14284024 TT-AATTTTTCAATTTA
1 TTAAATTTTT-AATTGA
14284040 TTAAATTTTTAAT
1 TTAAATTTTTAAT
14284053 CTTTTATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 6 0.23
16 11 0.42
17 9 0.35
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (16 bp):
TTAAATTTTTAATTGA
Found at i:14289016 original size:41 final size:40
Alignment explanation
Indices: 14288875--14289016 Score: 137
Period size: 41 Copynumber: 3.5 Consensus size: 40
14288865 ACTGGCTCGT
* * *
14288875 GCTTCGTTGATACATAGCTTAT-CACTAAGCTCAC--GGGA
1 GCTTCGCTGATACACAACTTATCCA-TAAGCTCACAAGGGA
* * *
14288913 GCTTCGCTGATACGCAACTTACCCGTAAGCTCACAAGGGCA
1 GCTTCGCTGATACACAACTTATCCATAAGCTCACAAGGG-A
* * * *
14288954 GCTTCGCTGATACACACCTTATCCATCAGTTCTCGAAGGGA
1 GCTTCGCTGATACACAACTTATCCATAAGCTCAC-AAGGGA
*
14288995 GCTTCGCTAATACACAACTTAT
1 GCTTCGCTGATACACAACTTAT
14289017 AAAACCATTT
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
38 26 0.31
39 1 0.01
40 3 0.04
41 49 0.58
42 5 0.06
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (40 bp):
GCTTCGCTGATACACAACTTATCCATAAGCTCACAAGGGA
Found at i:14289805 original size:27 final size:27
Alignment explanation
Indices: 14289773--14289830 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
14289763 AATCCCCAAC
14289773 TTGCCTAAAC-CTTGGCGAACACCCAGT
1 TTGCCT-AACTCTTGGCGAACACCCAGT
* * *
14289800 TTGCCTGACTCTTGGCGAATACCTAGT
1 TTGCCTAACTCTTGGCGAACACCCAGT
14289827 TTGC
1 TTGC
14289831 TAGAACACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (27 bp):
TTGCCTAACTCTTGGCGAACACCCAGT
Found at i:14297149 original size:54 final size:54
Alignment explanation
Indices: 14297081--14297212 Score: 203
Period size: 54 Copynumber: 2.4 Consensus size: 54
14297071 TGAGATACCC
* * *
14297081 TGGACTGGTCCAAAATGGAGTGAT-CTTGATGCTTCAAATGATGCAAACAACTCA
1 TGGACTGGTTCAAAATGGAGTGATGC-TGAGGCCTCAAATGATGCAAACAACTCA
* *
14297135 TGGACTGGTTCAAAATGGAGTGATGCTGAGGCCTCAAATGATGCGAACAATTCA
1 TGGACTGGTTCAAAATGGAGTGATGCTGAGGCCTCAAATGATGCAAACAACTCA
14297189 TGGACTGGTTCAAAATGGAGTGAT
1 TGGACTGGTTCAAAATGGAGTGAT
14297213 ACAGGTGCCT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
54 71 0.99
55 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.26
Consensus pattern (54 bp):
TGGACTGGTTCAAAATGGAGTGATGCTGAGGCCTCAAATGATGCAAACAACTCA
Found at i:14300538 original size:33 final size:33
Alignment explanation
Indices: 14300501--14300604 Score: 106
Period size: 33 Copynumber: 3.1 Consensus size: 33
14300491 TATTTAATGG
14300501 TTATATTTAAATATTTAAAATATAATTTATATA
1 TTATATTTAAATATTTAAAATATAATTTATATA
* * *
14300534 TTATAATTAAAT-TTTATAA-ATAATTAATAT-
1 TTATATTTAAATATTTAAAATATAATTTATATA
*
14300564 TTATTATTTAAAAATATTTAAAATTTATATTTCATATA
1 TTA-TATTT--AAATATTTAAAATATA-ATTT-ATATA
14300602 TTA
1 TTA
14300605 AAATATTAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
30 3 0.05
31 14 0.25
32 6 0.11
33 15 0.27
34 6 0.11
35 2 0.04
36 3 0.05
37 4 0.07
38 3 0.05
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (33 bp):
TTATATTTAAATATTTAAAATATAATTTATATA
Found at i:14300578 original size:24 final size:23
Alignment explanation
Indices: 14300546--14300595 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
14300536 ATAATTAAAT
* *
14300546 TTTATAAATAATTAATATTTATTA
1 TTTAAAAATAATTAAAATTTA-TA
*
14300570 TTTAAAAATATTTAAAATTTATA
1 TTTAAAAATAATTAAAATTTATA
14300593 TTT
1 TTT
14300596 CATATATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTAAAAATAATTAAAATTTATA
Found at i:14300595 original size:30 final size:30
Alignment explanation
Indices: 14300509--14300611 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
14300499 GGTTATATTT
*
14300509 AAATATTTAAAATATA-ATTTATATATTATAA
1 AAATATTTAAAATTTATATTTAT-TATT-TAA
14300540 TTAAAT-TTTATAAATAATTAATATTTATTATTTAA
1 --AAATATTTA-AAAT--TT-ATATTTATTATTTAA
14300575 AAATATTTAAAATTTATATTTCA-TATATT-A
1 AAATATTTAAAATTTATATTT-ATTAT-TTAA
14300605 AAATATT
1 AAATATT
14300612 AACAAGTTAT
Statistics
Matches: 61, Mismatches: 1, Indels: 19
0.75 0.01 0.23
Matches are distributed among these distances:
30 17 0.28
31 5 0.08
32 4 0.07
33 16 0.26
34 4 0.07
35 4 0.07
36 5 0.08
37 6 0.10
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (30 bp):
AAATATTTAAAATTTATATTTATTATTTAA
Found at i:14313293 original size:17 final size:17
Alignment explanation
Indices: 14313271--14313303 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14313261 GTTAGTGAAC
*
14313271 ATTGTCTTTGCATTTTT
1 ATTGTCATTGCATTTTT
14313288 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
14313304 AATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.61
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:14318814 original size:12 final size:12
Alignment explanation
Indices: 14318776--14318818 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
14318766 GGCCTCACAC
*
14318776 GCCGTGTGGTAA
1 GCCGTGTGGTAG
*
14318788 GCCGTGTGGCAG
1 GCCGTGTGGTAG
*
14318800 GCCGTGTGGTGG
1 GCCGTGTGGTAG
14318812 GCCGTGT
1 GCCGTGT
14318819 AACTCTTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.07, C:0.21, G:0.49, T:0.23
Consensus pattern (12 bp):
GCCGTGTGGTAG
Found at i:14324553 original size:41 final size:41
Alignment explanation
Indices: 14324463--14324559 Score: 113
Period size: 41 Copynumber: 2.4 Consensus size: 41
14324453 ATAAGTGGGT
** *
14324463 CTGCTCACAGAAGCTGTCGGTTGGAACATAGTTACACGGTG
1 CTGCTCACAGAAGCTGTCGGTCCGAACATAGCTACACGGTG
* * * *
14324504 CTGGTCACAGAAGTTGTCGGTCCGAACGTAGCTACATGGTG
1 CTGCTCACAGAAGCTGTCGGTCCGAACATAGCTACACGGTG
* *
14324545 TTGCTCACACAAGCT
1 CTGCTCACAGAAGCT
14324560 ACTAAGTAAC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CTGCTCACAGAAGCTGTCGGTCCGAACATAGCTACACGGTG
Found at i:14341619 original size:11 final size:11
Alignment explanation
Indices: 14341603--14341636 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
14341593 ACAAATCTGA
14341603 TTTCAATGTAT
1 TTTCAATGTAT
14341614 TTTCAATGTAT
1 TTTCAATGTAT
14341625 TCTTCAAGTGTA
1 T-TTCAA-TGTA
14341637 ATGTGTATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 12 0.57
12 5 0.24
13 4 0.19
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (11 bp):
TTTCAATGTAT
Found at i:14348451 original size:65 final size:65
Alignment explanation
Indices: 14348378--14348537 Score: 221
Period size: 65 Copynumber: 2.5 Consensus size: 65
14348368 AATTCTGAAC
* * * *
14348378 GCAATCTGGAATTAACCCATGCAGTGACATGTAGACATTTGTCAGGTGTGGCGACAATTCTAGAT
1 GCAATCTGGAATTAACCCATGCAGCGACATGCAGACATCTGTCAGGTGCGGCGACAATTCTAGAT
* * * *
14348443 GCAATCTGGAATTAACCCGTGCAGCGACATGCAGACATCTGTTAGGTGCGGTGACAATTCTGGAT
1 GCAATCTGGAATTAACCCATGCAGCGACATGCAGACATCTGTCAGGTGCGGCGACAATTCTAGAT
* * *
14348508 GCAATCTGAAATTAACTCATGTAGCGACAT
1 GCAATCTGGAATTAACCCATGCAGCGACAT
14348538 TAATGCAATA
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
65 83 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (65 bp):
GCAATCTGGAATTAACCCATGCAGCGACATGCAGACATCTGTCAGGTGCGGCGACAATTCTAGAT
Found at i:14361200 original size:15 final size:15
Alignment explanation
Indices: 14361182--14361210 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14361172 TTTATTCTTT
14361182 CTTTTATTATTATTA
1 CTTTTATTATTATTA
14361197 CTTTTATTATTATT
1 CTTTTATTATTATT
14361211 TTAATCCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (15 bp):
CTTTTATTATTATTA
Found at i:14365998 original size:28 final size:28
Alignment explanation
Indices: 14365941--14365998 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
14365931 GTGGAATCTA
* *
14365941 AAAACAATAGCCTATGTGGCGAACTTTG
1 AAAACAATAACCTATGTGGCGAAATTTG
*
14365969 AAAAGAATAACCTATGTGGC-AAATTCTG
1 AAAACAATAACCTATGTGGCGAAATT-TG
14365997 AA
1 AA
14365999 TGGATCGCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (28 bp):
AAAACAATAACCTATGTGGCGAAATTTG
Found at i:14375477 original size:19 final size:18
Alignment explanation
Indices: 14375444--14375479 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
14375434 TAATATTTGT
*
14375444 TAAACATGTTTAATTAAA
1 TAAACATGATTAATTAAA
14375462 TAAACAATGATTAATTAA
1 TAAAC-ATGATTAATTAA
14375480 TTTTTAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (18 bp):
TAAACATGATTAATTAAA
Found at i:14380332 original size:23 final size:23
Alignment explanation
Indices: 14380306--14380370 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
14380296 CCAGAAATCA
*
14380306 TATGCGATTTAAAAAAGAAAGTG
1 TATGCGAATTAAAAAAGAAAGTG
*
14380329 TATGCGAATTGAAAAAGAAAGTG
1 TATGCGAATTAAAAAAGAAAGTG
*
14380352 TATGCGAATTGAAAGAAGA
1 TATGCGAATT-AAAAAAGA
14380371 TGTATCATAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 31 0.84
24 6 0.16
ACGTcount: A:0.48, C:0.05, G:0.25, T:0.23
Consensus pattern (23 bp):
TATGCGAATTAAAAAAGAAAGTG
Found at i:14382335 original size:14 final size:14
Alignment explanation
Indices: 14382318--14382344 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14382308 AATCATCTTC
14382318 TATGAGTTCGCATG
1 TATGAGTTCGCATG
14382332 TATGAGTTCGCAT
1 TATGAGTTCGCAT
14382345 ATAAGAATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (14 bp):
TATGAGTTCGCATG
Found at i:14383762 original size:50 final size:50
Alignment explanation
Indices: 14383687--14383883 Score: 207
Period size: 51 Copynumber: 3.9 Consensus size: 50
14383677 GTGAAGTTGC
* * * *
14383687 TAGGTCACATGTGTAGTACTATGTGCAAGCTATTAGGTGTACCAGAATG-A
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GGATGAA
* * * **
14383737 TAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT-GAA
* * * *
14383788 TTGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAA
1 TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAA
* * * *
14383838 AATGGTCACATGTGTAGTACTATGTGCAGGATACTATGTGAACCGG
1 TA-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG
14383884 GTATCATTTA
Statistics
Matches: 120, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 3 0.03
50 40 0.33
51 77 0.64
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGAA
Found at i:14383873 original size:102 final size:101
Alignment explanation
Indices: 14383691--14383875 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
14383681 AGTTGCTAGG
* * * *
14383691 TCACATGTGTAGTACTATGTGCAAGCTATTAGGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATGAAAGGTCACATGTGTAGTAC
*
14383756 TATGTGCAGGCTACTATGCGTACCGGATAGCTTTGA
66 TATGTGCAGGATACTATGCGTACCGGATAGCTTTGA
* * * *
14383792 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GGATGAAAATGGTCACATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATG-AAA-GGTCACATGTGTAGT
14383856 ACTATGTGCAGGATACTATG
64 ACTATGTGCAGGATACTATG
14383876 TGAACCGGGT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
100 4 0.05
101 36 0.49
102 33 0.45
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATGAAAGGTCACATGTGTAGTAC
TATGTGCAGGATACTATGCGTACCGGATAGCTTTGA
Found at i:14383883 original size:102 final size:101
Alignment explanation
Indices: 14383691--14383883 Score: 262
Period size: 102 Copynumber: 1.9 Consensus size: 101
14383681 AGTTGCTAGG
* * * *
14383691 TCACATGTGTAGTACTATGTGCAAGCTATTAGGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATGAAAGGTCACATGTGTAGTAC
* *
14383756 TATGTGCAGGCTACTATGCGTACCGGATAGCTTTGA
66 TATGTGCAGGATACTATGCGAACCGGATAGCTTTGA
* * * *
14383792 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GGATGAAAATGGTCACATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATG-AAA-GGTCACATGTGTAGT
*
14383856 ACTATGTGCAGGATACTATGTGAACCGG
64 ACTATGTGCAGGATACTATGCGAACCGG
14383884 GTATCATTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
100 4 0.05
101 36 0.46
102 39 0.49
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (101 bp):
TCACATGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATGAAAGGTCACATGTGTAGTAC
TATGTGCAGGATACTATGCGAACCGGATAGCTTTGA
Found at i:14406392 original size:28 final size:30
Alignment explanation
Indices: 14406329--14406399 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
14406319 CCTACAAGGG
*
14406329 ACACAAGGCTGTGTCACGTGGCCATGTGTC
1 ACACACGGCTGTGTCACGTGGCCATGTGTC
** *
14406359 ACACACGGCTGTGTCGTGTGGCCATGTGCC
1 ACACACGGCTGTGTCACGTGGCCATGTGTC
*
14406389 ACACATGGCTG
1 ACACACGGCTG
14406400 AGACACATGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.18, C:0.28, G:0.31, T:0.23
Consensus pattern (30 bp):
ACACACGGCTGTGTCACGTGGCCATGTGTC
Found at i:14408169 original size:25 final size:25
Alignment explanation
Indices: 14408140--14408196 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
14408130 ACCAGGCTCG
14408140 AAGCCTGATATAACACACCAGCACC
1 AAGCCTGATATAACACACCAGCACC
* * *
14408165 AAGCCTGATATAATACACCGGCACG
1 AAGCCTGATATAACACACCAGCACC
14408190 AAGCCTG
1 AAGCCTG
14408197 CTAGGCACAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.37, C:0.32, G:0.18, T:0.14
Consensus pattern (25 bp):
AAGCCTGATATAACACACCAGCACC
Found at i:14408241 original size:38 final size:38
Alignment explanation
Indices: 14408176--14408444 Score: 335
Period size: 38 Copynumber: 7.1 Consensus size: 38
14408166 AGCCTGATAT
* *
14408176 AATA-CACCGGCACGAAGCCTGCTAGGCACAGAGCCCG
1 AATATCACTGGCACAAAGCCTGCTAGGCACAGAGCCCG
* * * *
14408213 AATATCAATGGCAAAAAGCCTACTAGGCACAGAGCGCG
1 AATATCACTGGCACAAAGCCTGCTAGGCACAGAGCCCG
* * * * *
14408251 AAGATCACTAGCACGAAGCTTGCTAGGCACAGAGCCCT
1 AATATCACTGGCACAAAGCCTGCTAGGCACAGAGCCCG
*
14408289 AATATCACTGGCA-AGAAGCCTACTAGGCACAGAGCCCG
1 AATATCACTGGCACA-AAGCCTGCTAGGCACAGAGCCCG
* * *
14408327 AATATCACCGACACAAAGCCTGCTTGGCACAGAGCCCG
1 AATATCACTGGCACAAAGCCTGCTAGGCACAGAGCCCG
*
14408365 AATATCACTGGCACAAAGCTTGCTAGGCACAGAGCCCG
1 AATATCACTGGCACAAAGCCTGCTAGGCACAGAGCCCG
** * *
14408403 AATATCACTGGCACAAAGCCTATTAGGAACAGAGCTCG
1 AATATCACTGGCACAAAGCCTGCTAGGCACAGAGCCCG
14408441 AATA
1 AATA
14408445 ATGTTACATT
Statistics
Matches: 195, Mismatches: 34, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
37 4 0.02
38 190 0.97
39 1 0.01
ACGTcount: A:0.34, C:0.29, G:0.23, T:0.14
Consensus pattern (38 bp):
AATATCACTGGCACAAAGCCTGCTAGGCACAGAGCCCG
Found at i:14408379 original size:22 final size:22
Alignment explanation
Indices: 14408351--14408422 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
14408341 AAAGCCTGCT
*
14408351 TGGCACAGAGCCCGAATATCAC
1 TGGCACAAAGCCCGAATATCAC
*
14408373 TGGCACAAAG--C---T-T-GC
1 TGGCACAAAGCCCGAATATCAC
*
14408388 TAGGCACAGAGCCCGAATATCAC
1 T-GGCACAAAGCCCGAATATCAC
14408411 TGGCACAAAGCC
1 TGGCACAAAGCC
14408423 TATTAGGAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 16
0.64 0.09 0.28
Matches are distributed among these distances:
15 2 0.05
16 9 0.24
17 1 0.03
18 1 0.03
20 1 0.03
21 1 0.03
22 20 0.54
23 2 0.05
ACGTcount: A:0.32, C:0.31, G:0.24, T:0.14
Consensus pattern (22 bp):
TGGCACAAAGCCCGAATATCAC
Found at i:14412808 original size:3 final size:3
Alignment explanation
Indices: 14412800--14412839 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
14412790 CTATTTAAAA
14412800 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14412840 TCTTTTGACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:14421109 original size:9 final size:9
Alignment explanation
Indices: 14421097--14421159 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
14421087 AAATATATTA
14421097 AATTTTAAT
1 AATTTTAAT
14421106 AATTTTAAT
1 AATTTTAAT
*
14421115 ATATTTTTAT
1 A-ATTTTAAT
14421125 AATATTATGAAT
1 AAT-TT-T-AAT
14421137 -ATTTT-AT
1 AATTTTAAT
14421144 AATTTTTAAT
1 AA-TTTTAAT
14421154 AATTTT
1 AATTTT
14421160 TTATTAATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 21 0.47
10 16 0.36
11 3 0.07
12 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (9 bp):
AATTTTAAT
Found at i:14421126 original size:19 final size:18
Alignment explanation
Indices: 14421097--14421160 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
14421087 AAATATATTA
*
14421097 AATTTTAATAATTTTAAT
1 AATTTTTATAATTTTAAT
*
14421115 ATATTTTTATAATATT-AT
1 A-ATTTTTATAATTTTAAT
14421133 GAATATTTTATAATTTTTAAT
1 -AAT-TTTTATAA-TTTTAAT
14421154 AATTTTT
1 AATTTTT
14421161 TATTAATACC
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
18 5 0.13
19 25 0.66
20 6 0.16
21 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
AATTTTTATAATTTTAAT
Found at i:14421157 original size:10 final size:9
Alignment explanation
Indices: 14421097--14421160 Score: 58
Period size: 10 Copynumber: 6.8 Consensus size: 9
14421087 AAATATATTA
*
14421097 AATTTTAAT
1 AATTTTTAT
*
14421106 AATTTTAAT
1 AATTTTTAT
14421115 ATATTTTTAT
1 A-ATTTTTAT
*
14421125 AA-TATTAT
1 AATTTTTAT
14421133 GAATATTTTAT
1 -AAT-TTTTAT
14421144 AATTTTTAAT
1 AATTTTT-AT
14421154 AATTTTT
1 AATTTTT
14421161 TATTAATACC
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
8 5 0.11
9 17 0.36
10 20 0.43
11 5 0.11
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (9 bp):
AATTTTTAT
Found at i:14425172 original size:23 final size:24
Alignment explanation
Indices: 14425126--14425172 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
14425116 CCAATTACGC
**
14425126 TACCCAAATTTTTAACCCTTAAAA
1 TACCCAAATTTTTAACCCCCAAAA
*
14425150 TACCCAGA-TTTTAACCCCCAAAA
1 TACCCAAATTTTTAACCCCCAAAA
14425173 CAATAGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.40, C:0.30, G:0.02, T:0.28
Consensus pattern (24 bp):
TACCCAAATTTTTAACCCCCAAAA
Found at i:14426457 original size:37 final size:36
Alignment explanation
Indices: 14426396--14426472 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 36
14426386 TGTTTTCAAT
14426396 TGGACTAGCTCTTAAGAGCAATTGGCATGTTATCGGG
1 TGGACTAGCTCTTAAGAGCAATTGGCATGTT-TCGGG
* *
14426433 TGGATTAGCTCTTACA-AGCGATTGGCATGTTTCGGG
1 TGGACTAGCTCTTA-AGAGCAATTGGCATGTTTCGGG
14426469 TGGA
1 TGGA
14426473 ATATCTATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 9 0.24
37 27 0.73
38 1 0.03
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (36 bp):
TGGACTAGCTCTTAAGAGCAATTGGCATGTTTCGGG
Found at i:14430626 original size:23 final size:23
Alignment explanation
Indices: 14430596--14430641 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
14430586 GGTGCTATCA
14430596 CTTTGTTCTTAAGATTCCTTAAT
1 CTTTGTTCTTAAGATTCCTTAAT
14430619 CTTTGTTCTTAAGATTCCTTAAT
1 CTTTGTTCTTAAGATTCCTTAAT
14430642 ATTCAAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (23 bp):
CTTTGTTCTTAAGATTCCTTAAT
Found at i:14441277 original size:48 final size:48
Alignment explanation
Indices: 14441221--14441318 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
14441211 GTTCATCTAC
*
14441221 TAATACAAGTTTTATTTTAGTACTACGATCCGACCACATAATATCGCT
1 TAATACAAGTTTTATTTTAGTACTACGATCCGACCACATAATACCGCT
*
14441269 TAATACAAGTTTTATTTTAGTACTATGATCCGACCACATAATACCGCT
1 TAATACAAGTTTTATTTTAGTACTACGATCCGACCACATAATACCGCT
14441317 TA
1 TA
14441319 GTATTAGTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (48 bp):
TAATACAAGTTTTATTTTAGTACTACGATCCGACCACATAATACCGCT
Found at i:14450389 original size:2 final size:2
Alignment explanation
Indices: 14450382--14450408 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14450372 GTATACATAT
14450382 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
14450409 CAAACAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14462466 original size:19 final size:17
Alignment explanation
Indices: 14462442--14462485 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 17
14462432 TAACAACATA
14462442 AATAATAAAATGAAATGAC
1 AATAATAAAATG-AAT-AC
**
14462461 AATAATATGATGAATAC
1 AATAATAAAATGAATAC
14462478 AATAATAA
1 AATAATAA
14462486 GAAATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 9 0.41
18 3 0.14
19 10 0.45
ACGTcount: A:0.61, C:0.05, G:0.09, T:0.25
Consensus pattern (17 bp):
AATAATAAAATGAATAC
Found at i:14464504 original size:44 final size:44
Alignment explanation
Indices: 14464432--14464573 Score: 108
Period size: 44 Copynumber: 3.1 Consensus size: 44
14464422 AGATTTGTTG
* * * * *
14464432 TTGTAGTTTCAAGCCGACCCACTACAACTTCAGGGGTATAGGAT
1 TTGTAGATTCAATCTGACCTACTGCAACTTCAGGGGTATAGGAT
* * * *
14464476 TTGTAGCTTCAATCTGCTCCT-CTGCAACTTCAAGGAG-ATAAGATT
1 TTGTAGATTCAATCTG-ACCTACTGCAACTTC-AGGGGTATAGGA-T
*
14464521 CGCTATGGTAGATTCAATCTGACCTACTGTAACTTCAGGGGTATAGGAT
1 ---T-T-GTAGATTCAATCTGACCTACTGCAACTTCAGGGGTATAGGAT
14464570 TTGT
1 TTGT
14464574 GGTTTCACTG
Statistics
Matches: 75, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
44 29 0.39
45 8 0.11
46 1 0.01
48 1 0.01
49 9 0.12
50 27 0.36
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (44 bp):
TTGTAGATTCAATCTGACCTACTGCAACTTCAGGGGTATAGGAT
Found at i:14464518 original size:94 final size:94
Alignment explanation
Indices: 14464396--14464573 Score: 250
Period size: 94 Copynumber: 1.9 Consensus size: 94
14464386 AGTTTCATCT
* * * * *
14464396 TGCTCCATTGCAACTTCAAGGAGATAAGATTTGTTGTTGTAGTTTCAAGCCGACCCACTACAACT
1 TGCTCCATTGCAACTTCAAGGAGATAAGATTCGCTATGGTAGATTCAAGCCGACCCACTACAACT
14464461 TCAGGGGTATAGGATTTGTAGCTTCAATC
66 TCAGGGGTATAGGATTTGTAGCTTCAATC
* * * **
14464490 TGCTCC-TCTGCAACTTCAAGGAGATAAGATTCGCTATGGTAGATTCAATCTGACCTACTGTAAC
1 TGCTCCAT-TGCAACTTCAAGGAGATAAGATTCGCTATGGTAGATTCAAGCCGACCCACTACAAC
14464554 TTCAGGGGTATAGGATTTGT
65 TTCAGGGGTATAGGATTTGT
14464574 GGTTTCACTG
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 1 0.01
94 72 0.99
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (94 bp):
TGCTCCATTGCAACTTCAAGGAGATAAGATTCGCTATGGTAGATTCAAGCCGACCCACTACAACT
TCAGGGGTATAGGATTTGTAGCTTCAATC
Found at i:14471196 original size:78 final size:76
Alignment explanation
Indices: 14471072--14471321 Score: 321
Period size: 78 Copynumber: 3.3 Consensus size: 76
14471062 AAAGTATATA
*
14471072 AATTGAATTAAAGGTATGAA-TTATATAT-ATATGTGAGGTTAGAATATATATGTATATACATGT
1 AATTGAATTAAAGGTATGAATTTATATATGATATGTGAGGTTCGAATATATATGTATATACATGT
14471135 ATAAGTTCTTG
66 ATAAGTTCTTG
14471146 AATTGAATTAAAGGTATGAATTATATATATGCATATGTGAGGTTCGAATATATATGTATATACAT
1 AATTGAATTAAAGGTATGAATT-TATATATG-ATATGTGAGGTTCGAATATATATGTATATACAT
*
14471211 GTATAAGTTATTG
64 GTATAAGTTCTTG
* * * *
14471224 AATTAAATTAAAGGTATGAATTTTACATATG-TATGTGTGTGATTCG-A-ATAGATGTATATACA
1 AATTGAATTAAAGGTATGAA-TTTATATATGATATGTGAG-G-TTCGAATATATATGTATATACA
* * *
14471286 TATACAAGTACTTG
63 TGTATAAGTTCTTG
* *
14471300 AGTTGAATTAAAAGTATGAATT
1 AATTGAATTAAAGGTATGAATT
14471322 GTAAATACTT
Statistics
Matches: 156, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
74 20 0.13
75 3 0.02
76 55 0.35
77 2 0.01
78 74 0.47
79 2 0.01
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (76 bp):
AATTGAATTAAAGGTATGAATTTATATATGATATGTGAGGTTCGAATATATATGTATATACATGT
ATAAGTTCTTG
Found at i:14471716 original size:31 final size:31
Alignment explanation
Indices: 14471680--14471889 Score: 153
Period size: 31 Copynumber: 6.6 Consensus size: 31
14471670 GATAAGTATT
*
14471680 TATATGCATTCGGTTATATACCTTTGCA-GTG
1 TATATGCATTCGGTTATATA-CTTTGTATGTG
* * * *
14471711 TATATGCTTTCGATTATAAGTA-TTTGATAGATATA
1 TATATGCATTCGGTTAT-A-TACTTTG-T--ATGTG
14471746 TATATGCATTCGGTTATATACCTTTG-ATGTG
1 TATATGCATTCGGTTATATA-CTTTGTATGTG
* * *
14471777 TATATGCATTTGGTTATAAGTA-TTTGATAGGTA
1 TATATGCATTCGGTTAT-A-TACTTTG-TATGTG
*
14471810 TATATGCATTCGGTTCTATACATTTG-ATGTG
1 TATATGCATTCGGTTATATAC-TTTGTATGTG
** *
14471841 TATATGCATTCGAATGTATACATTTGT-TGTG
1 TATATGCATTCGGTTATATAC-TTTGTATGTG
*
14471872 TATATGCATTCGATTATA
1 TATATGCATTCGGTTATA
14471890 AGTAGTTGAT
Statistics
Matches: 143, Mismatches: 21, Indels: 30
0.74 0.11 0.15
Matches are distributed among these distances:
31 90 0.63
32 3 0.02
33 28 0.20
34 2 0.01
35 20 0.14
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (31 bp):
TATATGCATTCGGTTATATACTTTGTATGTG
Found at i:14471876 original size:64 final size:65
Alignment explanation
Indices: 14471665--14471853 Score: 265
Period size: 66 Copynumber: 2.9 Consensus size: 65
14471655 TATTATATCT
* * *
14471665 TATTTGATAAGTATTTATATGCATTCGGTTATATACCTTTGCA-GTGTATATGCTTTCGATTATA
1 TATTTGAT-AGTGTATATATGCATTCGGTTATATACCTTTG-ATGTGTATATGCATTCGATTATA
14471729 AG
64 AG
* * *
14471731 TATTTGATAGATATATATATGCATTCGGTTATATACCTTTGATGTGTATATGCATTTGGTTATAA
1 TATTTGATAG-TGTATATATGCATTCGGTTATATACCTTTGATGTGTATATGCATTCGATTATAA
14471796 G
65 G
* *
14471797 TATTTGATAG-GTATATATGCATTCGGTTCTATACATTTGATGTGTATATGCATTCGA
1 TATTTGATAGTGTATATATGCATTCGGTTATATACCTTTGATGTGTATATGCATTCGA
14471854 ATGTATACAT
Statistics
Matches: 112, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
64 42 0.38
65 3 0.03
66 67 0.60
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.45
Consensus pattern (65 bp):
TATTTGATAGTGTATATATGCATTCGGTTATATACCTTTGATGTGTATATGCATTCGATTATAAG
Found at i:14471878 original size:95 final size:97
Alignment explanation
Indices: 14471746--14471921 Score: 257
Period size: 95 Copynumber: 1.8 Consensus size: 97
14471736 GATAGATATA
** * * * * *
14471746 TATATGCATTCGGTTATATACCTTTGATGTGTATATGCATTTGGTTATAAGTATTTGA-TAG-GT
1 TATATGCATTCGAATATATACATTTGATGTGTATATGCATTCGATTATAAGTAGTTGATTAGTAT
14471809 ATATATGCATTCGGTTCTATACATTTGATGTG
66 ATATATGCATTCGGTTCTATACATTTGATGTG
* *
14471841 TATATGCATTCGAATGTATACATTTGTTGTGTATATGCATTCGATTATAAGTAGTTGATTAGTAT
1 TATATGCATTCGAATATATACATTTGATGTGTATATGCATTCGATTATAAGTAGTTGATTAGTAT
14471906 ATATATGCATTCGGTT
66 ATATATGCATTCGGTT
14471922 ATAATTATTT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
95 50 0.71
96 3 0.04
97 17 0.24
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.45
Consensus pattern (97 bp):
TATATGCATTCGAATATATACATTTGATGTGTATATGCATTCGATTATAAGTAGTTGATTAGTAT
ATATATGCATTCGGTTCTATACATTTGATGTG
Found at i:14476974 original size:132 final size:132
Alignment explanation
Indices: 14476720--14476978 Score: 335
Period size: 132 Copynumber: 2.0 Consensus size: 132
14476710 CTATGCTCTC
* *
14476720 AGCTGATGTTTAAAGGTGAGATGAGTTGTACTCACAACCTTCATTTATTTGAGTAAGCTAAGTTA
1 AGCTGATGTTTAAAGGTGAGATGAATTATACTCACAACCTTCATTTATTTGAGTAAGCTAAGTTA
* * *
14476785 AGCTCACTACTTCAGAACAACTCATGGACCTAAGCTCCTAACTGACAACTTGAGGACCTACGCTC
66 AGCTCACTACTTCAGAACAACTCACGAACCTAAGCTCCTAACTGACAACTTCAGGACCTACGCTC
14476850 CT
131 CT
* * * *
14476852 AGCTGATGTTTAAAGGTTAGATGAATTATACTTACAACCTTCATTTATTTGAGTAAGTTGAGTTA
1 AGCTGATGTTTAAAGGTGAGATGAATTATACTCACAACCTTCATTTATTTGAGTAAGCTAAGTTA
* * * * * *
14476917 AGCTCACTAC-TCTGGGACAACTCGCGAACCTACGCT-CTCAGCTGACAGC-TCATGGACCTACG
66 AGCTCACTACTTC-AGAACAACTCACGAACCTAAGCTCCT-AACTGACAACTTCA-GGACCTACG
14476979 TTTCTGTTGA
Statistics
Matches: 109, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
131 6 0.06
132 103 0.94
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (132 bp):
AGCTGATGTTTAAAGGTGAGATGAATTATACTCACAACCTTCATTTATTTGAGTAAGCTAAGTTA
AGCTCACTACTTCAGAACAACTCACGAACCTAAGCTCCTAACTGACAACTTCAGGACCTACGCTC
CT
Found at i:14486764 original size:249 final size:249
Alignment explanation
Indices: 14486326--14486825 Score: 964
Period size: 249 Copynumber: 2.0 Consensus size: 249
14486316 ATTTTCGTTT
*
14486326 AAGATCAGCATATGACTTTTGATGATCGGAAGCTGCTTTTAGACTATCTCGAATCACCTTGACTT
1 AAGATCAGCATATGACTTTTGACGATCGGAAGCTGCTTTTAGACTATCTCGAATCACCTTGACTT
*
14486391 TTTCTTCTGTTTCCCAGATCAAATCAACCCCATGTATCTTCTTTTCACTGAGCTCTGTCCAATAT
66 TTTCTTCTATTTCCCAGATCAAATCAACCCCATGTATCTTCTTTTCACTGAGCTCTGTCCAATAT
14486456 AACGGTGTTCTACATTTTCTACCATACAAAGCTTCATACGAAGCAATTTTAATACTGGACTGATA
131 AACGGTGTTCTACATTTTCTACCATACAAAGCTTCATACGAAGCAATTTTAATACTGGACTGATA
14486521 ACTGTTATTGTAAGCAAATTCAATCAAAGGTAGATACTTCTCCCAGTTACCTTC
196 ACTGTTATTGTAAGCAAATTCAATCAAAGGTAGATACTTCTCCCAGTTACCTTC
14486575 AAGATCAGCATATGACTTTTGACGATCGGAAGCTGCTTTTAGACTATCTCGAATCACCTTGACTT
1 AAGATCAGCATATGACTTTTGACGATCGGAAGCTGCTTTTAGACTATCTCGAATCACCTTGACTT
* *
14486640 TTTCTTCTATTTCCTAGATCAAATCAACCCCATGTATCTTCTTTTCACTTAGCTCTGTCCAATAT
66 TTTCTTCTATTTCCCAGATCAAATCAACCCCATGTATCTTCTTTTCACTGAGCTCTGTCCAATAT
14486705 AACGGTGTTCTACATTTTCTACCATACAAAGCTTCATACGAAGCAATTTTAATACTGGACTGATA
131 AACGGTGTTCTACATTTTCTACCATACAAAGCTTCATACGAAGCAATTTTAATACTGGACTGATA
14486770 ACTGTTATTGTAAGCAAATTCAATCAAAGGTAGATACTTCTCCCAGTTACCTTC
196 ACTGTTATTGTAAGCAAATTCAATCAAAGGTAGATACTTCTCCCAGTTACCTTC
14486824 AA
1 AA
14486826 ACTCTAATAT
Statistics
Matches: 247, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
249 247 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (249 bp):
AAGATCAGCATATGACTTTTGACGATCGGAAGCTGCTTTTAGACTATCTCGAATCACCTTGACTT
TTTCTTCTATTTCCCAGATCAAATCAACCCCATGTATCTTCTTTTCACTGAGCTCTGTCCAATAT
AACGGTGTTCTACATTTTCTACCATACAAAGCTTCATACGAAGCAATTTTAATACTGGACTGATA
ACTGTTATTGTAAGCAAATTCAATCAAAGGTAGATACTTCTCCCAGTTACCTTC
Found at i:14491119 original size:22 final size:23
Alignment explanation
Indices: 14491085--14491128 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
14491075 CAACCAATCC
14491085 ATTTCAACCTATTT-TCAAGATAG
1 ATTTCAACCTATTTAT-AAGATAG
*
14491108 ATTT-AACGTATTTATAAGATA
1 ATTTCAACCTATTTATAAGATA
14491129 ACCTCATCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (23 bp):
ATTTCAACCTATTTATAAGATAG
Found at i:14494604 original size:27 final size:27
Alignment explanation
Indices: 14494563--14494614 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
14494553 GATTTTATTT
* *
14494563 AGTCTCAATTTCTAGAAGGTCGTGGGC
1 AGTCCCAATTCCTAGAAGGTCGTGGGC
* *
14494590 AGTCCCAATTCCTAGAGGGTTGTGG
1 AGTCCCAATTCCTAGAAGGTCGTGG
14494615 ATATATACTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (27 bp):
AGTCCCAATTCCTAGAAGGTCGTGGGC
Found at i:14507468 original size:19 final size:19
Alignment explanation
Indices: 14507418--14507475 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 19
14507408 ATTGTGGAAT
*
14507418 CAAAGGCACCAAAGTGCAA
1 CAAAGGCACCGAAGTGCAA
*
14507437 -ATAAGGACACCGAAGTGTAA
1 CA-AAGG-CACCGAAGTGCAA
14507457 CAAAGGCACCGAAGTGCAA
1 CAAAGGCACCGAAGTGCAA
14507476 ACCCGTACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.03
19 16 0.48
20 15 0.45
21 1 0.03
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.09
Consensus pattern (19 bp):
CAAAGGCACCGAAGTGCAA
Found at i:14527721 original size:20 final size:19
Alignment explanation
Indices: 14527696--14527755 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
14527686 TCAAGTTCAT
14527696 TCAGCTCAATTTTAGCTCA
1 TCAGCTCAATTTTAGCTCA
* *
14527715 TCGAGCTCACTCTTAGCTCAA
1 TC-AGCTCAATTTTAGCTC-A
14527736 TCAGCTC-ATTTTAAGCTCA
1 TCAGCTCAATTTT-AGCTCA
14527755 T
1 T
14527756 TTGTGTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 7 0.21
20 24 0.71
21 3 0.09
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (19 bp):
TCAGCTCAATTTTAGCTCA
Found at i:14533218 original size:19 final size:19
Alignment explanation
Indices: 14533194--14533231 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14533184 TTTAGGGACT
14533194 TAGTTGTAAAAGTAGTAAA
1 TAGTTGTAAAAGTAGTAAA
14533213 TAGTTGTAAAAGTAGTAAA
1 TAGTTGTAAAAGTAGTAAA
14533232 ATATCATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (19 bp):
TAGTTGTAAAAGTAGTAAA
Found at i:14533230 original size:9 final size:9
Alignment explanation
Indices: 14533199--14533232 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
14533189 GGACTTAGTT
14533199 GTAAAAGTA
1 GTAAAAGTA
*
14533208 GTAAATAGTT
1 GTAAA-AGTA
14533218 GTAAAAGTA
1 GTAAAAGTA
14533227 GTAAAA
1 GTAAAA
14533233 TATCATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (9 bp):
GTAAAAGTA
Found at i:14537047 original size:24 final size:25
Alignment explanation
Indices: 14537020--14537067 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
14537010 ATGCCGATAC
*
14537020 GAGCTATGAATC-GTATGCTCTCAT
1 GAGCTATAAATCGGTATGCTCTCAT
14537044 GAGCTATAAATCGGTATGCTCTCA
1 GAGCTATAAATCGGTATGCTCTCA
14537068 CGATCTGTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
GAGCTATAAATCGGTATGCTCTCAT
Found at i:14557035 original size:25 final size:25
Alignment explanation
Indices: 14556994--14557041 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14556984 TCCTGTACAT
*
14556994 GTATGCTCATACGAGCTCTAAATCG
1 GTATGCTCATACAAGCTCTAAATCG
* *
14557019 GTATGCTCTTACAAGCTGTAAAT
1 GTATGCTCATACAAGCTCTAAAT
14557042 AATAAGCTCC
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:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (25 bp):
GTATGCTCATACAAGCTCTAAATCG
Found at i:14557065 original size:22 final size:23
Alignment explanation
Indices: 14557037--14557084 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 23
14557027 TTACAAGCTG
14557037 TAAAT-AATAAGCTCCTCCGAGC
1 TAAATAAATAAGCTCCTCCGAGC
14557059 TAAATAACAATAAGCTCCTCCGAGC
1 TAAAT-A-AATAAGCTCCTCCGAGC
14557084 T
1 T
14557085 GAGTATCGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.22
25 18 0.78
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.23
Consensus pattern (23 bp):
TAAATAAATAAGCTCCTCCGAGC
Found at i:14565659 original size:31 final size:31
Alignment explanation
Indices: 14565576--14565716 Score: 98
Period size: 29 Copynumber: 4.7 Consensus size: 31
14565566 GAGAAAATGT
* *
14565576 ATGAAAAGGATGCCTTTGTGGAAAAT-CT--
1 ATGAAAAGGATGCCTTTGTGGCAAGTACTGA
* *
14565604 ATGGAAAGGAAAGCCTGTT-TGGCAAGTACTGA
1 ATGAAAAGG-ATGCCT-TTGTGGCAAGTACTGA
* *
14565636 ATGAAAAGGATGACTTTGTGGCAAATA-T--
1 ATGAAAAGGATGCCTTTGTGGCAAGTACTGA
* * * **
14565664 TTGGAAAAGAAAGCCTTTGTGGTGAGTACTGA
1 AT-GAAAAGGATGCCTTTGTGGCAAGTACTGA
*
14565696 ATGAAAATGATGCCTTTGTGG
1 ATGAAAAGGATGCCTTTGTGG
14565717 AAAATCTCTA
Statistics
Matches: 84, Mismatches: 19, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
28 9 0.11
29 30 0.36
30 8 0.10
31 28 0.33
32 9 0.11
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (31 bp):
ATGAAAAGGATGCCTTTGTGGCAAGTACTGA
Found at i:14565669 original size:60 final size:59
Alignment explanation
Indices: 14565576--14565800 Score: 272
Period size: 60 Copynumber: 3.8 Consensus size: 59
14565566 GAGAAAATGT
**
14565576 ATGAAAAGGATGCCTTTGTGGAAAATCTATGGAAAGGAAAGCCTGTTTGGCAAGTACTGA
1 ATGAAAAGGATGCCTTTGTGGAAAATCTATGGAAAGGAAAGCCT-TTTGGTGAGTACTGA
* * * * *
14565636 ATGAAAAGGATGACTTTGTGGCAAATATTTGGAAAAGAAAGCCTTTGTGGTGAGTACTGA
1 ATGAAAAGGATGCCTTTGTGGAAAATCTATGGAAAGGAAAGCCTTT-TGGTGAGTACTGA
* * * * *
14565696 ATGAAAATGATGCCTTTGTGGAAAATCTCTAGAAAGGAAAGCCCTTTTGGTGAGTATTGG
1 ATGAAAAGGATGCCTTTGTGGAAAATCTATGGAAAGGAAAG-CCTTTTGGTGAGTACTGA
* * * *
14565756 ATGAAAAGGATGCCTTTGTGGCAATTCTCTAGAAAGGAAA-CCTTT
1 ATGAAAAGGATGCCTTTGTGGAAAATCTATGGAAAGGAAAGCCTTT
14565801 GTGGCCGTAG
Statistics
Matches: 144, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
58 5 0.03
59 2 0.01
60 132 0.92
61 5 0.03
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.28
Consensus pattern (59 bp):
ATGAAAAGGATGCCTTTGTGGAAAATCTATGGAAAGGAAAGCCTTTTGGTGAGTACTGA
Found at i:14578712 original size:27 final size:27
Alignment explanation
Indices: 14578681--14578745 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
14578671 TGTGTTCGCT
*
14578681 AGTCTGTTTGGCGACCTAGGGTTCACC
1 AGTCTGTTTGGCAACCTAGGGTTCACC
* *
14578708 AGTCTATTTGGCAACCTAGGGTTCGCC
1 AGTCTGTTTGGCAACCTAGGGTTCACC
14578735 AGTCTGTTTGG
1 AGTCTGTTTGG
14578746 AAAATTGAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.15, C:0.23, G:0.29, T:0.32
Consensus pattern (27 bp):
AGTCTGTTTGGCAACCTAGGGTTCACC
Found at i:14594929 original size:10 final size:10
Alignment explanation
Indices: 14594916--14594943 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
14594906 TTATATTAAT
14594916 ATTTTAAATA
1 ATTTTAAATA
14594926 ATTTTAAATA
1 ATTTTAAATA
14594936 ATTTTAAA
1 ATTTTAAA
14594944 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTTTAAATA
Found at i:14598643 original size:18 final size:17
Alignment explanation
Indices: 14598620--14598658 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
14598610 CTCTTTTTGC
14598620 TCTTTTTCATTCTCTTTT
1 TCTTTTTCATT-TCTTTT
*
14598638 TCTTTTTTGATTTCTTTT
1 TC-TTTTTCATTTCTTTT
14598656 TCT
1 TCT
14598659 ATCTTCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 1 0.05
18 10 0.53
19 8 0.42
ACGTcount: A:0.05, C:0.18, G:0.03, T:0.74
Consensus pattern (17 bp):
TCTTTTTCATTTCTTTT
Found at i:14612266 original size:54 final size:54
Alignment explanation
Indices: 14612178--14612300 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
14612168 GTGTTTTAAA
* * * * *
14612178 TCAGTGAGTTACACGACCTAGCACACGGCTTGGCACATGGGCGTCT-GTGACAAC
1 TCAGTGAGTTACACGACCTAACACACAGCCTGGCACACGAGCGTCTAG-GACAAC
* * *
14612232 TCAGAGAGTTACACGACCTAACACACAGCCTGGCACACGAGCGTGTAGGGCAAC
1 TCAGTGAGTTACACGACCTAACACACAGCCTGGCACACGAGCGTCTAGGACAAC
14612286 TCAGTGAGTTACACG
1 TCAGTGAGTTACACG
14612301 GGTGAGGACA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 58 0.98
55 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.18
Consensus pattern (54 bp):
TCAGTGAGTTACACGACCTAACACACAGCCTGGCACACGAGCGTCTAGGACAAC
Found at i:14612336 original size:12 final size:12
Alignment explanation
Indices: 14612296--14612336 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
14612286 TCAGTGAGTT
14612296 ACACGGGTGAGG
1 ACACGGGTGAGG
*
14612308 ACACAGGTGAGG
1 ACACGGGTGAGG
14612320 ACACGGGCTGAGG
1 ACACGGG-TGAGG
14612333 -CACG
1 ACACG
14612337 ACCATGTGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.27, C:0.22, G:0.44, T:0.07
Consensus pattern (12 bp):
ACACGGGTGAGG
Found at i:14615765 original size:159 final size:160
Alignment explanation
Indices: 14615526--14615845 Score: 446
Period size: 159 Copynumber: 2.0 Consensus size: 160
14615516 AGTACACCTG
* * *
14615526 ACAGAAGCTCATAAGAGCTGATCCAACTGTAACACGCCAAATAAAAGCTCATAAGAGCTGATCCA
1 ACAGAAGATCATAAGAGCTGATCCAACCGTAACACACCAAATAAAAGCTCATAAGAGCTGATCCA
* ** *
14615591 ACCATAACATGCCAAACAGAAGCTCATAAGAGCTAATCCAACCATAACACGCCAAACAAAAAATC
66 ACCAAAACACACCAAACAAAAGCTCATAAGAGCTAATCCAACCATAACACGCCAAACAAAAAATC
*
14615656 ATAAGAGCTAATCCAACCGTAACACGCCAA
131 ATAAGAGCTAATCCAACCGAAACACGCCAA
*
14615686 ACAGAAGATCATAAGAGCTGA-CCAACCGTAACACACCAAACT-GAAGCTCATAAGAGCTGATCC
1 ACAGAAGATCATAAGAGCTGATCCAACCGTAACACACCAAA-TAAAAGCTCATAAGAGCTGATCC
* ** * * * **
14615749 AACCAAAACACACCAAACAAAAGCTCATAAGAGCTGATCCAACTGTAACATGCCAAATAGAAGCT
65 AACCAAAACACACCAAACAAAAGCTCATAAGAGCTAATCCAACCATAACACGCCAAACAAAAAAT
* *
14615814 CATAAGAGTTGATCCAACCGAAACACGCCAA
130 CATAAGAGCTAATCCAACCGAAACACGCCAA
14615845 A
1 A
14615846 TAAAAAGTAT
Statistics
Matches: 140, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
159 119 0.85
160 21 0.15
ACGTcount: A:0.45, C:0.27, G:0.14, T:0.14
Consensus pattern (160 bp):
ACAGAAGATCATAAGAGCTGATCCAACCGTAACACACCAAATAAAAGCTCATAAGAGCTGATCCA
ACCAAAACACACCAAACAAAAGCTCATAAGAGCTAATCCAACCATAACACGCCAAACAAAAAATC
ATAAGAGCTAATCCAACCGAAACACGCCAA
Found at i:14615847 original size:40 final size:40
Alignment explanation
Indices: 14615470--14615845 Score: 402
Period size: 40 Copynumber: 9.4 Consensus size: 40
14615460 ATCATCAAAT
* * * *
14615470 CAACCG-AACACACCAGATAGAAACTCATAAGAGCTGATC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
** * **
14615509 C-ACCTGAAGTACACCTGACAGAAGCTCATAAGAGCTGATC
1 CAACC-GAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* * * *
14615549 CAACTGTAACACGCCAAATAAAAGCTCATAAGAGCTGATC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* *
14615589 CAACC-ATAACATGCCAAACAGAAGCTCATAAGAGCTAATC
1 CAACCGA-AACACGCCAAACAGAAGCTCATAAGAGCTGATC
* ** *
14615629 CAACC-ATAACACGCCAAACAAAAAATCATAAGAGCTAATC
1 CAACCGA-AACACGCCAAACAGAAGCTCATAAGAGCTGATC
* *
14615669 CAACCGTAACACGCCAAACAGAAGATCATAAGAGCTGA-C
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* * *
14615708 CAACCGTAACACACCAAACTGAAGCTCATAAGAGCTGATC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* * *
14615748 CAACCAAAACACACCAAACAAAAGCTCATAAGAGCTGATC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
* * * * *
14615788 CAACTGTAACATGCCAAATAGAAGCTCATAAGAGTTGATC
1 CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
14615828 CAACCGAAACACGCCAAA
1 CAACCGAAACACGCCAAA
14615846 TAAAAAGTAT
Statistics
Matches: 285, Mismatches: 46, Indels: 11
0.83 0.13 0.03
Matches are distributed among these distances:
38 3 0.01
39 38 0.13
40 242 0.85
41 2 0.01
ACGTcount: A:0.44, C:0.28, G:0.14, T:0.14
Consensus pattern (40 bp):
CAACCGAAACACGCCAAACAGAAGCTCATAAGAGCTGATC
Found at i:14619905 original size:17 final size:17
Alignment explanation
Indices: 14619883--14619938 Score: 112
Period size: 17 Copynumber: 3.3 Consensus size: 17
14619873 CAAATGACAA
14619883 ACGGCCGTGTGTCGCAC
1 ACGGCCGTGTGTCGCAC
14619900 ACGGCCGTGTGTCGCAC
1 ACGGCCGTGTGTCGCAC
14619917 ACGGCCGTGTGTCGCAC
1 ACGGCCGTGTGTCGCAC
14619934 ACGGC
1 ACGGC
14619939 TAAGTCACAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.12, C:0.36, G:0.36, T:0.16
Consensus pattern (17 bp):
ACGGCCGTGTGTCGCAC
Found at i:14621187 original size:18 final size:19
Alignment explanation
Indices: 14621161--14621197 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14621151 AATTTTGGAA
14621161 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
14621179 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
14621198 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:14626930 original size:24 final size:24
Alignment explanation
Indices: 14626898--14626946 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
14626888 GTGAAGAAAC
14626898 TTTTTCTTTTGATGATACGTCTTA
1 TTTTTCTTTTGATGATACGTCTTA
14626922 TTTTTCTTTTGATGATACGTCTTA
1 TTTTTCTTTTGATGATACGTCTTA
14626946 T
1 T
14626947 CAATCAGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.12, G:0.12, T:0.59
Consensus pattern (24 bp):
TTTTTCTTTTGATGATACGTCTTA
Found at i:14628631 original size:33 final size:33
Alignment explanation
Indices: 14628589--14628912 Score: 173
Period size: 42 Copynumber: 8.8 Consensus size: 33
14628579 TCCCCCAAGG
*
14628589 GGTTGCTAAGTGATGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
14628622 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
*
14628664 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
14628697 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
* *
14628739 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAGAG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG-G-T
* *
14628780 GGTTG-TAAGTGCTGATTCTCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
14628812 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
*
14628854 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
14628887 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
14628913 AACAGATAAC
Statistics
Matches: 236, Mismatches: 25, Indels: 59
0.74 0.08 0.18
Matches are distributed among these distances:
32 5 0.02
33 73 0.31
34 15 0.06
35 5 0.02
36 5 0.02
37 8 0.03
38 9 0.04
39 9 0.04
40 17 0.07
41 12 0.05
42 78 0.33
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:14628669 original size:42 final size:42
Alignment explanation
Indices: 14628622--14628873 Score: 292
Period size: 42 Copynumber: 6.5 Consensus size: 42
14628612 ATTCATTGGT
*
14628622 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
* *
14628664 GGTTGCTAAGTGCTGATTCC-CCG-A-C-T-CAT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
14628697 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
*
14628739 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAGA-G
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
* * *
14628780 GGTTG-TAAGTGCTGATT-CTCCGAATC----AT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
*
14628812 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
14628854 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
14628874 CCGACTCATT
Statistics
Matches: 176, Mismatches: 14, Indels: 40
0.77 0.06 0.17
Matches are distributed among these distances:
32 5 0.03
33 32 0.18
34 12 0.07
35 3 0.02
36 3 0.02
37 3 0.02
38 5 0.03
39 12 0.07
40 13 0.07
41 9 0.05
42 79 0.45
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
Found at i:14628708 original size:75 final size:75
Alignment explanation
Indices: 14628585--14628758 Score: 321
Period size: 75 Copynumber: 2.3 Consensus size: 75
14628575 TGGTTCCCCC
* * *
14628585 AAGGGGTTGCTAAGTGATGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
14628650 TTAAATGTGA
66 TTAAATGTGA
14628660 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
14628725 TTAAATGTGA
66 TTAAATGTGA
14628735 AAGGGGTTGCTAAGTGCTGATTCC
1 AAGGGGTTGCTAAGTGCTGATTCC
14628759 ACCGTATCTT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 96 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:14628827 original size:115 final size:117
Alignment explanation
Indices: 14628622--14628873 Score: 445
Period size: 115 Copynumber: 2.2 Consensus size: 117
14628612 ATTCATTGGT
*
14628622 GGTTGCTAAGTGTTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
* *
14628687 ACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGG
66 AATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
* *
14628739 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAGA-GGGTTG-TAAGTGCTGATTCTCCG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
14628802 AATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
66 AATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
14628854 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
14628874 CCGACTCATT
Statistics
Matches: 130, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
115 86 0.66
116 6 0.05
117 38 0.29
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.33
Consensus pattern (117 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
AATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
Found at i:14628901 original size:75 final size:72
Alignment explanation
Indices: 14628739--14628910 Score: 272
Period size: 75 Copynumber: 2.3 Consensus size: 72
14628729 ATGTGAAAGG
* *
14628739 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAGAGGGTTGTAAGTGCTGATTCTCCGAA
1 GGTTGCTAAGTGCTGA-TCCACCGTATCTTAAATGTGAAAGGGTTGTAAGTGCTGATTCCCCGAA
14628804 TCATTGGT
65 TCATTGGT
14628812 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
1 GGTTGCTAAGTGCTGAT-CCACCGTATCTTAAATGTGAAA-GGGTTG-TAAGTGCTGATTCCCCG
*
14628877 ACTCATTGGT
63 AATCATTGGT
14628887 GGTTGCTAAGTGCTGAATCCACCG
1 GGTTGCTAAGTGCTG-ATCCACCG
14628911 ATAACAGATA
Statistics
Matches: 92, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
72 1 0.01
73 37 0.40
74 6 0.07
75 46 0.50
76 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (72 bp):
GGTTGCTAAGTGCTGATCCACCGTATCTTAAATGTGAAAGGGTTGTAAGTGCTGATTCCCCGAAT
CATTGGT
Found at i:14642002 original size:18 final size:18
Alignment explanation
Indices: 14641979--14642014 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
14641969 AGATTAAAAA
14641979 AATCAGA-TCACAAAGAAT
1 AATCAGATTCA-AAAGAAT
14641997 AATCAGATTCAAAAGAAT
1 AATCAGATTCAAAAGAAT
14642015 TCTAGGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.56, C:0.14, G:0.11, T:0.19
Consensus pattern (18 bp):
AATCAGATTCAAAAGAAT
Found at i:14643359 original size:27 final size:27
Alignment explanation
Indices: 14643294--14643361 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
14643284 TATGTTTAAA
*
14643294 GTCTCGGCGGACTACCATGTGTTTACT
1 GTCTCGGCAGACTACCATGTGTTTACT
* ** *
14643321 GTCCCGATAGACTACCCTGTGTTTACT
1 GTCTCGGCAGACTACCATGTGTTTACT
*
14643348 GTCTTGGCAGACTA
1 GTCTCGGCAGACTA
14643362 TATTGGTTGT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (27 bp):
GTCTCGGCAGACTACCATGTGTTTACT
Found at i:14649937 original size:15 final size:15
Alignment explanation
Indices: 14649917--14649953 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
14649907 GTCTTTGTGA
14649917 CGTCGCATGGCTCCT
1 CGTCGCATGGCTCCT
14649932 CGTCGCATGGCTCCT
1 CGTCGCATGGCTCCT
14649947 CGTCGCA
1 CGTCGCA
14649954 ACATCGCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.08, C:0.41, G:0.27, T:0.24
Consensus pattern (15 bp):
CGTCGCATGGCTCCT
Found at i:14665084 original size:55 final size:55
Alignment explanation
Indices: 14665000--14665109 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
14664990 TGTTGTGCAA
14665000 GAATCCTTTGGGGGAATTAGCGAAGTTGAATCAAACAGGATCAGTGGAAGACTAT
1 GAATCCTTTGGGGGAATTAGCGAAGTTGAATCAAACAGGATCAGTGGAAGACTAT
14665055 GAATCCTTTGGGGGAATTAGCGAAGTTGAATCAAACAGGATCAGTGGAAGACTAT
1 GAATCCTTTGGGGGAATTAGCGAAGTTGAATCAAACAGGATCAGTGGAAGACTAT
14665110 CTTTGCCAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.24
Consensus pattern (55 bp):
GAATCCTTTGGGGGAATTAGCGAAGTTGAATCAAACAGGATCAGTGGAAGACTAT
Found at i:14665833 original size:49 final size:46
Alignment explanation
Indices: 14665754--14665862 Score: 128
Period size: 49 Copynumber: 2.3 Consensus size: 46
14665744 AACAATATAA
** *
14665754 TAGTTTTGCCTTTTAACTTAATGAGTAAACAGTTATCAAAACAATG
1 TAGTTTTGCCTTTTAACTTAAAAAGTAAACAGTTATCAAAACAACG
* ***
14665800 TAGTTTTGCCTTTTAACTTTAGAAAAGGTAAACATTTATCAAAATGGCG
1 TAGTTTTGCCTTTTAAC-TTA-AAAA-GTAAACAGTTATCAAAACAACG
14665849 TAGTTTTGCCTTTT
1 TAGTTTTGCCTTTT
14665863 CTTATTCGGA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 17 0.32
47 3 0.06
48 2 0.04
49 31 0.58
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (46 bp):
TAGTTTTGCCTTTTAACTTAAAAAGTAAACAGTTATCAAAACAACG
Found at i:14667823 original size:12 final size:12
Alignment explanation
Indices: 14667808--14667832 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14667798 TTTGTTTCAC
14667808 GTAAAATAGGAT
1 GTAAAATAGGAT
14667820 GTAAAATAGGAT
1 GTAAAATAGGAT
14667832 G
1 G
14667833 GTCAATGTAA
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:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (12 bp):
GTAAAATAGGAT
Found at i:14670239 original size:14 final size:14
Alignment explanation
Indices: 14670220--14670250 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14670210 ATAAAATTTG
*
14670220 ATTTGATTCGATTA
1 ATTTGATTCGAATA
14670234 ATTTGATTCGAATA
1 ATTTGATTCGAATA
14670248 ATT
1 ATT
14670251 CAAAACTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.48
Consensus pattern (14 bp):
ATTTGATTCGAATA
Found at i:14671278 original size:16 final size:19
Alignment explanation
Indices: 14671221--14671291 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 19
14671211 TTATTTATGT
14671221 TTAATCATA-TAATAAATTA
1 TTAAT-ATATTAATAAATTA
14671240 TTAATATAGTTAATATAATTTA
1 TTAATATA-TTAATA-AA-TTA
14671262 TT-AT-T-TTAATAAATTA
1 TTAATATATTAATAAATTA
*
14671278 TTTAATATTTTAAT
1 -TTAATATATTAAT
14671292 TTTATTTCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
16 3 0.07
17 4 0.09
18 11 0.25
19 6 0.14
20 11 0.25
21 4 0.09
22 5 0.11
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (19 bp):
TTAATATATTAATAAATTA
Found at i:14671286 original size:20 final size:20
Alignment explanation
Indices: 14671230--14671291 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
14671220 TTTAATCATA
*
14671230 TAATAAATTA-TTAATATAGT
1 TAATAAATTATTTAATAT-TT
* *
14671250 TAAT--ATAATTTATTATTT
1 TAATAAATTATTTAATATTT
14671268 TAATAAATTATTTAATATTT
1 TAATAAATTATTTAATATTT
14671288 TAAT
1 TAAT
14671292 TTTATTTCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 20 0.59
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TAATAAATTATTTAATATTT
Found at i:14678640 original size:32 final size:32
Alignment explanation
Indices: 14678604--14678667 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
14678594 ACAGCCTAAG
* *
14678604 AACGTATCTGAGATCTGCAGCTTTCTAGAACT
1 AACGTATCTGAGATCCGCAACTTTCTAGAACT
*
14678636 AACGTATCTGAGATCCGCAATTTTCTAGAACT
1 AACGTATCTGAGATCCGCAACTTTCTAGAACT
14678668 TGCGGGTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (32 bp):
AACGTATCTGAGATCCGCAACTTTCTAGAACT
Found at i:14694436 original size:41 final size:41
Alignment explanation
Indices: 14694385--14694472 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 41
14694375 TTTAAAACAT
*
14694385 GGTTTCAAAGTATTTTTCAACTTTTTTTAACATGATTAAAA
1 GGTTTCAAAGTATTTTTCAACTTTCTTTAACATGATTAAAA
* *
14694426 GGTTTCAAAGTATTTTTCAACTTTCTTTAACATTATTAGAA
1 GGTTTCAAAGTATTTTTCAACTTTCTTTAACATGATTAAAA
14694467 GGTTTC
1 GGTTTC
14694473 TAACTTTACT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (41 bp):
GGTTTCAAAGTATTTTTCAACTTTCTTTAACATGATTAAAA
Found at i:14696801 original size:3 final size:3
Alignment explanation
Indices: 14696749--14696786 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
14696739 GGGTGTTACA
*
14696749 ATC ATC ATT ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
14696787 ATAGCCAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:14703559 original size:13 final size:13
Alignment explanation
Indices: 14703541--14703575 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
14703531 ATCAAAAAGG
*
14703541 AAGCAACATGGTA
1 AAGCAACATGGGA
14703554 AAGCAACATGGGA
1 AAGCAACATGGGA
14703567 AAGCAACAT
1 AAGCAACAT
14703576 CCATGTGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (13 bp):
AAGCAACATGGGA
Found at i:14703644 original size:43 final size:42
Alignment explanation
Indices: 14703554--14703687 Score: 171
Period size: 42 Copynumber: 3.2 Consensus size: 42
14703544 CAACATGGTA
* *
14703554 AAGCAACATGGGAAAGCAACATCCATGTGT-AAACAAAAAAGG
1 AAGCAACTTGGGAAAGCAACATCCAAGT-TCAAACAAAAAAGG
* *
14703596 AAGCAACTTGGGAAAGCAAACAACCAAGTTCATACAAAAAAGG
1 AAGCAACTTGGGAAAGC-AACATCCAAGTTCAAACAAAAAAGG
* * * *
14703639 AAGCAACTTGAGAAAGCAACATTCAGGTTCAAACAAAAAAAG
1 AAGCAACTTGGGAAAGCAACATCCAAGTTCAAACAAAAAAGG
14703681 AAGCAAC
1 AAGCAAC
14703688 ATGGAAGCAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 44 0.55
43 36 0.45
ACGTcount: A:0.51, C:0.18, G:0.19, T:0.12
Consensus pattern (42 bp):
AAGCAACTTGGGAAAGCAACATCCAAGTTCAAACAAAAAAGG
Found at i:14703898 original size:27 final size:27
Alignment explanation
Indices: 14703860--14703915 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
14703850 AAATCTTTCC
* *
14703860 CTATCCACTTCTCATCCACTATCCTCT
1 CTATCCACTTCTCATCCACCACCCTCT
* *
14703887 CTATCTACTTCTCATTCACCACCCTCT
1 CTATCCACTTCTCATCCACCACCCTCT
14703914 CT
1 CT
14703916 TTCCTCTCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.45, G:0.00, T:0.38
Consensus pattern (27 bp):
CTATCCACTTCTCATCCACCACCCTCT
Found at i:14709506 original size:12 final size:13
Alignment explanation
Indices: 14709480--14709516 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
14709470 TTTTTTTATG
14709480 TTCTTTAATTTTT
1 TTCTTTAATTTTT
14709493 TTCTTTAATTTTT
1 TTCTTTAATTTTT
14709506 TTCTTT-ATTTT
1 TTCTTTAATTTT
14709517 CCATTATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 5 0.21
13 19 0.79
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (13 bp):
TTCTTTAATTTTT
Found at i:14715222 original size:5 final size:5
Alignment explanation
Indices: 14715214--14715254 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
14715204 GTAAGTTAAA
* *
14715214 CGCAA CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC TGCAC C
1 CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC CGCAC C
14715255 CAATCGCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.22, C:0.56, G:0.20, T:0.02
Consensus pattern (5 bp):
CGCAC
Done.