Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 107 of 297
Found at i:38458172 original size:26 final size:27
Alignment explanation
Indices: 38458120--38458229 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 27
38458110 AATGCCCTCC
* * *
38458120 ACCCTCGATTTACAAAATTACCGTTTT
1 ACCCTCGATTTATAGAATTACCATTTT
* *
38458147 ACCCTCAAATTATAGAA-TACCATTTT
1 ACCCTCGATTTATAGAATTACCATTTT
* * * *
38458173 ACGCTCGATTTACAAAATTACCGTTTT
1 ACCCTCGATTTATAGAATTACCATTTT
38458200 ACCCTCGATTTATAGAATTACCATTTT
1 ACCCTCGATTTATAGAATTACCATTTT
38458227 ACC
1 ACC
38458230 TCTCCCTGTT
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
26 20 0.30
27 47 0.70
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (27 bp):
ACCCTCGATTTATAGAATTACCATTTT
Found at i:38458180 original size:53 final size:54
Alignment explanation
Indices: 38458123--38458228 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 54
38458113 GCCCTCCACC
38458123 CTCGATTTACAAAATTACCGTTTTACCCTCAAATTATAGAA-TACCATTTTACG
1 CTCGATTTACAAAATTACCGTTTTACCCTCAAATTATAGAATTACCATTTTACG
* *
38458176 CTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTAC
1 CTCGATTTACAAAATTACCGTTTTACCCTCAAATTATAGAATTACCATTTTAC
38458229 CTCTCCCTGT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 39 0.78
54 11 0.22
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (54 bp):
CTCGATTTACAAAATTACCGTTTTACCCTCAAATTATAGAATTACCATTTTACG
Found at i:38458494 original size:27 final size:27
Alignment explanation
Indices: 38458456--38458579 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
38458446 NNNNNNNNNN
*
38458456 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAATTTGTAA
* ** *
38458483 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTAATTTGTAA
* *
38458510 AATTATCAAAATA-CTCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AATTTGTAA
**
38458537 AATTACCAAAATACCCCTAATTTACAA
1 AATTACCAAAATACCCCTAATTTGTAA
38458564 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
38458580 TTGATTTTCT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.06
27 74 0.90
28 3 0.04
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAATTTGTAA
Found at i:38458586 original size:27 final size:26
Alignment explanation
Indices: 38458535--38458637 Score: 84
Period size: 27 Copynumber: 3.8 Consensus size: 26
38458525 CTCAATTTGT
* *
38458535 AAAATTACCAAAATACCCCTAATTTAC
1 AAAATTA-CAAAATACCCTTGATTTAC
*
38458562 AAAATTACAGAAATACCCTTGATTTTC
1 AAAATTACA-AAATACCCTTGATTTAC
* *
38458589 TAAAAATTATAGAAATA--CTATGGTTTAC
1 --AAAATTACA-AAATACCCT-TGATTTAC
38458617 AAAATTACTAAAATACCCTTG
1 AAAATTAC-AAAATACCCTTG
38458638 GTTTGTATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
26 14 0.23
27 26 0.42
28 8 0.13
29 14 0.23
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (26 bp):
AAAATTACAAAATACCCTTGATTTAC
Found at i:38458725 original size:27 final size:27
Alignment explanation
Indices: 38458682--38458755 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
38458672 AAATGACTAA
*
38458682 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
38458709 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
38458736 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
38458756 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:38458759 original size:27 final size:27
Alignment explanation
Indices: 38458695--38458759 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
38458685 ACCCCTAATA
*
38458695 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
38458722 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
38458749 GGTAAAATGAC
1 GGTAAAATGAC
38458760 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:38459607 original size:25 final size:25
Alignment explanation
Indices: 38459569--38459638 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
38459559 AGGAAGTGCT
* *
38459569 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
38459594 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
38459619 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
38459639 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:38459651 original size:24 final size:24
Alignment explanation
Indices: 38459568--38459663 Score: 95
Period size: 25 Copynumber: 3.9 Consensus size: 24
38459558 GAGGAAGTGC
*
38459568 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* *
38459593 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
38459617 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
38459641 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
38459664 ATATGATAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
23 5 0.08
24 11 0.18
25 43 0.72
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:38459662 original size:50 final size:50
Alignment explanation
Indices: 38459569--38459663 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
38459559 AGGAAGTGCT
**
38459569 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
* **
38459619 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
38459664 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:38462927 original size:22 final size:21
Alignment explanation
Indices: 38462897--38462943 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
38462887 TACAAATTAA
38462897 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
38462919 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
38462940 ATCT
1 ATCT
38462944 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:38462937 original size:16 final size:16
Alignment explanation
Indices: 38462916--38462966 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
38462906 ATTACAAGAT
38462916 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
38462932 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
38462951 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
38462967 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:38462949 original size:19 final size:21
Alignment explanation
Indices: 38462914--38462956 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
38462904 AGATTACAAG
38462914 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
38462935 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
38462954 ATC
1 ATC
38462957 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:38466911 original size:16 final size:17
Alignment explanation
Indices: 38466867--38466902 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 17
38466857 TGAAATTTAT
38466867 CAAGTTTTATTTCAAAAA
1 CAAG-TTTATTTCAAAAA
38466885 CAAGTTT-TTTCAAAAA
1 CAAGTTTATTTCAAAAA
38466901 CA
1 CA
38466903 TTATATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 3 0.17
18 4 0.22
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (17 bp):
CAAGTTTATTTCAAAAA
Found at i:38479105 original size:27 final size:27
Alignment explanation
Indices: 38479054--38479116 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
38479044 ATGGAATGGG
38479054 ATTTGTGGCAAACCATAAAAAGAAAGC
1 ATTTGTGGCAAACCATAAAAAGAAAGC
* * * *
38479081 CTTTGTGGCAAATCATGAAATGAAAGC
1 ATTTGTGGCAAACCATAAAAAGAAAGC
38479108 ATTTGTGGC
1 ATTTGTGGC
38479117 GATCTCTTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.25
Consensus pattern (27 bp):
ATTTGTGGCAAACCATAAAAAGAAAGC
Found at i:38483817 original size:21 final size:22
Alignment explanation
Indices: 38483778--38483818 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
38483768 GTTGAAATGT
38483778 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCGTGTTGCCCCTCC
*
38483800 CACACGGGTGTG-TGCCCCT
1 CACACGGGCGTGTTGCCCCT
38483819 GTGTTAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.10, C:0.41, G:0.29, T:0.20
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTCC
Found at i:38492417 original size:12 final size:12
Alignment explanation
Indices: 38492400--38492431 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
38492390 AAGTTTTTGC
38492400 ACACGGGCTAGG
1 ACACGGGCTAGG
38492412 ACACGGGCTAGG
1 ACACGGGCTAGG
38492424 ACACGGGC
1 ACACGGGC
38492432 GTGTCATGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.28, G:0.41, T:0.06
Consensus pattern (12 bp):
ACACGGGCTAGG
Found at i:38494486 original size:49 final size:50
Alignment explanation
Indices: 38494424--38494647 Score: 220
Period size: 49 Copynumber: 4.5 Consensus size: 50
38494414 AAGCTATCAA
* * *
38494424 GTACGCATAGTAGCCTGCACTGAGTACTACACATGCGA-CCAATTATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAATTATCCG
* * * * * * * *
38494473 GTACATATAGTAGCCTACACTAAGTACTGCACACGTGATCTAACTATCTG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAATTATCCG
* * * * *
38494523 ATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCAG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAA-TTATCCG
** * *
38494574 GTATGCATAGTATCCTGCACTTAGTACTACACATGCGA-CCAATTATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAATTATCCG
*
38494623 AG-ACACGTAGTAGCCTGCACTTAGT
1 -GTACACATAGTAGCCTGCACTTAGT
38494648 CCTAACTTTC
Statistics
Matches: 140, Mismatches: 32, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 56 0.40
50 48 0.34
51 36 0.26
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAATTATCCG
Found at i:38497330 original size:29 final size:29
Alignment explanation
Indices: 38497297--38497354 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
38497287 CCCTTTACTA
38497297 AGAAAACCAATTCATGAGGGAATTTCAAT
1 AGAAAACCAATTCATGAGGGAATTTCAAT
38497326 AGAAAACCAATTCATGAGGGAATTTCAAT
1 AGAAAACCAATTCATGAGGGAATTTCAAT
38497355 CAATACATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (29 bp):
AGAAAACCAATTCATGAGGGAATTTCAAT
Found at i:38499680 original size:49 final size:49
Alignment explanation
Indices: 38499624--38499868 Score: 267
Period size: 49 Copynumber: 4.9 Consensus size: 49
38499614 TAGCCAAAGC
* * *
38499624 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACA-TTCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGT-GACCAAT
* * *
38499673 TATCTGGTACACGTTGTAGCCTACACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * * * *
38499723 CATTTGATACATGTAGTAGCCTGCACTTATTACTACACACGTGATCAAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * * *
38499774 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTAACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
38499823 TATCCGGTACACGTAGTAGCCTGCGCTTAGTACTACACACATGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
38499869 TCAAAATAGA
Statistics
Matches: 159, Mismatches: 33, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
49 79 0.50
50 45 0.28
51 35 0.22
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:38499810 original size:101 final size:99
Alignment explanation
Indices: 38499637--38499862 Score: 258
Period size: 101 Copynumber: 2.3 Consensus size: 99
38499627 CTGGTACGCA
* * * * *
38499637 TAGTAGCCTGCACTTAGTACTACACA-TTCGACCAATTATCTGGTACACGTTGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTCGACAAATTATCGGGTACACATAGTAGCCTACACTT
* ** *
38499701 AGTACTACACACGTGACCTAACCATTTGATACATG
66 AGTACTACACACGTAACC-AACCATCCGATACACG
* * *
38499736 TAGTAGCCTGCACTTATTACTACACACGT-GATCAAAGTTATCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTCGA-CAAA-TTATCGGGTACACATAGTAGCCTACAC
* ** *
38499800 TTAGTACTACACATGTAACCAATTATCCGGTACACG
64 TTAGTACTACACACGTAACCAACCATCCGATACACG
*
38499836 TAGTAGCCTGCGCTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
38499863 ATGACCTCAA
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
99 27 0.25
100 39 0.37
101 40 0.38
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTCGACAAATTATCGGGTACACATAGTAGCCTACACTT
AGTACTACACACGTAACCAACCATCCGATACACG
Found at i:38500560 original size:84 final size:84
Alignment explanation
Indices: 38500427--38500595 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
38500417 TTCACTTAAA
38500427 ACCGCTTAGCAAAAGTTGTTTAACACAATTTCAAGCTTCAATGCATGCATATCATTCATGGGTAA
1 ACCGCTTAGCAAAAGTTGTTTAACACAATTTCAAGCTTCAATGCATGCATATCATTCATGGGTAA
38500492 ATTTTTAAACATAAATCCT
66 ATTTTTAAACATAAATCCT
38500511 ACCGCTTAGCAAAAGTTGTTTAACACAATTTCAAGCTTCAATGCATGCATATCATTCATGGGTAA
1 ACCGCTTAGCAAAAGTTGTTTAACACAATTTCAAGCTTCAATGCATGCATATCATTCATGGGTAA
38500576 ATTTTTAAACATAAATCCT
66 ATTTTTAAACATAAATCCT
38500595 A
1 A
38500596 GCTCAAAATA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (84 bp):
ACCGCTTAGCAAAAGTTGTTTAACACAATTTCAAGCTTCAATGCATGCATATCATTCATGGGTAA
ATTTTTAAACATAAATCCT
Found at i:38515808 original size:51 final size:50
Alignment explanation
Indices: 38515753--38515901 Score: 145
Period size: 51 Copynumber: 3.1 Consensus size: 50
38515743 CTACCGCATA
* *
38515753 ACATGTAACACATCCATAATGAACTTGGACCTCTCAACGAGCTCGGATGTT
1 ACATGTAACGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG-T
* * * *
38515804 ACATG-AATCGCAACCATCATGAACTCGGACCACTTAACGAGCTC--A---
1 ACATGTAA-CGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGT
38515849 A-ATGCT-A-GCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGCT
1 ACATG-TAACGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATG-T
38515898 ACAT
1 ACAT
38515902 ACATCACGAA
Statistics
Matches: 78, Mismatches: 10, Indels: 21
0.72 0.09 0.19
Matches are distributed among these distances:
43 31 0.40
44 3 0.04
45 3 0.04
49 2 0.03
50 4 0.05
51 35 0.45
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.22
Consensus pattern (50 bp):
ACATGTAACGCATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGT
Found at i:38515897 original size:43 final size:43
Alignment explanation
Indices: 38515817--38515925 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 43
38515807 TGAATCGCAA
* *
38515817 CCATCATGAACTCGGACCACTTAACGAGCTCAAATGCTAGCAT
1 CCATAATGAACTCGGACCACTCAACGAGCTCAAATGCTAGCAT
* **
38515860 CCATAATGAACTCGGACCTCTCAACGAGCTCGGATGCTA-CAT
1 CCATAATGAACTCGGACCACTCAACGAGCTCAAATGCTAGCAT
* * * * *
38515902 ACATCACGAACCCGGAGCACTCAA
1 CCATAATGAACTCGGACCACTCAA
38515926 TGACTTTGGA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 21 0.38
43 34 0.62
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.18
Consensus pattern (43 bp):
CCATAATGAACTCGGACCACTCAACGAGCTCAAATGCTAGCAT
Found at i:38523694 original size:51 final size:51
Alignment explanation
Indices: 38523639--38523738 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
38523629 ATACCGCATA
* *
38523639 ACATGGAA-CACATCCATAATGAACTCGGACCTCTCAACGAGGTCGGATGTT
1 ACAT-GAATCACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGTT
* * * *
38523690 ACATGAATCGCATGCATCATGAACTTGGACCACTCAACGAGCTCGGATG
1 ACATGAATCACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATG
38523739 CTTGCATCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 3 0.07
51 39 0.93
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGTT
Found at i:38523812 original size:42 final size:43
Alignment explanation
Indices: 38523700--38523815 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
38523690 ACATGAATCG
* * * *
38523700 CATGCATCATGAACTTGGACCACTCAACGAGCTCGGATGCTTG
1 CATGCCTCATGAACTCGGACCACTCAATGAGCTCGGATGCTTA
* **
38523743 CAT-CCATAATGAACTCGGACCTTTCAATGAGCTCGGATGC-TA
1 CATGCC-TCATGAACTCGGACCACTCAATGAGCTCGGATGCTTA
*
38523785 CATGCCTCATGAACCCGGACCACTCAATGAG
1 CATGCCTCATGAACTCGGACCACTCAATGAG
38523816 TTCAGACTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 26 0.43
43 34 0.57
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (43 bp):
CATGCCTCATGAACTCGGACCACTCAATGAGCTCGGATGCTTA
Found at i:38544469 original size:25 final size:25
Alignment explanation
Indices: 38544441--38544489 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
38544431 ATATAGTATC
38544441 TCCATCCTACTTGCTCGTAACGTCG
1 TCCATCCTACTTGCTCGTAACGTCG
38544466 TCCATCCTACTTGCTCGTAACGTC
1 TCCATCCTACTTGCTCGTAACGTC
38544490 ATGGTTAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.16, C:0.37, G:0.14, T:0.33
Consensus pattern (25 bp):
TCCATCCTACTTGCTCGTAACGTCG
Found at i:38546788 original size:40 final size:40
Alignment explanation
Indices: 38546606--38546828 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
38546596 TCCTTGTTCA
* * * * *
38546606 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
38546645 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
38546685 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
** * *
38546725 AATGCCTTCGGGACTTAACCCGGATTTCGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
38546765 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
38546805 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38546829 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:38546837 original size:41 final size:41
Alignment explanation
Indices: 38546760--38546837 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38546750 TTCGTATCTC
* * *
38546760 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38546801 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38546838 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38552690 original size:21 final size:22
Alignment explanation
Indices: 38552664--38552704 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
38552654 CTCTTAACAC
38552664 AGGGGC-ACACGCCCGTGTGGT
1 AGGGGCAACACGCCCGTGTGGT
*
38552685 AGGGGCAACACGCCTGTGTG
1 AGGGGCAACACGCCCGTGTG
38552705 ACATTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.41, T:0.15
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGT
Found at i:38555020 original size:46 final size:46
Alignment explanation
Indices: 38554970--38555138 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
38554960 TGAGCATCGA
*
38554970 AACTCGTTCAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* * *
38555016 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCCG
* * * *
38555063 AACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGACTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
* *
38555109 AGCTCGTTGGGTTGAGTCCGAGTTCACTTA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTA
38555139 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 53 0.53
47 28 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
Found at i:38555400 original size:19 final size:20
Alignment explanation
Indices: 38555363--38555400 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38555353 ATAAGGTGGT
38555363 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
38555383 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
38555401 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:38562192 original size:24 final size:24
Alignment explanation
Indices: 38562165--38562223 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
38562155 AGGCTATGCA
** *
38562165 GCACTATGTGTGCGAGATTACATG
1 GCACTATGTGTGCGAGAAAACATC
* *
38562189 GCACTATGAGTGCGAGAAAACGTC
1 GCACTATGTGTGCGAGAAAACATC
38562213 GCACTATGTGT
1 GCACTATGTGT
38562224 ACGAATAAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (24 bp):
GCACTATGTGTGCGAGAAAACATC
Found at i:38567912 original size:30 final size:30
Alignment explanation
Indices: 38567878--38567958 Score: 126
Period size: 30 Copynumber: 2.7 Consensus size: 30
38567868 TTAATTGGGC
38567878 AAAATGACTATTTTGCCCCTAGACATTCAA
1 AAAATGACTATTTTGCCCCTAGACATTCAA
* *
38567908 AAAATGACTATTTTGCCCCAAGACATTCAC
1 AAAATGACTATTTTGCCCCTAGACATTCAA
* *
38567938 AAAATGACCATTTTACCCCTA
1 AAAATGACTATTTTGCCCCTA
38567959 TGCTCGAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.28
Consensus pattern (30 bp):
AAAATGACTATTTTGCCCCTAGACATTCAA
Found at i:38571060 original size:40 final size:37
Alignment explanation
Indices: 38570990--38571201 Score: 154
Period size: 40 Copynumber: 5.6 Consensus size: 37
38570980 TACTCTTTTA
* *
38570990 TTTAATTATTATTATTCTTATTATTATTTCTTAATTCTTG
1 TTTAATTTTTA-TATTATTATT-TTATTTCTT-ATTCTTG
38571030 TGTTAATTTTTATATTATTATTTTATTTTCTTATT-TTG
1 T-TTAATTTTTATATTATTATTTTA-TTTCTTATTCTTG
* * * * * *
38571068 TTT-ATTTGTT-T-TTATTAGGTTAATATC-CATACTTA
1 TTTAATTT-TTATATTATTA-TTTTATTTCTTATTCTTG
* *
38571103 TTTAATTATTATTATTCTTATTATTATTTCTTAATTCTTG
1 TTTAATTTTTA-TATTATTATT-TTATTTCTT-ATTCTTG
38571143 TGTTAATTTTTATATTATTATTTTATTTTCTTATT-TTG
1 T-TTAATTTTTATATTATTATTTTA-TTTCTTATTCTTG
38571181 TTT-ATTTGTT-T-TTATTATTTT
1 TTTAATTT-TTATATTATTATTTT
38571202 TATTCCTTTT
Statistics
Matches: 139, Mismatches: 18, Indels: 35
0.72 0.09 0.18
Matches are distributed among these distances:
34 2 0.01
35 26 0.19
36 16 0.12
37 10 0.07
38 18 0.13
39 12 0.09
40 37 0.27
41 18 0.13
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (37 bp):
TTTAATTTTTATATTATTATTTTATTTCTTATTCTTG
Found at i:38571185 original size:113 final size:113
Alignment explanation
Indices: 38570987--38571197 Score: 422
Period size: 113 Copynumber: 1.9 Consensus size: 113
38570977 CCCTACTCTT
38570987 TTATTTAATTATTATTATTCTTATTATTATTTCTTAATTCTTGTGTTAATTTTTATATTATTATT
1 TTATTTAATTATTATTATTCTTATTATTATTTCTTAATTCTTGTGTTAATTTTTATATTATTATT
38571052 TTATTTTCTTATTTTGTTTATTTGTTTTTATTAGGTTAATATCCATAC
66 TTATTTTCTTATTTTGTTTATTTGTTTTTATTAGGTTAATATCCATAC
38571100 TTATTTAATTATTATTATTCTTATTATTATTTCTTAATTCTTGTGTTAATTTTTATATTATTATT
1 TTATTTAATTATTATTATTCTTATTATTATTTCTTAATTCTTGTGTTAATTTTTATATTATTATT
38571165 TTATTTTCTTATTTTGTTTATTTGTTTTTATTA
66 TTATTTTCTTATTTTGTTTATTTGTTTTTATTA
38571198 TTTTTATTCC
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
113 98 1.00
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.67
Consensus pattern (113 bp):
TTATTTAATTATTATTATTCTTATTATTATTTCTTAATTCTTGTGTTAATTTTTATATTATTATT
TTATTTTCTTATTTTGTTTATTTGTTTTTATTAGGTTAATATCCATAC
Found at i:38571193 original size:22 final size:22
Alignment explanation
Indices: 38571160--38571223 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
38571150 TTTTATATTA
*
38571160 TTATTTTATTTTCTTATTTTGT
1 TTATTTTATTTTATTATTTTGT
38571182 TTATTTGT-TTTTATTATTTT-T
1 TTATTT-TATTTTATTATTTTGT
*
38571203 ATTCCTTTT-TTTTATTATTTT
1 -TT-ATTTTATTTTATTATTTT
38571224 TATTCTCTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
21 1 0.03
22 32 0.86
23 4 0.11
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (22 bp):
TTATTTTATTTTATTATTTTGT
Found at i:38576282 original size:48 final size:47
Alignment explanation
Indices: 38576219--38576442 Score: 203
Period size: 48 Copynumber: 4.8 Consensus size: 47
38576209 GTAAGAAGCC
* * *
38576219 AATGCTATATCCCAGATATGGTCTTACATGAGATCACATATCGATGCT
1 AATGCCATGTCCCAGACATGGTCTTACATGAGATCACATATCGATG-T
* *
38576267 AATGCCATGTTCCAGACATGGTCTTACATGATG-TCTCATATC---G-
1 AATGCCATGTCCCAGACATGGTCTTACATGA-GATCACATATCGATGT
* * * * * *
38576310 -ATGCCATGTCCTAAACATGGTCTTAAACGAAATCACATATAGATGT
1 AATGCCATGTCCCAGACATGGTCTTACATGAGATCACATATCGATGT
* * *
38576356 CAATGCCATATCCCA-ATTATGGTCTTACATG-GTATCACATACCGATGCT
1 -AATGCCATGTCCCAGA-CATGGTCTTACATGAG-ATCACATATCGATG-T
*
38576405 AATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 AATGCCATGTCCCAGACATGGTCTTACATGAGATCACA
38576443 CATAACCCTA
Statistics
Matches: 140, Mismatches: 23, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
42 32 0.23
45 2 0.01
47 1 0.01
48 101 0.72
49 4 0.03
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (47 bp):
AATGCCATGTCCCAGACATGGTCTTACATGAGATCACATATCGATGT
Found at i:38576349 original size:42 final size:42
Alignment explanation
Indices: 38576268--38576354 Score: 95
Period size: 42 Copynumber: 2.1 Consensus size: 42
38576258 ATCGATGCTA
* * * ** * *
38576268 ATGCCATGTTCCAGACATGGTCTTACATGATGTCTCATATCG
1 ATGCCATGTTCCAAACATGGTCTTAAACGAAATCACATATAG
38576310 ATGCCATG-TCCTAAACATGGTCTTAAACGAAATCACATATAG
1 ATGCCATGTTCC-AAACATGGTCTTAAACGAAATCACATATAG
38576352 ATG
1 ATG
38576355 TCAATGCCAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
41 3 0.08
42 34 0.92
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCATGTTCCAAACATGGTCTTAAACGAAATCACATATAG
Found at i:38576402 original size:90 final size:90
Alignment explanation
Indices: 38576236--38576403 Score: 205
Period size: 90 Copynumber: 1.9 Consensus size: 90
38576226 TATCCCAGAT
* * * * * * *
38576236 ATGGTCTTACATGAGATCACATATCGATGCTAATGCCATGTTCCAGACATGGTCTTACATGATGT
1 ATGGTCTTAAACGAAATCACATATAGATGCTAATGCCATATCCCAGACATGGTCTTACATGATAT
* *
38576301 CTCATATCGATGCCATGTCCTAAAC
66 CACATACCGATGCCATGTCCTAAAC
* *
38576326 ATGGTCTTAAACGAAATCACATATAGATG-TCAATGCCATATCCCA-ATTATGGTCTTACATGGT
1 ATGGTCTTAAACGAAATCACATATAGATGCT-AATGCCATATCCCAGA-CATGGTCTTACATGAT
38576389 ATCACATACCGATGC
64 ATCACATACCGATGC
38576404 TAATGCCATG
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
89 2 0.03
90 63 0.97
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (90 bp):
ATGGTCTTAAACGAAATCACATATAGATGCTAATGCCATATCCCAGACATGGTCTTACATGATAT
CACATACCGATGCCATGTCCTAAAC
Found at i:38586269 original size:250 final size:251
Alignment explanation
Indices: 38585800--38586301 Score: 927
Period size: 250 Copynumber: 2.0 Consensus size: 251
38585790 TCCCTGAAAC
38585800 TAGACTCATATATGCATCTACAAATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTT
1 TAGACTCATATATGCATCTACAAATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTT
38585865 ATTAGTCAAAGTCTCCCCTGTTACAGGGATCGACTACACTGCCCTTTCCGCATTACGACTTGGAT
66 ATTAGTCAAAGTCTCCCCTGTTACAGGGATCGACTACACTGCCCTTTCCGCATTACGACTTGGAT
*
38585930 ATCTCCCTGTACAGGGCTTCAATATTGATGCCGTTTCTTTCTATAGAAACTAGACTCAAATAGGA
131 ATCTCCCTGTACAGGGATTCAATATTGATGCCGTTTCTTTCTATAGAAACTAGACTCAAATAGGA
*
38585995 ATCTATACATATATGGCATGACTTCTAAATGTCTCTGGTTAATTTATAATGAATTT
196 ATCTATACATATATGGCATGACTTCTAAATGTCTCTAGTTAATTTATAATGAATTT
*
38586051 TAGACTCATATATGCATCTA-AAATTTGTTTTCTAGAATTTTTGGTTGGGCCAATTAGTACAGTT
1 TAGACTCATATATGCATCTACAAATTT-TTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTT
*
38586115 TATTAGTCAAAGTCTCCCCTGTTACAGGGATCGACTACACTGCCC-TTGCGCATTACGACTTGGA
65 TATTAGTCAAAGTCTCCCCTGTTACAGGGATCGACTACACTGCCCTTTCCGCATTACGACTTGGA
*
38586179 TATCTCCCTGTACAGGGATTTAATATTGATGCCGTTTCTTTCTATAGAAACTAGACTCAAATAGG
130 TATCTCCCTGTACAGGGATTCAATATTGATGCCGTTTCTTTCTATAGAAACTAGACTCAAATAGG
*
38586244 AATCTATACATATATGGCATGACTTCTAAATGTCTCTATTTAATTTATAATGAATTT
195 AATCTATACATATATGGCATGACTTCTAAATGTCTCTAGTTAATTTATAATGAATTT
38586301 T
1 T
38586302 CAAAGTCAGA
Statistics
Matches: 244, Mismatches: 6, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
250 143 0.59
251 101 0.41
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (251 bp):
TAGACTCATATATGCATCTACAAATTTTTTTCTAGAATTTTTGGTCGGGCCAATTAGTACAGTTT
ATTAGTCAAAGTCTCCCCTGTTACAGGGATCGACTACACTGCCCTTTCCGCATTACGACTTGGAT
ATCTCCCTGTACAGGGATTCAATATTGATGCCGTTTCTTTCTATAGAAACTAGACTCAAATAGGA
ATCTATACATATATGGCATGACTTCTAAATGTCTCTAGTTAATTTATAATGAATTT
Found at i:38590819 original size:56 final size:56
Alignment explanation
Indices: 38590733--38590998 Score: 399
Period size: 56 Copynumber: 4.8 Consensus size: 56
38590723 GAAGTATATG
* * *
38590733 TGGCATCGATATGTGACTCTGATATATATGTGCGAGTAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* * * * *
38590789 TGGCACCGATATGTGACTCCGATATATATGTGCAAGTAAGTCCACGTTTAATATGT
1 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
38590845 TGGCATCGATATGTGACTCCGATATATGTGTG-GAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* * *
38590900 TGGCATCAATATGTGACTCCGATATATGTGTTCTAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* * *
38590956 TGGCATCGATATATGACTCCGATATATGTGTACGAGTATGACC
1 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACC
38590999 CTGTCTAGGG
Statistics
Matches: 192, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
55 50 0.26
56 142 0.74
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
Found at i:38590892 original size:111 final size:112
Alignment explanation
Indices: 38590728--38590998 Score: 411
Period size: 111 Copynumber: 2.4 Consensus size: 112
38590718 ACCTGGAAGT
* * *
38590728 ATATG-TGGCATCGATATGTGACTCTGATATATATGTGCGAGTAAGTCCACGTTTAATACGTTGG
1 ATATGTTGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGG
* *
38590792 CACCGATATGTGACTCCGATATATATGTGCAAGTAAGTCCACGTTTA
66 CACCAATATGTGACTCCGATATATATGTGCAAGTAAGACCACGTTTA
38590839 ATATGTTGGCATCGATATGTGACTCCGATATATGTGTG-GAGTAAGACCACGTTTAATACGTTGG
1 ATATGTTGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGG
* * * *
38590903 CATCAATATGTGACTCCGATATATGTGTTCTAGTAAGACCACGTTTA
66 CACCAATATGTGACTCCGATATATATGTGCAAGTAAGACCACGTTTA
* * * *
38590950 ATACGTTGGCATCGATATATGACTCCGATATATGTGTACGAGTATGACC
1 ATATGTTGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACC
38590999 CTGTCTAGGG
Statistics
Matches: 145, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
111 106 0.73
112 39 0.27
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (112 bp):
ATATGTTGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGG
CACCAATATGTGACTCCGATATATATGTGCAAGTAAGACCACGTTTA
Found at i:38592212 original size:36 final size:36
Alignment explanation
Indices: 38592165--38592235 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
38592155 GTGACATGTA
38592165 TGTTCTTTGATGATCTATGGGGGAATATGAAAGTTT
1 TGTTCTTTGATGATCTATGGGGGAATATGAAAGTTT
*
38592201 TGTTCTTTGATGATTTATGGGGGAATATGAAAGTT
1 TGTTCTTTGATGATCTATGGGGGAATATGAAAGTT
38592236 AGATGTGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.04, G:0.28, T:0.42
Consensus pattern (36 bp):
TGTTCTTTGATGATCTATGGGGGAATATGAAAGTTT
Found at i:38594018 original size:32 final size:30
Alignment explanation
Indices: 38593975--38594045 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
38593965 CACACGGATA
*
38593975 GACACACGGGTGTGTGTGTCTAGGCTGTCTTT
1 GACACAC-GG-GTGTGTGTCTAGGCTGTCTGT
*
38594007 GACACATGGGTGTGTGTCTAGGCTGTCTGT
1 GACACACGGGTGTGTGTCTAGGCTGTCTGT
38594037 GACACACGG
1 GACACACGG
38594046 TCAGCCCCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 28 0.78
31 2 0.06
32 6 0.17
ACGTcount: A:0.15, C:0.20, G:0.35, T:0.30
Consensus pattern (30 bp):
GACACACGGGTGTGTGTCTAGGCTGTCTGT
Found at i:38612549 original size:44 final size:44
Alignment explanation
Indices: 38612498--38612585 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
38612488 AAGATTATTG
* *
38612498 ATAGATAAACAACTTTTACAAAGTTATTTTTGATGAAAATATGA
1 ATAGATAAACAACTTTTACAAAATAATTTTTGATGAAAATATGA
*
38612542 ATAGATAAACAACTTTTACAAAATAATTTTTGATGAAAGTATGA
1 ATAGATAAACAACTTTTACAAAATAATTTTTGATGAAAATATGA
38612586 TTTAGGGACT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (44 bp):
ATAGATAAACAACTTTTACAAAATAATTTTTGATGAAAATATGA
Found at i:38614635 original size:20 final size:20
Alignment explanation
Indices: 38614610--38614647 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38614600 CTATATAATG
38614610 AAAAATTTTCT-AAGTTCTGT
1 AAAAA-TTTCTAAAGTTCTGT
38614630 AAAAATTTCTAAAGTTCT
1 AAAAATTTCTAAAGTTCT
38614648 TCGTTTAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAAATTTCTAAAGTTCTGT
Found at i:38616795 original size:40 final size:40
Alignment explanation
Indices: 38616709--38616889 Score: 199
Period size: 40 Copynumber: 4.5 Consensus size: 40
38616699 GCTACTCGTT
* *
38616709 CAAATGCCTTCGGGACATAGCCCGG-TTATATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* * *
38616749 CAAATGCCTTCGGGACTTAACCCGGATTTAGTGACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
38616789 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
38616828 CAAATGCCTTC-GGATCTTAGTCCGGATATAATCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
38616869 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
38616890 TGGACATCAT
Statistics
Matches: 118, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 72 0.61
41 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38616811 original size:79 final size:80
Alignment explanation
Indices: 38616711--38616889 Score: 222
Period size: 79 Copynumber: 2.2 Consensus size: 80
38616701 TACTCGTTCA
* * *
38616711 AATGCCTTCGGGACATAGCCCGG-TTATATTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* * *
38616774 ATTTAGTGACTT-GCACC
64 ATATAATCACTTAGCA-C
**
38616791 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
38616855 ATAATCACTTAGCAC
66 ATAATCACTTAGCAC
*
38616870 AAAGCCTTCGGGACTTAGCC
1 AATGCCTTCGGGACTTAGCC
38616890 TGGACATCAT
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 60 0.70
80 23 0.27
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAATCACTTAGCAC
Found at i:38619407 original size:25 final size:24
Alignment explanation
Indices: 38619345--38619407 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
38619335 AGCTTCGGAT
* * *
38619345 AGCCATATAATAGGAAGTTCAAGCG
1 AGCC-TATATTAGGAAGCTCAAGAG
*
38619370 AGCC-ATATCAGGAAGCTCAAGAAG
1 AGCCTATATTAGGAAGCTCAAG-AG
38619394 AGCCTATATTAGGA
1 AGCCTATATTAGGA
38619408 CTCTTATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 14 0.45
24 5 0.16
25 12 0.39
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (24 bp):
AGCCTATATTAGGAAGCTCAAGAG
Found at i:38622570 original size:49 final size:49
Alignment explanation
Indices: 38622513--38622885 Score: 372
Period size: 49 Copynumber: 7.5 Consensus size: 49
38622503 CTAGTATGCA
*
38622513 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * *** ** * * *
38622562 CAGTAGCCTACACTTAATACTACACACATGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
* * * * ** *
38622612 TAGTAGCCTGTACTTAGTACTACACACGTGATCAAATTTAT-CGAGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCG-GTACACG
* * *
38622663 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTACCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * ** ** *
38622712 TAGTAGCCTGCGCTTAGTACTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
* * * *
38622762 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCTGGTACGCC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
38622811 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
38622860 TAGTAAG-CTGCACTTAGTACTACACA
1 TAGT-AGCCTGCACTTAGTACTACACA
38622886 CGTGAGCTCA
Statistics
Matches: 256, Mismatches: 61, Indels: 14
0.77 0.18 0.04
Matches are distributed among these distances:
49 140 0.55
50 84 0.33
51 32 0.12
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:38622688 original size:99 final size:96
Alignment explanation
Indices: 38622513--38622885 Score: 344
Period size: 99 Copynumber: 3.8 Consensus size: 96
38622503 CTAGTATGCA
* * * *
38622513 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG-GTACACACAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTAT-CGAGTACACATAGTAGCCTACACTT
* ** *
38622577 AATACTACACACATGACCTAACCATCTGATACATG
65 AGTACT--ACACATGACC-AATTATCTGGTACATG
* **
38622612 TAGTAGCCTGTACTTAGTACTACACACGTGATCAAATTTATCGAGTATGCATAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CAAA-TTATCGAGTACACATAGTAGCCTACACT
* *
38622677 TAGTACTACACATGCGACCAATTACCCGGTACATG
64 TAGTACTACACAT--GACCAATTATCTGGTACATG
* * *
38622712 TAGTAGCCTGCGCTTAGTACTACACACGTGACCTAACCATT-T-GA-TACACGTAGTAGCCTGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-AA--ATTATCGAGTACACATAGTAGCCTACA
***
38622774 CTTAGTACTACACATGCAACCAATTATCTGGTACGCC
62 CTTAGTACTACACATG--ACCAATTATCTGGTACATG
* * * * *
38622811 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCG-GTACACGTAGTAAG-CTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTAT-CGAGTACACATAGT-AGCCTACACT
38622874 TAGTACTACACA
64 TAGTACTACACA
38622886 CGTGAGCTCA
Statistics
Matches: 230, Mismatches: 29, Indels: 31
0.79 0.10 0.11
Matches are distributed among these distances:
95 3 0.01
96 1 0.00
97 2 0.01
98 31 0.13
99 107 0.47
100 48 0.21
101 35 0.15
102 2 0.01
103 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (96 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACAAATTATCGAGTACACATAGTAGCCTACACTTA
GTACTACACATGACCAATTATCTGGTACATG
Found at i:38622738 original size:150 final size:148
Alignment explanation
Indices: 38622500--38622886 Score: 555
Period size: 150 Copynumber: 2.6 Consensus size: 148
38622490 TAGAGAAGGC
* **
38622500 TATCTAGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACACAG
1 TATCGAGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
* * * *
38622565 TAGCCTACACTTAATACTACACACATGACCTAACCATCTGATACATGTAGTAGCCTGTACTTAGT
66 TAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGT
*
38622630 ACTACACACGTG-ATCAAATT
131 ACTACACA--TGCAACAAA-T
* * *
38622650 TATCGAGTATGCATAGTAGCCTACACTTAGTACTACACATGCGACCAATTACCCGGTACATGTAG
1 TATCGAGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
* * *
38622715 TAGCCTGCGCTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCACTTAGT
66 TAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGT
*
38622780 ACTACACATGCAACCAAT
131 ACTACACATGCAACAAAT
* *
38622798 TATCTG-GTACGCCTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTA
1 TATC-GAGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTA
38622862 GTAAG-CTGCACTTAGTACTACACAC
65 GT-AGCCTGCACTTAGTACTACACAC
38622887 GTGAGCTCAC
Statistics
Matches: 213, Mismatches: 21, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
148 81 0.38
149 7 0.03
150 125 0.59
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (148 bp):
TATCGAGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
TAGCCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGT
ACTACACATGCAACAAAT
Found at i:38626653 original size:133 final size:132
Alignment explanation
Indices: 38626435--38626680 Score: 359
Period size: 133 Copynumber: 1.9 Consensus size: 132
38626425 TCTGCCCATA
* *
38626435 TGACCAATTCTAAGCATTCTGTTTCTCAATTTTTAGATGCAGGGGACACACGGCCAAACCACACG
1 TGACCAATTCTAAACATTCTGTTTCTCAATTTTTAGATGCAAGGGACACACGGCCAAACCACACG
* * * *
38626500 CCTATGCGTATGGTCGTGTGTGACACATGGTTGAGACACACAAACCACGCCCGTATTTCTACCCG
66 CCCATGCGTATGGCCGTGTGTCACACACGGTTGAGACACACAAACCACGCCCGTATTTCTACCCG
38626565 TG
131 TG
* * * *
38626567 TGACCAATTCTAAATAGTT-TGTTTCTCAATTTTTAAGATGCAAGGGACACATGGCCAAAGCATA
1 TGACCAATTCTAAACA-TTCTGTTTCTCAATTTTT-AGATGCAAGGGACACACGGCCAAACCACA
* *
38626631 CGCCCGTGTGTATGGCCGTGTGTCACACACGGTTGAGACACACAAACCAC
64 CGCCCATGCGTATGGCCGTGTGTCACACACGGTTGAGACACACAAACCAC
38626681 ATACACATGC
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
132 29 0.29
133 71 0.71
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (132 bp):
TGACCAATTCTAAACATTCTGTTTCTCAATTTTTAGATGCAAGGGACACACGGCCAAACCACACG
CCCATGCGTATGGCCGTGTGTCACACACGGTTGAGACACACAAACCACGCCCGTATTTCTACCCG
TG
Found at i:38631952 original size:21 final size:21
Alignment explanation
Indices: 38631913--38631953 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
38631903 GAATTTAACG
**
38631913 TCAATTTAATCCATTTCACAC
1 TCAATTTAATCCAACTCACAC
*
38631934 TCAATTTAATTCAACTCACA
1 TCAATTTAATCCAACTCACA
38631954 TCTTGGCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (21 bp):
TCAATTTAATCCAACTCACAC
Found at i:38635942 original size:24 final size:24
Alignment explanation
Indices: 38635898--38635943 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
38635888 ATGCTAATCC
*
38635898 ATTATGACTTCTATTAGTTTTATT
1 ATTATGACTTCTATTAATTTTATT
*
38635922 ATTATTACTT-TATTATATTTTA
1 ATTATGACTTCTATTA-ATTTTA
38635944 ATAAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (24 bp):
ATTATGACTTCTATTAATTTTATT
Found at i:38652414 original size:12 final size:12
Alignment explanation
Indices: 38652397--38652421 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38652387 CACATTCGGC
38652397 TATATATATAAA
1 TATATATATAAA
38652409 TATATATATAAA
1 TATATATATAAA
38652421 T
1 T
38652422 GTATGCCCAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATATATAAA
Found at i:38653005 original size:28 final size:28
Alignment explanation
Indices: 38652973--38653042 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
38652963 AATGAGATTG
38652973 GCACTAAGTGTGCGAGTTTAATTA-TATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
38653001 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
*
38653029 GCACTAACTGTGCG
1 GCACTAAGTGTGCG
38653043 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:38660309 original size:12 final size:12
Alignment explanation
Indices: 38660292--38660316 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
38660282 CACATTCGGC
38660292 TATATATATAAA
1 TATATATATAAA
38660304 TATATATATAAA
1 TATATATATAAA
38660316 T
1 T
38660317 GTATGCCCAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATATATAAA
Found at i:38660896 original size:28 final size:28
Alignment explanation
Indices: 38660864--38660933 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
38660854 AATGAGATTG
*
38660864 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
38660892 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
38660920 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
38660934 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:38665703 original size:48 final size:48
Alignment explanation
Indices: 38665632--38665727 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
38665622 AAATCATGCC
38665632 ACATGAGAAAGAGGCAATAGAGAATGTAGCCCTAGAGGAAGGGAAAGA
1 ACATGAGAAAGAGGCAATAGAGAATGTAGCCCTAGAGGAAGGGAAAGA
*
38665680 ACATGAGAAAGAGGCAATAGAGAATGTAGCCCTTGAGGAAGGGAAAGA
1 ACATGAGAAAGAGGCAATAGAGAATGTAGCCCTAGAGGAAGGGAAAGA
38665728 GGTGAAAATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.45, C:0.10, G:0.33, T:0.11
Consensus pattern (48 bp):
ACATGAGAAAGAGGCAATAGAGAATGTAGCCCTAGAGGAAGGGAAAGA
Found at i:38670139 original size:87 final size:84
Alignment explanation
Indices: 38670048--38670440 Score: 221
Period size: 87 Copynumber: 4.5 Consensus size: 84
38670038 GAGGGCAGAC
*
38670048 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
38670113 GTTTAC-AAGGAACAAATCGAAG
66 GTTT-CGAAGGAACAAA--G-AG
* * * * * * *
38670135 ACATAGCAGATTTGA-CTTCGGATGTTCTCACACTAAAGCAGATCCAAGGTAACAGATCTGGCA-
1 ACATAGCAGATCTAACCTTCAGATGTT-T-ATACTGAAGCAGATCCAA-G--A-TGATTTGGCAT
** * **** *
38670198 TCTT-CATTTCGACGGAGGGCAGAT
60 TCTTGTGTTTCGAAGGAACAAAGAG
* * *
38670222 ACATAGCAGATCTAACCTTCAGATGATTT-TACTGAATCAGATCTAAGATAACAGATTTGGC-GT
1 ACATAGCAGATCTAACCTTCAGATG-TTTATACTGAAGCAGATCCAAGAT----GATTTGGCATT
** * * *
38670285 CTCCAT-ATTCGACGGAGAGC--AGAC
61 CT-TGTGTTTCGAAGGA-A-CAAAGAG
* * * * *
38670309 ACATAGCTGATTTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATAATTTGGCATCCTTGT
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
* *
38670374 GTTTAC-AAGGAGCAAATCAAAG
66 GTTT-CGAAGGAAC-AA--AGAG
**
38670396 ACATAGCAGATCTAACCTTCAGATGTTTACGCTGAAGCAGATCCA
1 ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCA
38670441 TTTACTGTAA
Statistics
Matches: 228, Mismatches: 51, Indels: 54
0.68 0.15 0.16
Matches are distributed among these distances:
82 1 0.00
83 9 0.04
84 8 0.04
85 2 0.01
86 36 0.16
87 122 0.54
88 25 0.11
89 4 0.02
90 8 0.04
91 5 0.02
92 8 0.04
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (84 bp):
ACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
GTTTCGAAGGAACAAAGAG
Found at i:38670235 original size:174 final size:177
Alignment explanation
Indices: 38669949--38670270 Score: 485
Period size: 174 Copynumber: 1.8 Consensus size: 177
38669939 AACGAGGAGA
* * *
38669949 AAATCAAAGACATAGCAGATTTGACTTTTAGATGTTTTTCACATCAAAGTAGATCCAAGATAACA
1 AAATCAAAGACATAGCAGATTTGACTTTCAGATGTTTCTCACATCAAAGCAGATCCAAGATAACA
*
38670014 GATCTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATG-TTTAT
66 GATCTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTT-T
38670078 ACTGAAGT-AGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAAC
130 ACTGAA-TCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAAC
* * *
38670126 AAATCGAAGACATAGCAGATTTGAC-TTCGGATG-TTCTCACA-CTAAAGCAGATCCAAGGTAAC
1 AAATCAAAGACATAGCAGATTTGACTTTCAGATGTTTCTCACATC-AAAGCAGATCCAAGATAAC
* *
38670188 AGATCTGGCATCTTCAT-TTCGACGGAGGGCAGATACATAGCAGATCTAACCTTCAGATGATTTT
65 AGATCTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTTT
*
38670252 ACTGAATCAGATCTAAGAT
130 ACTGAATCAGATCCAAGAT
38670271 AACAGATTTG
Statistics
Matches: 132, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
173 1 0.01
174 59 0.45
175 42 0.32
176 6 0.05
177 24 0.18
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (177 bp):
AAATCAAAGACATAGCAGATTTGACTTTCAGATGTTTCTCACATCAAAGCAGATCCAAGATAACA
GATCTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTCAGATGATTTTA
CTGAATCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAAC
Found at i:38670513 original size:42 final size:42
Alignment explanation
Indices: 38670466--38670599 Score: 232
Period size: 42 Copynumber: 3.2 Consensus size: 42
38670456 TGGCCCTTAG
* * *
38670466 GCCCATTTCAAAATCACATGTAATGTCAATGGATGTATGGAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
38670508 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
38670550 GCCTATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
38670592 GCCCATTT
1 GCCCATTT
38670600 GGGGAACCCA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:38670751 original size:24 final size:24
Alignment explanation
Indices: 38670710--38670807 Score: 58
Period size: 25 Copynumber: 4.0 Consensus size: 24
38670700 GCTTTATCAT
**
38670710 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACTGGAGGCAAAGCC-CTTTTA
*
38670735 ATAACT-GAGGCAAAGCCCTTTCTG
1 ATAACTGGAGGCAAAGCCCTTT-TA
* * *
38670759 ATAAATTGG-GGCAAAGGCCTTTTCG
1 AT-AACTGGAGGCAAAGCCCTTTT-A
* *
38670784 GTACACTGG-GGCAGAGCCCTTTTA
1 ATA-ACTGGAGGCAAAGCCCTTTTA
38670808 GCACTTCCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
23 4 0.07
24 14 0.24
25 39 0.67
26 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (24 bp):
ATAACTGGAGGCAAAGCCCTTTTA
Found at i:38671646 original size:27 final size:26
Alignment explanation
Indices: 38671616--38671717 Score: 80
Period size: 27 Copynumber: 3.8 Consensus size: 26
38671606 GGGCATATTC
*
38671616 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACC-TACAAGGGTATTACA
* *
38671643 GTCACTTTACCCTACATGGGCT-TTACA
1 GTCATTTTA-CCTACAAGGG-TATTACA
* * **
38671670 GTCTTTTTACCTATTAAGGGTATTTTA
1 GTCATTTTACCTA-CAAGGGTATTACA
*
38671697 GTCATTTCATCCTACAAGGGT
1 GTCATTTTA-CCTACAAGGGT
38671718 GTTTTGGTAA
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
26 5 0.09
27 46 0.79
28 7 0.12
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTACAAGGGTATTACA
Found at i:38671764 original size:27 final size:27
Alignment explanation
Indices: 38671711--38671947 Score: 174
Period size: 27 Copynumber: 8.7 Consensus size: 27
38671701 TTTCATCCTA
* * *
38671711 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
38671738 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
38671765 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-C
* ** *
38671794 CAAGGGTATTTCT-GAAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAC
*
38671821 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** * *
38671848 TTAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
**
38671875 C-AGTGGTATTTCAGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* * *
38671902 TAGGGGTATTTTGGTAATTTTAGAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
38671929 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
38671948 CTATCCTACA
Statistics
Matches: 172, Mismatches: 32, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
26 3 0.02
27 139 0.81
28 16 0.09
29 14 0.08
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:38671883 original size:54 final size:54
Alignment explanation
Indices: 38671824--38671980 Score: 165
Period size: 54 Copynumber: 2.9 Consensus size: 54
38671814 TGTAAATCAA
*
38671824 GGGTATTTTGGTAATTTTACAAATTTA-GGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTCGGTAATTTCACAAACCAG
* ** * * * *
38671878 TGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTAGAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAG
* ** * *
38671932 GGGTATTTTGGTAATTCTATCCTAC-AGGGATATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTTCGGTAATTTCACAA
38671981 TCGAGGATAA
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
53 2 0.02
54 77 0.94
55 3 0.04
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACCAG
Found at i:38671966 original size:81 final size:81
Alignment explanation
Indices: 38671824--38671980 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
38671814 TGTAAATCAA
*
38671824 GGGTATTTTGGTAATTTTACAAATTTAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCAG
1 GGGTATTTTGGTAATTTTACAAATCTAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCAG
*
38671889 TAATTTTACAAACTAG
66 TAATTTCACAAACTAG
* * **
38671905 GGGTATTTTGGTAATTTTAGAAA-CTAGGGGTATTTTGGTAA-TTCTATCCTA-CAG-GGATATT
1 GGGTATTTTGGTAATTTTACAAATCTA-GGGTATTTCGGTAATTTC-A-CAAACCAGTGG-TATT
38671966 TCAGTAATTTCACAA
62 TCAGTAATTTCACAA
38671981 TCGAGGATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
80 7 0.11
81 57 0.86
82 2 0.03
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAATCTAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTCAG
TAATTTCACAAACTAG
Found at i:38672018 original size:27 final size:27
Alignment explanation
Indices: 38671979--38672176 Score: 236
Period size: 27 Copynumber: 7.3 Consensus size: 27
38671969 GTAATTTCAC
* *
38671979 AATCGAGGATAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
*
38672006 AA-CTGAGGGTAAAATGATAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
38672033 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
38672060 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* *
38672087 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* * * * * *
38672114 AATTGATGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
* **
38672141 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTTTGTA
38672168 AATCGAGGG
1 AATCGAGGG
38672177 CATTTCAGTA
Statistics
Matches: 148, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 146 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:38672095 original size:81 final size:81
Alignment explanation
Indices: 38671979--38672176 Score: 272
Period size: 81 Copynumber: 2.4 Consensus size: 81
38671969 GTAATTTCAC
* * * * *
38671979 AATCGAGGATAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGATAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAACGATAATTTTGTAAATCGAGGGT
* * *
38672043 AAAATGGTAATTTTGTA
65 AAAACGGTAATTCTATA
* * *
38672060 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATTGATGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
38672125 AAACGGTAATTCTATA
66 AAACGGTAATTCTATA
*
38672141 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
38672177 CATTTCAGTA
Statistics
Matches: 104, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
81 103 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTA
AAACGGTAATTCTATA
Found at i:38679405 original size:32 final size:32
Alignment explanation
Indices: 38679364--38679430 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
38679354 TCCCTGTGGG
38679364 TACGATAACTCAACATTCACTTGTCACTTTAT
1 TACGATAACTCAACATTCACTTGTCACTTTAT
* *
38679396 TACGATAACTCGACATTTACTTGTCACTTTAT
1 TACGATAACTCAACATTCACTTGTCACTTTAT
38679428 TAC
1 TAC
38679431 TTGTTGTGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (32 bp):
TACGATAACTCAACATTCACTTGTCACTTTAT
Found at i:38680596 original size:71 final size:71
Alignment explanation
Indices: 38680480--38680616 Score: 256
Period size: 71 Copynumber: 1.9 Consensus size: 71
38680470 AAGTATTTGA
*
38680480 ATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGTGAAAGTTTTAAGCTTCGATTTAGT
1 ATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGCGAAAGTTTTAAGCTTCGATTTAGT
38680545 CTATTT
66 CTATTT
*
38680551 ATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGCGAAAGTTTTAAGTTTCGATTTAGT
1 ATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGCGAAAGTTTTAAGCTTCGATTTAGT
38680616 C
66 C
38680617 GATTGCATGT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.44
Consensus pattern (71 bp):
ATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGCGAAAGTTTTAAGCTTCGATTTAGT
CTATTT
Found at i:38680633 original size:71 final size:71
Alignment explanation
Indices: 38680480--38680633 Score: 247
Period size: 71 Copynumber: 2.2 Consensus size: 71
38680470 AAGTATTTGA
*
38680480 ATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGTGAAAGTTTTAAGCTTCGATTTAGT
1 ATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGCGAAAGTTTTAAGCTTCGATTTAGT
* *
38680545 CTATTT
66 CGATTC
*
38680551 ATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGCGAAAGTTTTAAGTTTCGATTTAGT
1 ATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGCGAAAGTTTTAAGCTTCGATTTAGT
38680616 CGATTGC
66 CGATT-C
*
38680623 ATGTGA-ATTTA
1 ATATGATATTTA
38680634 GCTAATAGGA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
71 72 0.94
72 5 0.06
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (71 bp):
ATATGATATTTATTGTCTAAAATATGTGAATATGAATGTGCGAAAGTTTTAAGCTTCGATTTAGT
CGATTC
Found at i:38681410 original size:39 final size:41
Alignment explanation
Indices: 38681325--38681412 Score: 126
Period size: 39 Copynumber: 2.2 Consensus size: 41
38681315 TTATTCGGAT
*
38681325 GATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGAC
1 GATATCCGGGCTAAGACCCGAAGGCACTTTGCGCTAGTGAC
* * *
38681366 TATATCCGGGTTAA-TCCCGAAGGCA-TTTGCGCTAGTGAC
1 GATATCCGGGCTAAGACCCGAAGGCACTTTGCGCTAGTGAC
38681405 GATATCCG
1 GATATCCG
38681413 ACTAAGCCGA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 20 0.48
40 10 0.24
41 12 0.29
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (41 bp):
GATATCCGGGCTAAGACCCGAAGGCACTTTGCGCTAGTGAC
Found at i:38681556 original size:200 final size:201
Alignment explanation
Indices: 38681213--38681612 Score: 775
Period size: 200 Copynumber: 2.0 Consensus size: 201
38681203 GTATGTGGCT
38681213 ACTAAGCCGAAAATGGTAATGGTTGATAAGTGTCTTGTGTTTGAGTTCTAGTAACGAAAATGAAA
1 ACTAAGCCGAAAATGGTAATGGTTGATAAGTGTCTTGTGTTTGAGTTCTAGTAACGAAAATGAAA
38681278 AATAGATGTGTTATGATTTATTGATATATGTGCATGATTATTCGGATGATATCCGGGCTAAGACC
66 AATAGATGTGTTATGATTTATTGATATATGTGCATGATTATTCGGATGATATCCGGGCTAAGACC
38681343 CGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAA-TCCCGAAGGCATTTGCGCTAGTGACGA
131 CGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTTGCGCTAGTGACGA
38681407 TATCCG
196 TATCCG
38681413 ACTAAGCCGAAAATGGTAATGGTTGATAAGTGTCTTGTGTTTGAGTTCTAGTAACGAAAATGAAA
1 ACTAAGCCGAAAATGGTAATGGTTGATAAGTGTCTTGTGTTTGAGTTCTAGTAACGAAAATGAAA
*
38681478 AATAGATGTGTTATGATTTATTGATATATGTGCATGATTATTCGGATGATATCCTGGCTAAGACC
66 AATAGATGTGTTATGATTTATTGATATATGTGCATGATTATTCGGATGATATCCGGGCTAAGACC
*
38681543 CGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGGTATTTGCGCTAGTGACGA
131 CGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTTGCGCTAGTGACGA
38681608 TATCC
196 TATCC
38681613 AGGCTAAGAC
Statistics
Matches: 197, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
200 166 0.84
201 31 0.16
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (201 bp):
ACTAAGCCGAAAATGGTAATGGTTGATAAGTGTCTTGTGTTTGAGTTCTAGTAACGAAAATGAAA
AATAGATGTGTTATGATTTATTGATATATGTGCATGATTATTCGGATGATATCCGGGCTAAGACC
CGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTTGCGCTAGTGACGA
TATCCG
Found at i:38681662 original size:81 final size:80
Alignment explanation
Indices: 38681525--38681719 Score: 291
Period size: 81 Copynumber: 2.4 Consensus size: 80
38681515 TTATTCGGAT
* *
38681525 GATATCCTGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
1 GATATCCAGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
* *
38681590 TATTTGCGCTAGTGAC
65 CATTTGCGCGAGTGAC
38681606 GATATCCAGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1 GATATCCAGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
* *
38681671 CATTTGTGCGAGTTAC
65 CATTTGCGCGAGTGAC
* * *
38681687 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GATATCCAGGCTAAGACCCGAAGGCATTTGTGC
38681720 GATTTGCTAT
Statistics
Matches: 104, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 7 0.07
81 97 0.93
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (80 bp):
GATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
ATTTGCGCGAGTGAC
Found at i:38681735 original size:40 final size:40
Alignment explanation
Indices: 38681526--38681719 Score: 280
Period size: 40 Copynumber: 4.8 Consensus size: 40
38681516 TATTCGGATG
* *
38681526 ATATCCTGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * * *
38681567 ATATCCGGGTTAAGTCCCGAAGGTATTTGCGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
38681607 ATATCCAGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* *
38681648 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
38681688 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
38681720 GATTTGCTAT
Statistics
Matches: 136, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
40 79 0.58
41 57 0.42
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:38688894 original size:81 final size:80
Alignment explanation
Indices: 38688757--38688951 Score: 282
Period size: 81 Copynumber: 2.4 Consensus size: 80
38688747 TTATTCGGAT
* *
38688757 GATATCCTGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
1 GATATCCAGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
* *
38688822 TATTTGCGCTAGTGAC
65 CATTTGCGCGAGTGAC
38688838 GATATCCAGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1 GATATCCAGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
* *
38688903 CATTTGTGCGAGTTAC
65 CATTTGCGCGAGTGAC
* * * *
38688919 TATATCCGGGCTAAGTCTCGAAGGCATTTGTGC
1 GATATCCAGGCTAAGACCCGAAGGCATTTGTGC
38688952 GATTTTCTAT
Statistics
Matches: 103, Mismatches: 11, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
80 7 0.07
81 96 0.93
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
GATATCCAGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
ATTTGCGCGAGTGAC
Found at i:38688967 original size:40 final size:40
Alignment explanation
Indices: 38688758--38688951 Score: 271
Period size: 40 Copynumber: 4.8 Consensus size: 40
38688748 TATTCGGATG
* *
38688758 ATATCCTGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * * *
38688799 ATATCCGGGTTAAGTCCCGAAGGTATTTGCGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
38688839 ATATCCAGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* *
38688880 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
38688920 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
38688952 GATTTTCTAT
Statistics
Matches: 135, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
40 78 0.58
41 57 0.42
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:38690625 original size:75 final size:75
Alignment explanation
Indices: 38690502--38690729 Score: 456
Period size: 75 Copynumber: 3.0 Consensus size: 75
38690492 GTAGCTGATG
38690502 ATGTTGAGAGTGTAGCGCCTGCTCCCGCGCAAGGGACAGCGCCGGTGGACTCTCAACCTATTGCT
1 ATGTTGAGAGTGTAGCGCCTGCTCCCGCGCAAGGGACAGCGCCGGTGGACTCTCAACCTATTGCT
38690567 AGTAATCAGA
66 AGTAATCAGA
38690577 ATGTTGAGAGTGTAGCGCCTGCTCCCGCGCAAGGGACAGCGCCGGTGGACTCTCAACCTATTGCT
1 ATGTTGAGAGTGTAGCGCCTGCTCCCGCGCAAGGGACAGCGCCGGTGGACTCTCAACCTATTGCT
38690642 AGTAATCAGA
66 AGTAATCAGA
38690652 ATGTTGAGAGTGTAGCGCCTGCTCCCGCGCAAGGGACAGCGCCGGTGGACTCTCAACCTATTGCT
1 ATGTTGAGAGTGTAGCGCCTGCTCCCGCGCAAGGGACAGCGCCGGTGGACTCTCAACCTATTGCT
38690717 AGTAATCAGA
66 AGTAATCAGA
38690727 ATG
1 ATG
38690730 ATGAAGCTAG
Statistics
Matches: 153, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 153 1.00
ACGTcount: A:0.23, C:0.26, G:0.29, T:0.21
Consensus pattern (75 bp):
ATGTTGAGAGTGTAGCGCCTGCTCCCGCGCAAGGGACAGCGCCGGTGGACTCTCAACCTATTGCT
AGTAATCAGA
Found at i:38704277 original size:22 final size:22
Alignment explanation
Indices: 38704234--38704275 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
38704224 TGATAATCAT
38704234 TAATATATAATTATATCTATTA
1 TAATATATAATTATATCTATTA
38704256 TAATATAT-ATTA-AT-TATTA
1 TAATATATAATTATATCTATTA
38704275 T
1 T
38704276 TAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATATATAATTATATCTATTA
Found at i:38707274 original size:10 final size:10
Alignment explanation
Indices: 38707259--38707305 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
38707249 GAACATGTTG
38707259 AATTTTAATT
1 AATTTTAATT
*
38707269 AATTTTATATCA
1 AATTTTA-AT-T
*
38707281 AATTTTGATT
1 AATTTTAATT
38707291 AATTTTAATT
1 AATTTTAATT
38707301 -ATTTT
1 AATTTT
38707306 CAACAGATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 5 0.16
10 16 0.52
11 4 0.13
12 6 0.19
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
AATTTTAATT
Found at i:38712784 original size:40 final size:39
Alignment explanation
Indices: 38712686--38712948 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
38712676 TCCTCGTTCA
* * * *
38712686 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
38712725 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
38712764 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
38712804 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
38712844 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
38712884 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
38712925 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38712949 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:38712908 original size:120 final size:119
Alignment explanation
Indices: 38712686--38712948 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
38712676 TCCTCGTTCA
* * *
38712686 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
38712751 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
38712804 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
38712869 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
38712925 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
38712949 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:38712957 original size:41 final size:41
Alignment explanation
Indices: 38712880--38712957 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
38712870 TTTGTATCTC
* * *
38712880 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
38712921 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
38712958 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:38722048 original size:258 final size:258
Alignment explanation
Indices: 38721591--38722108 Score: 928
Period size: 258 Copynumber: 2.0 Consensus size: 258
38721581 ATGTCATCAA
*
38721591 TGAACACAACTACGAACCGATCCAAATATGGTCTGAAGATCCGATTCATCAAATCCATAAATACC
1 TGAACACAACTACGAACCGATCCAAATACGGTCTGAAGATCCGATTCATCAAATCCATAAATACC
*
38721656 GCAGGGGCATTTGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCATATCCCGTTCTGAA
66 GCAGGGGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCATATCCCGTTCTGAA
* *
38721721 AGCAGTTTTGGGTATGTCCGAATCTCGAATTCGCAACTGATAATAGCCCGATCTCAAATCTATTT
131 AGCAGTTTTGGGAATATCCGAATCTCGAATTCGCAACTGATAATAGCCCGATCTCAAATCTATTT
* *
38721786 TTGAGAACATTGAGGCTCCCTTCAGTTGGTCAAACAAATCATCGATACGCGGTAACGGATATT
196 TTGAGAACACTGAGGCTCCCTTCAGTTGGTCAAACAAATCATCGATACGCGGCAACGGATATT
38721849 TGAACACAACTACGAACCGATCCAAATACGGTCTGAAGATCCGATTCATCAAATCCATAAATACC
1 TGAACACAACTACGAACCGATCCAAATACGGTCTGAAGATCCGATTCATCAAATCCATAAATACC
* *
38721914 GCAGGGGCATTAGTGAGCCCAAACGGCATCACTAAGAATTCGTAGTGACCATATCTCGTTCTGAA
66 GCAGGGGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCATATCCCGTTCTGAA
* *
38721979 GGCAGTTTTGGGAATATCTGAATCTCGAATTCGCAACTGATAATAGCCCGATCTCAAATCTATTT
131 AGCAGTTTTGGGAATATCCGAATCTCGAATTCGCAACTGATAATAGCCCGATCTCAAATCTATTT
* *
38722044 TTGAGAACACTGAGGCTCCCTTCAGTTGGTCGAACAAATCATCGATGCGCGGCAACGGATATT
196 TTGAGAACACTGAGGCTCCCTTCAGTTGGTCAAACAAATCATCGATACGCGGCAACGGATATT
38722107 TG
1 TG
38722109 TTCTTTATCG
Statistics
Matches: 248, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
258 248 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (258 bp):
TGAACACAACTACGAACCGATCCAAATACGGTCTGAAGATCCGATTCATCAAATCCATAAATACC
GCAGGGGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCATATCCCGTTCTGAA
AGCAGTTTTGGGAATATCCGAATCTCGAATTCGCAACTGATAATAGCCCGATCTCAAATCTATTT
TTGAGAACACTGAGGCTCCCTTCAGTTGGTCAAACAAATCATCGATACGCGGCAACGGATATT
Found at i:38725290 original size:40 final size:40
Alignment explanation
Indices: 38725246--38725507 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
38725236 GCTCCTCGTT
* *
38725246 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
38725286 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38725326 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38725365 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
38725404 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
38725443 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
38725484 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38725508 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:38732655 original size:8 final size:8
Alignment explanation
Indices: 38732638--38732674 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
38732628 CACCAAAGTG
*
38732638 GGCCCGTT
1 GGCCCATT
38732646 GGCCCATT
1 GGCCCATT
*
38732654 GGCCCGTT
1 GGCCCATT
38732662 GGCCCATT
1 GGCCCATT
38732670 GGCCC
1 GGCCC
38732675 GTTTTCGGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.05, C:0.41, G:0.32, T:0.22
Consensus pattern (8 bp):
GGCCCATT
Found at i:38732659 original size:16 final size:16
Alignment explanation
Indices: 38732638--38732677 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
38732628 CACCAAAGTG
38732638 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
38732654 GGCCCGTTGGCCCATT
1 GGCCCGTTGGCCCATT
38732670 GGCCCGTT
1 GGCCCGTT
38732678 TTCGGCCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.05, C:0.38, G:0.33, T:0.25
Consensus pattern (16 bp):
GGCCCGTTGGCCCATT
Found at i:38738960 original size:67 final size:67
Alignment explanation
Indices: 38738832--38738964 Score: 189
Period size: 67 Copynumber: 2.0 Consensus size: 67
38738822 CGCCACAAAA
* *
38738832 ATTGCAGCGAGGCTGCCAGATATTGTGATGAAGTCACCAAATACAGATATTATGGCTAGGCCACC
1 ATTGCAGCGAGCCTGCCAGATATTGTGACGAAGTCACCAAATACAGATATTATGGCTAGGCCACC
38738897 AG
66 AG
* * *
38738899 ATTGTAGCGAGCCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATA-TATGTGGTGAGGCCA
1 ATTGCAGCGAGCCTGCCAGATATTGTGACGAAGTCACCAAATACAGATATTATG-GCT-AGGCCA
38738962 CCA
64 CCA
38738965 AATTACAGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
65 4 0.07
66 9 0.15
67 46 0.78
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (67 bp):
ATTGCAGCGAGCCTGCCAGATATTGTGACGAAGTCACCAAATACAGATATTATGGCTAGGCCACC
AG
Found at i:38745791 original size:17 final size:18
Alignment explanation
Indices: 38745769--38745802 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
38745759 TTCTGGGCCT
38745769 TGTGGG-CTACACGGGCG
1 TGTGGGCCTACACGGGCG
*
38745786 TGTGGGCCTACATGGGC
1 TGTGGGCCTACACGGGC
38745803 CTGCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.24, G:0.44, T:0.21
Consensus pattern (18 bp):
TGTGGGCCTACACGGGCG
Found at i:38768159 original size:51 final size:51
Alignment explanation
Indices: 38768083--38768179 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 51
38768073 AATCAAGGCT
* * *
38768083 TAATCGGAATAGTGGTTTTGTGACCACAAATCTGATATAGAAATAAGGGCC
1 TAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAGAAATAAGGGCC
38768134 TAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAGAAATAA
1 TAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAGAAATAA
38768180 TTATTTTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (51 bp):
TAATCGGAATAGTGGTTTCGTGACCACAAATCCGAGATAGAAATAAGGGCC
Found at i:38770544 original size:40 final size:40
Alignment explanation
Indices: 38770460--38770643 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
38770450 TTGAATGCTG
* * * *
38770460 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
38770499 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
38770540 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
38770580 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
38770620 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38770644 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:38770597 original size:80 final size:81
Alignment explanation
Indices: 38770460--38770640 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
38770450 TTGAATGCTG
* *
38770460 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
38770524 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
38770540 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
38770601 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
38770620 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
38770641 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:38784294 original size:22 final size:22
Alignment explanation
Indices: 38784266--38784307 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
38784256 CAAAAATAAC
*
38784266 TAAAATTCATCAAAATTAATTT
1 TAAAATTAATCAAAATTAATTT
*
38784288 TAAAATTAATTAAAATTAAT
1 TAAAATTAATCAAAATTAAT
38784308 CATGTTCGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAATTAATCAAAATTAATTT
Found at i:38784327 original size:20 final size:20
Alignment explanation
Indices: 38784302--38784343 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
38784292 ATTAATTAAA
38784302 ATTAATCATGTTCGTATTTT
1 ATTAATCATGTTCGTATTTT
38784322 ATTAATCATGTTCGTATTTT
1 ATTAATCATGTTCGTATTTT
38784342 AT
1 AT
38784344 GTACACTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.55
Consensus pattern (20 bp):
ATTAATCATGTTCGTATTTT
Found at i:38786908 original size:38 final size:38
Alignment explanation
Indices: 38786857--38786933 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
38786847 CATCTTATTA
38786857 GGGAAAAAAAACCCGAAATGACCTTTCTTGGTGGCGTT
1 GGGAAAAAAAACCCGAAATGACCTTTCTTGGTGGCGTT
* *
38786895 GGGAAAGAAAACCCGTAATGACCTTTCTTGGTGGCGTT
1 GGGAAAAAAAACCCGAAATGACCTTTCTTGGTGGCGTT
38786933 G
1 G
38786934 TTTAACTTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (38 bp):
GGGAAAAAAAACCCGAAATGACCTTTCTTGGTGGCGTT
Found at i:38801026 original size:46 final size:46
Alignment explanation
Indices: 38800925--38801012 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
38800915 TGTAACCCGC
* * * *
38800925 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
38800971 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
38801013 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:38806055 original size:47 final size:46
Alignment explanation
Indices: 38805985--38806079 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 46
38805975 AAATCTCGAG
*
38805985 TTCCCTACACTGGCTGCCGAAGTAGTCTGGGATTTAGGACCCACAT
1 TTCCCTACACTGGCTGCCGAAGTAGTCTAGGATTTAGGACCCACAT
*
38806031 TNTCCCTACACTGGCTGTCGAAGTAGTCTAGGATTTAGGACCCACAT
1 T-TCCCTACACTGGCTGCCGAAGTAGTCTAGGATTTAGGACCCACAT
38806078 TT
1 TT
38806080 TGCTTCCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 2 0.04
47 44 0.96
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.28
Consensus pattern (46 bp):
TTCCCTACACTGGCTGCCGAAGTAGTCTAGGATTTAGGACCCACAT
Found at i:38812286 original size:9 final size:9
Alignment explanation
Indices: 38812272--38812306 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
38812262 AGAAGTGAGC
38812272 AAAAAAAGA
1 AAAAAAAGA
*
38812281 AAAAAAAGT
1 AAAAAAAGA
38812290 AAAAAAAGA
1 AAAAAAAGA
38812299 ACAAAAAA
1 A-AAAAAA
38812307 AAGTGAAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.86, C:0.03, G:0.09, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:38812296 original size:21 final size:21
Alignment explanation
Indices: 38812272--38812315 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
38812262 AGAAGTGAGC
*
38812272 AAAAAAAGAAAAAAAAGTAAA
1 AAAAAAACAAAAAAAAGTAAA
* *
38812293 AAAAGAACAAAAAAAAGTGAA
1 AAAAAAACAAAAAAAAGTAAA
38812314 AA
1 AA
38812316 GTCTTGTGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.05
Consensus pattern (21 bp):
AAAAAAACAAAAAAAAGTAAA
Found at i:38815167 original size:4 final size:4
Alignment explanation
Indices: 38815158--38815185 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
38815148 AAGTTTTATT
38815158 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
38815186 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:38820087 original size:20 final size:22
Alignment explanation
Indices: 38820054--38820097 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
38820044 AAAATCAGTC
*
38820054 AAAAAAGTCAAAA-T-AATAAA
1 AAAAAAGACAAAATTCAATAAA
*
38820074 AAAAAAGACGAAATTCAATAAA
1 AAAAAAGACAAAATTCAATAAA
38820096 AA
1 AA
38820098 TTTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 1 0.05
22 8 0.40
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.14
Consensus pattern (22 bp):
AAAAAAGACAAAATTCAATAAA
Found at i:38823930 original size:20 final size:20
Alignment explanation
Indices: 38823907--38823953 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
38823897 GGGTTAAAAT
**
38823907 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCAAG
* *
38823927 TGAGTTGACTTGAGCTCAAG
1 TGAGCTGAATTGAGCTCAAG
38823947 TGAGCTG
1 TGAGCTG
38823954 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCAAG
Found at i:38825679 original size:48 final size:48
Alignment explanation
Indices: 38825624--38825729 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
38825614 TTGTCTTTTC
*
38825624 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
38825672 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
38825720 TTTCTTTTTC
1 TTTCTTTTTC
38825730 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:38826771 original size:10 final size:9
Alignment explanation
Indices: 38826758--38826793 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
38826748 TTTTCACTTT
38826758 TTTTTTGTTC
1 TTTTTT-TTC
38826768 TTTTTTTTAC
1 TTTTTTTT-C
38826778 TTTTTTTTC
1 TTTTTTTTC
38826787 TTTTTTT
1 TTTTTTT
38826794 GCTCACTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.40
10 15 0.60
ACGTcount: A:0.03, C:0.08, G:0.03, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:38827245 original size:137 final size:137
Alignment explanation
Indices: 38826999--38827274 Score: 543
Period size: 137 Copynumber: 2.0 Consensus size: 137
38826989 TGATACCAAA
38826999 TGATGTGATCCGGCCCAGATTAATCGAGTCGTTTCACAAAGTTGCCCGATCGTCTACGAGGAGTA
1 TGATGTGATCCGGCCCAGATTAATCGAGTCGTTTCACAAAGTTGCCCGATCGTCTACGAGGAGTA
38827064 GTTGGAGTTATCAAACTTGGGTGATTTAGGCTAAGGGTTGCGGAAGCTTTGAGAGGGTTTAGATG
66 GTTGGAGTTATCAAACTTGGGTGATTTAGGCTAAGGGTTGCGGAAGCTTTGAGAGGGTTTAGATG
38827129 AGTGGTT
131 AGTGGTT
38827136 TGATGTGATCCGGCCCAGATTAATCGAGTCGTTTCACAAAGTTGCCCGATCGTCTACGAGGAGTA
1 TGATGTGATCCGGCCCAGATTAATCGAGTCGTTTCACAAAGTTGCCCGATCGTCTACGAGGAGTA
*
38827201 GTTGGAGTTGTCAAACTTGGGTGATTTAGGCTAAGGGTTGCGGAAGCTTTGAGAGGGTTTAGATG
66 GTTGGAGTTATCAAACTTGGGTGATTTAGGCTAAGGGTTGCGGAAGCTTTGAGAGGGTTTAGATG
38827266 AGTGGTT
131 AGTGGTT
38827273 TG
1 TG
38827275 GTGTTGATAA
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 138 1.00
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.30
Consensus pattern (137 bp):
TGATGTGATCCGGCCCAGATTAATCGAGTCGTTTCACAAAGTTGCCCGATCGTCTACGAGGAGTA
GTTGGAGTTATCAAACTTGGGTGATTTAGGCTAAGGGTTGCGGAAGCTTTGAGAGGGTTTAGATG
AGTGGTT
Found at i:38830275 original size:37 final size:37
Alignment explanation
Indices: 38830225--38830303 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
38830215 TTATTACGAA
* *
38830225 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
38830262 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
38830299 GTCTT
1 GTCTT
38830304 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:38830500 original size:47 final size:47
Alignment explanation
Indices: 38830422--38830581 Score: 230
Period size: 47 Copynumber: 3.4 Consensus size: 47
38830412 CCCTTCGAAA
* * * * * * *
38830422 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
38830469 CCTGTCACATATATACCCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38830516 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38830563 CTTATCACATATATACACT
1 CTTATCACATATATACACT
38830582 GTCTTGGCTG
Statistics
Matches: 100, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38830755 original size:47 final size:47
Alignment explanation
Indices: 38830682--38830799 Score: 209
Period size: 47 Copynumber: 2.5 Consensus size: 47
38830672 AAGTTTATCT
38830682 GGCCTTATCACACATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTA
*
38830731 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
38830778 GGCCTTATCACATATATACACT
1 GGCCTTATCACATATATACACT
38830800 GTCTTGGCTG
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
47 60 0.88
49 8 0.12
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
Found at i:38830852 original size:218 final size:218
Alignment explanation
Indices: 38830474--38830898 Score: 832
Period size: 218 Copynumber: 1.9 Consensus size: 218
38830464 TCGGCCCTGT
*
38830474 CACATATATACCCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
38830539 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTGTCTTGGCTGAATCTACATCTA
66 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTGTCTTGGCTGAATCTACATCTA
38830604 TCATTTTCCAATATCACAATTTAGAATTCACGTATGGGTTTAATCAATAGCTTATGAGCAACTAG
131 TCATTTTCCAATATCACAATTTAGAATTCACGTATGGGTTTAATCAATAGCTTATGAGCAACTAG
38830669 AACAAGTTTATCTGGCCTTATCA
196 AACAAGTTTATCTGGCCTTATCA
38830692 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
*
38830757 CATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTGTCTTGGCTGAATCTACATCTA
66 CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTGTCTTGGCTGAATCTACATCTA
38830822 TCATTTTCCAATATCACAATTTAGAATTCACGTATGGGTTTAATCAATAGCTTATGAGCAACTAG
131 TCATTTTCCAATATCACAATTTAGAATTCACGTATGGGTTTAATCAATAGCTTATGAGCAACTAG
38830887 AACAAGTTTATC
196 AACAAGTTTATC
38830899 AAGGTTTACA
Statistics
Matches: 205, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
218 205 1.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (218 bp):
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
CATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTGTCTTGGCTGAATCTACATCTA
TCATTTTCCAATATCACAATTTAGAATTCACGTATGGGTTTAATCAATAGCTTATGAGCAACTAG
AACAAGTTTATCTGGCCTTATCA
Found at i:38843398 original size:43 final size:42
Alignment explanation
Indices: 38843349--38843445 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
38843339 CCAGATGTGC
**
38843349 TCTTACATGTAATCGAATATCGATG-CCACTATCCCAGACAGGG
1 TCTTACATGTAATAAAATA-CGATGTCCA-TATCCCAGACAGGG
* * * *
38843392 TCTTACATGAAATAAAATACGATGTCGATGTCCCAGACATGG
1 TCTTACATGTAATAAAATACGATGTCCATATCCCAGACAGGG
*
38843434 TCTTACACGTAA
1 TCTTACATGTAA
38843446 ATAATAAGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
42 27 0.60
43 18 0.40
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (42 bp):
TCTTACATGTAATAAAATACGATGTCCATATCCCAGACAGGG
Found at i:38846786 original size:43 final size:43
Alignment explanation
Indices: 38846738--38846887 Score: 169
Period size: 43 Copynumber: 3.5 Consensus size: 43
38846728 GGTTATCAAG
*
38846738 TTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
1 TTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTA
** *
38846781 TTGTGATTACATGTAAGACTGTGTCTGGGACATTGGCATCATA
1 TTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTA
* * * * * *
38846824 TAGTGATT-CGTGTAAGACCCTTTCTAGGACAGTGGCATCG-A
1 TTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTA
* *
38846865 TATGTGATAACATGTAAAACCAT
1 T-TGTGATTACATGTAAGACCAT
38846888 ATTTGGGATA
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
41 2 0.02
42 30 0.34
43 56 0.64
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
TTGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTA
Found at i:38849845 original size:44 final size:42
Alignment explanation
Indices: 38849769--38849872 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 42
38849759 ATATGTGTTA
* * * * *
38849769 TCGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGTAATT
1 TCGTGTAAGACCATGTCTAGGACATTGACATCGTATATG--ATT
38849812 TGCGTGTAAGACCATGTCTAGGACATTGACATCGTATATGATT
1 T-CGTGTAAGACCATGTCTAGGACATTGACATCGTATATGATT
*
38849855 TCGTGTAAGACCCTGTCT
1 TCGTGTAAGACCATGTCT
38849873 GGGATAGTGG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
42 16 0.30
43 5 0.09
44 28 0.53
45 4 0.08
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTAGGACATTGACATCGTATATGATT
Found at i:38849930 original size:43 final size:43
Alignment explanation
Indices: 38849757--38849928 Score: 156
Period size: 43 Copynumber: 4.0 Consensus size: 43
38849747 TATAGGATTC
*
38849757 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* * * * * *
38849800 CGAT-TTGTAATTTGCGTGTAAGACCATGTCTAGGACATTGACAT
1 CGATATT-TGA-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
* * *
38849844 CG-TATATGATTTCGTGTAAGACC-CTGTCTGGGATAG-TGGCAT
1 CGATATTTGATTACGTGTAAGACCAC-GTCTGGGA-CGTTGGCAT
* *
38849886 TGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
38849929 TGTACAAGCT
Statistics
Matches: 100, Mismatches: 20, Indels: 18
0.72 0.14 0.13
Matches are distributed among these distances:
42 28 0.28
43 40 0.40
44 30 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:38853080 original size:15 final size:15
Alignment explanation
Indices: 38853060--38853089 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
38853050 GGTTCTTGAT
*
38853060 TTAAACTTATTCAAA
1 TTAAACTCATTCAAA
38853075 TTAAACTCATTCAAA
1 TTAAACTCATTCAAA
38853090 CTTATTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (15 bp):
TTAAACTCATTCAAA
Found at i:38864809 original size:28 final size:28
Alignment explanation
Indices: 38864747--38864840 Score: 127
Period size: 28 Copynumber: 3.4 Consensus size: 28
38864737 TATTAAGTCT
*
38864747 GCACACTCAGTGCTATATAATC-AACTC
1 GCACACTTAGTGCTATATAATCAAACTC
38864774 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTC
* * * *
38864802 GCACACTTAGTGCTGTACAATTTAAACCC
1 GCACACTTAGTGCTATATAA-TCAAACTC
38864831 GCACACTTAG
1 GCACACTTAG
38864841 CGCCAATCTC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.35
28 23 0.38
29 16 0.27
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTC
Found at i:38867558 original size:11 final size:11
Alignment explanation
Indices: 38867539--38867594 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
38867529 CATGGTATGT
38867539 ATGATATGCAC
1 ATGATATGCAC
*
38867550 ATGACATG--C
1 ATGATATGCAC
38867559 ATGATATGCAC
1 ATGATATGCAC
*
38867570 ATGATATG--T
1 ATGATATGCAC
38867579 ATGATATGCAC
1 ATGATATGCAC
38867590 ATGAT
1 ATGAT
38867595 GTATTCATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:38867594 original size:20 final size:20
Alignment explanation
Indices: 38867528--38867594 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
38867518 ATTTTGATAA
*
38867528 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
38867548 ACATGACATGCATGATATGC
1 ACATGATATGTATGATATGC
38867568 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
38867588 ACATGAT
1 ACATGAT
38867595 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:38867676 original size:23 final size:23
Alignment explanation
Indices: 38867646--38867857 Score: 300
Period size: 23 Copynumber: 9.1 Consensus size: 23
38867636 AGGAAGTGAA
*
38867646 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
38867669 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
38867692 AAAGGGCTTATGCCCCA-TTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
* *
38867715 AAAGGGCTTACGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
38867738 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
38867761 AAAGGGCTTATGCCACAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
38867785 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
38867808 GAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
38867832 AAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
38867855 AAA
1 AAA
38867858 AGAGGCTAGG
Statistics
Matches: 167, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.02
23 119 0.71
24 44 0.26
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Done.